Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013689.1 Kokia drynarioides strain JFW-HI SEQ_128717, 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: 221939
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 116 characters in sequence are not A, C, G, or T
Found at i:131 original size:54 final size:54
Alignment explanation
Indices: 49--156 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
39 GAGAAAGGAA
49 TTAATCTCATTAAAACAGTTTGGACAGAACAGAGGACTAACTTCAAAAATTCAC
1 TTAATCTCATTAAAACAGTTTGGACAGAACAGAGGACTAACTTCAAAAATTCAC
103 TTAATCTCATTAAAACAGTTTGGACAGAACAGAGGACTAACTTCAAAAATTCAC
1 TTAATCTCATTAAAACAGTTTGGACAGAACAGAGGACTAACTTCAAAAATTCAC
157 CAAAAATAGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (54 bp):
TTAATCTCATTAAAACAGTTTGGACAGAACAGAGGACTAACTTCAAAAATTCAC
Found at i:939 original size:6 final size:6
Alignment explanation
Indices: 928--972 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
918 TGATCAAAAT
* * * *
928 TGAAAG TGAAAG TGAAAG TGAATG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
973 TATGAATTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (6 bp):
TGAAAG
Found at i:967 original size:18 final size:18
Alignment explanation
Indices: 924--972 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
914 TTTGTGATCA
924 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* * *
942 AAAGTGAATGTGAAATTG
1 AAATTGAAAGTGAAAGTG
*
960 GAATTGAAAGTGA
1 AAATTGAAAGTGA
973 TATGAATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:3569 original size:52 final size:53
Alignment explanation
Indices: 3481--3612 Score: 214
Period size: 52 Copynumber: 2.5 Consensus size: 53
3471 ATCTCATTTA
* *
3481 ATACTCACGATGACACATTGTCATC-GAACCTCATAATCCGAAAAGTATTCAT
1 ATACTCACGATGACACATAGTCATCGGAACCTCATAATCCGAAAAGGATTCAT
* *
3533 ATACTCACGATGACACATAGTCATCGGAA-CTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGAACCTCATAATCCGAAAAGGATTCAT
3585 ATACTCACGATGACACATAGTCATCGGA
1 ATACTCACGATGACACATAGTCATCGGA
3613 TCTTTTGCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 72 0.96
53 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (53 bp):
ATACTCACGATGACACATAGTCATCGGAACCTCATAATCCGAAAAGGATTCAT
Found at i:10502 original size:23 final size:23
Alignment explanation
Indices: 10470--10569 Score: 121
Period size: 23 Copynumber: 4.3 Consensus size: 23
10460 AGTGTTGGGT
10470 AACAGAGGGCACACAAAGTGCTA
1 AACAGAGGGCACACAAAGTGCTA
* *
10493 ATCAGAGGGCACACGAAGTGCTAA
1 AACAGAGGGCACACAAAGTGCT-A
* *
10517 TAACAGAGGGCACACACAGTGTTA
1 -AACAGAGGGCACACAAAGTGCTA
*
10541 AACAGAGGGCACGA-AACGTGCTA
1 AACAGAGGGCAC-ACAAAGTGCTA
10564 AACAGA
1 AACAGA
10570 TGGCGTGCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
23 44 0.68
24 3 0.05
25 18 0.28
ACGTcount: A:0.41, C:0.21, G:0.27, T:0.11
Consensus pattern (23 bp):
AACAGAGGGCACACAAAGTGCTA
Found at i:13541 original size:13 final size:12
Alignment explanation
Indices: 13510--13549 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
13500 CAATATATTT
13510 AATATATAAAAA
1 AATATATAAAAA
13522 ATTATATATAAAAGA
1 A--ATATATAAAA-A
13537 AATATATAAAAA
1 AATATATAAAAA
13549 A
1 A
13550 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 10 0.40
14 10 0.40
15 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (12 bp):
AATATATAAAAA
Found at i:13566 original size:27 final size:27
Alignment explanation
Indices: 13510--13602 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 27
13500 CAATATATTT
*
13510 AATATATAAAAAATTATATATAAAAGA
1 AATATATAAAAAATTATATATAAAAAA
13537 AATATATAAAAAATTA-AT-TAAAAATAA
1 AATATATAAAAAATTATATAT-AAAA-AA
* * * *
13564 AATATATTTAACATAATAATAAATATAAAA
1 AATATA--TAA-AAAATTATATATAAAAAA
13594 AATATATAA
1 AATATATAA
13603 TTTCATTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
25 1 0.02
26 6 0.11
27 23 0.43
28 3 0.06
29 3 0.06
30 13 0.24
31 4 0.07
32 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (27 bp):
AATATATAAAAAATTATATATAAAAAA
Found at i:13689 original size:99 final size:95
Alignment explanation
Indices: 13562--13763 Score: 246
Period size: 99 Copynumber: 2.1 Consensus size: 95
13552 AATTAAAAAT
*
13562 AAAATATATTTAACATAATAATAAATATAAAAAATATATAATTTCATTATATAATCACATATTTA
1 AAAATATATTTAACATAATAATAAATATAAAAAACAT-T--TTT-ATTATATAATCACATATTTA
*
13627 TTCAT-TTA-TATATAAATAAAAGAGTTATTAATTA
62 TT-ATATTATTATAAAAATAAAA-AGTTATTAATTA
* * * * * * *
13661 AAAATATTTTTAACATAATGATATATATATATAGCATTTTTATTATATAATTACATATTTATTAT
1 AAAATATATTTAACATAATAATAAATATAAAAAACATTTTTATTATATAATCACATATTTATTAT
13726 ATTATTTATAAAAATAAAAAGTTATTAATTA
66 ATTA-TTATAAAAATAAAAAGTTATTAATTA
13757 AAAATAT
1 AAAATAT
13764 GAATTTAGAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
94 2 0.02
95 24 0.26
96 22 0.24
97 12 0.13
98 1 0.01
99 30 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (95 bp):
AAAATATATTTAACATAATAATAAATATAAAAAACATTTTTATTATATAATCACATATTTATTAT
ATTATTATAAAAATAAAAAGTTATTAATTA
Found at i:13804 original size:7 final size:7
Alignment explanation
Indices: 13792--13816 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13782 AATAATATAT
13792 TTAATAA
1 TTAATAA
13799 TTAATAA
1 TTAATAA
13806 TTAATAA
1 TTAATAA
13813 TTAA
1 TTAA
13817 AAAAAGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAATAA
Found at i:19750 original size:63 final size:63
Alignment explanation
Indices: 19675--19840 Score: 192
Period size: 63 Copynumber: 2.6 Consensus size: 63
19665 ATGTCACATT
* ** ** *
19675 TGGTACTAGTACTTTTGTAAAATATTTAATGTGGTA-TATGAACTACCAATATGTATTTTATTA
1 TGGTACTTGTACTTTCATAAAATATACAATGTGGTACT-TAAACTACCAATATGTATTTTATTA
* * *
19738 TGGTACTTGTACTTTCATAAAATGTACAATTTGGTACTTAAACTATCAATATGTATTTTATTA
1 TGGTACTTGTACTTTCATAAAATATACAATGTGGTACTTAAACTACCAATATGTATTTTATTA
* **
19801 TAGTACCTT-TACTTTCATAAAATACCCAATGTGGTACTTA
1 TGGTA-CTTGTACTTTCATAAAATATACAATGTGGTACTTA
19841 TACTTTGAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
63 83 0.95
64 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (63 bp):
TGGTACTTGTACTTTCATAAAATATACAATGTGGTACTTAAACTACCAATATGTATTTTATTA
Found at i:40041 original size:14 final size:14
Alignment explanation
Indices: 40022--40052 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
40012 AGTGTTCCAA
*
40022 CTTGATTCTTTCAT
1 CTTGATTCCTTCAT
40036 CTTGATTCCTTCAT
1 CTTGATTCCTTCAT
40050 CTT
1 CTT
40053 TCCATACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.06, T:0.55
Consensus pattern (14 bp):
CTTGATTCCTTCAT
Found at i:44094 original size:45 final size:45
Alignment explanation
Indices: 44018--44115 Score: 162
Period size: 45 Copynumber: 2.2 Consensus size: 45
44008 ACTAGTCTCC
* *
44018 AAGAGAAG-TAAGACAATTGGTAAATTCTAAAAAATATTTTATACA
1 AAGA-AAGATAAGACAATTGGTAAATTATAAAAAAGATTTTATACA
44063 AAGAAAGATAAGACAATTGGTAAATTATAAAAAAGATTTTATACA
1 AAGAAAGATAAGACAATTGGTAAATTATAAAAAAGATTTTATACA
44108 AAGAAAGA
1 AAGAAAGA
44116 AAACAAATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
44 3 0.06
45 47 0.94
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.26
Consensus pattern (45 bp):
AAGAAAGATAAGACAATTGGTAAATTATAAAAAAGATTTTATACA
