Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015275.1 Kokia drynarioides strain JFW-HI SEQ_130320, 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: 493191
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Warning! 391 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2349 original size:50 final size:50
Alignment explanation
Indices: 2254--2349 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
2244 ACACTTCTAG
* * * * *
2254 CGATACAACGAGTTCTAGAGAGCTAGGAAAGATTTTCTTGTAACTTTTAC
1 CGATACAACGAGTTCAAAAGAGCTAGGAAAGATTTCCCTGCAACTTTTAC
2304 CGATACAACGAGTTCAAAAGAGCTAGGAAAGATTTCCCTGCAACTT
1 CGATACAACGAGTTCAAAAGAGCTAGGAAAGATTTCCCTGCAACTT
2350 CCACTGATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (50 bp):
CGATACAACGAGTTCAAAAGAGCTAGGAAAGATTTCCCTGCAACTTTTAC
Found at i:2359 original size:50 final size:50
Alignment explanation
Indices: 2254--2361 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 50
2244 ACACTTCTAG
* * * * * **
2254 CGATACAACGAGTTCTAGAGAGCTAGGAAAGATTTTCTTGTAACTTTTAC
1 CGATACAACGAGTTCAAAAGAGCTAGGAAAGATTTCCCTGCAACTTCCAC
2304 CGATACAACGAGTTCAAAAGAGCTAGGAAAGATTTCCCTGCAACTTCCAC
1 CGATACAACGAGTTCAAAAGAGCTAGGAAAGATTTCCCTGCAACTTCCAC
*
2354 TGATACAA
1 CGATACAA
2362 GTGATACAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (50 bp):
CGATACAACGAGTTCAAAAGAGCTAGGAAAGATTTCCCTGCAACTTCCAC
Found at i:7534 original size:15 final size:15
Alignment explanation
Indices: 7516--7562 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
7506 TTTTTTCATA
7516 TTATATTTTAATTAT
1 TTATATTTTAATTAT
* *
7531 TTATATTTGAAATA-
1 TTATATTTTAATTAT
* *
7545 TTATATTGTAATCAT
1 TTATATTTTAATTAT
7560 TTA
1 TTA
7563 CGTTAGTGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:8094 original size:18 final size:19
Alignment explanation
Indices: 8070--8119 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
8060 TTTCAAAAAT
*
8070 ATAAAAAATTATT-TTAAT
1 ATAAAAAATTATTATTAAG
* *
8088 TTAAAAAAATATTATTAAG
1 ATAAAAAATTATTATTAAG
8107 ATAATAAAATTAT
1 ATAA-AAAATTAT
8120 ATTTTTACTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.44
19 7 0.28
20 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAAAAAATTATTATTAAG
Found at i:8096 original size:19 final size:20
Alignment explanation
Indices: 8072--8119 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
8062 TCAAAAATAT
**
8072 AAAAAATTATT-TTAATTTA
1 AAAAAATTATTATTAAGATA
8091 AAAAAA-TATTATTAAGATA
1 AAAAAATTATTATTAAGATA
*
8110 ATAAAATTAT
1 AAAAAATTAT
8120 ATTTTTACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAAAATTATTATTAAGATA
Found at i:8115 original size:20 final size:20
Alignment explanation
Indices: 8092--8142 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
8082 TTTAATTTAA
8092 AAAAATATTATTAAGATAAT
1 AAAAATATTATTAAGATAAT
* **
8112 AAAATTATATTTTTACTATAAT
1 AAAA--ATATTATTAAGATAAT
8134 AAAAATATT
1 AAAAATATT
8143 CAATTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.35
22 17 0.65
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAATATTATTAAGATAAT
Found at i:11044 original size:16 final size:16
Alignment explanation
Indices: 11025--11072 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
11015 AGAACAACAT
11025 TTGTTTAGAATAGTTC
1 TTGTTTAGAATAGTTC
* *
11041 TTGTTTAGAATAATTT
1 TTGTTTAGAATAGTTC
*
11057 TTGTTTGATAATAGTT
1 TTGTTT-AGAATAGTT
11073 ATGTTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (16 bp):
TTGTTTAGAATAGTTC
Found at i:15014 original size:82 final size:83
Alignment explanation
Indices: 14871--15038 Score: 320
Period size: 82 Copynumber: 2.0 Consensus size: 83
14861 ATGATGTTTT
*
14871 AACTATCTCACCTATATTTCAAGAGACCTTAAAAAAGTTTCGATTCTTTCATATTCGCCAGATAA
1 AACTATCTCACCTATATTTCAAGAGACCTTAAAAAAGTTTCGATTCTTTCATATTCACCAGATAA
14936 GTAAACCAAACAAACAAG
66 GTAAACCAAACAAACAAG
14954 AACT-TCTCACCTATATTTCAAGAGACCTTAAAAAAGTTTCGATTCTTTCATATTCACCAGATAA
1 AACTATCTCACCTATATTTCAAGAGACCTTAAAAAAGTTTCGATTCTTTCATATTCACCAGATAA
15018 GTAAACCAAACAAACAAG
66 GTAAACCAAACAAACAAG
15036 AAC
1 AAC
15039 AAATTATCTC
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 80 0.95
83 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (83 bp):
AACTATCTCACCTATATTTCAAGAGACCTTAAAAAAGTTTCGATTCTTTCATATTCACCAGATAA
GTAAACCAAACAAACAAG
Found at i:16611 original size:27 final size:22
Alignment explanation
Indices: 16552--16600 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
16542 AGATAAAATT
16552 TTTATTTA-TTTTAATTTAATC
1 TTTATTTATTTTTAATTTAATC
16573 TTTATTTATTTTTAATTTAATC
1 TTTATTTATTTTTAATTTAATC
16595 TTTATT
1 TTTATT
16601 GAATATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATTTATTTTTAATTTAATC
Found at i:34374 original size:18 final size:18
Alignment explanation
Indices: 34289--34374 Score: 72
Period size: 17 Copynumber: 4.8 Consensus size: 18
34279 TTCATTTTGG
*
34289 GTTT-AAATTTAGTTTAAA
1 GTTTAAAATTTAATTT-AA
* **
34307 GTTTAAACTTTTCTTTTAA
1 GTTTAAA-ATTTAATTTAA
*
34326 GTTT-AAATTTAAATTAA
1 GTTTAAAATTTAATTTAA
34343 GTTTAAAA-TTAATTTGAA
1 GTTTAAAATTTAATTT-AA
34361 -TTTAAAATTTAATT
1 GTTTAAAATTTAATT
34375 AATTAAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
17 24 0.44
18 17 0.31
19 8 0.15
20 6 0.11
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (18 bp):
GTTTAAAATTTAATTTAA
Found at i:35069 original size:3 final size:3
Alignment explanation
Indices: 35063--35099 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
35053 TAATTATTTT
*
35063 TAA TAA TAA TAA TAA TAA TAA -AT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
35100 TTATTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 30 0.97
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:35117 original size:23 final size:23
Alignment explanation
Indices: 35026--35108 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
35016 TCAAACGTTT
* **
35026 TAATAATAATAGCATTAATAATCT
1 TAATAATAATA-AATTAATAATAA
* **
35050 TAATAATTAT-TTTTAATAATAA
1 TAATAATAATAAATTAATAATAA
35072 TAATAATAATAAATTAATAATAA
1 TAATAATAATAAATTAATAATAA
* *
35095 TAATATTATTAAAT
1 TAATAATAATAAAT
35109 ATTAAATAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 17 0.35
23 22 0.46
24 9 0.19
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (23 bp):
TAATAATAATAAATTAATAATAA
Found at i:36286 original size:60 final size:59
Alignment explanation
Indices: 36175--36562 Score: 456
Period size: 59 Copynumber: 6.5 Consensus size: 59
36165 GGAGGTCCCT
* * * *
36175 AAACTATCCAAAAATTCCATTTTTACCCTCGAACTTCTAAAAATCTCATTTTTGACTTCG
1 AAACT-TCCAAAAATTTCATTTTTACCCCCGAACTTCAAAAAATCTCATTTTTGACCTCG
36235 AAACTTCCAAAAATTTCATTTTTACCCCCGAACTTACAAAAAATCTCATTTTTGACCTCG
1 AAACTTCCAAAAATTTCATTTTTACCCCCGAACTT-CAAAAAATCTCATTTTTGACCTCG
* ** * * *
36295 AAACTTCCAAAAATTCCATTTTTACCCTTGAACTTCTTAAAAAAATC-CATTTTCGACCCCA
1 AAACTTCCAAAAATTTCATTTTTACCCCCGAACTTC---AAAAAATCTCATTTTTGACCTCG
* * * *
36356 AAACTTCCAAAAATTTCATTTTTACCCCCGAACTTCCAAAAATTTCATTTTTAACCTTG
1 AAACTTCCAAAAATTTCATTTTTACCCCCGAACTTCAAAAAATCTCATTTTTGACCTCG
* * * *
36415 AAACTTCCAAAAACTTCATTTTTGCCCTCGAACTTCCAAAAATCTCATTTTTGACCTCG
1 AAACTTCCAAAAATTTCATTTTTACCCCCGAACTTCAAAAAATCTCATTTTTGACCTCG
** ** * * * *
36474 AAACTTCCAAAAATCCCAATTTTTACCCCTAAACTTCTAAAAAT-TCTATTTTTAACCCCA
1 AAACTTCCAAAAATTTC-ATTTTTACCCCCGAACTTCAAAAAATCTC-ATTTTTGACCTCG
*
36534 AAACTTCCAAAAATCTCATTTTTACCCCC
1 AAACTTCCAAAAATTTCATTTTTACCCCC
36563 ACCAAAATCT
Statistics
Matches: 282, Mismatches: 39, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
58 6 0.02
59 118 0.42
60 106 0.38
61 44 0.16
62 8 0.03
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (59 bp):
AAACTTCCAAAAATTTCATTTTTACCCCCGAACTTCAAAAAATCTCATTTTTGACCTCG
Found at i:36561 original size:29 final size:29
Alignment explanation
Indices: 36175--36561 Score: 335
Period size: 30 Copynumber: 13.0 Consensus size: 29
36165 GGAGGTCCCT
36175 AAACTATCCAAAAAT-TCCATTTTTACCCTCG
1 AAACT-TCCAAAAATCT-CATTTTTACCC-CG
* **
36206 -AACTTCTAAAAATCTCATTTTTGACTTCG
1 AAACTTCCAAAAATCTCATTTTT-ACCCCG
*
36235 AAACTTCCAAAAATTTCATTTTTACCCCCG
1 AAACTTCCAAAAATCTCATTTTTA-CCCCG
* *
36265 -AACTTACAAAAAATCTCATTTTTGACCTCG
1 AAACTT-CCAAAAATCTCATTTTT-ACCCCG
*
36295 AAACTTCCAAAAAT-TCCATTTTTACCCTTG
1 AAACTTCCAAAAATCT-CATTTTTACCC-CG
* * *
36325 -AACTTCTTAAAAAAATC-CATTTTCGACCCCA
1 AAACTTC---CAAAAATCTCATTTT-TACCCCG
*
36356 AAACTTCCAAAAATTTCATTTTTACCCCCG
1 AAACTTCCAAAAATCTCATTTTTA-CCCCG
* **
36386 -AACTTCCAAAAATTTCATTTTTAACCTTG
1 AAACTTCCAAAAATCTCATTTTT-ACCCCG
*
36415 AAACTTCCAAAAA-CTTCATTTTTGCCCTCG
1 AAACTTCCAAAAATC-TCATTTTTACCC-CG
*
36445 -AACTTCCAAAAATCTCATTTTTGACCTCG
1 AAACTTCCAAAAATCTCATTTTT-ACCCCG
* *
36474 AAACTTCCAAAAATCCCAATTTTTACCCCT
1 AAACTTCCAAAAATCTC-ATTTTTACCCCG
* *
36504 AAACTTCTAAAAAT-TCTATTTTTAACCCCA
1 AAACTTCCAAAAATCTC-ATTTTT-ACCCCG
36534 AAACTTCCAAAAATCTCATTTTTACCCC
1 AAACTTCCAAAAATCTCATTTTTACCCC
36562 CACCAAAATC
Statistics
Matches: 292, Mismatches: 37, Indels: 56
0.76 0.10 0.15
Matches are distributed among these distances:
29 101 0.35
30 155 0.53
31 20 0.07
32 16 0.05
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATCTCATTTTTACCCCG
Found at i:36660 original size:113 final size:112
Alignment explanation
Indices: 36336--36648 Score: 285
Period size: 119 Copynumber: 2.7 Consensus size: 112
36326 ACTTCTTAAA
* * ** ** * *
36336 AAAATC-CATTTTCGACCCCAAAACTTCCAAAAATTTCATTTTTACCCCCGAACTTCCAAAAATT
1 AAAATCTCATTTTCGACCTCAAAACTCCCAAAAATCCCATTTTTACCCCTAAACTTCTAAAAATA
* *** * *
36400 TCATTTTTAACCTTGAAACTTCCAAAAA-CTTCATTTTTGCCCTCGAACTTCC
66 CCATTTTTAACCCCAAAACTTCCAAAAATC-TCATTTTTACCC-C---C-ACC
* * *
36452 AAAAATCTCATTTTTGACCTCGAAACTTCCAAAAATCCCAATTTTTACCCCTAAACTTCTAAAAA
1 -AAAATCTCATTTTCGACCTCAAAACTCCCAAAAATCCC-ATTTTTACCCCTAAACTTCTAAAAA
* *
36517 TTCTATTTTTAACCCCAAAACTTCCAAAAATCTCATTTTTACCCCCACC
64 TACCATTTTTAACCCCAAAACTTCCAAAAATCTCATTTTTACCCCCACC
* *
36566 AAAATCTCCATTTTCGACCTCAAAACTCCCAAAATTACCC-TTTTTACCCC-GAA-TGTCTAAAA
1 AAAATCT-CATTTTCGACCTCAAAACTCCCAAAAAT-CCCATTTTTACCCCTAAACT-TCTAAAA
*
36628 GTACCATTTTTAAACCCCAAA
63 ATACCATTTTT-AACCCCAAA
36649 TTTTCCCAAA
Statistics
Matches: 166, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
111 1 0.01
112 17 0.10
113 26 0.16
114 26 0.16
115 4 0.02
117 6 0.04
118 27 0.16
119 58 0.35
120 1 0.01
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.32
Consensus pattern (112 bp):
AAAATCTCATTTTCGACCTCAAAACTCCCAAAAATCCCATTTTTACCCCTAAACTTCTAAAAATA
CCATTTTTAACCCCAAAACTTCCAAAAATCTCATTTTTACCCCCACC
Found at i:37032 original size:97 final size:96
Alignment explanation
Indices: 36913--37098 Score: 225
Period size: 97 Copynumber: 1.9 Consensus size: 96
36903 AAAACTTTAA
* ** *
36913 AATCGAGGTAATATTCTTTTATTT-CGAGTTTCGAAAAT-TTGTGCCTTAACTTACTAGGTGCAA
1 AATCGAGGCAATATTCTTTTATTTACGA-TTTCG-AAATGTTGCCCCTTAACTTACTAGATGCAA
** *
36976 TTTTTTCTTCAAATCGAAATAATCGAATACCCTT
64 -CCTTTCCTCAAATCGAAATAATCGAATACCCTT
* *
37010 AATCGAGGCAATGTT-TCTTTATTTACGATTTTGAAATGTTGCCCCTTAACTTACTAGATGCAAC
1 AATCGAGGCAATATTCT-TTTATTTACGATTTCGAAATGTTGCCCCTTAACTTACTAGATGCAAC
*
37074 CTTTCCTCAAATCGAGATAATCGAA
65 CTTTCCTCAAATCGAAATAATCGAA
37099 CATCCTTTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
96 27 0.36
97 46 0.61
98 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (96 bp):
AATCGAGGCAATATTCTTTTATTTACGATTTCGAAATGTTGCCCCTTAACTTACTAGATGCAACC
TTTCCTCAAATCGAAATAATCGAATACCCTT
Found at i:44515 original size:13 final size:12
Alignment explanation
Indices: 44465--44516 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
44455 TTGAAAATAA
44465 TATAAATTAAAT
1 TATAAATTAAAT
* *
44477 TTTAAAATTATAT
1 TAT-AAATTAAAT
* *
44490 TAGAAAGTAAAT
1 TATAAATTAAAT
44502 TATAATATTAAAT
1 TATAA-ATTAAAT
44515 TA
1 TA
44517 AAAAAAAAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
12 13 0.43
13 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (12 bp):
TATAAATTAAAT
Found at i:46425 original size:18 final size:18
Alignment explanation
Indices: 46402--46438 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46392 TTTATAATAC
*
46402 TTTATATACTATGTTATT
1 TTTATATACTATGTAATT
