Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015147.1 Kokia drynarioides strain JFW-HI SEQ_130191, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 120260
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 174 characters in sequence are not A, C, G, or T
Found at i:99 original size:3 final size:3
Alignment explanation
Indices: 49--84 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
39 ATAAATTCAT
49 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85 CTGGTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1295 original size:59 final size:59
Alignment explanation
Indices: 1206--1484 Score: 253
Period size: 59 Copynumber: 4.7 Consensus size: 59
1196 TAAACTGTCA
* * * *
1206 AAAAATTTCATTTTTACCCCCG-AACTTCCAAAAATTCCATTTTTACGCTCGAACTTTC
1 AAAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTTTC
* * * * * * *
1264 AAAAAATCTATTTTTAACCCCGAGACTTCCAAAAATTCTATTTTTACCCCCAAACCTCC
1 AAAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTTTC
* * * * *
1323 AAAAATTCCATTTTTGACCCTGAGACTTCTAAAAATTCCATTTTTACCCCCGAAC-CTC
1 AAAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTTTC
* * * * * * * * *
1381 TAAAATTCCCATTTTTTACCTCGAAACTTTCAAAAGTACCA-TTTTAACCTCGAA-TGTTT
1 AAAAATT-CCATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACT-TTC
*
1440 AAAAATTCCATTTTTAACCCC-AAACTTTCCCAAAATTACCATTTT
1 AAAAATTCCATTTTTAACCCCGAAAC-TTCCAAAAATT-CCATTTT
1485 GCCTCGATAA
Statistics
Matches: 174, Mismatches: 40, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
57 4 0.02
58 55 0.32
59 112 0.64
60 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (59 bp):
AAAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTTTC
Found at i:1297 original size:30 final size:29
Alignment explanation
Indices: 1206--1484 Score: 224
Period size: 29 Copynumber: 9.5 Consensus size: 29
1196 TAAACTGTCA
* *
1206 AAAAATTTCATTTTTACCCCCGAACTTCC
1 AAAAATTCCATTTTTAACCCCGAACTTCC
* *
1235 AAAAATTCCATTTTT-ACGCTCGAACTTTC
1 AAAAATTCCATTTTTAAC-CCCGAACTTCC
* *
1264 AAAAAATCTATTTTTAACCCCGAGACTTCC
1 AAAAATTCCATTTTTAACCCCGA-ACTTCC
* * * *
1294 AAAAATTCTATTTTTACCCCCAAACCTCC
1 AAAAATTCCATTTTTAACCCCGAACTTCC
* * *
1323 AAAAATTCCATTTTTGACCCTGAGACTTCT
1 AAAAATTCCATTTTTAACCCCGA-ACTTCC
* *
1353 AAAAATTCCATTTTTACCCCCGAACCT-C
1 AAAAATTCCATTTTTAACCCCGAACTTCC
* * * *
1381 TAAAATTCCCATTTTTTACCTCGAAACTTTC
1 AAAAATT-CCATTTTTAACCCCG-AACTTCC
* * * **
1412 AAAAGTACCA-TTTTAACCTCGAA-TGTTT
1 AAAAATTCCATTTTTAACCCCGAACT-TCC
*
1440 AAAAATTCCATTTTTAACCCCAAACTTTCC
1 AAAAATTCCATTTTTAACCCCGAAC-TTCC
*
1470 CAAAATTACCATTTT
1 AAAAATT-CCATTTT
1485 GCCTCGATAA
Statistics
Matches: 197, Mismatches: 41, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.01
28 19 0.10
29 99 0.50
30 65 0.33
31 13 0.07
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAAATTCCATTTTTAACCCCGAACTTCC
Found at i:10631 original size:2 final size:2
Alignment explanation
Indices: 10626--10650 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10616 AAAAAAAATA
10626 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 A
10651 CATTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13125 original size:33 final size:30
Alignment explanation
Indices: 13064--13127 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
13054 AGTCTATATA
* *
13064 TTTATTATTTTTAAAGGGTTAAGTTAATTT
1 TTTATTATTTTTAAAGAGTCAAGTTAATTT
*
13094 TTTATTATTTTTTAGAGAGTCAGAGTATAATTT
1 TTTATTA-TTTTTAAAGAGTCA-AGT-TAATTT
13127 T
1 T
13128 ATCATTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.25
31 11 0.39
32 3 0.11
33 7 0.25
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (30 bp):
TTTATTATTTTTAAAGAGTCAAGTTAATTT
Found at i:27976 original size:14 final size:14
Alignment explanation
Indices: 27939--27982 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
27929 CTCATATTAT
*
27939 TATTATTATTATTA
1 TATTATTATTTTTA
*
27953 TATGTA-TATTTTTC
1 TAT-TATTATTTTTA
27967 TATTATTATTTTTA
1 TATTATTATTTTTA
27981 TA
1 TA
27983 AAAATTTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:28307 original size:42 final size:44
Alignment explanation
Indices: 28248--28340 Score: 163
Period size: 42 Copynumber: 2.1 Consensus size: 44
28238 AGTGAAAATG
28248 ACACAACTATATCCTTTAT-AAAAAAAAAAA-TTAACATTAAAA
1 ACACAACTATATCCTTTATAAAAAAAAAAAATTTAACATTAAAA
28290 ACACAACTATATCCTTTATAAAAAAAAAAAAATTTAACATTAAAA
1 ACACAACTATATCCTTTAT-AAAAAAAAAAAATTTAACATTAAAA
28335 ACACAA
1 ACACAA
28341 GTTAAATATG
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
42 19 0.40
44 11 0.23
45 18 0.38
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (44 bp):
