Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 90 of 126
Found at i:27767062 original size:10 final size:10
Alignment explanation
Indices: 27767047--27767147 Score: 55
Period size: 10 Copynumber: 9.8 Consensus size: 10
27767037 GTTTGTTTCC
27767047 TATTTTTATA
1 TATTTTTATA
*
27767057 TATTTTTAGA
1 TATTTTTATA
27767067 T-TTTATATATA
1 TATTT-T-TATA
* *
27767078 TATATATATA
1 TATTTTTATA
* *
27767088 TATATATATA
1 TATTTTTATA
* *
27767098 TATATATATA
1 TATTTTTATA
27767108 TGAATTTTTATA
1 T--ATTTTTATA
*
27767120 TATTTATT-TC
1 TATTT-TTATA
27767130 TATTTTT-TA
1 TATTTTTATA
27767139 TAATTTTTA
1 T-ATTTTTA
27767148 AGGTTTATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
9 7 0.09
10 52 0.69
11 6 0.08
12 10 0.13
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (10 bp):
TATTTTTATA
Found at i:27767122 original size:2 final size:2
Alignment explanation
Indices: 27767070--27767108 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
27767060 TTTTAGATTT
27767070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27767109 GAATTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27767125 original size:8 final size:8
Alignment explanation
Indices: 27767051--27767126 Score: 57
Period size: 8 Copynumber: 9.6 Consensus size: 8
27767041 GTTTCCTATT
27767051 TTTATATA
1 TTTATATA
* *
27767059 TTTTTAGA
1 TTTATATA
27767067 TTT-TATA
1 TTTATATA
*
27767074 TATATATA
1 TTTATATA
*
27767082 TATATATA
1 TTTATATA
*
27767090 TATATATA
1 TTTATATA
*
27767098 TATATATA
1 TTTATATA
* *
27767106 TATGA-ATT
1 T-TTATATA
27767114 TTTATATA
1 TTTATATA
27767122 TTTAT
1 TTTAT
27767127 TTCTATTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
7 7 0.12
8 48 0.86
9 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (8 bp):
TTTATATA
Found at i:27768149 original size:2 final size:2
Alignment explanation
Indices: 27768144--27768170 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27768134 AAAAAAAAAA
27768144 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27768171 AAAGAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27795940 original size:70 final size:70
Alignment explanation
Indices: 27795822--27795997 Score: 307
Period size: 70 Copynumber: 2.5 Consensus size: 70
27795812 GACTAATAGG
*
27795822 TAAAAATTTATCAAAATGACGTAGTTTTGTCTTTTAACTTAATAGTTTTGATTTTTAATTTTAGA
1 TAAAAATTTATCAAAATGACGTAGTTTTGTCTTTTAACTTAATAGTTTTGACTTTTAATTTTAGA
27795887 AAAGA
66 AAAGA
*
27795892 TAAATATTTATCAAAATGACGTAGTTTTGTCTTTTAACTTAATAGTTTTGACTTTTAATTTTAGA
1 TAAAAATTTATCAAAATGACGTAGTTTTGTCTTTTAACTTAATAGTTTTGACTTTTAATTTTAGA
27795957 AAAGA
66 AAAGA
* *
27795962 TAAACATTTATCAAAACGACGTAGTTTTTGTCTTTT
1 TAAAAATTTATCAAAATGACGTAG-TTTTGTCTTTT
27795998 TTTATTTGGA
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
70 90 0.89
71 11 0.11
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.45
Consensus pattern (70 bp):
TAAAAATTTATCAAAATGACGTAGTTTTGTCTTTTAACTTAATAGTTTTGACTTTTAATTTTAGA
AAAGA
Found at i:27796313 original size:25 final size:26
Alignment explanation
Indices: 27796268--27796322 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
27796258 ATTTTTAAAT
* *
27796268 TTTTAAATTTTTTATATATA-TAT-A
1 TTTTAAATTTTTTAAAAATATTATAA
27796292 TTTTAGAATTTTTTAAAAATATTATAA
1 TTTTA-AATTTTTTAAAAATATTATAA
27796319 TTTT
1 TTTT
27796323 TTTTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 13 0.50
26 3 0.12
27 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTAAATTTTTTAAAAATATTATAA
Found at i:27796339 original size:19 final size:21
Alignment explanation
Indices: 27796300--27796342 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27796290 TATTTTAGAA
*
27796300 TTTTTTAAAAATATTATAATT
1 TTTTTTAAAAATATCATAATT
27796321 TTTTTTAAAAATA-CA-AATT
1 TTTTTTAAAAATATCATAATT
27796340 TTT
1 TTT
27796343 AAATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 1 0.05
21 13 0.62
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTTTAAAAATATCATAATT
Found at i:27796378 original size:19 final size:19
Alignment explanation
Indices: 27796335--27796399 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
27796325 TTAAAAATAC
*
27796335 AAATT-TTTAAATTTTTAT
1 AAATTATTTAAATTTTTAA
27796353 AAA-TATTTAGAA-TTTTAA
1 AAATTATTTA-AATTTTTAA
* *
27796371 AAATTATTTTCAATTTTTGA
1 AAATTA-TTTAAATTTTTAA
*
27796391 CAATTATTT
1 AAATTATTT
27796400 TGATTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
17 1 0.03
18 15 0.39
19 9 0.24
20 13 0.34
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (19 bp):
AAATTATTTAAATTTTTAA
Found at i:27798264 original size:16 final size:16
Alignment explanation
Indices: 27798243--27798276 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27798233 ATACATTCAT
*
27798243 CACAACATTCACAAGA
1 CACAACAATCACAAGA
27798259 CACAACAATCACAAGA
1 CACAACAATCACAAGA
27798275 CA
1 CA
27798277 TATTTCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.32, G:0.06, T:0.09
Consensus pattern (16 bp):
CACAACAATCACAAGA
Found at i:27802116 original size:34 final size:35
Alignment explanation
Indices: 27802054--27802130 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 35
27802044 CATAAACTAA
* *
27802054 ACCCAAATATTTTTAATTTTTTTACCTTTTATATT
1 ACCCAAATATTTTTAATTCTTTTACCTTTTACATT
*
27802089 ACCCAAATATTTTTAA-TCTTTTACCTTTTACCTT
1 ACCCAAATATTTTTAATTCTTTTACCTTTTACATT
27802123 ACCCAAAT
1 ACCCAAAT
27802131 GTTGTTTACT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 23 0.59
35 16 0.41
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (35 bp):
ACCCAAATATTTTTAATTCTTTTACCTTTTACATT
Found at i:27806343 original size:17 final size:17
Alignment explanation
Indices: 27806311--27806344 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27806301 TGATTTTAGT
* *
27806311 CTAGAAATTTATTATAA
1 CTAGAAATGTAGTATAA
27806328 CTAGAAATGTAGTATAA
1 CTAGAAATGTAGTATAA
27806345 TGTATATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
CTAGAAATGTAGTATAA
Found at i:27806620 original size:22 final size:22
Alignment explanation
Indices: 27806579--27806647 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
27806569 CTCTCCGTTA
27806579 TTTAGCACGTATAGTGCTCTCCG
1 TTTAGCACGT-TAGTGCTCTCCG
*
27806602 TTTAGCACGTTTGTGCTCTCCG
1 TTTAGCACGTTAGTGCTCTCCG
* * * *
27806624 TATAGCACCTTGGTACTCTCCG
1 TTTAGCACGTTAGTGCTCTCCG
27806646 TT
1 TT
27806648 CATTAGTGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 30 0.75
23 10 0.25
ACGTcount: A:0.14, C:0.28, G:0.20, T:0.38
Consensus pattern (22 bp):
TTTAGCACGTTAGTGCTCTCCG
Found at i:27808867 original size:23 final size:23
Alignment explanation
Indices: 27808835--27808878 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27808825 ACTACCATTT
27808835 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
27808858 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
27808879 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:27808871 original size:13 final size:11
Alignment explanation
Indices: 27808839--27808881 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
27808829 CCATTTTCTA
*
27808839 AATAAAATAAT
1 AATAAAATATT
27808850 AAT-AAATATCT
1 AATAAAATAT-T
27808861 AAGTAAAATATT
1 AA-TAAAATATT
27808873 AATAAAATA
1 AATAAAATA
27808882 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:27810797 original size:26 final size:26
Alignment explanation
Indices: 27810734--27810841 Score: 112
Period size: 26 Copynumber: 4.2 Consensus size: 26
27810724 ACATAGTAAT
* * *
27810734 TGCTAAAACTTTCAACGGCTCGAAGTC
1 TGCT-AAACATTCACCGGCTCGAAGCC
*
27810761 TGCT-AACATTCACCGGTTC-AAGGCC
1 TGCTAAACATTCACCGGCTCGAA-GCC
*
27810786 TGCTAAACATTCACCAGCTCGAAGCC
1 TGCTAAACATTCACCGGCTCGAAGCC
* * *
27810812 TGCTAAATATACACCGGCTCGAAGCT
1 TGCTAAACATTCACCGGCTCGAAGCC
27810838 TGCT
1 TGCT
27810842 CATTTATTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.03
25 18 0.26
26 42 0.62
27 6 0.09
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (26 bp):
TGCTAAACATTCACCGGCTCGAAGCC
Found at i:27810909 original size:2 final size:2
Alignment explanation
Indices: 27810904--27810930 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27810894 AATATATATA
27810904 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
27810931 AAACATAGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:27813006 original size:28 final size:29
Alignment explanation
Indices: 27812951--27813026 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
27812941 AAAGTTTATG
* *
27812951 TACCAACTTAAAAAAATTGTCAAGTTTAAA
1 TACCAAATTAAAAAAA-TGTCAAATTTAAA
*
27812981 TATCAAATTAAAAAAA-GTCAAATTTAAA
1 TACCAAATTAAAAAAATGTCAAATTTAAA
27813009 TACCAAATTGAATAAAAA
1 TACCAAATT-AA-AAAAA
27813027 ATGTTTAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 19 0.47
29 2 0.05
30 19 0.47
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.28
Consensus pattern (29 bp):
TACCAAATTAAAAAAATGTCAAATTTAAA
Found at i:27834633 original size:23 final size:20
Alignment explanation
Indices: 27834598--27834641 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
27834588 ACTATCAAAC
*
27834598 ATATATAAATTTATAATTCAA
1 ATATATAAATTTA-AATACAA
27834619 ATATATAACAGTTTAAATACAA
1 ATATATAA-A-TTTAAATACAA
27834641 A
1 A
27834642 CATTCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATATAAATTTAAATACAA
Found at i:27840488 original size:13 final size:13
Alignment explanation
Indices: 27840459--27840487 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27840449 AATAGGGATG
27840459 TTTTATATTTGGC
1 TTTTATATTTGGC
27840472 TTTTATATTTGG-
1 TTTTATATTTGGC
27840484 TTTT
1 TTTT
27840488 TTGGTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (13 bp):
TTTTATATTTGGC
Found at i:27856855 original size:14 final size:14
Alignment explanation
Indices: 27856836--27856864 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27856826 GATATACGAA
27856836 AATAACAAGCTGAC
1 AATAACAAGCTGAC
27856850 AATAACAAGCTGAC
1 AATAACAAGCTGAC
27856864 A
1 A
27856865 TGACACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAACAAGCTGAC
Found at i:27857236 original size:22 final size:22
Alignment explanation
Indices: 27857198--27857249 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
27857188 TTGTGCATTC
*
27857198 AAAATGAAAAAATTA-TTTTTTT
1 AAAAT-AAAAAAGTATTTTTTTT
27857220 AAAGATAAAAAAGTATTTTTTTT
1 AAA-ATAAAAAAGTATTTTTTTT
27857243 AAAATAA
1 AAAATAA
27857250 TACAAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (22 bp):
AAAATAAAAAAGTATTTTTTTT
Found at i:27858905 original size:31 final size:29