*
46420 TTTATATATTATGTAATT
1 TTTATATACTATGTAATT
46438 T
1 T
46439 AAAACACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTATATACTATGTAATT
Found at i:60139 original size:17 final size:18
Alignment explanation
Indices: 60112--60153 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
60102 CATTTCAGCA
60112 ATTTATTCTTCTTATTCTT
1 ATTT-TTCTTCTTATTCTT
*
60131 -TTTTTCTTCTTTTTCTT
1 ATTTTTCTTCTTATTCTT
60148 ATTTTT
1 ATTTTT
60154 TTTTTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTCTTCTTATTCTT
Found at i:62474 original size:29 final size:28
Alignment explanation
Indices: 61935--62492 Score: 325
Period size: 29 Copynumber: 19.4 Consensus size: 28
61925 GGAGGTCCTC
* * *
61935 GAACTTCTCAAAAATCACATTTTAACCTT
1 GAACTTC-CAAAAATTACATTTTTACCCT
* * *
61964 CGAACTTCGAAAAATTATA-TTTGACCCTT
1 -GAACTTCCAAAAATTACATTTTTACCC-T
* * *
61993 AAACTTTTCC-AAAATTACATTTTAACCTT
1 GAAC--TTCCAAAAATTACATTTTTACCCT
*
62022 AAACTTCGCAAAAATTACATTTTT-CTCCAT
1 GAACTTC-CAAAAATTACATTTTTAC-CC-T
*
62052 AAACTTCCAAAAATTACATTTTTA-CCT
1 GAACTTCCAAAAATTACATTTTTACCCT
*** * *
62079 CGAACTTTTTAAAATTACA-TTTTCCCCC
1 -GAACTTCCAAAAATTACATTTTTACCCT
* * * *
62107 AAACTTTCAAAAATCACATTTTTACCCCA
1 GAACTTCCAAAAATTACATTTTTA-CCCT
* * *
62136 AAACTTCC-----TCACATTTTTATCCT
1 GAACTTCCAAAAATTACATTTTTACCCT
* *
62159 CGAACTTCTCAAAAATTACATATTTTCCCCC
1 -GAACTTC-CAAAAATTACAT-TTTTACCCT
62190 GAACTTCCAAAAATTACATTTTTACCCT
1 GAACTTCCAAAAATTACATTTTTACCCT
* * *
62218 GAACTTCTAAAAATCACATTTTTACCCCC
1 GAACTTCCAAAAATTACATTTTTA-CCCT
* *
62247 GAACTTCTCAAAAAATACATTTTTGCCCT
1 GAACTTC-CAAAAATTACATTTTTACCCT
* *
62276 AGAACTTCC-AAAATCACATTTCTATCCC-
1 -GAACTTCCAAAAATTACATTTTTA-CCCT
* *
62304 AAACTTCTCAAAAATTATATTTTTACCCT
1 GAACTTC-CAAAAATTACATTTTTACCCT
*** *
62333 CGAACTTTTGAAAATCACATTTTTACCCT
1 -GAACTTCCAAAAATTACATTTTTACCCT
* *
62362 CGAA-TATCTAAAAAATTTACATTTTT-CCCC
1 -GAACT-TC-CAAAAA-TTACATTTTTACCCT
* *
62392 GAACTTCTCAAAAATTACATTTTTGCCCC
1 GAACTTC-CAAAAATTACATTTTTACCCT
* * ** *
62421 GAATTTCTCAAAAATCATGTTTTTACGCT
1 GAACTTC-CAAAAATTACATTTTTACCCT
*
62450 GAACTTTCCTAAAATTACATTTTTATCCCT
1 GAAC-TTCCAAAAATTACATTTTTA-CCCT
*
62480 AAACTTTCCAAAA
1 GAAC-TTCCAAAA
62493 TTATGTTTTA
Statistics
Matches: 415, Mismatches: 77, Indels: 72
0.74 0.14 0.13
Matches are distributed among these distances:
23 2 0.00
24 17 0.04
25 1 0.00
27 28 0.07
28 88 0.21
29 178 0.43
30 86 0.21
31 15 0.04
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (28 bp):
GAACTTCCAAAAATTACATTTTTACCCT
Found at i:62501 original size:29 final size:29
Alignment explanation
Indices: 62431--62501 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
62421 GAATTTCTCA
* * *
62431 AAAATCATGTTTTTACGCTGAACTTTCCT
1 AAAATTATGTTTTTACCCTAAACTTTCCT
**
62460 AAAATTACATTTTTATCCCTAAACTTTCC-
1 AAAATTATGTTTTTA-CCCTAAACTTTCCT
62489 AAAATTATGTTTT
1 AAAATTATGTTTT
62502 ATTCCCGAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 23 0.68
30 11 0.32
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (29 bp):
AAAATTATGTTTTTACCCTAAACTTTCCT
Found at i:62647 original size:15 final size:15
Alignment explanation
Indices: 62627--62677 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
62617 TGATTCATAT
*
62627 TTTATTTTTCTTATA
1 TTTATTTTTCGTATA
62642 TTTA-TTTTCGTATA
1 TTTATTTTTCGTATA
*
62656 TTTATTCATTCGTATA
1 TTTATT-TTTCGTATA
*
62672 ATTATT
1 TTTATT
62678 CGTGCTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.42
15 5 0.16
16 13 0.42
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTATTTTTCGTATA
Found at i:62676 original size:16 final size:16
Alignment explanation
Indices: 62648--62678 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62638 TATATTTATT
*
62648 TTCGTATATTTATTCA
1 TTCGTATAATTATTCA
62664 TTCGTATAATTATTC
1 TTCGTATAATTATTC
62679 GTGCTTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (16 bp):
TTCGTATAATTATTCA
Found at i:74108 original size:39 final size:39
Alignment explanation
Indices: 74063--74458 Score: 223
Period size: 39 Copynumber: 10.2 Consensus size: 39
74053 CCATTGGATT
* *
74063 TTTTACCCCGAACCTAGGGCAGATCACCATCAACCAATC
1 TTTTACCCCGAGCCTAGGGCAGATCACCATCAATCAATC
* * * * * ** * * *
74102 TCTTACCCTGAG-CTTGAGGTATATTGCAATCGATCGATC
1 TTTTACCCCGAGCCTAG-GGCAGATCACCATCAATCAATC
* * *
74141 TTTTTCCCCAAGCCTAGGGCAGATTGCAGCCAT---TCGATC
1 TTTTACCCCGAGCCTAGGGCAGA-T-CA-CCATCAATCAATC
* **
74180 TTTTACCCCTAGCCT-GGGTCAGATCACCATCAGCCAATC
1 TTTTACCCCGAGCCTAGGG-CAGATCACCATCAATCAATC
* * * * *
74219 TTTTACCTCGAGCCTAGGGCAGATTA-CACCTATTAGATC
1 TTTTACCCCGAGCCTAGGGCAGATCACCATCAATCA-ATC
** * *
74258 TTTTACCTTGAGCCTGGGGCAGATCACCATCAACCAATC
1 TTTTACCCCGAGCCTAGGGCAGATCACCATCAATCAATC
* ** * * * *
74297 TCTTACCCCGAGCCTAGGGCAGATTGCAACCATTCGATC
1 TTTTACCCCGAGCCTAGGGCAGATCACCATCAATCAATC
** * *
74336 TTTTACCTTGAGCCTGGGGCAGATCACCATCATTCAATC
1 TTTTACCCCGAGCCTAGGGCAGATCACCATCAATCAATC
* * * * * * *
74375 TCTTACCCCGAGCTTAAGGCAGAT-TCCAGCCATCCGATC
1 TTTTACCCCGAGCCTAGGGCAGATCACCATCAAT-CAATC
* * * *
74414 TCTTACCCCAAGCCT-GGAGCAGATCATCATCATTCAATC
1 TTTTACCCCGAGCCTAGG-GCAGATCACCATCAATCAATC
74453 TTTTAC
1 TTTTAC
74459 ACCAAACCTA
Statistics
Matches: 260, Mismatches: 82, Indels: 30
0.70 0.22 0.08
Matches are distributed among these distances:
36 4 0.02
37 2 0.01
38 17 0.07
39 218 0.84
40 16 0.06
42 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (39 bp):
TTTTACCCCGAGCCTAGGGCAGATCACCATCAATCAATC
Found at i:74186 original size:78 final size:75
Alignment explanation
Indices: 74138--74543 Score: 357
Period size: 78 Copynumber: 5.2 Consensus size: 75
74128 CAATCGATCG
* *
74138 ATCTTTTTCCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTACCCCT-AGCCTGGGTCAG
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGCA-CCATTCGATCTTTTA-CCCTGAGCCTGGGT-AG
74202 ATCACCATCAGCCA
63 ATCACCATCA-CCA
* * * * *
74216 ATCTTTTACCTCGAGCCTAGGGCAGATTACACCTATTAGATCTTTTACCTTGAGCCTGGGGCAGA
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGCACC-ATTCGATCTTTTACCCTGAGCCT-GGGTAGA
74281 TCACCATCAACCA
64 TCACCATC-ACCA
* * *
74294 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATTCGATCTTTTACCTTGAGCCTGGGGCAGA
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGC-ACCATTCGATCTTTTACCCTGAGCCT-GGGTAGA
*
74359 TCACCATCATTCA
64 TCACCATCA-CCA
* * * * * * ** *
74372 ATCTCTTACCCCGAGCTTAAGGCAGATTCCAGCCATCCGATCTCTTACCCCAAGCCTGGAGCAGA
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGCA-CCATTCGATCTTTTACCCTGAGCCTGG-GTAGA
* *
74437 TCATCATCATTCA
64 TCACCATCA-CCA
* * * * * * ** *
74450 ATCTTTTACACCAAACCTAAGGCATATTGCGGCCATTCGATCTTTTACCCTGAGTTTGGGGCAGA
1 ATCTTTTACCCCGAGCCTAGGGCAGATTGC-ACCATTCGATCTTTTACCCTGAGCCT-GGGTAGA
*
74515 TC-CTTATCAACCA
64 TCAC-CATC-ACCA
74528 ATCTTTTACCCCGAGC
1 ATCTTTTACCCCGAGC
74544 AATGGCAGAT
Statistics
Matches: 275, Mismatches: 41, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
77 9 0.03
78 256 0.93
79 10 0.04
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (75 bp):
ATCTTTTACCCCGAGCCTAGGGCAGATTGCACCATTCGATCTTTTACCCTGAGCCTGGGTAGATC
ACCATCACCA
Found at i:74330 original size:156 final size:156
Alignment explanation
Indices: 74146--74543 Score: 469
Period size: 156 Copynumber: 2.6 Consensus size: 156
74136 CGATCTTTTT
*
74146 CCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTACCCCT-AGCCTGGGTCAGATCACCAT
1 CCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTA-CCCTGAGCCTGGGGCAGATCACCAT
* * * * * ***
74210 CAGCCAATCTTTTACCTCGAGCCTAGGGCAGATTACA-CCTATTAGATCTTTTACCTTGAGCCTG
65 CAACCAATCTTTTACCCCGAGCCTAAGGCAGATTACAGCC-ATCAGATCTCTTACCCCAAGCCTG
*
74274 GGGCAGATCACCATCAACCAATCTCTTA
129 GAGCAGATCACCATCAACCAATCTCTTA
* * *
74302 CCCCGAGCCTAGGGCAGATTGCAACCATTCGATCTTTTACCTTGAGCCTGGGGCAGATCACCATC
1 CCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATC
** * * * *
74367 ATTCAATCTCTTACCCCGAGCTTAAGGCAGATTCCAGCCATCCGATCTCTTACCCCAAGCCTGGA
66 AACCAATCTTTTACCCCGAGCCTAAGGCAGATTACAGCCATCAGATCTCTTACCCCAAGCCTGGA
* ** *
74432 GCAGATCATCATCATTCAATCTTTTA
131 GCAGATCACCATCAACCAATCTCTTA
* * * * * ** *
74458 CACCAAACCTAAGGCATATTGCGGCCATTCGATCTTTTACCCTGAGTTTGGGGCAGATC-CTTAT
1 CCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCTGGGGCAGATCAC-CAT
74522 CAACCAATCTTTTACCCCGAGC
65 CAACCAATCTTTTACCCCGAGC
74544 AATGGCAGAT
Statistics
Matches: 203, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
155 4 0.02
156 197 0.97
157 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (156 bp):
CCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATC
AACCAATCTTTTACCCCGAGCCTAAGGCAGATTACAGCCATCAGATCTCTTACCCCAAGCCTGGA
GCAGATCACCATCAACCAATCTCTTA
Found at i:75389 original size:4 final size:4
Alignment explanation
Indices: 75380--75423 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
75370 ATAACTACAT
* * *
75380 ATAA ATAA ATAT ATTA TTAA ATAA AT-A ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
75424 AGAAGTTGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (4 bp):
ATAA
Found at i:75658 original size:18 final size:21
Alignment explanation
Indices: 75635--75679 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
75625 ATCATTTGTT
*
75635 TTAAAAA-A-TAAAA-AAGGG
1 TTAAAAATAGTAAAAGAAGCG
75653 TTAAAAATAGTAAAAGAAGCG
1 TTAAAAATAGTAAAAGAAGCG
75674 TTAAAA
1 TTAAAA
75680 CATATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 5 0.22
21 10 0.43
ACGTcount: A:0.62, C:0.02, G:0.16, T:0.20
Consensus pattern (21 bp):
TTAAAAATAGTAAAAGAAGCG
Found at i:76491 original size:29 final size:30
Alignment explanation
Indices: 76436--76541 Score: 101
Period size: 29 Copynumber: 3.6 Consensus size: 30
76426 CTTAAAAGGT
* * *
76436 CCTCTAACTTCTCAAAAATCACATTTTGAC
1 CCTCGAACTTCTCAAAAATTACTTTTTGAC
* * *
76466 CCCCGAACTTC-CAAATATTACTTTTTTAC
1 CCTCGAACTTCTCAAAAATTACTTTTTGAC
* *
76495 CCTCTAACTTCTTAAAAATTACATTTTTG-C
1 CCTCGAACTTCTCAAAAATTAC-TTTTTGAC
*
76525 TCTCGAACTTC-CAAAAA
1 CCTCGAACTTCTCAAAAA
76542 ACCCTTGAAC
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
29 28 0.47
30 27 0.45
31 5 0.08
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (30 bp):
CCTCGAACTTCTCAAAAATTACTTTTTGAC
Found at i:76522 original size:30 final size:30
Alignment explanation
Indices: 76436--76541 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 30
76426 CTTAAAAGGT
* *
76436 CCTCTAACTTCTCAAAAATCACATTTTGAC
1 CCTCTAACTTCTCAAAAATTACATTTTTAC
* * * *
76466 CCCCGAACTTC-CAAATATTACTTTTTTAC
1 CCTCTAACTTCTCAAAAATTACATTTTTAC
* *
76495 CCTCTAACTTCTTAAAAATTACATTTTTGC
1 CCTCTAACTTCTCAAAAATTACATTTTTAC
* *
76525 TCTCGAACTTC-CAAAAA
1 CCTCTAACTTCTCAAAAA
76542 ACCCTTGAAC
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
29 28 0.47
30 32 0.53
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (30 bp):
CCTCTAACTTCTCAAAAATTACATTTTTAC
Found at i:76589 original size:29 final size:29
Alignment explanation
Indices: 76548--76813 Score: 204
Period size: 29 Copynumber: 9.2 Consensus size: 29
76538 AAAAACCCTT
*
76548 GAACTTC-AAAAAATTACATTTTTACCCC
1 GAACTTCTTAAAAATTACATTTTTACCCC
76576 GAACTTCTTAAAAATTACATTTTTACCCTC
1 GAACTTCTTAAAAATTACATTTTTACCC-C
* *
76606 GAACTTC-TAAAAATCACATTTTTACCCT
1 GAACTTCTTAAAAATTACATTTTTACCCC
*
76634 AAACTT-TTCAAAAATTACATTTTTACCCC
1 GAACTTCTT-AAAAATTACATTTTTACCCC
* * **
76663 TAAACTTC-CAAAAAACACATTTTTTTACCTCC
1 -GAACTTCTTAAAAATTACA--TTTTTACC-CC
* * * * *
76695 GAACATCTCAAAACTTACATTTTTGCCCT
1 GAACTTCTTAAAAATTACATTTTTACCCC
* ** **
76724 GAACTTCTCAAAAACCACATTTTTACCTT
1 GAACTTCTTAAAAATTACATTTTTACCCC
* *
76753 GAACTTTCCT-AAAATTACATTTTTACCCT
1 GAAC-TTCTTAAAAATTACATTTTTACCCC
* * * *
76782 AAACTT-TTCAAAATTAC-GTTTTAACCC
1 GAACTTCTTAAAAATTACATTTTTACCCC
76809 GAACT
1 GAACT
76814 CTCCAAAACT
Statistics
Matches: 193, Mismatches: 33, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
27 12 0.06
28 23 0.12
29 111 0.58
30 24 0.12
31 13 0.07
32 10 0.05
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
GAACTTCTTAAAAATTACATTTTTACCCC
Found at i:76598 original size:77 final size:78
Alignment explanation
Indices: 76470--76618 Score: 228
Period size: 77 Copynumber: 1.9 Consensus size: 78