Found at i:47236 original size:9 final size:9
Alignment explanation
Indices: 47218--47247 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
47208 TGAATTTTAC
*
47218 AATTCGAAT
1 AATTCAAAT
47227 AATTCAAAT
1 AATTCAAAT
47236 AATTCAAAT
1 AATTCAAAT
47245 AAT
1 AAT
47248 AAATTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (9 bp):
AATTCAAAT
Found at i:47348 original size:19 final size:19
Alignment explanation
Indices: 47326--47377 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
47316 AAATTACAAA
47326 AAAATTCAAAATAAATTTC
1 AAAATTCAAAATAAATTTC
* * *
47345 AAAATTTTAAAATAATTTTT
1 AAAA-TTCAAAATAAATTTC
*
47365 AATATTCAAAATA
1 AAAATTCAAAATA
47378 TTTACAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATAAATTTC
Found at i:52987 original size:2 final size:2
Alignment explanation
Indices: 52980--53013 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
52970 GATATTCTGG
* *
52980 TA TA TA TA TA GA TA TA TA TA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53014 ACATCCACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:54375 original size:3 final size:3
Alignment explanation
Indices: 54367--54399 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
54357 TTAAAGTTGT
*
54367 TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
54400 GGGATAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:65562 original size:20 final size:20
Alignment explanation
Indices: 65537--65577 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
65527 TTTCTGCTGC
65537 TATTTGTTGCTATTTTGCTA
1 TATTTGTTGCTATTTTGCTA
* *
65557 TATTTGTTGTTGTTTTGCTA
1 TATTTGTTGCTATTTTGCTA
65577 T
1 T
65578 TATATTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.07, G:0.17, T:0.63
Consensus pattern (20 bp):
TATTTGTTGCTATTTTGCTA
Found at i:65628 original size:36 final size:36
Alignment explanation
Indices: 65560--65629 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
65550 TTTGCTATAT
* * **
65560 TTGTTGTTGTTTTGCTATTATATTGCTATTATTTTG
1 TTGTTGTTGTTTGGATATTATATAACTATTATTTTG
* *
65596 TTGTTGTTGTTTGGATATTGTATAACTCTTATTT
1 TTGTTGTTGTTTGGATATTATATAACTATTATTT
65630 ATTGTTAAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.16, C:0.06, G:0.17, T:0.61
Consensus pattern (36 bp):
TTGTTGTTGTTTGGATATTATATAACTATTATTTTG
Found at i:69225 original size:24 final size:23
Alignment explanation
Indices: 69193--69269 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 23
69183 AATTTGTGAG
69193 ATTATAATTGTCAAGGAGTTGGCA
1 ATTATAATTGTCAAGGAGTTGG-A
69217 ATTATAA-T-TCAA-GA--TGTGA
1 ATTATAATTGTCAAGGAGTTG-GA
* *
69236 GATTATAATTGGCAAGTAGTTGGTA
1 -ATTATAATTGTCAAGGAGTTGG-A
69261 ATTATAATT
1 ATTATAATT
69270 TAAGTTGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
19 3 0.07
20 8 0.19
21 3 0.07
22 7 0.16
23 2 0.05
24 17 0.40
25 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATTATAATTGTCAAGGAGTTGGA
Found at i:69257 original size:44 final size:44
Alignment explanation
Indices: 69187--69283 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
69177 AGTTTAAATT
*
69187 TGTGAGATTATAATTGTCAAGGAGTTGGCAATTATAATTCAAGA
1 TGTGAGATTATAATTGGCAAGGAGTTGGCAATTATAATTCAAGA
* * * *
69231 TGTGAGATTATAATTGGCAAGTAGTTGGTAATTATAATTTAAGT
1 TGTGAGATTATAATTGGCAAGGAGTTGGCAATTATAATTCAAGA
*
69275 TGTTAGATT
1 TGTGAGATT
69284 GAATTTTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (44 bp):
TGTGAGATTATAATTGGCAAGGAGTTGGCAATTATAATTCAAGA
Found at i:74638 original size:12 final size:11
Alignment explanation
Indices: 74603--74638 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
74593 AATTTTAAAA
*
74603 TTTTATAACTTC
1 TTTTATAA-TTT
74615 TTTTATAATTT
1 TTTTATAATTT
74626 TTTTATAATTT
1 TTTTATAATTT
74637 TT
1 TT
74639 ATGATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:77267 original size:22 final size:22
Alignment explanation
Indices: 77238--77282 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
77228 AAAATTTTTA
* *
77238 ATTTTTTAACTTTCTTTATATAT
1 ATTTTTAAAATTT-TTTATATAT
77261 ATTTTTAAAATTTTTTATATAT
1 ATTTTTAAAATTTTTTATATAT
77283 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTAAAATTTTTTATATAT
Found at i:77322 original size:20 final size:20
Alignment explanation
Indices: 77252--77334 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
77242 TTTAACTTTC
*
77252 TTTATATATATTTTTAAAATT
1 TTTATAAATA-TTTTAAAATT
*
77273 TTT-TATATATTTTAAAA--
1 TTTATAAATATTTTAAAATT
**
77290 AATAT-AA-ATTTTAAAATT
1 TTTATAAATATTTTAAAATT
77308 TTTATAAATATTTT-AAATAT
1 TTTATAAATATTTTAAAAT-T
77328 TTTATAA
1 TTTATAA
77335 TTTTTATTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
16 9 0.18
17 2 0.04
18 4 0.08
19 14 0.27
20 19 0.37
21 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATAAATATTTTAAAATT
Found at i:84871 original size:21 final size:22
Alignment explanation
Indices: 84846--84886 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
84836 ATTTAATTTC
*
84846 AAAATAT-AAAGAAAGTAAAGA
1 AAAATATCAAAAAAAGTAAAGA
84867 AAAATATCAAAAAAAGTAAA
1 AAAATATCAAAAAAAGTAAA
84887 TACGAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAATATCAAAAAAAGTAAAGA
Found at i:103282 original size:10 final size:10
Alignment explanation
Indices: 103259--103355 Score: 78
Period size: 10 Copynumber: 10.0 Consensus size: 10
103249 TCTATGATTT
*
103259 TTTTTTAAATA
1 TTTTTTATA-A
103270 TTTTTTATAA
1 TTTTTTATAA
* *
103280 TTTATTA-GA
1 TTTTTTATAA
103289 --TTTTATAA
1 TTTTTTATAA
103297 TTTTTTATAA
1 TTTTTTATAA
*
103307 TATTTTTATGA
1 T-TTTTTATAA
103318 TTTTTTATAA
1 TTTTTTATAA
* *
103328 TTTATTA-GA
1 TTTTTTATAA
103337 -TTTTTATAA
1 TTTTTTATAA
*
103346 ATTTTTATAA
1 TTTTTTATAA
103356 GTTTATATTA
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
7 4 0.06
8 6 0.09
9 3 0.04
10 39 0.57
11 17 0.25
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:103313 original size:38 final size:40
Alignment explanation
Indices: 103259--103361 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 40
103249 TCTATGATTT
*
103259 TTTTTTA-AATATTTTTTATAATTTATTAGATTTTA-TA-A
1 TTTTTTATAATA-TTTTTATAATTTATTAGAATTTATTAGA
* * *
103297 TTTTTTATAATATTTTTATGATTTTTTATAATTTATTAGA
1 TTTTTTATAATATTTTTATAATTTATTAGAATTTATTAGA
103337 -TTTTTATAA-ATTTTTATAAGTTTAT
1 TTTTTTATAATATTTTTATAA-TTTAT
103362 ATTAAATTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
38 35 0.64
39 19 0.35
40 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (40 bp):
TTTTTTATAATATTTTTATAATTTATTAGAATTTATTAGA
Found at i:103315 original size:21 final size:21
Alignment explanation
Indices: 103289--103355 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
103279 ATTTATTAGA
103289 TTTTATAATTTTTTATAATAT
1 TTTTATAATTTTTTATAATAT
*
103310 TTTTATGATTTTTTATAAT-T
1 TTTTATAATTTTTTATAATAT
* *
103330 TATTA-GA-TTTTTATAA-AT
1 TTTTATAATTTTTTATAATAT
103348 TTTTATAA
1 TTTTATAA
103356 GTTTATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 14 0.35
19 3 0.08
20 5 0.12
21 18 0.45
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTTATAATTTTTTATAATAT
Found at i:117408 original size:25 final size:23
