Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009098.1 Hibiscus syriacus cultivar Beakdansim tig00112552_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: 159790
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:8985 original size:29 final size:29
Alignment explanation
Indices: 8927--8985 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
8917 AACGAGTCTT
* *
8927 AAGGTTTCAATCCCCCTTTAATGAGCTGA
1 AAGGTTTCAATCCCCCTTCAACGAGCTGA
* *
8956 AAGGTTTCAATCTCCCTTCAACGAGTTGA
1 AAGGTTTCAATCCCCCTTCAACGAGCTGA
8985 A
1 A
8986 TTGTCAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (29 bp):
AAGGTTTCAATCCCCCTTCAACGAGCTGA
Found at i:9790 original size:213 final size:212
Alignment explanation
Indices: 9378--9798 Score: 652
Period size: 213 Copynumber: 2.0 Consensus size: 212
9368 ATTTCATTTT
9378 AATAATTTATGTGTTCTTGATCAAGCAGGCATTCAAGCTCAATTTCATCTCTGGAAATTTAATTT
1 AATAATTTA-GTGTTCTTGATCAAGCAGGCATTCAAGCTCAATTTCATCTCTGGAAATTTAATTT
* *
9443 CAACTTAAAGCAATATAGTTTGTACCTCACTGTTGTATCCCCACTATCACGAAATAAGCTTGTAC
65 CAACTTAAAGCAATATAGTTTGTACCTCACTGATGTAGCCCCACTATCACGAAATAAGCTTGTAC
* * *
9508 AATCTCCAGCAAGAAAAATAACATTTGTCTCTCCAGAAAGAATAAGCTATCAACTCACAACCTAA
130 AATCTCCAGCAAAAAAAATAACATTCGTCTCTCCAGAAAGAATAAACTATCAACTCACAACCTAA
*
9573 GAGCAATTTTAAGAACAA
195 GAGCAAATTTAAGAACAA
* *
9591 AATAATTTA-TGTTCTTGCTCAAGCA-GCATTCAAGCTCAATTTCATCTCTGGAAATTTTATTTC
1 AATAATTTAGTGTTCTTGATCAAGCAGGCATTCAAGCTCAATTTCATCTCTGGAAATTTAATTTC
*
9654 AACTTAAGGC-ATATAGTTTGTGA-CTCACTGATGTAGCCCCACTATCACGAAATAAGCTTGTAC
66 AACTTAAAGCAATATAGTTTGT-ACCTCACTGATGTAGCCCCACTATCACGAAATAAGCTTGTAC
* **
9717 AATCTCCATCAAAAAAAAATAACTACATTCGTCTCTCTGGAAAGAATAAACTATCAACTCACAAC
130 AATCTCCAGC-AAAAAAAAT-A--ACATTCGTCTCTCCAGAAAGAATAAACTATCAACTCACAAC
9782 CTAAGAGCAAATTTAAG
191 CTAAGAGCAAATTTAAG
9799 CTAAATCTAT
Statistics
Matches: 191, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
209 58 0.30
210 55 0.29
211 16 0.08
213 62 0.32
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (212 bp):
AATAATTTAGTGTTCTTGATCAAGCAGGCATTCAAGCTCAATTTCATCTCTGGAAATTTAATTTC
AACTTAAAGCAATATAGTTTGTACCTCACTGATGTAGCCCCACTATCACGAAATAAGCTTGTACA
ATCTCCAGCAAAAAAAATAACATTCGTCTCTCCAGAAAGAATAAACTATCAACTCACAACCTAAG
AGCAAATTTAAGAACAA
Found at i:11164 original size:12 final size:12
Alignment explanation
Indices: 11147--11172 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11137 AAGCACCTTC
11147 CCCTTTCAACAA
1 CCCTTTCAACAA
11159 CCCTTTCAACAA
1 CCCTTTCAACAA
11171 CC
1 CC
11173 AAGCGTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (12 bp):
CCCTTTCAACAA
Found at i:12683 original size:2 final size:2
Alignment explanation
Indices: 12676--12766 Score: 59
Period size: 2 Copynumber: 48.5 Consensus size: 2
12666 TTGGGCCGGG
* * * *
12676 TA TA TA TA TA TT TA AA T- TA AA TA TA TA TA TA TT TA -A TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
12715 TA AA TA T- TA AA TT TA T- TA AA TA TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12755 TA TA TA TA -A TA T
1 TA TA TA TA TA TA T
12767 TTTTAATATT
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
1 6 0.09
2 59 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12720 original size:7 final size:7
Alignment explanation
Indices: 12691--12738 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
12681 ATATATTTAA
12691 ATTAAAT
1 ATTAAAT
*
12698 ATATATAT
1 AT-TAAAT
*
12706 ATTTAAT
1 ATTAAAT
12713 ATTAAAT
1 ATTAAAT
12720 ATTAAATTT
1 ATTAAA--T
12729 ATTAAAT
1 ATTAAAT
12736 ATT
1 ATT
12739 TATATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 21 0.62
8 6 0.18
9 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
ATTAAAT
Found at i:17910 original size:16 final size:17
Alignment explanation
Indices: 17879--17911 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17869 TGGAGATATT
*
17879 TTTATTATACTTTTTTA
1 TTTAATATACTTTTTTA
17896 TTTAATATA-TTTTTTA
1 TTTAATATACTTTTTTA
17912 AAGAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTAATATACTTTTTTA
Found at i:18246 original size:45 final size:47
Alignment explanation
Indices: 18175--18285 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 47
18165 GTAAATATTG
18175 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC-
1 TTATTCA-AAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCA
* *
18222 TTGTTCAAAAAATAAAT-CTAACCGCATGATATCTAGTTCGCATGCA
1 TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCA
18268 TTTATTCGAAAAAATAAA
1 -TTATTC-AAAAAATAAA
18286 AATAAATGAC
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 10 0.17
47 11 0.19
48 10 0.17
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (47 bp):
TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCA
Found at i:20314 original size:15 final size:15
Alignment explanation
Indices: 20274--20315 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
20264 TATAAATCCA
*
20274 AAACAAATTAAACCT
1 AAACAAATTAAACAT
20289 AAACTAAATTAAACAT
1 AAAC-AAATTAAACAT
*
20305 GAACAAATTAA
1 AAACAAATTAA
20316 GCCTCACGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (15 bp):
AAACAAATTAAACAT
Found at i:23575 original size:20 final size:20
Alignment explanation
Indices: 23552--23603 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
23542 AACGCGATCC
23552 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
23572 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
23592 CCAAAATCGCAA
1 CCAGAATCGCAA
23604 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:23684 original size:20 final size:20
Alignment explanation
Indices: 23659--23852 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
23649 GATTTTCCAT
* *
23659 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
23679 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
23699 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
23719 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
23739 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
23759 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
23779 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
23799 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
23820 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
23840 AATCGCAACGCGA
1 AATCGCAACGCGA
23853 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:23704 original size:40 final size:39
Alignment explanation
Indices: 23655--23852 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
23645 TTGCGATTTT
* ** *
23655 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
23693 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
23734 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
23774 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
23813 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
23853 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:23742 original size:60 final size:60
Alignment explanation
Indices: 23659--23851 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
23649 GATTTTCCAT
* ** * *
23659 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
23719 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
23779 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
23840 AATCGCAACGCG
1 AATCGCAACGCG
23852 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:24270 original size:33 final size:33
Alignment explanation
Indices: 24231--24301 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
24221 TTCACTTAGA
*
24231 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
24264 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
24297 TTTCA
1 TTTCA
24302 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:24441 original size:14 final size:14
Alignment explanation
Indices: 24422--24476 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
24412 AGAATGACTG
24422 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
24436 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
24455 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
24469 TCGCAACG
1 TCGCAACG
24477 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:24459 original size:33 final size:33
Alignment explanation
Indices: 24422--24492 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