76460 TTTGACCCCC
* * * * * *
76470 GAACTTCCAAATATTACTTTTTTACCCTCTAACTTCTTAAAAATTACATTTTTGCTCTCGAACTT
1 GAACTTCAAAAAATTACATTTTTACCCTCGAACTTCTTAAAAATTACATTTTTACCCTCGAACTT
76535 CCAAAAAACCCTT
66 CCAAAAAACCCTT
76548 GAACTTCAAAAAATTACATTTTTACCC-CGAACTTCTTAAAAATTACATTTTTACCCTCGAACTT
1 GAACTTCAAAAAATTACATTTTTACCCTCGAACTTCTTAAAAATTACATTTTTACCCTCGAACTT
*
76612 CTAAAAA
66 CCAAAAA
76619 TCACATTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 40 0.62
78 24 0.38
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (78 bp):
GAACTTCAAAAAATTACATTTTTACCCTCGAACTTCTTAAAAATTACATTTTTACCCTCGAACTT
CCAAAAAACCCTT
Found at i:76632 original size:58 final size:58
Alignment explanation
Indices: 76542--76781 Score: 245
Period size: 58 Copynumber: 4.1 Consensus size: 58
76532 CTTCCAAAAA
* * *
76542 ACCCTTGAACTTCAAAAAATTACATTTTTACCCCGAACTTCTTAAAAATTACATTTTT
1 ACCCTCGAACTTCTAAAAATCACATTTTTACCCCGAACTTCTTAAAAATTACATTTTT
**
76600 ACCCTCGAACTTCTAAAAATCACATTTTTACCCTAAACTT-TTCAAAAATTACATTTTT
1 ACCCTCGAACTTCTAAAAATCACATTTTTACCCCGAACTTCTT-AAAAATTACATTTTT
* * * * * *
76658 ACCC-CTAAACTTCCAAAAAACACATTTTTTTACCTCCGAACATCTCAAAACTTACATTTTT
1 ACCCTC-GAACTTCTAAAAATCACA--TTTTTACC-CCGAACTTCTTAAAAATTACATTTTT
* * ** *
76719 GCCCT-GAACTTCTCAAAAACCACATTTTTACCTTGAACTTTCCT-AAAATTACATTTTT
1 ACCCTCGAACTTCT-AAAAATCACATTTTTACCCCGAAC-TTCTTAAAAATTACATTTTT
76777 ACCCT
1 ACCCT
76782 AAACTTTTCA
Statistics
Matches: 149, Mismatches: 24, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
57 3 0.02
58 90 0.60
59 10 0.07
60 14 0.09
61 31 0.21
62 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (58 bp):
ACCCTCGAACTTCTAAAAATCACATTTTTACCCCGAACTTCTTAAAAATTACATTTTT
Found at i:76794 original size:119 final size:118
Alignment explanation
Indices: 76566--76787 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 118
76556 AAAAATTACA
* * *
76566 TTTTTACCCCGAACTTCTTAAAAATTACATTTTTACCCTCGAACTTCTAAAAATCACATTTTTAC
1 TTTTTACCCCGAACATCTCAAAAATTACATTTTTACCCTCGAACTTCTAAAAACCACATTTTTAC
*
76631 CCTAAACTTTTCAAAAATTACATTTTTACCCCTAAACTTCCAAAAAACACATT
66 CCTAAACTTTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAAACACATT
* *
76684 TTTTTACCTCCGAACATCTCAAAACTTACATTTTTGCCCT-GAACTTCTCAAAAACCACATTTTT
1 TTTTTACC-CCGAACATCTCAAAAATTACATTTTTACCCTCGAACTTCT-AAAAACCACATTTTT
* * *
76748 ACCTTGAACTTTCCTAAAATTACATTTTTA-CCCTAAACTT
64 ACCCTAAACTTTCCAAAAATTACATTTTTACCCCTAAACTT
76788 TTCAAAATTA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
118 26 0.28
119 67 0.72
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (118 bp):
TTTTTACCCCGAACATCTCAAAAATTACATTTTTACCCTCGAACTTCTAAAAACCACATTTTTAC
CCTAAACTTTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAAACACATT
Found at i:76968 original size:16 final size:15
Alignment explanation
Indices: 76918--76970 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 15
76908 TTGATTCATG
76918 ATTCGTAT-TTTATT
1 ATTCGTATATTTATT
* *
76932 TTTCTTATATTTATT
1 ATTCGTATATTTATT
76947 -TTCGTATATTTATT
1 ATTCGTATATTTATT
76961 CATTCGTATA
1 -ATTCGTATA
76971 ATTCTTCGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 19 0.58
15 6 0.18
16 8 0.24
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTCGTATATTTATT
Found at i:78218 original size:17 final size:17
Alignment explanation
Indices: 78196--78233 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
78186 AACTAAAATG
*
78196 AATGCAA-CGACAATTAA
1 AATGCAAGC-ACAATAAA
78213 AATGCAAGCACAATAAA
1 AATGCAAGCACAATAAA
78230 AATG
1 AATG
78234 TATAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (17 bp):
AATGCAAGCACAATAAA
Found at i:82376 original size:49 final size:49
Alignment explanation
Indices: 82304--82402 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
82294 TCTAATAGTG
*
82304 AGCATAAGGGTTTAGTTATCTTGGAAAAATCTCTAATGAATCTTCAATA
1 AGCATAAGGGTTTAGCTATCTTGGAAAAATCTCTAATGAATCTTCAATA
82353 AGCATAAGGGTTTAGCTATCTTGGAAAAATCTCTAATGAATCTTCAATA
1 AGCATAAGGGTTTAGCTATCTTGGAAAAATCTCTAATGAATCTTCAATA
82402 A
1 A
82403 AAGCCAGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (49 bp):
AGCATAAGGGTTTAGCTATCTTGGAAAAATCTCTAATGAATCTTCAATA
Found at i:105433 original size:15 final size:16
Alignment explanation
Indices: 105413--105449 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
105403 ATATGTAAAT
*
105413 AAAAATAGAAGAAAA-
1 AAAAATACAAGAAAAG
105428 AAAAAT-CAAGAAAAG
1 AAAAATACAAGAAAAG
105443 AAAAATA
1 AAAAATA
105450 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.78, C:0.03, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAAATACAAGAAAAG
Found at i:108114 original size:11 final size:11
Alignment explanation
Indices: 108098--108133 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
108088 AAACCCAAGG
108098 AAAAAAGAAAA
1 AAAAAAGAAAA
108109 AAAAAAGAGAAA
1 AAAAAAGA-AAA
*
108121 AAAGAAGAAAA
1 AAAAAAGAAAA
108132 AA
1 AA
108134 GTCAAGATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:108140 original size:12 final size:10
Alignment explanation
Indices: 108097--108134 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
108087 GAAACCCAAG
108097 GAAAAAAGAA
1 GAAAAAAGAA
*
108107 -AAAAAAAAGA
1 GAAAAAAGA-A
108117 GAAAAAAGAA
1 GAAAAAAGAA
108127 GAAAAAAG
1 GAAAAAAG
108135 TCAAGATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 7 0.29
10 10 0.42
11 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
GAAAAAAGAA
Found at i:109267 original size:36 final size:36
Alignment explanation
Indices: 109220--109294 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
109210 TACGAAGTAC
*
109220 TCCAGGTTTCATGAACACATATCAGGCTCAGAATGG
1 TCCAGATTTCATGAACACATATCAGGCTCAGAATGG
* * *
109256 TCCAGATTTCATGGACACATATTAGGCTTAGAATGG
1 TCCAGATTTCATGAACACATATCAGGCTCAGAATGG
109292 TCC
1 TCC
109295 TTATCAAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (36 bp):
TCCAGATTTCATGAACACATATCAGGCTCAGAATGG
Found at i:110025 original size:50 final size:49
Alignment explanation
Indices: 109878--110207 Score: 234
Period size: 50 Copynumber: 6.6 Consensus size: 49
109868 GAGAGATTAA
* * * * *
109878 TACAAAAACAAATCTTATA-CCCTAAAGCTGTAAAAGGGCTGATTAAAGC
1 TACAAAAGCAAATCTTATACCCCTAAAGCTATAGAA-GGCAGATTGAAGC
** * * * * * * * *
109927 TGTAAAATCAAAT-ATATA-CCCTAAAACTGTACAGGGACAAATTAAAGC
1 TACAAAAGCAAATCTTATACCCCTAAAGCTATAGAAGG-CAGATTGAAGC
* * * *
109975 TGCAGAGGCAAATCTTATACCCCTAAAGCTATAGAAGGTTAGATTGAAGC
1 TACAAAAGCAAATCTTATACCCCTAAAGCTATAGAAGG-CAGATTGAAGC
* ** *
110025 TGCAAAATTAAATCTTATACCCATAAAGCTATAGAAGAGCAGATTGAAGC
1 TACAAAAGCAAATCTTATACCCCTAAAGCTATAGAAG-GCAGATTGAAGC
* * * * * *
110075 TACAGAAGCAAATCTTATACTCCTAAAGTTGTAGAGGGACAGATTGAAAC
1 TACAAAAGCAAATCTTATACCCCTAAAGCTATAGAAGG-CAGATTGAAGC
* * *
110125 TACAAAACCAAATCTTATACCCCTAAACCTAAAGTTGTAAAGGGACAGATTGAAGC
1 TACAAAAGCAAATCTTATACCCCTAAAGCT--A-TAG--AA-GG-CAGATTGAAGC
*
110181 TACAAAACCAAATCTTATACCCCTAAA
1 TACAAAAGCAAATCTTATACCCCTAAA
110208 ATTGTAGAGG
Statistics
Matches: 223, Mismatches: 47, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
47 2 0.01
48 35 0.16
49 15 0.07
50 127 0.57
51 1 0.00
53 2 0.01
55 1 0.00
56 40 0.18
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (49 bp):
TACAAAAGCAAATCTTATACCCCTAAAGCTATAGAAGGCAGATTGAAGC
Found at i:110100 original size:100 final size:100
Alignment explanation
Indices: 109886--110207 Score: 294
Period size: 100 Copynumber: 3.2 Consensus size: 100
109876 AATACAAAAA
* * * * *
109886 CAAATCTTATA-CCCTAAAGCTGTAAAAGGGCT-GATTAAAGCTGTAAAATCAAAT-ATATACCC
1 CAAATCTTATACCCCTAAAGCTGTAGAA-GGATAGATTGAAGCTGCAAAATCAAATCTTATACCC
* * * * * *
109948 TAAAACTGTA-CAGGGACAAATTAAAGCTGCAGAGG
65 TAAAACTATAGAAGGGACAGATTGAAGCTACAGAAG
* * *
109983 CAAATCTTATACCCCTAAAGCTATAGAAGGTTAGATTGAAGCTGCAAAATTAAATCTTATACCCA
1 CAAATCTTATACCCCTAAAGCTGTAGAAGGATAGATTGAAGCTGCAAAATCAAATCTTATACCC-
* *
110048 TAAAGCTATAGAAGAG-CAGATTGAAGCTACAGAAG
65 TAAAACTATAGAAGGGACAGATTGAAGCTACAGAAG
* * * * * * *
110083 CAAATCTTATACTCCTAAAGTTGTAGAGGGACAGATTGAAACTACAAAACCAAATCTTATACCCC
1 CAAATCTTATACCCCTAAAGCTGTAGAAGGATAGATTGAAGCTGCAAAATCAAATCTTATA-CCC
* * * *
110148 TAAACCTAAAGTTGTAAAGGGACAGATTGAAGCTACAAAAC
65 TAAAACT--A-TAG--AAGGGACAGATTGAAGCTACAGAAG
110189 CAAATCTTATACCCCTAAA
1 CAAATCTTATACCCCTAAA
110208 ATTGTAGAGG
Statistics
Matches: 182, Mismatches: 31, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
97 14 0.08
98 33 0.18
99 7 0.04
100 80 0.44
101 6 0.03
102 1 0.01
103 2 0.01
105 4 0.02
106 35 0.19
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (100 bp):
CAAATCTTATACCCCTAAAGCTGTAGAAGGATAGATTGAAGCTGCAAAATCAAATCTTATACCCT
AAAACTATAGAAGGGACAGATTGAAGCTACAGAAG
Found at i:110184 original size:56 final size:56
Alignment explanation
Indices: 110064--110207 Score: 210
Period size: 56 Copynumber: 2.7 Consensus size: 56
110054 TATAGAAGAG
* * *
110064 CAGATTGAAGCTACAGAAGCAAATCTTATA---CT---CCTAAAGTTGTAGAGGGA
1 CAGATTGAAGCTACAAAACCAAATCTTATACCCCTAAACCTAAAGTTGTAAAGGGA
*
110114 CAGATTGAAACTACAAAACCAAATCTTATACCCCTAAACCTAAAGTTGTAAAGGGA
1 CAGATTGAAGCTACAAAACCAAATCTTATACCCCTAAACCTAAAGTTGTAAAGGGA
110170 CAGATTGAAGCTACAAAACCAAATCTTATACCCCTAAA
1 CAGATTGAAGCTACAAAACCAAATCTTATACCCCTAAA
110208 ATTGTAGAGG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
50 27 0.33
53 2 0.02
56 54 0.65
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (56 bp):
CAGATTGAAGCTACAAAACCAAATCTTATACCCCTAAACCTAAAGTTGTAAAGGGA
Found at i:110685 original size:198 final size:198
Alignment explanation
Indices: 110325--110796 Score: 579
Period size: 198 Copynumber: 2.4 Consensus size: 198
110315 AAGGGCGAAG
* * * * * * *
110325 TAAAACAAGTAAC-GAACCTCAATCTCCTTTAAGTTGCAGTGAAATGGAGCGAAGTTACAACACC
1 TAAAACAAGTAACAG-ATCTCAATCTCCCTGAAATTGTAGTGAAATGGAGTGAAGCTACAACACC
* * ** * * * ***
110389 AAATCCTATACCCTTGAGGTTACAATGGGTCAAATTAAAACCATGAAATTGAATCTTGATCTCCC
65 AAATCCCATACTC-TGAAATTA-AGTTGGTCAAAATAAAACCATGAAAACAAATCTTGATCTCCC
* *
110454 TAAAGTTACAATAGAGCAAAATAAAACTACGACAGCAAATCCTATCTT-TCTGAAGTTGCAGTGA
128 TAAAGTTACAATAGAGCAAAATAAAACTACGACACCAAATCCTATCTTCT-TGAAGTTACAGTGA
110518 AGCAGAT
192 AGCAGAT
* * ** * *
110525 TAAAACAAGTAACATATCTTAATCTCTTTGAAATTGTAGTGGAATGGAGTGAAGCTACAACATCA
1 TAAAACAAGTAACAGATCTCAATCTCCCTGAAATTGTAGTGAAATGGAGTGAAGCTACAACACCA
* * *
110590 AATCTCATACTCTGAAATTAAGTTGGTCAAAATAAAGCCATGAAAACAAATCTTTATCTCCCTAA
66 AATCCCATACTCTGAAATTAAGTTGGTCAAAATAAAACCATGAAAACAAATCTTGATCTCCCTAA
* * * ** *
110655 AGTTACAGTGGAGCAAGATAAAGTTACGACACCAAATCCTATCTTCTTGAAGTTACAGTGAAGCG
131 AGTTACAATAGAGCAAAATAAAACTACGACACCAAATCCTATCTTCTTGAAGTTACAGTGAAGCA
110720 GAT
196 GAT
*
110723 TAAAACAAGTAACAGATCTCAATCTCCCTGAAATTGTAGTGAAATGGAGTGAAGTTACAACACCA
1 TAAAACAAGTAACAGATCTCAATCTCCCTGAAATTGTAGTGAAATGGAGTGAAGCTACAACACCA
110788 AATCCCATA
66 AATCCCATA
110797 TCCCTTAAGT
Statistics
Matches: 230, Mismatches: 40, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
198 161 0.70
199 7 0.03
200 62 0.27
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (198 bp):
TAAAACAAGTAACAGATCTCAATCTCCCTGAAATTGTAGTGAAATGGAGTGAAGCTACAACACCA
AATCCCATACTCTGAAATTAAGTTGGTCAAAATAAAACCATGAAAACAAATCTTGATCTCCCTAA
AGTTACAATAGAGCAAAATAAAACTACGACACCAAATCCTATCTTCTTGAAGTTACAGTGAAGCA
GAT
Found at i:111083 original size:12 final size:13
Alignment explanation
Indices: 111066--111094 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
111056 CTATAAAATC
111066 ATAATTATAA-TT
1 ATAATTATAATTT
111078 ATAATTATAATTT
1 ATAATTATAATTT
111091 ATAA
1 ATAA
111095 AGTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTATAATTT
Found at i:114581 original size:12 final size:12
Alignment explanation
Indices: 114564--114589 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
114554 CTTGTAGAGA
114564 AGAGTTATACGG
1 AGAGTTATACGG
114576 AGAGTTATACGG
1 AGAGTTATACGG
114588 AG
1 AG
114590 GAACTCATAA
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:0.35, C:0.08, G:0.35, T:0.23
Consensus pattern (12 bp):
AGAGTTATACGG
Found at i:119512 original size:204 final size:202
Alignment explanation
Indices: 119162--119775 Score: 962