Alignment explanation
Indices: 27858868--27858946 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
27858858 TTTCTGATCC
27858868 AATTTGGTACTCAAACTTTACACATTTTTTT
1 AATTTGGTACTCAAACTTTACAC--TTTTTT
*
27858899 AATTTGGTAC-CTAAACTTGACACTTTTTT
1 AATTTGGTACTC-AAACTTTACACTTTTTT
* *
27858928 AAGTTGGTACTTAAACTTT
1 AATTTGGTACTCAAACTTT
27858947 TTGGGGTCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 21 0.50
30 1 0.02
31 20 0.48
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (29 bp):
AATTTGGTACTCAAACTTTACACTTTTTT
Found at i:27858964 original size:88 final size:90
Alignment explanation
Indices: 27858810--27858999 Score: 235
Period size: 88 Copynumber: 2.1 Consensus size: 90
27858800 TTAATATATC
* * * * *
27858810 ATTTGGTACCTGAATTTGACACTTTTTCTTAATTTGATATTTAAACTTTTTCTGATCCAATTTGG
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTCGGATCCAATTTGG
*
27858875 TAC-TCAAACTTTACACATTTTTT-TA
66 TACAT-AAACTTGACAC-TTTTTTCTA
* * *
27858900 ATTTGGTACCTAAACTTGACAC-TTTT-TTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGG
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTCGGATCCAATTTGG
* *
27858963 TACATGAACTTGACTCTTTTTTCTA
66 TACATAAACTTGACACTTTTTTCTA
27858988 ATTTGGTACCTA
1 ATTTGGTACCTA
27859000 TTTTTTTTAA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
87 6 0.07
88 56 0.64
89 5 0.06
90 20 0.23
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (90 bp):
ATTTGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTCGGATCCAATTTGG
TACATAAACTTGACACTTTTTTCTA
Found at i:27859250 original size:59 final size:59
Alignment explanation
Indices: 27859145--27859309 Score: 188
Period size: 59 Copynumber: 2.7 Consensus size: 59
27859135 ATTTAATAAA
* *
27859145 TTTATGTACCAAATTAGGAAAAAAATGCCAAATTCAGGTACTAAATTGACTCCAA-AAAAAG
1 TTTACGTACCAAATTAGGAAAAATAT--CAAATTCAGGTACTAAATTGACT-CAATAAAAAG
* * * * *
27859206 TTTACGTACCAAAGTAGGAAAAATATCAAATTCAGATACCAAATTGAGTCAATAAAATG
1 TTTACGTACCAAATTAGGAAAAATATCAAATTCAGGTACTAAATTGACTCAATAAAAAG
* * * *
27859265 TTAAGGTACCAAATTAAGAAAAAGTATAAAATTCAGGTACTAAAT
1 TTTACGTACCAAATTAGGAAAAA-TATCAAATTCAGGTACTAAAT
27859310 ATTATATTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 3 0.03
59 44 0.50
60 18 0.20
61 23 0.26
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (59 bp):
TTTACGTACCAAATTAGGAAAAATATCAAATTCAGGTACTAAATTGACTCAATAAAAAG
Found at i:27861187 original size:53 final size:51
Alignment explanation
Indices: 27861116--27861256 Score: 146
Period size: 53 Copynumber: 2.8 Consensus size: 51
27861106 GTGATAGGAA
* * *
27861116 ATTTAA-ATATTAAGATAAATAATATTTATCTTTATGATAAATATTAAATTTAT
1 ATTTAATAT-TTAATATAAATATTATTTATATTTATGATAAATATT--ATTTAT
* * *
27861169 ATTTAATATTTAATATAAACATTATTTAAATGTTAAGATAAATATTATTTAT
1 ATTTAATATTTAATATAAATATTATTTATAT-TTATGATAAATATTATTTAT
* *
27861221 CTTT-AT-TTTAAT-TAAATATTATTTATTTTTATGATA
1 ATTTAATATTTAATATAAATATTATTTATATTTATGATA
27861257 TTTTTATATT
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
48 7 0.09
49 13 0.17
50 6 0.08
51 2 0.03
52 9 0.12
53 23 0.31
54 15 0.20
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (51 bp):
ATTTAATATTTAATATAAATATTATTTATATTTATGATAAATATTATTTAT
Found at i:27861204 original size:23 final size:23
Alignment explanation
Indices: 27861168--27861219 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
27861158 ATTAAATTTA
*
27861168 TATTTAATATTTAATATAAACAT
1 TATTTAATATTTAAGATAAACAT
*
27861191 TATTTAA-ATGTTAAGATAAATAT
1 TATTTAATAT-TTAAGATAAACAT
27861214 TATTTA
1 TATTTA
27861220 TCTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
TATTTAATATTTAAGATAAACAT
Found at i:27861270 original size:5 final size:5
Alignment explanation
Indices: 27861236--27861286 Score: 56
Period size: 5 Copynumber: 11.0 Consensus size: 5
27861226 TTTTAATTAA
* *
27861236 ATATT AT-TT AT-TT TTATG ATATT -T-TT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
27861282 ATATT
1 ATATT
27861287 TAAATATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 9 0.23
5 28 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (5 bp):
ATATT
Found at i:27861278 original size:15 final size:14
Alignment explanation
Indices: 27861236--27861286 Score: 61
Period size: 13 Copynumber: 3.7 Consensus size: 14
27861226 TTTTAATTAA
27861236 ATATTAT-TTATTT
1 ATATTATATTATTT
* *
27861249 TTATGATATT-TTT
1 ATATTATATTATTT
27861262 ATATTATATTATATT
1 ATATTATATTAT-TT
27861277 ATATTATATT
1 ATATTATATT
27861287 TAAATATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 16 0.52
14 3 0.10
15 12 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATATTATATTATTT
Found at i:27862231 original size:30 final size:30
Alignment explanation
Indices: 27862188--27862266 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
27862178 TCAATTTATC
* * *
27862188 GATATGTGAAAGCCTTTGTGGTTTTTCTAT
1 GATATGTGGAAGCCTTTGTGGCTGTTCTAT
* *
27862218 GATATGAGGAAGCCATTT-TGGCTGTTCTTT
1 GATATGTGGAAGCC-TTTGTGGCTGTTCTAT
*
27862248 AATATGTGGAAGCCTTTGT
1 GATATGTGGAAGCCTTTGT
27862267 CGCTATTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 3 0.08
30 34 0.85
31 3 0.08
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (30 bp):
GATATGTGGAAGCCTTTGTGGCTGTTCTAT
Found at i:27876954 original size:40 final size:40
Alignment explanation
Indices: 27876903--27877084 Score: 159
Period size: 40 Copynumber: 4.5 Consensus size: 40
27876893 TTGAATTCCA
*
27876903 ACACCGGCTCATAGCCTGCTAAGCCATAGCTCGAATTTAG
1 ACACCGGCTCATAGCCTGCTAAGCCATAGCTCGAAATTAG
* * * **
27876943 TCACCGACTCATAGCCTGCTAAGCCGTAGCTCGAGTTTAG
1 ACACCGGCTCATAGCCTGCTAAGCCATAGCTCGAAATTAG
* * ** ** *
27876983 TCATCGGCTTGTAGCCTTTTAAGCCATAGCTTGAAATTAG
1 ACACCGGCTCATAGCCTGCTAAGCCATAGCTCGAAATTAG
* * * * * *
27877023 ACACCGGCTCAAAGCATTCTAAGCCGTAGCTTGAAATTAA
1 ACACCGGCTCATAGCCTGCTAAGCCATAGCTCGAAATTAG
* *
27877063 ACATCGACTCGA-AGCCTGCTAA
1 ACACCGGCTC-ATAGCCTGCTAA
27877085 TCTGTAGCTT
Statistics
Matches: 114, Mismatches: 27, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
40 113 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
ACACCGGCTCATAGCCTGCTAAGCCATAGCTCGAAATTAG
Found at i:27877079 original size:80 final size:80
Alignment explanation
Indices: 27876922--27877079 Score: 181
Period size: 80 Copynumber: 2.0 Consensus size: 80
27876912 CATAGCCTGC
* * * * ** **
27876922 TAAGCCATAGCTCGAATTTAGTCACCGACTCATAGCCTGCTAAGCCGTAGCTCGAGTTTAGTCAT
1 TAAGCCATAGCTCGAAATTAGACACCGACTCAAAGCATGCTAAGCCGTAGCTCGAAATTAAACAT
* * *
27876987 CGGCTTGTAGCCTTT
66 CGACTCGAAGCCTTT
* * * *
27877002 TAAGCCATAGCTTGAAATTAGACACCGGCTCAAAGCATTCTAAGCCGTAGCTTGAAATTAAACAT
1 TAAGCCATAGCTCGAAATTAGACACCGACTCAAAGCATGCTAAGCCGTAGCTCGAAATTAAACAT
27877067 CGACTCGAAGCCT
66 CGACTCGAAGCCT
27877080 GCTAATCTGT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (80 bp):
TAAGCCATAGCTCGAAATTAGACACCGACTCAAAGCATGCTAAGCCGTAGCTCGAAATTAAACAT
CGACTCGAAGCCTTT
Found at i:27877092 original size:40 final size:40
Alignment explanation
Indices: 27877002--27877094 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
27876992 TGTAGCCTTT
* * * *
27877002 TAAGCCATAGCTTGAAATTAGACACCGGCTCAAAGCATTC
1 TAAGCCGTAGCTTGAAATTAAACACCGACTCAAAGCATGC
* * *
27877042 TAAGCCGTAGCTTGAAATTAAACATCGACTCGAAGCCTGC
1 TAAGCCGTAGCTTGAAATTAAACACCGACTCAAAGCATGC
* *
27877082 TAATCTGTAGCTT
1 TAAGCCGTAGCTT
27877095 AAGTTGATTG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
TAAGCCGTAGCTTGAAATTAAACACCGACTCAAAGCATGC
Found at i:27883872 original size:16 final size:18
Alignment explanation
Indices: 27883829--27883873 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
27883819 TTGCTTTCTG
*
27883829 TTGCACTGACAATTTAAC
1 TTGCACTGACAACTTAAC
*
27883847 TTGCATTGACAACTT-A-
1 TTGCACTGACAACTTAAC
27883863 TTGCACTGACA
1 TTGCACTGACA
27883874 GTTTTAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 1 0.04
18 13 0.54
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (18 bp):
TTGCACTGACAACTTAAC
Found at i:27886246 original size:40 final size:40
Alignment explanation
Indices: 27886150--27886303 Score: 132
Period size: 40 Copynumber: 3.9 Consensus size: 40
27886140 TTGAATTCCA
* * * *
27886150 ACACCGTCTCATAGCCTGCTAAGCCATAGC-TCAAGTTTAG
1 ACACCGACTCAAAGCCTGCTAAGCCATAGCTTGAA-ATTAG
* ** *
27886190 TCACC-AGCTCGTAGCCTGTTAAGCCATAGCTTGAAATTAG
1 ACACCGA-CTCAAAGCCTGCTAAGCCATAGCTTGAAATTAG
** * *
27886230 ACACCGACTCAAAGCCTTTTAAGCCGTAGCTTGAAATTAA
1 ACACCGACTCAAAGCCTGCTAAGCCATAGCTTGAAATTAG
* * * *
27886270 ACATCGGCTCGAAGCCTGCTAAGCCGTAGCTTGA
1 ACACCGACTCAAAGCCTGCTAAGCCATAGCTTGA
27886304 GTTTATTCAA
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 90 0.96
41 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
ACACCGACTCAAAGCCTGCTAAGCCATAGCTTGAAATTAG
Found at i:27894425 original size:22 final size:22
Alignment explanation
Indices: 27894390--27894431 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
27894380 TTATATTAGG
*
27894390 TATTTTTATGATTG-TATTTCA
1 TATTTTTATCATTGATATTTCA
27894411 TATTTTTATTCATTGATATTT
1 TATTTTTA-TCATTGATATTT
27894432 TTATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (22 bp):
TATTTTTATCATTGATATTTCA
Found at i:27894445 original size:16 final size:16
Alignment explanation
Indices: 27894404--27894445 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
27894394 TTTATGATTG
27894404 TATTTCATATTTTTATT
1 TATTT-ATATTTTTATT
* *
27894421 CATTGATATTTTTATT
1 TATTTATATTTTTATT
27894437 TATTTATAT
1 TATTTATAT
27894446 GCCATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTTATATTTTTATT
Found at i:27895028 original size:24 final size:23
Alignment explanation
Indices: 27894978--27895035 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
27894968 TATTTATTCC
*
27894978 TATTT-ATTAT-TTTTATTGTGT
1 TATTTAATTATATTTAATTGTGT
27894999 TA-TTAATTATATTTAATTGTGT
1 TATTTAATTATATTTAATTGTGT
27895021 TCATTTAATT-TATTT
1 T-ATTTAATTATATTT
27895036 TATTCATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.06
21 7 0.22
22 11 0.34
23 6 0.19
24 6 0.19
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.66
Consensus pattern (23 bp):
TATTTAATTATATTTAATTGTGT
Found at i:27898061 original size:25 final size:25
Alignment explanation
Indices: 27898033--27898082 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
27898023 AATAGTTGAG
27898033 TTGGAGGAGTCTATGCATAGGCACC
1 TTGGAGGAGTCTATGCATAGGCACC
*
27898058 TTGGAGGGGTCTATGCATAGGCACC
1 TTGGAGGAGTCTATGCATAGGCACC
27898083 GCAGTCGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (25 bp):
TTGGAGGAGTCTATGCATAGGCACC
