Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 22
Found at i:3148549 original size:21 final size:21
Alignment explanation
Indices: 3148499--3148550 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
3148489 TTGTATTATT
**
3148499 TGATTAATCTATTTATTATAG
1 TGATTAATCTACCTATTATAG
* * *
3148520 TAATCAATCTACCTATTATGG
1 TGATTAATCTACCTATTATAG
3148541 TGATTAATCT
1 TGATTAATCT
3148551 CACCACTGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (21 bp):
TGATTAATCTACCTATTATAG
Found at i:3157158 original size:17 final size:17
Alignment explanation
Indices: 3157127--3157170 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
3157117 AAATATTATT
3157127 TTATTATTTATTTTAAA
1 TTATTATTTATTTTAAA
3157144 TTATT-TTTATATTTAAA
1 TTATTATTTAT-TTTAAA
3157161 TTATTCATTT
1 TTATT-ATTT
3157171 CATATAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 16 0.67
19 3 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTATTTATTTTAAA
Found at i:3157475 original size:20 final size:19
Alignment explanation
Indices: 3157429--3157476 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
3157419 AACAATGTAC
*
3157429 TAAAATATTTAATATATTA
1 TAAAATTTTTAATATATTA
* *
3157448 AAATAATTTTTAATATTTTA
1 TAA-AATTTTTAATATATTA
3157468 TTAAAATTT
1 -TAAAATTT
3157477 GTATTTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.09
20 19 0.83
21 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAAATTTTTAATATATTA
Found at i:3166512 original size:33 final size:33
Alignment explanation
Indices: 3166471--3166579 Score: 103
Period size: 33 Copynumber: 3.2 Consensus size: 33
3166461 TAATAATTCT
* * *
3166471 AAATAAATAATAATTATATAAATTATTTTAATAA
1 AAATAAATAATAATTACATAAAATATTAT-ATAA
*
3166505 AAA-AAATAATATTTACATAAAATATTATATAA
1 AAATAAATAATAATTACATAAAATATTATATAA
* * * * *
3166537 AAATAAATAACTATTTAAAAAAAATACTAACATAA
1 AAATAAATAA-TAATTACATAAAATA-TTATATAA
3166572 AAATAAAT
1 AAATAAAT
3166580 TTCTTACCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
32 7 0.11
33 27 0.42
34 16 0.25
35 14 0.22
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (33 bp):
AAATAAATAATAATTACATAAAATATTATATAA
Found at i:3166544 original size:17 final size:17
Alignment explanation
Indices: 3166524--3166579 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
3166514 TATTTACATA
3166524 AAATATTATATAAAAAT
1 AAATATTATATAAAAAT
* *
3166541 AAATAACTATTTAAAAA-
1 AAAT-ATTATATAAAAAT
* *
3166558 AAATACTAACATAAAAAT
1 AAATA-TTATATAAAAAT
3166576 AAAT
1 AAAT
3166580 TTCTTACCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 1 0.03
17 15 0.50
18 14 0.47
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATATTATATAAAAAT
Found at i:3166561 original size:34 final size:34
Alignment explanation
Indices: 3166501--3166579 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 34
3166491 AATTATTTTA
* * * *
3166501 ATAAAAA-AAATAATATTTACATAAAATA-TTAT
1 ATAAAAATAAATAATATTTAAAAAAAATACTAAC
3166533 ATAAAAATAAATAACTATTTAAAAAAAATACTAAC
1 ATAAAAATAAATAA-TATTTAAAAAAAATACTAAC
3166568 ATAAAAATAAAT
1 ATAAAAATAAAT
3166580 TTCTTACCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 7 0.17
33 6 0.15
34 13 0.32
35 14 0.35
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (34 bp):
ATAAAAATAAATAATATTTAAAAAAAATACTAAC
Found at i:3167038 original size:21 final size:21
Alignment explanation
Indices: 3167014--3167056 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3167004 TATAATGCTA
* *
3167014 ATGTAATAGTTCACAATGTTG
1 ATGTAATAATCCACAATGTTG
* *
3167035 ATGTGATAATCCACGATGTTG
1 ATGTAATAATCCACAATGTTG
3167056 A
1 A
3167057 CATGATAGTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (21 bp):
ATGTAATAATCCACAATGTTG
Found at i:3167524 original size:40 final size:42
Alignment explanation
Indices: 3167480--3167564 Score: 126
Period size: 40 Copynumber: 2.1 Consensus size: 42
3167470 TATACGAATC
3167480 AAATTATTTCA-G-TAGTTAAAAGAATAATTGTTATTTTTAG
1 AAATTATTTCACGTTAGTTAAAAGAATAATTGTTATTTTTAG
3167520 -AA--ATTTCACGTTTAGTTAAAAGAATAATTGTTATTTTTAG
1 AAATTATTTCACG-TTAGTTAAAAGAATAATTGTTATTTTTAG
3167560 AAATT
1 AAATT
3167565 TCACGTTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
37 6 0.15
38 1 0.03
39 2 0.05
40 28 0.72
41 2 0.05
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.45
Consensus pattern (42 bp):
AAATTATTTCACGTTAGTTAAAAGAATAATTGTTATTTTTAG
Found at i:3167565 original size:40 final size:40
Alignment explanation
Indices: 3167492--3167571 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
3167482 ATTATTTCAG
3167492 TAGTTAAAAGAATAATTGTTATTTTTAGAAATTTCACGTT
1 TAGTTAAAAGAATAATTGTTATTTTTAGAAATTTCACGTT
3167532 TAGTTAAAAGAATAATTGTTATTTTTAGAAATTTCACGTT
1 TAGTTAAAAGAATAATTGTTATTTTTAGAAATTTCACGTT
3167572 CTAACACTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (40 bp):
TAGTTAAAAGAATAATTGTTATTTTTAGAAATTTCACGTT
Found at i:3167969 original size:2 final size:2
Alignment explanation
Indices: 3167964--3167990 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3167954 AATTAAATTT
3167964 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 T
3167991 CCTCTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3168578 original size:30 final size:30
Alignment explanation
Indices: 3168542--3168602 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3168532 TTAATTTAAC
** *
3168542 CTCTAAACATTGGATAAAATATCATTTTGA
1 CTCTAAACATTAAATAAAATATCAATTTGA
* *
3168572 CTCTAAACTTTAAATAAAATATTAATTTGA
1 CTCTAAACATTAAATAAAATATCAATTTGA
3168602 C
1 C
3168603 CCTTAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.38
Consensus pattern (30 bp):
CTCTAAACATTAAATAAAATATCAATTTGA
Found at i:3168618 original size:30 final size:30
Alignment explanation
Indices: 3168555--3168619 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
3168545 TAAACATTGG
* *
3168555 ATAAAATATCATTTTGACTCTAAACTTTAA
1 ATAAAATATCAATTTGACCCTAAACTTTAA
* *
3168585 ATAAAATATTAATTTGACCCTTAAA-TTTGA
1 ATAAAATATCAATTTGACCC-TAAACTTTAA
3168615 ATAAA
1 ATAAA
3168620 GTCCCTCGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (30 bp):
ATAAAATATCAATTTGACCCTAAACTTTAA
Found at i:3169580 original size:3 final size:3
Alignment explanation
Indices: 3169572--3169621 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
3169562 CGGCATTCCT
3169572 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3169620 TT
1 TT
3169622 TCAATTGGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:3172816 original size:30 final size:29
Alignment explanation
Indices: 3172780--3172838 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
3172770 AATAGTCGAT
* *
3172780 TATATTTATTTTTTACAT-ATTATAATATTA
1 TATATTTAGTTATTA-ATAATTAT-ATATTA
3172810 TATATTTAGTTATTAATAATTATATATTA
1 TATATTTAGTTATTAATAATTATATATTA
3172839 AAAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
TATATTTAGTTATTAATAATTATATATTA
Found at i:3184004 original size:119 final size:119
Alignment explanation
Indices: 3183793--3184031 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
3183783 ATCTGTCTGA
3183793 CATCCCATTAATATTGGGTTGTGTGAGAGACTCTTGTTCCAGAGAATGTTCCCCACTTCCCACCA
1 CATCCCATTAATATTGGGTTGTGTGAGAGACTCTTGTTCCAGAGAATGTTCCCCACTTCCCACCA
3183858 TCATCCCACTTTCTTGACTTTTGTGTAAGCACGTGTACAACTTTGACGAAATTC
66 TCATCCCACTTTCTTGACTTTTGTGTAAGCACGTGTACAACTTTGACGAAATTC
3183912 CATCCCATTAATATTGGGTTGTGTGAGAGACTCTTGTTCCAGAGAATGTTCCCCACTTCCCACCA
1 CATCCCATTAATATTGGGTTGTGTGAGAGACTCTTGTTCCAGAGAATGTTCCCCACTTCCCACCA
3183977 TCATCCCACTTTCTTGACTTTTGTGTAAGCACGTGTACAACTTTGACGAAATTC
66 TCATCCCACTTTCTTGACTTTTGTGTAAGCACGTGTACAACTTTGACGAAATTC
3184031 C
1 C
3184032 TTCAGCTGAG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (119 bp):
CATCCCATTAATATTGGGTTGTGTGAGAGACTCTTGTTCCAGAGAATGTTCCCCACTTCCCACCA
TCATCCCACTTTCTTGACTTTTGTGTAAGCACGTGTACAACTTTGACGAAATTC
Found at i:3184863 original size:45 final size:45
Alignment explanation
Indices: 3184790--3184886 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
3184780 CTTATTCGTT
3184790 CTACCATCCCTCAGACTTCGCGATTTCTCCAGTTCAACCTACTGC
1 CTACCATCCCTCAGACTTCGCGATTTCTCCAGTTCAACCTACTGC
* * * * *
3184835 CTACCGTCCCTTAGACTTCTCGGA-TTCTCCATTTCAACCTGCTGC
1 CTACCATCCCTCAGACTTCGC-GATTTCTCCAGTTCAACCTACTGC
*
3184880 CTCCCAT
1 CTACCAT
3184887 TGTCCCCTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.18, C:0.40, G:0.11, T:0.31
Consensus pattern (45 bp):
CTACCATCCCTCAGACTTCGCGATTTCTCCAGTTCAACCTACTGC
Found at i:3191231 original size:61 final size:59
Alignment explanation
Indices: 3191061--3191232 Score: 168
Period size: 61 Copynumber: 2.9 Consensus size: 59
3191051 AAATGACCAA
* * *
3191061 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGATCCCCAGAATCGCAAATCAGTTTC
1 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAGAATCGC-AATCAGTTTC
* * * * * * * *
3191120 CAAAATCGCAACGCGATTCTTGAAAATCGCAATGCGATATACGGATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAAT-ATGAAAATCGCAACGCGATACACAGAATCGCAAT-C-AGTTTC