Period size: 204 Copynumber: 3.0 Consensus size: 202
119152 TCGAGTCAGT
* * * * *
119162 TTGTAACAGCCTAATTTTTAGTGGTGTTAGAAATAGTGGTTTCGGGATCACAACTCCAACGAGTC
1 TTGTAACAGTCTAGTTTTCAGTGGTGTCAGAAATAGTGGTTTC-GGACCACAACTCCAACGAGTC
*
119227 GAGTCATAAATATTATTTATTTAATATTTGTGGCATCATGAGTATCGTATTAAATTTTAGTTAAG
65 GAGTCATAAATATTATTTATTTAATATTTGTGGCGTCATGAGTATCG-ATTAAATTTTAGTTAAG
*
119292 AAATTTTATCGTTTAGATCATTAATTGAGTAAAAAGGACTAAACCGCAAAAGGTGAGAAGCAAAA
129 AAATTTTATCGTTTAGATCATTAATTGAGTAAAAAGGACTAAACCGCAAAAGGTGAGAAGCGAAA
119357 TGCTATTGG
194 TGCTATTGG
* * * *
119366 TTGTAACAATCTAGTTTTCAGTGGTGTCAGAGACAGTGGTTTCAGGACCACAACTCCAACAAGTC
1 TTGTAACAGTCTAGTTTTCAGTGGTGTCAGAAATAGTGGTTTC-GGACCACAACTCCAACGAGTC
*
119431 GATTCATAAATATTATTTATTTAATATTTGTGGCGTCATGAGTATCGCATTAAATTTTAGTTAAG
65 GAGTCATAAATATTATTTATTTAATATTTGTGGCGTCATGAGTATCG-ATTAAATTTTAGTTAAG
*
119496 AAATTTTATCGTTTAGATCATTAATTAAGTAAAAAAGGACTAAACCGCAAAAGGTGAGAAGCGAA
129 AAATTTTATCGTTTAGATCATTAATTGAGT-AAAAAGGACTAAACCGCAAAAGGTGAGAAGCGAA
119561 ATGCTATTGG
193 ATGCTATTGG
*
119571 TTGTAATAGT-TCAGTTTTCAGTGGTGTCAGAAATAGTGGTTTCGAGACCACAACTCCAACGAGT
1 TTGTAACAGTCT-AGTTTTCAGTGGTGTCAGAAATAGTGGTTTCG-GACCACAACTCCAACGAGT
* *
119635 CGAGTCATAAATATTATTTATTTAATATTTGTGGTGTCATGAGTATCG-TAAAATTTTAGTTAAG
64 CGAGTCATAAATATTATTTATTTAATATTTGTGGCGTCATGAGTATCGATTAAATTTTAGTTAAG
* * * *
119699 AAATTTTATCGTTTAGATAATTAATTGAGTAAAAAGGACTAAATCGTAAAAGGTGAGAAAGTGAA
129 AAATTTTATCGTTTAGATCATTAATTGAGTAAAAAGGACTAAACCGCAAAAGGTGAG-AAGCGAA
119764 ATGCTATTGG
193 ATGCTATTGG
119774 TT
1 TT
119776 AAAGGTATTA
Statistics
Matches: 378, Mismatches: 28, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
202 25 0.07
203 61 0.16
204 148 0.39
205 144 0.38
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (202 bp):
TTGTAACAGTCTAGTTTTCAGTGGTGTCAGAAATAGTGGTTTCGGACCACAACTCCAACGAGTCG
AGTCATAAATATTATTTATTTAATATTTGTGGCGTCATGAGTATCGATTAAATTTTAGTTAAGAA
ATTTTATCGTTTAGATCATTAATTGAGTAAAAAGGACTAAACCGCAAAAGGTGAGAAGCGAAATG
CTATTGG
Found at i:122158 original size:9 final size:9
Alignment explanation
Indices: 122144--122176 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
122134 TAATATGTTT
122144 TTTTTAATA
1 TTTTTAATA
122153 TTTTTAATA
1 TTTTTAATA
122162 TCTTTTAATA
1 T-TTTTAATA
122172 TTTTT
1 TTTTT
122177 TAAATTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTAATA
Found at i:122183 original size:9 final size:10
Alignment explanation
Indices: 122143--122183 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
122133 TTAATATGTT
122143 TTTTTTAATA
1 TTTTTTAATA
122153 -TTTTTAATA
1 TTTTTTAATA
*
122162 TCTTTTAATA
1 TTTTTTAATA
122172 TTTTTTAA-A
1 TTTTTTAATA
122181 TTT
1 TTT
122184 GATCACTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:133064 original size:15 final size:14
Alignment explanation
Indices: 133040--133072 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
133030 AAACCTAAAG
133040 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
133054 AAAAAAGAAAAAGAA
1 AAAAAA-AAAAAGAA
133069 AAAA
1 AAAA
133073 GAGAGGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:133124 original size:66 final size:65
Alignment explanation
Indices: 133040--133169 Score: 251
Period size: 66 Copynumber: 2.0 Consensus size: 65
133030 AAACCTAAAG
133040 AAAAAAAAAAAGAAAAAAAAGAAAAAGAAAAAAGAGAGGTCAAGATGAAAATCCGCAAAGGACGN
1 AAAAAAAAAAAGAAAAAAAAGAAAAAGAAAAAAGAGAGGTCAAGATGAAAATCCGCAAAGGACG-
133105 A
65 A
133106 AAAAAAAAAAAGAAAAAAAAGAAAAAGAAAAAAGAGAGGTCAAGATGAAAATCCGCAAAGGACG
1 AAAAAAAAAAAGAAAAAAAAGAAAAAGAAAAAAGAGAGGTCAAGATGAAAATCCGCAAAGGACG
133170 TCTTGAAACC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.67, C:0.08, G:0.20, T:0.05
Consensus pattern (65 bp):
AAAAAAAAAAAGAAAAAAAAGAAAAAGAAAAAAGAGAGGTCAAGATGAAAATCCGCAAAGGACGA
Found at i:133125 original size:15 final size:15
Alignment explanation
Indices: 133105--133138 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
133095 CAAAGGACGN
133105 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
*
133120 AAAAAAGAAAAAGAA
1 AAAAAAAAAAAAGAA
133135 AAAA
1 AAAA
133139 GAGAGGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:133140 original size:13 final size:14
Alignment explanation
Indices: 133105--133138 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
133095 CAAAGGACGN
133105 AAAAAAA-AAAAAG
1 AAAAAAAGAAAAAG
133118 AAAAAAAAGAAAAAG
1 -AAAAAAAGAAAAAG
133133 AAAAAA
1 AAAAAA
133139 GAGAGGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:134090 original size:93 final size:93
Alignment explanation
Indices: 133928--134658 Score: 607
Period size: 93 Copynumber: 7.9 Consensus size: 93
133918 AGTAAACACT
* * ** * *
133928 AAATCCTAAACCCCTGAGTTGTAGTGGGTCAGATTAAAACAATGAAACAGATCTCAATGTCACTG
1 AAATCCTATACCCCTGAGTTGCAGTGGGTCAGATTAAAACAATGAGGCAGATCTCAACGTCCCTG
*
133993 AGGTTACAGTGGAATGGAGTGAAGCACC
66 AGGTTACAGTGGAGTGGAGTGAAGCACC
* * * * * * * *
134021 AAATCCTATACCCCTAAGTCGCTGTGGGTCGGGTTAAAACAATGAGGCATATCTCAACATCCCTA
1 AAATCCTATACCCCTGAGTTGCAGTGGGTCAGATTAAAACAATGAGGCAGATCTCAACGTCCCTG
*
134086 AGGTTATAGTGGAGTGGAGTGAAGCACC
66 AGGTTACAGTGGAGTGGAGTGAAGCACC
* * * * * *
134114 AAATCCTATACCCTTGAGTTACAGTAGGTCAGATTAAAACAATAAAGCAGATCTCAACGTCCTTG
1 AAATCCTATACCCCTGAGTTGCAGTGGGTCAGATTAAAACAATGAGGCAGATCTCAACGTCCCTG
*
134179 AGGTTACTTTGGAGTGGAGTGGAGTGAAGTACC
66 AGGTTAC-----AGTGGAGTGGAGTGAAGCACC
* * * * * * *
134212 AAATCCTACACCCTTGAGTTTCAGTGGGTCAGATTAAAATAATGAGGTAGATCTTAACGTCCTTG
1 AAATCCTATACCCCTGAGTTGCAGTGGGTCAGATTAAAACAATGAGGCAGATCTCAACGTCCCTG
* * *
134277 AGGTTACAATGGAGTGAAGTGAATCACC
66 AGGTTACAGTGGAGTGGAGTGAAGCACC
* * * * *
134305 ---T--TATACCCCTAAGTTGCAATGGGTC-GAATTAAAATAATGGGGCAGATCTCAACGTCCTT
1 AAATCCTATACCCCTGAGTTGCAGTGGGTCAG-ATTAAAACAATGAGGCAGATCTCAACGTCCCT
* * *
134364 GAGGTTACAGTGGATTGAAGTGAAACACC
65 GAGGTTACAGTGGAGTGGAGTGAAGCACC
* * * * * *
134393 AAATCCTATACCTCTGATTTGCAGTGGGAC-GACTAAAACAATGAGGCAGACCTCAACGTCCCTA
1 AAATCCTATACCCCTGAGTTGCAGTGGGTCAGATTAAAACAATGAGGCAGATCTCAACGTCCCTG
*
134457 AGGTTATAGTGGAGTGGAGTGAAGCACC
66 AGGTTACAGTGGAGTGGAGTGAAGCACC
* * * * * ** * * * ** *
134485 AGAGCCTATATCCCTAAATTTATAGTGGATCGGA-T-CAA-AATGAGTAACGATTCTCAATGTCC
1 AAATCCTATACCCCT-GAGTTGCAGTGGGTCAGATTAAAACAATGAGGCA-GA-TCTCAACGTCC
* * *
134547 CTGAGGTTACAGTGGAATGGAGAGAAGTTA-C
63 CTGAGGTTACAGTGGAGTGGAGTGAAG-CACC
* * ** *
134578 --A----ATACCCCTGAGTTGCAGTGAGTTAGATTAAAACAATGAAACA-ATCTCAATGTCCCTG
1 AAATCCTATACCCCTGAGTTGCAGTGGGTCAGATTAAAACAATGAGGCAGATCTCAACGTCCCTG
* *
134636 AGGTTACAATAGAGTGGAGTGAA
66 AGGTTACAGTGGAGTGGAGTGAA
134659 ACTTCAAATC
Statistics
Matches: 513, Mismatches: 106, Indels: 45
0.77 0.16 0.07
Matches are distributed among these distances:
86 43 0.08
87 10 0.02
88 76 0.15
89 6 0.01
90 1 0.00
91 9 0.02
92 66 0.13
93 215 0.42
94 3 0.01
98 84 0.16
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (93 bp):
AAATCCTATACCCCTGAGTTGCAGTGGGTCAGATTAAAACAATGAGGCAGATCTCAACGTCCCTG
AGGTTACAGTGGAGTGGAGTGAAGCACC
Found at i:134783 original size:93 final size:91
Alignment explanation
Indices: 134444--134783 Score: 225
Period size: 93 Copynumber: 3.7 Consensus size: 91
134434 TGAGGCAGAC
* * * * * * * *
134444 CTCAACGTCCCTAAGGTTATAGTGGAGTGGAGTGAAGCACCAGAGCCTATATCCCTAAATTTATA
1 CTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG-ACTAGATCCTATATCCCTGAAGTTATA
*
134509 GTG-GATCGGATCAAAA-TGAGTAACGAT-T
65 GTGAG-T-GGATCAAAACAG-GTAAC-ATAT
* * * * **
134537 CTCAATGTCCCTGAGGTTACAGTGGAATGGA--G-AGA--AGTTACAATACCCCTG-AGTTGCAG
1 CTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGACTAGATCCTATATCCCTGAAGTTATAG
* * * *
134596 TGAGTTAGATTAAAACAATGAAACA-AT
66 TGAG-TGGATCAAAAC-AGGTAACATAT
* * * * * * * * *
134623 CTCAATGTCCCTGAGGTTACAATAGAGTGGAGTGAA-ACTTCAAATCATATCTTCTTGAGGTTAT
1 CTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGAC-T-AGATCCTATATCCCTGAAGTTAT
*
134687 AGTGAAGTGGATCAAAACAGGTCACATAT
64 AGTG-AGTGGATCAAAACAGGTAACATAT
* *
134716 CTCAATGTCTCTGAGGTTACAGTGGAATGGAGTGAAGCACTAGATCCTATATCCCTGAAGTTGTA
1 CTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAG-ACTAGATCCTATATCCCTGAAGTTATA
134781 GTG
65 GTG
134784 GATTAAATCA
Statistics
Matches: 181, Mismatches: 50, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
86 44 0.24
87 16 0.09
88 2 0.01
89 2 0.01
90 2 0.01
91 1 0.01
92 12 0.07
93 97 0.54
94 3 0.02
95 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (91 bp):
CTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGACTAGATCCTATATCCCTGAAGTTATAG
TGAGTGGATCAAAACAGGTAACATAT
Found at i:136879 original size:18 final size:19
Alignment explanation
Indices: 136856--136891 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
136846 TATGAAATCA
*
136856 TAATTATAAT-TTATAAAG
1 TAATTAAAATATTATAAAG
136874 TAATTAAAATATTATAAA
1 TAATTAAAATATTATAAA
136892 AAATTACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATTAAAATATTATAAAG
Found at i:140856 original size:9 final size:9
Alignment explanation
Indices: 140832--140871 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
140822 TTTTAATATG
140832 TTTTTTAATA
1 TTTTTTAA-A
140842 TTTTTTAAA
1 TTTTTTAAA
* *
140851 TCTTTTAAT
1 TTTTTTAAA
140860 TTTTTTAAA
1 TTTTTTAAA
140869 TTT
1 TTT
140872 GATCATTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:140865 original size:18 final size:19
Alignment explanation
Indices: 140834--140869 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
140824 TTAATATGTT
140834 TTTTAATATTTTTTAAATC
1 TTTTAATATTTTTTAAATC
140853 TTTTAAT-TTTTTTAAAT
1 TTTTAATATTTTTTAAAT
140870 TTGATCATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAATATTTTTTAAATC
Found at i:144351 original size:41 final size:42
Alignment explanation
Indices: 144305--144445 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 42
144295 ATATGAATGA
* * * *
144305 AAGACTTGTGACTCGAAACGAGCGTGAGGATAT-ATTTAAGG
1 AAGACTTGTGACTCGAAATGAGCATGAGAATATGATTAAAGG
** * *
144346 AAGACTCATGTCTCGAAATGAGAATGAGAATATGATTAAAGG
1 AAGACTTGTGACTCGAAATGAGCATGAGAATATGATTAAAGG
* * *
144388 AAGA-TTGGTGACTCGAAATGAGCATGGGATTATGTTTAAAAAGG
1 AAGACTT-GTGACTCGAAATGAGCATGAGAATATGATT--AAAGG
* *
144432 AATACTTATGACTC
1 AAGACTTGTGACTC
144446 AATAGAGTAT
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
41 27 0.35
42 35 0.45
44 14 0.18
45 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (42 bp):
AAGACTTGTGACTCGAAATGAGCATGAGAATATGATTAAAGG
Found at i:149364 original size:19 final size:19
Alignment explanation
Indices: 149342--149390 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
149332 ATATTGGCTA
149342 GTAAGAGCAATACTGACTC
1 GTAAGAGCAATACTGACTC
* * *
149361 GTAAGAGTAATATTGGCTC
1 GTAAGAGCAATACTGACTC
149380 GTAAGAGCAAT
1 GTAAGAGCAAT
149391 TTACTAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (19 bp):
GTAAGAGCAATACTGACTC
Found at i:176606 original size:17 final size:17
Alignment explanation
Indices: 176560--176607 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
176550 CCTACAATGC
* *
176560 AAATGCATTGATAAATA
1 AAATGCAATGACAAATA
*
176577 AAATGCAGA-GACAATTA
1 AAATGCA-ATGACAAATA
176594 AAATGCAATGACAA
1 AAATGCAATGACAA
176608 CTATATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 25 0.96
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (17 bp):
AAATGCAATGACAAATA
Found at i:187254 original size:33 final size:33
Alignment explanation
Indices: 187207--187287 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
187197 ATGTGACTGT
* *
187207 TTTGGACTTTTTCTTCTTTTTGGGGCGCTCCTC
1 TTTGCACTTTTTCTTCTTTTTGGGGCGCTCCTA
187240 TTTGCACTTTTTCTTCTTTTTGGGGCGCTCCTA
1 TTTGCACTTTTTCTTCTTTTTGGGGCGCTCCTA
*
187273 TTTGCACTTCTTCTT
1 TTTGCACTTTTTCTT
187288 GTCTTTGCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.05, C:0.25, G:0.17, T:0.53
Consensus pattern (33 bp):
TTTGCACTTTTTCTTCTTTTTGGGGCGCTCCTA
Found at i:187585 original size:12 final size:12
Alignment explanation
Indices: 187564--187611 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
187554 TTGCTACAAA
*
187564 TTCTTCTTCTTT
1 TTCTTCTTCTCT
*
187576 TTCTTTTTCTCT
1 TTCTTCTTCTCT
187588 TTCTTCATATCTCT
1 TTCTTC-T-TCTCT