Found at i:27903048 original size:53 final size:53
Alignment explanation
Indices: 27902932--27903101 Score: 169
Period size: 53 Copynumber: 3.2 Consensus size: 53
27902922 GGGCATTTCC
* * * * * * **
27902932 TTTCATAATACACCACAAAGGCTATTCTTTTCAAGATTTGCCACAGAGTCTTCAA
1 TTTCATGATACGCCACAAAGGCT-TTCATTTCATGA-TTGCCACAAAGGCTTTTA
* * *
27902987 TTTTATGATATGCCACAAAGGCTTTCATTCCATGATTGCCACAAAGGCTTTTA
1 TTTCATGATACGCCACAAAGGCTTTCATTTCATGATTGCCACAAAGGCTTTTA
* * * * *
27903040 TTTCATGATCCGCCACAATGGTTTTCATTTCATGAATGCCATAAAGGCTTTTA
1 TTTCATGATACGCCACAAAGGCTTTCATTTCATGATTGCCACAAAGGCTTTTA
*
27903093 TTCCATGAT
1 TTTCATGAT
27903102 TACCATGGAA
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 67 0.71
54 9 0.09
55 19 0.20
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (53 bp):
TTTCATGATACGCCACAAAGGCTTTCATTTCATGATTGCCACAAAGGCTTTTA
Found at i:27903107 original size:26 final size:26
Alignment explanation
Indices: 27902991--27903102 Score: 127
Period size: 26 Copynumber: 4.2 Consensus size: 26
27902981 CTTCAATTTT
*
27902991 ATGATATGCCACAAAGGCTTTCATTCC
1 ATGAT-TGCCACAAAGGCTTTTATTCC
*
27903018 ATGATTGCCACAAAGGCTTTTATTTC
1 ATGATTGCCACAAAGGCTTTTATTCC
* * *
27903044 ATGATCCGCCACAATGG-TTTTCATTTC
1 ATGAT-TGCCACAAAGGCTTTT-ATTCC
* *
27903071 ATGAATGCCATAAAGGCTTTTATTCC
1 ATGATTGCCACAAAGGCTTTTATTCC
27903097 ATGATT
1 ATGATT
27903103 ACCATGGAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 45 0.62
27 27 0.38
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (26 bp):
ATGATTGCCACAAAGGCTTTTATTCC
Found at i:27904480 original size:30 final size:30
Alignment explanation
Indices: 27904446--27904569 Score: 121
Period size: 30 Copynumber: 4.1 Consensus size: 30
27904436 CATACGACTA
*
27904446 TGTGGAGTGACTGTGTATGGA-AAACGACCG
1 TGTGGAGTGACT-TGTATGGACACACGACCG
*
27904476 TGTGGAGTGA-TCGTATGCGACACACGACCG
1 TGTGGAGTGACTTGTATG-GACACACGACCG
* *
27904506 TGTGAAGTGATCTTGTGT-GACACACGACCG
1 TGTGGAGTGA-CTTGTATGGACACACGACCG
* * *
27904536 TGTGTAGTGA-TTGTGTGCAGCACACGACCG
1 TGTGGAGTGACTTGTATGGA-CACACGACCG
27904566 TGTG
1 TGTG
27904570 ACAGGCCATG
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
28 11 0.14
29 4 0.05
30 62 0.77
32 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.25
Consensus pattern (30 bp):
TGTGGAGTGACTTGTATGGACACACGACCG
Found at i:27904949 original size:22 final size:22
Alignment explanation
Indices: 27904904--27904949 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27904894 CATATGGTCA
* *
27904904 AAACATACCAAAAGAGTCATAT
1 AAACATACCAAAACAGTCACAT
27904926 AAACATAACCAAAACA-TCACAT
1 AAACAT-ACCAAAACAGTCACAT
27904948 AA
1 AA
27904950 CAAAGCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.59, C:0.22, G:0.04, T:0.15
Consensus pattern (22 bp):
AAACATACCAAAACAGTCACAT
Found at i:27905436 original size:27 final size:26
Alignment explanation
Indices: 27905406--27905494 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
27905396 AAACACGACG
27905406 TGAAAGAAATGCTTTTATGGAAAATTT
1 TGAAAGAAATGCTTTTATGGAAAA-TT
* * *
27905433 TGAAAGAATTGCCTTCATGGAAAACTT
1 TGAAAGAAATGCTTTTATGGAAAA-TT
* *
27905460 TGAAAGGAATG-TCTTTGTGGCAAAATT
1 TGAAAGAAATGCT-TTTATGG-AAAATT
27905487 TGAAAGAA
1 TGAAAGAA
27905495 CTGCCTTCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 46 0.92
28 4 0.08
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.31
Consensus pattern (26 bp):
TGAAAGAAATGCTTTTATGGAAAATT
Found at i:27905532 original size:54 final size:55
Alignment explanation
Indices: 27905406--27905535 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 55
27905396 AAACACGACG
** * * *
27905406 TGAAAGAAATGCTTTTATGG-AAAATTTTGAAAGAATTGCCTTCATGGAAAACTT
1 TGAAAGAAATGCCCTTGTGGCAAAATTTTGAAAGAACTGCCTTCATGGAAAACTC
* * * * **
27905460 TGAAAGGAATGTCTTTGTGGCAAAA-TTTGAAAGAACTGCCTTCATTGCGAACTC
1 TGAAAGAAATGCCCTTGTGGCAAAATTTTGAAAGAACTGCCTTCATGGAAAACTC
*
27905514 TGATAGAAATGCCCTTGTGGCA
1 TGAAAGAAATGCCCTTGTGGCA
27905536 CGTCAAGATA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
54 58 0.94
55 4 0.06
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (55 bp):
TGAAAGAAATGCCCTTGTGGCAAAATTTTGAAAGAACTGCCTTCATGGAAAACTC
Found at i:27937488 original size:14 final size:14
Alignment explanation
Indices: 27937459--27937515 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
27937449 TAAACAAATT
**
27937459 AAATTTATTTGCTC
1 AAATTTATTTTTTC
27937473 AAATTTATTTTTTC
1 AAATTTATTTTTTC
*
27937487 AACTTATATTTTTTC
1 AAATT-TATTTTTTC
*
27937502 AAACTCTATTTTTT
1 AAA-TTTATTTTTT
27937516 AAGTGAACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
14 16 0.44
15 19 0.53
16 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.58
Consensus pattern (14 bp):
AAATTTATTTTTTC
Found at i:27954077 original size:21 final size:22
Alignment explanation
Indices: 27954044--27954103 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
27954034 GTTTAAGAAT
*
27954044 AGTGCAGACTTCTACCGATACA
1 AGTGCAGACTTCTACCGAAACA
*
27954066 AGTG-AGAGTTCTACCGAAACA
1 AGTGCAGACTTCTACCGAAACA
**
27954087 AGT-CTTACTTCTACCGA
1 AGTGCAGACTTCTACCGA
27954104 TACTAAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (22 bp):
AGTGCAGACTTCTACCGAAACA
Found at i:27965648 original size:53 final size:53
Alignment explanation
Indices: 27965533--27965832 Score: 483
Period size: 53 Copynumber: 5.6 Consensus size: 53
27965523 TTCATATTTG
* * * *
27965533 ATAACTCACGTTGACACAGAGTTATCAGACCTTTTAATCCATAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACC-TTTAATCCGTAATAGGATTCAT
* * *
27965587 ATAGCTCACGATAACACAGAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
*
27965640 ATAACTCACGATGACACAGAGTCATCGAACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* *
27965693 ATAACTCACGATGACACAGAGTCATCGGACCTTTAACCCGTAATAGGCTTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* *
27965746 ATAACACACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
27965799 ATAACTCACGATGACACAGAGTCATCGGACCTTT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTT
27965833 TTGCATTTAC
Statistics
Matches: 228, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
53 201 0.88
54 27 0.12
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.26
Consensus pattern (53 bp):
ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
Found at i:27967396 original size:51 final size:50
Alignment explanation
Indices: 27967323--27967424 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 50
27967313 TATTTCTCCT
*
27967323 AAAAAAAAAGAGGTCGAGATGAAAACCCGCAAACGGCATCTTGAAACCAA
1 AAAAAAAAAGAGGTCAAGATGAAAACCCGCAAACGGCATCTTGAAACCAA
*
27967373 AAAAAAAAGAGAGGTCAAGATGAAAACCCGCAAATGGCATCTTGAAACCAA
1 AAAAAAAA-AGAGGTCAAGATGAAAACCCGCAAACGGCATCTTGAAACCAA
27967424 A
1 A
27967425 GGGATTTTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 8 0.16
51 41 0.84
ACGTcount: A:0.51, C:0.19, G:0.20, T:0.11
Consensus pattern (50 bp):
AAAAAAAAAGAGGTCAAGATGAAAACCCGCAAACGGCATCTTGAAACCAA
Found at i:27968263 original size:50 final size:49
Alignment explanation
Indices: 27968203--27968405 Score: 246
Period size: 49 Copynumber: 4.1 Consensus size: 49
27968193 CTGTGAAGAG
* *
27968203 ATGAAGGGAAAGATATGAAGCCACAACGACAAATCTTGTACCTTAGAGAT
1 ATGAAGGGAAAGAT-TGAAGCCGCAACGACGAATCTTGTACCTTAGAGAT
* * ** *
27968253 ATGATGGGAAAGATTGAAGCCGCAATGGTGAATCTTGTACCCTAGAGAT
1 ATGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCTTAGAGAT
* * * *
27968302 GTGAAGGGAAAGATATGAAGCTGCAACAATGAATCTTGTACCTTAGAGAT
1 ATGAAGGGAAAGAT-TGAAGCCGCAACGACGAATCTTGTACCTTAGAGAT
* * * *
27968352 ATGATGGGAAAGATTGAAGCCGCAATGACGAATCTTGTACCCTAAAGAT
1 ATGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCTTAGAGAT
27968401 -TGAAG
1 ATGAAG
27968406 CCACAATGGC
Statistics
Matches: 129, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
48 4 0.03
49 70 0.54
50 55 0.43
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (49 bp):
ATGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCTTAGAGAT
Found at i:27968375 original size:99 final size:98
Alignment explanation
Indices: 27968204--27968405 Score: 323
Period size: 99 Copynumber: 2.1 Consensus size: 98
27968194 TGTGAAGAGA
*
27968204 TGAAGGGAAAGATATGAAGCCACAACGACAAATCTTGTACCTTAGAGATATGATGGGAAAGATTG
1 TGAAGGGAAAGATATGAAGCCACAACAACAAATCTTGTACCTTAGAGATATGATGGGAAAGATTG
** *
27968269 AAGCCGCAATGGTGAATCTTGTACCCTAGAGAT
66 AAGCCGCAATGACGAATCTTGTACCCTAAAGAT
** **
27968302 GTGAAGGGAAAGATATGAAGCTGCAACAATGAATCTTGTACCTTAGAGATATGATGGGAAAGATT
1 -TGAAGGGAAAGATATGAAGCCACAACAACAAATCTTGTACCTTAGAGATATGATGGGAAAGATT
27968367 GAAGCCGCAATGACGAATCTTGTACCCTAAAGAT
65 GAAGCCGCAATGACGAATCTTGTACCCTAAAGAT
27968401 TGAAG
1 TGAAG
27968406 CCACAATGGC
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
98 5 0.05
99 90 0.95
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (98 bp):
TGAAGGGAAAGATATGAAGCCACAACAACAAATCTTGTACCTTAGAGATATGATGGGAAAGATTG
AAGCCGCAATGACGAATCTTGTACCCTAAAGAT
Found at i:27968449 original size:35 final size:35
Alignment explanation
Indices: 27968360--27968449 Score: 153
Period size: 35 Copynumber: 2.6 Consensus size: 35
27968350 ATATGATGGG
*
27968360 AAAGATTGAAGCCGCAATGACGAATCTTGTACCCT
1 AAAGATTGAAGCCGCAATGGCGAATCTTGTACCCT
*
27968395 AAAGATTGAAGCCACAATGGCGAATCTTGTACCCT
1 AAAGATTGAAGCCGCAATGGCGAATCTTGTACCCT
*
27968430 AAAGATTAAAGCCGCAATGG
1 AAAGATTGAAGCCGCAATGG
27968450 TCGACCCTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (35 bp):
AAAGATTGAAGCCGCAATGGCGAATCTTGTACCCT
Found at i:27973252 original size:19 final size:20
Alignment explanation
Indices: 27973206--27973253 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
27973196 TTGTTTTACC
*
27973206 TATTTTATTTTCTAATTTTTA
1 TATTTTCTTTTCT-ATTTTTA
27973227 T-TGTTTCTTTTCT-TTTTTA
1 TAT-TTTCTTTTCTATTTTTA
27973246 TATTTTCT
1 TATTTTCT
27973254 ATACTTGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 12 0.50
20 2 0.08
21 10 0.42
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (20 bp):
TATTTTCTTTTCTATTTTTA
Found at i:27976512 original size:21 final size:21
Alignment explanation
Indices: 27976488--27976540 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
27976478 GTGCCTGCTA
*
27976488 TGTCGTGACATGGATCCTGGG
1 TGTCGCGACATGGATCCTGGG
* *
27976509 TGTCACGACATGGATCTTGGG
1 TGTCGCGACATGGATCCTGGG
27976530 TGTCGCGACAT
1 TGTCGCGACAT
27976541 CGACTCCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (21 bp):
TGTCGCGACATGGATCCTGGG
Found at i:27979030 original size:18 final size:19
Alignment explanation