24412 AGAATGACTG
**
24422 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
24455 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
24488 TCGCA
1 TCGCA
24493 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:24510 original size:19 final size:19
Alignment explanation
Indices: 24488--24585 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
24478 GAAACCAAAA
*
24488 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
24507 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
24521 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
24540 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
24554 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
24573 TCGCGTTGCGATT
1 TCGCGTTGCGATT
24586 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:24529 original size:14 final size:14
Alignment explanation
Indices: 24510--24599 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
24500 TTTCATTTCG
24510 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
24524 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
24543 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
24557 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
24574 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
24590 CGTTGCGATT
1 CGTTGCGATT
24600 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:24535 original size:33 final size:33
Alignment explanation
Indices: 24493--24607 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
24483 CAAAATCGCA
24493 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
24526 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
24559 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
24592 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
24608 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:26225 original size:19 final size:19
Alignment explanation
Indices: 26185--26313 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
26175 TAGTTTACTT
* *
26185 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
26205 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
26224 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
26243 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
26257 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
26276 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
26290 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
26309 TCGCA
1 TCGCA
26314 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:26264 original size:33 final size:32
Alignment explanation
Indices: 26221--26313 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
26211 CGCGAAACCA
**
26221 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
26253 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
26286 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
26314 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:26311 original size:52 final size:52
Alignment explanation
Indices: 26185--26313 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
26175 TAGTTTACTT
**
26185 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
26237 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
26290 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
26314 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:26331 original size:19 final size:19
Alignment explanation
Indices: 26309--26443 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
26299 GAAACCAAAA
*
26309 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26328 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
26344 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
26361 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
26377 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
26394 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
26413 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
26433 TCGTGTTGCGA
1 TCGCGTTGCGA
26444 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:26350 original size:14 final size:14
Alignment explanation
Indices: 26331--26387 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
26321 TTTCATTTCG
26331 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
26345 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
26362 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
26378 CGTTGCGATT
1 CGTTGCGATT
26388 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:26356 original size:33 final size:33
Alignment explanation
Indices: 26314--26406 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
26304 CAAAATCGCA
*
26314 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
26347 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
26380 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
26407 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:27946 original size:14 final size:14
Alignment explanation
Indices: 27927--27962 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
27917 ATTGTTTAAT
27927 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
27941 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
27955 TGATTTGT
1 TGATTTGT
27963 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:28085 original size:19 final size:19
Alignment explanation
Indices: 28069--28170 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
28059 AAAAATGACT
28069 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
28088 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
28107 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
28121 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
28140 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
28160 ATCGCAATGCG
1 ATCGCAATGCG
28171 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:28219 original size:33 final size:33
Alignment explanation
Indices: 28177--28462 Score: 252
Period size: 33 Copynumber: 8.5 Consensus size: 33
28167 TGCGTTTATA
* *
28177 ATTTCGCATTGCAATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
28210 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
*
28246 -TTTCG--TTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
* *
28279 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTA
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
*
28314 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
28347 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
28380 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
28413 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
*
28447 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
28463 GTATTTTCCG
Statistics
Matches: 231, Mismatches: 10, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
33 161 0.70
34 29 0.13
35 14 0.06
36 15 0.06
38 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:28239 original size:52 final size:50
Alignment explanation
Indices: 28177--28462 Score: 235
Period size: 52 Copynumber: 5.6 Consensus size: 50
28167 TGCGTTTATA
28177 ATTTCGCATTGCAATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGC-ATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
28229 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTTTC
1 ATTTCGCATTGC-ATT-TCTCGTTGCGATTTTCATTTCGCATTGCGA-T-TTTC
* * * * * *
28283 GTTGCG-ATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTC
1 ATTTCGCA-TTGCATTTCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * * *
28335 GTTGCG-ATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
1 ATTTCGCA-TTGCATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
28380 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGC-ATT-TCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
* * * *
28433 ATGTTGGGATTTTCATTTCGCGTTGCGATT
1 AT-TTCGCA-TTGCATTTCTCGTTGCGATT
28463 GTATTTTCCG
Statistics
Matches: 196, Mismatches: 22, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
45 9 0.05
46 5 0.03
47 17 0.09
49 7 0.04
50 5 0.03
51 4 0.02
52 98 0.50
53 30 0.15
54 18 0.09
55 3 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (50 bp):
ATTTCGCATTGCATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:28285 original size:85 final size:85
Alignment explanation