ACACAACTATATCCTTTATAAAAAAAAAAAATTTAACATTAAAA
Found at i:28356 original size:45 final size:44
Alignment explanation
Indices: 28267--28356 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
28257 TATCCTTTAT
* * **
28267 AAAAAAAAAAATTAACATTAAAAACACAACTATATCCTTTATAA
1 AAAAAAAAAAATTAACATTAAAAACACAACTAAATCATGCATAA
*
28311 AAAAAAAAAAATTTAACATTAAAAACACAAGTTAAAT-ATGCATAA
1 AAAAAAAAAAA-TTAACATTAAAAACACAA-CTAAATCATGCATAA
28356 A
1 A
28357 GTAAATAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 11 0.28
45 24 0.62
46 4 0.10
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.23
Consensus pattern (44 bp):
AAAAAAAAAAATTAACATTAAAAACACAACTAAATCATGCATAA
Found at i:28393 original size:38 final size:38
Alignment explanation
Indices: 28328--28402 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
28318 AAAATTTAAC
** *
28328 ATTAAAAACACAAGTTAAATATGCATAAAGTAAATAAT
1 ATTAAAAACACAAGTTAAATACACATAAAATAAATAAT
*
28366 ATTAAAAACACAAGTTAAATCCACATAAAATAAATAA
1 ATTAAAAACACAAGTTAAATACACATAAAATAAATAA
28403 ATAGTGCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.60, C:0.11, G:0.05, T:0.24
Consensus pattern (38 bp):
ATTAAAAACACAAGTTAAATACACATAAAATAAATAAT
Found at i:39613 original size:20 final size:20
Alignment explanation
Indices: 39559--39614 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
39549 TAATCAAAAT
* * *
39559 TTAAAATTTAATTAAATGAAT
1 TTAAAAATTAATT-TATGAAA
*
39580 TATAAAAAAT-ATTTATGAAA
1 T-TAAAAATTAATTTATGAAA
39600 TTAAAAATTAATTTA
1 TTAAAAATTAATTTA
39615 ATTAGTGGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 7 0.25
20 11 0.39
21 4 0.14
22 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
TTAAAAATTAATTTATGAAA
Found at i:50908 original size:154 final size:154
Alignment explanation
Indices: 50640--50930 Score: 483
Period size: 154 Copynumber: 1.9 Consensus size: 154
50630 ACAAAGAAGA
*
50640 AGAAGAAGAAGAAAATAAAGATGTTGGACAGTAGACAGTTTCATATGAAACTAAACAATTGCAAT
1 AGAAGAAGAAGAAAATAAAGATGTTGGACAGTAGACAGTTTCATATGAAACTAAACAATTACAAT
* * *
50705 TGCAAATCTAAACAACAGTAAAAAGAATACTTGATTAGGAGAACTAAACCTACTTTTTTGAGTTA
66 TGCAAAGCTAAACAACAATAAAAAGAACACTTGATTAGGAGAACTAAACCTACTTTTTTGAGTTA
50770 GCTATTTTAATAAAGAAGAAACAG
131 GCTATTTTAATAAAGAAGAAACAG
* * *
50794 AGAAGAAGAAGAAAATGAAGTTGTTGGACAGTAGACAGTTTCATATTAAACTAAACAATTACAAT
1 AGAAGAAGAAGAAAATAAAGATGTTGGACAGTAGACAGTTTCATATGAAACTAAACAATTACAAT
* * * *
50859 TGCAAAGCTATATAGCAATAAAAAGAACAGTTGATTAGGAGAACTAAACCTACTTTTTTGAGTTA
66 TGCAAAGCTAAACAACAATAAAAAGAACACTTGATTAGGAGAACTAAACCTACTTTTTTGAGTTA
50924 GCTATTT
131 GCTATTT
50931 CGATCTATCC
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
154 126 1.00
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (154 bp):
AGAAGAAGAAGAAAATAAAGATGTTGGACAGTAGACAGTTTCATATGAAACTAAACAATTACAAT
TGCAAAGCTAAACAACAATAAAAAGAACACTTGATTAGGAGAACTAAACCTACTTTTTTGAGTTA
GCTATTTTAATAAAGAAGAAACAG
Found at i:51624 original size:28 final size:29
Alignment explanation
Indices: 51567--51624 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
51557 AAACATAGAC
**
51567 ATATTGGGTCATTTACGTAAAAAGTAAAA
1 ATATTGGGTCATTTACGTAAAAAACAAAA
* *
51596 ATATTGGGTCATTTA-TTAAAAAACGAAA
1 ATATTGGGTCATTTACGTAAAAAACAAAA
51624 A
1 A
51625 GGAAAGGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (29 bp):
ATATTGGGTCATTTACGTAAAAAACAAAA
Found at i:54018 original size:8 final size:8
Alignment explanation
Indices: 54007--54035 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
53997 ATTTTCAGGC
54007 TTTTCTTT
1 TTTTCTTT
54015 TTTT-TTT
1 TTTTCTTT
54022 TTTTCTTT
1 TTTTCTTT
54030 TTTTCT
1 TTTTCT
54036 ATTGGTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTCTTT
Found at i:60613 original size:47 final size:47
Alignment explanation
Indices: 60544--60640 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
60534 TCTAAAGCCA
60544 TGCTTGAACTACTCCCGACCATCATGAGGAAATCAAGTAGATAGCTT
1 TGCTTGAACTACTCCCGACCATCATGAGGAAATCAAGTAGATAGCTT
*
60591 TGCTTGAACTACTCCCGACCATCATGAGGAAATCGAGTAGATAGCTT
1 TGCTTGAACTACTCCCGACCATCATGAGGAAATCAAGTAGATAGCTT
60638 TGC
1 TGC
60641 CTTTGAACAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (47 bp):
TGCTTGAACTACTCCCGACCATCATGAGGAAATCAAGTAGATAGCTT
Found at i:68084 original size:16 final size:16
Alignment explanation
Indices: 68063--68094 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68053 TCCTAAATTG
*
68063 GATATGTGGTGGGCAT
1 GATATGTGGTGAGCAT
68079 GATATGTGGTGAGCAT
1 GATATGTGGTGAGCAT
68095 TTGATTAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.41, T:0.31
Consensus pattern (16 bp):
GATATGTGGTGAGCAT
Found at i:68657 original size:88 final size:89
Alignment explanation