Indices: 27978995--27979030 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27978985 CACCAATTCT
*
27978995 TTCCAACCTTACTTTTAGC
1 TTCCAAACTTACTTTTAGC
27979014 TTCCAAACTTA-TTTTAG
1 TTCCAAACTTACTTTTAG
27979031 ATTCGATCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (19 bp):
TTCCAAACTTACTTTTAGC
Found at i:27994759 original size:20 final size:20
Alignment explanation
Indices: 27994734--27994773 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
27994724 AATTCACTAA
27994734 GACCATCAAATGCAATCGAC
1 GACCATCAAATGCAATCGAC
*
27994754 GACCATCAAATGCATTCGAC
1 GACCATCAAATGCAATCGAC
27994774 CAAGGGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (20 bp):
GACCATCAAATGCAATCGAC
Found at i:27998349 original size:21 final size:21
Alignment explanation
Indices: 27998325--27998367 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27998315 ATTTAAGGTC
*
27998325 TGATTTGTAAATTCAGTAAAG
1 TGATTTGTAAATTAAGTAAAG
27998346 TGATTTGTAAATTAAGTAAAG
1 TGATTTGTAAATTAAGTAAAG
27998367 T
1 T
27998368 TAAGGACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (21 bp):
TGATTTGTAAATTAAGTAAAG
Found at i:27999036 original size:32 final size:32
Alignment explanation
Indices: 27998999--27999070 Score: 128
Period size: 32 Copynumber: 2.2 Consensus size: 32
27998989 GACCCTAAAA
27998999 CCAAACCCTTT-AGAAAGGCTCAATTTTGAAAC
1 CCAAACCCTTTGA-AAAGGCTCAATTTTGAAAC
27999031 CCAAACCCTTTGAAAAGGCTCAATTTTGAAAC
1 CCAAACCCTTTGAAAAGGCTCAATTTTGAAAC
27999063 CCAAACCC
1 CCAAACCC
27999071 AAACCTTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 38 0.97
33 1 0.03
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (32 bp):
CCAAACCCTTTGAAAAGGCTCAATTTTGAAAC
Found at i:28005738 original size:26 final size:26
Alignment explanation
Indices: 28005699--28005867 Score: 200
Period size: 26 Copynumber: 6.5 Consensus size: 26
28005689 AGTAGAAAGT
28005699 CGGTGAATAAATAGCAGGCCTT-GAGC
1 CGGTGAATAAATAGCAGG-CTTCGAGC
* * *
28005725 CGGTGATTAGATAGCAAGCTTCGAGC
1 CGGTGAATAAATAGCAGGCTTCGAGC
28005751 CGGTGAATAAATAGCAGGCCTT-GAGC
1 CGGTGAATAAATAGCAGG-CTTCGAGC
*
28005777 CGGTGATTAAATAGCAGGCTTCGAGC
1 CGGTGAATAAATAGCAGGCTTCGAGC
* * *
28005803 CGATGAATAAATAACAGGCCTT-GAGT
1 CGGTGAATAAATAGCAGG-CTTCGAGC
* * *
28005829 CGGTGATTAGATCGCAGGCTTCGAGC
1 CGGTGAATAAATAGCAGGCTTCGAGC
28005855 CGGTGAATAAATA
1 CGGTGAATAAATA
28005868 ATAAGCTTTA
Statistics
Matches: 118, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
25 9 0.08
26 103 0.87
27 6 0.05
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (26 bp):
CGGTGAATAAATAGCAGGCTTCGAGC
Found at i:28005777 original size:52 final size:52
Alignment explanation
Indices: 28005699--28005867 Score: 284
Period size: 52 Copynumber: 3.2 Consensus size: 52
28005689 AGTAGAAAGT
*
28005699 CGGTGAATAAATAGCAGGCCTTGAGCCGGTGATTAGATAGCAAGCTTCGAGC
1 CGGTGAATAAATAGCAGGCCTTGAGCCGGTGATTAGATAGCAGGCTTCGAGC
*
28005751 CGGTGAATAAATAGCAGGCCTTGAGCCGGTGATTAAATAGCAGGCTTCGAGC
1 CGGTGAATAAATAGCAGGCCTTGAGCCGGTGATTAGATAGCAGGCTTCGAGC
* * * *
28005803 CGATGAATAAATAACAGGCCTTGAGTCGGTGATTAGATCGCAGGCTTCGAGC
1 CGGTGAATAAATAGCAGGCCTTGAGCCGGTGATTAGATAGCAGGCTTCGAGC
28005855 CGGTGAATAAATA
1 CGGTGAATAAATA
28005868 ATAAGCTTTA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 109 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (52 bp):
CGGTGAATAAATAGCAGGCCTTGAGCCGGTGATTAGATAGCAGGCTTCGAGC
Found at i:28009176 original size:45 final size:45
Alignment explanation
Indices: 28009073--28009249 Score: 183
Period size: 45 Copynumber: 3.9 Consensus size: 45
28009063 CATTGGATAG
* * **
28009073 AAAAATGAGTAAGACCATAGTTGAAAGACGTTATGGCATCATGAT
1 AAAAATGAATAAGACCATAGCTGAAAGACACTATGGCATCATGAT
** * * * * *
28009118 TCAGACGAGTAAGACCATAACTGAAAGACACTATGGCATCAAGAT
1 AAAAATGAATAAGACCATAGCTGAAAGACACTATGGCATCATGAT
* * * *
28009163 AAAAATGAATAAGACCATGGCTGAAAGTCACTATGACATCATGAC
1 AAAAATGAATAAGACCATAGCTGAAAGACACTATGGCATCATGAT
** * *
28009208 GGAAATGAATAAGACCATAGCTAAAAGACACTATGGCTTCAT
1 AAAAATGAATAAGACCATAGCTGAAAGACACTATGGCATCAT
28009250 ATCGGAAGTG
Statistics
Matches: 105, Mismatches: 27, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 105 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (45 bp):
AAAAATGAATAAGACCATAGCTGAAAGACACTATGGCATCATGAT
Found at i:28009256 original size:45 final size:45
Alignment explanation
Indices: 28009075--28009293 Score: 167
Period size: 45 Copynumber: 4.9 Consensus size: 45
28009065 TTGGATAGAA
* * **
28009075 AAATGAGTAAGACCATAGTTGAAAGACGTTATGGCATCATGATTC--
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCATCAT-A-TCGG
* * * * * **
28009120 AGACGAGTAAGACCATAACTGAAAGACACTATGGCATCAAGAT-AA
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCATC-ATATCGG
* * *
28009165 AAATGAATAAGACCATGGCTGAAAGTCACTATGACATCATGA-CGG
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCATCAT-ATCGG
* *
28009210 AAATGAATAAGACCATAGCTAAAAGACACTATGGCTTCATATCGG
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCATCATATCGG
* * * * * **
28009255 AAGTGAGTAAGATCGTGGCTGAAAGATGCTATGGCATCA
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCATCA
28009294 GGGTAAATGA
Statistics
Matches: 137, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
44 3 0.02
45 133 0.97
46 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.21
Consensus pattern (45 bp):
AAATGAATAAGACCATAGCTGAAAGACACTATGGCATCATATCGG
Found at i:28010498 original size:4 final size:4
Alignment explanation
Indices: 28010489--28010527 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
28010479 ATAAATTATG
* * *
28010489 TATA TATA TATA TATA TATA TATG TATG TATA TGTA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TAT
28010528 GTGTGTGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:28010500 original size:6 final size:6
Alignment explanation
Indices: 28010489--28010527 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
28010479 ATAAATTATG
* * *
28010489 TATATA TATATA TATATA TATATG TATGTA TATGTA TAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TAT
28010528 GTGTGTGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:28010504 original size:10 final size:10
Alignment explanation
Indices: 28010489--28010527 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
28010479 ATAAATTATG
28010489 TATATATATA
1 TATATATATA
28010499 TATATATATA
1 TATATATATA
* *
28010509 TATGTATGTA
1 TATATATATA
*
28010519 TATGTATAT
1 TATATATAT
28010528 GTGTGTGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (10 bp):
TATATATATA
Found at i:28025777 original size:14 final size:14
Alignment explanation
Indices: 28025760--28025786 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28025750 GTAAAACAAT
28025760 GAAAATGTTTTACG
1 GAAAATGTTTTACG
28025774 GAAAATGTTTTAC
1 GAAAATGTTTTAC
28025787 ATGCAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (14 bp):
GAAAATGTTTTACG
Found at i:28030224 original size:109 final size:108
Alignment explanation
Indices: 28029933--28030226 Score: 358
Period size: 108 Copynumber: 2.7 Consensus size: 108
28029923 CTTGGGTCGG
* * * *
28029933 TGATATAAACCGTCGTGATGGTTAAGATCCTGCATATGTTGCGGATTTTTGACAGCTTGTGTGAG
1 TGATAAAAACCGTCGTGATGG-TGAGATCCTGCATATGTTGCGGATTCTAGACAGCTTGTGTGAG
* * *
28029998 CAGCATCGTGAACTAGTGACTATTGAATGGATACTATGTTTTGA
65 CAGCATCGTGAGCCAGTGACTATTGAATGGATACTATATTTTGA
* * * *
28030042 TGATAAAAACCGTAGCT-A-GGTGGAGATCATGCATATGTTGCGGATTCTCGATAGCTTGTGTGA
1 TGATAAAAACCGTCG-TGATGGT-GAGATCCTGCATATGTTGCGGATTCTAGACAGCTTGTGTGA
* * *
28030105 GCAACATCGTGAGCCGGTGATTATTGAATGGATACTATATTTTGA
64 GCAGCATCGTGAGCCAGTGACTATTGAATGGATACTATATTTTGA
* * * * * *
28030150 TGATACAAACCGTCGTGATGGCTGAGATCCTGCATATATTGCGAATTCTAAACAACTTGTGTAAG
1 TGATAAAAACCGTCGTGATGG-TGAGATCCTGCATATGTTGCGGATTCTAGACAGCTTGTGTGAG
28030215 CAGCATCGTGAG
65 CAGCATCGTGAG
28030227 TGGGTGATAT
Statistics
Matches: 156, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
107 2 0.01
108 91 0.58
109 61 0.39
110 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (108 bp):
TGATAAAAACCGTCGTGATGGTGAGATCCTGCATATGTTGCGGATTCTAGACAGCTTGTGTGAGC
AGCATCGTGAGCCAGTGACTATTGAATGGATACTATATTTTGA
Found at i:28035377 original size:31 final size:31
Alignment explanation
Indices: 28035339--28035397 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
28035329 CAAGCTTATT
*
28035339 GAATCTAAGAAAAAGTAGAATTATCCTTTTC
1 GAATCTAAAAAAAAGTAGAATTATCCTTTTC
*
28035370 GAATCTAAAAAAAATTAGAATTATCCTT
1 GAATCTAAAAAAAAGTAGAATTATCCTT
28035398 CCACTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (31 bp):
GAATCTAAAAAAAAGTAGAATTATCCTTTTC
Found at i:28039504 original size:18 final size:19
Alignment explanation
Indices: 28039477--28039513 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
28039467 AGCACCACAA
*
28039477 CCCCTCCCACGACCACCAG
1 CCCCTCCCACCACCACCAG
28039496 CCCCT-CCACCACCACCAG
1 CCCCTCCCACCACCACCAG
28039514 ATGCACCTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.65, G:0.08, T:0.05
Consensus pattern (19 bp):
CCCCTCCCACCACCACCAG
Found at i:28042294 original size:16 final size:16
Alignment explanation
Indices: 28042273--28042306 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
28042263 TATATTTTAC
28042273 TTCTTTTAATTCTATT
1 TTCTTTTAATTCTATT
*
28042289 TTCTTTTAATTCTGTT
1 TTCTTTTAATTCTATT
28042305 TT
1 TT
28042307 TGACACTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (16 bp):
TTCTTTTAATTCTATT
Found at i:28046683 original size:6 final size:6
Alignment explanation
Indices: 28046674--28046716 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
28046664 ATTATTTTTA
*
28046674 TTATTT TTATTT TTATTT TTATTT TTATTT TTGTATT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT
28046717 ATTTATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:28046696 original size:27 final size:27
Alignment explanation
Indices: 28046665--28046725 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
28046655 GGCAACCCAA
*
28046665 TTATTTTTATTATTTTTATTTT-TATT-T
1 TTATTTTTATT-TTTGTATTTTAT-TTAT
28046692 TTATTTTTATTTTTGTATTTTATTTAT
1 TTATTTTTATTTTTGTATTTTATTTAT
28046719 TTATTTT
1 TTATTTT
28046726 CTTATTTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (27 bp):
TTATTTTTATTTTTGTATTTTATTTAT
Found at i:28046712 original size:8 final size:7
Alignment explanation
Indices: 28046668--28046732 Score: 50
Period size: 8 Copynumber: 9.3 Consensus size: 7
28046658 AACCCAATTA
28046668 TTTTTAT
1 TTTTTAT
28046675 TATTTT-T
1 T-TTTTAT
28046682 ATTTTTA-
1 -TTTTTAT
28046689 TTTTTA-
1 TTTTTAT
28046695 TTTTTAT
1 TTTTTAT
28046702 TTTTGTA-
