Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014783.1 Kokia drynarioides strain JFW-HI SEQ_129825, 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: 107143
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 256 characters in sequence are not A, C, G, or T
Found at i:3289 original size:18 final size:19
Alignment explanation
Indices: 3251--3293 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
3241 AAGAGAATTT
3251 AAAAATAAATATAAACTCA
1 AAAAATAAATATAAACTCA
*
3270 AAAAATAAATTTAAAC-CA
1 AAAAATAAATATAAACTCA
3288 AAAAAT
1 AAAAAT
3294 TATTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAATAAATATAAACTCA
Found at i:16734 original size:17 final size:17
Alignment explanation
Indices: 16712--16829 Score: 55
Period size: 17 Copynumber: 6.5 Consensus size: 17
16702 AAATGATTAC
16712 TTTAATATTTATTTTAA
1 TTTAATATTTATTTTAA
16729 TTTAATA-TTATCTTATAA
1 TTTAATATTTAT-TT-TAA
* *
16747 ATAAATATTCTATTAATTTAATAGA
1 TTTAATA---T-TT-ATTT--TA-A
* *
16772 TTTAATATTAAATTTAA
1 TTTAATATTTATTTTAA
*
16789 TTTAATATTTATCTTAA
1 TTTAATATTTATTTTAA
*
16806 --TAAGTA-TTATATTAA
1 TTTAA-TATTTATTTTAA
16821 TTTAATATT
1 TTTAATATT
16830 AAAATGATTA
Statistics
Matches: 77, Mismatches: 10, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
15 11 0.14
16 8 0.10
17 28 0.36
18 10 0.13
20 3 0.04
21 1 0.01
22 1 0.01
23 4 0.05
24 5 0.06
25 6 0.08
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAATATTTATTTTAA
Found at i:16840 original size:58 final size:59
Alignment explanation
Indices: 16715--16847 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 59
16705 TGATTACTTT
* * * *
16715 AATATTTATTTTAATTTAATATTATCTTATAAATAAATATTCTATTAATTTAATAGATTT
1 AATATTAAATTTAATTTAATATTATCTTATAAATAAATATTATATTAATTTAATA-ATTA
*
16775 AATATTAAATTTAATTTAATATTTATC-T-T-AATAAGTATTATATTAATTTAAT-ATTAA
1 AATATTAAATTTAATTTAATA-TTATCTTATAAATAAATATTATATTAATTTAATAATT-A
*
16832 AATGATTAAGTTTAAT
1 AAT-ATTAAATTTAAT
16848 CATAGTTGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
56 3 0.05
57 3 0.05
58 32 0.50
59 1 0.02
60 20 0.31
61 5 0.08
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (59 bp):
AATATTAAATTTAATTTAATATTATCTTATAAATAAATATTATATTAATTTAATAATTA
Found at i:21456 original size:30 final size:30
Alignment explanation
Indices: 21422--21478 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
21412 TATAACTTTC
21422 ATAGTTGGGTGACCAAAAATA-AATTTAATA
1 ATAGTTGGGTGACCAAAAA-AGAATTTAATA
21452 ATAGTTGGGTGACCAAAAAAGAATTTA
1 ATAGTTGGGTGACCAAAAAAGAATTTA
21479 CTACCAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (30 bp):
ATAGTTGGGTGACCAAAAAAGAATTTAATA
Found at i:32918 original size:2 final size:2
Alignment explanation
Indices: 32911--32940 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32901 ATTTGTTCCA
32911 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
32941 GTTTAGTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38730 original size:23 final size:23
Alignment explanation
Indices: 38703--38746 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38693 GACATGAATT
*
38703 TTAAAATCTGAGAAATAAAAGAA
1 TTAAAATCTGAAAAATAAAAGAA
* *
38726 TTAAATTCTTAAAAATAAAAG
1 TTAAAATCTGAAAAATAAAAG
38747 TATAGGGACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (23 bp):
TTAAAATCTGAAAAATAAAAGAA
Found at i:41233 original size:22 final size:22
Alignment explanation
Indices: 41198--41254 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