Indices: 28177--28395 Score: 393
Period size: 85 Copynumber: 2.6 Consensus size: 85
28167 TGCGTTTATA
* * *
28177 ATTTCGCATTGCAATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCG
*
28242 ATTCTTTCGTTGCGATTTTC
66 ATTCTGTCGTTGCGATTTTC
*
28262 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCG
28327 ATTCTGTCGTTGCGATTTTC
66 ATTCTGTCGTTGCGATTTTC
28347 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
28396 CTCTCGTTGC
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 128 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (85 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCG
ATTCTGTCGTTGCGATTTTC
Found at i:28343 original size:118 final size:119
Alignment explanation
Indices: 28218--28431 Score: 403
Period size: 118 Copynumber: 1.8 Consensus size: 119
28208 TCATTTCGCA
* *
28218 TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTTTC
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
28283 GTTGCGATTTTCATTT-CGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCG
66 GTTGCGATTTTCATTTCCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCG
28336 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
28401 GTTGCGATTTTCATTTCCGCATTGCGATTTT
66 GTTGCGATTTTCATTTCCGCATTGCGATTTT
28432 CATGTTGGGA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
118 79 0.85
119 14 0.15
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (119 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
GTTGCGATTTTCATTTCCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCG
Found at i:30763 original size:12 final size:12
Alignment explanation
Indices: 30746--30770 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30736 TCTTCGGGGA
30746 CTTTTTCTTCTT
1 CTTTTTCTTCTT
30758 CTTTTTCTTCTT
1 CTTTTTCTTCTT
30770 C
1 C
30771 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:30979 original size:24 final size:24
Alignment explanation
Indices: 30945--30991 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30935 CTGAAACATC
30945 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
30969 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
30992 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:31702 original size:20 final size:20
Alignment explanation
Indices: 31674--32042 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
31664 AAATTTCAGT
* * * *
31674 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
31694 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
31714 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
31734 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
31754 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
31774 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
31794 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
31814 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
31834 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
31854 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
31874 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
31894 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
31914 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
31934 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
31954 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
31974 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
31994 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
32014 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
32034 GTTGCGATT
1 GTTGCGATT
32043 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:47415 original size:21 final size:21
Alignment explanation
Indices: 47389--47488 Score: 66
Period size: 21 Copynumber: 4.8 Consensus size: 21
47379 AATTTATATG
47389 ATATAAAATTAAATATCTATA
1 ATATAAAATTAAATATCTATA
* *
47410 ATATAATATTAAAAAT-TA-A
1 ATATAAAATTAAATATCTATA
* * **
47429 TATTTAATTTATTTAAA-AAAT-TA
1 -ATATAA---AATTAAATATCTATA
47452 ATATTAAAATT-AATATCTATA
1 ATA-TAAAATTAAATATCTATA
47473 ATATAAAATTAAATAT
1 ATATAAAATTAAATAT
47489 AAAATCTCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 20
0.66 0.11 0.22
Matches are distributed among these distances:
19 3 0.05
20 19 0.32
21 24 0.41
22 3 0.05
23 10 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATAAAATTAAATATCTATA
Found at i:54519 original size:2 final size:2
Alignment explanation
Indices: 54512--54542 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
54502 TGATTGCATC
54512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54543 CACACACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57527 original size:19 final size:21
Alignment explanation
Indices: 57485--57530 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
57475 TAAAAAATAA
*
57485 ATTTTTTTACACCTATTACAT
1 ATTTTTTTACACCTAATACAT
*
57506 ATTTTTTTA-ATCTAATAC-T
1 ATTTTTTTACACCTAATACAT
57525 ATTTTT
1 ATTTTT
57531 ATCACGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 9 0.39
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTTTACACCTAATACAT
Found at i:59435 original size:2 final size:2
Alignment explanation
Indices: 59428--59463 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59418 AAATATGAGA
59428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59464 TTAATTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60477 original size:16 final size:16
Alignment explanation
Indices: 60456--60486 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60446 CTCTTTATCA
60456 ATCAAAAGGTAAACTT
1 ATCAAAAGGTAAACTT
*
60472 ATCAAAATGTAAACT
1 ATCAAAAGGTAAACT
60487 GTGTGATACA
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:0.52, C:0.13, G:0.10, T:0.26
Consensus pattern (16 bp):
ATCAAAAGGTAAACTT
Found at i:61680 original size:711 final size:710
Alignment explanation
Indices: 60247--62829 Score: 3219
Period size: 711 Copynumber: 3.6 Consensus size: 710
60237 TTTTCAGTAT
* * * *
60247 GTTGAGGAGTATTTTATTATGATTTTTTAAGTATTTTGT-TACATCTTGTCTCTATTCATAGTGA
1 GTTGAGGAGTATGTTATTATGATTTTTGAAGTATTTTGTCTACATCTTGTCTCCATTCATA--AA
* *
60311 A-CTTTTTCTTCTATTACTAAATCCTGACAAGTTGCATAGAATC-AATGAACTTTTGTAACTTCA
64 AGCTTTTTCTTCTATTACTAAATCCTGACAAATTGCTTAGAATCAAAT-AACTTTTGTAACTTCA
* * * *
60374 GCTAGCATGCTTTTTATGATACTTATACATTTTCTCT-CTAAAA-AATGAGTAACTATTTACATG
128 ACTTGCATGCTTTCTATGATACTTATACATTTTCTCTCCAAAAACAATGAGTAACTATTTACATG
* *
60437 ATGACGTTACTCTTTATCAATCAAAAGGTAAACTTATCAAAATGTAAACTGTGTGATACATATAC
193 ATGACGTTACTCTTTATCAATGAAAAGGTAAAC---T----A--T--A-----TGATACCTATAC
* * * * *
60502 ATTTTATCCATAGAAGCAATGTGAGTAACTATTTACATTATGAGGGTTGCTCTCTATTGAGGTAA
242 ATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGGTTACTCTCTATCGAGGTAA
* *
60567 AATAAAATTATCTTGATACCGTAGCTACACATTTTAGATATAGAATGTTGAGTCCTTAGAAGATG
307 AATAAAATTATCTTGATACCTTGGCTACACATTTTAGATATAGAATGTTGAGTCCTTAGAAGATG
*
60632 GTTTTCAGTATTA-AGGGCTCCTGAATTTAAGAAGAATA-TTTTCCAGAGTTTTGAAGCACTTTG
372 GTTTTCAGTATTATA-GGCTCCTGAATTTAAGAAGAATATTTTTTC-GAGTTTTGAAGCACTTTG
* * **
60695 CTATAGCTTTTCTTTGTGCTCGAGGACTTTTGCTT-TATTACTAATATTTGTTACATACCGTAAG
435 CTATAGCTTGTCTTTGTGCTCGAGGACTTTTGCTTCTATTACTAATATTTGTTACTTAATGTAAG
* * * * ** * *
60759 TTAGAAATAATTTTTTTTTACAAATTCAATGCACACGATTTGTGTGATATGATTTATGTTTTTTT
500 TTAAAAATAA-ATTTTTTTACAAATTCAGTGCACATGATTTGCATGATATGACTTATG--TTTTA
* * *
60824 TCTGCAAACACAATATGATGTGTAATTATTTATATAATGAGGGTTACTCAAAGTTAAGGTAAATT
562 TCTGCAAACATAATATGATGTGTAATTATTTACATGATGAGGGTTACTCAAAGTTAAGGTAAATT
* ** * *
60889 ATCTATATAATGTTTCTTTCTATTTTAGATATGGATTCATGCCAAGTCTTTGGAATATGGTTTTG
627 ATCTATATAATGTTACTTTCTATTTTTTATATAGATTCATGTCAAGTCTTTGGAATATGGTTTTG
*
60954 AACATTAGGGGCTCCTGAT
692 AACATTAGGGGCTCCTGAA
* * * *
60973 GTTGAGGAGTATATTATTATGATTTTCGAAGTATTTTGTC-ACATTTTGTCTCTATTCATGAAAA
1 GTTGAGGAGTATGTTATTATGATTTTTGAAGTATTTTGTCTACATCTTGTCTCCATTCAT-AAAA
* * * * *
61037 GCTTTTTCTCCTATTACTAAATCCCGAGAAGTTGCTTAGAATCAAATAACTTTTGTAAGTTCAAC
65 GCTTTTTCTTCTATTACTAAATCCTGACAAATTGCTTAGAATCAAATAACTTTTGTAACTTCAAC
* * *
61102 TTGCATGCTTTCTATGATACCTATACGTTTTCTCTCCAAAAACAATGAGTAACTATTTATATGAT
130 TTGCATGCTTTCTATGATACTTATACATTTTCTCTCCAAAAACAATGAGTAACTATTTACATGAT
61167 GACGTTACTCTTTATCAATGAAAAGGTAAACTATATGATACCTATACATTTTATCCATAGAAACA
195 GACGTTACTCTTTATCAATGAAAAGGTAAACTATATGATACCTATACATTTTATCCATAGAAACA