* *
3191182 CAAAATCGCAACACGAATATGAAAATCGCAACGCGA-ACACATAAATCGCAA
1 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACA-GAATCGCAA
3191233 CGTGTATCCG
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
59 16 0.18
60 5 0.06
61 46 0.52
62 21 0.24
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.19
Consensus pattern (59 bp):
CAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAGAATCGCAATCAGTTTC
Found at i:3191249 original size:20 final size:20
Alignment explanation
Indices: 3191184--3191413 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
3191174 CGATTTTCCA
* ** *
3191184 AAATCGCAACACGAATATGA
1 AAATCGCAACGCGAATCCGT
*
3191204 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
* *
3191224 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3191244 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3191264 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3191284 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
**
3191304 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3191324 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
3191344 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
*
3191364 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3191384 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
3191404 AAATCACAAC
1 AAATCGCAAC
3191414 ACTGAAATTT
Statistics
Matches: 183, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 182 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:3192135 original size:24 final size:24
Alignment explanation
Indices: 3192096--3192142 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3192086 AAATTTGGTC
3192096 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
3192120 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
3192143 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:3194707 original size:19 final size:19
Alignment explanation
Indices: 3194667--3194764 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
3194657 GATTCTCTCG
3194667 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
3194687 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3194706 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
3194720 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3194739 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3194758 TTGCGAT
1 TTGCGAT
3194765 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:3194761 original size:52 final size:53
Alignment explanation
Indices: 3194648--3194764 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
3194638 GAAATGAAAA
3194648 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
3194701 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
3194753 TCGCATTGCGAT
1 TCGCATTGCGAT
3194765 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:3194875 original size:33 final size:33
Alignment explanation
Indices: 3194823--3194984 Score: 150
Period size: 33 Copynumber: 4.7 Consensus size: 33
3194813 CCATTACATT
3194823 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
3194857 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
3194889 T-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
3194928 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* *
3194961 TCACAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
3194985 TTGCGATTCT
Statistics
Matches: 104, Mismatches: 13, Indels: 23
0.74 0.09 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 53 0.51
34 10 0.10
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:3194879 original size:19 final size:19
Alignment explanation
Indices: 3194823--3194990 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
3194813 CCATTACATT
3194823 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
3194843 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
3194857 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
3194876 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
3194895 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
3194909 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
3194928 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
3194947 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
* *
3194961 TCACAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
3194980 TCGCATTGCGA
1 TCGCAATGCGA
3194991 TTCTCCCATT
Statistics
Matches: 123, Mismatches: 10, Indels: 31
0.75 0.06 0.19
Matches are distributed among these distances:
14 29 0.24
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 70 0.57
20 6 0.05
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:3194902 original size:52 final size:52
Alignment explanation
Indices: 3194823--3194990 Score: 300
Period size: 52 Copynumber: 3.2 Consensus size: 52
3194813 CCATTACATT
3194823 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
3194876 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
* *
3194928 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
3194980 TCGCATTGCGA
1 TCGCAATGCGA
3194991 TTCTCCCATT
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
52 103 0.92
53 9 0.08
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:3195039 original size:19 final size:19
Alignment explanation
Indices: 3194997--3195096 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
3194987 GCGATTCTCC
3194997 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
3195017 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
3195036 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
3195052 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
3195069 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
3195088 CATTGCGAT
1 CATTGCGAT
3195097 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:3195093 original size:52 final size:53
Alignment explanation
Indices: 3194980--3195096 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
3194970 GAAATTAAAA
3194980 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
3195033 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
3195085 TCGCATTGCGAT
1 TCGCATTGCGAT
3195097 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:3195222 original size:14 final size:15
Alignment explanation
Indices: 3195203--3195240 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
3195193 CATCAATTAC
3195203 ACAAATCAA-CTTTT
1 ACAAATCAATCTTTT
3195217 ACAAAT-AATCTTTT
1 ACAAATCAATCTTTT
3195231 ACAAATCAAT
1 ACAAATCAAT
3195241 TAAACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 17 0.77
15 3 0.14
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCTTTT
Found at i:3197239 original size:14 final size:14
Alignment explanation
Indices: 3197220--3197276 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3197210 GCGAAATGAA
*
3197220 AATCGCAACGACAG
1 AATCGCAACGAAAG
3197234 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
3197251 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
3197267 AATCGCAACG
1 AATCGCAACG
3197277 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:3197247 original size:33 final size:33
Alignment explanation
Indices: 3197201--3197293 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
3197191 GCGAAACCAA
*
3197201 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
3197234 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
3197267 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
3197294 TGCGATTTTG
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:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:3197258 original size:19 final size:19
Alignment explanation
Indices: 3197164--3197298 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
3197154 TAGTTTACTT
* *
3197164 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
3197184 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
3197203 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3197222 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
3197236 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
3197255 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
3197269 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3197288 TCGCAATGCGA
1 TCGCAACGCGA
3197299 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:3197310 original size:19 final size:19
Alignment explanation
Indices: 3197288--3197329 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
3197278 GAAATGAAAA
3197288 TCGCAATGCGATTTTGGTT
1 TCGCAATGCGATTTTGGTT
**
3197307 TCGCGTTGCGATTTTGGTT
1 TCGCAATGCGATTTTGGTT
3197326 TCGC
1 TCGC
3197330 GTTGCGATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.43
Consensus pattern (19 bp):
TCGCAATGCGATTTTGGTT
Found at i:3197330 original size:19 final size:19
Alignment explanation
Indices: 3197294--3197389 Score: 103
Period size: 19 Copynumber: 5.3 Consensus size: 19