41188 AATTTAATAA
*
41198 TTATTA-TTTCAAAAAATAATT
1 TTATTATTTTTAAAAAATAATT
*
41219 TTA-TATTTTTAAAAAGTAATT
1 TTATTATTTTTAAAAAATAATT
*
41240 TTATTAATTTTAAAA
1 TTATTATTTTTAAAA
41255 TCATTTGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 19 0.61
22 10 0.32
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TTATTATTTTTAAAAAATAATT
Found at i:46005 original size:7 final size:7
Alignment explanation
Indices: 45993--46023 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
45983 CCCTCTTTTC
45993 TTTTATT
1 TTTTATT
46000 TTTTATT
1 TTTTATT
46007 TTTTATT
1 TTTTATT
46014 TTTTATT
1 TTTTATT
46021 TTT
1 TTT
46024 GCACTTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:46254 original size:126 final size:124
Alignment explanation
Indices: 46120--46767 Score: 789
Period size: 126 Copynumber: 5.1 Consensus size: 124
46110 CTTTTTTTCT
** * *
46120 ATATTAGTATAGTTTATTTTTGCACCTTAACGTTTCCGAACTAAGAACCCGACAGTAGCAAGGGA
1 ATATTAGTATAGTTTATTTTTGCA-CTCCACGTTGCCGAACTAAGAACCCGA-AGTAGTAAGGGA
* *
46185 AGGAAGTTTTAACTTAGGTCGGGAATCTCCCTTTCCCTCTCATTTTATTTTCGA-TTTTTGG
64 AGGAAGTTTTAACTTAGGTCAGGAATCTCCCTTTCCCTCGCATTTTATTTTC-ATTTTTTGG
* * *
46246 ATATTAGTATAGTGTATTTTCGCACTCCACTGTTGCCGAACTAAAAACCCGAAGGTAGTAAGGGA
1 ATATTAGTATAGTTTATTTTTGCACTCCAC-GTTGCCGAACTAAGAACCCGAA-GTAGTAAGGGA
* * * *
46311 AGGAAGTTTTACCTTTGGTCAGGAATCTCCCTTTCCCTCCCATTTTATTTTCTTTCTTTTTTGG
64 AGGAAGTTTTAACTTAGGTCAGGAATCTCCCTTTCCCTCGCATTTTATTTTC---ATTTTTTGG
* * * *
46375 ATATTAGTAT-GTTTTATTTTTGCACTCCATTGTTGCCAAACTAAGATCCCGAAAGTAATAAGGG
1 ATATTAGTATAG-TTTATTTTTGCACTCCA-CGTTGCCGAACTAAGAACCCG-AAGTAGTAAGGG
* * * *
46439 AAGGAAGTTTTAACTCAGGTCAGGAATATCTCTTTCCCTCTCATTTTATTTTCATTTTTTGG
63 AAGGAAGTTTTAACTTAGGTCAGGAATCTCCCTTTCCCTCGCATTTTATTTTCATTTTTTGG
* * *
46501 ATATTAGTATAGTGTATTTTTGCACTCCACTATTGCCGAACTAAGAACCCGAAGATAGTAAGGTA
1 ATATTAGTATAGTTTATTTTTGCACTCCAC-GTTGCCGAACTAAGAACCCGAAG-TAGTAAGGGA
* * * * *
46566 AAGAAGTTTTAACTCAGGTCA-AAATTTCCTTTTTCCCTCGCATTTTATTTTCATTTTTTGG
64 AGGAAGTTTTAACTTAGGTCAGGAATCTCC-CTTTCCCTCGCATTTTATTTTCATTTTTTGG
* * *
46627 ATATTAGTATAGTTTATTTTTGCACTCCACTGTTGCCGAATTACGAACCCGAAGGTAGTAAGGCA
1 ATATTAGTATAGTTTATTTTTGCACTCCAC-GTTGCCGAACTAAGAACCCGAA-GTAGTAAGGGA
* * ** *
46692 AAGAAGTTTTAACTTAGGTCAGAAATCTCTTTTTCCTTCGCATTTTATTTTCATTTTTTGG
64 AGGAAGTTTTAACTTAGGTCAGGAATCTCCCTTTCCCTCGCATTTTATTTTCATTTTTTGG
*
46753 ATATTAGTTTAGTTT
1 ATATTAGTATAGTTT
46768 GGAAACAAAG
Statistics
Matches: 458, Mismatches: 50, Indels: 28
0.85 0.09 0.05
Matches are distributed among these distances:
125 13 0.03
126 329 0.72
127 8 0.02
128 1 0.00
129 105 0.23
130 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (124 bp):
ATATTAGTATAGTTTATTTTTGCACTCCACGTTGCCGAACTAAGAACCCGAAGTAGTAAGGGAAG
GAAGTTTTAACTTAGGTCAGGAATCTCCCTTTCCCTCGCATTTTATTTTCATTTTTTGG
Found at i:46574 original size:255 final size:252
Alignment explanation
Indices: 46120--46765 Score: 859
Period size: 255 Copynumber: 2.6 Consensus size: 252
46110 CTTTTTTTCT
** * * * *
46120 ATATTAGTATAGTTTATTTTTGCACCTTAAC-GTTTCCGAACTAAGAACCCGACAGTAGCAAGGG
1 ATATTAGTATAGTTTATTTTTGCA-CTCCACTGTTGCCAAACTAAGAACCCGAAAGTAGTAAGGG
* *
46184 AAGGAAGTTTTAACTTAGGTCGGGAATCTCCCTTTCCCTCTCATTTTATTTTCGA-TTTTTGGAT
65 AAGGAAGTTTTAACTTAGGTCAGGAATCTCTCTTTCCCTCTCATTTTATTTTC-ATTTTTTGGAT
* * *
46248 ATTAGTATAGTGTATTTTCGCACTCCACTGTTGCCGAACTAAAAACCCGAAGGTAGTAAGGGAAG