Alignment explanation
Indices: 117378--117442 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
117368 TTGGAAAACC
* **
117378 TATTTTATCTTTTTAATTTCTTT
1 TATTTTTTCTTTTTAATTAATTT
117401 TATTTTTTCTTTTTAGAATTAATTT
1 TATTTTTTCTTTTT--AATTAATTT
*
117426 TATTTTTTTGTTTTTAA
1 TA-TTTTTTCTTTTTAA
117443 AAGGGAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 13 0.37
24 2 0.06
25 9 0.26
26 11 0.31
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (23 bp):
TATTTTTTCTTTTTAATTAATTT
Found at i:124451 original size:16 final size:17
Alignment explanation
Indices: 124430--124462 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
124420 AAATGATATA
124430 TGATAAAAT-AAATAAT
1 TGATAAAATAAAATAAT
*
124446 TGATAATATAAAATAAT
1 TGATAAAATAAAATAAT
124463 AGTAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TGATAAAATAAAATAAT
Found at i:124454 original size:26 final size:26
Alignment explanation
Indices: 124401--124455 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
124391 TTCACAAATA
*
124401 ATATGAATAAAATAATAATAAATGAT
1 ATATGAATAAAATAATAATAAATAAT
**
124427 ATATG-ATAAAATAAATAATTGATAAT
1 ATATGAATAAAAT-AATAATAAATAAT
124453 ATA
1 ATA
124456 AAATAATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (26 bp):
ATATGAATAAAATAATAATAAATAAT
Found at i:125458 original size:59 final size:59
Alignment explanation
Indices: 125389--125549 Score: 166
Period size: 59 Copynumber: 2.7 Consensus size: 59
125379 AAAAAAACTC
* * * * *
125389 AGGTATCAAATTAAGAAAAAATGT-AAGTTCAAGTATCAAATTTG-GTCCAAAAAAAGTCT
1 AGGTACCAAATTAAAAAAAAATGTAAAGTTCAAGTACCAAATTTGAGT--AAAAAAAATAT
* * * *
125448 GGGTACCAAATTAGAAAAAAAATATCAAGTTAAAGTACCAAA-TTGAGTAAAAAAAATAT
1 AGGTACCAAATTA-AAAAAAAATGTAAAGTTCAAGTACCAAATTTGAGTAAAAAAAATAT
* *
125507 AGGTACCAACTTAAAAAAAAAGTGTAAAGTTCAGGTACCAAAT
1 AGGTACCAAATTAAAAAAAAA-TGTAAAGTTCAAGTACCAAAT
125550 GTTATATTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
58 8 0.10
59 47 0.57
60 12 0.14
61 16 0.19
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.24
Consensus pattern (59 bp):
AGGTACCAAATTAAAAAAAAATGTAAAGTTCAAGTACCAAATTTGAGTAAAAAAAATAT
Found at i:129459 original size:12 final size:12
Alignment explanation
Indices: 129442--129467 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
129432 ATTTATCATT
129442 AAAATCTATATA
1 AAAATCTATATA
129454 AAAATCTATATA
1 AAAATCTATATA
129466 AA
1 AA
129468 GGATAAATAA
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATCTATATA
Found at i:130161 original size:21 final size:22
Alignment explanation
Indices: 130129--130169 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
130119 AAAAATTAAA
130129 AATATGAAAATT-TATTAAAACT
1 AATATGAAAATTAT-TTAAAACT
130151 AATAT-AAAATTATTTAAAA
1 AATATGAAAATTATTTAAAA
130170 ACAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATATGAAAATTATTTAAAACT
Found at i:130170 original size:22 final size:21
Alignment explanation
Indices: 130107--130183 Score: 57
Period size: 19 Copynumber: 4.0 Consensus size: 21
130097 AAAATATTTT
130107 TTAAAA-AATATAAAA--A-A
1 TTAAAACAATATAAAATTATA
130124 TT-AAA-AATATGAAAATT-TA
1 TTAAAACAATAT-AAAATTATA
130143 TTAAAACTAATATAAAATTAT-
1 TTAAAAC-AATATAAAATTATA
130164 TTAAAAACAA-A-AAAATTATA
1 TT-AAAACAATATAAAATTATA
130184 AAAATTGTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
16 8 0.16
17 6 0.12
19 11 0.22
20 4 0.08
21 10 0.20
22 11 0.22
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (21 bp):
TTAAAACAATATAAAATTATA
Found at i:130299 original size:10 final size:10
Alignment explanation
Indices: 130277--130355 Score: 73
Period size: 10 Copynumber: 8.5 Consensus size: 10
130267 ATAAAACTGC
*
130277 AAAAA-TATA
1 AAAAATTATT
130286 AAAAATTATT
1 AAAAATTATT
*
130296 -AAAATTATG
1 AAAAATTATT
130305 AAAAA-TATT
1 AAAAATTATT
130314 AAAAA-TA--
1 AAAAATTATT
130321 AAAAATTATT
1 AAAAATTATT
130331 AAAAATTA-T
1 AAAAATTATT
*
130340 ATAAAATTATG
1 A-AAAATTATT
130351 AAAAA
1 AAAAA
130356 AGATTTGCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
7 5 0.08
8 2 0.03
9 25 0.42
10 26 0.44
11 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAATTATT
Found at i:130310 original size:47 final size:46
Alignment explanation
Indices: 130212--130355 Score: 143
Period size: 47 Copynumber: 3.1 Consensus size: 46
130202 GAATTTTCAA
* * * *
130212 AAAAATATATAAAAAGGGAAAATTATAAAATA-TATTAAAATT-TG
1 AAAAATATATAAAAATGAAAAAATATAAAAAATTATTAAAATTATG
* * *
130256 TTTAAAATAATATAAAACTGCAAAAATATAAAAAATTATTAAAATTATG
1 --AAAAAT-ATATAAAAATGAAAAAATATAAAAAATTATTAAAATTATG
*
130305 AAAAATAT-TAAAAAT-AAAAAATTATTAAAAATTATATAAAATTATG
1 AAAAATATATAAAAATGAAAAAA-TATAAAAAATTAT-TAAAATTATG
130351 AAAAA
1 AAAAA
130356 AGATTTGCAC
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
44 5 0.06
45 18 0.22
46 22 0.27
47 26 0.31
48 10 0.12
49 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (46 bp):
AAAAATATATAAAAATGAAAAAATATAAAAAATTATTAAAATTATG
Found at i:130630 original size:10 final size:11
Alignment explanation
Indices: 130615--130640 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
130605 ATAATATTTG
130615 AAAAAATAAAA
1 AAAAAATAAAA
130626 AAAAAATAAAA
1 AAAAAATAAAA
130637 AAAA
1 AAAA
130641 TTAGGTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:130703 original size:21 final size:20
Alignment explanation
Indices: 130677--130719 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
130667 AATTCTAAAA
*
130677 TTTTAATAATTTTCTATTATT
1 TTTTAATAATTTT-TATAATT
130698 TTTTAATAATTTTTATAATT
1 TTTTAATAATTTTTATAATT
130718 TT
1 TT
130720 GTAACTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAATAATTTTTATAATT
Found at i:130710 original size:10 final size:10
Alignment explanation
Indices: 130677--130719 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
130667 AATTCTAAAA
130677 TTTTAATAAT
1 TTTTAATAAT
* *
130687 TTTCTATTATT
1 TTT-TAATAAT
130698 TTTTAATAAT
1 TTTTAATAAT
130708 TTTT-ATAAT
1 TTTTAATAAT
130717 TTT
1 TTT
130720 GTAACTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 8 0.29
10 12 0.43
11 8 0.29
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:130753 original size:25 final size:26
Alignment explanation
Indices: 130725--130779 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
130715 ATTTTGTAAC
130725 TTTTAAAAAATT-TA-TTTTTTTAAAA
1 TTTT-AAAAATTCTATTTTTTTTAAAA
* * *
130750 TTTTCAAAGTTCTATTTTTTTTATAA
1 TTTTAAAAATTCTATTTTTTTTAAAA
130776 TTTT
1 TTTT
130780 TTTTTATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 5 0.20
25 6 0.24
26 14 0.56
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTAAAAATTCTATTTTTTTTAAAA
Found at i:136804 original size:36 final size:38
Alignment explanation
Indices: 136749--136831 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 38
136739 CCTTTATTGG
136749 AATT-ATATTACTAAATTGATA-T-TAAAA-TAATAATT
1 AATTAATATTACTAAATTGATAGTATAAAAGTAAT-ATT
* **
136784 TATTAATATTACTATGTTGATAGTAATAAAAGTAATATT
1 AATTAATATTACTAAATTGATAGT-ATAAAAGTAATATT
136823 AATTAATAT
1 AATTAATAT
136832 GATAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 3 0.08
