Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006061.1 Hibiscus syriacus cultivar Beakdansim tig00014338_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: 41459
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:2520 original size:21 final size:21
Alignment explanation
Indices: 2492--2546 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
2482 ACCGTGATTG
2492 CGGCCGTCGCGGGCGCTATTA
1 CGGCCGTCGCGGGCGCTATTA
* * *
2513 CGGTCGTCGCGGACGCTATTG
1 CGGCCGTCGCGGGCGCTATTA
2534 CGGCCGTCGCGGG
1 CGGCCGTCGCGGG
2547 TAACTCGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.07, C:0.33, G:0.42, T:0.18
Consensus pattern (21 bp):
CGGCCGTCGCGGGCGCTATTA
Found at i:4240 original size:18 final size:18
Alignment explanation
Indices: 4214--4275 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
4204 AAGCTTTTAG
* *
4214 AGAGTTCTACACTTCTCT
1 AGAGTTCTATATTTCTCT
*
4232 AGTGTTCTATATTTCTCT
1 AGAGTTCTATATTTCTCT
4250 AGAGTTCTATATTTCTCT
1 AGAGTTCTATATTTCTCT
4268 AGAGTTCT
1 AGAGTTCT
4276 TTGGAATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (18 bp):
AGAGTTCTATATTTCTCT
Found at i:8860 original size:10 final size:10
Alignment explanation
Indices: 8835--8875 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
8825 GAAACTCTAC
8835 ACTCTTCCACT
1 ACTCTTCCA-T
8846 -CTCTTCCAT
1 ACTCTTCCAT
*
8855 ATTCTTCCAT
1 ACTCTTCCAT
8865 ACTCTTCCAT
1 ACTCTTCCAT
8875 A
1 A
8876 AGGTTCCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 1 0.04
10 26 0.96
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (10 bp):
ACTCTTCCAT
Found at i:9226 original size:43 final size:43
Alignment explanation
Indices: 9165--9248 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
9155 ACATACTACT
9165 ATTTTCATTTGCATACACCAATCCCAATGACAAATAAGAAACC
1 ATTTTCATTTGCATACACCAATCCCAATGACAAATAAGAAACC
*
9208 ATTTTCATTTGCATACACCAATCCCAATGACAAATAGGAAA
1 ATTTTCATTTGCATACACCAATCCCAATGACAAATAAGAAA
9249 TGGCAAATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (43 bp):
ATTTTCATTTGCATACACCAATCCCAATGACAAATAAGAAACC
Found at i:9473 original size:21 final size:21
Alignment explanation
Indices: 9445--9490 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9435 TTTCTATCGT
*
9445 TGAC-CTTTAAAATGTTGATG
1 TGACACTTTAAAATGTTGACG
**
9465 TGACACTTTATGATGTTGACG
1 TGACACTTTAAAATGTTGACG
9486 TGACA
1 TGACA
9491 ATCCACAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (21 bp):
TGACACTTTAAAATGTTGACG
Found at i:9886 original size:18 final size:18
Alignment explanation
Indices: 9863--9901 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9853 AGCCTAAAAC
9863 TTAAAATTTA-ATATAGAA
1 TTAAAATTTATATATA-AA
9881 TTAAAATTTATATATAAA
1 TTAAAATTTATATATAAA
9899 TTA
1 TTA
9902 TCATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTAAAATTTATATATAAA
Found at i:10194 original size:2 final size:2
Alignment explanation
Indices: 10187--10218 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10177 ACTTCAGTTA
10187 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
10219 TTTAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11232 original size:13 final size:14
Alignment explanation
Indices: 11214--11245 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
11204 AGGAGATGAC
11214 GATGAAGGAA-GGG
1 GATGAAGGAAGGGG
11227 GATGAAGGAAGGGG
1 GATGAAGGAAGGGG
11241 GATGA
1 GATGA
11246 TCACGATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.53, T:0.09