129 ATTAGTATAGTGTATTTTCGCACTCCACTATTGCCGAACTAAAAACCCGAAGATAGTAAGGGAAA
* ** * *
46313 GAAGTTTTACCTTTGGTCAGGAATCTCC-CTTTCCCTCCCATTTTATTTTCTTTCTTTTTTGG
194 GAAGTTTTAACTCAGGTCA-AAATCTCCTCTTTCCCTCCCATTTTATTTTC---ATTTTTTGG
* * *
46375 ATATTAGTAT-GTTTTATTTTTGCACTCCATTGTTGCCAAACTAAGATCCCGAAAGTAATAAGGG
1 ATATTAGTATAG-TTTATTTTTGCACTCCACTGTTGCCAAACTAAGAACCCGAAAGTAGTAAGGG
* *
46439 AAGGAAGTTTTAACTCAGGTCAGGAATATCTCTTTCCCTCTCATTTTATTTTCATTTTTTGGATA
65 AAGGAAGTTTTAACTTAGGTCAGGAATCTCTCTTTCCCTCTCATTTTATTTTCATTTTTTGGATA
* * *
46504 TTAGTATAGTGTATTTTTGCACTCCACTATTGCCGAACTAAGAACCCGAAGATAGTAAGGTAAAG
130 TTAGTATAGTGTATTTTCGCACTCCACTATTGCCGAACTAAAAACCCGAAGATAGTAAGGGAAAG
* * *
46569 AAGTTTTAACTCAGGTCAAAATTTCCTTTTTCCCTCGCATTTTATTTTCATTTTTTGG
195 AAGTTTTAACTCAGGTCAAAATCTCCTCTTTCCCTCCCATTTTATTTTCATTTTTTGG
* * * * *
46627 ATATTAGTATAGTTTATTTTTGCACTCCACTGTTGCCGAATTACGAACCCGAAGGTAGTAAGGCA
1 ATATTAGTATAGTTTATTTTTGCACTCCACTGTTGCCAAACTAAGAACCCGAAAGTAGTAAGGGA
* * * * *
46692 AAGAAGTTTTAACTTAGGTCAGAAATCTCTTTTTCCTTCGCATTTTATTTTCATTTTTTGGATAT
66 AGGAAGTTTTAACTTAGGTCAGGAATCTCTCTTTCCCTCTCATTTTATTTTCATTTTTTGGATAT
*
46757 TAGTTTAGT
131 TAGTATAGT
46766 TTGGAAACAA
Statistics
Matches: 343, Mismatches: 43, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
252 129 0.38
253 1 0.00
254 11 0.03
255 202 0.59
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (252 bp):
ATATTAGTATAGTTTATTTTTGCACTCCACTGTTGCCAAACTAAGAACCCGAAAGTAGTAAGGGA
AGGAAGTTTTAACTTAGGTCAGGAATCTCTCTTTCCCTCTCATTTTATTTTCATTTTTTGGATAT
TAGTATAGTGTATTTTCGCACTCCACTATTGCCGAACTAAAAACCCGAAGATAGTAAGGGAAAGA
AGTTTTAACTCAGGTCAAAATCTCCTCTTTCCCTCCCATTTTATTTTCATTTTTTGG
Found at i:49891 original size:20 final size:20
Alignment explanation
Indices: 49866--49919 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
49856 AGTATCTAAG
49866 AAATTAATAGATTAATTAAA
1 AAATTAATAGATTAATTAAA
* **
49886 AAATTATTAG-TT-ATTATC
1 AAATTAATAGATTAATTAAA
49904 AAATTAATAGTATTAA
1 AAATTAATAG-ATTAA
49920 GTAGGAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 11 0.41
21 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (20 bp):
AAATTAATAGATTAATTAAA
Found at i:51202 original size:31 final size:29
Alignment explanation
Indices: 51127--51202 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
51117 ATACATAGTT
* * *
51127 AAAATTTCATGTATATAATTACACAAAATT
1 AAAA-TTCATGTATAAAATTAAACAAAATC
*
51157 AAAGTTCATGTATAAAATTAAACATTAAATC
1 AAAATTCATGTATAAAATTAAACA--AAATC
*
51188 AAAATTCATATATAA
1 AAAATTCATGTATAA
51203 TTTTGAGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 18 0.47
30 3 0.08
31 17 0.45
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATTCATGTATAAAATTAAACAAAATC
Found at i:64222 original size:28 final size:28
Alignment explanation
Indices: 64186--64258 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
64176 AATTTTATTT
* *
64186 TTTTTAATTTTTAAATAATTAAATTAT-A
1 TTTTTAATTTTAAAAGAATTAAATT-TGA
*
64214 TTTTTAATTTTAAAAGAGTTAAATTTGA
1 TTTTTAATTTTAAAAGAATTAAATTTGA
*
64242 TTTTTAA-ATTAAAAGAA
1 TTTTTAATTTTAAAAGAA
64259 CAATTTTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (28 bp):
TTTTTAATTTTAAAAGAATTAAATTTGA
Found at i:65195 original size:18 final size:17
Alignment explanation
Indices: 65163--65196 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65153 ACGCTAGCAG
65163 CTTTCTTTTTTCTTTTT
1 CTTTCTTTTTTCTTTTT
*
65180 CTTTTTTTTCTTCTTTT
1 CTTTCTTTT-TTCTTTT