1 TTTT-TAT
28046709 -TTTTAT
1 TTTTTAT
28046715 TTATTTAT
1 TT-TTTAT
28046723 TTTCTTAT
1 TTT-TTAT
28046731 TT
1 TT
28046733 ATCCACAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 17
0.74 0.00 0.26
Matches are distributed among these distances:
5 2 0.04
6 15 0.31
7 12 0.24
8 20 0.41
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTAT
Found at i:28046731 original size:21 final size:20
Alignment explanation
Indices: 28046669--28046732 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
28046659 ACCCAATTAT
*
28046669 TTTTA-TTATTTTTATTTTTA
1 TTTTATTTATTTAT-TTTTTA
28046689 TTTT-TATT-TTTATTTTTGTA
1 TTTTAT-TTATTTATTTTT-TA
28046709 TTTTATTTATTTATTTTCTTA
1 TTTTATTTATTTATTTT-TTA
28046730 TTT
1 TTT
28046733 ATCCACAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
19 4 0.11
20 16 0.43
21 16 0.43
22 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTATTTATTTATTTTTTA
Found at i:28051677 original size:16 final size:16
Alignment explanation
Indices: 28051656--28051688 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
28051646 GGTTTGGGAG
28051656 TGGCAAAGCCATTTGC
1 TGGCAAAGCCATTTGC
28051672 TGGCAAAGCCATTTGC
1 TGGCAAAGCCATTTGC
28051688 T
1 T
28051689 TAGTCTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (16 bp):
TGGCAAAGCCATTTGC
Found at i:28052976 original size:13 final size:13
Alignment explanation
Indices: 28052924--28052964 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
28052914 TCGACTCGAC
28052924 CCATTGACTTTGA
1 CCATTGACTTTGA
*
28052937 TCATTGACTGTTGA
1 CCATTGACT-TTGA
*
28052951 CCGTTGACTTTGA
1 CCATTGACTTTGA
28052964 C
1 C
28052965 TTTGACCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (13 bp):
CCATTGACTTTGA
Found at i:28053601 original size:17 final size:18
Alignment explanation
Indices: 28053568--28053601 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
28053558 TTTGTCCTAT
*
28053568 TGTGCATTGAGATATATG
1 TGTGCATTGAGAAATATG
28053586 TGTGCA-TGAGAAATAT
1 TGTGCATTGAGAAATAT
28053602 TATGAGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (18 bp):
TGTGCATTGAGAAATATG
Found at i:28054166 original size:12 final size:13
Alignment explanation
Indices: 28054141--28054169 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
28054131 TTTATAGACC
28054141 TTATATTATATAT
1 TTATATTATATAT
28054154 TTATATT-TATAT
1 TTATATTATATAT
28054166 TTAT
1 TTAT
28054170 GAATGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATATTATATAT
Found at i:28059994 original size:7 final size:7
Alignment explanation
Indices: 28059981--28060040 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
28059971 AACCCGATCT
28059981 GTTGACC
1 GTTGACC
*
28059988 ATTGACC
1 GTTGACC
28059995 GTTGACC
1 GTTGACC
*
28060002 -TTGATC
1 GTTGACC
28060008 GTTGACC
1 GTTGACC
28060015 GTTGA-C
1 GTTGACC
* *
28060021 TTTGACT
1 GTTGACC
*
28060028 GTTGACT
1 GTTGACC
28060035 GTTGAC
1 GTTGAC
28060041 TTTTTTCCTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 10 0.23
7 34 0.77
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (7 bp):
GTTGACC
Found at i:28060010 original size:13 final size:14
Alignment explanation
Indices: 28059976--28060019 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
28059966 AACCCAACCC
28059976 GATCTGTTGACCATT
1 GATC-GTTGACCATT
*
28059991 GACCGTTGACC-TT
1 GATCGTTGACCATT
*
28060004 GATCGTTGACCGTT
1 GATCGTTGACCATT
28060018 GA
1 GA
28060020 CTTTGACTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 12 0.46
14 11 0.42
15 3 0.12
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (14 bp):
GATCGTTGACCATT
Found at i:28060025 original size:13 final size:14
Alignment explanation
Indices: 28059981--28060040 Score: 61
Period size: 13 Copynumber: 4.4 Consensus size: 14
28059971 AACCCGATCT
*
28059981 GTTGACCATTGACC
1 GTTGACCGTTGACC
*
28059995 GTTGACC-TTGATC
1 GTTGACCGTTGACC
28060008 GTTGACCGTTGA-C
1 GTTGACCGTTGACC
* * *
28060021 TTTGACTGTTGACT
1 GTTGACCGTTGACC
28060035 GTTGAC
1 GTTGAC
28060041 TTTTTTCCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
13 23 0.59
14 16 0.41
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (14 bp):
GTTGACCGTTGACC
Found at i:28060041 original size:20 final size:20
Alignment explanation
Indices: 28059989--28060043 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
28059979 CTGTTGACCA
*
28059989 TTGACCGTTGACCTTGATCG
1 TTGACCGTTGACTTTGATCG
28060009 TTGACCGTTGACTTTGA-CTG
1 TTGACCGTTGACTTTGATC-G
*
28060029 TTGACTGTTGACTTT
1 TTGACCGTTGACTTT
28060044 TTTCCTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.42
Consensus pattern (20 bp):
TTGACCGTTGACTTTGATCG
Found at i:28061237 original size:6 final size:6
Alignment explanation
Indices: 28061218--28061252 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
28061208 GTTATAGACC
28061218 TTATAT TATATAT TTATAT TTATAT TTATAT TTAT
1 TTATAT T-TATAT TTATAT TTATAT TTATAT TTAT
28061253 GAATGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:28063667 original size:80 final size:80
Alignment explanation
Indices: 28063528--28063679 Score: 261
Period size: 80 Copynumber: 1.9 Consensus size: 80
28063518 CGCAAAACCT
* *
28063528 TTGGTTAATCCAACTAGAGCTAGGCTCACTTATTGCAGTTTATCCGCTAGGCACTGGGTACCATG
1 TTGGTTAATCCAACTAGAGCTAGGCTCACTTATCGCAATTTATCCGCTAGGCACTGGGTACCATG
28063593 AATTGACGGACTTCG
66 AATTGACGGACTTCG
*
28063608 TTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCAATTTATCCGCTAGGCA-TCGGGTACCAT
1 TTGGTTAATCCAACTAGAGCTAGGCTCACTTATCGCAATTTATCCGCTAGGCACT-GGGTACCAT
28063672 GAATTGAC
65 GAATTGAC
28063680 AGAATTGATT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
79 1 0.01
80 67 0.99
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (80 bp):
TTGGTTAATCCAACTAGAGCTAGGCTCACTTATCGCAATTTATCCGCTAGGCACTGGGTACCATG
AATTGACGGACTTCG
Found at i:28069267 original size:23 final size:24
Alignment explanation
Indices: 28069241--28069315 Score: 113
Period size: 23 Copynumber: 3.2 Consensus size: 24
28069231 CACTAGCGCT
28069241 CTTACTG-TTCAGCACTGTGTGTG
1 CTTACTGATTCAGCACTGTGTGTG
28069264 CTTACTGATTCA-CACTGTGTGTG
1 CTTACTGATTCAGCACTGTGTGTG
28069287 CTTACTGGATT--GCACTGTGTGTG
1 CTTACT-GATTCAGCACTGTGTGTG
28069310 CTTACT
1 CTTACT
28069316 ATTGCCCAGC
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
23 41 0.84
24 8 0.16
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (24 bp):
CTTACTGATTCAGCACTGTGTGTG
Found at i:28070920 original size:15 final size:16
Alignment explanation
Indices: 28070883--28070922 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
28070873 GATTTGGGGA
* *
28070883 AAAATAAAAATAAAAG
1 AAAATAGAATTAAAAG
28070899 AAAATAGAATTAAAAG
1 AAAATAGAATTAAAAG
28070915 -AAATAGAA
1 AAAATAGAA
28070923 AATAGAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (16 bp):
AAAATAGAATTAAAAG
Found at i:28070922 original size:22 final size:21
Alignment explanation
Indices: 28070889--28070929 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
28070879 GGGAAAAATA
*
28070889 AAAATAAAAGAAAATAGAATT
1 AAAAGAAAAGAAAATAGAATT
28070910 AAAAGAAATAGAAAATAGAA
1 AAAAGAAA-AGAAAATAGAA
28070930 GTGTCGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAAGAAAAGAAAATAGAATT
Found at i:28073200 original size:51 final size:52
Alignment explanation
Indices: 28073002--28073214 Score: 311
Period size: 52 Copynumber: 4.1 Consensus size: 52
28072992 TCATTTGGTA
* * * * *
28073002 ACTCATGATGACACATATTCATCATACCTCATAATCCATAAAGGATTTATAT
1 ACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCATAT
* * * *
28073054 ACTCACGATGACACATAGTCATCTGACCACGTAATCCGTAAAAGATTCATAT
1 ACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCATAT
*
28073106 ACTCACAATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCATAT
1 ACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCATAT
* *
28073158 ACTCACGATGACACACAGT-ATCAGACCTCCTAATCCGTAAAGGATTCATAT
1 ACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCATAT
28073209 ACTCAC
1 ACTCAC
28073215 TGTAGACACT
Statistics
Matches: 144, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
51 37 0.26
52 107 0.74
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.26
Consensus pattern (52 bp):
ACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCATAT
Found at i:28073970 original size:19 final size:18
Alignment explanation
Indices: 28073925--28073972 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
28073915 ATAAAAATCT
*
28073925 GTTTTG-TTTTTAGAAAA
1 GTTTTGATTTTTAAAAAA
**
28073942 GTTTAAATTTTTAAACAAA
1 GTTTTGATTTTTAAA-AAA
28073961 GTTTTGATTTTT
1 GTTTTGATTTTT
28073973 TTTAACTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
19 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.54
Consensus pattern (18 bp):
GTTTTGATTTTTAAAAAA
Found at i:28074129 original size:148 final size:146
Alignment explanation
Indices: 28073821--28074463 Score: 700
Period size: 141 Copynumber: 4.5 Consensus size: 146
28073811 TTGGAAAAAT
* * * * * * ** *
28073821 TTTTGGTTATTTTAAACAATTTCAAAATAAAAATTTTCATTTTTAAGTAAAATAGTGA-TTTTCT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTTAT
* * * *
28073885 TTAAAAAGAGAAACTTTAGATTTTTTAAAAATAAAAATCTG--TTTTG-T-TTTTAG-AAAAGTT
66 TTAAAAGGAGAAAGTTTAGA-TTTTTAAAAATAAAAATATGTTTTTTGTTATTTTAGAAAAAATT
*
28073945 TAAATTTTTAAACAAAG
130 TAAATTTTTAAATAAAG
*
28073962 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAG-AAAGTAGTGATTTTTAT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTTAT
*
28074026 TTAAAAGGAGAAAGTTTATATTTTTAAAAATAAAAATATGCTTTTTTGTTATTTTAAAGAAAAAA
66 TTAAAAGGAGAAAGTTTAGATTTTTAAAAATAAAAATATG-TTTTTTGTTATTTT--AGAAAAAA
28074091 TTTAAATTTTTAAATAAAG
128 TTTAAATTTTTAAATAAAG
* * * *
28074110 TTTTGATTTTTTTTAACTATATT-GACATAAAAGTTTGGA-TTTTAAGTAAAGTAGTGATTTTCA
1 TTTTGATTTTTTTTAACTAT-TTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTTA
* * * * *
28074173 TTAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAATTCTGTTTTTTAGTTATTTTA-AAAAA
65 TT-TAAAAG-GAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTT-GTTATTTTAGAAAAA
28074237 ATTTAAATTTTTAAATAAAG
127 ATTTAAATTTTTAAATAAAG
* *
28074257 TTTTGA-TTTTTTTAACTATTTTGAAATAAAAGTTTATATTTTTAAGTAAAATAGTGATTTTTA-
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTTAT
* * *
28074320 TTAAAA--A-AAA-TTTAGATTTTTAAAAAATAAAAATCTGTTTTTAGTGATTTTAAAGAAAAAA
66 TTAAAAGGAGAAAGTTTAGATTTTT-AAAAATAAAAATATGTTTTTTGTTATTTT--AG--AAAA
28074381 AATTTAAATTTTTAACA-AAA-
126 AATTTAAATTTTTAA-ATAAAG