Consensus pattern (14 bp):
GATGAAGGAAGGGG
Found at i:12224 original size:12 final size:12
Alignment explanation
Indices: 12207--12250 Score: 88
Period size: 12 Copynumber: 3.7 Consensus size: 12
12197 CAATCCAGGC
12207 GACATACGGGGT
1 GACATACGGGGT
12219 GACATACGGGGT
1 GACATACGGGGT
12231 GACATACGGGGT
1 GACATACGGGGT
12243 GACATACG
1 GACATACG
12251 AGCCATACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.39, T:0.16
Consensus pattern (12 bp):
GACATACGGGGT
Found at i:12290 original size:13 final size:13
Alignment explanation
Indices: 12272--12297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12262 CCAATGGGGA
12272 GAGGTCGCCATGC
1 GAGGTCGCCATGC
12285 GAGGTCGCCATGC
1 GAGGTCGCCATGC
12298 AGTCCTATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
GAGGTCGCCATGC
Found at i:12369 original size:29 final size:29
Alignment explanation
Indices: 12319--12398 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
12309 AGGAATAGAG
* *
12319 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
12348 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
12377 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
12399 CCATTCCCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 46 0.96
30 2 0.04
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:12614 original size:25 final size:25
Alignment explanation
Indices: 12585--12636 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
12575 TGTACAATTA
12585 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTGAGGCAGCCGG
12610 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTGAGGCAGCCGG
12635 TT
1 TT
12637 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.27
Consensus pattern (25 bp):
TTGGTGAAATAATTGAGGCAGCCGG
Found at i:12677 original size:23 final size:23
Alignment explanation
Indices: 12649--12694 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12639 AAAAGAAAGA
12649 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
12672 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
12695 CCGAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.39, T:0.09
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:12709 original size:25 final size:23
Alignment explanation
Indices: 12649--12709 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
12639 AAAAGAAAGA
**
12649 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
**
12672 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
*
12695 CCGAGAAAGAAAGAA
1 --AAGAAAGAAAGAA
12710 AGGGAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.70
25 10 0.30
ACGTcount: A:0.51, C:0.07, G:0.36, T:0.07
Consensus pattern (23 bp):
AAGAAAGAAAGAAGAGATTGCAG
Found at i:12723 original size:21 final size:21
Alignment explanation
Indices: 12699--12751 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
12689 TTGCAGCCGA
12699 GAAAGAAAGAAAGGGAGAAAG
1 GAAAGAAAGAAAGGGAGAAAG
12720 GAAAGAAAGAAAGGGAGAAAG
1 GAAAGAAAGAAAGGGAGAAAG
*
12741 GAAAGTAAGAA
1 GAAAGAAAGAA
12752 GAAGAAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (21 bp):
GAAAGAAAGAAAGGGAGAAAG
Found at i:12745 original size:17 final size:16
Alignment explanation
Indices: 12697--12728 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12687 GATTGCAGCC
12697 GAGAAAGAAAGAAAGG
1 GAGAAAGAAAGAAAGG
12713 GAGAAAGGAAAGAAAG
1 GAGAAA-GAAAGAAAG
12729 AAAGGGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAGAAAGAAAGAAAGG
Found at i:12956 original size:41 final size:41
Alignment explanation
Indices: 12910--13019 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 41
12900 GTATACATAA
12910 ATTAAAAATTATTTAATTAGTATATG-TTTG-ATAGTTA-TAT
1 ATTAAAAATTATTTAATTAGT-T-TGTTTTGTATAGTTAGTAT
* *
12950 AGTTAAAAAATAATTAATTAGTTTGTTTTGTTAATAGTTAGTTAT
1 A-TTAAAAATTATTTAATTAGTTTGTTTTG-T-ATAGTTAG-TAT
*
12995 ATAAAAAATTATTTAATTAGTTTGT
1 ATTAAAAATTATTTAATTAGTTTGT
13020 GTTAGTTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 2 0.03
40 6 0.10
41 18 0.31
43 7 0.12
44 21 0.36
45 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (41 bp):
ATTAAAAATTATTTAATTAGTTTGTTTTGTATAGTTAGTAT
Found at i:13016 original size:44 final size:46
Alignment explanation
Indices: 12953--13043 Score: 134
Period size: 44 Copynumber: 2.0 Consensus size: 46
12943 GTTATATAGT
*
12953 TAAAAAATAATTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATA
1 TAAAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATA
*
12996 TAAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATA
1 TAAAAAA-TAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATA
13043 T
1 T
13044 TTGTTTGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 7 0.17
44 15 0.36
45 5 0.12
46 7 0.17
47 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (46 bp):
TAAAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATA
Found at i:13120 original size:32 final size:33
Alignment explanation
Indices: 13084--13160 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
13074 TTAGTTAGTA
13084 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
13116 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
13150 ATTTTATTAGT
1 AGTTTATTAGT
13161 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:13238 original size:16 final size:16
Alignment explanation
Indices: 13206--13252 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
13196 TTTAAAAAGT
*
13206 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
13222 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
13238 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
13253 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:13247 original size:15 final size:14
Alignment explanation
Indices: 13227--13257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
13217 GTTTATTAGT
13227 TTATTATATTATAAG
1 TTATTATATTA-AAG
13242 TTATTATATTAAAG
1 TTATTATATTAAAG
13256 TT
1 TT
13258 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:15427 original size:17 final size:17
Alignment explanation
Indices: 15405--15437 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15395 CAATGATTTT
*
15405 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
15422 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
15438 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:15454 original size:24 final size:22
Alignment explanation
Indices: 15422--15490 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
15412 AAATCATTAC
15422 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
15444 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
15469 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
15491 AACAATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:15666 original size:14 final size:14
Alignment explanation
Indices: 15647--15686 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
15637 TAGTAATAAT