Indices: 68492--68664 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 89
68482 TTAAGAGTGT
* * * * *
68492 AAAAAACCCTTAAACTTTCTCAAAAAAAGCAATTAAGTCCCTCCTTTTTTTTTGCATTCATTTGG
1 AAAAAACCCTCAAACTTTCTCAAAAAAAGCAAATAAGTCCCTCC-TTTTTTTTACACTCAATTGG
68557 ATACTTGAACTTTCAAAATGCATAA
65 ATACTTGAACTTTCAAAATGCATAA
68582 AAAAAACCCTCAAATCTTT-TCAAAAAAAGCAAATAA-TCCCTCAC-TTTTTTTACACTCAATTG
1 AAAAAACCCTCAAA-CTTTCTCAAAAAAAGCAAATAAGTCCCTC-CTTTTTTTTACACTCAATTG
* *
68644 GGTACTTGAACTTTTAAAATG
64 GATACTTGAACTTTCAAAATG
68665 TATTANNNNN
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 34 0.46
89 6 0.08
90 30 0.41
91 4 0.05
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (89 bp):
AAAAAACCCTCAAACTTTCTCAAAAAAAGCAAATAAGTCCCTCCTTTTTTTTACACTCAATTGGA
TACTTGAACTTTCAAAATGCATAA
Found at i:68832 original size:28 final size:28
Alignment explanation
Indices: 68753--68832 Score: 65
Period size: 28 Copynumber: 2.9 Consensus size: 28
68743 AAACCACTGC
* * *
68753 TTTTATTAAAAAATATAAAAAAAATTAAA
1 TTTTAATAAAAAATAT-TAAAAATTTAAA
* * **
68782 -ATCAATAAAAGCTA-TAAATAATTTAAA
1 TTTTAATAAAAAATATTAAA-AATTTAAA
68809 TTTTAATAAAAAATATTAAAAATT
1 TTTTAATAAAAAATATTAAAAATT
68833 GAAAAAAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 7
0.67 0.20 0.13
Matches are distributed among these distances:
26 3 0.08
27 7 0.19
28 23 0.62
29 4 0.11
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (28 bp):
TTTTAATAAAAAATATTAAAAATTTAAA
Found at i:68839 original size:20 final size:20
Alignment explanation
Indices: 68816--68872 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
68806 AAATTTTAAT
68816 AAAAAATATTAAAAATTGAA
1 AAAAAATATTAAAAATTGAA
* *
68836 AAAAAA-ATATAAAAA-TCAT
1 AAAAAATAT-TAAAAATTGAA
*
68855 AAAAAATATAAAAAATTG
1 AAAAAATATTAAAAATTG
68873 TGAAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (20 bp):
AAAAAATATTAAAAATTGAA
Found at i:68849 original size:9 final size:9
Alignment explanation
Indices: 68814--68870 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
68804 TTAAATTTTA
68814 ATAAAAAAT
1 ATAAAAAAT
*
68823 ATTAAAAAT
1 ATAAAAAAT
*
68832 -TGAAAAAAAA
1 AT--AAAAAAT
68842 ATATAAAAAT
1 ATA-AAAAAT
68852 CATAAAAAAT
1 -ATAAAAAAT
68862 ATAAAAAAT
1 ATAAAAAAT
68871 TGTGAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
8 1 0.03
9 18 0.46
10 16 0.41
11 4 0.10
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:68925 original size:57 final size:56
Alignment explanation
Indices: 68836--68980 Score: 152
Period size: 57 Copynumber: 2.6 Consensus size: 56
68826 AAAAATTGAA
* * * * *
68836 AAAAAAATATAAAA-ATCATA-AAAAATATAAAAAATTGTGAAATTTTATTAAAATCTT
1 AAAAAATTATAAAATAT-ATAGAAATATA-AAAAAATTATAAAATTTTA-TAAAATCGT
* *
68893 AAAAAATTATAAAATATATAGAAATAT-AAAAAATTATAAAATTTTATAGAGTCGT
1 AAAAAATTATAAAATATATAGAAATATAAAAAAATTATAAAATTTTATAAAATCGT
*
68948 AAAAAATTATACAAAATATAAAGAAATATAAAA
1 AAAAAATTAT--AAAATATATAGAAATATAAAA
68981 TTTGTAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
55 16 0.21
56 17 0.23
57 32 0.43
58 10 0.13
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (56 bp):
AAAAAATTATAAAATATATAGAAATATAAAAAAATTATAAAATTTTATAAAATCGT
Found at i:68929 original size:27 final size:27
Alignment explanation
Indices: 68892--68980 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
68882 ATTAAAATCT
68892 TAAAAAATTATAAAATATATAGAAATA
1 TAAAAAATTATAAAATATATAGAAATA
* * *
68919 TAAAAAATTATAAAATTTTATAG-AGTCG
1 TAAAAAATTATAAAA-TATATAGAAAT-A
*
68947 TAAAAAATTATACAAAATATAAAGAAATA
1 TAAAAAATTAT--AAAATATATAGAAATA
68976 TAAAA
1 TAAAA
68981 TTTGTAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
27 17 0.34
28 17 0.34
29 10 0.20
30 6 0.12
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (27 bp):
TAAAAAATTATAAAATATATAGAAATA
Found at i:68940 original size:28 final size:28
Alignment explanation
Indices: 68836--68980 Score: 109
Period size: 28 Copynumber: 5.1 Consensus size: 28
68826 AAAAATTGAA
* * *
68836 AAAAAAATATAAAAATCATA-AAAAATAT
1 AAAAAATTAT-AAAATTATATAGAAATAT
* * * *
68864 AAAAAATTGTGAAATTTTATTA-AAATCTT
1 AAAAAATTATAAAATTATA-TAGAAAT-AT
68893 AAAAAATTATAAAA-TATATAGAAATAT
1 AAAAAATTATAAAATTATATAGAAATAT
* * *
68920 AAAAAATTATAAAATTTTATAG-AGTCGT
1 AAAAAATTATAAAATTATATAGAAAT-AT
* *
68948 AAAAAATTATACAAAATATAAAGAAATAT
1 AAAAAATTATA-AAATTATATAGAAATAT
68977 AAAA
1 AAAA
68981 TTTGTAAAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
27 25 0.27
28 37 0.41
29 27 0.30
30 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAAAATTATAAAATTATATAGAAATAT
Found at i:68989 original size:56 final size:57
Alignment explanation
Indices: 68836--68989 Score: 190