187602 TCTCTTCTTC
1 T-TCTTCTTC
187612 CTCAACTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 15 0.50
13 3 0.10
14 7 0.23
15 5 0.17
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (12 bp):
TTCTTCTTCTCT
Found at i:197785 original size:24 final size:25
Alignment explanation
Indices: 197737--197785 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
197727 TTCTGAAAAC
* *
197737 GAAATGAAAATAACTAAAGCTTAAA
1 GAAATGAAAATAACTAAAACCTAAA
197762 GAAATG-AAATAACTAAAACCTAAA
1 GAAATGAAAATAACTAAAACCTAAA
197786 TTACAAGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.18
Consensus pattern (25 bp):
GAAATGAAAATAACTAAAACCTAAA
Found at i:199057 original size:27 final size:27
Alignment explanation
Indices: 199006--199057 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
198996 GGAGGAACCA
*
199006 AATAGTCCTAAATTGGCTAAAGAACTG
1 AATAGTCCTAAATCGGCTAAAGAACTG
* * *
199033 AATAGTCCTAAGTCGGTTAAGGAAC
1 AATAGTCCTAAATCGGCTAAAGAAC
199058 CAAATTTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (27 bp):
AATAGTCCTAAATCGGCTAAAGAACTG
Found at i:200579 original size:22 final size:22
Alignment explanation
Indices: 200553--200599 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
200543 TTACGTCTAG
*
200553 GGATCGATGTTGCG-ACACATTA
1 GGATCGATGTTG-GAACACATCA
*
200575 GGATCTATGTTGGAACACATCA
1 GGATCGATGTTGGAACACATCA
200597 GGA
1 GGA
200600 CCTATGTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (22 bp):
GGATCGATGTTGGAACACATCA
Found at i:200604 original size:22 final size:22
Alignment explanation
Indices: 200559--200606 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
200549 CTAGGGATCG
* *
200559 ATGTTGCGACACATTAGGATCT
1 ATGTTGCGACACATCAGGACCT
200581 ATGTTG-GAACACATCAGGACCT
1 ATGTTGCG-ACACATCAGGACCT
200603 ATGT
1 ATGT
200607 CACGACAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (22 bp):
ATGTTGCGACACATCAGGACCT
Found at i:204062 original size:107 final size:107
Alignment explanation
Indices: 203920--204137 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 107
203910 CCAATTAGGA
*
203920 AATCTCAATGTGGTTTAATCCCTTTAGCTAGCCTACGAGTATTTTACATTATTGAACAAGTTTTT
1 AATCTCAATGTGGTTTAATCCCTTTAGCTAACCTACGAGTATTTTACATTATTGAACAAGTTTTT
203985 CTTTTGACTTTATGACTTTGTTACCTTTCATGCTTTTTTCTC
66 CTTTTGACTTTATGACTTTGTTACCTTTCATGCTTTTTTCTC
*
204027 AATCTCAATGTGGTTTAATCCCTTTAGCTAACCTACGAGTATTTTACATTATTTAACAAGTTTTT
1 AATCTCAATGTGGTTTAATCCCTTTAGCTAACCTACGAGTATTTTACATTATTGAACAAGTTTTT
* *
204092 CTTTTGACTTTGTGACTTTGTTAGCTTTCATGCTTTTTTCTC
66 CTTTTGACTTTATGACTTTGTTACCTTTCATGCTTTTTTCTC
204134 AATC
1 AATC
204138 AAGATTATTT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (107 bp):
AATCTCAATGTGGTTTAATCCCTTTAGCTAACCTACGAGTATTTTACATTATTGAACAAGTTTTT
CTTTTGACTTTATGACTTTGTTACCTTTCATGCTTTTTTCTC
Found at i:216298 original size:57 final size:57
Alignment explanation
Indices: 216237--216362 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 57
216227 TTTTAATAAG
** * *
216237 ATTATTATTAATGTAATTTAATAAAAATAA-TAAATAATTTAATTACATTTT-AACATC
1 ATTATTATTAATACAATTTAAT-AAAATAATTAAA-AATTTAATAACATTTTGAACATA
* ** *
216294 ATTATTATTGAATACAATTTAATATAATAATTTCAAATTTAATAACATTTTGAATATA
1 ATTATTATT-AATACAATTTAATAAAATAATTAAAAATTTAATAACATTTTGAACATA
216352 ATTATTATTAA
1 ATTATTATTAA
216363 AATATGAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 32 0.55
58 26 0.45
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTATTATTAATACAATTTAATAAAATAATTAAAAATTTAATAACATTTTGAACATA
Found at i:217202 original size:2 final size:2
Alignment explanation
Indices: 217192--217231 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
217182 TGAAAAAAAA
* *
217192 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
217232 GTCTATGACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:220601 original size:17 final size:17
Alignment explanation
Indices: 220579--220612 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
220569 TGTTAGTAAG
*
220579 CATTGTCATTGGATTTT
1 CATTGTCATTGCATTTT
220596 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
220613 AGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:224856 original size:23 final size:23
Alignment explanation
Indices: 224826--224872 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
224816 TTTTTGAAAG
224826 AACAAATCTTGAAAACCATCGCT
1 AACAAATCTTGAAAACCATCGCT
224849 AACAAATCTTGAAAACCATCGCT
1 AACAAATCTTGAAAACCATCGCT
224872 A
1 A
224873 CCTAAGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.21
Consensus pattern (23 bp):
AACAAATCTTGAAAACCATCGCT
Found at i:232578 original size:40 final size:39
Alignment explanation
Indices: 232379--232569 Score: 283
Period size: 40 Copynumber: 4.8 Consensus size: 39
232369 GTTATGTTTA
* *
232379 ATAATGTTCAAGCTACAGCTTAGCAGGCTATAAGCTGGTG
1 ATAAAGTTCAAGCTACGGCTTAGCAGGCTATAAGC-GGTG
* *
232419 ATAAAGTTCAAGCTACGACTTAGCAGGCGATAAGCTGGTG
1 ATAAAGTTCAAGCTACGGCTTAGCAGGCTATAAGC-GGTG
*
232459 ATAAAGTTCAAGCTACGGCTTAGCAGGCTATAAGCCGATG
1 ATAAAGTTCAAGCTACGGCTTAGCAGGCTATAAG-CGGTG
*
232499 ATAAAGTTCAAGCTACAGCTTAGCAGGCTATAAGTCGGTG
1 ATAAAGTTCAAGCTACGGCTTAGCAGGCTATAAG-CGGTG
*
232539 ATAAAGTTCAAGCTATGGCTTAGCAGGCTAT
1 ATAAAGTTCAAGCTACGGCTTAGCAGGCTAT
232570 GATTCGGTGT
Statistics
Matches: 138, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 137 0.99
41 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (39 bp):
ATAAAGTTCAAGCTACGGCTTAGCAGGCTATAAGCGGTG
Found at i:232602 original size:40 final size:40
Alignment explanation
Indices: 232385--232602 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
232375 TTTAATAATG
*
232385 TTCAAGCTACAGCTTAGCAGGCTATAAG-CTGGTGATAAAG
1 TTCAAGCTACAGCTTAGCAGGCTATAAGTC-GGTGATAAAA
* *
232425 TTCAAGCTAC-GACTTAGCAGGCGATAAG-CTGGTGATAAAG
1 TTCAAGCTACAG-CTTAGCAGGCTATAAGTC-GGTGATAAAA
* * * *
232465 TTCAAGCTACGGCTTAGCAGGCTATAAGCCGATGATAAAG
1 TTCAAGCTACAGCTTAGCAGGCTATAAGTCGGTGATAAAA
*
232505 TTCAAGCTACAGCTTAGCAGGCTATAAGTCGGTGATAAAG
1 TTCAAGCTACAGCTTAGCAGGCTATAAGTCGGTGATAAAA
** * * *
232545 TTCAAGCTATGGCTTAGCAGGCTATGATTCGGTGTTAAAAA
1 TTCAAGCTACAGCTTAGCAGGCTATAAGTCGGTGAT-AAAA
*
232586 TTCAAGCTA-AGTTTAGC
1 TTCAAGCTACAGCTTAGC
232603 TTAGCAGGCG
Statistics
Matches: 160, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 145 0.91
41 14 0.09
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (40 bp):
TTCAAGCTACAGCTTAGCAGGCTATAAGTCGGTGATAAAA
Found at i:232837 original size:21 final size:21
Alignment explanation
Indices: 232811--232850 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
232801 CGTTATGTTA
232811 ACAAACATTA-ATTGTTATTAT
1 ACAAAC-TTACATTGTTATTAT
*
232832 ACAAACTTACGTTGTTATT
1 ACAAACTTACATTGTTATT
232851 GTCTCTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
ACAAACTTACATTGTTATTAT
Found at i:239042 original size:22 final size:20
Alignment explanation
Indices: 239015--239055 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
239005 AAAAATATTA
239015 TATTATATTTAATTTTATTAAT
1 TATTATATTT-ATTTT-TTAAT
239037 TATTATATTTATTTTTTAA
1 TATTATATTTATTTTTTAA
239056 AAATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATATTTATTTTTTAAT
Found at i:239922 original size:19 final size:18
Alignment explanation
Indices: 239898--239937 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
239888 AACGAAAAAA
*
239898 AAAATTCATTTAAATTTTT
1 AAAATT-ATTTAAAATTTT
*
239917 AAAATTTTTTAAAATTTT
1 AAAATTATTTAAAATTTT
239935 AAA
1 AAA
239938 TTAGTAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATTATTTAAAATTTT
Found at i:239996 original size:22 final size:22
Alignment explanation
Indices: 239969--240033 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
239959 TTTAATCCAT
*
239969 AAAATTTTGATTTAATTTTATA
1 AAAATTATGATTTAATTTTATA
* *
239991 AAAATTAT-ATTTTTATTATAATA
1 AAAATTATGA-TTTAATT-TTATA
240014 AAAATTATGATTTAATTTTA
1 AAAATTATGATTTAATTTTA
240034 CTCTACAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 15 0.43
23 18 0.51
24 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
AAAATTATGATTTAATTTTATA
Found at i:244275 original size:21 final size:21
Alignment explanation
Indices: 244246--244286 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
244236 AGTAAATAGA
*
244246 TTAAATAAAGGTTAAAAATGT
1 TTAAATAAAGCTTAAAAATGT
* *
244267 TTAATTAAAGCTTAATAATG
1 TTAAATAAAGCTTAAAAATG
244287 AAAGTCTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (21 bp):
TTAAATAAAGCTTAAAAATGT
Found at i:245225 original size:51 final size:51
Alignment explanation
Indices: 245148--245347 Score: 267
Period size: 51 Copynumber: 3.9 Consensus size: 51
245138 AAACGAAAGG
*
245148 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
1 GGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* *
245199 GGTCTAATGACTAAGTGTCATTGTGAGTAAATGAATCCTTTACGGATTAAA
1 GGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* * * * *
245250 GGTCCGATGACTAAGTGTTATCGTGAGTAAATGAATCCATGATGGATTAAA
1 GGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* ** *
245301 GGT-TCGATGACTTAGTGTCATCGTGAGTGTATGAATTCCTATACGGA
1 GGTCT-GATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGA
245348 ACAAGAGATT
Statistics
Matches: 128, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
51 121 0.95
52 7 0.05
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (51 bp):
GGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
Found at i:246143 original size:21 final size:20
Alignment explanation
Indices: 246095--246152 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
246085 TAGATGCATG
*
246095 ACATGTATCGGTAGAAATTAT
1 ACATGTATCGGTAG-AACTAT
*
246116 ACTTGTATCGGTAGAACTAGT
1 ACATGTATCGGTAGAACTA-T
246137 ACATGTA-CTGGTAGAA
1 ACATGTATC-GGTAGAA
246153 ATCTGCACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGTATCGGTAGAACTAT
Found at i:252036 original size:24 final size:23
Alignment explanation
Indices: 251995--252040 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
251985 CGGTAAGACA
*
251995 TTTTCCTTTTCTTATTCACAGAG
1 TTTTCCTTCTCTTATTCACAGAG
*
252018 TTTTCCATTCTCTTCTTCACAGA
1 TTTTCC-TTCTCTTATTCACAGA
252041 ATCTTCTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.17, C:0.26, G:0.07, T:0.50
Consensus pattern (23 bp):
TTTTCCTTCTCTTATTCACAGAG
Found at i:255232 original size:29 final size:30
Alignment explanation
Indices: 255170--255244 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
255160 ATTTTCGAGG
*
255170 AATTTGGGGATCAAAATCGAAATTTTTGGAA
1 AATTT-GGGATCAAAATCGAAACTTTTGGAA
*
255201 AATTTGGGATTAAAATC-AAACTTTTGGAA
1 AATTTGGGATCAAAATCGAAACTTTTGGAA
255230 AATTTGAGG-TCAAAA
1 AATTTG-GGATCAAAA
255245 ATGTGATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 22 0.55
30 13 0.32
31 5 0.12
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (30 bp):
AATTTGGGATCAAAATCGAAACTTTTGGAA
Found at i:255256 original size:30 final size:30
Alignment explanation
Indices: 255222--255440 Score: 88
Period size: 29 Copynumber: 7.5 Consensus size: 30
255212 AAAATCAAAC
*
255222 TTTTGGAAAATTTG-AGGTCAAAAATG-TGAT
1 TTTTGGAAAATTTGAAGG-C-AAAATGATAAT
255252 TTTTGG-AAATTTGAAGGCAAAATGATAAT
1 TTTTGGAAAATTTGAAGGCAAAATGATAAT
** * **
255281 TTTTGG-ATGTTCGGCGGCAAAATGATAAT
1 TTTTGGAAAATTTGAAGGCAAAATGATAAT
* ** * * *
255310 TTTTAG-ATGTTCG-GGAGCAAAATGGTAAT
1 TTTTGGAAAATTTGAAG-GCAAAATGATAAT
* * * *
255339 TTTTGTAAAGTTTTAGGGTC-AAATG-TAA-
1 TTTTGGAAAATTTGAAGG-CAAAATGATAAT
255367 TTTTGGAAAAGTTTG-AGGTCAAAATG-TAAT
1 TTTTGGAAAA-TTTGAAGG-CAAAATGATAAT
* * * *
255397 TTTTGTAAAGTTTTAGGGTC-AAATG-TAA-
1 TTTTGGAAAATTTGAAGG-CAAAATGATAAT
255425 TTTTGGAAAAGTTTGA
1 TTTTGGAAAA-TTTGA
255441 GGACCTTCTA
Statistics
Matches: 153, Mismatches: 25, Indels: 23
0.76 0.12 0.11
Matches are distributed among these distances:
28 27 0.18
29 92 0.60
30 31 0.20
31 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (30 bp):
TTTTGGAAAATTTGAAGGCAAAATGATAAT
Found at i:255282 original size:29 final size:28
Alignment explanation
Indices: 255222--255401 Score: 100
Period size: 29 Copynumber: 6.2 Consensus size: 28
255212 AAAATCAAAC
*
255222 TTTTGGAAAATTTGAGGTCAAAAATG-TGAT