15647 TATTAAATCATTAG
1 TATTAAATCATTAG
*
15661 TATTAAATCATTAT
1 TATTAAATCATTAG
*
15675 TA-TAAATAATTA
1 TATTAAATCATTA
15687 CTAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:15703 original size:49 final size:48
Alignment explanation
Indices: 15628--15734 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
15618 GTTAGTATTC
* * * * * *
15628 TATAATTATTAGT-AATAATTATTAAATCATTAGTATTAAATCATTAT
1 TATAATAATTACTAAATAATAACTAAATAATTAGTATAAAATCATTAT
*
15675 TATAAATAATTACTAAATAATAACTAAATAATTATTATAAAATCATTAT
1 TAT-AATAATTACTAAATAATAACTAAATAATTAGTATAAAATCATTAT
15724 TATAATAATTA
1 TATAATAATTA
15735 TTATCAAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 3 0.06
48 16 0.31
49 32 0.63
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (48 bp):
TATAATAATTACTAAATAATAACTAAATAATTAGTATAAAATCATTAT
Found at i:15710 original size:35 final size:37
Alignment explanation
Indices: 15629--15715 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
15619 TTAGTATTCT
* * *
15629 ATAATTATTAGT-AATAATTATTAAATCATTAGTATTAA
1 ATAATTATTA-TAAATAATTACTAAATCAATAG-ACTAA
*
15667 ATCATTATTATAAATAATTACTAAAT-AATA-ACTAA
1 ATAATTATTATAAATAATTACTAAATCAATAGACTAA
15702 ATAATTATTATAAA
1 ATAATTATTATAAA
15716 ATCATTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (37 bp):
ATAATTATTATAAATAATTACTAAATCAATAGACTAA
Found at i:15743 original size:26 final size:26
Alignment explanation
Indices: 15645--16120 Score: 347
Period size: 26 Copynumber: 19.2 Consensus size: 26
15635 ATTAGTAATA
* * *
15645 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
15670 ATTATTATAA--ATAATTA-CTAAATA
1 ATTATTATAATGATTATTATC-AAATC
* * * *
15694 ATAACTA-AATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
*
15719 ATTATTATAATAATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
15745 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
15768 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
15791 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
15817 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
15843 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
15869 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
15892 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
15915 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
15941 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
15967 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
15993 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
16016 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
16039 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
16065 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
16091 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
16117 ATTA
1 ATTA
16121 CTAAATCATC
Statistics
Matches: 357, Mismatches: 64, Indels: 59
0.74 0.13 0.12
Matches are distributed among these distances:
21 12 0.03
22 6 0.02
23 44 0.12
24 32 0.09
25 40 0.11
26 220 0.62
27 3 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:15869 original size:124 final size:124
Alignment explanation
Indices: 15661--16178 Score: 925
Period size: 124 Copynumber: 4.2 Consensus size: 124
15651 AAATCATTAG
* * * * * * *
15661 TATTAAATCATTATTATAA--ATAATTACTAAATAATAACTA-AATAATTATTATAAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
* *
15723 TTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
15782 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