Period size: 56 Copynumber: 2.7 Consensus size: 57
68826 AAAAATTGAA
* * *
68836 AAAAAAATATAAAAATCATAAA-AAATATAAAAAATTGTGAAATTTTATTAAAATCTT
1 AAAAAATTATAAAAAT-ATAAAGAAATATAAAAAATTGTAAAATTTTATTAAAATCGT
* * * *
68893 AAAAAATTAT-AAAATATATAGAAATATAAAAAATTATAAAATTTTA-TAGAGTCGT
1 AAAAAATTATAAAAATATAAAGAAATATAAAAAATTGTAAAATTTTATTAAAATCGT
*
68948 AAAAAATTATACAAAATATAAAGAAATAT-AAAATTTGTAAAA
1 AAAAAATTATA-AAAATATAAAGAAATATAAAAAATTGTAAAA
68990 AAATTATAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
55 20 0.24
56 39 0.46
57 25 0.30
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (57 bp):
AAAAAATTATAAAAATATAAAGAAATATAAAAAATTGTAAAATTTTATTAAAATCGT
Found at i:69039 original size:12 final size:12
Alignment explanation
Indices: 69022--69051 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
69012 AAAAGAAGCA
69022 TTTTATAATTTT
1 TTTTATAATTTT
69034 TTTTATAATTTT
1 TTTTATAATTTT
*
69046 TATTAT
1 TTTTAT
69052 TTTTCGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:69317 original size:25 final size:25
Alignment explanation
Indices: 69289--69336 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
69279 TTTTATTAAA
69289 TTTTAATAAATTTTCTAAAATTTAT
1 TTTTAATAAATTTTCTAAAATTTAT
* * * *
69314 TTTTTATAACTTTTTTTAAATTT
1 TTTTAATAAATTTTCTAAAATTT
69337 TTAACATAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTAATAAATTTTCTAAAATTTAT
Found at i:69519 original size:81 final size:82
Alignment explanation
Indices: 69354--69511 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 82
69344 AAGCAAGGAC
* * * * *
69354 TTAATTATTTTTTTGAAGATATTTGGAGATTTTTTTTATATATTTTGAAAGTTTAAATAATCAAT
1 TTAATTATTTTTTTGAACATATTTGAAGAATTTTTTTATACATTTTGAAAGTTCAAATAATCAAT
*
69419 TGAATAAAAAAAAAAAA
66 TAAATAAAAAAAAAAAA
* * *
69436 TTAATTATTTTTTTTGAACA-ATTT-AAGAATTTTTTTATACATTTTGAAAGTTCGAGTGCA-CA
1 TTAATTA-TTTTTTTGAACATATTTGAAGAATTTTTTTATACATTTTGAAAGTTCAAAT-AATCA
69498 ATTAAATAAAAAAA
64 ATTAAATAAAAAAA
69512 CTTAATTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
81 42 0.65
82 12 0.18
83 11 0.17
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (82 bp):
TTAATTATTTTTTTGAACATATTTGAAGAATTTTTTTATACATTTTGAAAGTTCAAATAATCAAT
TAAATAAAAAAAAAAAA
Found at i:69795 original size:6 final size:6
Alignment explanation
Indices: 69784--69808 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69774 CTCCCATCCT
69784 CCCTTC CCCTTC CCCTTC CCCTTC C
1 CCCTTC CCCTTC CCCTTC CCCTTC C
69809 TCTTTCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTTC
Found at i:82343 original size:12 final size:11
Alignment explanation
Indices: 82322--82361 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
82312 ATAACATTCA
82322 AACAATCAAAAT
1 AACAA-CAAAAT
*
82334 AACAACCAAAAC
1 AACAA-CAAAAT
82346 AACAACAAAAT
1 AACAACAAAAT
82357 AACAA
1 AACAA
82362 AAACAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.70, C:0.23, G:0.00, T:0.07
Consensus pattern (11 bp):
AACAACAAAAT
Found at i:82369 original size:23 final size:23
Alignment explanation
Indices: 82322--82375 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
82312 ATAACATTCA
*
82322 AACAATCAAAATAACAACCAAAAC
1 AACAA-CAAAATAACAACAAAAAC
82346 AACAACAAAATAACAA-AAACAAC
1 AACAACAAAATAACAACAAA-AAC
*
82369 AAAAACA
1 AACAACA
82376 GCAACAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 20 0.74
24 5 0.19
ACGTcount: A:0.72, C:0.22, G:0.00, T:0.06
Consensus pattern (23 bp):
AACAACAAAATAACAACAAAAAC
Found at i:82382 original size:12 final size:12
Alignment explanation
Indices: 82365--82466 Score: 63
Period size: 12 Copynumber: 9.0 Consensus size: 12
82355 ATAACAAAAA
82365 CAACAAAAACAG
1 CAACAAAAACAG
*
82377 CAACAAAAATAG
1 CAACAAAAACAG
* * *
82389 GAACAAAAATAA
1 CAACAAAAACAG
*
82401 CAGCAAAAACAG
1 CAACAAAAACAG
*
82413 C-ACCAAAACAG
1 CAACAAAAACAG
* *
82424 TAA-AAAAA-AA
1 CAACAAAAACAG
*
82434 C-ACCAAAACAG
1 CAACAAAAACAG
*
82445 CAA-AAAAA-AA
1 CAACAAAAACAG
*
82455 CAACCAAAACAG
1 CAACAAAAACAG
82467 TAAAAAAAGC
Statistics
Matches: 65, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
9 1 0.02
10 9 0.14
11 22 0.34
12 33 0.51
ACGTcount: A:0.68, C:0.22, G:0.08, T:0.03
Consensus pattern (12 bp):
CAACAAAAACAG
Found at i:82383 original size:21 final size:21
Alignment explanation
Indices: 82336--82483 Score: 63
Period size: 21 Copynumber: 6.8 Consensus size: 21
82326 ATCAAAATAA
*
82336 CAACCAAAACAACAACAAA-A-
1 CAACAAAAACAACAA-AAACAG
*
82356 TAACAAAAACAACAAAAACAG
1 CAACAAAAACAACAAAAACAG
* * *
82377 CAACAAAAATAGGAACAAAAATAA
1 CAAC-AAAA-A-CAACAAAAACAG
* *
82401 CAGCAAAAACAGCACCAAAACAG
1 CAACAAAAACA--ACAAAAACAG
*
82424 TAA-AAAAA-AACACCAAAACAG