3197284 AAAATCGCAA
3197294 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
3197313 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3197332 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
3197346 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
3197365 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
3197385 TGCGA
1 TGCGA
3197390 AAGTAAACTA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
14 11 0.17
16 1 0.02
17 1 0.02
18 1 0.02
19 39 0.60
20 12 0.18
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:3197592 original size:93 final size:93
Alignment explanation
Indices: 3197433--3197905 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
3197423 TTGAATGGAT
3197433 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3197498 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
3197526 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3197591 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
3197619 AAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3197683 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3197711 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3197776 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3197804 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
3197869 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3197897 AAATTTACT
1 AAATTTACT
3197906 AAGCAATCTA
Statistics
Matches: 376, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 92 0.24
93 284 0.76
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:3197746 original size:185 final size:186
Alignment explanation
Indices: 3197433--3197905 Score: 912
Period size: 185 Copynumber: 2.5 Consensus size: 186
3197423 TTGAATGGAT
3197433 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3197498 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
3197563 TACTATTTCACAGTGTTATAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
*
3197619 AAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3197683 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
3197748 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
3197804 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
3197869 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
3197906 AAGCAATCTA
Statistics
Matches: 282, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
185 183 0.65
186 99 0.35
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:3199631 original size:14 final size:14
Alignment explanation
Indices: 3199612--3199668 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
3199602 TTGAAATGAA
3199612 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3199626 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
3199643 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
3199659 AATCGCAACG
1 AATCGCAACG
3199669 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
16 6 0.16
17 6 0.16
19 8 0.21
ACGTcount: A:0.40, C:0.25, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3199649 original size:33 final size:33
Alignment explanation
Indices: 3199604--3199687 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
3199594 TCTTTTGGTT
3199604 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
3199637 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3199670 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
3199688 CGAAATGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3199650 original size:19 final size:19
Alignment explanation
Indices: 3199626--3199709 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
3199616 GCAACGAGAG
* *
3199626 AATCGCAACGCGAGATGAC
1 AATCGCAACGCGAAATGAA
*
3199645 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
3199659 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
3199678 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
3199697 AATCGCAATGCGA
1 AATCGCAACGCGA
3199710 TTTTGGTTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 41 0.72
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:3199741 original size:14 final size:14
Alignment explanation
Indices: 3199722--3199777 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
3199712 TTGGTTTCGT
3199722 GTTGCGATTCTCTC
1 GTTGCGATTCTCTC
*
3199736 GTTGCGATTTTCATTTCGC
1 GTTGCGA--TTC---TCTC
3199755 GTTGCGATTCTCTC
1 GTTGCGATTCTCTC
3199769 GTTGCGATT
1 GTTGCGATT
3199778 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (14 bp):
GTTGCGATTCTCTC
Found at i:3199753 original size:33 final size:33
Alignment explanation
Indices: 3199705--3199785 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
3199695 AAAATCGCAA
** *
3199705 TGCGATTTTGGTTTCGTGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
3199738 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
3199771 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
3199786 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:3199788 original size:21 final size:21
Alignment explanation
Indices: 3199762--3199837 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
3199752 CGCGTTGCGA
3199762 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
3199783 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
3199803 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
3199824 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
3199838 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:3199818 original size:41 final size:41
Alignment explanation
Indices: 3199761--3199838 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
3199751 TCGCGTTGCG
*
3199761 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
3199802 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
3199839 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:3199964 original size:33 final size:33
Alignment explanation
Indices: 3199917--3199987 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
3199907 AATACTAACT
* *
3199917 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
3199950 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
3199983 TGAAA
1 TGAAA
3199988 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:3200221 original size:22 final size:22
Alignment explanation
Indices: 3200169--3200223 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3200159 TGGTTGTGAG
**
3200169 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
3200191 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
3200213 GGATTTCTTCG
1 GGATTTCTTCG
3200224 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:3200394 original size:20 final size:20
Alignment explanation
Indices: 3200369--3200562 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
3200359 CTTTAAATAT
3200369 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3200389 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
3200411 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
3200430 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
3200450 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
3200470 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
3200490 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3200510 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
3200530 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
3200550 CGCGTTGCGATTT
1 CGCGTTGCGATTT
3200563 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:3200556 original size:60 final size:60
Alignment explanation
Indices: 3200369--3200562 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
3200359 CTTTAAATAT
**
3200369 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
3200430 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
3200490 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
3200550 CGCGTTGCGATTT
1 CGCGTTGCGATTT
3200563 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:3200579 original size:21 final size:21
Alignment explanation
Indices: 3200549--3200631 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
3200539 ATTTTCATAT
*
3200549 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
3200570 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
3200591 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
3200612 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
3200632 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:3200622 original size:42 final size:43
Alignment explanation
Indices: 3200529--3200627 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
3200519 ATTTATGTGT
* *
3200529 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
3200570 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
3200612 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
3200628 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:3206190 original size:22 final size:22
Alignment explanation