65197 CGGGTTGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTCTTTTTTCTTTTT
Found at i:65744 original size:18 final size:16
Alignment explanation
Indices: 65712--65755 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
65702 ATGGAATGAG
65712 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
65728 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
65742 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
65756 ACCTAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:68893 original size:46 final size:47
Alignment explanation
Indices: 68825--68938 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 47
68815 TTTAAATCGA
* * *
68825 TCCATTTCAACAAC-TC--CAATACCAAC-AGTCACATAAG-TTGATT
1 TCCATTTCAACAACAACAACAATACCAACTA-TAACATAAGCTAGATT
*
68868 TCCATTTCAACAACAACAACAATACCAACTATAACATAAGCTAGTTT
1 TCCATTTCAACAACAACAACAATACCAACTATAACATAAGCTAGATT
* *
68915 TTCATTTAAACAACAACAACAATA
1 TCCATTTCAACAACAACAACAATA
68939 TTACAAATAG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
43 14 0.23
44 1 0.02
46 18 0.30
47 27 0.45
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.26
Consensus pattern (47 bp):
TCCATTTCAACAACAACAACAATACCAACTATAACATAAGCTAGATT
Found at i:71296 original size:228 final size:227
Alignment explanation
Indices: 70899--72235 Score: 1404
Period size: 228 Copynumber: 5.9 Consensus size: 227
70889 ATCAAAATAG
* * * * *
70899 ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCCTT-GAGGTGGAAAGTTCTGATA
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCA-CATTGGAGGTGGAGAGTTCTGATA
* * *
70963 CCATCGACAATGTAAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTT
65 CCATTGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTG
* * *
71028 ATCTTTGCTGGTAAACAGCTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAGGAATC
130 ATCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCAGACTACAACATCCAGAAGGAATC
* * ** *
71093 CACACTCCATTTGGTCCTCCGATTGAGGGGTGGT
195 CACACTCCACTTGGTGCTCCG-TTCCGTGGTGGT
71127 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
* * * * *
71192 TATTGACAATGTCAAGTCTAAGATCCAAGACAAGGAAGGGATACCACCAGACCAACAGAGGCTTA
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTGA
* * * * * *
71257 TCTTTGCTGGGAAACAGCTGGAGGATGGTCGTACCCTTGCAGACTACAACATTCAGAAGGAATCC
131 TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCAGACTACAACATCCAGAAGGAATCC
* * ** *
71322 ACACTCCATTTGGTCCTCCGATTGAGGGGTGGT
196 ACACTCCACTTGGTGCTCCG-TTCCGTGGTGGT
71355 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
* * * * * * *
71420 TATTGACAATGTCAAGGCTAAGATTCAGGACAAGGAAGGCATCCCCCCAGACCAGCAGAGGCTGA
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTGA
* * * * * * *
71485 TCTTCGCTGGTAAGCAACTTGAGGATGGCCGCA-CATTGGCTGATTATAACATCCAGAAGGAGTC
131 TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTT-GCAGACTACAACATCCAGAAGGAATC
* * * *
71549 CACACTCCACTTGGTGCTTCGCCTCCGTGGAGGA
195 CACACTCCACTTGGTGCTCCG-TTCCGTGGTGGT
* ** * * * * *
71583 ATGCAAATTTTTGTTAAGACTTTGACTGGGAAGACCATTACATTGGAGGTAGAGAGTTCAGATAC
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
* * * * * *
71648 CATTGACAATGTTAAGGCGAAAATTCAGGACAAGG-AGGGAATTCCC-CCGGACCAACAGAGGCT
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGG-A-TCCCACCAGACCAACAGAGGCT
* * * * * * * * *
71711 GATTTTTGCTGGTAAGCAACTTGAGGACGGCCGTACCCTGGCTGACTATAACATACAGAAGGAGT
129 GATCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCAGACTACAACATCCAGAAGGAAT
* *