1 CAACAAAAACAACA--AAAACAG
* *
82445 CAAAAAAAAACAACCAAAACAG
1 C-AACAAAAACAACAAAAACAG
* *
82467 TAA-AAAAAGCACCAAAA
1 CAACAAAAA-CAACAAAA
82484 CAATAATATA
Statistics
Matches: 96, Mismatches: 19, Indels: 25
0.69 0.14 0.18
Matches are distributed among these distances:
19 5 0.05
20 19 0.20
21 20 0.21
22 19 0.20
23 18 0.19
24 15 0.16
ACGTcount: A:0.69, C:0.22, G:0.06, T:0.03
Consensus pattern (21 bp):
CAACAAAAACAACAAAAACAG
Found at i:82384 original size:20 final size:19
Alignment explanation
Indices: 82321--82384 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
82311 AATAACATTC
82321 AAACAATCAA-AATAACAACCA
1 AAACAA-CAACAA-AACAA-CA
*
82342 AAACAACAACAAAATAACAA
1 AAACAACAACAAAACAAC-A
82362 AAACAACAA-AAACAGCAACA
1 AAACAACAACAAA-A-CAACA
82382 AAA
1 AAA
82385 ATAGGAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 4 0.11
20 22 0.59
21 11 0.30
ACGTcount: A:0.72, C:0.22, G:0.02, T:0.05
Consensus pattern (19 bp):
AAACAACAACAAAACAACA
Found at i:82450 original size:22 final size:20
Alignment explanation
Indices: 82399--82485 Score: 102
Period size: 21 Copynumber: 4.2 Consensus size: 20
82389 GAACAAAAAT
* * *
82399 AACAGCAAAAACAGCACCAA
1 AACAGAAAAAAAAACACCAA
82419 AACAGTAAAAAAAAACACCAA
1 AACAG-AAAAAAAAACACCAA
82440 AACAGCAAAAAAAAACAACCAA
1 AACAG-AAAAAAAAAC-ACCAA
* *
82462 AACAGTAAAAAAAGCACCAA
1 AACAGAAAAAAAAACACCAA
82482 AACA
1 AACA
82486 ATAATATAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
20 14 0.24
21 35 0.59
22 10 0.17
ACGTcount: A:0.68, C:0.23, G:0.07, T:0.02
Consensus pattern (20 bp):
AACAGAAAAAAAAACACCAA
Found at i:84602 original size:20 final size:20
Alignment explanation
Indices: 84574--84630 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
84564 CTAGGTTATA
* *
84574 AAATGCAGTTATAAATTCAT
1 AAATACAGTTATAAAATCAT
*
84594 AAATACAGTTATAAAATGAT
1 AAATACAGTTATAAAATCAT
* *
84614 AAATACAATTCTAAAAT
1 AAATACAGTTATAAAAT
84631 AGTAAGTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATACAGTTATAAAATCAT
Found at i:86123 original size:6 final size:6
Alignment explanation
Indices: 86112--86189 Score: 58
Period size: 6 Copynumber: 13.5 Consensus size: 6
86102 ATTTGTTTTA
* * *
86112 AAATTT AAATTT -ATTTT AAATTT AAATTT -AATTT GAGTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* *
86158 -ATTTT CAAATTT AAAATT --ATTAT AAATTT AAA
1 AAATTT -AAATTT AAATTT AAATT-T AAATTT AAA
86190 ATAAAGTCCA
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
4 2 0.04
5 14 0.25
6 33 0.59
7 7 0.12
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:86142 original size:23 final size:23
Alignment explanation
Indices: 86112--86158 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
86102 ATTTGTTTTA
*
86112 AAATTTAAATTT-ATTTTAAATTT
1 AAATTT-AATTTGAGTTTAAATTT
86135 AAATTTAATTTGAGTTTAAATTT
1 AAATTTAATTTGAGTTTAAATTT
86158 A
1 A
86159 TTTTCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AAATTTAATTTGAGTTTAAATTT
Found at i:86167 original size:12 final size:11
Alignment explanation
Indices: 86115--86170 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
86105 TGTTTTAAAA
86115 TTTAAATTTAT
1 TTTAAATTTAT
*
86126 TTTAAATTTAAA
1 TTTAAATTT-AT
*
86138 TTT-AATTTGAG
1 TTTAAATTT-AT
86149 TTTAAATTTAT
1 TTTAAATTTAT
86160 TTTCAAATTTA
1 TTT-AAATTTA
86171 AAATTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
11 22 0.58
12 16 0.42
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:86191 original size:17 final size:17
Alignment explanation
Indices: 86079--86189 Score: 116
Period size: 17 Copynumber: 6.4 Consensus size: 17
86069 CCAAACTCAT
86079 TTTAAATTTATTTTTAAGA
1 TTTAAATTTA-TTTTAA-A
* *
86098 -TAAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
86115 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* * *
86132 TTTAAATTTAATTTGAG
1 TTTAAATTTATTTTAAA
86149 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* *
86167 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
86184 TTTAAA
1 TTTAAA
86190 ATAAAGTCCA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
17 44 0.57
18 33 0.43
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:86233 original size:18 final size:17
Alignment explanation
Indices: 86188--86235 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
86178 TATAAATTTA
86188 AAATAAAGTCCAATTAC
1 AAATAAAGTCCAATTAC
*
86205 -AA-AATGTCCAATTAC
1 AAATAAAGTCCAATTAC
86220 AAATCAAAGTCCAATT
1 AAAT-AAAGTCCAATT
86236 GGGCCCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 12 0.46
16 4 0.15
18 10 0.38
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (17 bp):
AAATAAAGTCCAATTAC