36 15 0.38
37 1 0.03
39 16 0.41
40 4 0.10
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (38 bp):
AATTAATATTACTAAATTGATAGTATAAAAGTAATATT
Found at i:137574 original size:25 final size:26
Alignment explanation
Indices: 137546--137595 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
137536 GATGGTTAGT
137546 TATTATTTTATTTTAATAAT-TTTAC
1 TATTATTTTATTTTAATAATATTTAC
137571 TATTATTTTATTTTAATAATATTTA
1 TATTATTTTATTTTAATAATATTTA
137596 AATATTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTATTTTATTTTAATAATATTTAC
Found at i:138540 original size:23 final size:23
Alignment explanation
Indices: 138514--138560 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
138504 TCTCAAGGTG
138514 AATAAAAACTTCTGATTCAAAGC
1 AATAAAAACTTCTGATTCAAAGC
*
138537 AATAAACACTTCTGATTCAAAGC
1 AATAAAAACTTCTGATTCAAAGC
138560 A
1 A
138561 TTAACAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.26
Consensus pattern (23 bp):
AATAAAAACTTCTGATTCAAAGC
Found at i:140251 original size:16 final size:17
Alignment explanation
Indices: 140231--140329 Score: 85
Period size: 17 Copynumber: 5.9 Consensus size: 17
140221 ATTTTTAAAA
*
140231 TTTAAATCTAAATTTA-
1 TTTAAATTTAAATTTAT
* *
140247 TTTAAATTTGAATTTAC
1 TTTAAATTTAAATTTAT
* * *
140264 TTCAAATTTGAACTTAT
1 TTTAAATTTAAATTTAT
** ** *
140281 TTTGGATTTGGATTTAA
1 TTTAAATTTAAATTTAT
140298 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
140315 TTTAAA-TTAAATTTA
1 TTTAAATTTAAATTTA
140330 AACTTTAGAA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
16 23 0.35
17 43 0.65
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:140255 original size:6 final size:6
Alignment explanation
Indices: 140228--140336 Score: 52
Period size: 6 Copynumber: 19.2 Consensus size: 6
140218 CCCATTTTTA
* * * *
140228 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTC AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * ** ** *
140273 GAACTT -ATTTT GGATTT GGATTT -AATTT AAATTT AAATTT -ATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
140318 AAA-TT AAATTT AAACTTT A
1 AAATTT AAATTT AAA-TTT A
140337 GAAAATCCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
4 4 0.05
5 19 0.24
6 52 0.66
7 4 0.05
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:140318 original size:22 final size:23
Alignment explanation
Indices: 140293--140336 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
140283 TGGATTTGGA
*
140293 TTTAATTTAAATTTAAA-TTTAT
1 TTTAAATTAAATTTAAACTTTAT
140315 TTTAAATTAAATTTAAACTTTA
1 TTTAAATTAAATTTAAACTTTA
140337 GAAAATCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAAATTAAATTTAAACTTTAT
Found at i:141040 original size:19 final size:19
Alignment explanation
Indices: 140976--141031 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
140966 GTGAATCAGT
*
140976 AATAATAATATTAAT-AAT
1 AATAATAATATTAATAAAC
* *
140994 AATAACT--TTTTAATAAAT
1 AATAA-TAATATTAATAAAC
141012 AATAATAATATTAATAAAC
1 AATAATAATATTAATAAAC
141031 A
1 A
141032 GTAGTAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 7 0.23
18 13 0.42
19 11 0.35
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAATAATATTAATAAAC
Found at i:141078 original size:22 final size:22
Alignment explanation
Indices: 141003--141086 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 22
140993 TAATAACTTT
*
141003 TTAATAAATAATAAT--AA-TA
1 TTAATAAATATTAATAAAAGTA
* *
141022 TTAATAAACAGTAGTAATAAATAGCA
1 TTAAT-AA-A-TATTAATAAA-AGTA
*
141048 TCAATAAATATTAATAAAAGTA
1 TTAATAAATATTAATAAAAGTA
141070 TTAATAAATATTAATAA
1 TTAATAAATATTAATAA
141087 TAAATAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
19 5 0.10
20 2 0.04
21 1 0.02
22 25 0.48
23 9 0.17
24 2 0.04
25 3 0.06
26 5 0.10
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (22 bp):
TTAATAAATATTAATAAAAGTA
Found at i:142267 original size:29 final size:29
Alignment explanation
Indices: 142229--142325 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 29
142219 ACCCCCGAAC
*
142229 TTTCTAAAATTTCATTTTTGACCTTATTTT
1 TTTCCAAAATTTCATTTTTGACCTTA-TTT
* **
142259 TTTCCAAATATTACATTTTT-ACCCTTAAAT
1 TTTCCAAA-ATTTCATTTTTGA-CCTTATTT
* *
142289 TTTCCAAAATTCCATTTTTGACCTTA-AT
1 TTTCCAAAATTTCATTTTTGACCTTATTT
142317 TTTCCAAAA
1 TTTCCAAAA
142326 ATTACGATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.19
29 15 0.25
30 18 0.31
31 15 0.25
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (29 bp):
TTTCCAAAATTTCATTTTTGACCTTATTT
Found at i:142294 original size:30 final size:30
Alignment explanation
Indices: 142145--142425 Score: 147
Period size: 29 Copynumber: 9.5 Consensus size: 30
142135 TAAACTATCC
* *
142145 AAAATTACATTTTTACCCCTAAACTTT-CA
1 AAAATTACATTTTTACCCTTAAATTTTCCA
* * **
142174 AAAATT-C-TAATTTCCACCTTGATTTTTTCCA
1 AAAATTACAT-TTTTAC-CCTT-AAATTTTCCA
* *** * *
142205 AAAATTATATTTTTACCCCCGAACTTT-CT
1 AAAATTACATTTTTACCCTTAAATTTTCCA
* **
142234 AAAATTTCATTTTTGA-CCTTATTTTTTTCCA
1 AAAATTACATTTTT-ACCCTTA-AATTTTCCA
*
142265 AATATTACATTTTTACCCTTAAATTTTCC-
1 AAAATTACATTTTTACCCTTAAATTTTCCA
*
142294 AAAATTCCATTTTTGA-CCTT-AATTTTCCA
1 AAAATTACATTTTT-ACCCTTAAATTTTCCA
* *
142323 AAAATTACGA-TTTTACCCCTAAACTTT-CA
1 AAAATTAC-ATTTTTACCCTTAAATTTTCCA
* * * ** *
142352 AAAACTCCATTTTTAACCTCGATTTTTCCA
1 AAAATTACATTTTTACCCTTAAATTTTCCA
* *
142382 AAAATTACCA-TTTTACCCTTGAA-CTTCCA
1 AAAATTA-CATTTTTACCCTTAAATTTTCCA
142411 AAAATT-CTATTTTTA
1 AAAATTAC-ATTTTTA
142426 ACCTCGATTT
Statistics
Matches: 184, Mismatches: 48, Indels: 40
0.68 0.18 0.15
Matches are distributed among these distances:
27 2 0.01
28 16 0.09
29 89 0.48
30 42 0.23
31 30 0.16
32 4 0.02
33 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.43
Consensus pattern (30 bp):
AAAATTACATTTTTACCCTTAAATTTTCCA
Found at i:142388 original size:59 final size:59
Alignment explanation
Indices: 142145--142496 Score: 329
Period size: 59 Copynumber: 5.9 Consensus size: 59
142135 TAAACTATCC
* * ** *
142145 AAAATTACATTTTTACCCCTAAACTTTCAAAAATTCTAATTTCCACCTTGATTTTTTCCA
1 AAAATTACATTTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGA-TTTTTCCA
* ** * * * *
142205 AAAATTATATTTTTACCCCCGAACTTTCTAAAATTTCATTTTTGACCT-TATTTTTTTCCA
1 AAAATTACATTTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGA--TTTTTCCA
* * * * * * *
142265 AATATTACATTTTTACCCTTAAATTTTCCAAAATTCCATTTTTGACCT-TAATTTTCCA
1 AAAATTACATTTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCA
*
142323 AAAATTACGA-TTTTACCCCTAAACTTTCAAAAACTCCATTTTTAACCTCGATTTTTCCA
1 AAAATTAC-ATTTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCA
* * * * *
142382 AAAATTACCA-TTTTACCCTTGAACTTCCAAAAATTCTATTTTTAACCTCGATTTTTCAA
1 AAAATTA-CATTTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCA
* * * * *
142441 AAAAGTACCA-TTTTA-CCCTCGAACATTCAAGAATTCCATTTTTAACCTCTATTTTT
1 AAAATTA-CATTTTTACCCCT-AAACTTTCAAAAATTCCATTTTTAACCTCGATTTTT
142497 TAAAATTACC
Statistics
Matches: 247, Mismatches: 40, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
58 50 0.20
59 106 0.43
60 91 0.37
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (59 bp):
AAAATTACATTTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCA
Found at i:142455 original size:30 final size:29
Alignment explanation
Indices: 142362--142511 Score: 99
Period size: 29 Copynumber: 5.1 Consensus size: 29
142352 AAAACTCCAT
142362 TTTTAACCTCGATTTTTCCAAAAATTACCA
1 TTTTAACCTCGATTTTTCCAAAAA-TACCA
* * ** * *
142392 TTTTACCCTTGA-ACTTCCAAAAATTCTA
1 TTTTAACCTCGATTTTTCCAAAAATACCA
*
142420 TTTTTAACCTCGATTTTTCAAAAAAGTACCA
1 -TTTTAACCTCGATTTTTCCAAAAA-TACCA
* *** * *
142451 TTTTACCCTCGAACATT-CAAGAATTCCA
1 TTTTAACCTCGATTTTTCCAAAAATACCA
* * *
142479 TTTTTAACCTCTATTTTT-TAAAATTACCA
1 -TTTTAACCTCGATTTTTCCAAAAATACCA
142508 TTTT
1 TTTT
142512 GCACCCGGAT
Statistics
Matches: 87, Mismatches: 29, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
28 11 0.13
29 42 0.48
30 31 0.36
31 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (29 bp):
TTTTAACCTCGATTTTTCCAAAAATACCA
Found at i:147172 original size:15 final size:15
Alignment explanation
Indices: 147152--147181 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
147142 AGAAAGAGAC
147152 GACCATGCTTTTCAT
1 GACCATGCTTTTCAT
147167 GACCATGCTTTTCAT
1 GACCATGCTTTTCAT
147182 CTATACGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (15 bp):
GACCATGCTTTTCAT
Found at i:152137 original size:21 final size:21
Alignment explanation
Indices: 152103--152152 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
152093 GTACTACTGG
*
152103 TCAACTATGGAGAATGATTCTA
1 TCAACTA-CGAGAATGATTCTA
* *
152125 TTAACTACGAGAATGATTGTA
1 TCAACTACGAGAATGATTCTA
152146 TCAACTA
1 TCAACTA
152153 TGCTAAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (21 bp):
TCAACTACGAGAATGATTCTA
Found at i:153862 original size:49 final size:49
Alignment explanation
Indices: 153806--154351 Score: 367
Period size: 49 Copynumber: 11.2 Consensus size: 49
153796 ACGAACACAC
**
153806 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCGGAGACATG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACATG
** * * * * * * * * *
153855 AAGGGAAAAATCTAAGCCGCAACGGCGGATCTAATACCACGAAGACA-C
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACATG
* * *
153903 AAGAGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAGACATG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACATG
* ** * * *
153952 AAGGG-AAGGATTTAAGCCATAACGGCGAATCC-AGTACCACGAAGAC--G
1 AAGGGAAAGG-TTTAAGTCGCAATGGCGAA-CCTAGTACCTCAAAGACATG
* * * *
153999 CAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTTAGAGACATG
1 -AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACATG
* * * * * * * * **
154049 AAGGGAAAGATCTAAGCCGCAATAGCGGATCCT-GTATCGCAAAGATACA
1 AAGGGAAAGGTTTAAGTCGCAATGGC-GAACCTAGTACCTCAAAGACATG
* * ** *
154098 AATTGGAAAGGTTTAAGTTGCAATGATGAACCTAGTACCTCAAGGACATG
1 AA-GGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACATG
** * * * * **
154148 AAGGGAAATATTTAAGTCGCAACGGTGAATCC-AGTACCGCAAAGATACA
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTAGTACCTCAAAGACATG
* * *
154197 AAGGGAAAGGTTTAAGTCGTAATGGCGAACCTAGTACCTCAGAGATATG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACATG
* * * * * * *
154246 AAGGGGAAA-ATTTAAGCCGCAACGGCAAATCC-AGTACCACGAAGACACG
1 AA-GGGAAAGGTTTAAGTCGCAATGGCGAA-CCTAGTACCTCAAAGACATG
* *
154295 AAGGGAAAGGTTTAAGTTGCAATGGCAAACCTCA-TACCTCAGAAG-CATG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCT-AGTACCTCA-AAGACATG
*
154344 AAAGGAAA
1 AAGGGAAA
154352 ATTTAGGCCG
Statistics
Matches: 369, Mismatches: 109, Indels: 38
0.72 0.21 0.07
Matches are distributed among these distances:
47 3 0.01
48 78 0.21
49 238 0.64
50 50 0.14
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (49 bp):
AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGACATG
Found at i:154247 original size:98 final size:97
Alignment explanation
Indices: 153789--154364 Score: 667
Period size: 97 Copynumber: 5.9 Consensus size: 97
153779 CTACAAGTCT
* * *
153789 CAGTACCACGAACACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCGGAGACAT
1 CAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAGACAT
* * *
153854 GAAGGGAAAAATCTAAGCCGCAACGGCGGATC
66 GAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* * *
153886 TAATACCACGAAGACACAAGAGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAGACAT
1 CAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAGACAT
* **
153951 GAAGGGAAGGATTTAAGCCATAACGGCGAATC
66 GAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* * *
153983 CAGTACCACGAAGACGCAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTTAGAGACAT
1 CAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAGACAT
* ** *
154048 GAAGGGAAAGATCTAAGCCGCAATAGCGGATC
66 GAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* * * * * * * *
154080 CTGTATCGCAAAGATACAAATTGGAAAGGTTTAAGTTGCAATGATGAACCTAGTACCTCA-AGGA
1 CAGTACCACGAAGACAC-AA-GGGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGA-GA
* * *
154144 CATGAAGGGAAATATTTAAGTCGCAACGGTGAATC
63 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* * * * * *
154179 CAGTACCGCAAAGATACAAAGGGAAAGGTTTAAGTCGTAATGGCGAACCTAGTACCTCAGAGATA
1 CAGTACCACGAAGACAC-AAGGGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAGACA
*
154244 TGAAGGGGAAA-ATTTAAGCCGCAACGGCAAATC
65 TGAA-GGGAAAGATTTAAGCCGCAACGGCGAATC
* * *
154277 CAGTACCACGAAGACACGAAGGGAAAGGTTTAAGTTGCAATGGCAAACCTCA-TACCTCAGA-AG
1 CAGTACCACGAAGACAC-AAGGGAAAGGTTTAAGTCGCAATGACGAACCT-AGTACCTCAGAGA-
* *
154340 CATGAAAGGAAA-ATTTAGGCCGCAA
63 CATGAAGGGAAAGATTTAAGCCGCAA
154365 TGGAAAATTT
Statistics
Matches: 408, Mismatches: 64, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
97 198 0.49
98 120 0.29
99 90 0.22
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (97 bp):
CAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAGACAT
GAAGGGAAAGATTTAAGCCGCAACGGCGAATC
Found at i:154304 original size:196 final size:194
Alignment explanation
Indices: 153789--154356 Score: 687
Period size: 196 Copynumber: 2.9 Consensus size: 194
153779 CTACAAGTCT
* * *
153789 CAGTACCACGAACACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCGGAGACAT
1 CAGTACCACAAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACAT
* * * *
153854 GAAGGGAAAAATCTAAGCCGCAACGGCGGATCTAATACCACGAAGACACAAGAGAAAGGTTTAAG
66 GAAGGGGAAAATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAG
* * *
153919 TCGCAATGACGAACCTAGTACCTCAGAGACATGAAGGGAAGGATTTAAGCCATAACGGCGAATC
131 TTGCAATGACGAACCTAGTACCTCAGAGACATGAAGGGAAAGATTTAAGCCACAACGGCGAATC
* * * * *
153983 CAGTACCACGAAGACGCAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTTAGAGACAT
1 CAGTACCACAAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACAT
** * * * * * *
154048 GAA-GGGAAAGATCTAAGCCGCAATAGCGGATCCTGTATCGCAAAGATACAAATTGGAAAGGTTT
66 GAAGGGGAAA-ATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAC-AA-GGGAAAGGTTT
* * * * *
154112 AAGTTGCAATGATGAACCTAGTACCTCA-AGGACATGAAGGGAAATATTTAAGTCGCAACGGTGA
128 AAGTTGCAATGACGAACCTAGTACCTCAGA-GACATGAAGGGAAAGATTTAAGCCACAACGGCGA
154176 ATC
192 ATC
* * * *
154179 CAGTACCGCAAAGATACAAAGGGAAAGGTTTAAGTCGTAATGGCGAACCTAGTACCTCAGAGATA