71776 CCACCCTCCACTTGGTGCTCCGTCTTCGTGGTGGT
194 CCACACTCCACTTGGTGCTCCGT-TCCGTGGTGGT
* * * * ** * * * *
71811 ATGCAGATTTTTGTGAAGACACTTACCGGGAAGACCATCACCCTGGAAGTTGAGAGCTCTGACAC
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
* * * * * * * * *
71876 AATTGATAATGTTAAGGCCAAAATTCAAGATAAGGAAGGTATCCCTCCAGACCAGCAGAGGCTGA
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTGA
* ** * * *
71941 TATTTGCTGGTAAGCAGCTTGAGGATGGGAGGACCCTTGCAGATTACAACATCCAGAAGGAGTCC
131 TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCAGACTACAACATCCAGAAGGAATCC
* *
72006 ACCCTCCACTTGGTGCTCCGTCTCCGTGGTGGG
196 ACACTCCACTTGGTGCTCCGT-TCCGTGGTGGT
* * * * * ** * * * * *
72039 ATGCAAATTTTCGTTAAGACCCTGACTGGAAAGACCATCACCCTGGAAGTTGAGAGCTCAGACAC
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
* * * * * * * *
72104 GATTGATAATGTGAAGGCCAAGATCCAGGATAAGGAAGGAATCCCACCAGATCAGCAGAGGCTGA
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTGA
* * * ** * *
72169 TTTTTGCTGGGAAGCAGCTTGAAGATGGGAGGACCCTTGCAGACTACAATATCCAGAAGGAATCC
131 TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCAGACTACAACATCCAGAAGGAATCC
72234 AC
196 AC
72236 TTTGCACCTG
Statistics
Matches: 968, Mismatches: 133, Indels: 16
0.87 0.12 0.01
Matches are distributed among these distances:
227 13 0.01
228 946 0.98
229 9 0.01
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (227 bp):
ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
CATTGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTGA
TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCAGACTACAACATCCAGAAGGAATCC
ACACTCCACTTGGTGCTCCGTTCCGTGGTGGT
Found at i:71772 original size:456 final size:456
Alignment explanation
Indices: 70899--72235 Score: 1550
Period size: 456 Copynumber: 2.9 Consensus size: 456
70889 ATCAAAATAG
* * * *
70899 ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCCTT-GAGGTGGAAAGTTCTGATA
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCA-CCTTGGAGGTGGAGAGTTCTGATA
* * * * * *
70963 CCATCGACAATGTAAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTT
65 CAATTGACAATGTAAAGGCCAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGAGGCTG
* * * *
71028 ATCTTTGCTGGTAAACAGCTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAGGAATC
130 ATCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCTGATTACAACATCCAGAAGGAGTC
* * * ** * * * * *
71093 CACACTCCATTTGGTCCTCCGATTGAGGGGTGGTATGCAAATTTTTGTCAAGACCCTCACCGGGA
195 CACACTCCACTTGGTGCTCCGACTCCGTGGTGGAATGCAAATTTTTGTTAAGACCCTGACTGGGA
* * * * * *
71158 AGACCATCACATTGGAGGTGGAGAGTTCTGATACTATTGACAATGTCAAGTCTAAGATCCAAGAC
260 AGACCATCACATTGGAGGTAGAGAGTTCAGATACCATTGACAATGTCAAGGCCAAGATCCAGGAC
* * * * * * *
71223 AAGGAAGGG-ATACCACCAGACCAACAGAGGCTTATCTTTGCTGGGAAACAGCTGGAGGATGGTC
325 AAGG-AGGGAATTCCCCCAGACCAACAGAGGCTGATTTTTGCTGGGAAGCAGCTTGAGGATGGCC
* *
71287 GTACCCTTGCAGACTACAACATTCAGAAGGAATCCACACTCCATTTGGTCCTCCGAT-TGAGGGG
389 GTACCCTTGCAGACTACAACATACAGAAGGAATCCACACTCCACTTGGTCCTCCG-TCTGAGGGG
71351 TGGT
453 TGGT
*
71355 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACCTTGGAGGTGGAGAGTTCTGATAC
* * * * *
71420 TATTGACAATGTCAAGGCTAAGATTCAGGACAAGGAAGGCATCCCCCCAGACCAGCAGAGGCTGA
66 AATTGACAATGTAAAGGCCAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGAGGCTGA
* * * *
71485 TCTTCGCTGGTAAGCAACTTGAGGATGGCCGCA-CATTGGCTGATTATAACATCCAGAAGGAGTC
131 TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTT-GCTGATTACAACATCCAGAAGGAGTC