Found at i:88117 original size:29 final size:29
Alignment explanation
Indices: 88075--88322 Score: 172
Period size: 29 Copynumber: 8.5 Consensus size: 29
88065 CTAAACTGTT
*
88075 CAAAAATTACATTTTTACCCTCGAACTTC
1 CAAAAATTCCATTTTTACCCTCGAACTTC
**
88104 CAAAAATTCCATTTTTGACCCTAAAACTTC
1 CAAAAATTCCATTTTT-ACCCTCGAACTTC
* * *
88134 AAAAAATTACATTTTTACCAGT-GAACTTC
1 CAAAAATTCCATTTTTACC-CTCGAACTTC
* *
88163 TAAAAATTCCATTTTTTA-CCTCGAAACTTT
1 CAAAAATTCCA-TTTTTACCCTCG-AACTTC
*
88193 CAAAAATTACCA-TTTTACCCCCGAACTTC
1 CAAAAATT-CCATTTTTACCCTCGAACTTC
* ** *
88222 C-AAAATTCCATTTTGACCC-AAAACTTT
1 CAAAAATTCCATTTTTACCCTCGAACTTC
* *
88249 CAAAAATCACCA-TTTTACCC-CCAGA-TGTC
1 CAAAAAT-TCCATTTTTACCCTCGA-ACT-TC
* * * *
88278 CAAAAACTCTATTTTGA-CCTCGAAACTTT
1 CAAAAATTCCATTTTTACCCTCG-AACTTC
88307 CAAAAATTACCATTTT
1 CAAAAATT-CCATTTT
88323 ACCTCTGAAT
Statistics
Matches: 171, Mismatches: 31, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
27 9 0.05
28 32 0.19
29 71 0.42
30 56 0.33
31 3 0.02
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.33
Consensus pattern (29 bp):
CAAAAATTCCATTTTTACCCTCGAACTTC
Found at i:88160 original size:59 final size:59
Alignment explanation
Indices: 88067--88254 Score: 221
Period size: 59 Copynumber: 3.2 Consensus size: 59
88057 GGAGGTGCCT
88067 AAACTGTTC-AAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTA
1 AAACT-TTCAAAAAATTACATTTTTACCCT-GAACTTCCAAAAATTCCATTTTTGACCCTA
* * * *
88127 AAAC-TTCAAAAAATTACATTTTTACCAGTGAACTTCTAAAAATTCCATTTTTTA-CCTCG
1 AAACTTTCAAAAAATTACATTTTTACC-CTGAACTTCCAAAAATTCCATTTTTGACCCT-A
*
88186 AAACTTTC-AAAAATTACCA-TTTTACCCCCGAACTTCC-AAAATTCCA-TTTTGACCC-A
1 AAACTTTCAAAAAATTA-CATTTTTA-CCCTGAACTTCCAAAAATTCCATTTTTGACCCTA
88242 AAACTTTCAAAAA
1 AAACTTTCAAAAA
88255 TCACCATTTT
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
56 8 0.07
57 9 0.08
58 17 0.15
59 65 0.59
60 12 0.11
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (59 bp):
AAACTTTCAAAAAATTACATTTTTACCCTGAACTTCCAAAAATTCCATTTTTGACCCTA
Found at i:96228 original size:193 final size:193
Alignment explanation
Indices: 95888--96277 Score: 690
Period size: 193 Copynumber: 2.0 Consensus size: 193
95878 ATGCCTCGAT
*
95888 TGAGCACTGACATTGTAGTCTATAAGCTTCCGATAAAAGAAGAATGCAAGCCTATCCAACAAAAA
1 TGAGCACTGACATTGTAGTCCATAAGCTTCCGATAAAAGAAGAATGCAAGCCTATCCAACAAAAA
*
95953 CTCCGCAAGATGCAACCAGATGTGTTGCTAAAAATAAAAGAAGAAGTTCAAAAGCAGTTTGACGC
66 CTCCGCAAGATGCAACCAGATGTGTTACTAAAAATAAAAGAAGAAGTTCAAAAGCAGTTTGACGC
* * *
96018 AGGTTTCCTCCAAGTAGTTAAATATTCAGAGTGGGTTGCCAAGAGATAAGTTCCTAAGAAAGA
131 AGGTTTCCTCCAAGTAGTTAAATATTCAGAGTGGGTTGACAAAAGATAACTTCCTAAGAAAGA
* *
96081 TGAGCATTGACATTGTAGTCCATAAGCTTCCGATAAAAGAAGAATGCAAGCCTATCCAATAAAAA
1 TGAGCACTGACATTGTAGTCCATAAGCTTCCGATAAAAGAAGAATGCAAGCCTATCCAACAAAAA
* *
96146 CTCCGCAGGATGCGACCAGATGTGTTACTAAAAATAAAAGAAGAAGTTCAAAAGCAGTTTGACGC
66 CTCCGCAAGATGCAACCAGATGTGTTACTAAAAATAAAAGAAGAAGTTCAAAAGCAGTTTGACGC
*
96211 AGGTTTCCTCTAAGTAGTTAAATATTCAGAGTGGGTTGACAAAAGATAACTTCCTAAGAAAGA
131 AGGTTTCCTCCAAGTAGTTAAATATTCAGAGTGGGTTGACAAAAGATAACTTCCTAAGAAAGA
96274 TGAG
1 TGAG
96278 AAAGTATGCA
Statistics
Matches: 187, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
193 187 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (193 bp):
TGAGCACTGACATTGTAGTCCATAAGCTTCCGATAAAAGAAGAATGCAAGCCTATCCAACAAAAA
CTCCGCAAGATGCAACCAGATGTGTTACTAAAAATAAAAGAAGAAGTTCAAAAGCAGTTTGACGC
AGGTTTCCTCCAAGTAGTTAAATATTCAGAGTGGGTTGACAAAAGATAACTTCCTAAGAAAGA
Found at i:100003 original size:44 final size:48
Alignment explanation
Indices: 99926--100093 Score: 148
Period size: 49 Copynumber: 3.5 Consensus size: 48
99916 GCACCATGAC
* * *
99926 GGGAAAGATCTAAGACAGCAATGGCGAATCCAGTACC-TCAA-A-A-AA
1 GGGAAAGATTTAAG-CCGCAACGGCGAATCCAGTACCATCAAGACAGAA
* *
99971 GGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCATGAAGACATGAA
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATCAAGACA-GAA
* ** * *
100020 AGGAAAGATTTAAGCCGCAACAACAAATCCAGTACCA-CAGAAGACATAAA
1 GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATC--AAGACA-GAA
* *
100070 GGGAAAGATCTAAGCCGCAGCGGC
1 GGGAAAGATTTAAGCCGCAACGGC
100094 AGATCTAGTA
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
44 19 0.19
45 16 0.16
46 1 0.01
47 1 0.01
49 34 0.34
50 28 0.28
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (48 bp):
GGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCATCAAGACAGAA
Found at i:100084 original size:50 final size:50
Alignment explanation
Indices: 99968--100088 Score: 165
Period size: 49 Copynumber: 2.4 Consensus size: 50
99958 GTACCTCAAA
**** *
99968 AAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCATGAAGACATG
1 AAAGGGAAAGATTTAAGCCGCAACAACAAATCCAGTACCAAGAAGACATG
100018 AAA-GGAAAGATTTAAGCCGCAACAACAAATCCAGTACCACAGAAGACAT-
1 AAAGGGAAAGATTTAAGCCGCAACAACAAATCCAGTACCA-AGAAGACATG
*
100067 AAAGGGAAAGATCTAAGCCGCA
1 AAAGGGAAAGATTTAAGCCGCA
100089 GCGGCAGATC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
49 35 0.56
50 28 0.44
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (50 bp):
AAAGGGAAAGATTTAAGCCGCAACAACAAATCCAGTACCAAGAAGACATG
Found at i:100104 original size:50 final size:50
Alignment explanation
Indices: 99968--100139 Score: 174
Period size: 50 Copynumber: 3.5 Consensus size: 50
99958 GTACCTCAAA
* *
99968 AAAGGGAAAGATTTAAGCCGCAACGG-TGAATCCAGTACCA-TGAAGACAT
1 AAAGGGAAAGATTTAAGCCGCAACGGCAG-ATCCAGTACCACAGAAGACAT
** *
100017 GAAA-GGAAAGATTTAAGCCGCAACAACAAATCCAGTACCACAGAAGACAT
1 -AAAGGGAAAGATTTAAGCCGCAACGGCAGATCCAGTACCACAGAAGACAT
* * * *
100067 AAAGGGAAAGATCTAAGCCGCAGCGGCAGATCTAGTACCGCA-AAGATACA-
1 AAAGGGAAAGATTTAAGCCGCAACGGCAGATCCAGTACCACAGAAG--ACAT
* *
100117 AAAGGGAAAGGTTTAAGTCGCAA
1 AAAGGGAAAGATTTAAGCCGCAA
100140 TAGCGAACTC
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
49 37 0.37
50 61 0.60
51 3 0.03
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (50 bp):
AAAGGGAAAGATTTAAGCCGCAACGGCAGATCCAGTACCACAGAAGACAT
Found at i:100671 original size:194 final size:190
Alignment explanation
Indices: 100239--100892 Score: 710
Period size: 194 Copynumber: 3.4 Consensus size: 190
100229 AAACTACAAT
* *
100239 GAGAAGCTG-ATTAAAACAAGCAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAC
1 GAGAAGC-GAATTGAAACAAACAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAC
* * * *
100303 TCAATGCAAACAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGTAGGGCGAAGCAAT
65 TCAAT-CGAACAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAAGGCGAAGCAAT
* * *
100368 AAAAAAAGTTAGCTTCCTAATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTTATGAGGTAC
128 --AAAAGGTTAGCTTCCTGATGAGATACTGAGAAGTG-ACCAAATTCGTCTTCCTAATGAGGTAC
100433 A
190 A
* * ** *
100434 GAGAAGCGGACTGAAACAAGTAAGGCGATCATCTTCTTGATGAGATACAGAGAAGTATACCAACT
1 GAGAAGCGAATTGAAACAAACAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAACT
* *
100499 CAATACGAACAAATCTTTGAACCCTAGCTTCCTGATGAGGTACTGAGAAGCAAAGGCGAAGCAAT
66 CAAT-CGAACAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGC-AAGGCGAAGCAAT
* *
100564 AAAAGGTTAGCTTCCTGATGAGACACTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGGTACA
128 AAAAGGTTAGCTTCCTGATGAGATACTGAGAAGT-GACCAAATTCGTCTTCCTAATGAGGTACA
** * *
100628 GAGAAGCGAATTGAAACAAACGGGGCGGTTATCTTCCTGATGAGATACAGAGAAGTATACCAACT
1 GAGAAGCGAATTGAAACAAACAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAACT
* * * * *
100693 CAGGGCTCGATGTGAGCAAATCTTCGAATCCCAACTTCTTGATGAGATACTGAGAATC-CGGTCG
66 CA---ATCGA----A-CAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAAGG-CG
* * * * *
100757 AAGAAATAAAATGGTTAACTTCCTGATGAAATACTAAGAAGTGGACCAAATTCGTCTTCCTAACG
121 AAGCAATAAAA-GGTTAGCTTCCTGATGAGATACTGAGAAGT-GACCAAATTCGTCTTCCTAATG
*
100822 AGATACA
184 AGGTACA
* * * * *
100829 GAGAAGCGAATTG----AAACAATGCGGTCATCTTCTTGATAAGGTACTA-AGAAGTAGACCAAA
1 GAGAAGCGAATTGAAACAAACAAGGCGGTCATCTTCTTGATGAGATAC-AGAGAAGTATACCAAC
100889 TCAA
65 TCAA
100893 CGACACCAAA
Statistics
Matches: 393, Mismatches: 50, Indels: 33
0.83 0.11 0.07
Matches are distributed among these distances:
194 120 0.31
195 101 0.26
196 15 0.04
197 40 0.10
198 1 0.00
199 2 0.01
200 13 0.03
201 98 0.25
202 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (190 bp):
GAGAAGCGAATTGAAACAAACAAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAACT
CAATCGAACAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAAGGCGAAGCAATAAA
AGGTTAGCTTCCTGATGAGATACTGAGAAGTGACCAAATTCGTCTTCCTAATGAGGTACA
Found at i:101216 original size:17 final size:18
Alignment explanation
Indices: 101193--101302 Score: 113
Period size: 17 Copynumber: 6.3 Consensus size: 18
101183 CCAAACTGAT
101193 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
* *
101211 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
101228 TTTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
* * *
101245 TTTAAAATTAATTTGAG-
1 TTTAAATTTATTTTAAGA
101262 TTTAAATTTATTTTCAA-A
1 TTTAAATTTATTTT-AAGA
* *
101280 TTTAAAATTATTATAA-A
1 TTTAAATTTATTTTAAGA
101297 TTTAAA
1 TTTAAA
101303 ATAAAGTCCA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
17 50 0.65
18 27 0.35
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:101242 original size:11 final size:11
Alignment explanation
Indices: 101228--101283 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