Indices: 3206165--3206268 Score: 129
Period size: 22 Copynumber: 4.6 Consensus size: 22
3206155 ATAATAAATT
*
3206165 TTTTAAAATAAATCAATTCATATTTT
1 TTTTAAAATAAATCAA-TC-TA--TA
*
3206191 TTTTAAAA-AAATCAATCAATA
1 TTTTAAAATAAATCAATCTATA
*
3206212 TTTTTAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCTATA
*
3206234 TTTTTAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCTATA
3206256 TTTTAAAATAAAT
1 TTTTAAAATAAAT
3206269 TTTAAAATAT
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
21 8 0.11
22 46 0.64
23 1 0.01
24 2 0.03
25 7 0.10
26 8 0.11
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCTATA
Found at i:3206257 original size:44 final size:47
Alignment explanation
Indices: 3206164--3206268 Score: 144
Period size: 44 Copynumber: 2.3 Consensus size: 47
3206154 AATAATAAAT
*
3206164 TTTTTAAAATAAATCAATTCATATTTTTTTTAAAAAAATCAATCAATA
1 TTTTT-AAATAAATCAATTCATATTATTTTTAAAAAAATCAATCAATA
* *
3206212 TTTTTAAATAAATCAA-TC-TA-TATTTTTAAATAAATCAATCTATA
1 TTTTTAAATAAATCAATTCATATTATTTTTAAAAAAATCAATCAATA
*
3206256 TTTTAAAATAAAT
1 TTTTTAAATAAAT
3206269 TTTAAAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
44 33 0.62
45 2 0.04
46 2 0.04
47 11 0.21
48 5 0.09
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.45
Consensus pattern (47 bp):
TTTTTAAATAAATCAATTCATATTATTTTTAAAAAAATCAATCAATA
Found at i:3206278 original size:22 final size:21
Alignment explanation
Indices: 3206252--3206294 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 21
3206242 TAAATCAATC
3206252 TATATTTTAAAATAAATTTTAAAA
1 TATA-TTT-AAAT-AATTTTAAAA
3206276 TATATTTAAATAATTTTAA
1 TATATTTAAATAATTTTAA
3206295 TTTATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 3 0.16
24 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTAAATAATTTTAAAA
Found at i:3206284 original size:44 final size:43
Alignment explanation
Indices: 3206165--3206288 Score: 106
Period size: 44 Copynumber: 2.7 Consensus size: 43
3206155 ATAATAAATT
* * *
3206165 TTTTAAAATAAATCAATTCATATTTTTTTTAAAAAAATCAATCAATA
1 TTTTAAAATAAATCAA--CA-A-TATATTTAAATAAATCAATCAATA
* * * *
3206212 TTTTTAAATAAATCAATCTATATTTTTAAATAAATCAATCTATA
1 TTTTAAAATAAATCAA-CAATATATTTAAATAAATCAATCAATA
*
3206256 TTTTAAAATAAATTTTAA-AATATATTTAAATAA
1 TTTTAAAATAAA--TCAACAATATATTTAAATAA
3206289 TTTTAATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 45 0.68
45 1 0.02
46 5 0.08
47 15 0.23
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (43 bp):
TTTTAAAATAAATCAACAATATATTTAAATAAATCAATCAATA
Found at i:3206285 original size:11 final size:12
Alignment explanation
Indices: 3206252--3206294 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
3206242 TAAATCAATC
3206252 TATATTTTAAAA
1 TATATTTTAAAA
*
3206264 TAAATTTTAAAA
1 TATATTTTAAAA
3206276 TATA-TTT-AAA
1 TATATTTTAAAA
3206286 TA-ATTTTAA
1 TATATTTTAA
3206295 TTTATTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 1 0.04
10 8 0.30
11 4 0.15
12 14 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TATATTTTAAAA
Found at i:3207146 original size:37 final size:37
Alignment explanation
Indices: 3207070--3207146 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
3207060 TTTTTATATT
*
3207070 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
3207107 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
3207144 TTT
1 TTT
3207147 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:3207854 original size:2 final size:2
Alignment explanation
Indices: 3207849--3207879 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3207839 TATTTTTTTC
*
3207849 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3207880 ATTTGTAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3210455 original size:189 final size:178
Alignment explanation
Indices: 3210238--3210616 Score: 560
Period size: 189 Copynumber: 2.1 Consensus size: 178
3210228 AAGTGTGATA
* *
3210238 TTCGGGTCGGGTTCGGGTTTAAGGTGAAAAAAATCGGACCGACCCGAAAATATATATAATTTAGG
1 TTCGGGTCGGGTTCGGGTTTAAGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGG
* *
3210303 TCGGGTCGGATTAAGTCATTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTC
66 TCGGGTCGGATTAAATCACTGTTTTTATTAAAT-AAAATAATTTTTTATTATTTCGGGTCGGGTC
* *
3210368 GGGTTGGATTTCTAATTCATATATTCGGGTCGAGTCAGGTCGGATGAAATTTTATTTTG
130 -----GGATTTCTAATTCACATATTCGGGTC----C-GGTCGGATGAAACTTTATTTTG
* * *
3210427 TTCGGGCCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGG
1 TTCGGGTCGGGTTCGGGTTTAAGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGG
*
3210492 TCGGGTCGGATTAAATCACTGTTTTTATTAAATAAAATATTTTTTTATTATTTCGGGTCGGGTCG
66 TCGGGTCGGATTAAATCACTGTTTTTATTAAATAAAATAATTTTTTATTATTTCGGGTCGGGTCG
*
3210557 GATTTCTAATTCACATATTCGGGTCCGGTCTGATGAAACTTTATTTTG
131 GATTTCTAATTCACATATTCGGGTCCGGTCGGATGAAACTTTATTTTG
3210605 TTCGGGTCGGGT
1 TTCGGGTCGGGT
3210617 CGTATTTTTT
Statistics
Matches: 178, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
178 31 0.17
179 1 0.01
183 25 0.14
188 30 0.17
189 91 0.51
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (178 bp):
TTCGGGTCGGGTTCGGGTTTAAGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGG
TCGGGTCGGATTAAATCACTGTTTTTATTAAATAAAATAATTTTTTATTATTTCGGGTCGGGTCG
GATTTCTAATTCACATATTCGGGTCCGGTCGGATGAAACTTTATTTTG
Found at i:3211257 original size:16 final size:18
Alignment explanation
Indices: 3211233--3211278 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
3211223 TATGGAATCG
*
3211233 GATTCCAATTCC-T-ACA
1 GATTTCAATTCCTTCACA
3211249 GATTTCAATTCCTTCACA
1 GATTTCAATTCCTTCACA
3211267 GATTTCAATTCC
1 GATTTCAATTCC
3211279 CTCGTAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 11 0.41
17 1 0.04
18 15 0.56
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (18 bp):
GATTTCAATTCCTTCACA
Found at i:3216797 original size:26 final size:26
Alignment explanation
Indices: 3216768--3216835 Score: 136
Period size: 26 Copynumber: 2.6 Consensus size: 26
3216758 TCAGTCTCTG
3216768 TCAAATAGTTAGTATTCATAGGTTCA
1 TCAAATAGTTAGTATTCATAGGTTCA
3216794 TCAAATAGTTAGTATTCATAGGTTCA
1 TCAAATAGTTAGTATTCATAGGTTCA
3216820 TCAAATAGTTAGTATT
1 TCAAATAGTTAGTATT
3216836 GACAGTCATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (26 bp):
TCAAATAGTTAGTATTCATAGGTTCA
Found at i:3231908 original size:20 final size:19
Alignment explanation
Indices: 3231866--3231913 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
3231856 GCGATTCTCT
**
3231866 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
3231885 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
3231905 CGTTGCGAT
1 CGTTGCGAT
3231914 TTTCATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:3231919 original size:20 final size:20
Alignment explanation
Indices: 3231866--3231922 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
3231856 GCGATTCTCT
3231866 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTCCG
**
3231885 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
3231905 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
3231923 AACCAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:3233640 original size:94 final size:93
Alignment explanation
Indices: 3233477--3233942 Score: 705
Period size: 94 Copynumber: 5.1 Consensus size: 93
3233467 TAGATTGCTT
* * * * * * * *
3233477 AGTAAATTTATTCAGTTGTTGCTAATACTGCTAAAC--TGT-TT-ATTAACATTATGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3233538 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
* *
3233567 AGTAAATTTATTCGGTTACTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3233632 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
3233661 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
3233726 ATTTGTCTTTGTTTTGTCTTTTAGTTGGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTT-GA
*
3233755 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAATGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
3233820 ATTTGTCTGT-TTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
3233848 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT-A-ACTCTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3233911 A-TTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
3233938 AGTAA
1 AGTAA
3233943 TGCAATCCAT
Statistics
Matches: 350, Mismatches: 18, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
90 44 0.13
91 30 0.09
92 5 0.01
93 83 0.24
94 187 0.53
95 1 0.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:3234064 original size:20 final size:19
Alignment explanation
Indices: 3234033--3234133 Score: 121
Period size: 19 Copynumber: 5.2 Consensus size: 19
3234023 TCTTTTGGTT
* *
3234033 GAAATAAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
3234052 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
3234072 GAAACGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
3234091 GAAATGAAAATCGCAACGT
1 GAAATGAAAATCGCAACGC
** *
3234110 GAAACCAAAAAGCGCAACGC