* * * **
71549 CACACTCCACTTGGTGCTTCGCCTCCGTGGAGGAATGCAAATTTTTGTTAAGACTTTGACTGGGA
195 CACACTCCACTTGGTGCTCCGACTCCGTGGTGGAATGCAAATTTTTGTTAAGACCCTGACTGGGA
* * * * *
71614 AGACCATTACATTGGAGGTAGAGAGTTCAGATACCATTGACAATGTTAAGGCGAAAATTCAGGAC
260 AGACCATCACATTGGAGGTAGAGAGTTCAGATACCATTGACAATGTCAAGGCCAAGATCCAGGAC
* * * *
71679 AAGGAGGGAATTCCCCCGGACCAACAGAGGCTGATTTTTGCTGGTAAGCAACTTGAGGACGGCCG
325 AAGGAGGGAATTCCCCCAGACCAACAGAGGCTGATTTTTGCTGGGAAGCAGCTTGAGGATGGCCG
* * * * * * ** *
71744 TACCCTGGCTGACTATAACATACAGAAGGAGTCCACCCTCCACTTGGTGCTCCGTCTTCGTGGTG
390 TACCCTTGCAGACTACAACATACAGAAGGAATCCACACTCCACTTGGTCCTCCGTCTGAGGGGTG
71809 GT
455 GT
* * * * * * * * *
71811 ATGCAGATTTTTGTGAAGACACTTACCGGGAAGACCATCACCCTGGAAGTTGAGAGCTCTGACAC
1 ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACCTTGGAGGTGGAGAGTTCTGATAC
* * * * * *
71876 AATTGATAATGTTAAGGCCAAAATTCAAGATAAGGAAGGTATCCCTCCAGACCAGCAGAGGCTGA
66 AATTGACAATGTAAAGGCCAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGAGGCTGA
* ** * *
71941 TATTTGCTGGTAAGCAGCTTGAGGATGGGAGGACCCTTGCAGATTACAACATCCAGAAGGAGTCC
131 TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCTGATTACAACATCCAGAAGGAGTCC
* * * * *
72006 ACCCTCCACTTGGTGCTCCGTCTCCGTGGTGGGATGCAAATTTTCGTTAAGACCCTGACTGGAAA
196 ACACTCCACTTGGTGCTCCGACTCCGTGGTGGAATGCAAATTTTTGTTAAGACCCTGACTGGGAA
** * * * * * * * *
72071 GACCATCACCCTGGAAGTTGAGAGCTCAGACACGATTGATAATGTGAAGGCCAAGATCCAGGATA
261 GACCATCACATTGGAGGTAGAGAGTTCAGATACCATTGACAATGTCAAGGCCAAGATCCAGGACA
* * * * **
72136 AGGAAGGAA-TCCCACCAGATCAGCAGAGGCTGATTTTTGCTGGGAAGCAGCTTGAAGATGGGAG
326 AGGAGGGAATTCCC-CCAGACCAACAGAGGCTGATTTTTGCTGGGAAGCAGCTTGAGGATGGCCG
* * *
72200 GACCCTTGCAGACTACAATATCCAGAAGGAATCCAC
390 TACCCTTGCAGACTACAACATACAGAAGGAATCCAC
72236 TTTGCACCTG
Statistics
Matches: 737, Mismatches: 138, Indels: 12
0.83 0.16 0.01
Matches are distributed among these distances:
455 15 0.02
456 719 0.98
457 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (456 bp):
ATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACCTTGGAGGTGGAGAGTTCTGATAC
AATTGACAATGTAAAGGCCAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGAGGCTGA
TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACCCTTGCTGATTACAACATCCAGAAGGAGTCC
ACACTCCACTTGGTGCTCCGACTCCGTGGTGGAATGCAAATTTTTGTTAAGACCCTGACTGGGAA
GACCATCACATTGGAGGTAGAGAGTTCAGATACCATTGACAATGTCAAGGCCAAGATCCAGGACA
AGGAGGGAATTCCCCCAGACCAACAGAGGCTGATTTTTGCTGGGAAGCAGCTTGAGGATGGCCGT
ACCCTTGCAGACTACAACATACAGAAGGAATCCACACTCCACTTGGTCCTCCGTCTGAGGGGTGG
T
Found at i:72255 original size:684 final size:684
Alignment explanation
Indices: 70899--72259 Score: 1591
Period size: 684 Copynumber: 2.0 Consensus size: 684
70889 ATCAAAATAG
* * *
70899 ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCCTTGAGGTGGAAAGTTCTGATAC
1 ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCATTGAGGTAGAAAGTTCAGATAC
* *
70964 CATCGACAATGTAAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTTA
66 CATCGACAATGTAAAGGCCAAAATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTGA
* * * *
71029 TCTTTGCTGGTAAACAGCTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAGGAATCC
131 TCTTTGCTGGTAAACAACTGGAGGACGGCCGCACCCTGGCTGACTACAACATACAGAAGGAATCC
* *
71094 ACACTCCATTTGGTCCTCCGATTGAGGGGTGGTATGCAAATTTTTGTCAAGACCCTCACCGGGAA
196 ACACTCCACTTGGTCCTCCGATTGAGGGGTGGTATGCAAATTTTTGTCAAGACACTCACCGGGAA
* * * * * * * *
71159 GACCATCACATTGGAGGTGGAGAGTTCTGATACTATTGACAATGTCAAGTCTAAGATCCAAGACA