* * *
61232 ATATGAGTAACTATTTACATGATGAGGGTTATTGTTTATCGAGGTAAAATAAAATTATCTTCG-T
260 ATATGAGTAACTATTTACATGATGAGGGTTACTCTCTATCGAGGTAAAATAAAATTATCTT-GAT
* * * *
61296 ACCTTGGCTACCCATTTCATATATAGAATGTTGAATCCTTAGAAGATGGTTTTCAGTATTATAGG
324 ACCTTGGCTACACATTTTAGATATAGAATGTTGAGTCCTTAGAAGATGGTTTTCAGTATTATAGG
* * * *** *
61361 CTCCTTAATTTTAAGAAGAATATTTTTTCGATTTTTGAAGAACTTTAAAATAGCTTGTCTTTGCG
389 CTCCTGAA-TTTAAGAAGAATATTTTTTCGAGTTTTGAAGCACTTTGCTATAGCTTGTCTTTGTG
* * * ***
61426 CCCAAGGACTTTTGCTTCTATTACTAATATTTGTTACTTATTGTAAGTTAAAAATAAAAACTTTT
453 CTCGAGGACTTTTGCTTCTATTACTAATATTTGTTACTTAATGTAAGTTAAAAATAAATTTTTTT
*
61491 ACAAATTCAGTGCACATGATTTGCATTATATGACTTATGTTTTATCTGCAAACATAATATGATGT
518 ACAAATTCAGTGCACATGATTTGCATGATATGACTTATGTTTTATCTGCAAACATAATATGATGT
*
61556 GTAATTATTTACATGATGAGGGTTACTCAAAGTTAAGATAAATTATCTATATAATGTTACTTTCT
583 GTAATTATTTACATGATGAGGGTTACTCAAAGTTAAGGTAAATTATCTATATAATGTTACTTTCT
* * *
61621 ATTTTTTATATATATTCATGTCGAGTCTTTGGAATAAGGTTTTGAACATTAGGGGCTCCTGAA
648 ATTTTTTATATAGATTCATGTCAAGTCTTTGGAATATGGTTTTGAACATTAGGGGCTCCTGAA
* *
61684 GTTGAGGAGTATGTTATTATGATTTTTGAAATATTTTG-CTACATCTTGTCTCCATTCATAATGA
1 GTTGAGGAGTATGTTATTATGATTTTTGAAGTATTTTGTCTACATCTTGTCTCCATTCATAA-AA
* * * *
61748 GCTTTTTCTTTTATTACTAAATCCTGAAAAATTGCTTAGAATCAAATAATTTTTGTAAGTTCAAC
65 GCTTTTTCTTCTATTACTAAATCCTGACAAATTGCTTAGAATCAAATAACTTTTGTAACTTCAAC
* * * *
61813 TTGCATGCTTTCTATGATATTTATATATTTTCTCTCTAAAAAAAATGAGTAACTATTTACATGAT
130 TTGCATGCTTTCTATGATACTTATACATTTTCTCTCCAAAAACAATGAGTAACTATTTACATGAT
* * * * * * * *
61878 GACATTACTCTTTATCGATGAAATGGTAAATTGTGTGATACCTATATATTTTATCCATAGAAATA
195 GACGTTACTCTTTATCAATGAAAAGGTAAACTATATGATACCTATACATTTTATCCATAGAAACA
* * * * *
61943 ATATGAGTAAATATTTATATGATGAGGGTTACTTTCTATCGAGGTAAAATAAAATTATTTTGATT
260 ATATGAGTAACTATTTACATGATGAGGGTTACTCTCTATCGAGGTAAAATAAAATTATCTTGATA
* * * ** * *
62008 CTTTGGCTACACATTTTAGATATAAAAGGTTGAGTGTTTAGAAGATGGTTTTTAGTATT-TGGGG
325 CCTTGGCTACACATTTTAGATATAGAATGTTGAGTCCTTAGAAGATGGTTTTCAGTATTAT-AGG
*
62072 CTCCTGAATTTAAGAAGAATATTTTTTTTTGAGTTTTGAAGCACTTTGCTATAGCTTGTCTTTGT
389 CTCCTGAATTTAAGAAGAATA--TTTTTTCGAGTTTTGAAGCACTTTGCTATAGCTTGTCTTTGT
* * *
62137 ACTCGAGGACATTTGCTTCTATTACTAATATTTGTTACTTAATGCAAGTTAAAAAT-AATTTTTT
452 GCTCGAGGACTTTTGCTTCTATTACTAATATTTGTTACTTAATGTAAGTTAAAAATAAATTTTTT
* * * *
62201 TACAAATTCAGTGCACATGTTTTACATGAAATGACTTATGTTTTATCTGCAAACATAATTTGATG
517 TACAAATTCAGTGCACATGATTTGCATGATATGACTTATGTTTTATCTGCAAACATAATATGATG
* * *
62266 TGTAATTATTTACATGATGAGGGTTACACAAAATTAAGGTAAATTATATATATATAATGTTACTT
582 TGTAATTATTTACATGATGAGGGTTACTCAAAGTTAAGGTAAA-T-TATCTATATAATGTTACTT
* * * * * ** **
62331 TCTA--TTTTAGACAGATTCATGTCTAGTCTTTGGAATATGGTTTTAAACATCAAAGGCTCCACA
645 TCTATTTTTTATATAGATTCATGTCAAGTCTTTGGAATATGGTTTTGAACATTAGGGGCTCCTGA
62394 A
710 A
*
62395 GTTGAGGAGTATGTTATTATGATTTTTGAAGTATTTT-ACTACATCTTGTCTCCATTCATAAAGA
1 GTTGAGGAGTATGTTATTATGATTTTTGAAGTATTTTGTCTACATCTTGTCTCCATTCATAAA-A
* * * *
62459 GCATTTTT-TTCTATTACTAAATCTTGACAAATTGCTAAAAATCAAATAACTTTTGTAACTTCAG
65 GC-TTTTTCTTCTATTACTAAATCCTGACAAATTGCTTAGAATCAAATAACTTTTGTAACTTCAA
* * * * *
62523 CTTACATGCTTTCTATGATAGTTATACACTTTCTCTCTAAAAACATTGAGTAACTATTTACATGA
129 CTTGCATGCTTTCTATGATACTTATACATTTTCTCTCCAAAAACAATGAGTAACTATTTACATGA
** ** * * * * **
62588 TGACGTTACTCTTTATTGATGAAAAAATTAACTGTTTGATACCTCTGTATTTTATCCATAGAAAC
194 TGACGTTACTCTTTATCAATGAAAAGGTAAACTATATGATACCTATACATTTTATCCATAGAAAC
* * * *
62653 AATATGAGTAACTATTTACATGATGAGGATTACTCTCTGTCGAGGGAAAATAAAATTACCTTGAT
259 AATATGAGTAACTATTTACATGATGAGGGTTACTCTCTATCGAGGTAAAATAAAATTATCTTGAT
* * * * * * *
62718 ACCTTGACTACACATTTTAGATATTGAATGTTTAGTCTTTAGAAAATGGTTTTCA--A-TATTGA
324 ACCTTGGCTACACATTTTAGATATAGAATGTTGAGTCCTTAGAAGATGGTTTTCAGTATTATAGG
* * * * *
62780 CTCTTGAATTTAAAAAGAA-AATTTTTCTGAGTTTTGAAACATTTTGCTAT
389 CTCCTGAATTTAAGAAGAATATTTTTTC-GAGTTTTGAAGCACTTTGCTAT
62830 GACTTATGTT
Statistics
Matches: 1626, Mismatches: 207, Indels: 68
0.86 0.11 0.04
Matches are distributed among these distances:
705 5 0.00
706 20 0.01
707 1 0.00
708 19 0.01
709 2 0.00
710 18 0.01
711 960 0.59
712 238 0.15
713 118 0.07
714 40 0.02
717 1 0.00
719 1 0.00
721 1 0.00
725 3 0.00
726 139 0.09
727 9 0.01
728 51 0.03
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.41
Consensus pattern (710 bp):
GTTGAGGAGTATGTTATTATGATTTTTGAAGTATTTTGTCTACATCTTGTCTCCATTCATAAAAG
CTTTTTCTTCTATTACTAAATCCTGACAAATTGCTTAGAATCAAATAACTTTTGTAACTTCAACT
TGCATGCTTTCTATGATACTTATACATTTTCTCTCCAAAAACAATGAGTAACTATTTACATGATG
ACGTTACTCTTTATCAATGAAAAGGTAAACTATATGATACCTATACATTTTATCCATAGAAACAA
TATGAGTAACTATTTACATGATGAGGGTTACTCTCTATCGAGGTAAAATAAAATTATCTTGATAC
CTTGGCTACACATTTTAGATATAGAATGTTGAGTCCTTAGAAGATGGTTTTCAGTATTATAGGCT
CCTGAATTTAAGAAGAATATTTTTTCGAGTTTTGAAGCACTTTGCTATAGCTTGTCTTTGTGCTC
GAGGACTTTTGCTTCTATTACTAATATTTGTTACTTAATGTAAGTTAAAAATAAATTTTTTTACA
AATTCAGTGCACATGATTTGCATGATATGACTTATGTTTTATCTGCAAACATAATATGATGTGTA
ATTATTTACATGATGAGGGTTACTCAAAGTTAAGGTAAATTATCTATATAATGTTACTTTCTATT
TTTTATATAGATTCATGTCAAGTCTTTGGAATATGGTTTTGAACATTAGGGGCTCCTGAA
Found at i:64406 original size:600 final size:600
Alignment explanation
Indices: 62231--66281 Score: 7246
Period size: 599 Copynumber: 6.8 Consensus size: 600
62221 TTTACATGAA
*
62231 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACACA
1 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
62296 AAATTAAGGTAAATTATATATATATAATGTTACTTTCTATTTTAGAC--AGATTCATGTCTAGTC
66 AAATTAAGGTAAATT-TATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTC
*
62359 TTTGGAATATGGTTTTAAACATCAAAGGCTCCACAAGTTGAGGAGTATGTTATTATGATTTTTGA
130 TTTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGA
*
62424 AGTATTTTACTACATCTTGTCTCCATTCATAAAGAGCATTTTTTTCTATTACTAAATCTTGACAA
195 AGTATTTTACTACATCTTGTCTCCATTCATAAAGAGC-TTTTTTTCTATTACTAAATCCTGACAA
* * *
62489 ATTGCTAAAAATCAAATAACTTTTGTAACTTCAGCTTACATGCTTTCTATGATAGTTATACACTT
259 ATTGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTT
* *
62554 TCTCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAATTAA
324 TCTCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAGTCAA
*
62619 CTGTTTGATACCTCTGTATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATT
389 CTGTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATT
*
62684 ACTCTCTGTCGAGGGAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGT
454 ACTCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGT
* * *
62749 TTAGTCTTTAGAAAATGGTTTTCAATATT---GACTCTTGAATTTAAAAAGAAAATTTTTCTGAG
519 TTAGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAG
62811 TTTTGAAACATTTTGCT
584 TTTTGAAACATTTTGCT
* *
62828 ATGACTTATGTTTTATCTGCAAATATAATTTGATGTGTAATTATTTACATGATGAGGGTAACCCA
1 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
* *
62893 AAATTAAGGTAAA-CTATATATATAATGTTACTTTCTATTTTAGACATAGATTCATTTCTAGTCT
66 AAATTAAGGTAAATTTATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTCT
62957 TTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
131 TTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
*
63022 GTATTTTACTACATCTTGTCTCCATTCATAAAGAGTGTTTTTTTCTATTACTAAATCCTGACAAA
196 GTATTTTACTACATCTTGTCTCCATTCATAAAGAG-CTTTTTTTCTATTACTAAATCCTGACAAA
63087 TTGCTAAGAATCAAATAA-TTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTTT
260 TTGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTTT
* *
63151 CTCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTTATGAAAAAGTCAAA
325 CTCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAGTCAAC
63216 TGTTTGA-ACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTA
390 TGTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTA
* *
63280 CTCTCTATCGAGGAAAAATAAAATTACCTTGATACATTGACTACACATTTTAGATATTGAATGTT
455 CTCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGTT
* *
63345 TAGTCTTTAGAAAATAGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTATGAGT
520 TAGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGT
*
63410 TTTGAAACGTTTTGCT
585 TTTGAAACATTTTGCT
63426 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
1 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
* *
63491 AAATTAAGG-AAAATTATATATATAATGTTACATTCTATTTTAGACATAGATTCATGTCTAGTCT
66 AAATTAAGGTAAATTTATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTCT
63555 TTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
131 TTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
63620 GTATTTTACTACATCTTGTCTCCATTCATAAAGAGCTTTTTTTCTATTACTAAATCCTGACAAAT
196 GTATTTTACTACATCTTGTCTCCATTCATAAAGAGCTTTTTTTCTATTACTAAATCCTGACAAAT
*
63685 TGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCTTGCTTTCTATGATACTTATACACTTTC
261 TGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTTTC
63750 TCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATG-AAAAGTCAACT
326 TCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAGTCAACT
*
63814 GTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACACGATGAGGATTAC
391 GTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTAC
63879 TCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGTTT
456 TCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGTTT
*
63944 AGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGTA
521 AGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGTT
*
64009 TTGAAACAATTTGCT
586 TTGAAACATTTTGCT
64024 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
1 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
*
64089 AAATTAAGGTAAATTATATATATATAATGTTACTTTCTATTTTAGACATAGATTTATGTCTAGTC
66 AAATTAAGGTAAATT-TATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTC
*
64154 TTTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATATTTGA
130 TTTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGA
64219 AGTATTTTACTACATCTTGTCTCCATTCATAAAGAGCTTTTTTTCTATTACTAAATCCTGACAAA
195 AGTATTTTACTACATCTTGTCTCCATTCATAAAGAGCTTTTTTTCTATTACTAAATCCTGACAAA
*
64284 TTGCTAAGAATCAAATAATTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTTT
260 TTGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTTT
* * ** *
64349 CTCTCTAAAAAAATTGAGTAACTATTTACACGACAACGTTACTCTTTATTTATGAAAAAGTCAAC
325 CTCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAGTCAAC
* *
64414 TGTTTGATACATCTACATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTA
390 TGTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTA
64479 CTCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGTT
455 CTCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGTT
*
64544 TAGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTAAGT
520 TAGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGT
64609 TTTGAAACATTTTGCT
585 TTTGAAACATTTTGCT
* *
64625 ATGACTTATGTTTTATTTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGATTACCCA
1 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
64690 AAATTAAGGTAAA-TTATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTCT
66 AAATTAAGGTAAATTTATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTCT
* *
64754 TTGGAATATGGTTTTAAACATCACAGGATCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
131 TTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
* * *
64819 GTATTTTACTACATCTTGTCTCTATTCATAAAGAGCGTTTTTTCTATTACTAAATCTTGACAAAT
196 GTATTTTACTACATCTTGTCTCCATTCATAAAGAGCTTTTTTTCTATTACTAAATCCTGACAAAT
* * *
64884 TGCTAAGAATCAAATAACTTTTTTAACTTCAACTTGCATGCTTTCTATGATACTTCTACACTTTC
261 TGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTTTC
*
64949 TCTCTAAAAACATTGAGTAACTATTTACATGATGGA-GTTTCTCTTTATTGATGAAAAAGTCAAC
326 TCTCTAAAAACATTGAGTAACTATTTACATGAT-GACGTTACTCTTTATTGATGAAAAAGTCAAC
* *
65013 TGTTTGATACCTCTGCATTTTATCCATAGATACAATATGAGTAACTATTTACTTGATGAGGATTA
390 TGTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTA
*
65078 CTCTCTGTCGAGGAAAAATAAAATTACCTTGATATCTTGACTACACATTTTAGATATTGAATGTT
455 CTCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGTT
65143 TAGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGT
520 TAGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGT
* *
65208 TTTAAAACGTTTTGCT
585 TTTGAAACATTTTGCT
* *
65224 ATGACTTATGTTTTATTTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCAA
1 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
* * * *
65289 AAATTAAGG-AAAATTATATATATAATGTTACATTCTATTTTAGGCATAGATTTATGTCTAGTCT
66 AAATTAAGGTAAATTTATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTCT
65353 TTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
131 TTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
*
65418 GTATTTTACTACATCTTGTCTCCATTCATAAAGAGTGTTTTTTTCTATTACTAAATCCTGACAAA
196 GTATTTTACTACATCTTGTCTCCATTCATAAAGAG-CTTTTTTTCTATTACTAAATCCTGACAAA
*
65483 TTGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCTTGCTTTCTATGATACTTATACACTTT
260 TTGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTTT
* * *
65548 CTCTCTAAAAACATTGAGTAACTATTTTCATGATGGCGTTACTCTTTATTGATGAAAAAGTCAAT
325 CTCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAGTCAAC
65613 TGTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTA
390 TGTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTA
*
65678 CTCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACATATTTTAGATATTGAATGTT
455 CTCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGTT
65743 TAGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGT
520 TAGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGT
65808 TTTGAAACATTTTGCT
585 TTTGAAACATTTTGCT
* *
65824 ATGACTTATGTTTTATCTGTAAACATAATTTGATGTGTAATTATTTACATGATGACGGTTACCCA
1 ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
65889 AAATTAAGGTAAATTATATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTC
66 AAATTAAGGTAAATT-TATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTC
*
65954 TTTGGAATATGATTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGA
130 TTTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGA
*
66019 AGTATTTTACTACAACTTGTCTCCATTCATAAAGAGCGTTTTTTTCTATTACTAAATCCTGACAA
195 AGTATTTTACTACATCTTGTCTCCATTCATAAAGAGC-TTTTTTTCTATTACTAAATCCTGACAA
* *
66084 ATTGCAAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATACTTTCTATGATACTTATACACTT
259 ATTGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTT
66149 TCTCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAGTCAA
324 TCTCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAGTCAA
*
66214 ATGTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATT
389 CTGTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATT
66279 ACT
454 ACT
66282 GTAACACCCC
Statistics
Matches: 3307, Mismatches: 128, Indels: 33
0.95 0.04 0.01
Matches are distributed among these distances:
595 175 0.05
596 112 0.03
597 299 0.09
598 636 0.19
599 715 0.22
600 711 0.21
601 295 0.09
602 364 0.11
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (600 bp):
ATGACTTATGTTTTATCTGCAAACATAATTTGATGTGTAATTATTTACATGATGAGGGTTACCCA
AAATTAAGGTAAATTTATATATATAATGTTACTTTCTATTTTAGACATAGATTCATGTCTAGTCT
TTGGAATATGGTTTTAAACATCAAAGGCTCCTCAAGTTGAGGAGTATGTTATTATGATTTTTGAA
GTATTTTACTACATCTTGTCTCCATTCATAAAGAGCTTTTTTTCTATTACTAAATCCTGACAAAT
TGCTAAGAATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACACTTTC
TCTCTAAAAACATTGAGTAACTATTTACATGATGACGTTACTCTTTATTGATGAAAAAGTCAACT
GTTTGATACCTCTGCATTTTATCCATAGAAACAATATGAGTAACTATTTACATGATGAGGATTAC
TCTCTGTCGAGGAAAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGAATGTTT
AGTCTTTAGAAAATGGTTTTCAGTATTAAGGACTCCTGAATTTAAAAAGAATATTTTTCTGAGTT
TTGAAACATTTTGCT
Found at i:67018 original size:30 final size:30
Alignment explanation
Indices: 66984--67056 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
66974 CCCGAAGGAC
66984 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
67014 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
67044 CTGTCCATAGGTC
1 CTATCCAGAGGTC
67057 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:67152 original size:63 final size:61
Alignment explanation
Indices: 67039--67167 Score: 188
Period size: 63 Copynumber: 2.1 Consensus size: 61
67029 AAAGATCCTC
* *
67039 GGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATA
* *
67100 GGTATACTGTCCATATGTCTCGAA-AGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGTA-ACTGTCCATAGGTCCCGAAGA-ACATAGGT-AAACTGTCCATATGTTCCGTAGAACATA
67163 GGTAA
1 GGTAA
67168 ACCCTCGACT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
61 5 0.08
62 25 0.41
63 31 0.51
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (61 bp):
GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATA
Found at i:67162 original size:32 final size:31
Alignment explanation
Indices: 67042--67169 Score: 152
Period size: 31 Copynumber: 4.1 Consensus size: 31
67032 GATCCTCGGT
* * * *
67042 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
*
67073 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
67104 TACTGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGT-A
67136 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
67167 AAC
1 AAC
67170 CCTCGACTCT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
30 4 0.05
31 51 0.62
32 23 0.28
33 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:67582 original size:25 final size:25
Alignment explanation
Indices: 67552--67610 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
67542 CTGATGACAT
67552 ATATCATATAAATATATAATAACTG
1 ATATCATATAAATATATAATAACTG
*
67577 ATATCATATAGATATATAATAACTG
1 ATATCATATAAATATATAATAACTG
67602 ATATCATAT
1 ATATCATAT
67611 TATCTACCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (25 bp):
ATATCATATAAATATATAATAACTG
Found at i:68681 original size:21 final size:21
Alignment explanation
Indices: 68657--68701 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
68647 TTTTGTTCGT
* *
68657 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
68678 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
68699 TTG
1 TTG
68702 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:71885 original size:30 final size:30
Alignment explanation
Indices: 71851--71923 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
71841 CCCGAATGAC
71851 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
71881 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
71911 CTGTCCATAGGTC
1 CTATCCAGAGGTC
71924 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:72019 original size:63 final size:61
Alignment explanation
Indices: 71906--72034 Score: 188
Period size: 63 Copynumber: 2.1 Consensus size: 61
71896 AAAGATCCTC
* *
71906 GGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATA
* *
71967 GGTATACTGTCCATATGTCTCGAA-AGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGTA-ACTGTCCATAGGTCCCGAAGA-ACATAGGT-AAACTGTCCATATGTTCCGTAGAACATA
72030 GGTAA
1 GGTAA
72035 ACCCTCGACT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
61 5 0.08
62 25 0.41
63 31 0.51
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (61 bp):
GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATA
Found at i:72029 original size:32 final size:31
Alignment explanation
Indices: 71909--72036 Score: 152
Period size: 31 Copynumber: 4.1 Consensus size: 31
71899 GATCCTCGGT
* * * *
71909 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
*
71940 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
71971 TACTGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGT-A
72003 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
72034 AAC
1 AAC
72037 CCTCGACTCT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
30 4 0.05
31 51 0.62
32 23 0.28
33 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:72449 original size:25 final size:25
Alignment explanation
Indices: 72419--72477 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
72409 CTGATGACAT
72419 ATATCATATAAATATATAATAACTG
1 ATATCATATAAATATATAATAACTG
*
72444 ATATCATATAGATATATAATAACTG
1 ATATCATATAAATATATAATAACTG
72469 ATATCATAT
1 ATATCATAT
72478 TATCTACCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (25 bp):
ATATCATATAAATATATAATAACTG
Found at i:73549 original size:21 final size:21
Alignment explanation
Indices: 73525--73569 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
73515 TTTTGTTCGT
* *
73525 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
73546 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
73567 TTG
1 TTG
73570 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:76686 original size:727 final size:715
Alignment explanation
Indices: 74287--76746 Score: 2716
Period size: 727 Copynumber: 3.5 Consensus size: 715
74277 CTTTCGATGA
* * * *** *
74287 AAAATAAAATTACCTTGATACCTTGACTACACATTTTAGATATTGGATGTTTAGTCTTTAGAAAA
1 AAAATAAAATTATCTTGATACCTTGGCTACCCATTTTAGATATAAAATGTTGAGTCTTTAGAAAA
* * * * * * * * *
74352 TAGTTTTCAGTATTAAGGACTCTTGAATTTAAAAAGAATATTTTTATGAGTTTTGAAACATTTTG
66 TGGTTTTCAATATTAGGGGCTCCTGAATTTAAGAAGAATATTTTTCTGATTTTTGAAA-ACTTTG
** * * * **
74417 CTATGGCTTGTCTTTGTGGTCGATGACTTTTG-TT---TT--T--TA-CTG-TA--AGTTCAAAG
130 CTATAACTTGTCTTTGTGCTCGAGGACTTTTGCTTCCATTACTAATATTTGTTATTA-TTGTAAG
* *
74470 ---T-AA-AAAATCTTTTACAAATTCAA-TGCACATGATTTGCATGATATGATTTATGTTTTATC
194 TTATAAATAAAAACTTTTACAAATTCAAGTGCACATGATTTGTATGATATGATTTATGTTTTATC
*
74529 TGCAAACATAATATGATGTGTAATTATTTACATGATGAGGGTT--AC----TCAAAGTTAAGGTG
259 TGCAAACATAATATG-TGTGTAATTATTTACATGATGAGGGTTACACTTTTTCAAAGTTAAGGTA
* * * * *
74588 AATTATCTATATAATATTA-CTT-TATTTTAGATATAGATTCACGTCAAGC-CTTTGGAGTATGA
323 AATTATCTATATAATGTTATTTTCTATTTTAGATATAGATTCATGTCGA-CTCTTTGGAATATGA
* * * *
74650 TTTTG-ATCATTAGGGGCTCTTGAAGTTGAGGAGTATATTATTATGACTTTTGAAGTATTTTGCT
387 TTTTGAAT-ATTAGGGGCTCTTAAAGTTGAGAAGTATATTATTATGATTTTTGAAGTATTTTTCT
* * **
74714 ACATCTTGTCT---TAATTGATTATA-AGA-TTTTTCTTCTATTATTAAATCTCCACAAGTTGCT
451 ACATCTTGTCTCCATTATT-ATTATATA-ACTTTTT-TTCTATTACTAAATCTTGACAAGTTGCT
* * *
74774 TAAAATCAAATAACATTTGTAACTTCAACTTGCATACTTTCTATGATACCTATACA--TTCTCTC
513 TAAAATCAAATAACTTTTGTAACTTCAGCTTGCAT-GTTTCTATGATACCTATACATTTTCTCTC
* * *
74837 TAAAAACAATGAATAACTATTTACATGATGATGTTACTCTTTATCGATAAAAAGGTAAATTGTAT
577 TAAAAACAATGAGTAACTATTTACATGATGATATTACTCTTTATCGATAAAAAGGTAAACTGTAT
* * ** *
74902 GATACCTATACATTTTATTCATAGAAGCAATATGAGTAATTATTTACATGACAAGGGTTACTCTC
642 GATACCCATACATTTTATCCATAGAAGCAATATGAGTAATTATTTACATGATGAGAGTTACTCTC
74967 TATCGAA-GT
707 TATC-AAGGT
* * * * *
74976 AAAATAAAATTATCTTGATACATCGGCTATCCATTTTAAATATAGAATGTTGAGTCTTTAGAAAA
1 AAAATAAAATTATCTTGATACCTTGGCTACCCATTTTAGATATAAAATGTTGAGTCTTTAGAAAA
* * * *
75041 TTGTTTTCAATATTAGGAGCTCCTGAATTTAAGTAGAATATTTTTCTGATTTTTGATGAACTTTG
66 TGGTTTTCAATATTAGGGGCTCCTGAATTTAAGAAGAATATTTTTCTGATTTTTGA-AAACTTTG
* * * * *
75106 CTATAGCTTGTCTTTGTGCTCAAGGATTTTTGCTTCCATTATTAATATTTATTATTTATTGTAAG
130 CTATAACTTGTCTTTGTGCTCGAGGACTTTTGCTTCCATTACTAATATTTGTTA-TTATTGTAAG
* *
75171 -T-TAAAT-AAAACATTTACAATTTC-AGTGCACATGATTTGTATGATATGATTTATGTTTTATC
194 TTATAAATAAAAACTTTTACAAATTCAAGTGCACATGATTTGTATGATATGATTTATGTTTTATC
** * * * * * *
75232 TTTAAACATAATATGATGTGTAGTTATTTAGATGATGAGTGTTACTCCTTATT-AAAGTTAAGAT
259 TGCAAACATAATATG-TGTGTAATTATTTACATGATGAGGGTTAC-ACTTTTTCAAAGTTAAGGT
* * * *
75296 AAATTATCTATATAATGTTGTTTTTCTATTTTAGATATAGATTCTTGTTGAGTCTTTGGAATATG
322 AAATTATCTATATAATGTT-ATTTTCTATTTTAGATATAGATTCATGTCGACTCTTTGGAATATG
* * * * *
75361 GTTTTGAACATTAGGGGCTCTAAAAGTTGAGGAA-TAGATTATTGTGATTTTTGAAGTA-TTTTC
386 ATTTTGAATATTAGGGGCTCTTAAAGTTGA-GAAGTATATTATTATGATTTTTGAAGTATTTTTC
* * * * *
75424 TACAACTTGTCTCCATTGTT-TT-T-T--C-----TTCTATTACTATATCCTGGCAAGTTGCTTA
450 TACATCTTGTCTCCATTATTATTATATAACTTTTTTTCTATTACTAAATCTTGACAAGTTGCTTA
* *
75479 AAATCAAATAA-TTTATGTAGCTTCAGCTTGCATGCTTTCTATGATACCTATACATTTTTTTCTC
515 AAATCAAATAACTTT-TGTAACTTCAGCTTGCATG-TTTCTATGATACCTATACA-TTTTCTCTC
* * * * *
75543 TGAAAACAATGAGTAACTATTTACTTGATGACATTACTCTCTATCGATAAAAAGGTAAACTATAT
577 TAAAAACAATGAGTAACTATTTACATGATGATATTACTCTTTATCGATAAAAAGGTAAACTGTAT
* * * * * * * *
75608 GATATCCGTATATTTTATCTATAGAACCAATATGAGTAACTATTTATATGATTGAGACTTACTCT
642 GATACCCATACATTTTATCCATAGAAGCAATATGAGTAATTATTTACATGA-TGAGAGTTACTCT
*
75673 CTATCTAGGT
706 CTATCAAGGT
* ** * * *
75683 AAAATAAAATTATTTTGATACCTTAACTTACCCATTGTAGATATAAAATGCTGAGTTTTTAGAAA
1 AAAATAAAATTATCTTGATACCTTGGC-TACCCATTTTAGATATAAAATGTTGAGTCTTTAGAAA
* * *
75748 ATGGTTTTCAGTATTAGGGGCTCCTGAATTTAAGAAGAATATTTTTCTAATTTTTGAAGCACTTT
65 ATGGTTTTCAATATTAGGGGCTCCTGAATTTAAGAAGAATATTTTTCTGATTTTTGAA-AACTTT
* * * *
75813 GCTATAACTTGTCTTTGTGCTTGAGGACTTTTGCTTCTATTACTAATATTTGTTATTGTAAGTTA
129 GCTATAACTTGTCTTTGTGCTCGAGGACTTTTGCTTCCATTACTAATATTTGTTATTAT-TG-T-
** * * ** * **
75878 AAAATAAAAATAAAAACTTTTATAAATT-TTGGGCACATGATTTGTATGATACAATTTATGTTTT
191 AAGTTATAAATAAAAACTTTTACAAATTCAAGTGCACATGATTTGTATGATATGATTTATGTTTT
*