1 GAAA-TGAAAATCGCAACGC
3234130 GAAA
1 GAAA
3234134 CTATAATCGC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
19 39 0.55
20 32 0.45
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.08
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:3234082 original size:39 final size:39
Alignment explanation
Indices: 3234038--3234133 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 39
3234028 TGGTTGAAAT
3234038 AAAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAA-C
1 AAAAATCGCAACGAGA-AATGAAAATCGCAACGCGAAACC
* * *
3234077 GAAAATCGCAACGCGAAATGAAAATCGCAACGTGAAACC
1 AAAAATCGCAACGAGAAATGAAAATCGCAACGCGAAACC
* *
3234116 AAAAAGCGCAACGCGAAA
1 AAAAATCGCAACGAGAAA
3234134 CTATAATCGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 20 0.39
39 31 0.61
ACGTcount: A:0.50, C:0.22, G:0.21, T:0.07
Consensus pattern (39 bp):
AAAAATCGCAACGAGAAATGAAAATCGCAACGCGAAACC
Found at i:3234101 original size:58 final size:58
Alignment explanation
Indices: 3234033--3234143 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
3234023 TCTTTTGGTT
** *
3234033 GAAATAAAAATCGCAACGAGAGAA-TGAAAATCGCAACGCGAAACGAAAATCGCAACGC
1 GAAATAAAAATCGCAACGAGA-AACCAAAAAGCGCAACGCGAAACGAAAATCGCAACGC
* * * *
3234091 GAAATGAAAATCGCAACGTGAAACCAAAAAGCGCAACGCGAAACTATAATCGC
1 GAAATAAAAATCGCAACGAGAAACCAAAAAGCGCAACGCGAAACGAAAATCGC
3234144 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 2 0.04
58 43 0.96
ACGTcount: A:0.49, C:0.22, G:0.20, T:0.10
Consensus pattern (58 bp):
GAAATAAAAATCGCAACGAGAAACCAAAAAGCGCAACGCGAAACGAAAATCGCAACGC
Found at i:3234183 original size:14 final size:14
Alignment explanation
Indices: 3234164--3234199 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3234154 TAATTTCGCA
*
3234164 TTGCGATTCTATCG
1 TTGCGATTCTATAG
*
3234178 TTGCGATTCTCTAG
1 TTGCGATTCTATAG
3234192 TTGCGATT
1 TTGCGATT
3234200 TTCGTTTCGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTATAG
Found at i:3234234 original size:20 final size:19
Alignment explanation
Indices: 3234191--3234280 Score: 108
Period size: 19 Copynumber: 4.6 Consensus size: 19
3234181 CGATTCTCTA
*
3234191 GTTGCGATTTTCGTTTCGC
1 GTTGCGATTTTCATTTCGC
*
3234210 GTTGCGATTTTCATTCTCTC
1 GTTGCGATTTTCATT-TCGC
3234230 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTCATTTCGC
** *
3234249 GTTGCGATAGTCATTTTTCAC
1 GTTGCGATTTTCA--TTTCGC
3234270 GTTGCGATTTT
1 GTTGCGATTTT
3234281 AAGTTCCAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 28 0.47
20 18 0.30
21 14 0.23
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (19 bp):
GTTGCGATTTTCATTTCGC
Found at i:3234263 original size:39 final size:39
Alignment explanation
Indices: 3234183--3234280 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 39
3234173 TATCGTTGCG
* * **
3234183 ATTCTCTAGTTGCGATTTTCGTTTCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
3234222 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
* *
3234261 ATTTTTCACGTTGCGATTTT
1 A-TTCTCTCGTTGCGATTTT
3234281 AAGTTCCAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 36 0.69
40 16 0.31
ACGTcount: A:0.12, C:0.20, G:0.19, T:0.48
Consensus pattern (39 bp):
ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
Found at i:3236015 original size:14 final size:14
Alignment explanation
Indices: 3235996--3236031 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3235986 ACTGTTTAAT
3235996 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3236010 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3236024 TGATTTGT
1 TGATTTGT
3236032 TTAATTGATG
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:3236244 original size:33 final size:33
Alignment explanation
Indices: 3236194--3236312 Score: 193
Period size: 33 Copynumber: 3.6 Consensus size: 33
3236184 AATCGCAACG
* * *
3236194 TTTTCATTTCGCTTTGCGATTCCCTCGTTACGA
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
*
3236227 TTTTTATTTCGCATTGCGATTCTCTCGTTGCGA
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
3236260 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
*
3236293 TTTTCATTTTGCATTGCGAT
1 TTTTCATTTCGCATTGCGAT
3236313 AGTCATTTCC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
Found at i:3236259 original size:14 final size:14
Alignment explanation
Indices: 3236240--3236294 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3236230 TTATTTCGCA
3236240 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
3236254 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3236271 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
3236287 TTGCGATT
1 TTGCGATT
3236295 TTCATTTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:3236278 original size:19 final size:19
Alignment explanation
Indices: 3236224--3236332 Score: 76
Period size: 19 Copynumber: 6.2 Consensus size: 19
3236214 TCCCTCGTTA
*
3236224 CGATTTTTATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
3236243 CGA--TTC-TCTCG--TTG
1 CGATTTTCATTTCGCATTG
3236257 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
3236276 CGA--TTC-TCTCG--TTG
1 CGATTTTCATTTCGCATTG
*
3236290 CGATTTTCATTTTGCATTG
1 CGATTTTCATTTCGCATTG
** *
3236309 CGATAGTCATTTCCGCGTTG
1 CGATTTTCATTT-CGCATTG
3236329 CGAT
1 CGAT
3236333 AGACATTAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
14 12 0.17
16 14 0.20
17 12 0.17
19 22 0.32
20 9 0.13
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:3236378 original size:20 final size:20
Alignment explanation
Indices: 3236305--3236378 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
3236295 TTCATTTTGC
*
3236305 ATTGCGATAGTCATTTCCGC
1 ATTGCGATAGTCATTTCCGT
* * **
3236325 GTTGCGATAGACA-TTAAGAT
1 ATTGCGATAGTCATTTCCG-T
3236345 GATTGCGA-ACGTCATTTCCGT
1 -ATTGCGATA-GTCATTTCCGT
3236366 ATTGCGATAGTCA
1 ATTGCGATAGTCA
3236379 AATGAATGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 3 0.08
20 23 0.57
21 11 0.28
22 3 0.08
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (20 bp):
ATTGCGATAGTCATTTCCGT
Found at i:3238644 original size:14 final size:13
Alignment explanation
Indices: 3238621--3238658 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
3238611 ATACTCCCGT
3238621 GGGATTTTCTTCG
1 GGGATTTTCTTCG
*
3238634 GGGACTTTTCTTTG
1 GGGA-TTTTCTTCG
3238648 GGGA-TTTCTTC
1 GGGATTTTCTTC
3238659 TTCTTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.08, C:0.16, G:0.29, T:0.47
Consensus pattern (13 bp):
GGGATTTTCTTCG
Found at i:3238884 original size:24 final size:24
Alignment explanation
Indices: 3238852--3238905 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
3238842 CTGAAAAATC
3238852 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
3238876 ATCAAAATCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
3238900 ATCAAA
1 ATCAAA
3238906 TTTCGAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:3238919 original size:24 final size:24
Alignment explanation
Indices: 3238852--3238919 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
3238842 CTGAAAAATC
* *
3238852 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAATACTGACCAAG
** *
3238876 ATCAAAATCCGGGTATTGACCAAG
1 ATCAAAATCCGAATACTGACCAAG
* *
3238900 ATCAAATTTCGAATACTGAC
1 ATCAAAATCCGAATACTGAC
3238920 TAGTACTTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAATACTGACCAAG
Found at i:3239831 original size:21 final size:21
Alignment explanation
Indices: 3239766--3239893 Score: 138
Period size: 20 Copynumber: 6.3 Consensus size: 21
3239756 CAGAATCTCG
* *
3239766 TTGCGATTTA-CTAAATCGGA
1 TTGCGATTTACCTAATTCGCA
* * *
3239786 ATGCGA-TTACGTAAATCGCA
1 TTGCGATTTACCTAATTCGCA
* *
3239806 ATGCGATTTTCCTAATTCGCA
1 TTGCGATTTACCTAATTCGCA
*
3239827 TTGCGATTTTCCTAATTCGCA
1 TTGCGATTTACCTAATTCGCA
*
3239848 TTGCGATTTACGTAA-TCGCA
1 TTGCGATTTACCTAATTCGCA
*
3239868 TTGCGATTTACGT-ATTCGCA
1 TTGCGATTTACCTAATTCGCA
3239888 TTGCGA
1 TTGCGA
3239894 ATTAGGAAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
19 4 0.04
20 48 0.50
21 44 0.46
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (21 bp):
TTGCGATTTACCTAATTCGCA
Found at i:3239867 original size:41 final size:40
Alignment explanation
Indices: 3239766--3239893 Score: 143
Period size: 41 Copynumber: 3.1 Consensus size: 40
3239756 CAGAATCTCG
* * *
3239766 TTGCGATTTACTAAATCGGAATGCGA-TTACGTAAATCGCA
1 TTGCGATTTACT-AATCGCATTGCGATTTACGTAATTCGCA
* * * *
3239806 ATGCGATTTTCCTAATTCGCATTGCGATTTTCCTAATTCGCA
1 TTGCGA-TTTACTAA-TCGCATTGCGATTTACGTAATTCGCA
3239848 TTGCGATTTACGTAATCGCATTGCGATTTACGT-ATTCGCA
1 TTGCGATTTAC-TAATCGCATTGCGATTTACGTAATTCGCA
3239888 TTGCGA
1 TTGCGA
3239894 ATTAGGAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
40 20 0.27
41 34 0.47
42 19 0.26
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (40 bp):
TTGCGATTTACTAATCGCATTGCGATTTACGTAATTCGCA
Found at i:3239906 original size:41 final size:41
Alignment explanation