15847 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
15906 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
15971 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
16030 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
16095 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
*
16154 TATTAAATTATTTTTATAATGATTA
1 TATTAAATCATTTTTATAATGATTA
16179 ATAAATACAT
Statistics
Matches: 384, Mismatches: 10, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
121 18 0.05
123 17 0.04
124 349 0.91
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (124 bp):
TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
Found at i:16121 original size:150 final size:146
Alignment explanation
Indices: 15780--16123 Score: 414
Period size: 150 Copynumber: 2.3 Consensus size: 146
15770 TATTTAAATC
* * *
15780 ATTATTAAATCATTTTTATAATGATTATTA-CTAAATCATTATTATAATGATTATTATCAAATCA
1 ATTATCAAATCATTATTATAATGATTATTATC-AAATCATTACTATAATGATTATTATCAAATCA
* * *
15844 TTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTAT
65 TTACTATAATCATAATCATCAAATCATTA-TAAATCAT---ATCATTAAATATTTAAATCATTAT
*
15909 TAAATCATTTTTATAATGATT
126 TAAATCATTATTATAATGATT
15930 ATTA-CTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCA
1 ATTATC-AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCA
* *
15994 TTACTA-AATCATCAAATCATTAAAT-ATT-TAAATCAT-T-ATTAAATCATTTTTATAATGATT
65 TTACTATAATCAT--AATCATCAAATCATTATAAATCATATCATTAAAT-A--TTTA-AATCATT
16054 ATTACTAAATCATTATTATAATGATT
124 A-T--TAAATCATTATTATAATGATT
*
16080 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTA
1 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTA
16124 AATCATCAAA
Statistics
Matches: 172, Mismatches: 10, Indels: 24
0.83 0.05 0.12
Matches are distributed among these distances:
143 7 0.04
144 2 0.01
146 4 0.02
147 7 0.04
148 9 0.05
149 5 0.03
150 128 0.74
151 10 0.06
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (146 bp):
ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTATAATCATAATCATCAAATCATTATAAATCATATCATTAAATATTTAAATCATTATTAAAT
CATTATTATAATGATT
Found at i:19050 original size:26 final size:24
Alignment explanation
Indices: 18992--19050 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
18982 CTGATAAACC
*
18992 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
19016 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
19044 TAATAAT
1 TAATAAT
19051 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:19831 original size:41 final size:46
Alignment explanation
Indices: 19786--19886 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
19776 GTTTAAAGAC
* *
19786 ACTAACAAATTAATTAA-T-ATTTTTTAT-AT-TTA-ATAACTTAA
1 ACTAACAAACTAATTAACTAATTTTTTATAATATAATATAACTTAA
*
19827 ACTAAGAAACTAATTAACTAATTTTTTATAATATAATATAACTTAA
1 ACTAACAAACTAATTAACTAATTTTTTATAATATAATATAACTTAA
*
19873 ACTAATAAACTAAT
1 ACTAACAAACTAAT
19887 ATATAACTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 15 0.29
42 1 0.02
43 9 0.18
44 2 0.04
45 2 0.04
46 22 0.43
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.41
Consensus pattern (46 bp):
ACTAACAAACTAATTAACTAATTTTTTATAATATAATATAACTTAA
Found at i:19896 original size:25 final size:25
Alignment explanation
Indices: 19862--19932 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
19852 TTATAATATA
*
19862 ATATAACTTAAACTAATAAACTAAT
1 ATATAACTTAAACTAACAAACTAAT