75942 ATCTGCAAACATAATATG-GTGTAATTATTTACATGATAAGGGTTACACTTTTTCAAAGTTAAGG
256 ATCTGCAAACATAATATGTGTGTAATTATTTACATGATGAGGGTTACACTTTTTCAAAGTTAAGG
* *
76006 TAAATTATTTATATAATGTTATTTTCTATTTTAGATATAGATTCATGTCGACTCTTTAGAATATG
321 TAAATTATCTATATAATGTTATTTTCTATTTTAGATATAGATTCATGTCGACTCTTTGGAATATG
* *
76071 ATTTTGAATTTTAGGGGCTCTTAAAGTTGAGAAGTATATTATTTTGATTTTTGAAGTATTTTTCT
386 ATTTTGAATATTAGGGGCTCTTAAAGTTGAGAAGTATATTATTATGATTTTTGAAGTATTTTTCT
*
76136 ACATCTTGTCTCCATTCATCTCCATTCATCATCAACTTTTTTTTCTATTACTAAATCTTGAAAAG
451 ACATCTTGTCTCCATT-AT-T--ATT-AT-AT-AAC-TTTTTTTCTATTACTAAATCTTGACAAG
* *
76201 TTGCTTAAAATTAAATAACTTTTGTAACTTCAGTTTGCATGTTTCTATGATACCTATACATTTTC
508 TTGCTTAAAATCAAATAACTTTTGTAACTTCAGCTTGCATGTTTCTATGATACCTATACATTTTC
* *
76266 TCTCTAAAAACAATGAGTAACTATTTACATAATGATATTACTCTTTATCGATGAAAAGGTAAACT
573 TCTCTAAAAACAATGAGTAACTATTTACATGATGATATTACTCTTTATCGATAAAAAGGTAAACT
* * *
76331 GTATGATACCCATACATTTTATCCCTAGTAGCAATATGTGTAATTATTTACATGATGAGAGTTAC
638 GTATGATACCCATACATTTTATCCATAGAAGCAATATGAGTAATTATTTACATGATGAGAGTTAC
76396 TCTCTATCAAGGT
703 TCTCTATCAAGGT
*
76409 AAAATAAAATTATCTTGATACCTTGGCTACCCATTTTAGATATAAAATGTTGAGTCTTTATAAAA
1 AAAATAAAATTATCTTGATACCTTGGCTACCCATTTTAGATATAAAATGTTGAGTCTTTAGAAAA
*
76474 TGGTTTTCAATATTAGGGGTTCCTGAATTTAAGAAGAATATTGTTT-TGATTTTTGAAATACTTT
66 TGGTTTTCAATATTAGGGGCTCCTGAATTTAAGAAGAATATT-TTTCTGATTTTTGAAA-ACTTT
* * * *
76538 TCTACAATTTGTGTTTGTGCTCGAGGACTTTTGCTTCCATTACTAATATTTGTTACTTATTGTAA
129 GCTATAACTTGTCTTTGTGCTCGAGGACTTTTGCTTCCATTACTAATATTTGTTA-TTATTGTAA
* * * *
76603 GTTGCATAAATTAGAAAACTTTTATAAATTCAAGTG-ACATAACTTGTATGATAT-AGTATATGT
193 GTT--ATAAA-TA-AAAACTTTTACAAATTCAAGTGCACATGATTTGTATGATATGA-TTTATGT
* * * ** * * *
76666 TTTATCTGCAAAAATAATATGTTATGTAACTATTTACATGATGAGAATTACTCTTTATCAAAGTA
253 TTTATCTGCAAACATAATATG-TGTGTAATTATTTACATGATGAGGGTTACACTTTTTCAAAGTT
76731 AAGGTAAATTATCTAT
317 AAGGTAAATTATCTAT
76747 GTACCATTAC
Statistics
Matches: 1464, Mismatches: 222, Indels: 130
0.81 0.12 0.07
Matches are distributed among these distances:
689 133 0.09
690 3 0.00
693 2 0.00
695 1 0.00
697 2 0.00
698 1 0.00
699 2 0.00
701 5 0.00
702 5 0.00
703 159 0.11
706 107 0.07
707 41 0.03
708 137 0.09
709 31 0.02
710 96 0.07
711 92 0.06
712 84 0.06
713 64 0.04
714 3 0.00
716 2 0.00
718 1 0.00
720 1 0.00
723 4 0.00
724 1 0.00
725 143 0.10
726 54 0.04
727 164 0.11
728 21 0.01
729 102 0.07
730 3 0.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (715 bp):
AAAATAAAATTATCTTGATACCTTGGCTACCCATTTTAGATATAAAATGTTGAGTCTTTAGAAAA
TGGTTTTCAATATTAGGGGCTCCTGAATTTAAGAAGAATATTTTTCTGATTTTTGAAAACTTTGC
TATAACTTGTCTTTGTGCTCGAGGACTTTTGCTTCCATTACTAATATTTGTTATTATTGTAAGTT
ATAAATAAAAACTTTTACAAATTCAAGTGCACATGATTTGTATGATATGATTTATGTTTTATCTG
CAAACATAATATGTGTGTAATTATTTACATGATGAGGGTTACACTTTTTCAAAGTTAAGGTAAAT
TATCTATATAATGTTATTTTCTATTTTAGATATAGATTCATGTCGACTCTTTGGAATATGATTTT
GAATATTAGGGGCTCTTAAAGTTGAGAAGTATATTATTATGATTTTTGAAGTATTTTTCTACATC
TTGTCTCCATTATTATTATATAACTTTTTTTCTATTACTAAATCTTGACAAGTTGCTTAAAATCA
AATAACTTTTGTAACTTCAGCTTGCATGTTTCTATGATACCTATACATTTTCTCTCTAAAAACAA
TGAGTAACTATTTACATGATGATATTACTCTTTATCGATAAAAAGGTAAACTGTATGATACCCAT
ACATTTTATCCATAGAAGCAATATGAGTAATTATTTACATGATGAGAGTTACTCTCTATCAAGGT
Found at i:76763 original size:24 final size:24
Alignment explanation
Indices: 76735--76783 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
76725 AAAGTAAAGG
*
76735 TAAATTATCTATGTACCATTACTT
1 TAAATTATCTATATACCATTACTT
76759 TAAATTATCTATATACCATTACTT
1 TAAATTATCTATATACCATTACTT
76783 T
1 T
76784 CTATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAATTATCTATATACCATTACTT
Found at i:78166 original size:14 final size:14
Alignment explanation
Indices: 78147--78174 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78137 TCTATTTTAG
78147 ATATAGATTGATGC
1 ATATAGATTGATGC
78161 ATATAGATTGATGC
1 ATATAGATTGATGC
78175 GAAGTCTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
ATATAGATTGATGC
Found at i:78673 original size:75 final size:75
Alignment explanation
Indices: 78477--78701 Score: 364
Period size: 75 Copynumber: 3.0 Consensus size: 75
78467 AAAGGTAAAT
* * *
78477 TATCTAGATAAACAACTCATTTTTAGATATAGATTCATGTTGAGTCTCTTGAACACGGTCTTCAG
1 TATCTAGATAAACAACTCATTTTTAGATATAGATTCATGTTGAGTCTCTAGAACACAGTCTTCGG
*
78542 TATTCA--GGT
66 TATT-AGGGGC
* * *
78551 TTTCTAGATAAACAACTCATTTTTAGATATAGATTCATGTTGAGTCTCTGGAACACAATCTTCGG
1 TATCTAGATAAACAACTCATTTTTAGATATAGATTCATGTTGAGTCTCTAGAACACAGTCTTCGG
78616 TATTAGGGGC
66 TATTAGGGGC
78626 TATCTAGATAAACAACTCATTTTTAGATATAGATTCATGTTGAGTCTCTAGAACACAGTCTTCGG
1 TATCTAGATAAACAACTCATTTTTAGATATAGATTCATGTTGAGTCTCTAGAACACAGTCTTCGG
78691 TATTAGGGGC
66 TATTAGGGGC
78701 T
1 T
78702 CTTGAAATTA
Statistics
Matches: 140, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
73 1 0.01
74 64 0.46
75 75 0.54
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (75 bp):
TATCTAGATAAACAACTCATTTTTAGATATAGATTCATGTTGAGTCTCTAGAACACAGTCTTCGG
TATTAGGGGC
Found at i:88278 original size:38 final size:38
Alignment explanation
Indices: 88230--88337 Score: 170
Period size: 34 Copynumber: 2.9 Consensus size: 38
88220 TTAAAATTTA
*
88230 TAAAAATATTAAAATTAACAATAAATGTACAATTTTTC
1 TAAAAATATTAAAATTAAAAATAAATGTACAATTTTTC
*
88268 TAAAAATATTAAAAATAAAAATAAA--T--AATTTTTC
1 TAAAAATATTAAAATTAAAAATAAATGTACAATTTTTC
88302 TAAAAATATTAAAATTAAAAATAAATGTACAATTTT
1 TAAAAATATTAAAATTAAAAATAAATGTACAATTTT
88338 GAGATAATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
34 32 0.51
36 2 0.03
38 29 0.46
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (38 bp):
TAAAAATATTAAAATTAAAAATAAATGTACAATTTTTC
Found at i:95517 original size:16 final size:17
Alignment explanation
Indices: 95491--95524 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
95481 ATTCTCACAA
95491 ACCACTATTAACTCAGC
1 ACCACTATTAACTCAGC
95508 ACCA-TATTAACTCAGC
1 ACCACTATTAACTCAGC
95524 A
1 A
95525 GGCAGCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.38, C:0.32, G:0.06, T:0.24
Consensus pattern (17 bp):
ACCACTATTAACTCAGC
Found at i:98504 original size:29 final size:28
Alignment explanation
Indices: 98471--98528 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
98461 AGTAATTTAA
* *
98471 TTCTTTTATGATTTAAGTTTTTTTTTCAT
1 TTCTTTT-GGATTTAAGTTTGTTTTTCAT
*
98500 TTCTTTTGGTTTTAAGTTTGTTTTTCAT
1 TTCTTTTGGATTTAAGTTTGTTTTTCAT
98528 T
1 T
98529 AAATTTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.14, C:0.07, G:0.10, T:0.69
Consensus pattern (28 bp):
TTCTTTTGGATTTAAGTTTGTTTTTCAT
Found at i:98535 original size:28 final size:28
Alignment explanation
Indices: 98482--98535 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
98472 TCTTTTATGA
* ***
98482 TTTAAGTTTTTTTTTCATTTCTTTTGGT
1 TTTAAGTTTGTTTTTCATTAAATTTGGT
98510 TTTAAGTTTGTTTTTCATTAAATTTG
1 TTTAAGTTTGTTTTTCATTAAATTTG
98536 AATATGTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (28 bp):
TTTAAGTTTGTTTTTCATTAAATTTGGT
Found at i:104971 original size:26 final size:27
Alignment explanation
Indices: 104934--104993 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
104924 TCTGAAACGA
104934 AAAATC-AGCAGCCCAACTGTCTTGCC
1 AAAATCGAGCAGCCCAACTGTCTTGCC
**
104960 AAAATCGA-CAGCCCAGTTGTCTTGCC
1 AAAATCGAGCAGCCCAACTGTCTTGCC
104986 AAAATCGA
1 AAAATCGA
104994 ACATGCTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (27 bp):
AAAATCGAGCAGCCCAACTGTCTTGCC
Found at i:113068 original size:31 final size:31
Alignment explanation
Indices: 113030--113107 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
113020 AGAGTCGAGG
113030 GTTTACCTATGTCTTTCGAGACATATGGACA
1 GTTTACCTATGTCTTTCGAGACATATGGACA
* * *
113061 GTTTACCTAGGT-TCTTCGGGACCTATGGACA
1 GTTTACCTATGTCT-TTCGAGACATATGGACA
*
113092 G-TTACCGATGATCTTT
1 GTTTACCTATG-TCTTT
113108 ATGACCTCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 8 0.21
31 30 0.77
32 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTCTTTCGAGACATATGGACA
Found at i:113175 original size:29 final size:30
Alignment explanation
Indices: 113080--113181 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
113070 GGTTCTTCGG
* * *
113080 GACCTATGGACAGTTACCGATGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
113110 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* *