1 CAGTACCACAAAGACAC-AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACA
* **
154244 TGAAGGGGAAAATTTAAGCCGCAACGGCAAATCCAGTACCACGAAGACACGAAGGGAAAGGTTTA
65 TGAAGGGGAAAATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAC-AAGGGAAAGGTTTA
* * *
154309 AGTTGCAATGGCAAACCTCA-TACCTCAGA-AGCATGAAAGGAAA-ATTTA
129 AGTTGCAATGACGAACCT-AGTACCTCAGAGA-CATGAAGGGAAAGATTTA
154357 GGCCGCAATG
Statistics
Matches: 314, Mismatches: 51, Indels: 17
0.82 0.13 0.04
Matches are distributed among these distances:
193 5 0.02
194 92 0.29
195 9 0.03
196 123 0.39
197 79 0.25
198 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (194 bp):
CAGTACCACAAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACAT
GAAGGGGAAAATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAG
TTGCAATGACGAACCTAGTACCTCAGAGACATGAAGGGAAAGATTTAAGCCACAACGGCGAATC
Found at i:155038 original size:17 final size:16
Alignment explanation
Indices: 155010--155051 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
155000 TTTAAATACA
155010 AATTTATTTAAATTTG
1 AATTTATTTAAATTTG
155026 AATTTACTTTAAATTTG
1 AATTTA-TTTAAATTTG
*
155043 AACTTATTT
1 AATTTATTT
155052 TGGGTTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (16 bp):
AATTTATTTAAATTTG
Found at i:155857 original size:22 final size:23
Alignment explanation
Indices: 155815--155865 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
155805 TAAACAGTAG
155815 TAATAAATAGCATCAATAAATAC
1 TAATAAATAGCATCAATAAATAC
* * *
155838 TAATAAA-AGTATTAATAAATAT
1 TAATAAATAGCATCAATAAATAC
155860 TAATAA
1 TAATAA
155866 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (23 bp):
TAATAAATAGCATCAATAAATAC
Found at i:155868 original size:35 final size:35
Alignment explanation
Indices: 155791--155871 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
155781 TTTAACAAAC
*
155791 AATAAT-AATATTAATAAACAGTAGTAATAAATAG
1 AATAATAAATACTAATAAACAGTAGTAATAAATAG
* * *
155825 CATCAATAAATACTAATAAA-AGTATTAATAAATATT
1 AAT-AATAAATACTAATAAACAGTAGTAATAAATA-G
155861 AATAATAAATA
1 AATAATAAATA
155872 AAAAAGAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
34 2 0.05
35 24 0.62
36 13 0.33
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (35 bp):
AATAATAAATACTAATAAACAGTAGTAATAAATAG
Found at i:156539 original size:15 final size:15
Alignment explanation
Indices: 156521--156557 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
156511 CATGCTCGTC
*
156521 CGACCCGACCCGATT
1 CGACCCGACCAGATT
156536 CGACCCGACCAGATT
1 CGACCCGACCAGATT
*
156551 TGACCCG
1 CGACCCG
156558 CTAAGGATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.43, G:0.22, T:0.14
Consensus pattern (15 bp):
CGACCCGACCAGATT
Found at i:157002 original size:30 final size:30
Alignment explanation
Indices: 156941--157041 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
156931 AGCTATCCAT
* * *
156941 AAATTACATTTTTACCCTCAAAC-TTTCCA
1 AAATTCCATTTTAACCCTCAAACTTTTTCA
* *
156970 AAATTCCATTTTCAACCCT-ATATTTTTTCA
1 AAATTCCATTTT-AACCCTCAAACTTTTTCA
* *
157000 AAAATCACATTTTTACCCTCAAACTTTTT-A
1 AAATTC-CATTTTAACCCTCAAACTTTTTCA
157030 AAATTCCATTTT
1 AAATTCCATTTT
157042 TTACAAAGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
29 19 0.33
30 26 0.45
31 13 0.22
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.43
Consensus pattern (30 bp):
AAATTCCATTTTAACCCTCAAACTTTTTCA
Found at i:157045 original size:30 final size:29
Alignment explanation
Indices: 156941--157042 Score: 107
Period size: 29 Copynumber: 3.4 Consensus size: 29
156931 AGCTATCCAT
* **
156941 AAATTACATTTTTACCCTCAAACTTTCCA
1 AAATTCCATTTTTACCCTCAAACTTTTTA
* * *
156970 AAATTCCATTTTCAACCCT-ATATTTTTTCA
1 AAATTCCATTTT-TACCCTCAAACTTTTT-A
*
157000 AAAATCACATTTTTACCCTCAAACTTTTTA
1 AAATTC-CATTTTTACCCTCAAACTTTTTA
157030 AAATTCCATTTTT
1 AAATTCCATTTTT
157043 TACAAAGTAC
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
29 23 0.40
30 22 0.38
31 13 0.22
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATTCCATTTTTACCCTCAAACTTTTTA
Found at i:157146 original size:29 final size:28
Alignment explanation
Indices: 157052--157146 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 28
157042 TTACAAAGTA
*
157052 CATTTTTACCCTCGAACTTTCC-AAAATT
1 CATTTTTACCCTCAAAC-TTCCAAAAATT
**
157080 CTATTTTTAACCC-CAATTTTTCCAAAAATT
1 C-ATTTTT-ACCCTCAA-ACTTCCAAAAATT
157110 ACCA-TTTTACCCTCAAACTTCCAAAAACTT
1 --CATTTTTACCCTCAAACTTCCAAAAA-TT
157140 CATTTTT
1 CATTTTT
157147 GACCTCGATT
Statistics
Matches: 53, Mismatches: 5, Indels: 17
0.71 0.07 0.23
Matches are distributed among these distances:
28 3 0.06
29 29 0.55
30 19 0.36
31 1 0.02
32 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.01, T:0.40
Consensus pattern (28 bp):
CATTTTTACCCTCAAACTTCCAAAAATT
Found at i:157219 original size:61 final size:61
Alignment explanation
Indices: 157055--157242 Score: 174
Period size: 61 Copynumber: 3.2 Consensus size: 61
157045 CAAAGTACAT
* * * **
157055 TTTTACCCTCGAACTTTCCAAAATTCTATTTTTAACCC-CA-ATTTTTCCAAAAATTACCA
1 TTTTACCCTCGAACTTTCAAAAATTCCATTTTTAACCCTCATTTTTTTCCAAAAAGCACCA
* * *
157114 TTTTACCCTCAAACTTCCAAAAACTT-CATTTTTGA-CCTCGATTTTTTTCCAAAAAGCACCA
1 TTTTACCCTCGAACTTTCAAAAA-TTCCATTTTTAACCCTC-ATTTTTTTCCAAAAAGCACCA
* ** * * **
157175 TTTTACCCCCGAACTTTTGAAAATTCCATTTTTTACCCTTATTTTTTT---AAAATTACCA
1 TTTTACCCTCGAACTTTCAAAAATTCCATTTTTAACCCTCATTTTTTTCCAAAAAGCACCA
157233 TTTTACCCTC
1 TTTTACCCTC
157243 AGATGTCTAA
Statistics
Matches: 105, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
58 19 0.18
59 28 0.27
60 5 0.05
61 50 0.48
62 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (61 bp):
TTTTACCCTCGAACTTTCAAAAATTCCATTTTTAACCCTCATTTTTTTCCAAAAAGCACCA
Found at i:157286 original size:120 final size:120
Alignment explanation
Indices: 157055--157326 Score: 268
Period size: 120 Copynumber: 2.3 Consensus size: 120
157045 CAAAGTACAT
* *
157055 TTTTACCCTCGAACTTTCCAAAATTCTATTTTTAACCCCAATTTTTCCAAAAATTACCATTTTAC
1 TTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTTTCCAAAAATTACCATTTTAC
* ** *
157120 CCTCAAACTTCCAAAAACTTCATTTTTGACCTCGATTTTTTTCCAAAAAGCACCA
66 CCTCAAACTTCCAAAAACTTCATTTTTGACCTCCATACTTTCCCAAAAAGCACCA
** * ** **
157175 TTTTACCCCCGAACTTTTGAAAATTCCATTTTTTACCCTTATTTTT-TTAAAATTACCATTTTAC
1 TTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTTTCCAAAAATTACCATTTTAC
* * * **
157239 CCTCAGA-TGTCTAAAAA-TTCTATTTTTTTAGCC-CCATACTTTCCC-AAAATTACCA
66 CCTCAAACT-TCCAAAAACTTC-A-TTTTTGA-CCTCCATACTTTCCCAAAAAGCACCA
* *
157294 TTTTGCCCCCCGAA-TGTCCAAAATTACCATTTT
1 TTTT-ACCCCCGAACTTTCCAAAATT-CCATTTT
157327 ACCTCCGGGT
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
118 4 0.03
119 50 0.40
120 68 0.55
121 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.04, T:0.40
Consensus pattern (120 bp):
TTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTTTCCAAAAATTACCATTTTAC
CCTCAAACTTCCAAAAACTTCATTTTTGACCTCCATACTTTCCCAAAAAGCACCA
Found at i:158798 original size:2 final size:2
Alignment explanation
Indices: 158791--158831 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
158781 ATCACTTCAT
*