19887 ATATAACTTAAACTAACAAACTAAT
1 ATATAACTTAAACTAACAAACTAAT
*
19912 A-AT---TTATACTAACAAACTAAT
1 ATATAACTTAAACTAACAAACTAAT
19933 TAACTAGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.39
24 2 0.05
25 25 0.57
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (25 bp):
ATATAACTTAAACTAACAAACTAAT
Found at i:19913 original size:21 final size:21
Alignment explanation
Indices: 19864--19937 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
19854 ATAATATAAT
*
19864 ATAACTTAAACTAATAAACTAATA
1 ATAACTTAAACTAACAAAC---TA
19888 TATAACTTAAACTAACAAACTA
1 -ATAACTTAAACTAACAAACTA
* *
19910 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
19931 ATTAACT
1 A-TAACT
19938 AGATTTTAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
21 20 0.45
22 6 0.14
25 18 0.41
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:20471 original size:16 final size:16
Alignment explanation
Indices: 20450--20505 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
20440 CAATGCATAG
20450 CATGCATCCCCTCCCC
1 CATGCATCCCCTCCCC
* * *
20466 CATGCATTCCCACGTCC
1 CATGCATCCCCTC-CCC
20483 CATGCATCCCCTCCCC
1 CATGCATCCCCTCCCC
20499 CATGCAT
1 CATGCAT
20506 TCCCACGTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.16, C:0.54, G:0.09, T:0.21
Consensus pattern (16 bp):
CATGCATCCCCTCCCC
Found at i:20484 original size:17 final size:17
Alignment explanation
Indices: 20464--20519 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 17
20454 CATCCCCTCC
20464 CCCATGCATTCCCACGT
1 CCCATGCATTCCCACGT
* * *
20481 CCCATGCATCCCCTC-C
1 CCCATGCATTCCCACGT
20497 CCCATGCATTCCCACGT
1 CCCATGCATTCCCACGT
20514 CCCATG
1 CCCATG
20520 TTGATTGCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.16, C:0.52, G:0.11, T:0.21
Consensus pattern (17 bp):
CCCATGCATTCCCACGT
Found at i:20487 original size:33 final size:33
Alignment explanation
Indices: 20450--20519 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
20440 CAATGCATAG
20450 CATGCATCCCCTCCCCCATGCATTCCCACGTCC
1 CATGCATCCCCTCCCCCATGCATTCCCACGTCC
20483 CATGCATCCCCTCCCCCATGCATTCCCACGTCC
1 CATGCATCCCCTCCCCCATGCATTCCCACGTCC
20516 CATG
1 CATG
20520 TTGATTGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.16, C:0.53, G:0.10, T:0.21
Consensus pattern (33 bp):
CATGCATCCCCTCCCCCATGCATTCCCACGTCC
Found at i:20601 original size:29 final size:29
Alignment explanation
Indices: 20559--20618 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
20549 AAATACACAC
20559 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
20588 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
20617 AG
1 AG
20619 CCCACTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.32, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:27740 original size:51 final size:51
Alignment explanation
Indices: 27667--27780 Score: 185
Period size: 51 Copynumber: 2.2 Consensus size: 51
27657 AGTATGATGA
* *
27667 TGGTGGTGGCGGTGGATATGGTCCGTC-TAAGGCGGGTGGTTGATGGTAGTT
1 TGGTGGTGGCGGCGGATATGGTCCG-CGAAAGGCGGGTGGTTGATGGTAGTT
27718 TGGTGGTGGCGGCGGATATGGTCCGCGAAAGGCGGGTGGTTGATGGTAGTT
1 TGGTGGTGGCGGCGGATATGGTCCGCGAAAGGCGGGTGGTTGATGGTAGTT
*
27769 TGGTGTTGGCGG
1 TGGTGGTGGCGG
27781 GTAGTGCTGA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.11, C:0.11, G:0.49, T:0.29
Consensus pattern (51 bp):
TGGTGGTGGCGGCGGATATGGTCCGCGAAAGGCGGGTGGTTGATGGTAGTT
Found at i:30286 original size:55 final size:55
Alignment explanation