** * *
28074401 TTTT-A--TTTTTTAACTATTTCGAAATAAAAGTTTTTATTTTGAAGTAAAATACTGA-TTTTAT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTTAT
28074462 TT
66 TT
28074464 TAATCAAAAG
Statistics
Matches: 441, Mismatches: 37, Indels: 47
0.84 0.07 0.09
Matches are distributed among these distances:
140 45 0.10
141 88 0.20
142 50 0.11
143 6 0.01
144 5 0.01
145 32 0.07
146 28 0.06
147 62 0.14
148 74 0.17
149 13 0.03
150 38 0.09
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (146 bp):
TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTTAT
TTAAAAGGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTGTTATTTTAGAAAAAATTT
AAATTTTTAAATAAAG
Found at i:28074300 original size:147 final size:145
Alignment explanation
Indices: 28073821--28074459 Score: 699
Period size: 148 Copynumber: 4.4 Consensus size: 145
28073811 TTGGAAAAAT
* * * * * * *
28073821 TTTTGGTTATTTTAAACAATTTCAAAATAAAAATTT-TCATTTTTAAGTAAAATAGTGATTTTCT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAT-ATTTTTAAGTAAAATAGTGATTTTCA
* * *
28073885 TTAAAAAG-AGAAACTTTAGATTTTTTAAAAATAAAAATCTG-TTTTG-T-TTTT-AGAAAAGTT
65 TTAAAAAGAAGAAAGTTTAGA-TTTTTAAAAATAAAAATCTGTTTTTGTTATTTTAAAAAAAATT
*
28073945 TAAATTTTTAAACAAAG
129 TAAATTTTTAAATAAAG
* * *
28073962 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAG-AAAGTAGTGATTTTTAT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTATATTTTTAAGTAAAATAGTGATTTTCAT
* * * *
28074026 TTAAAAGGAGAAAGTTTATATTTTTAAAAATAAAAATATGCTTTTTTGTTATTTTAAAGAAAAAA
66 TAAAAAGAAGAAAGTTTAGATTTTTAAAAATAAAAATCTG--TTTTTGTTATTTT-AA-AAAAAA
28074091 TTTAAATTTTTAAATAAAG
127 TTTAAATTTTTAAATAAAG
* ** *
28074110 TTTTGATTTTTTTTAACTATATT-GACATAAAAGTTTGGA-TTTTAAGTAAAGTAGTGATTTTCA
1 TTTTGATTTTTTTTAACTAT-TTCGAAATAAAAGTTTATATTTTTAAGTAAAATAGTGATTTTCA
* *
28074173 TTAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAATTCTGTTTTTTAGTTATTTT-AAAAAA
65 TT-AAAAAG-AAGAAAGTTTAGATTTTTAAAAATAAAAATCTG-TTTTT-GTTATTTTAAAAAAA
28074237 ATTTAAATTTTTAAATAAAG
126 ATTTAAATTTTTAAATAAAG
* *
28074257 TTTTGA-TTTTTTTAACTATTTTGAAATAAAAGTTTATATTTTTAAGTAAAATAGTGATTTTTAT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTATATTTTTAAGTAAAATAGTGATTTTCAT
*
28074321 T--AAA-AA-AAA-TTTAGATTTTTAAAAAATAAAAATCTGTTTTTAGTGATTTTAAAGAAAAAA
66 TAAAAAGAAGAAAGTTTAGATTTTT-AAAAATAAAAATCTGTTTTT-GTTATTTT----AAAAAA
28074381 AATTTAAATTTTTAACA-AAA-
125 AATTTAAATTTTTAA-ATAAAG
* * *
28074401 TTTT-A--TTTTTTAACTATTTCGAAATAAAAGTTTTTATTTTGAAGTAAAATACTGATTTT
1 TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTATATTTTTAAGTAAAATAGTGATTTT
28074460 ATTTTAATCA
Statistics
Matches: 438, Mismatches: 36, Indels: 47
0.84 0.07 0.09
Matches are distributed among these distances:
140 62 0.14
141 66 0.15
142 52 0.12
143 6 0.01
144 8 0.02
145 29 0.07
146 27 0.06
147 63 0.14
148 74 0.17
149 13 0.03
150 38 0.09
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (145 bp):
TTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTATATTTTTAAGTAAAATAGTGATTTTCAT
TAAAAAGAAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTGTTATTTTAAAAAAAATTTA
AATTTTTAAATAAAG
Found at i:28074402 original size:18 final size:18
Alignment explanation
Indices: 28074379--28074414 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
28074369 TTAAAGAAAA
28074379 AAAATTTAAATTTTTAAC
1 AAAATTTAAATTTTTAAC
* *
28074397 AAAATTTTATTTTTTAAC
1 AAAATTTAAATTTTTAAC
28074415 TATTTCGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATTTAAATTTTTAAC
Found at i:28075766 original size:162 final size:161
Alignment explanation
Indices: 28075462--28075767 Score: 515
Period size: 162 Copynumber: 1.9 Consensus size: 161
28075452 AAAATCATAA
28075462 TAATGATAAAAGAACGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
1 TAATGATAAAAGAACGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
* *
28075527 TTAGTCTTTTTTTAGGATTTTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAAAATT
66 TTAGTCTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAAAATT
28075592 ATTTAAGTATCTTTACAAGTAAAAATCGGAG
131 ATTTAAGTATCTTTACAAGTAAAAATCGGAG
* *
28075623 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAATTT
1 TAATGATAAAAGAACGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAA--C
* * *
28075688 TTTTAG-GTTTTTTTAGGATTCTAAACTAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAA
64 TTTTAGTCTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAAAA
*
28075752 TTATTTAGGTATCTTT
129 TTATTTAAGTATCTTT
28075768 TAGGGTTCTT
Statistics
Matches: 135, Mismatches: 8, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
161 61 0.45
162 68 0.50
163 6 0.04
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (161 bp):
TAATGATAAAAGAACGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
TTAGTCTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAAAATT
ATTTAAGTATCTTTACAAGTAAAAATCGGAG
Found at i:28087923 original size:42 final size:42
Alignment explanation
Indices: 28087853--28088300 Score: 522
Period size: 42 Copynumber: 10.9 Consensus size: 42
28087843 AAGGAAAGCA
* * * *
28087853 TTCATTACATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * * * *
28087895 TTCATCGCATTCAAAGGCTCAGATGTGGAGGCCAATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
28087937 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
28087979 TTCATTGTA-TT----------GTGTGGAAGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
28088010 TTCATCGCATCTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * * *
28088052 TTCATTACATTTATAGGCCCAGGTGTAGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
*
28088094 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
*
28088136 TTCATTTCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
**
28088178 TTCATTGCATTTAGAGGCCCAGGTGTAAAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
*
28088220 TTCATTTCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * * * *
28088262 TTTATTGCATTTAGAGACCTAGGCGTAGAGGTCCATTTA
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTA
28088301 TTTATTTTTT
Statistics
Matches: 343, Mismatches: 52, Indels: 22
0.82 0.12 0.05
Matches are distributed among these distances:
31 26 0.08
32 1 0.00
41 2 0.01
42 314 0.92
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
Found at i:28088758 original size:3 final size:3
Alignment explanation
Indices: 28088750--28088792 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
28088740 AAAGGCCCAA
* *
28088750 ATT ATT ATT ATC ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
28088793 GGGTTTCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:28089599 original size:150 final size:148
Alignment explanation
Indices: 28089217--28089860 Score: 827
Period size: 150 Copynumber: 4.4 Consensus size: 148
28089207 GAAAAATTTG
* *
28089217 ATTTTTTTAAACAATTTCGAAATAAAAACTTT-GATTTTTAAGTAAAATAGTGATTTT-TTTAAA
1 ATTTTTTT-AACTATTTCGAAATAAAAA-TTTAGATTTTTAAGTAAAATAGTGATTTTCATTAAA
*
28089280 AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTG--TTTT--CT-TTTT--AG-AAAAGTTT
64 AAAA-AGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTT
*
28089337 AAATTTTTAAACAAAGTTTTGA
128 AAATTTTTAAATAAAGTTTT-A
* * *
28089359 TTTCTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAG-AAAGTAGTGATTTTTATTAAAA
1 ATT-TTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTTCATTAAAA
* * **
28089423 AATGAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTCAAAAGAAAAAGTTT-
65 AA-AAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTA
28089487 AATTTTTAAAATAAAGTTTTA
129 AATTTTT-AAATAAAGTTTTA
** * * *
28089508 ATTTTTTTTCCTATTTTGAAATAAAAATTTGGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAA
1 ATTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTTCATTAAAAA
*
28089573 AGACAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTA
66 A-A-AGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTA
28089638 AATTTTTAAATAAAGTTTTGA
129 AATTTTTAAATAAAGTTTT-A
* *
28089659 A-TTTTTTAACTATTTCGAATTAAAAATTTAGATTTTTAAGTAAAATATTGATTTTCATT---AA
1 ATTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTTCATTAAAAA
*
28089720 AAA-AAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTGATTTTAAAGAAAAAAGTTTAA
66 AAAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAG-AAAAAGTTTAA
*
28089784 ATTTTTAAATAAAGTTTTG
130 ATTTTTAAATAAAGTTTTA
* * * *
28089803 ATTTTGTTTAACTATTTCGAAATAAAAAGTTTTGATTTTGAAGTGAAATGGTGATTTT
1 ATTTT-TTTAACTATTTCGAAATAAAAA-TTTAGATTTTTAAGTAAAATAGTGATTTT
28089861 GCTTTAATCA
Statistics
Matches: 445, Mismatches: 36, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
141 16 0.04
142 69 0.16
143 5 0.01
144 52 0.12
145 33 0.07
146 23 0.05
147 29 0.07
148 34 0.08
149 35 0.08
150 140 0.31
151 9 0.02
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (148 bp):
ATTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTTCATTAAAAA
AAAGAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAA
TTTTTAAATAAAGTTTTA
Found at i:28089637 original size:51 final size:50
Alignment explanation
Indices: 28089429--28089796 Score: 173
Period size: 51 Copynumber: 7.5 Consensus size: 50
28089419 AAAAAATGAG
* **
28089429 AAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTCAAAAGAA
1 AAAGTTTAGATTTTT-AAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAA
** * * * *
28089480 AAAGTTTA-ATTTTTAAAATAAAGTTTTAATTTTTT-TTCCTATTTTGAAATAA
1 AAAGTTTAGATTTTTAAAATAAAAATCT-GTTTTTTAGT--TATTTT-AAAGAA
* * * * * * **
28089532 AAA-TTTGGATTTTT-AAGT-AAAGTAGTGATTTTCA-TTA--AAAAAGACA
1 AAAGTTTAGATTTTTAAAATAAAAAT-CTGTTTTTTAGTTATTTTAAAGA-A
*
28089578 GAAAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAA
1 -AAAGTTTAGATTTTT-AAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAA
* ** * ** * **
28089630 AAAGTTTAAATTTTT-AAATAAAGTTTTGAATTTTTTAACTATTTCGAATTAA
1 AAAGTTTAGATTTTTAAAATAAAAATCTG--TTTTTTAGTTATTT-TAAAGAA
* * *
28089682 AAA-TTTAGATTTTT-AAGTAAAATAT-TG--ATTT--TCA--TTAAA-AA
1 AAAGTTTAGATTTTTAAAATAAAA-ATCTGTTTTTTAGTTATTTTAAAGAA
*
28089723 AAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTGATTTTAAAGAAA
1 AAAGTTTAGATTTTT-AAAATAAAAATCTGTTTTTTAGTTATTTTAAAG-AA
*
28089775 AAAGTTTAAATTTTT-AAATAAA
1 AAAGTTTAGATTTTTAAAATAAA
28089797 GTTTTGATTT
Statistics
Matches: 235, Mismatches: 50, Indels: 65
0.67 0.14 0.19
Matches are distributed among these distances:
41 5 0.02
42 13 0.06
43 3 0.01
44 9 0.04
45 5 0.02
46 4 0.02
47 6 0.03
48 13 0.06
49 21 0.09
50 42 0.18
51 70 0.30
52 39 0.17
53 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (50 bp):
AAAGTTTAGATTTTTAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAA
Found at i:28096907 original size:52 final size:52
Alignment explanation
Indices: 28096818--28097056 Score: 354
Period size: 52 Copynumber: 4.6 Consensus size: 52
28096808 TTCTCATTTA
* *
28096818 ATACTCACGATGACACATAGTCATCGGACTTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* *
28096870 ATACTCATGATGACACATAGTCATCAGACCT-AGTAATCCGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCA-TAATCCGTAAAAGATTCAT
* ** *
28096922 ATACTCACGATGACACATAGTCATCGGACCTCATATTTAGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * *
28096974 ATACTCACGATGATACATAGTCATCGGGCCTCCTAATCCGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
*
28097026 ATACTCACGATGACACATAGTCATCAGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
28097057 TTTGCATTTA
Statistics
Matches: 165, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
51 1 0.01
52 163 0.99
53 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
Found at i:28106763 original size:13 final size:13
Alignment explanation
Indices: 28106745--28106769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28106735 ATATGAAATT
28106745 AAAAATAAAAACA
1 AAAAATAAAAACA
28106758 AAAAATAAAAAC
1 AAAAATAAAAAC
28106770 CTTACCTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAATAAAAACA
Found at i:28110813 original size:20 final size:19
Alignment explanation
Indices: 28110785--28110825 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
28110775 ATCAAATTTC
28110785 TCTTAAATTTACTCAAAAAA
1 TCTTAAA-TTACTCAAAAAA
* *
28110805 TCTTTAATTACTCCAAAAA
1 TCTTAAATTACTCAAAAAA
28110824 TC
1 TC
28110826 AGAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (19 bp):
TCTTAAATTACTCAAAAAA
Found at i:28111447 original size:10 final size:9
Alignment explanation
Indices: 28111430--28111456 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
28111420 ATATAAAAAC
28111430 TATTTTTTT
1 TATTTTTTT
28111439 TATTTTTTT
1 TATTTTTTT
28111448 TATTTTTTT
1 TATTTTTTT
28111457 CTTGATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TATTTTTTT
Found at i:28113758 original size:28 final size:28
Alignment explanation
Indices: 28113698--28113782 Score: 107
Period size: 28 Copynumber: 2.9 Consensus size: 28
28113688 TTCAATTTGA
* * *
28113698 AATTTAATTTTTTTTATCAGTTTTAATGTTT
1 AATTTAA-TATTTTTAT-ATTTTTTAT-TTT
28113729 AATTTAATATTTTTATATTTTTTATTTT
1 AATTTAATATTTTTATATTTTTTATTTT
*
28113757 AATTAAATATTTTTATATTTTTTATT
1 AATTTAATATTTTTATATTTTTTATT
28113783 AGATCACATG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 28 0.56
29 7 0.14
30 8 0.16
31 7 0.14
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.67
Consensus pattern (28 bp):
AATTTAATATTTTTATATTTTTTATTTT
Found at i:28118068 original size:18 final size:18
Alignment explanation
Indices: 28118045--28118085 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
28118035 CAGGAATGGA
28118045 AGAGAAAGAAGC-AGAGAT
1 AGAGAAAGAAGCAAGA-AT
*
28118063 AGAGAAAGTAGCAAGAAT
1 AGAGAAAGAAGCAAGAAT
28118081 AGAGA
1 AGAGA
28118086 GCGTGAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.56, C:0.05, G:0.32, T:0.07
Consensus pattern (18 bp):
AGAGAAAGAAGCAAGAAT
Found at i:28122033 original size:12 final size:12
Alignment explanation
Indices: 28122016--28122040 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28122006 TGGGTTTCCA
28122016 TTCTTCTCTGGT
1 TTCTTCTCTGGT
28122028 TTCTTCTCTGGT
1 TTCTTCTCTGGT
28122040 T
1 T
28122041 CTGCATGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.16, T:0.60
Consensus pattern (12 bp):
TTCTTCTCTGGT
Found at i:28134296 original size:39 final size:43
Alignment explanation
Indices: 28134206--28134300 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 43
28134196 TTTGTATGTG
*
28134206 TATTTGAAATAATTATTTAAAATATTTCACATATAAATATAATAA
1 TATTTGAAATAATTAATTAAAATATTTCACA-AT-AATATAATAA
*
28134251 TATTTGAAATAATTAATTGAAATATTTCAC-AT-ATA-AA-AA
1 TATTTGAAATAATTAATTAAAATATTTCACAATAATATAATAA
28134290 TATTTGAAATA
1 TATTTGAAATA
28134301 TCATACTCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
39 13 0.27
40 2 0.04
41 3 0.06
43 2 0.04
45 28 0.58
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (43 bp):
TATTTGAAATAATTAATTAAAATATTTCACAATAATATAATAA
Found at i:28134301 original size:17 final size:17
Alignment explanation
Indices: 28134240--28134301 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
28134230 TTTCACATAT
*
28134240 AAATATAATAATATTTG
1 AAATATAAAAATATTTG
*
28134257 AAATAATTAATTGAAATATTTC
1 AAAT-A-TAA---AAATATTTG
*
28134279 ACATATAAAAATATTTG
1 AAATATAAAAATATTTG
28134296 AAATAT
1 AAATAT
28134302 CATACTCATA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
17 17 0.49
18 1 0.03
19 3 0.09
20 3 0.09
21 1 0.03
22 10 0.29
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (17 bp):
AAATATAAAAATATTTG
Found at i:28134560 original size:11 final size:11
Alignment explanation
Indices: 28134546--28134571 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
28134536 AATATATTTT
28134546 TTATTATATGA
1 TTATTATATGA
28134557 TTATTATATGA
1 TTATTATATGA
28134568 TTAT
1 TTAT
28134572 ATAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TTATTATATGA
Found at i:28134614 original size:90 final size:93
Alignment explanation
Indices: 28134512--28134687 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 93
28134502 ATAAAGTATA
*
28134512 TTTAACATAATGATAAATATAAAAAATATATTTT-TTAT-T-A-T-ATGA-TTATTATATGATTA
1 TTTAACATAATGAT--ATATAAAAAATATATTTTGTTATATAATTAAT-ATTTATTATATAATTA
28134571 TATAAATAAAAGACTTATTAATTTCAAAGAT
63 TATAAATAAAAGACTTATTAATTTCAAAGAT
* * *
28134602 TTTAACATAATGATATATAAAAAATATTTTTTGTTATATAATTACATATTTATTATTTAATTTTA
1 TTTAACATAATGATATATAAAAAATATATTTTGTTATATAATTA-ATATTTATTATATAATTATA
*
28134667 TAAATAAAAGAGTTATTAATT
65 TAAATAAAAGACTTATTAATT
28134688 AAAAATAGAA
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
88 17 0.23
89 4 0.05
90 15 0.20
91 1 0.01
92 1 0.01
93 1 0.01
94 35 0.47
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (93 bp):
TTTAACATAATGATATATAAAAAATATATTTTGTTATATAATTAATATTTATTATATAATTATAT
AAATAAAAGACTTATTAATTTCAAAGAT
Found at i:28138552 original size:17 final size:17
Alignment explanation
Indices: 28138532--28138580 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
28138522 TTCGTTAGGC
*
28138532 AATTCTATTCACCAGGT
1 AATTCTATTCACCAGGG
* *
28138549 AATTCTATCCGCCAGGG
1 AATTCTATTCACCAGGG
* *
28138566 GATACTATTCACCAG
1 AATTCTATTCACCAG
28138581 ACATACTATC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (17 bp):
AATTCTATTCACCAGGG
Found at i:28138603 original size:33 final size:34
Alignment explanation
Indices: 28138536--28138612 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
28138526 TTAGGCAATT
*
28138536 CTATTCACCAGGTAATTCTATCCGCCAGGGGATA
1 CTATTCACCAGGTAATACTATCCGCCAGGGGATA
*
28138570 CTATTCACCA-G-ACATACTATCCGTC-GGGTGATA
1 CTATTCACCAGGTA-ATACTATCCGCCAGGG-GATA
28138603 CTATTCACCA
1 CTATTCACCA
28138613 AACAATATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 4 0.10
33 25 0.64
34 10 0.26
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (34 bp):
CTATTCACCAGGTAATACTATCCGCCAGGGGATA
Found at i:28153187 original size:6 final size:6
Alignment explanation
Indices: 28153178--28153270 Score: 52
Period size: 6 Copynumber: 15.8 Consensus size: 6
28153168 CAAATTTAGG
* * * *
28153178 TTAAAT TTAAAA TTAAGA- ATAAAT TTAAAC TTATA- TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * * *
28153225 TTAAGA- ATAAAT TTAAAC TTAAAC TTAACA- -TAAAT TTAAAC TTAAA
1 TTAA-AT TTAAAT TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAA
28153271 ATAAATCTGA
Statistics
Matches: 69, Mismatches: 10, Indels: 16
0.73 0.11 0.17
Matches are distributed among these distances:
4 1 0.01
5 9 0.13
6 56 0.81
7 3 0.04
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:28153200 original size:18 final size:18
Alignment explanation
Indices: 28153179--28153246 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
28153169 AAATTTAGGT
*
28153179 TAAATTTAAAATTAAGAA
1 TAAATTTAAACTTAAGAA
* *
28153197 TAAATTTAAACTT-ATAT
1 TAAATTTAAACTTAAGAA
*
28153214 TAAATTTAAATTTAAGAA
1 TAAATTTAAACTTAAGAA
28153232 TAAATTTAAACTTAA
1 TAAATTTAAACTTAA
28153247 ACTTAACATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
17 14 0.33
18 28 0.67
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAATTTAAACTTAAGAA
Found at i:28153217 original size:35 final size:35
Alignment explanation
Indices: 28153178--28153245 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
28153168 CAAATTTAGG
28153178 TTAAATTTAAAATTAAGAATAAATTTAAACTTATA
1 TTAAATTTAAAATTAAGAATAAATTTAAACTTATA
*
28153213 TTAAATTTAAATTTAAGAATAAATTTAAACTTA
1 TTAAATTTAAAATTAAGAATAAATTTAAACTTA
28153246 AACTTAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (35 bp):
TTAAATTTAAAATTAAGAATAAATTTAAACTTATA
Found at i:28153259 original size:35 final size:34
Alignment explanation
Indices: 28153178--28153263 Score: 111
Period size: 35 Copynumber: 2.4 Consensus size: 34
28153168 CAAATTTAGG
* *
28153178 TTAAATTTAAAATTAAGAATAAATTTAAACTTATA
1 TTAAA-TTAAATTTAAGAATAAATTTAAACTTAAA
28153213 TTAAATTTAAATTTAAGAATAAATTTAAACTTAAA
1 TTAAA-TTAAATTTAAGAATAAATTTAAACTTAAA
28153248 CTTAACA-TAAATTTAA
1 -TTAA-ATTAAATTTAA
28153264 ACTTAAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
35 42 0.89
36 4 0.09
37 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (34 bp):
TTAAATTAAATTTAAGAATAAATTTAAACTTAAA
Found at i:28153261 original size:23 final size:24
Alignment explanation
Indices: 28153213--28153270 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
28153203 TAAACTTATA
* *
28153213 TTAAATTTAAATTTAAGAATAAAT
1 TTAAACTTAAACTTAAGAATAAAT
*
28153237 TTAAACTTAAACTTAA-CATAAAT
1 TTAAACTTAAACTTAAGAATAAAT
28153260 TTAAACTTAAA
1 TTAAACTTAAA
28153271 ATAAATCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (24 bp):
TTAAACTTAAACTTAAGAATAAAT
Found at i:28153263 original size:17 final size:17
Alignment explanation
Indices: 28153179--28153276 Score: 88
Period size: 18 Copynumber: 5.3 Consensus size: 17
28153169 AAATTTAGGT
*
28153179 TAAATTTAAAATTAAGAA
1 TAAATTTAAACTTAA-AA
* *
28153197 TAAATTTAAACTTATAT
1 TAAATTTAAACTTAAAA
*
28153214 TAAATTTAAATTTAAGAA
1 TAAATTTAAACTTAA-AA
28153232 TAAATTTAAACTTAAACTTAACA
1 TAAATTTAAACTT--A---AA-A
28153255 TAAATTTAAACTTAAAA
1 TAAATTTAAACTTAAAA
28153272 TAAAT
1 TAAAT
28153277 CTGAAACAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
17 20 0.30
18 28 0.42
20 1 0.02
21 1 0.02
22 1 0.02
23 15 0.23