158791 AC AC AC AC AC AC AC AC GC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
158832 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.49, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:159020 original size:21 final size:22
Alignment explanation
Indices: 158996--159048 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
158986 TTGTACTAAC
158996 TCTACCGATACAAGT-ATG-AA
1 TCTACCGATACAAGTCATGCAA
159016 TTCTACCGATACAAGTCATGCAA
1 -TCTACCGATACAAGTCATGCAA
159039 -CTACCGATAC
1 TCTACCGATAC
159049 TAAAAACTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 25 0.83
22 3 0.10
23 2 0.07
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (22 bp):
TCTACCGATACAAGTCATGCAA
Found at i:162627 original size:29 final size:28
Alignment explanation
Indices: 162522--162621 Score: 148
Period size: 27 Copynumber: 3.5 Consensus size: 28
162512 CAAATAATTT
*
162522 TAAAACTATTAAAATTATTTTTTAAAATA
1 TAAAATTATT-AAATTATTTTTTAAAATA
162551 TAAAATT-TTAAATTATTTTTTAAAATA
1 TAAAATTATTAAATTATTTTTTAAAATA
*
162578 TAAAATTATTAAACTTATTTTTTGAAATAA
1 TAAAATTATTAAA-TTATTTTTTAAAAT-A
162608 TAAAATTATTAAAT
1 TAAAATTATTAAAT
162622 AGTTTTAATT
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
27 25 0.38
28 7 0.11
29 20 0.30
30 14 0.21
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (28 bp):
TAAAATTATTAAATTATTTTTTAAAATA
Found at i:162628 original size:56 final size:56
Alignment explanation
Indices: 162522--162629 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
162512 CAAATAATTT
*
162522 TAAAACTATTAAAATTATTTTTTAAAATATAAAATTTTAAATTATTTTTTAAAATA
1 TAAAACTATTAAAATTATTTTTTAAAATATAAAATTTTAAATTATGTTTTAAAATA
* * *
162578 TAAAATTATTAAACTTATTTTTTGAAATAATAAAATTATTAAA-TA-GTTTTAA
1 TAAAACTATTAAAATTATTTTTTAAAAT-ATAAAATT-TTAAATTATGTTTTAA
162630 TTTCCATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
56 31 0.67
57 10 0.22
58 5 0.11
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (56 bp):
TAAAACTATTAAAATTATTTTTTAAAATATAAAATTTTAAATTATGTTTTAAAATA
Found at i:163044 original size:42 final size:42
Alignment explanation
Indices: 162955--163063 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
162945 TTTCTCAATG
* * *
162955 ATTTAACCAACTTGGTTTGGATCTTGGTCGATACATTCACTA
1 ATTTAACCAGCTTGGTTTGGTTCTTGCTCGATACATTCACTA
* *
162997 ATTTAACCAGCTTGGTTTGGTTCTTGCTCGATACATTTGA-TG
1 ATTTAACCAGCTTGGTTTGGTTCTTGCTCGATACA-TTCACTA
* *
163039 GTTTAACAAGCTTGGTTTGGTTCTT
1 ATTTAACCAGCTTGGTTTGGTTCTT
163064 CTTGTTGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 56 0.95
43 3 0.05
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (42 bp):
ATTTAACCAGCTTGGTTTGGTTCTTGCTCGATACATTCACTA
Found at i:163863 original size:20 final size:20
Alignment explanation
Indices: 163838--163883 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
163828 CCGAAAATCC
* *
163838 CAAAATTTTGGAACTTAAAT
1 CAAAATTTTGAAACCTAAAT
163858 CAAAATTTTGAAACCTAAAT
1 CAAAATTTTGAAACCTAAAT
163878 CAAAAT
1 CAAAAT
163884 CTCCAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (20 bp):
CAAAATTTTGAAACCTAAAT
Found at i:164003 original size:16 final size:16
Alignment explanation
Indices: 163984--164037 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
163974 AATTTTATTA
163984 TTTAAAAAATAATAAT
1 TTTAAAAAATAATAAT
** * *
164000 TTTAATAATTTTATATT
1 TTTAA-AAAATAATAAT
164017 TTTAAAAAATAATAAT
1 TTTAAAAAATAATAAT
164033 TTTAA
1 TTTAA
164038 TAATTTAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTAAAAAATAATAAT
Found at i:164004 original size:32 final size:33
Alignment explanation
Indices: 163968--164043 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
163958 ATTAAAATTA
163968 TTTAATAATTTTAT-TATTTAAAAAATAATAAT
1 TTTAATAATTTTATATATTTAAAAAATAATAAT
*
164000 TTTAATAATTTTATATTTTTAAAAAATAATAAT
1 TTTAATAATTTTATATATTTAAAAAATAATAAT
164033 TTTAATAATTT
1 TTTAATAATTT
164044 AAAATTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 14 0.33
33 28 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
TTTAATAATTTTATATATTTAAAAAATAATAAT
Found at i:164007 original size:9 final size:9
Alignment explanation
Indices: 163993--164043 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
163983 ATTTAAAAAA
163993 TAATAATTT
1 TAATAATTT
164002 TAATAATTT
1 TAATAATTT
*
164011 T-ATATTTT
1 TAATAATTT
**
164019 TAA-AA-AA
1 TAATAATTT
164026 TAATAATTT
1 TAATAATTT
164035 TAATAATTT
1 TAATAATTT
164044 AAAATTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
7 3 0.09
8 10 0.30
9 20 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAATAATTT
Found at i:164044 original size:24 final size:24
Alignment explanation
Indices: 164002--164047 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
163992 ATAATAATTT
*
164002 TAATAATTTTATATTTTTAAAAAA
1 TAATAATTTTATATATTTAAAAAA
164026 TAATAATTTTA-ATAATTTAAAA
1 TAATAATTTTATAT-ATTTAAAA
164048 TTATTTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAATAATTTTATATATTTAAAAAA
Found at i:182612 original size:113 final size:113
Alignment explanation
Indices: 182466--182696 Score: 345
Period size: 113 Copynumber: 2.0 Consensus size: 113
182456 TCATTAACCC
* * * *
182466 AAAGAAACTTAATAGGAAGAAGATATTGGAACCAAATATATTGAATCTTTTGGTTAATGAGTTTT
1 AAAGAAACTTAACAGGAAGAAAACATTGGAACCAAAGATATTGAATCTTTTGGTTAATGAGTTTT
* * * *
182531 AAAGATTTAAGCTTTGAGACAGATTTACAACTAAAAATATTGGAATCA
66 AAAGATTCAAGCTTTAAGAAAAATTTACAACTAAAAATATTGGAATCA
* *
182579 AAAGAAACTTAACGGGAAGAAAACATTGGAACCAAAGATATTGAATCTTTTGGTTAATGGGTTTT
1 AAAGAAACTTAACAGGAAGAAAACATTGGAACCAAAGATATTGAATCTTTTGGTTAATGAGTTTT
** *
182644 AAAGATTCAAGCTTTAAGAAAAATTTGTAACTAAAGATATTGGAATCA
66 AAAGATTCAAGCTTTAAGAAAAATTTACAACTAAAAATATTGGAATCA
182692 AAAGA
1 AAAGA
182697 TATGAAGATG
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 105 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (113 bp):
AAAGAAACTTAACAGGAAGAAAACATTGGAACCAAAGATATTGAATCTTTTGGTTAATGAGTTTT
AAAGATTCAAGCTTTAAGAAAAATTTACAACTAAAAATATTGGAATCA
Found at i:185227 original size:29 final size:30
Alignment explanation
Indices: 185168--185227 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
185158 GGATGTTATT
* * * *
185168 TATAATAGTAAAATTTAATTTTAATTGATA
1 TATAATAGTAAAATATAATTTAAAATAATA
*
185198 TATAATTGTAAAA-ATAATTTAAAATAATA
1 TATAATAGTAAAATATAATTTAAAATAATA
185227 T
1 T
185228 CTATTAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (30 bp):
TATAATAGTAAAATATAATTTAAAATAATA
Found at i:185401 original size:10 final size:10
Alignment explanation
Indices: 185388--185425 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
185378 ATTAATTTAA
185388 AATAATATCT
1 AATAATATCT
185398 AATAATAAT-T
1 AATAAT-ATCT
185408 AATTAATATCT
1 AA-TAATATCT
185419 AATAATA
1 AATAATA
185426 CTCAATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (10 bp):
AATAATATCT
Found at i:185432 original size:21 final size:21
Alignment explanation
Indices: 185390--185432 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
185380 TAATTTAAAA
*
185390 TAATATCTAATAATAATTAAT
1 TAATATCTAATAATAATCAAT
*
185411 TAATATCTAATAATACTCAAT
1 TAATATCTAATAATAATCAAT
185432 T
1 T
185433 TATAATGGTA