Indices: 3239822--3239908 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
3239812 TTTTCCTAAT
* * *
3239822 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACCTAATTCGCATTGCGAATTACGAAA
* *
3239863 TCGCATTGCGATTTACGT-ATTCGCATTGCGAATTAGGAAAA
1 TCGCATTGCGATTTACCTAATTCGCATTGCGAATTACG-AAA
3239904 TCGCA
1 TCGCA
3239909 ACGCGAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 17 0.43
41 23 0.57
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (41 bp):
TCGCATTGCGATTTACCTAATTCGCATTGCGAATTACGAAA
Found at i:3239914 original size:21 final size:21
Alignment explanation
Indices: 3239890--3239935 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3239880 TATTCGCATT
3239890 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
3239911 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
3239932 GCGA
1 GCGA
3239936 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:3241279 original size:341 final size:330
Alignment explanation
Indices: 3240896--3241577 Score: 1001
Period size: 341 Copynumber: 2.0 Consensus size: 330
3240886 ATATAAAATC
3240896 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAATTGTTGTT-AAAAATAATAATTA
1 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAATTGTTGTTAAAAAATAATAATTA
* * *
3240960 ATAAATAATAGTTTATTTAATCTCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTT
66 ATAAATAATAATTCATTTAATCCCTCAATTGTAATTAAAAGTTTATTTTAATA-TTTTTATATTT
*
3241025 TTAAACAATTAATTTTAAAAGTCAATAATTTTTTAAAAAATATATGAAATTTA-TAATTTTTTAA
130 TTAAACAATTAATTTTAAAAGTCAATAAATTTTTAAAAAATATATGAAATTTATTAA-TTTTTAA
3241089 ATTATAAAATATTTATTATTATCATCATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAAC
194 ATTAT--AA-A---A-TATT-T-ATCATCATCATCATTTTGT-AAAAAAATACTAGTTATAAAAC
*
3241154 TTTTATAAAATTATTAATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAGAATATATGT
249 TTTTATAAAATTATTAATATTTTAAAATACTTACCCTCAAAATTTT-CTATACTAGAATATATGT
*
3241219 ATTTTATAATTTCAT-TCA
313 ATTGTATAATTTCATGT-A
3241237 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAATTGTTGTTAAAAAATAATAATTA
1 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAATTGTTGTTAAAAAATAATAATTA
* * * * *
3241302 ATGAATGATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTGTTTTGATATTTTTATATTTT
66 ATAAATAATAATTCATTTAATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTATATTTT
* * *
3241367 TAAACAATTAATTTTAAAAGTTAATAAATTTTTCAAAATTATATGAAATTTATTAATTTTTAAAT
131 TAAACAATTAATTTTAAAAGTCAATAAATTTTTAAAAAATATATGAAATTTATTAATTTTTAAAT
* * *
3241432 TATAAAATATTTATCATCATCATCATTTTGTAAAGAAATATTAGTTATAAAATTTTTATAAAATT
196 TATAAAATATTTATCATCATCATCATTTTGTAAAAAAATACTAGTTATAAAACTTTTATAAAATT
** * * * *
3241497 ATTCTTATTTTAAAATATTTACCCTCAAAATTTTCTATACTAGATTATATTTATTGTGTAATTTC
261 ATTAATATTTTAAAATACTTACCCTCAAAATTTTCTATACTAGAATATATGTATTGTATAATTTC
3241562 ATGTA
326 ATGTA
*
3241567 AAAATTAAAAT
1 AAAATCAAAAT
3241578 TTTTCGAGTT
Statistics
Matches: 314, Mismatches: 24, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
330 40 0.13
331 62 0.20
332 19 0.06
333 1 0.00
334 4 0.01
335 1 0.00
338 1 0.00
339 2 0.01
341 122 0.39
342 62 0.20
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.45
Consensus pattern (330 bp):
AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAATTGTTGTTAAAAAATAATAATTA
ATAAATAATAATTCATTTAATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTATATTTT
TAAACAATTAATTTTAAAAGTCAATAAATTTTTAAAAAATATATGAAATTTATTAATTTTTAAAT
TATAAAATATTTATCATCATCATCATTTTGTAAAAAAATACTAGTTATAAAACTTTTATAAAATT
ATTAATATTTTAAAATACTTACCCTCAAAATTTTCTATACTAGAATATATGTATTGTATAATTTC
ATGTA
Found at i:3243585 original size:21 final size:21
Alignment explanation
Indices: 3243561--3243826 Score: 183
Period size: 21 Copynumber: 12.7 Consensus size: 21
3243551 CATATTCGTA
3243561 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
*
3243582 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
** * *
3243603 TTGCGATTTTTCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
* *
3243622 TTACGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
3243643 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
**
3243664 TTGCGATAGTTGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
3243685 TTGCGATTTATTCGAAGTTCGCG
1 TTGCGA--TAGTCCAAGTTCGCG
*
3243708 TTGCGATTTATTCCAAGTT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
* *
3243729 TTGCGATAGTCGAAGTCCGCG
1 TTGCGATAGTCCAAGTTCGCG
*
3243750 TTGCGATTTATTCCAAGTT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
* *
3243771 TTGCGATAGTCGAAGTCCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
3243792 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
3243813 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
3243827 AATCGCAACG
Statistics
Matches: 192, Mismatches: 37, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
19 43 0.22
21 95 0.49
23 54 0.28
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:3243710 original size:65 final size:65
Alignment explanation
Indices: 3243631--3243777 Score: 244
Period size: 65 Copynumber: 2.3 Consensus size: 65
3243621 GTTACGATAG
* *
3243631 TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTTGAAGTTCGCGTTGCGATTTAT
1 TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTCCGCGTTGCGATTTAT
*
3243696 TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTCCGCGTTGCGATTTAT
1 TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTCCGCGTTGCGATTTAT
*
3243761 TCCAAGTT--CGTTGCGAT
1 TCGAAGTTCGCGTTGCGAT
3243778 AGTCGAAGTC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
63 9 0.12
65 69 0.88
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (65 bp):
TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTCCGCGTTGCGATTTAT
Found at i:3243753 original size:107 final size:105
Alignment explanation
Indices: 3243561--3243804 Score: 384
Period size: 107 Copynumber: 2.3 Consensus size: 105
3243551 CATATTCGTA
* *
3243561 TTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTTTCAAATTCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAGTTCGCGTTGCGATTTTTCAAATTCGTT
*
3243624 ACGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
66 ACGATAGTCGAAGTCCGCGTTGCGATTTATTCCAAATTCG
* *
3243664 TTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAGTTCGCGTTGCGATTT-TT-CAAATTCG
* *
3243729 TTGCGATAGTCGAAGTCCGCGTTGCGATTTATTCCAAGTTCG
64 TTACGATAGTCGAAGTCCGCGTTGCGATTTATTCCAAATTCG
*
3243771 TTGCGATAGTCGAAGTCCGCGTTGCGATTTATTC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTC
3243805 CAAATTCGTT
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
103 25 0.20
105 23 0.18
106 2 0.02
107 78 0.61
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (105 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAGTTCGCGTTGCGATTTTTCAAATTCGTT
ACGATAGTCGAAGTCCGCGTTGCGATTTATTCCAAATTCG
Found at i:3243799 original size:42 final size:42
Alignment explanation
Indices: 3243696--3243823 Score: 238
Period size: 42 Copynumber: 3.0 Consensus size: 42
3243686 TGCGATTTAT
*
3243696 TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCGAAGTCCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
3243738 TCGAAGTCCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCGAAGTCCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
*
3243780 TCGAAGTCCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCGAAGTCCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
3243822 TC
1 TC
3243824 CAAAATCGCA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (42 bp):
TCGAAGTCCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
Found at i:3245368 original size:37 final size:37
Alignment explanation
Indices: 3245321--3245394 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
3245311 TTTAAAAATT
3245321 TTAAAAATTATAAATTTATAAATTTTAAAAAAGCGAA
1 TTAAAAATTATAAATTTATAAATTTTAAAAAAGCGAA
3245358 TTAAAAATTATAAATTTATAAATTTTAAAAAAGCGAA
1 TTAAAAATTATAAATTTATAAATTTTAAAAAAGCGAA
3245395 ATTGTTCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (37 bp):
TTAAAAATTATAAATTTATAAATTTTAAAAAAGCGAA
Found at i:3251442 original size:31 final size:31
Alignment explanation
Indices: 3251404--3251470 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
3251394 CAAAATACAC
3251404 AAGATATGATTACATTCGTTTTTATTTAATT
1 AAGATATGATTACATTCGTTTTTATTTAATT
* * *
3251435 AAGATATGATTACTTTTGTTTTTATTTATTT
1 AAGATATGATTACATTCGTTTTTATTTAATT
3251466 AAGAT
1 AAGAT
3251471 GTGGTCACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.54
Consensus pattern (31 bp):
AAGATATGATTACATTCGTTTTTATTTAATT
Found at i:3255346 original size:8 final size:7
Alignment explanation
Indices: 3255319--3255344 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3255309 ACTTCCCAAC
3255319 TTTTTAT
1 TTTTTAT
3255326 TTTTTAT
1 TTTTTAT
3255333 TTTTTAT
1 TTTTTAT
3255340 TTTTT
1 TTTTT
3255345 TAAATGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:3256910 original size:31 final size:28