Indices: 30225--30333 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
30215 TATATTTTTA
30225 TTAACATGCTAAATTATTGTAACTAAATAATAATTCAAGTTTAAAAATAAATTAT
1 TTAACATGCTAAATTATTGTAACTAAATAATAATTCAAGTTTAAAAATAAATTAT
* *
30280 TTAACATGTTAAATTATTGTAATTAAATAATAATTCAAGTTTAAAAATAAATTA
1 TTAACATGCTAAATTATTGTAACTAAATAATAATTCAAGTTTAAAAATAAATTA
30334 GATTTTTGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (55 bp):
TTAACATGCTAAATTATTGTAACTAAATAATAATTCAAGTTTAAAAATAAATTAT
Found at i:33958 original size:51 final size:51
Alignment explanation
Indices: 33877--33983 Score: 151
Period size: 51 Copynumber: 2.1 Consensus size: 51
33867 AGATTGGTGA
* * *
33877 ACATCCTAACATAGTTAGGTTGCATCAGGTATGGGTTGTTTTAAGTATTGT
1 ACATCCTAACATAGTTAGGTTACATCAGGTATGGGTTATTTTAAGTAGTGT
* * * *
33928 ACATCTTAACATAGTTAGGTTACATGAGGTATGTGTTATTTTAATTAGTGT
1 ACATCCTAACATAGTTAGGTTACATCAGGTATGGGTTATTTTAAGTAGTGT
33979 ACATC
1 ACATC
33984 ATACTTTCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (51 bp):
ACATCCTAACATAGTTAGGTTACATCAGGTATGGGTTATTTTAAGTAGTGT
Found at i:35503 original size:21 final size:21
Alignment explanation
Indices: 35476--35551 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
35466 TGATGCATGG
35476 GGTATCGATACCTATATGAAC
1 GGTATCGATACCTATATGAAC
* *
35497 AGTATCGATACC-ATATGGTAC
1 GGTATCGATACCTATAT-GAAC
* * *
35518 TGGTATCGATACCTATGTGGAG
1 -GGTATCGATACCTATATGAAC
35540 GGTATCGATACC
1 GGTATCGATACC
35552 CAGAAAACTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.09
21 26 0.57
22 13 0.28
23 3 0.07
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCTATATGAAC
Found at i:35669 original size:529 final size:527
Alignment explanation
Indices: 34555--36129 Score: 2890
Period size: 529 Copynumber: 3.0 Consensus size: 527
34545 GCAATAAGAT
*
34555 GAGTGAATTAGGAAGGGATTTGTAAAATGAGTTTTAAGATGAATTGTTGATATGGTTTAGTTTTT
1 GAGTGAATTAGGAAGGGATTTGTAAAATGAGTTTTAAGATGAATTGTTGATATGGTTTGGTTTTT
* *
34620 AGAGTTTTGATAAGATTTTTGACTTGTCATAAGAAGGATTAAGAAGTTTAAAGTATTAGAATTGA
66 AGAGTTTTGATAAGATTTTTGACTTTTCATAAGAAGGATTAAGAAGTTTAAAGCATTAGAATTGA
*
34685 ATTTAGAACATACGGAAAGTTTGATGAAATTCTTTGATTCAAGAGTTATAGTGAGATATTGAGGA
131 ATTTAGAACATATGGAAAGTTTGATGAAATTCTTTGATTCAAGAGTTATAGTGAGATATTGAGGA
*
34750 TAATGAAGTATTATAGTGCTTAAAGAGGGTTTATATATGTATATATAAGTTTAAGGCATAAGGAG
196 TAATGAAGTATTATAGTGCTTAAAGAGGGTTTA-ATATGTATATATAAGTTTAAGGCATAAGAAG
34815 AGGTTAAAAAGTAGAATTTAGGGTCAAAGTGTTAAATTTTCAGACTTAAAATGAAAATCTGGGTA
260 AGGTTAAAAAGTAGAATTTAGGGTCAAAGTGTTAAATTTTCAGACTTAAAATGAAAATCTGGGTA
34880 AGGGGTATCGGTACCTGTTGAGTGGGTACCGATGCTACAAGGCTATTTATGAAGAACTGATGCAT
325 AGGGGTATCGGTACCTGTTGAGTGGGTACCGATGCTACAAGGCTATTTATGAAGAACTGATGCAT
* *
34945 GGAGTATCGATACCTATATGAACAGTATCGATACCACATGGTACTGGTATCGATACCTATGTGGA
390 GGGGTATCGATACCTATATGAACAGTATCGATACCATATGGTACTGGTATCGATACCTATGTGGA
*
35010 GGGTATCGATACCCAGAAAACTTTGAAGCTAAATTTGGTAT-GTGTACATGGGTAGGGTATCGAT
455 GGGTATCGATACCCAGAAAACTTTGAAGCTAAATTTGGTATCG-GTACCTGGGTAGGGTATCGAT
35074 ACCTATGTG
519 ACCTATGTG
35083 GAGTGAATTAGGAAGGGATTTGTAAAATGAGTTTTAAGATGAATTGTTGATATGGTTTGGTTTTT
1 GAGTGAATTAGGAAGGGATTTGTAAAATGAGTTTTAAGATGAATTGTTGATATGGTTTGGTTTTT
*
35148 AGGGTTTTGATAAGATTTTTGACTTTTCATAAGAAGGATTAAGAAGTTTAAAGCATTAGAATTGA
66 AGAGTTTTGATAAGATTTTTGACTTTTCATAAGAAGGATTAAGAAGTTTAAAGCATTAGAATTGA
35213 ATTTAGAACATATGGAAAGTTTGATGAAATTCTTTGATTCAAGAGTTATAGTGAGATATTGAGGA
131 ATTTAGAACATATGGAAAGTTTGATGAAATTCTTTGATTCAAGAGTTATAGTGAGATATTGAGGA