261 GACCATCACACTGGAAGTGGAGAGCTCTGACACAATTGACAATGTCAAGGCCAAAATCCAAGACA
* * ** *
71224 AGGAAGGGATACCACCAGACCAACAGAGGCTTATCTTTGCTGGGAAACAGCTGGAGGATGGTCGT
326 AGGAAGGGATACCACCAGACCAACAGAGGCTGATATTTGCTGGGAAACAGCTGGAGGATGGGAGG
* * *
71289 ACCCTTGCAGACTACAACATTCAGAAGGAATCCACACTCCATTTGGTCCTCCGATTGAGGGGTGG
391 ACCCTTGCAGACTACAACATCCAGAAGGAATCCACACTCCACTTGGTCCTCCGATTCAGGGGTGG
* * * * * * * *
71354 TATGCAAATTTTTGTCAAGACCCTCACCGGGAAGACCATCACATTGGAGGTGGAGAGTTCTGATA
456 GATGCAAATTTTCGTCAAGACCCTCACCGGAAAGACCATCACACTGGAAGTGGAGAGCTCAGACA
* * * * *
71419 CTATTGACAATGTCAAGGCTAAGATTCAGGACAAGGAAGGCATCCCCCCAGACCAGCAGAGGCTG
521 CGATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCCACCAGACCAGCAGAGGCTG
* * * * * * *
71484 ATCTTCGCTGGTAAGCAACTTGAGGATGGCCGCACATTGGCTGATTATAACATCCAGAAGGAGTC
586 ATCTTCGCTGGGAAGCAACTTGAAGATGGCAGCACATTGGCAGACTACAACATCCAGAAGGAATC
* *
71549 CACACTCCACTTGGTGCTTCGCCTCCGTGGAGGA
651 CACACTCCACCTGGTCCTTCGCCTCCGTGGAGGA
* * ** * * * *
71583 ATGCAAATTTTTGTTAAGACTTTGACTGGGAAGACCATTA-CATTGGAGGTAGAGAGTTCAGATA
1 ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCATT-GAGGTAGAAAGTTCAGATA
* * * * * *
71647 CCATTGACAATGTTAAGGCGAAAATTCAGGACAAGG-AGGGAATTCCC-CCGGACCAACAGAGGC
65 CCATCGACAATGTAAAGGCCAAAATCCAAGACAAGGAAGGG-A-TCCCACCAGACCAACAGAGGC
* * * * * *
71710 TGATTTTTGCTGGTAAGCAACTTGAGGACGGCCGTACCCTGGCTGACTATAACATACAGAAGGAG
128 TGATCTTTGCTGGTAAACAACTGGAGGACGGCCGCACCCTGGCTGACTACAACATACAGAAGGAA
* * ** * * * *
71775 TCCACCCTCCACTTGGTGCTCCG-TCTTCGTGGTGGTATGCAGATTTTTGTGAAGACACTTACCG
193 TCCACACTCCACTTGGTCCTCCGAT-TGAGGGGTGGTATGCAAATTTTTGTCAAGACACTCACCG
* * * * *
71839 GGAAGACCATCACCCTGGAAGTTGAGAGCTCTGACACAATTGATAATGTTAAGGCCAAAATTCAA
257 GGAAGACCATCACACTGGAAGTGGAGAGCTCTGACACAATTGACAATGTCAAGGCCAAAATCCAA
* * * * * * * *
71904 GATAAGGAAGGTATCCCTCCAGACCAGCAGAGGCTGATATTTGCTGGTAAGCAGCTTGAGGATGG
322 GACAAGGAAGGGATACCACCAGACCAACAGAGGCTGATATTTGCTGGGAAACAGCTGGAGGATGG
* * * * * *
71969 GAGGACCCTTGCAGATTACAACATCCAGAAGGAGTCCACCCTCCACTTGGTGCTCCG-TCTCCGT
387 GAGGACCCTTGCAGACTACAACATCCAGAAGGAATCCACACTCCACTTGGTCCTCCGAT-TCAGG
* * * * *
72033 GGTGGGATGCAAATTTTCGTTAAGACCCTGACTGGAAAGACCATCACCCTGGAAGTTGAGAGCTC
451 GGTGGGATGCAAATTTTCGTCAAGACCCTCACCGGAAAGACCATCACACTGGAAGTGGAGAGCTC
* * * *
72098 AGACACGATTGATAATGTGAAGGCCAAGATCCAGGATAAGGAAGGAATCCCACCAGATCAGCAGA
516 AGACACGATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCCACCAGACCAGCAGA
* * * * * * *
72163 GGCTGATTTTTGCTGGGAAGCAGCTTGAAGATGGGAGGACCCTT-GCAGACTACAATATCCAGAA
581 GGCTGATCTTCGCTGGGAAGCAACTTGAAGATGGCAGCA-CATTGGCAGACTACAACATCCAGAA
** *
72227 GGAATCCACTTTGCACCTGGTCCTTCGCCTCCG
645 GGAATCCACACTCCACCTGGTCCTTCGCCTCCG
72260 CGGTGGCTTG
Statistics
Matches: 556, Mismatches: 115, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
683 9 0.02
684 540 0.97
685 7 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (684 bp):
ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCATTGAGGTAGAAAGTTCAGATAC
CATCGACAATGTAAAGGCCAAAATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTGA
TCTTTGCTGGTAAACAACTGGAGGACGGCCGCACCCTGGCTGACTACAACATACAGAAGGAATCC
ACACTCCACTTGGTCCTCCGATTGAGGGGTGGTATGCAAATTTTTGTCAAGACACTCACCGGGAA
GACCATCACACTGGAAGTGGAGAGCTCTGACACAATTGACAATGTCAAGGCCAAAATCCAAGACA
AGGAAGGGATACCACCAGACCAACAGAGGCTGATATTTGCTGGGAAACAGCTGGAGGATGGGAGG
ACCCTTGCAGACTACAACATCCAGAAGGAATCCACACTCCACTTGGTCCTCCGATTCAGGGGTGG