1 TTTTGG-AAATTTGAGG-C-AAAATGATAAT
255252 TTTTGGAAATTTGAAGGCAAAATGATAAT
1 TTTTGGAAATTTG-AGGCAAAATGATAAT
** * *
255281 TTTTGGATGTTCGGCGGCAAAATGATAAT
1 TTTTGGAAATT-TGAGGCAAAATGATAAT
* ** * * *
255310 TTTTAGATGTTCGGGAGCAAAATGGTAAT
1 TTTTGGAAATTTGAG-GCAAAATGATAAT
* *
255339 TTTTGTAAAGTTTTAGGGTC-AAATG-TAA-
1 TTTTGGAAA-TTTGA-GG-CAAAATGATAAT
255367 TTTTGGAAAAGTTTGAGGTCAAAATG-TAAT
1 TTTTGG-AAA-TTTGAGG-CAAAATGATAAT
255397 TTTTG
1 TTTTG
255402 TAAAGTTTTA
Statistics
Matches: 122, Mismatches: 18, Indels: 20
0.76 0.11 0.12
Matches are distributed among these distances:
28 17 0.14
29 80 0.66
30 23 0.19
31 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (28 bp):
TTTTGGAAATTTGAGGCAAAATGATAAT
Found at i:255368 original size:58 final size:58
Alignment explanation
Indices: 255318--255442 Score: 198
Period size: 58 Copynumber: 2.1 Consensus size: 58
255308 ATTTTTAGAT
255318 GTTCG-GGAGCAAAATGGTAATTTTTGTAAAGTTTTAGGGTCAAATGTAATTTTGGAAAA
1 GTTCGAGG-GCAAAAT-GTAATTTTTGTAAAGTTTTAGGGTCAAATGTAATTTTGGAAAA
* *
255377 GTTTGAGGTCAAAATGTAATTTTTGTAAAGTTTTAGGGTCAAATGTAATTTTGGAAAA
1 GTTCGAGGGCAAAATGTAATTTTTGTAAAGTTTTAGGGTCAAATGTAATTTTGGAAAA
*
255435 GTTTGAGG
1 GTTCGAGG
255443 ACCTTCTAAG
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
58 51 0.81
59 10 0.16
60 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.38
Consensus pattern (58 bp):
GTTCGAGGGCAAAATGTAATTTTTGTAAAGTTTTAGGGTCAAATGTAATTTTGGAAAA
Found at i:255406 original size:29 final size:29
Alignment explanation
Indices: 255329--255442 Score: 149
Period size: 29 Copynumber: 3.9 Consensus size: 29
255319 TTCGGGAGCA
* * *
255329 AAATGGTAATTTTTGTAAAGTTTTAGGGTC
1 AAAT-GTAATTTTGGAAAAGTTTGAGGGTC
255359 AAATGTAATTTTGGAAAAGTTTGA-GGTC
1 AAATGTAATTTTGGAAAAGTTTGAGGGTC
* * *
255387 AAAATGTAATTTTTGTAAAGTTTTAGGGTC
1 -AAATGTAATTTTGGAAAAGTTTGAGGGTC
255417 AAATGTAATTTTGGAAAAGTTTGAGG
1 AAATGTAATTTTGGAAAAGTTTGAGG
255443 ACCTTCTAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.05
29 61 0.84
30 8 0.11
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (29 bp):
AAATGTAATTTTGGAAAAGTTTGAGGGTC
Found at i:256203 original size:23 final size:23
Alignment explanation
Indices: 256171--256215 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
256161 TACTTCCTTC
*
256171 TTTTTTAATCTGTT-TTCATTTTG
1 TTTTTAAATCTGTTCTT-ATTTTG
256194 TTTTTAAATCTGTTCTTATTTT
1 TTTTTAAATCTGTTCTTATTTT
256216 CTTGTTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.16, C:0.09, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTTTAAATCTGTTCTTATTTTG
Found at i:257541 original size:39 final size:39
Alignment explanation
Indices: 257494--257866 Score: 254
Period size: 39 Copynumber: 9.6 Consensus size: 39
257484 AATGACTGCA
* * * * *
257494 ATCTGCCCCATGATCGGGGTAGGAGATTGGCTAATGATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * *
257533 ATATGCCCCAGGCTCGGGGTAAGAGATTGATTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * * *
257572 ATCTACCCCAGGCTCGGGGTAAGAGATTGAACGGCTG-TA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTG-ACTGATGATG
* * ** *
257611 ATCTGCCCCATGATCAAGGTAAGAGATTTG-CTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGA-TTGACTGATGATG
* *
257650 ATCTGCCCCAAGCTCGGGGTAAGAGATTTACTGATGATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * *
257689 ATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGACTGCA--
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGA-TG-ATG
* * * * * *
257728 ATCTGCCCCATGATCGGGGTAAGAGATTAATTGATGGTA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* ** * * * * *
257767 ATTTGCCTTAGACTCGGGTTAAGAGATTGAATGGTTG-TA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACT-GATGATG
* ** * * * *
257806 ATCTACCATAAGCTCGAGGTAAGAGATTTG-TTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGA-TTGACTGATGATG
*
257845 ATCTACCCCAGGCTCGGGGTAA
1 ATCTGCCCCAGGCTCGGGGTAA
257867 AGGATCAAAA
Statistics
Matches: 259, Mismatches: 64, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
38 11 0.04
39 232 0.90
40 15 0.06
41 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (39 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
Found at i:257763 original size:117 final size:117
Alignment explanation
Indices: 257484--257796 Score: 385
Period size: 117 Copynumber: 2.7 Consensus size: 117
257474 TATTGCTTCA
* * * * *
257484 AATGACTGCAATCTGCCCCATGATCGGGGTAGGAGATTGGCTAATGATGATATGCCCCAGGCTCG
1 AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATATGCCCCAAGCTCG
* * *
257549 GGGTAAGAGATTGATTGATGGTGATCTACCCCAGGCTCGGGGTAAGAGATTG
66 GGGTAAGAGATTGACTGATGATGATCTACCCCAGGCTCGGGGTAAGAGATCG
* * * ** * *
257601 AACGGCTGTAATCTGCCCCATGATCAAGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTCG
1 AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATATGCCCCAAGCTCG
* * *
257666 GGGTAAGAGATTTACTGATGATGATCTGCCCTAGGCTCGGGGTAAGAGATCG
66 GGGTAAGAGATTGACTGATGATGATCTACCCCAGGCTCGGGGTAAGAGATCG
** * * **
257718 AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAATTGATGGTAATTTG-CCTTAGACTC
1 AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATATGCCCCAAG-CTC
*
257782 GGGTTAAGAGATTGA
65 GGGGTAAGAGATTGA
257797 ATGGTTGTAA
Statistics
Matches: 164, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
116 4 0.02
117 160 0.98
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (117 bp):
AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATATGCCCCAAGCTCG
GGGTAAGAGATTGACTGATGATGATCTACCCCAGGCTCGGGGTAAGAGATCG
Found at i:257821 original size:117 final size:117
Alignment explanation
Indices: 257484--257832 Score: 378
Period size: 117 Copynumber: 3.0 Consensus size: 117
257474 TATTGCTTCA
* * * * *
257484 AATGACTGCAATCTGCCCCATGATCGGGGTAGGAGATTGGCTAATGATGATATGCCCCAGGCTCG
1 AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATATGCCCCAGACTCG
* * * * *
257549 GGGTAAGAGATTGATTGATGGTGATCTACCCCAGGCTCGGGGTAAGAGATTG
66 GGGTAAGAGATTGAATGGTTGTGATCTACCCTAGGCTCGGGGTAAGAGATCG
* * * ** * *
257601 AACGGCTGTAATCTGCCCCATGATCAAGGTAAGAGATTTGCTGATGGTGATCTGCCCCA-AGCTC
1 AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATATGCCCCAGA-CTC
* * * *
257665 GGGGTAAGAGATTTACT-GATGATGATCTGCCCTAGGCTCGGGGTAAGAGATCG
65 GGGGTAAGAGATTGAATGGTTG-TGATCTACCCTAGGCTCGGGGTAAGAGATCG
** * * **
257718 AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAATTGATGGTAATTTGCCTTAGACTCG
1 AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATATGCCCCAGACTCG
* * * * *
257783 GGTTAAGAGATTGAATGGTTGTAATCTACCATAAGCTCGAGGTAAGAGAT
66 GGGTAAGAGATTGAATGGTTGTGATCTACCCTAGGCTCGGGGTAAGAGAT
257833 TTGTTGATGG
Statistics
Matches: 188, Mismatches: 40, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
116 1 0.01
117 183 0.97
118 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (117 bp):
AATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATATGCCCCAGACTCG
GGGTAAGAGATTGAATGGTTGTGATCTACCCTAGGCTCGGGGTAAGAGATCG
Found at i:287201 original size:18 final size:18
Alignment explanation
Indices: 287168--287202 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
287158 AGCAGGCTAA
**
287168 GGATAAGAAGTGGCGCAG
1 GGATAAGAAGAAGCGCAG
287186 GGATAAGAAGAAGCGCA
1 GGATAAGAAGAAGCGCA
287203 AGAAGAAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.40, T:0.09
Consensus pattern (18 bp):
GGATAAGAAGAAGCGCAG
Found at i:287376 original size:34 final size:34
Alignment explanation
Indices: 287307--287376 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
287297 GTAGCTGTAA
* * *
287307 TTTAATTGTCACCACATTCCCTTTGTCTTTGCAT
1 TTTAATTGTCACCACATTCCATTTGTCATTACAT
* *
287341 TTTAATTGTCACTACATTTGCATTT-TCATTACAT
1 TTTAATTGTCACCACA-TTCCATTTGTCATTACAT
287375 TT
1 TT
287377 CCATTTATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 24 0.80
35 6 0.20
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (34 bp):
TTTAATTGTCACCACATTCCATTTGTCATTACAT
Found at i:295657 original size:13 final size:13
Alignment explanation
Indices: 295636--295684 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
295626 GAGTCAAATT
295636 AATTAAATTAACAC
1 AATT-AATTAACAC
295650 AATTAATTAACA-
1 AATTAATTAACAC
* *
295662 AATTAATAAACCC
1 AATTAATTAACAC
*
295675 AATTTATTAA
1 AATTAATTAA
295685 TGAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.33
13 16 0.53
14 4 0.13
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTAATTAACAC
Found at i:297154 original size:49 final size:48
Alignment explanation
Indices: 297039--297171 Score: 131
Period size: 49 Copynumber: 2.7 Consensus size: 48
297029 TGGGAGGTGC
* * * * **
297039 CCCACACGGCCTACATGTTTTCACACAACCGTATGCCCTACACGGTGTA
1 CCCACACAG-CTACATGTTTTCACACAACTGTGTGCCCCACACGGCCTA
** * * *
297088 CTTATATAGCTTGCATGTTTTCACACAACTGTGTGCCCCACACGGCCTA
1 CCCACACAGC-TACATGTTTTCACACAACTGTGTGCCCCACACGGCCTA
*
297137 CCCACACAGTCTACATGTTTTCACACGACTGTGTG
1 CCCACACAG-CTACATGTTTTCACACAACTGTGTG
297172 GTGCTGGGCA
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
48 1 0.02
49 63 0.97
50 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (48 bp):
CCCACACAGCTACATGTTTTCACACAACTGTGTGCCCCACACGGCCTA
Found at i:300162 original size:53 final size:53
Alignment explanation
Indices: 300060--300164 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
300050 TTTTAATATT
* * * *
300060 ATTTTTCAAAAGTATTTTTGAGATAAAAACAGTGTTAAATAAAATATTTTTTA
1 ATTTTTCAAAAGTATTTTTGAAATAAAAAAAATGTTAAATAAAACATTTTTTA
* * *
300113 ATTTTTTAAAAGTGTTTTTGAAATAAAAAAAATGCTTTAA-AAAACATTTTTT
1 ATTTTTCAAAAGTATTTTTGAAATAAAAAAAATG-TTAAATAAAACATTTTTT
300165 TTGTCAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 40 0.91
54 4 0.09
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (53 bp):
ATTTTTCAAAAGTATTTTTGAAATAAAAAAAATGTTAAATAAAACATTTTTTA
Found at i:305139 original size:45 final size:45
Alignment explanation
Indices: 304922--306011 Score: 862
Period size: 45 Copynumber: 25.1 Consensus size: 45
304912 ACTTTTGTGA
* * * * *
304922 GATGGTAGCTTCAATCTGTCCCTCTAGATTTAAGGGTAAAAGATTA
1 GATGGTGGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTG
* * *
304968 GATGGTGACTTCAATCTCCCCCTCTTGACTTAGGGGTAAAAGATTC
1 GATGGTGGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTG
* *
305014 GATGGTGGCTTTAAT-T-CAACCCTCTTGATTTAAGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGC--CCCTCTTGA-TTAGGGGTAAAAGATTG
* * * *
305060 GATGGTAGCTTCAA-CTGCCCCTATTAACTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* * * *
305104 GATGATAGCTTCAATATGCCCCTCTTGATTAGGGGTAAAATATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
** * * * * *
305149 GATGGTGAATTCAATCTACACCACTTAATTAGGGGTAAAAGATTA
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* * * ** * *
305194 GATGGTGGCTTCAATCTACCCCTATTTATTAGACGTATAAGGTTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
*
305239 GATGGCGGCTTCAATCTGTCCCCTCTTGACTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTG-CCCCTCTTGA-TTAGGGGTAAAAGATTG
* ** *
305286 GATGGT--ATTCAAT-T-TACCT-TTCAATTA-GGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTT-GATTAGGGGTAAAAGATTG
* * * * *
305326 GA---TGACTTCAATCTG-CCCT-AT-AGTCGGGGTAAGAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* *
305365 GATGGTGTCTTCAATCTG-CCCT-TTGGTTA-GGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* * * *
305407 GA---TGACTTTAATCTGCCCCTCTTGACTTAGGAGTAAAAGATTA
1 GATGGTGGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTG
* * * *
305450 GATAGTGGCTTCAATATGCCCCTCTTGACTTAGGGGTAAAATATTA
1 GATGGTGGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTG
* * *
305496 GATGGTGGCTTCAATCTACCCCTCTTGACTAGGGGTAAAAGACTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
*
305541 GATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* * * *
305586 GATGGTGGCTTCAATCTACCCCTCTTGATTAGTGGTAAAAAATTA
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* * * **
305631 TATGGTGGCTTCAATCAGTCCCTCTTGATTAAAGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
** **
305676 GATGGTGGCTTCAATCTATCCCTCTTGACTTAGGGGTAAAAGATCA
1 GATGGTGGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTG
* *