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:28154254 original size:208 final size:208
Alignment explanation
Indices: 28153575--28154653 Score: 1439
Period size: 208 Copynumber: 5.2 Consensus size: 208
28153565 TCTTGATCTT
* **
28153575 CTTCTCTGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * *
28153640 TGGAAGCTAGGGTTCGAAG-TTTCGCTCACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTCT
66 AGGAAGCTAGGGTTCGAAGATTT-GCTCACTTTGAGC-TTGGTTTCATTGATTTGGTCTACTTCT
* * * * * *
28153704 CAGTATCTCATTAGAAAGATGACCGCATTGCTTGTTTTGAGCCGCTTCTCTATATCTCATCAAGA
129 CAGTATCTCATCAGAAAGATGACCGCATCG-TTGTTTTAATCCACTTCTCTGTATCTCATCAAGA
28153769 AGACGGATCTGGTTCA
193 AGACGGATCTGGTTCA
* * *
28153785 CTTTTCTGTATCTCATCAGGAAGATAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCTTC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * *
28153850 AAGAAGCTTGGGTTCGAAGATTTGCTCACTTCGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
66 AGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCTCA
* * * * * *
28153915 GTATCTCATCAGGAAGATGACCGCATCACTTATTTTAATCCACTTCTTTGTGTCTCATCAGGAAG
131 GTATCTCATCAGAAAGATGACCGCATC-GTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAG
28153980 ACGGATCTGGTTCA
195 ACGGATCTGGTTCA
* * *
28153994 CTTCTCTATATCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACTTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* *
28154059 ATGAAG-TAGGGGTTCAAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCTC
66 AGGAAGCTA-GGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCTC
* * * *
28154123 AGTATCTCATCAGGAAGATGACCGCCTCGTTATTTCAATCCACTTCTCTGTATCTCATCAAGAAG
130 AGTATCTCATCAGAAAGATGACCGCATCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAG
28154188 ACGGATCTGGTTCA
195 ACGGATCTGGTTCA
*
28154202 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTTAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * * *
28154267 AGGAAGCTAGGGTTCAAATATTTGCTCACTTTGAGCTTGGTTTTATTAATTTGGTCTATTTCTCA
66 AGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCTCA
* * * * *
28154332 GTATCTCATCAGAAAGATGACCACCTCGTTGTTTTGATTCACTTCTCTGTATCTCATCAGGAAGA
131 GTATCTCATCAGAAAGATGACCGCATCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAGA
*
28154397 CAGATCTGGTTCA
196 CGGATCTGGTTCA
*
28154410 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * * * * * * *
28154475 AGGAAGATA-GGTTTGAAG-TTTCACTCACATTGAGCTTTGCTTCATTAATATGGTCTTCTTCTC
66 AGGAAGCTAGGGTTCGAAGATTT-GCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCTC
* * ** * *
28154538 TGTATCTCATCAGAAAGATGATCGCATCACTGTTTCAATCCGCTTCTCTGTATCTCATC-AGAAA
130 AGTATCTCATCAGAAAGATGACCGCATCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAG-AA
* *
28154602 GACGGATTTGGTCCA
194 GACGGATCTGGTTCA
* * * * *
28154617 CTTATCTATATCTTATCAGGAAGGTGACCACTTTATT
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATT
28154654 ATTTTGGATA
Statistics
Matches: 775, Mismatches: 88, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
206 4 0.01
207 134 0.17
208 306 0.39
209 239 0.31
210 89 0.11
211 3 0.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (208 bp):
CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
AGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCTCA
GTATCTCATCAGAAAGATGACCGCATCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAGA
CGGATCTGGTTCA
Found at i:28154351 original size:417 final size:416
Alignment explanation
Indices: 28153575--28154653 Score: 1493
Period size: 417 Copynumber: 2.6 Consensus size: 416
28153565 TCTTGATCTT
* **
28153575 CTTCTCTGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* *
28153640 -TGGAAGCTAGGGTTCGAAGTTTCGCTCACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTCT
66 AT-GAAGATAGGGTTCGAAGTTTCGCTCACATTGAGC-TTGGTTTCATTGATTTGGTCTACTTCT
* * ** * *
28153704 CAGTATCTCATTAGAAAGATGACCGCATTGCTTGTTTTGAGCCGCTTCTCTATATCTCATCAAGA
129 CAGTATCTCATCAGAAAGATGACCGCATCG-TTGTTTCAATCCGCTTCTCTGTATCTCATCAAGA
* *
28153769 AGACGGATCTGGTTCACTTTTCTGTATCTCATCAGGAAGATAACCGCTTTATTGCTTCGACCTGC
193 AGACGGATCTGGTTCACTTATCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGC
* * * *
28153834 TTCTCAGTATCTCTTCAAGAAGCTTGGGTTCGAAGATTTGCTCACTTCGAGCCTGGTTTCATTGA
258 TTCTCAGTATCTCATCAAGAAGCTAGGGTTCAAAGATTTGCTCACTTCGAGCCTGGTTTCATTAA
* * *
28153899 TTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTAATCCACTTCTTT
323 TTTGGTCTACTTCTCAGTATCTCATCAGAAAGATGACCACATC-CTTATTTTAATCCACTTCTCT
* *
28153964 GTGTCTCATCAGGAAGACGGATCTGGTTCA
387 GTATCTCATCAGGAAGACAGATCTGGTTCA
* * *
28153994 CTTCTCTATATCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACTTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* *
28154059 ATGAAG-TAGGGGTTCAAAGATTT-GCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCT
66 ATGAAGATA-GGGTTCGAAG-TTTCGCTCACATTGAGCTTGGTTTCATTGATTTGGTCTACTTCT
* * * *
28154122 CAGTATCTCATCAGGAAGATGACCGCCTCGTTATTTCAATCCACTTCTCTGTATCTCATCAAGAA
129 CAGTATCTCATCAGAAAGATGACCGCATCGTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAA
*
28154187 GACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCT
194 GACGGATCTGGTTCACTTATCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCT
* * * * * *
28154252 TCTTAGTATCTCATCAGGAAGCTAGGGTTCAAATATTTGCTCACTTTGAGCTTGGTTTTATTAAT
259 TCTCAGTATCTCATCAAGAAGCTAGGGTTCAAAGATTTGCTCACTTCGAGCCTGGTTTCATTAAT
* * * * * *
28154317 TTGGTCTATTTCTCAGTATCTCATCAGAAAGATGACCACCTCGTTGTTTTGATTCACTTCTCTGT
324 TTGGTCTACTTCTCAGTATCTCATCAGAAAGATGACCACATCCTTATTTTAATCCACTTCTCTGT
28154382 ATCTCATCAGGAAGACAGATCTGGTTCA
389 ATCTCATCAGGAAGACAGATCTGGTTCA
*
28154410 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * * * * * * *
28154475 AGGAAGATA-GGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAATATGGTCTTCTTCTCT
66 ATGAAGATAGGGTTCGAAGTTTCGCTCACATTGAGCTTGGTTTCATTGATTTGGTCTACTTCTCA
* **
28154539 GTATCTCATCAGAAAGATGATCGCATCACTGTTTCAATCCGCTTCTCTGTATCTCATC-AGAAAG
131 GTATCTCATCAGAAAGATGACCGCATCGTTGTTTCAATCCGCTTCTCTGTATCTCATCAAG-AAG
* * * * * *
28154603 ACGGATTTGGTCCACTTATCTATATCTTATCAGGAAGGTGACCACTTTATT
195 ACGGATCTGGTTCACTTATCTGTATCTCATCAGGAAGGTAACCGCTTTATT
28154654 ATTTTGGATA
Statistics
Matches: 583, Mismatches: 71, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
414 5 0.01
415 139 0.24
416 110 0.19
417 187 0.32
418 55 0.09
419 83 0.14
420 4 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (416 bp):
CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
ATGAAGATAGGGTTCGAAGTTTCGCTCACATTGAGCTTGGTTTCATTGATTTGGTCTACTTCTCA
GTATCTCATCAGAAAGATGACCGCATCGTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGA
CGGATCTGGTTCACTTATCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTC
TCAGTATCTCATCAAGAAGCTAGGGTTCAAAGATTTGCTCACTTCGAGCCTGGTTTCATTAATTT
GGTCTACTTCTCAGTATCTCATCAGAAAGATGACCACATCCTTATTTTAATCCACTTCTCTGTAT
CTCATCAGGAAGACAGATCTGGTTCA
Found at i:28154740 original size:39 final size:38
Alignment explanation
Indices: 28154665--28154754 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 38
28154655 TTTTGGATAA
* * * *
28154665 CTGCAATTTGCCCCATGATCGGGTAAGAGATTGAATGG
1 CTGCAATCTGCCCCATGATCAGGTAAAAGATCGAATGG
** *
28154703 CTGTGATCTGCCCCATGGTCAAGGTAAAAGATCGAATGG
1 CTGCAATCTGCCCCATGATC-AGGTAAAAGATCGAATGG
28154742 CTGCAATCTGCCC
1 CTGCAATCTGCCC
28154755 TAGGCTTGAG
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
38 16 0.38
39 26 0.62
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (38 bp):
CTGCAATCTGCCCCATGATCAGGTAAAAGATCGAATGG
Found at i:28155153 original size:50 final size:49
Alignment explanation
Indices: 28155099--28155469 Score: 370
Period size: 50 Copynumber: 7.5 Consensus size: 49
28155089 TCGTTACGAC
* * *
28155099 CTCAATCC-TTCCCATCGCATCTTCTTAGGTACAGGGTTCGTCGTTGCGGT
1 CTCAA-CCTTTCCCTTCACATCTTCTTAGGTAC-GGGTTCGCCGTTGCGGT
* * * *
28155149 CTCAACCTTTCCCTTCATATCTTTTTAGGTATCGAGTTCGCCGTTGCGGC
1 CTCAACCTTTCCCTTCACATCTTCTTAGGTA-CGGGTTCGCCGTTGCGGT
* * * **
28155199 CTCAACCTTTCCCATCACATCTTTTTAGGTACCGAGTTCGCCGTTGCGAC
1 CTCAACCTTTCCCTTCACATCTTCTTAGGTA-CGGGTTCGCCGTTGCGGT
* * * * *
28155249 CTCAACCTTTCCTTTCATATCTTTTTAGGTATCGGGTTCACCGTTACGGT
1 CTCAACCTTTCCCTTCACATCTTCTTAGGTA-CGGGTTCGCCGTTGCGGT
* * *
28155299 TTCAACCTTTCCCTTCATATCTTCTTAGGTATCGGGTTCGCCGTTACGGT
1 CTCAACCTTTCCCTTCACATCTTCTTAGGTA-CGGGTTCGCCGTTGCGGT
* * * *
28155349 CTCAACCTTTCCCTTTACATCTTCAT-GGTACCGGGTTCGTCGTTGCGAT
1 CTCAACCTTTCCCTTCACATCTTCTTAGGTA-CGGGTTCGCCGTTGCGGT
* ** * * **
28155398 CTCAACCTTTCCCATCACATCTTCTTAGGTACTCAGTTCACCGTTGTGAC
1 CTCAACCTTTCCCTTCACATCTTCTTAGGTAC-GGGTTCGCCGTTGCGGT
28155448 CTCAACCTTTCCCTTCA-ATCTT
1 CTCAACCTTTCCCTTCACATCTT
28155470 TTAAGGAATC
Statistics
Matches: 275, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
49 50 0.18
50 224 0.81
51 1 0.00
ACGTcount: A:0.16, C:0.31, G:0.16, T:0.37
Consensus pattern (49 bp):
CTCAACCTTTCCCTTCACATCTTCTTAGGTACGGGTTCGCCGTTGCGGT
Found at i:28155211 original size:100 final size:99
Alignment explanation
Indices: 28155076--28155506 Score: 436
Period size: 100 Copynumber: 4.3 Consensus size: 99
28155066 TTATCTTCAT
* * * * * * *
28155076 GGTATCGGATTCATCGTTACGACCTCAATCC-TTCCCATCGCATCTTCTTAGGTACAGGGTTCGT
1 GGTATCGGGTTCACCGTTGCGGCCTCAA-CCTTTCCCATCACATCTTCTTAGGTAC-GAGTTCGC
**
28155140 CGTTGCGGTCTCAACCTTTCCCTTCATATCTTTTTA
64 CGTTGCGACCTCAACCTTTCCCTTCATATCTTTTTA
* * *
28155176 GGTATCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTTAGGTACCGAGTTCGCC
1 GGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTA-CGAGTTCGCC
*
28155241 GTTGCGACCTCAACCTTTCCTTTCATATCTTTTTA
65 GTTGCGACCTCAACCTTTCCCTTCATATCTTTTTA
* ** * * *
28155276 GGTATCGGGTTCACCGTTACGGTTTCAACCTTTCCCTTCATATCTTCTTAGGTATCGGGTTCGCC
1 GGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTA-CGAGTTCGCC
* ** * * **
28155341 GTTACGGTCTCAACCTTTCCCTTTACATCTTCAT-
65 GTTGCGACCTCAACCTTTCCCTTCATATCTTTTTA
* ** ** * *
28155375 GGTACCGGGTTCGTCGTTGCGATCTCAACCTTTCCCATCACATCTTCTTAGGTACTCAGTTCACC
1 GGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTAC-GAGTTCGCC
* *
28155440 GTTGTGACCTCAACCTTTCCCTTCA-ATCTTTTAA
65 GTTGCGACCTCAACCTTTCCCTTCATATCTTTTTA
* * * *
28155474 GGAATCGGATTCACTGTCGCGGCCTCAATCCTT
1 GGTATCGGGTTCACCGTTGCGGCCTCAA-CCTT
28155507 CCCTGTCAAA
Statistics
Matches: 267, Mismatches: 59, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
98 6 0.02
99 93 0.35
100 167 0.63
101 1 0.00
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (99 bp):
GGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACGAGTTCGCCG
TTGCGACCTCAACCTTTCCCTTCATATCTTTTTA
Done.