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:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATATCTAATAATAATCAAT
Found at i:188795 original size:19 final size:21
Alignment explanation
Indices: 188748--188797 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
188738 CAGATTTAAA
188748 ATTAATTTAATAATAATATTT
1 ATTAATTTAATAATAATATTT
*
188769 ACT-A-TTAATAA-AAT-TTT
1 ATTAATTTAATAATAATATTT
188786 ATTAATTTAATA
1 ATTAATTTAATA
188798 TTTATTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 5 0.20
18 4 0.16
19 13 0.52
20 1 0.04
21 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAATTTAATAATAATATTT
Found at i:189222 original size:32 final size:33
Alignment explanation
Indices: 189185--189251 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
189175 GGGAGCCCAC
* **
189185 GTGGGTGGTGGGGTGGGGAGGGTTTT-AGTTTT
1 GTGGGTCGTGGGGCAGGGAGGGTTTTGAGTTTT
*
189217 GTGGGTCGTGGGGCAGGGATGGTTTTGAGTTTT
1 GTGGGTCGTGGGGCAGGGAGGGTTTTGAGTTTT
189250 GT
1 GT
189252 ACCCGCAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.07, C:0.03, G:0.52, T:0.37
Consensus pattern (33 bp):
GTGGGTCGTGGGGCAGGGAGGGTTTTGAGTTTT
Found at i:193038 original size:47 final size:44
Alignment explanation
Indices: 192954--193081 Score: 148
Period size: 44 Copynumber: 2.8 Consensus size: 44
192944 TAGAATTCTT
* * *
192954 TCCATTAAATCTGTCCAATGGATGCTTAAATCCTTAAGTCTTCTTCCC
1 TCCATTAAATTTGT-TAATGAATGCTTAAATCCTTAAG---TCTTCCC
* * *
193002 TCCATTAAATTTGTTAATGAATACTTGAATCCTTAAGTGTTCCC
1 TCCATTAAATTTGTTAATGAATGCTTAAATCCTTAAGTCTTCCC
* *
193046 TCCATTAAATTCGTTCATGAATGCTTAAATCCTTAA
1 TCCATTAAATTTGTTAATGAATGCTTAAATCCTTAA
193082 AGCTTTATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 38 0.54
47 19 0.27
48 13 0.19
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (44 bp):
TCCATTAAATTTGTTAATGAATGCTTAAATCCTTAAGTCTTCCC
Found at i:193455 original size:44 final size:44
Alignment explanation
Indices: 193392--193556 Score: 240
Period size: 44 Copynumber: 3.8 Consensus size: 44
193382 AAACACATCA
** *
193392 CATTAAATTTGTTCATGAATGCTTGAATCCTTAAGTCTTCCCTC
1 CATTAAATTCATTCATGAATGTTTGAATCCTTAAGTCTTCCCTC
* * *
193436 CATTAAATTCGTTCATGAATGTTTGAATCTTTAGGTCTTCCCTC
1 CATTAAATTCATTCATGAATGTTTGAATCCTTAAGTCTTCCCTC
* *
193480 CATTAAATTCATTCATGAATGTTTGAATCCTTAAATCTTTCCTC
1 CATTAAATTCATTCATGAATGTTTGAATCCTTAAGTCTTCCCTC
* *
193524 TATTAAATTCATTCATGAATGATTGAATCCTTA
1 CATTAAATTCATTCATGAATGTTTGAATCCTTA
193557 GATTCTGATA
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 110 1.00
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.42
Consensus pattern (44 bp):
CATTAAATTCATTCATGAATGTTTGAATCCTTAAGTCTTCCCTC
Found at i:194348 original size:22 final size:23
Alignment explanation
Indices: 194323--194366 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
194313 ACCACAAGTT
194323 CTTTATTT-AAAATGCGAATAAG
1 CTTTATTTAAAAATGCGAATAAG
*
194345 CTTTATTTAAAAATGTGAATAA
1 CTTTATTTAAAAATGCGAATAA
194367 AATATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (23 bp):
CTTTATTTAAAAATGCGAATAAG
Found at i:199499 original size:19 final size:20
Alignment explanation
Indices: 199461--199499 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
199451 ATTTAAATTA
* *
199461 TATTTTTTTAAAATTTATTT
1 TATTGTTTTAAAATTGATTT
199481 TATTGTTTT-AAATTGATTT
1 TATTGTTTTAAAATTGATTT
199500 ATTATTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TATTGTTTTAAAATTGATTT
Found at i:199552 original size:18 final size:17
Alignment explanation
Indices: 199520--199554 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
199510 AATTATGTAT
*
199520 TTAAAAATAGAATTTAA
1 TTAAAAATACAATTTAA
199537 TTAAAAATACATATTTAA
1 TTAAAAATACA-ATTTAA
199555 AGAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
TTAAAAATACAATTTAA
Found at i:199593 original size:20 final size:21
Alignment explanation
Indices: 199570--199611 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
199560 AATAAATCAA
199570 TTTAAAACAATA-AA-TTAAAT
1 TTTAAAA-AATATAATTTAAAT
199590 TTTAAAAAATATAATTTAAAT
1 TTTAAAAAATATAATTTAAAT
199611 T
1 T
199612 AAATAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAAAAAATATAATTTAAAT
Found at i:205127 original size:17 final size:17
Alignment explanation
Indices: 205105--205137 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
205095 AGGCGTTGCC
205105 TCATCA-CATCACACAAA
1 TCATCATCATCA-ACAAA
205122 TCATCATCATCAACAA
1 TCATCATCATCAACAA
205138 GGGTAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (17 bp):
TCATCATCATCAACAAA
Found at i:206276 original size:22 final size:22
Alignment explanation
Indices: 206248--206291 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
206238 CTACTGTATT
206248 CTACGGATTGAGTTAGAACTTA
1 CTACGGATTGAGTTAGAACTTA
206270 CTACGGATTGAGTTAGAACTTA
1 CTACGGATTGAGTTAGAACTTA
206292 GAGCAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
CTACGGATTGAGTTAGAACTTA
Found at i:221665 original size:22 final size:22
Alignment explanation
Indices: 221636--221698 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
221626 TTAACGGTGG
221636 AAATTAAATTATAATTTTTATAA
1 AAATTAAATTATAATTTTTA-AA
* * *
221659 TAATAAAAATATAATTTTTAAA
1 AAATTAAATTATAATTTTTAAA
221681 AAATTAAATTATAATTTT
1 AAATTAAATTATAATTTT
221699 ATTATTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTAAATTATAATTTTTAAA
Found at i:221711 original size:45 final size:46
Alignment explanation
Indices: 221636--221725 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 46
221626 TTAACGGTGG
*
221636 AAATTAAATTATAATTTTTATAATAATAAAAATA-TAATTTTTAAA
1 AAATTAAATTATAATTTTTATAATAATAAAAATATTAAATTTTAAA
* **
221681 AAATTAAATTATAA-TTTTATTATTTTTAAAAATATTAAATTTTAA
1 AAATTAAATTATAATTTTTA-TAATAATAAAAATATTAAATTTTAA
221726 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
44 5 0.13
45 25 0.64
46 9 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (46 bp):
AAATTAAATTATAATTTTTATAATAATAAAAATATTAAATTTTAAA
Found at i:221721 original size:31 final size:30
Alignment explanation
Indices: 221672--221740 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 30
221662 TAAAAATATA
221672 ATTTTTAAAAAATTAAATTATAATTTTATT
1 ATTTTTAAAAAATTAAATTATAATTTTATT
*
221702 ATTTTTAAAAATATTAAATTTTAATTTTATT
1 ATTTTTAAAAA-ATTAAATTATAATTTTATT
221733 -TTTATTAA
1 ATTT-TTAA
221741 TTTAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 14 0.39
31 22 0.61
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTTTAAAAAATTAAATTATAATTTTATT
Found at i:221732 original size:28 final size:30
Alignment explanation
Indices: 221672--221753 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 30
221662 TAAAAATATA
*
221672 ATTTTTAAAAA-ATTAAATTATAATTTTATT
1 ATTTTTAAAAATATTAAATTTTAA-TTTATT
221702 ATTTTTAAAAATATTAAATTTTAA-TT-TT
1 ATTTTTAAAAATATTAAATTTTAATTTATT
**
221730 ATTTTTATTAAT-TTAAAATTTTAA
1 ATTTTTAAAAATATT-AAATTTTAA
221754 AAAAATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 2 0.04
28 21 0.45
29 2 0.04
30 11 0.23
31 11 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTTTAAAAATATTAAATTTTAATTTATT
Done.