305722 AATGGT--CTTCAATCTG-CCCT-TTAATTA-GGGTAAAAGATT-
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* * * * * * * *
305761 G-T-ATGGCTTCAATTTG-TCC-CATG-GTCGAGGTAAGAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* *
305801 GATGGTGTCTTCAATCTG-CCCT-TTGGTTA-GGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
305843 GA---TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTG
* *
305886 GATGGT--CTTCAGTCTG-CCTTC-TGATTA-GGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* * * * *
305926 GA---TGACTTCAATCTG-CCC-CATGGTT-GGGGTAAGAGATTA
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
* * * * * *
305965 GATGGTGTCTCCAATATG-TCCTC-TGATTA-GAGTAAAAGATTT
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
306007 GATGG
1 GATGG
306012 CTTCAATTTG
Statistics
Matches: 845, Mismatches: 149, Indels: 104
0.77 0.14 0.09
Matches are distributed among these distances:
37 3 0.00
38 5 0.01
39 93 0.11
40 55 0.07
41 18 0.02
42 106 0.13
43 39 0.05
44 48 0.06
45 283 0.33
46 176 0.21
47 19 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (45 bp):
GATGGTGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTG
Found at i:305356 original size:39 final size:39
Alignment explanation
Indices: 305312--305424 Score: 136
Period size: 42 Copynumber: 2.8 Consensus size: 39
305302 CCTTTCAATT
305312 AGGGTAAAAGATTGGATGACTTCAATCTGCCCTATAGTC
1 AGGGTAAAAGATTGGATGACTTCAATCTGCCCTATAGTC
* * * * * *
305351 GGGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTGGTT
1 AGGGTAAAAGATTGGA---TGACTTCAATCTGCCCTATAGTC
*
305393 AGGGTAAAAGATTGGATGACTTTAATCTGCCC
1 AGGGTAAAAGATTGGATGACTTCAATCTGCCC
305425 CTCTTGACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 28 0.46
42 33 0.54
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (39 bp):
AGGGTAAAAGATTGGATGACTTCAATCTGCCCTATAGTC
Found at i:305793 original size:39 final size:39
Alignment explanation
Indices: 305709--306088 Score: 223
Period size: 39 Copynumber: 9.5 Consensus size: 39
305699 CTTGACTTAG
*** * ** *
305709 GGGTAAAAGATCAAATGGTCTTCAATCTGCCCTTTAATTA
1 GGGTAAAAGATTGGATGG-CTTCAATCTGCCCTATGGTGA
* *
305749 GGGTAAAAGATTGTATGGCTTCAATTTGTCCC-ATGGTCGA
1 GGGTAAAAGATTGGATGGCTTCAATCTG-CCCTATGGT-GA
* * *
305789 -GGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTGGTTA
1 GGGTAAAAGATTGGAT-G-G-CTTCAATCTGCCCTATGGTGA
* * *
305830 GGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTTGACTTA
1 GGGTAAAAGATTGGATGGCTTCAATCTG-CCCT-ATG-GTGA
* * * * *
305872 GGGGTAAAAGATTGGATGGTCTTCAGTCTGCCTTCTGATTA
1 -GGGTAAAAGATTGGATGG-CTTCAATCTGCCCTATGGTGA
* *
305913 GGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTTG-
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCTATGG-TGA
* * * * * * * *
305952 GGGTAAGAGATTAGATGGTGTCTCCAATATGTCCTCTGATTA
1 GGGTAAAAGATTGGAT-G-G-CTTCAATCTGCCCTATGGTGA
* * *
305994 GAGTAAAAGATTTGATGGCTTCAATTTGCCCTATGGTTGA
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCTATGG-TGA
* * * *
306034 -GGTAAGAGATTGGATGACTTCAATTTACCC-ATGGTCG-
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCTATGGT-GA
*
306071 GGGTAAGAGATTGGATGG
1 GGGTAAAAGATTGGATGG
306089 TAGCTTTGCC
Statistics
Matches: 269, Mismatches: 51, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
37 1 0.00
38 21 0.08
39 99 0.37
40 47 0.17
41 14 0.05
42 57 0.21
43 21 0.08
44 9 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (39 bp):
GGGTAAAAGATTGGATGGCTTCAATCTGCCCTATGGTGA
Found at i:305798 original size:436 final size:435
Alignment explanation
Indices: 304954--305884 Score: 1287
Period size: 436 Copynumber: 2.1 Consensus size: 435
304944 TCTAGATTTA
* * * *
304954 AGGGTAAAAGATTAGATGGTGACTTCAATCTCCCCCTCTTGACTTAGGGGTAAAAGATTCGATGG
1 AGGGTAAAAGATT-G--GATGACTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTAGATAG
* * * *
305019 TGGCTTTAATTCAACCCTCTTGATTTAAGGGTAAAAGATTGGATGGTAGCTTCAACTGCCCCTAT
63 TGGCTTCAATTC-ACCCTCTTGACTTAAGGGTAAAAGATTAGATGGTAGCTTCAACTACCCCTAT
* * *
305084 TAACTAGGGGTAAAAGATTGGATGATAGCTTCAATATGCCCCTCTTGATTAGGGGTAAAATATTG
127 TAACTAGGGGTAAAAGACTGGATGATAGCTTCAATATACCCCTCTTGATTAGGGGTAAAAGATTG
*
305149 GATGGTGAATTCAATCTACACCACTTAATTAGGGGTAAAAGATTAGATGGTGGCTTCAATCTACC
192 GATGGTGAATTCAATCTACACCACTTAATTAGGGGTAAAAAATTAGATGGTGGCTTCAATCTACC
* * * * *
305214 CCTATTTATTAGACGTATAAGGTTGGATGGCGGCTTCAATCTGTCCCCTCTTGACTTAGGGGTAA
257 CCTATTGATTAAACGTAAAAGATTGGATGGCGGCTTCAATCTATCCCCTCTTGACTTAGGGGTAA
*** *
305279 AAGATTGGATGGTATTCAATTTACCTTTCAATTAGGGTAAAAGATTGGATGACTTCAATCTGCCC
322 AAGATCAAATGGTATTCAATTGACCTTTCAATTAGGGTAAAAGATTGGATGACTTCAATCTGCCC
*
305344 TATAGTCGGGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTGGTT
387 TATAGTCGAGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTGGTT
* *
305393 AGGGTAAAAGATTGGATGACTTTAATCTGCCCCTCTTGACTTAGGAGTAAAAGATTAGATAGTGG
1 AGGGTAAAAGATTGGATGACTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTAGATAGTGG
* * * *
305458 CTTCAATATGC-CCCTCTTGACTTAGGGGTAAAATATTAGATGGTGGCTTCAATCTACCCCTCTT
66 CTTCAAT-T-CACCCTCTTGACTTAAGGGTAAAAGATTAGATGGTAGCTTCAA-CTACCCCTATT
* * * *
305522 GACTAGGGGTAAAAGACTGGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAAAGATTGG
128 AACTAGGGGTAAAAGACTGGATGATAGCTTCAATATACCCCTCTTGATTAGGGGTAAAAGATTGG
** * * * * * *
305587 ATGGTGGCTTCAATCTACCCCTCTTGATTAGTGGTAAAAAATTATATGGTGGCTTCAATC-AGTC
193 ATGGTGAATTCAATCTACACCACTTAATTAGGGGTAAAAAATTAGATGGTGGCTTCAATCTA-CC
* * *
305651 CCTCTTGATTAAAGGTAAAAGATTGGATGGTGGCTTCAATCTAT-CCCTCTTGACTTAGGGGTAA
257 CCTATTGATTAAACGTAAAAGATTGGATGGCGGCTTCAATCTATCCCCTCTTGACTTAGGGGTAA
* * * * *
305715 AAGATCAAATGGTCTTCAATCTGCCCTTT-AATTAGGGTAAAAGATTGTATGGCTTCAATTTGTC
322 AAGATCAAATGGTATTCAAT-TGACCTTTCAATTAGGGTAAAAGATTGGATGACTTCAATCTG-C
*
305779 CC-ATGGTCGAGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTGGTT
385 CCTATAGTCGAGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTGGTT
*
305829 AGGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
1 AGGGTAAAAGATTGGATGACTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
305885 GGATGGTCTT
Statistics
Matches: 434, Mismatches: 52, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
436 253 0.58
437 166 0.38
438 2 0.00
439 13 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (435 bp):
AGGGTAAAAGATTGGATGACTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTAGATAGTGG
CTTCAATTCACCCTCTTGACTTAAGGGTAAAAGATTAGATGGTAGCTTCAACTACCCCTATTAAC
TAGGGGTAAAAGACTGGATGATAGCTTCAATATACCCCTCTTGATTAGGGGTAAAAGATTGGATG
GTGAATTCAATCTACACCACTTAATTAGGGGTAAAAAATTAGATGGTGGCTTCAATCTACCCCTA
TTGATTAAACGTAAAAGATTGGATGGCGGCTTCAATCTATCCCCTCTTGACTTAGGGGTAAAAGA
TCAAATGGTATTCAATTGACCTTTCAATTAGGGTAAAAGATTGGATGACTTCAATCTGCCCTATA
GTCGAGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTGGTT
Found at i:305871 original size:164 final size:164
Alignment explanation
Indices: 305309--306024 Score: 530
Period size: 164 Copynumber: 4.2 Consensus size: 164
305299 TTACCTTTCA
* * * * * ***
305309 ATTAGGGTAAAAGATTGGATGACTTCAATCTG-CCCT-AT-A-GTCGGGGTAAGAGATTGGATGG
1 ATTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATCAAAT-G
** * * * *
305370 TGTCTTCAATCTGCCCTT-TGGTTAGGGTAAAAGATTGGATGACTTTAATCTGCCCCTCTTGACT
65 -GTCTTCAATCTG-CCTTCTAATTAGGGTAAAAGATTGGATGACTTCAATCTGCCCC-ATGGTC-
* * * * *
305434 TAGGAGTAAAAGATTAGATAGTGGCTTCAATATGCCCCTCTTG
126 GA-G-GTAAGAGATTAGATGGTGTCTTCAATCTG-CCCT-TTG
* * *
305477 ACTTAGGGGTAAAATATTAGATGGTGGCTTCAATCTACCCCTCTTGAC-TAGGGGTAAAAGA-CT
1 A-TTA-GGGTAAAAGATT-G--GATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATC-
** * * * * *
305540 GGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTAC
60 AAATGGT--CTTCAATCT-GCCTTC-TAATTA-GGGTAAAAGATTGGA---TGACTTCAATCT-G
* * * * * * * * *
305605 CCCTCTTGATTAGTGGTAAAAAATTATATGGTGGCTTCAATCAGTCCCTCTTG
116 CCC-CATG-GTCGAGGTAAGAGATTAGATGGTGTCTTCAATCTG-CCCT-TTG
* **
305658 ATTAAAGGTAAAAGATTGGATGGTGGCTTCAATCTATCCCTCTTGACTTAGGGGTAAAAGATCAA
1 ATT-AGGGTAAAAGATTGGA---TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATCAA
* * * *
305723 ATGGTCTTCAATCTGCCCTT-TAATTAGGGTAAAAGATTGTATGGCTTCAATTTGTCCCATGGTC
62 ATGGTCTTCAATCTG-CCTTCTAATTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTC
*
305787 GAGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTG
126 GAGGTAAGAGATTAGATGGTGTCTTCAATCTGCCCTTTG
* ***
305826 GTTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGG
1 ATTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATCAAATGG
* * * *
305891 TCTTCAGTCTGCCTTCTGATTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTTGGGGT
66 TCTTCAATCTGCCTTCTAATTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGAGGT
* * * *
305956 AAGAGATTAGATGGTGTCTCCAATATGTCCTCTG
131 AAGAGATTAGATGGTGTCTTCAATCTGCCCTTTG
* * *
305990 ATTAGAGTAAAAGATTTGATGGCTTCAATTTGCCC
1 ATTAGGGTAAAAGATTGGATGGCTTCAATCTGCCC
306025 TATGGTTGAG
Statistics
Matches: 444, Mismatches: 74, Indels: 64
0.76 0.13 0.11
Matches are distributed among these distances:
163 4 0.01
164 153 0.34
167 15 0.03
168 6 0.01
169 7 0.02
170 37 0.08
171 4 0.01
172 2 0.00
173 23 0.05
174 6 0.01
175 2 0.00
176 42 0.09
177 6 0.01
178 5 0.01
179 28 0.06
180 35 0.08
181 52 0.12
182 12 0.03
183 4 0.01
184 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (164 bp):
ATTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATCAAATGG
TCTTCAATCTGCCTTCTAATTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGAGGT
AAGAGATTAGATGGTGTCTTCAATCTGCCCTTTG
Found at i:307224 original size:8 final size:8
Alignment explanation
Indices: 307199--307256 Score: 73
Period size: 8 Copynumber: 7.2 Consensus size: 8
307189 TCATCTTGAC
307199 TTTTTCTT
1 TTTTTCTT
*
307207 TCTTTCCTT
1 T-TTTTCTT
307216 TTTTTCTT
1 TTTTTCTT
*
307224 TTTTCCTT
1 TTTTTCTT
307232 TTTTTCTT
1 TTTTTCTT
*
307240 TTTTCCTT
1 TTTTTCTT
307248 TTTTT-TT
1 TTTTTCTT
307255 TT
1 TT
307257 GGGTTTTAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
7 4 0.09
8 32 0.74
9 7 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:307253 original size:17 final size:16
Alignment explanation
Indices: 307199--307256 Score: 100
Period size: 16 Copynumber: 3.6 Consensus size: 16
307189 TCATCTTGAC
307199 TTTTTCTTTCTTTCCTT
1 TTTTTCTTT-TTTCCTT
307216 TTTTTCTTTTTTCCTT
1 TTTTTCTTTTTTCCTT
307232 TTTTTCTTTTTTCCTT
1 TTTTTCTTTTTTCCTT
307248 TTTTT-TTTT
1 TTTTTCTTTT
307257 GGGTTTTAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.10
16 28 0.68
17 9 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTTTTTTCCTT
Found at i:320736 original size:11 final size:10
Alignment explanation
Indices: 320722--320778 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 10
320712 TAGCAATATA
320722 TTTTTTTCTT
1 TTTTTTTCTT
* *
320732 CTTTTCTCTT
1 TTTTTTTCTT
*
320742 TTCCTTTTCTT
1 TT-TTTTTCTT
*
320753 CCTTTTTTCTT
1 -TTTTTTTCTT
320764 TTCTTTTTCTT
1 TT-TTTTTCTT
320775 TTTT
1 TTTT
320779 AAGTGACTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
10 12 0.33
11 23 0.64
12 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:320757 original size:22 final size:21
Alignment explanation
Indices: 320725--320778 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
320715 CAATATATTT
320725 TTTTCTTCTTTTCTCTTTTCC
1 TTTTCTTCTTTTCTCTTTTCC
* *
320746 TTTTCTTCCTTTTTTCTTTTCT
1 TTTTCTT-CTTTTCTCTTTTCC
320768 TTTTCTT-TTTT
1 TTTTCTTCTTTT
320779 AAGTGACTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 4 0.13
21 7 0.23
22 19 0.63
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTTCTTTTCTCTTTTCC
Found at i:321366 original size:17 final size:18
Alignment explanation
Indices: 321346--321387 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
321336 ACTACAATGC
321346 AAATGCACTAACAAAT-A
1 AAATGCACTAACAAATAA
* *
321363 AAATGCAGTGACAAATAA
1 AAATGCACTAACAAATAA
321381 AAATGCA
1 AAATGCA
321388 ATGACAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.17
Consensus pattern (18 bp):
AAATGCACTAACAAATAA
Found at i:321385 original size:18 final size:18
Alignment explanation
Indices: 321346--321399 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
321336 ACTACAATGC
* *