*
35278 TAATGAAGTATTATAGTGCTTAAAGAGGGTTTACATATGTATATATAAGTTTAAGGCATAAAAAG
196 TAATGAAGTATTATAGTGCTTAAAGAGGGTTTA-ATATGTATATATAAGTTTAAGGCATAAGAAG
* *
35343 AGGTTAAAAAGTAGAATTTAGGGTCAAAGTGTTAAATTTTTAGACTTAAAAATGAAAATCAGGGT
260 AGGTTAAAAAGTAGAATTTAGGGTCAAAGTGTTAAATTTTCAGACTT-AAAATGAAAATCTGGGT
*
35408 AAGGGGTATCGGTACCTGTTGAGTGGGTACCGATGCTACAAGGCTATTTATAAAGAACTGATGCA
324 AAGGGGTATCGGTACCTGTTGAGTGGGTACCGATGCTACAAGGCTATTTATGAAGAACTGATGCA
35473 TGGGGTATCGATACCTATATGAACAGTATCGATACCATATGGTACTGGTATCGATACCTATGTGG
389 TGGGGTATCGATACCTATATGAACAGTATCGATACCATATGGTACTGGTATCGATACCTATGTGG
35538 AGGGTATCGATACCCAGAAAACTTTGAAGCTAAATTTGGTATCGGTACCTGGGTAGGGTATCGAT
454 AGGGTATCGATACCCAGAAAACTTTGAAGCTAAATTTGGTATCGGTACCTGGGTAGGGTATCGAT
35603 ACCTATGTG
519 ACCTATGTG
*
35612 GAGTGAATTAGGAAGGGATTTGTAAAATGAGTTTTAAGATGAATTGTTGACATGGTTTGGTTTTT
1 GAGTGAATTAGGAAGGGATTTGTAAAATGAGTTTTAAGATGAATTGTTGATATGGTTTGGTTTTT
*
35677 AGAGTTTTGATAAGATTTTTTACTTTTCATAAGAAGGATTAAGAAGTTTAAAGCATTAGAATTGA
66 AGAGTTTTGATAAGATTTTTGACTTTTCATAAGAAGGATTAAGAAGTTTAAAGCATTAGAATTGA
35742 ATTTAGAACATATGGAAAGTTTGATGAAATTCTTTGATTCAAGAGTTATAGTGAGATATTGAGGA
131 ATTTAGAACATATGGAAAGTTTGATGAAATTCTTTGATTCAAGAGTTATAGTGAGATATTGAGGA
*
35807 TAATGAAGTATTATAGTGCTTAAAGAGGGTTT-ATATG--TATATAAGTTTAAGGTATAAGAAGA
196 TAATGAAGTATTATAGTGCTTAAAGAGGGTTTAATATGTATATATAAGTTTAAGGCATAAGAAGA
35869 GGTTAAAAAGTAGAATTTAGGGTCAAAGTGTTAAATTTTCAGACTTAAAATG-AAATCTGGGTAA
261 GGTTAAAAAGTAGAATTTAGGGTCAAAGTGTTAAATTTTCAGACTTAAAATGAAAATCTGGGTAA
* *
35933 GGGGTATCGGTACCTATTGAGTGGGTACCGATGCTACAAGGCTATTTATGAAGAACTGATACATG
326 GGGGTATCGGTACCTGTTGAGTGGGTACCGATGCTACAAGGCTATTTATGAAGAACTGATGCATG
*
35998 GGGTATTGATACCTATATGAACAGTATCGATACCATATGGTACTGGTATCGATACCTATGTGGAG
391 GGGTATCGATACCTATATGAACAGTATCGATACCATATGGTACTGGTATCGATACCTATGTGGAG
* *
36063 GGTATCGATACCCAGAAAACTTTGAAGCTAAATTTGGTATCGGTACCTGGGAAGGGTATCAATAC
456 GGTATCGATACCCAGAAAACTTTGAAGCTAAATTTGGTATCGGTACCTGGGTAGGGTATCGATAC
36128 CT
521 CT
36130 TAGCATAGAG
Statistics
Matches: 1018, Mismatches: 27, Indels: 9
0.97 0.03 0.01
Matches are distributed among these distances:
523 202 0.20
524 6 0.01
525 68 0.07
527 5 0.00
528 298 0.29
529 438 0.43
530 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (527 bp):
GAGTGAATTAGGAAGGGATTTGTAAAATGAGTTTTAAGATGAATTGTTGATATGGTTTGGTTTTT
AGAGTTTTGATAAGATTTTTGACTTTTCATAAGAAGGATTAAGAAGTTTAAAGCATTAGAATTGA
ATTTAGAACATATGGAAAGTTTGATGAAATTCTTTGATTCAAGAGTTATAGTGAGATATTGAGGA
TAATGAAGTATTATAGTGCTTAAAGAGGGTTTAATATGTATATATAAGTTTAAGGCATAAGAAGA
GGTTAAAAAGTAGAATTTAGGGTCAAAGTGTTAAATTTTCAGACTTAAAATGAAAATCTGGGTAA
GGGGTATCGGTACCTGTTGAGTGGGTACCGATGCTACAAGGCTATTTATGAAGAACTGATGCATG
GGGTATCGATACCTATATGAACAGTATCGATACCATATGGTACTGGTATCGATACCTATGTGGAG
GGTATCGATACCCAGAAAACTTTGAAGCTAAATTTGGTATCGGTACCTGGGTAGGGTATCGATAC
CTATGTG
Found at i:36029 original size:21 final size:21
Alignment explanation
Indices: 35999--36074 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
35989 TGATACATGG
*
35999 GGTATTGATACCTATATGAAC
1 GGTATCGATACCTATATGAAC
* *
36020 AGTATCGATACC-ATATGGTAC
1 GGTATCGATACCTATAT-GAAC
* * *
36041 TGGTATCGATACCTATGTGGAG
1 -GGTATCGATACCTATATGAAC
36063 GGTATCGATACC
1 GGTATCGATACC
36075 CAGAAAACTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 4 0.09
21 25 0.56
22 13 0.29
23 3 0.07
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (21 bp):
GGTATCGATACCTATATGAAC
Done.