GATGCAAATTTTCGTCAAGACCCTCACCGGAAAGACCATCACACTGGAAGTGGAGAGCTCAGACA
CGATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCCACCAGACCAGCAGAGGCTG
ATCTTCGCTGGGAAGCAACTTGAAGATGGCAGCACATTGGCAGACTACAACATCCAGAAGGAATC
CACACTCCACCTGGTCCTTCGCCTCCGTGGAGGA
Found at i:75336 original size:7 final size:7
Alignment explanation
Indices: 75324--75354 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
75314 GGCCTACTCA
75324 GCAGTCT
1 GCAGTCT
75331 GCAGTCT
1 GCAGTCT
75338 GCAGTCT
1 GCAGTCT
75345 GCAGTCT
1 GCAGTCT
75352 GCA
1 GCA
75355 CTAAGGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GCAGTCT
Found at i:81073 original size:31 final size:30
Alignment explanation
Indices: 81030--81088 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
81020 TTTACTATTA
*
81030 TTAATTTAAAATTTTATAAATTATAAAGGGC
1 TTAAATTAAAATTTTAT-AATTATAAAGGGC
*
81061 TTAAATTAAAATTTTATAATTGTAAAGG
1 TTAAATTAAAATTTTATAATTATAAAGG
81089 AGCTATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (30 bp):
TTAAATTAAAATTTTATAATTATAAAGGGC
Found at i:91301 original size:32 final size:32
Alignment explanation
Indices: 91264--91328 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
91254 ATTAGACAAT
91264 AAACATTTGTTGTATTAATACAATATTGGCAG
1 AAACATTTGTTGTATTAATACAATATTGGCAG
91296 AAACATTTGTTGTATTAATACAATATTGGCAG
1 AAACATTTGTTGTATTAATACAATATTGGCAG
91328 A
1 A
91329 GGGGATGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.37
Consensus pattern (32 bp):
AAACATTTGTTGTATTAATACAATATTGGCAG
Found at i:95106 original size:17 final size:17
Alignment explanation
Indices: 95066--95106 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
95056 TGTATGGAAT
*
95066 AATAAAAAAATTATAAA
1 AATAAATAAATTATAAA
95083 AATAAATAAA-TATATAA
1 AATAAATAAATTATA-AA
95100 AATAAAT
1 AATAAAT
95107 GAGATATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAATAAATTATAAA
Found at i:98995 original size:20 final size:22
Alignment explanation
Indices: 98970--99011 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
98960 TTAATCCCAA
98970 CATTTTCTAT-TATTTC-ATTT
1 CATTTTCTATCTATTTCGATTT
*
98990 CATTTTTTATCTATTTCGATTT
1 CATTTTCTATCTATTTCGATTT
99012 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 6 0.32
22 4 0.21
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.64
Consensus pattern (22 bp):
CATTTTCTATCTATTTCGATTT
Found at i:99004 original size:21 final size:21
Alignment explanation
Indices: 98970--99018 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
98960 TTAATCCCAA
*
98970 CATTTTCTATTATTTC-ATTT
1 CATTTTTTATTATTTCGATTT
98990 CATTTTTTATCTATTTCGATTT
1 CATTTTTTAT-TATTTCGATTT
99012 --TTTTTTA
1 CATTTTTTA
99019 AAAGTTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 16 0.62
21 6 0.23
22 4 0.15
ACGTcount: A:0.18, C:0.12, G:0.02, T:0.67
Consensus pattern (21 bp):
CATTTTTTATTATTTCGATTT
Found at i:106892 original size:31 final size:33
Alignment explanation
Indices: 106854--106921 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
106844 TATTTGTTGG
106854 TTTTTAG-TTAG-C-TGGTTTTAGTTTTGTTTTT
1 TTTTTAGTTTAGCCATGGTTTTA-TTTTGTTTTT
*
106885 TTTTTAGTTTTGCCAATGGTTTTATTTTGTTTTT
1 TTTTTAGTTTAGCC-ATGGTTTTATTTTGTTTTT
106919 TTT
1 TTT
106922 GTTTCAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 7 0.22
32 3 0.09
33 1 0.03
34 13 0.41
35 8 0.25
ACGTcount: A:0.10, C:0.04, G:0.16, T:0.69
Consensus pattern (33 bp):
TTTTTAGTTTAGCCATGGTTTTATTTTGTTTTT
Done.