321346 AAATGCACTAACAAAT-A
1 AAATGCAATGACAAATAA
*
321363 AAATGCAGTGACAAATAA
1 AAATGCAATGACAAATAA
*
321381 AAATGCAATGACAACTAA
1 AAATGCAATGACAAATAA
321399 A
1 A
321400 TAAAATGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.57, C:0.15, G:0.11, T:0.17
Consensus pattern (18 bp):
AAATGCAATGACAAATAA
Found at i:326705 original size:18 final size:18
Alignment explanation
Indices: 326682--326736 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
326672 GTTAGGATAT
326682 CATCTTCGTCTGGAACTG
1 CATCTTCGTCTGGAACTG
* * *
326700 CATCTTTGTCTAGAATTG
1 CATCTTCGTCTGGAACTG
*
326718 CATCTTCGTATGGAACTG
1 CATCTTCGTCTGGAACTG
326736 C
1 C
326737 TGAGCTCCGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (18 bp):
CATCTTCGTCTGGAACTG
Found at i:334054 original size:2 final size:2
Alignment explanation
Indices: 334047--334072 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
334037 TGCAACCCAC
334047 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
334073 GTTAAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:334471 original size:16 final size:16
Alignment explanation
Indices: 334446--334496 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
334436 GGCCTATTGA
* *
334446 ATTTTGAATTAAGTTT
1 ATTTTAAATTAAATTT
334462 ATTTTAAATTTAAATTT
1 ATTTTAAA-TTAAATTT
*
334479 ATTATAAATTTAAATTT
1 ATTTTAAA-TTAAATTT
334496 A
1 A
334497 AAATGTCGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
16 7 0.23
17 24 0.77
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
ATTTTAAATTAAATTT
Found at i:334479 original size:17 final size:17
Alignment explanation
Indices: 334454--334496 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
334444 GAATTTTGAA
* *
334454 TTAAGTTTATTTTAAAT
1 TTAAATTTATTATAAAT
334471 TTAAATTTATTATAAAT
1 TTAAATTTATTATAAAT
334488 TTAAATTTA
1 TTAAATTTA
334497 AAATGTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTATAAAT
Found at i:336723 original size:59 final size:59
Alignment explanation
Indices: 336519--336884 Score: 474
Period size: 59 Copynumber: 6.3 Consensus size: 59
336509 TAAACTTTCC
* * ** *
336519 AAAAATTACCA-TTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCTAAACTTTC-
1 AAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCT
* * * *
336576 CAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAA-CTTCCCA
1 AAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTT--CT
* * * *
336636 AAAAATTACCATTTTATCCCCAAACTCCCAAAAATCTCATTTCTAACCCCGAACCTTCT
1 AAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCT
* *
336695 AAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTAACCTCGAACCTTCT
1 AAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCT
* *
336754 AAAAATTATCATTTTA-CCCTAGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCT
1 AAAAATTACCATTTTATCCC-CGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCT
* * *
336813 AAAAATTACCATTTTATCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAA-CTTCC
1 AAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCT
*
336871 AAAAA-TCCCATTTT
1 AAAAATTACCATTTT
336885 TGACCTCAAA
Statistics
Matches: 276, Mismatches: 26, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
57 20 0.07
58 51 0.18
59 154 0.56
60 48 0.17
61 3 0.01
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (59 bp):
AAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCT
Found at i:336897 original size:88 final size:87
Alignment explanation
Indices: 336593--336973 Score: 367
Period size: 88 Copynumber: 4.3 Consensus size: 87
336583 ACCATTTTAC
* * *
336593 CCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCCAAAAAATTACCATTTTATCCCCA
1 CCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACTT--CTAAAAATTACCATTTTATCCTCG
* * * *
336658 AACTCCCAAAAATCTCATTTCTAA
64 AACTTCCAAAAATCCCATTTTTGA
* * * * * *
336682 CCCCGAACCTTCTAAAAATTACCA-TTTT-ATCCCCGAACTCCCAAAAA-TCCCATTTTTAACCT
1 CCCCGAA-CTTCCAAAAA-TCCCATTTTTGA-CCCCGAACTTCTAAAAATTACCA-TTTTATCCT
* **
336744 CGAACCTTCTAAAAATTATCA-TTTT-A
62 CGAA-CTTCCAAAAA-TCCCATTTTTGA
* *
336770 CCCTAGAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCTAAAAATTACCATTTTATCCTCG
1 CCC-CGAACTTCCAAAAATCCCATTTTTGACCCCGAA-CTTCTAAAAATTACCATTTTATCCTCG
336835 AACTTCCAAAAATCCCATTTTTGA
64 AACTTCCAAAAATCCCATTTTTGA
* * * * *
336859 CCCCGAACTTCCAAAAATCCCATTTTTGACCTCAAACCTTTTAAAAATTACTATTTTACCCTCGA
1 CCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAA-CTTCTAAAAATTACCATTTTATCCTCGA
336924 ACTTCCAAAAATCCCATTTTTGA
65 ACTTCCAAAAATCCCATTTTTGA
*** * *
336947 TTTCGAACCTTCCAAAACTACCATTTT
1 CCCCGAA-CTTCCAAAAATCCCATTTT
336974 GCCCCCCTGT
Statistics
Matches: 243, Mismatches: 35, Indels: 28
0.79 0.11 0.09
Matches are distributed among these distances:
87 11 0.05
88 134 0.55
89 64 0.26
90 30 0.12
91 4 0.02
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.31
Consensus pattern (87 bp):
CCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACTTCTAAAAATTACCATTTTATCCTCGAA
CTTCCAAAAATCCCATTTTTGA
Found at i:336905 original size:59 final size:59
Alignment explanation
Indices: 336540--336973 Score: 304
Period size: 59 Copynumber: 7.4 Consensus size: 59
336530 TTTACCCCCG
** * * * * *
336540 AACTTCCAAAAATCCCATTTTTGACCCTAAACTTTCCAAAATTACCA-TTTT-ACCCCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCGAAC-TTCCAAAAATCCCATTTTTGATCCTCA
* *
336598 AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCCAAAAAATTACCA-TTTT-ATCCCCA
1 AACTTCCAAAAATCCCATTTTTGACCCCGAACTT-CC-AAAAA-TCCCATTTTTGATCCTCA
* * * * * * * *
336658 AACTCCCAAAAATCTCATTTCTAACCCCGAACCTTCTAAAAATTACCA-TTTT-ATCCCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCGAA-CTTCCAAAAA-TCCCATTTTTGATCCTCA
* * * * ** *
336717 AACTCCCAAAAATCCCATTTTTAACCTCGAACCTTCTAAAAATTATCA-TTTT-ACCCT-A
1 AACTTCCAAAAATCCCATTTTTGACCCCGAA-CTTCCAAAAA-TCCCATTTTTGATCCTCA
* * * *
336775 GAACTCCCAAAAATCCCATTTTTGACCCCGAACCTTCTAAAAATTACCA-TTTT-ATCCTCG
1 -AACTTCCAAAAATCCCATTTTTGACCCCGAA-CTTCCAAAAA-TCCCATTTTTGATCCTCA
336835 AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGA-CCTCA
1 AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGATCCTCA
** ** *
336893 AACCTTTTAAAAATTAC-TATTTT-ACCCTCGAACTTCCAAAAATCCCATTTTTGAT-TTCGA
1 AA-CTTCCAAAAATCCCAT-TTTTGACCC-CGAACTTCCAAAAATCCCATTTTTGATCCTC-A
* * *
336953 ACCTTCCAAAACTACCATTTT
1 AACTTCCAAAAATCCCATTTT
336974 GCCCCCCTGT
Statistics
Matches: 324, Mismatches: 38, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
57 6 0.02
58 56 0.17
59 214 0.66
60 45 0.14
61 3 0.01
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (59 bp):
AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGATCCTCA
Found at i:336944 original size:29 final size:28
Alignment explanation
Indices: 336530--336944 Score: 311
Period size: 29 Copynumber: 14.1 Consensus size: 28
336520 AAAATTACCA
336530 TTTACCCCCGAACTTCCAAAAATCCCATT
1 TTTA-CCCCGAACTTCCAAAAATCCCATT
** * *
336559 TTTGACCCTAAACTTTCCAAAATTACCA-T
1 TTT-ACCCCGAAC-TTCCAAAAATCCCATT
336588 TTTACCCCCGAACTTCCAAAAATCCCATT
1 TTTA-CCCCGAACTTCCAAAAATCCCATT
*
336617 TTTGACCCCGAACTTCCCAAAAAATTACCA-T
1 TTT-ACCCCGAACTT-CC-AAAAA-TCCCATT
* * *
336648 TTTATCCCCAAACTCCCAAAAATCTCATT
1 TTTA-CCCCGAACTTCCAAAAATCCCATT
* * *
336677 TCTAACCCCGAACCTTCTAAAAATTACCA-T
1 T-TTACCCCGAA-CTTCCAAAAA-TCCCATT
*
336707 TTTATCCCCGAACTCCCAAAAATCCCATT
1 TTTA-CCCCGAACTTCCAAAAATCCCATT
* * **
336736 TTTAACCTCGAACCTTCTAAAAATTATCA-T
1 TTT-ACCCCGAA-CTTCCAAAAA-TCCCATT
* *
336766 TTTACCCTAGAACTCCCAAAAATCCCATT
1 TTTACCC-CGAACTTCCAAAAATCCCATT
* *
336795 TTTGACCCCGAACCTTCTAAAAATTACCA-T
1 TTT-ACCCCGAA-CTTCCAAAAA-TCCCATT
*
336825 TTTATCCTCGAACTTCCAAAAATCCCATT
1 TTTA-CCCCGAACTTCCAAAAATCCCATT
336854 TTTGACCCCGAACTTCCAAAAATCCCATT
1 TTT-ACCCCGAACTTCCAAAAATCCCATT
* * ** **
336883 TTTGACCTCAAACCTTTTAAAAATTAC-TAT
1 TTT-ACCCCGAA-CTTCCAAAAATCCCAT-T
336913 TTTACCCTCGAACTTCCAAAAATCCCATT
1 TTTACCC-CGAACTTCCAAAAATCCCATT
336942 TTT
1 TTT
336945 GATTTCGAAC
Statistics
Matches: 302, Mismatches: 54, Indels: 60
0.73 0.13 0.14
Matches are distributed among these distances:
28 27 0.09
29 149 0.49
30 95 0.31
31 27 0.09
32 4 0.01
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.31
Consensus pattern (28 bp):
TTTACCCCGAACTTCCAAAAATCCCATT
Found at i:351402 original size:58 final size:59
Alignment explanation
Indices: 351242--351648 Score: 601
Period size: 59 Copynumber: 6.9 Consensus size: 59
351232 ATTTTACCCC
* * * * *
351242 CGAACTTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACCT
1 CGAACCTTCTAAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCT
* *
351301 CGAACCTTCTAAAAATTACCATTTTATCTCCGAACTCCCAAAAATCTCATTTTTGACCT
1 CGAACCTTCTAAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCT
351360 CGAACCTTCT-AAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCT
1 CGAACCTTCTAAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCT
351418 CGAACCTTCT-AAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACC-
1 CGAACCTTCTAAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCT
* *
351475 CTAAACCTTCTAAAAAAATACCATTTTA-CCCTCGAACTCCCAAAAATCCCATTTTTGACCT
1 C-GAACCTTCT-AAAAATTACCATTTTATCCC-CGAACTCCCAAAAATCCCATTTTTGACCT
* * *
351536 CGAACCTTCTAAAAATTACCATTTTATCCCCAAACTTCCAAAAATCCCTTTTTTGA-CT
1 CGAACCTTCTAAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCT
* *
351594 CCGAACCTTCTAAAAATTACCATTTTA-CCCTCGAACTTCCAAAAATCCTATTTTT
1 -CGAACCTTCTAAAAATTACCATTTTATCCC-CGAACTCCCAAAAATCCCATTTTT
351649 TATTCCGAAC
Statistics
Matches: 321, Mismatches: 19, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
57 1 0.00
58 116 0.36
59 150 0.47
60 53 0.17
61 1 0.00
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.32
Consensus pattern (59 bp):
CGAACCTTCTAAAAATTACCATTTTATCCCCGAACTCCCAAAAATCCCATTTTTGACCT
Found at i:351677 original size:29 final size:29
Alignment explanation
Indices: 351233--351677 Score: 290
Period size: 29 Copynumber: 15.1 Consensus size: 29
351223 GTCGATGACA
*
351233 TTTTACCCCCGAACTTTCCAAAAATTACCA-
1 TTTTA-CCCCGAACCTTCCAAAAA-TACCAT
* * *
351263 TTTTACCCCCAAACTTCCAAAAATCCCAT
1 TTTTACCCCGAACCTTCCAAAAATACCAT
* *
351292 TTTTGACCTCGAACCTTCTAAAAATTACCA-
1 TTTT-ACCCCGAACCTTCCAAAAA-TACCAT
* *
351322 TTTTATCTCCGAA-CTCCCAAAAAT-CTCAT
1 TTTTA-CCCCGAACCTTCCAAAAATAC-CAT
* * *
351351 TTTTGACCTCGAACCTTCTAAAATTACCA-
1 TTTT-ACCCCGAACCTTCCAAAAATACCAT
* *
351380 TTTTATCCCCGAA-CTCCCAAAAATCCCAT
1 TTTTA-CCCCGAACCTTCCAAAAATACCAT
* * *
351409 TTTTGACCTCGAACCTTCTAAAATTACCA-
1 TTTT-ACCCCGAACCTTCCAAAAATACCAT
* *
351438 TTTTATCCCCGAA-CTCCCAAAAATCCCAT
1 TTTTA-CCCCGAACCTTCCAAAAATACCAT
** *
351467 TTTTGACCCTAAACCTTCTAAAAAAATACCA-
1 TTTT-ACCCCGAACCTTC--CAAAAATACCAT
* *
351498 TTTTACCCTCGAA-CTCCCAAAAATCCCAT
1 TTTTACCC-CGAACCTTCCAAAAATACCAT
* *
351527 TTTTGACCTCGAACCTTCTAAAAATTACCA-
1 TTTT-ACCCCGAACCTTCCAAAAA-TACCAT
* * *
351557 TTTTATCCCC-AAACTTCCAAAAATCCCTT
1 TTTTA-CCCCGAACCTTCCAAAAATACCAT
* *
351586 TTTTGACTCCGAACCTTCTAAAAATTACCA-
1 TTTT-ACCCCGAACCTTCCAAAAA-TACCAT
351616 TTTTACCCTCGAA-CTTCCAAAAAT-CCTATT
1 TTTTACCC-CGAACCTTCCAAAAATACC-A-T
** *
351646 TTTTATTCCGAACCTTCCAAAACTACCAT
1 TTTTACCCCGAACCTTCCAAAAATACCAT
351675 TTT
1 TTT
351678 GCCCCCCTAT
Statistics
Matches: 318, Mismatches: 62, Indels: 71
0.71 0.14 0.16
Matches are distributed among these distances:
27 3 0.01
28 45 0.14
29 123 0.39
30 118 0.37
31 20 0.06
32 9 0.03
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.32
Consensus pattern (29 bp):
TTTTACCCCGAACCTTCCAAAAATACCAT
Found at i:354987 original size:2 final size:2
Alignment explanation
Indices: 354975--355008 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
354965 GCAATCATCA
354975 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
355009 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:362983 original size:2 final size:2
Alignment explanation
Indices: 362978--363017 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
362968 TTTTTCTAAC
* *
362978 AT AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
363018 GATGAAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Done.