113140 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
113169 GACCTCTGGATAG
1 GACCTCTGGATAG
113182 GTCCTTCGGG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 21 0.31
30 46 0.69
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:113493 original size:2 final size:2
Alignment explanation
Indices: 113446--113485 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
113436 GTATGAGTGG
113446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113486 GAATATATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120794 original size:2 final size:2
Alignment explanation
Indices: 120787--120820 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
120777 TAACCAATGT
120787 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120821 CACATTAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123393 original size:2 final size:2
Alignment explanation
Indices: 123386--123410 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
123376 AGAAAAAGAC
123386 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
123411 CTGGGAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:128188 original size:15 final size:15
Alignment explanation
Indices: 128170--128202 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
128160 ATCAACAGAT
128170 ATAATTTTTATATAA
1 ATAATTTTTATATAA
*
128185 ATAATTTTTATTTAA
1 ATAATTTTTATATAA
128200 ATA
1 ATA
128203 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTTTTATATAA
Found at i:129143 original size:60 final size:59
Alignment explanation
Indices: 129078--129231 Score: 177
Period size: 60 Copynumber: 2.6 Consensus size: 59
129068 AAATAGGCGT
* * * *
129078 CTAAACTTTTAAACATTCTAATGTCATCTTTAAATTATGATTATCATTCTAAATTTGTC
1 CTAAACTTTTAAACATTCTAATGTCATCCTCAAATTATAATTATCATTCTAAATTAGTC
* * * *
129137 CTTAAACTTTTGAACATTCTAATTTCATCCTCAAATTATAATTCTTATTCTAAATTAGTC
1 C-TAAACTTTTAAACATTCTAATGTCATCCTCAAATTATAATTATCATTCTAAATTAGTC
* *
129197 CTAAACCTTTTAAATC-TTCCAATTTCATCC-CAAAT
1 CTAAA-CTTTTAAA-CATTCTAATGTCATCCTCAAAT
129232 CCATCCAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
59 10 0.12
60 71 0.87
61 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (59 bp):
CTAAACTTTTAAACATTCTAATGTCATCCTCAAATTATAATTATCATTCTAAATTAGTC
Found at i:129167 original size:29 final size:29
Alignment explanation
Indices: 129079--129167 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 29
129069 AATAGGCGTC
* * *
129079 TAAACTTTTAAACATTCTAATGTCATCTT
1 TAAACTTTTGAACATTCTAATTTCATCCT
* *
129108 TAAA-TTATGATTATCATTCTAAATTT-GTCCT
1 TAAACTTTTGA--A-CATTCT-AATTTCATCCT
129139 TAAACTTTTGAACATTCTAATTTCATCCT
1 TAAACTTTTGAACATTCTAATTTCATCCT
129168 CAAATTATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
28 9 0.19
29 14 0.30
30 2 0.04
31 13 0.28
32 9 0.19
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (29 bp):
TAAACTTTTGAACATTCTAATTTCATCCT
Found at i:135129 original size:22 final size:22
Alignment explanation
Indices: 135101--135155 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
135091 AAGTATACTT
135101 TGATATTTTAATTTTTTATTAG
1 TGATATTTTAATTTTTTATTAG
*
135123 TGATATTTTAGTTTTTTATTAG
1 TGATATTTTAATTTTTTATTAG
135145 TGATATTTTAA
1 TGATATTTTAA
135156 ATCTGATTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (22 bp):
TGATATTTTAATTTTTTATTAG
Found at i:143956 original size:16 final size:16
Alignment explanation
Indices: 143935--143971 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
143925 AGGGATGAAC
143935 GTATAAAATTTTAGAG
1 GTATAAAATTTTAGAG
143951 GTATAAAATTTTAGAG
1 GTATAAAATTTTAGAG
143967 G-ATAA
1 GTATAA
143972 CGAGTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (16 bp):
GTATAAAATTTTAGAG
Found at i:158575 original size:42 final size:42
Alignment explanation
Indices: 158513--158607 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
158503 CTTCTTTGAA
*
158513 TTCTCGTGTTTGTTTCACGTAATTCATTTTTTGGAAAATGTT
1 TTCTCGTGTTTGTTTCACGTAATTCATTTTTCGGAAAATGTT
* *
158555 TTCTCGTGTTTGTTTTACGTAATTTATTTTTCGGAAAATGTT
1 TTCTCGTGTTTGTTTCACGTAATTCATTTTTCGGAAAATGTT
158597 TT-TCCGTGTTT
1 TTCT-CGTGTTT
158608 ATTCACGCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.55
Consensus pattern (42 bp):
TTCTCGTGTTTGTTTCACGTAATTCATTTTTCGGAAAATGTT
Found at i:158844 original size:16 final size:16
Alignment explanation
Indices: 158804--158853 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
158794 ATTAATATAA
*
158804 ATATAATAATTAA-AT
1 ATATAATAAATAATAT
158819 -TAT-ATAAAATAATAT
1 ATATAAT-AAATAATAT
158834 ATATAATAAATAATAT
1 ATATAATAAATAATAT
158850 ATAT
1 ATAT
158854 TTGTAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 8 0.27
15 2 0.07
16 16 0.53
17 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATAAATAATAT
Found at i:158866 original size:30 final size:29
Alignment explanation
Indices: 158828--158884 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
158818 TTATATAAAA
* *
158828 TAATATATATAATAAATAATATATATTTG
1 TAATATATAAAAAAAATAATATATATTTG
**
158857 TAATAATATAAAAAAAATTTTATATATT
1 TAAT-ATATAAAAAAAATAATATATATT
158885 AATAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
TAATATATAAAAAAAATAATATATATTTG
Found at i:158895 original size:22 final size:22
Alignment explanation
Indices: 158864--158922 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
158854 TTGTAATAAT
*
158864 ATAAAAAAAATTTTATATATTA
1 ATAAATAAAATTTTATATATTA
* * *
158886 ATAATTAAAATATTATATATTT
1 ATAAATAAAATTTTATATATTA
*
158908 ATAAATAATATTTTA
1 ATAAATAAAATTTTA
158923 AAAAGATATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAATAAAATTTTATATATTA
Found at i:158973 original size:29 final size:30
Alignment explanation
Indices: 158907--158965 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
158897 ATTATATATT
* *
158907 TATAAATAATATTTTAAAAAGATATTTAAA
1 TATAATTAATATTTTAAAAAGATATATAAA
158937 TATAATTAATATTTTAAAAAGATATATAA
1 TATAATTAATATTTTAAAAAGATATATAA
158966 TACTATTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (30 bp):
TATAATTAATATTTTAAAAAGATATATAAA
Found at i:159322 original size:15 final size:15
Alignment explanation
Indices: 159281--159325 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
159271 TTTCAGAAAA
*
159281 TAATTCATTTTCTAG
1 TAATTCATTTTCCAG
**
159296 -AATTCAAATTCCAG
1 TAATTCATTTTCCAG
159310 TAATTCATTTTCCAG
1 TAATTCATTTTCCAG
159325 T
1 T
159326 TCCAGTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (15 bp):
TAATTCATTTTCCAG
Found at i:159330 original size:21 final size:21
Alignment explanation
Indices: 159304--159346 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
159294 AGAATTCAAA
**
159304 TTCCAGTAATTCATTTTCCAG
1 TTCCAGTAATTCAAATTCCAG
159325 TTCCAGTAATTCAAATTCCAG
1 TTCCAGTAATTCAAATTCCAG
159346 T
1 T
159347 AATTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (21 bp):
TTCCAGTAATTCAAATTCCAG
Found at i:159580 original size:22 final size:21
Alignment explanation
Indices: 159554--159604 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
159544 ATGAATACCA
159554 TATAATAAATAATAATTATTAT
1 TATAATAAATAA-AATTATTAT
*
159576 TATAA-AAATTAAATTATTAT
1 TATAATAAATAAAATTATTAT
*
159596 T-TTATAAAT
1 TATAATAAAT
159605 TATATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 14 0.54
21 5 0.19
22 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAATAAATAAAATTATTAT
Found at i:159592 original size:20 final size:20
Alignment explanation
Indices: 159567--159611 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
159557 AATAAATAAT
159567 AATTATTATTATAAAAATTA
1 AATTATTATTATAAAAATTA
* *
159587 AATTATTATTTTATAAATTA
1 AATTATTATTATAAAAATTA
*
159607 TATTA
1 AATTA
159612 ATTTAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTATTATTATAAAAATTA
Found at i:159755 original size:21 final size:18
Alignment explanation
Indices: 159716--159764 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
159706 TTATATTACT
*
159716 TATTTATTAAAGAGAAAA
1 TATTTATTAAAAAGAAAA
159734 TATATTATTAAAAAGTATAAA
1 TAT-TTATTAAAAAG-A-AAA
159755 TATTT-TTAAA
1 TATTTATTAAA
159765 TGTTTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 15 0.56
20 3 0.11
21 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
TATTTATTAAAAAGAAAA
Done.