Alignment explanation
Indices: 3256875--3256944 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 28
3256865 AAACTACACA
3256875 TTTAATATTTAAATTATTAATTTCATTTCAT
1 TTTAATATTTAAATT-TT-ATTT-ATTTCAT
*
3256906 TTTAATATTTAAATTTTATTTTTTTCAT
1 TTTAATATTTAAATTTTATTTATTTCAT
*
3256934 ATT-ATATTTAA
1 TTTAATATTTAA
3256945 CATGTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 8 0.22
28 8 0.22
29 4 0.11
30 2 0.05
31 15 0.41
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTAATATTTAAATTTTATTTATTTCAT
Found at i:3257231 original size:21 final size:21
Alignment explanation
Indices: 3257202--3257254 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3257192 ATTCTGACTA
3257202 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
3257223 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
3257244 TCGCAATGCGA
1 TCGCATTGCGA
3257255 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:3257269 original size:20 final size:20
Alignment explanation
Indices: 3257244--3257338 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
3257234 TTTTCCTAAT
3257244 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
3257264 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
3257285 TCGCAATGCGGATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
3257305 TCGCAAAGCGGATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
3257325 TCGAAATGCGAATA
1 TCGCAATGCGAATA
3257339 TGACTATCGC
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 45 0.75
21 15 0.25
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:3257290 original size:41 final size:40
Alignment explanation
Indices: 3257244--3257338 Score: 127
Period size: 41 Copynumber: 2.4 Consensus size: 40
3257234 TTTTCCTAAT
* *
3257244 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAAAGCGAATAT-GAAAA
* * *
3257285 TCGCAATGCGGATACGTAAATCGCAAAGCGGATATGTAAA
1 TCGCAATGCGAATACGTAAATCGCAAAGCGAATATGAAAA
*
3257325 TCGAAATGCGAATA
1 TCGCAATGCGAATA
3257339 TGACTATCGC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 16 0.34
41 31 0.66
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAAAGCGAATATGAAAA
Found at i:3257558 original size:22 final size:22
Alignment explanation
Indices: 3257532--3257597 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
3257522 GGCGACATCC
*
3257532 GTCCCCATCTCTGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
3257554 GTCCCCATCGCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
3257576 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
3257598 TTCACGGTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.24, C:0.38, G:0.17, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:3257993 original size:20 final size:20
Alignment explanation
Indices: 3257968--3258013 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3257958 ATTATTGCTC
3257968 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTCAAATTCGCGT
** *
3257988 TGCGATAGTCATTTTCGTGT
1 TGCGATAGTCAAATTCGCGT
3258008 TGCGAT
1 TGCGAT
3258014 TTTCATTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
TGCGATAGTCAAATTCGCGT
Found at i:3258019 original size:20 final size:20
Alignment explanation
Indices: 3257981--3258035 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
3257971 GATAGTCAAA
* **
3257981 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
3258001 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
3258021 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
3258036 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:3258043 original size:20 final size:20
Alignment explanation
Indices: 3258000--3258043 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3257990 CGATAGTCAT
** *
3258000 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
3258020 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
3258040 TTTC
1 TTTC
3258044 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:3259981 original size:33 final size:34
Alignment explanation
Indices: 3259911--3260004 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 34
3259901 ATAGTTTACT
** * * *
3259911 ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACAACAAA
*
3259945 ATCGCAATGCG-AAATGAAAATCGTAACAACAAA
1 ATCGCAATGCGAAAATGAAAATCGCAACAACAAA
* **
3259978 ATCGCAATGCAAAAATGACTATCGCAA
1 ATCGCAATGCGAAAATGAAAATCGCAA
3260005 TGCGAAAATG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
33 26 0.53
34 23 0.47
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.16
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACAACAAA
Found at i:3260003 original size:20 final size:20
Alignment explanation
Indices: 3259978--3260066 Score: 133
Period size: 20 Copynumber: 4.5 Consensus size: 20
3259968 TAACAACAAA
*
3259978 ATCGCAATGCAAAAATGACT
1 ATCGCAATGCGAAAATGACT
3259998 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
3260018 ATCGCAATACGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* **
3260038 ATCGCAACGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
3260058 ATCGCAATG
1 ATCGCAATG
3260067 AAAGAATCGC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:3260136 original size:20 final size:20
Alignment explanation
Indices: 3260111--3260177 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
3260101 GGTTCTCTCG
*
3260111 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
3260131 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
3260151 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
3260171 TTGCGAT
1 TTGCGAT
3260178 TTTGTTGTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:3260208 original size:33 final size:34
Alignment explanation
Indices: 3260092--3260247 Score: 143
Period size: 34 Copynumber: 4.4 Consensus size: 34
3260082 GAAATGAAAA
* * *
3260092 TCGCATTGCGGTTCTCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCTCGTTGCGATAGTCATTT
* * *
3260126 TTGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
1 TCGCGTTGCGAT--T--TTCTCG--TTGCGATAGTCATTT
* * **
3260166 TCGCGTTGCGATTTTGTTGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTTCTCGTTGCGATAGTCATTT
* *
3260199 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCTCGTTGCGATAGTCATTT
3260233 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
3260248 AAGTTTCAGA
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
33 27 0.28
34 35 0.36
36 5 0.05
38 5 0.05
40 25 0.26
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (34 bp):
TCGCGTTGCGATTTTCTCGTTGCGATAGTCATTT
Found at i:3260783 original size:42 final size:42
Alignment explanation
Indices: 3260724--3260835 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
3260714 ACCCGACTCA
** *
3260724 CCTATCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCC-CCTCCCATCGTTCAAGAGGCC
*
3260766 CCTATCATCCCTCAAGAGTCCCCTCCCATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCCCCTCCCATCGTTCAAGAGGCC
* * ** * *
3260808 ACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CCTATCATCCCTCAAGAGGCCCCTCCCA
3260836 ACATTCTAGA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.03
42 56 0.97
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGGCCCCTCCCATCGTTCAAGAGGCC
Found at i:3260817 original size:21 final size:21
Alignment explanation
Indices: 3260728--3260832 Score: 104
Period size: 21 Copynumber: 5.0 Consensus size: 21
3260718 GACTCACCTA
*
3260728 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
3260750 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
3260770 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
3260791 CCATCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
3260812 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
3260833 CCAACATTCT
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 3 0.05
21 61 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:3262229 original size:13 final size:13
Alignment explanation
Indices: 3262213--3262246 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
3262203 ATTGTTTAAT
3262213 TGATTTGTAAA-G
1 TGATTTGTAAATG
3262225 ATGATTTGTAAATG
1 -TGATTTGTAAATG
3262239 TGATTTGT
1 TGATTTGT
3262247 TTAATTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.95
14 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (13 bp):
TGATTTGTAAATG
Found at i:3262402 original size:33 final size:33
Alignment explanation
Indices: 3262352--3262430 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
3262342 AAAACAGACT
** *
3262352 ATCGCAATGCGGAAATGACTATCGCAATGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
3262386 ATCGCAAAGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
3262419 ATCGCAATGCGA
1 ATCGCAATGCGA
3262431 TTCTCTCGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:3262460 original size:20 final size:20
Alignment explanation
Indices: 3262437--3262546 Score: 132
Period size: 20 Copynumber: 5.5 Consensus size: 20
3262427 GCGATTCTCT
* *
3262437 CGTTGCGATTGTGATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
3262457 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
3262477 CGTTGCTATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
3262497 TGTTGCGATAGTCATATTCCG
1 CGTTGCGATAGTCAT-TTCCG
* *
3262518 TGTTGTGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
3262538 CGTTGCGAT
1 CGTTGCGAT
3262547 TTCCGCGTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 57 0.72
21 22 0.28
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:3262529 original size:41 final size:40
Alignment explanation
Indices: 3262450--3262546 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 40
3262440 TGCGATTGTG
3262450 ATTTCCGCGTTGCGATAGTCAATTCCGCGTTGCTATAGTC
1 ATTTCCGCGTTGCGATAGTCAATTCCGCGTTGCTATAGTC
* *
3262490 ATTTCCGTGTTGCGATAGTCATATTCCGTGTTG-TGATAGTC
1 ATTTCCGCGTTGCGATAGTCA-ATTCCGCGTTGCT-ATAGTC
3262531 ATATT-CGCGTTGCGAT
1 AT-TTCCGCGTTGCGAT
3262547 TTCCGCGTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
40 21 0.41
41 28 0.55
42 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGTCAATTCCGCGTTGCTATAGTC
Found at i:3265027 original size:24 final size:24
Alignment explanation
Indices: 3264960--3265019 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
3264950 CTGAAAAATC
3264960 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* * *
3264984 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
3265008 ATCAAATTTCGA
1 ATCAAAATTCGA
3265020 ATACTGACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:3265885 original size:20 final size:20
Alignment explanation
Indices: 3265860--3265903 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3265850 TTCAGTATTA
*
3265860 CGATAGTCAGAATCTCGTTG
1 CGATAGTCAGAATCGCGTTG
*
3265880 CGATAGTCAGATTCGCGTTG
1 CGATAGTCAGAATCGCGTTG
3265900 CGAT
1 CGAT
3265904 TTACGTAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (20 bp):
CGATAGTCAGAATCGCGTTG
Found at i:3265915 original size:20 final size:20
Alignment explanation
Indices: 3265892--3266003 Score: 161
Period size: 20 Copynumber: 5.5 Consensus size: 20
3265882 ATAGTCAGAT
*
3265892 TCGCGTTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
3265912 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
3265932 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
* **
3265952 TCGCATTGCGATTTTCCAAA
1 TCGCATTGCGATTTACGTAA
* *
3265972 TTCGCGTTGCGATTTACGTAT
1 -TCGCATTGCGATTTACGTAA
3265993 TCGCATTGCGA
1 TCGCATTGCGA
3266004 ATTAGGAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 66 0.81
21 15 0.19
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:3266045 original size:21 final size:21
Alignment explanation
Indices: 3265993--3266045 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3265983 ATTTACGTAT
*
3265993 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
3266014 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
*
3266035 TCGTAATGCGA
1 TCGCAATGCGA
3266046 TAGTCAGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:3275838 original size:59 final size:55
Alignment explanation
Indices: 3275758--3275892 Score: 127
Period size: 53 Copynumber: 2.4 Consensus size: 55
3275748 AATTTTATTT
3275758 TTTTA-TTTAATT-TAGTCTTAATTTTAGTAATTTAAAATTCTGTAATTTAAAGTTT-ACAC
1 TTTTATTTTAATTATA-T-TTAATTTT--TAA-TT-AAATTCTGTAATTTAAA-TTTGACAC
** * * *
3275817 TTTTATTTTAATTATATTTAA--TTTAATTATTTTGTGTTATTTAAATTTGACTC
1 TTTTATTTTAATTATATTTAATTTTTAATTAAATTCTGTAATTTAAATTTGACAC
3275870 TTTTATTTTAATTATATTTAATT
1 TTTTATTTTAATTATATTTAATT
3275893 GTGGCTTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
52 3 0.05
53 37 0.56
54 2 0.03
55 3 0.05
57 2 0.03
59 9 0.14
60 8 0.12
61 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.59
Consensus pattern (55 bp):
TTTTATTTTAATTATATTTAATTTTTAATTAAATTCTGTAATTTAAATTTGACAC
Found at i:3287765 original size:19 final size:20
Alignment explanation
Indices: 3287716--3287765 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
3287706 TTAACTTTTT
*
3287716 CTTTTATCTTTCATTAATAA
1 CTTTTACCTTTCATTAATAA
* *
3287736 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTAATAA
3287755 CTTTTACCTTT
1 CTTTTACCTTT
3287766 TTTCTCTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTTTACCTTTCATTAATAA
Found at i:3293043 original size:13 final size:14
Alignment explanation
Indices: 3293004--3293055 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 14
3292994 ATAAATTAAC
*
3293004 AAAATTATAACTTT
1 AAAATTATAAATTT
3293018 GAAAAATTATAAATTT
1 --AAAATTATAAATTT
3293034 AAAA-TATAAATTCT
1 AAAATTATAAATT-T
3293048 GAAAATTA
1 -AAAATTA
3293056 AAGAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 8 0.25
14 5 0.16
15 4 0.12
16 15 0.47
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAATTATAAATTT
Found at i:3293645 original size:23 final size:22
Alignment explanation
Indices: 3293596--3293650 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
3293586 ATGCTATATA
**
3293596 AAATTTT-AAAAATAAAATTAT
1 AAATTTTAAAAAATAAAAACAT
*
3293617 ATATTTTAAAAAATAAAACACAT
1 AAATTTTAAAAAATAAAA-ACAT
3293640 AAATTTTAAAA
1 AAATTTTAAAA
3293651 TAATCCCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 6 0.21
22 10 0.36
23 12 0.43
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATTTTAAAAAATAAAAACAT
Found at i:3307555 original size:21 final size:21
Alignment explanation
Indices: 3307512--3307570 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
3307502 ATTTACCGTG
* * * *
3307512 ATTATGGCCGTCACGGGCGCT
1 ATTACGGCCGTCGCGGACCCT
* *
3307533 ATTGCGGTCGTCGCGGACCCT
1 ATTACGGCCGTCGCGGACCCT
3307554 ATTACGGCCGTCGCGGA
1 ATTACGGCCGTCGCGGA
3307571 TAACTCAGAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.14, C:0.31, G:0.34, T:0.22
Consensus pattern (21 bp):
ATTACGGCCGTCGCGGACCCT
Found at i:3307806 original size:11 final size:11
Alignment explanation
Indices: 3307790--3307822 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
3307780 GGGCGGGGTA
3307790 ATAAAAAATAT
1 ATAAAAAATAT
3307801 ATAAAAAATAT
1 ATAAAAAATAT
3307812 -TAATAAAATAT
1 ATAA-AAAATAT
3307823 TAATTGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 3 0.14
11 18 0.86
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:3307823 original size:11 final size:11
Alignment explanation
Indices: 3307794--3307826 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
3307784 GGGGTAATAA
3307794 AAAATATATAA-
1 AAAATAT-TAAT
3307805 AAAATATTAAT
1 AAAATATTAAT
3307816 AAAATATTAAT
1 AAAATATTAAT
3307827 TGATTAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 3 0.14
11 18 0.86
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATATTAAT
Found at i:3309434 original size:18 final size:19
Alignment explanation
Indices: 3309411--3309453 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
3309401 CAGTAATCCT
*
3309411 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGATAATCTTAC
3309429 ATTCCCACTGATAATCTTAC
1 ATT-CCACTGATAATCTTAC
3309449 ATTCC
1 ATTCC
3309454 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 4 0.18
20 15 0.68
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (19 bp):
ATTCCACTGATAATCTTAC
Found at i:3312902 original size:31 final size:31
Alignment explanation
Indices: 3312861--3312921 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
3312851 ATTTTAAGTT
*
3312861 AGGGGGTGAACTTGAACTTATAAAATTTTAG
1 AGGGGATGAACTTGAACTTATAAAATTTTAG
3312892 AGGGGATGAACTTGAACTTATAAAATTTTA
1 AGGGGATGAACTTGAACTTATAAAATTTTA
3312922 TGGGTGGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
AGGGGATGAACTTGAACTTATAAAATTTTAG
Found at i:3313657 original size:19 final size:20
Alignment explanation
Indices: 3313615--3313662 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
3313605 AATTAATAGA
3313615 GTATCGATACTACAGGGTTG
1 GTATCGATACTACAGGGTTG
3313635 GTATCGATACT-CATGGG-TG
1 GTATCGATACTACA-GGGTTG
3313654 GTATCGATA
1 GTATCGATA
3313663 TCGGGATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (20 bp):
GTATCGATACTACAGGGTTG
Found at i:3313826 original size:20 final size:20
Alignment explanation
Indices: 3313783--3313834 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
3313773 TTTGCTTTGG
*
3313783 AGTATCGATACCCAATGATG
1 AGTATCGATACCCAATGATA
* * *
3313803 AGTATCGATACTCTATGGTA
1 AGTATCGATACCCAATGATA
*
3313823 AGTACCGATACC
1 AGTATCGATACC
3313835 GAGGTGCTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (20 bp):
AGTATCGATACCCAATGATA
Found at i:3314389 original size:15 final size:15
Alignment explanation
Indices: 3314369--3314399 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3314359 TGTTAGTGTG
3314369 GCACTGATCTAGTAA
1 GCACTGATCTAGTAA
3314384 GCACTGATCTAGTAA
1 GCACTGATCTAGTAA
3314399 G
1 G
3314400 TTCAGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (15 bp):
GCACTGATCTAGTAA
Done.