101218 TGTTTTAAAA
101228 TTTAAATTTAT
1 TTTAAATTTAT
*
101239 TTTAAATTTAAA
1 TTTAAATTT-AT
* *
101251 ATT-AATTTGAG
1 TTTAAATTT-AT
101262 TTTAAATTTAT
1 TTTAAATTTAT
101273 TTTCAAATTTA
1 TTT-AAATTTA
101284 AAATTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
11 21 0.58
12 15 0.42
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:101250 original size:35 final size:34
Alignment explanation
Indices: 101193--101302 Score: 132
Period size: 35 Copynumber: 3.2 Consensus size: 34
101183 CCAAACTGAT
* *
101193 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAA-ATTTAAAATTATTTT-AAA
* * *
101228 TTTAAATTTATTTTAAATTTAAAATTAATTTGAG
1 TTTAAATTTATTTTAAATTTAAAATTATTTTAAA
*
101262 TTTAAATTTATTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTTATTTT-AAATTTAAAATTATTTTAAA
101297 TTTAAA
1 TTTAAA
101303 ATAAAGTCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 16 0.25
35 48 0.75
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAAATTATTTTAAA
Found at i:101265 original size:23 final size:24
Alignment explanation
Indices: 101221--101271 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
101211 TTAAATTTGT
*
101221 TTTAAAATTTAAATTTATTTTAAA
1 TTTAAAATTTAAATTTAGTTTAAA
101245 TTTAAAA-TT-AATTTGAGTTTAAA
1 TTTAAAATTTAAATTT-AGTTTAAA
101268 TTTA
1 TTTA
101272 TTTTCAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 5 0.20
23 13 0.52
24 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTAAAATTTAAATTTAGTTTAAA
Found at i:101267 original size:52 final size:52
Alignment explanation
Indices: 101193--101304 Score: 152
Period size: 52 Copynumber: 2.2 Consensus size: 52
101183 CCAAACTGAT
* * * * *
101193 TTTAAATTTATTTTAAGATTAAATTTGTTTTAAAATTTAAATTTATTTTAAA
1 TTTAAAATTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
* * *
101245 TTTAAAATTAATTTGAGTTTAAATTTATTTTCAAATTTAAAATTATTATAAA
1 TTTAAAATTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
101297 TTTAAAAT
1 TTTAAAAT
101305 AAAGTCCAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (52 bp):
TTTAAAATTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
Found at i:101993 original size:9 final size:9
Alignment explanation
Indices: 101981--102036 Score: 71
Period size: 9 Copynumber: 6.3 Consensus size: 9
101971 TTTTAATAAC
101981 AATAATATT
1 AATAATATT
101990 AATAATA-T
1 AATAATATT
*
101998 AATAACATT
1 AATAATATT
102007 AATAATATT
1 AATAATATT
*
102016 AATAAT-TGC
1 AATAATAT-T
102025 AATAATATT
1 AATAATATT
102034 AAT
1 AAT
102037 TAAAAAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 8 0.20
9 31 0.77
10 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (9 bp):
AATAATATT
Found at i:103933 original size:30 final size:30
Alignment explanation
Indices: 103884--104325 Score: 431
Period size: 29 Copynumber: 15.0 Consensus size: 30
103874 TTACCCTCGT
103884 ACTTCCAAAAAT-CCATTTTTGACCCCAAA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
** ***
103913 ACTTCCAAAAATTTCATTTTT-ACCCTTGA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
* *
103942 ACTTCCAAAAATCTCATTTTTGACCCTAAA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
103972 ACTTCCAAAAATCCCATTTTTGACCCCAAA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
*
104002 ACTTCCAAAAATCCC-TTTTTTACCACC-AA
1 ACTTCCAAAAATCCCATTTTTGACC-CCAAA
* *
104031 ACTTCCAAAAATCCCATTTTTTACCCTAAA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
104061 ACTTCCAAAAAT-CCATTTTT-ACCCTC-AA
1 ACTTCCAAAAATCCCATTTTTGACCC-CAAA
* * *
104089 ACTTCTAAAAATCCCATTTTTGACCTCGAA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
* *
104119 ACTTCCAAAAATCCAATTTTT-ACCCTC-GA
1 ACTTCCAAAAATCCCATTTTTGACCC-CAAA
* * *
104148 ACTTCCAAAAATCCCATTTTCGATCCCTAA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
** **** **
104178 ACTATAAAAAAATTTTGTTTTT-ACCCCCGA
1 ACT-TCCAAAAATCCCATTTTTGACCCCAAA
* * *
104208 ACTTACAAAAATCTCATTTTTGACCCCGAA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
** *
104238 ACTTATAAAAATTCCATTTTT-ACCCCAAA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
* **
104267 ACTTCTAAAAATCCCATTTTT-ACCCCTGA
1 ACTTCCAAAAATCCCATTTTTGACCCCAAA
*
104296 ACTTTCAAAAATCCCATTTTTTGACCCCAA
1 ACTTCCAAAAATCCCA-TTTTTGACCCCAA
104326 TTTTTCCCAA
Statistics
Matches: 347, Mismatches: 50, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
28 17 0.05
29 164 0.47
30 150 0.43
31 16 0.05
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (30 bp):
ACTTCCAAAAATCCCATTTTTGACCCCAAA
Found at i:104317 original size:59 final size:58
Alignment explanation
Indices: 103852--104325 Score: 419
Period size: 59 Copynumber: 8.0 Consensus size: 58
103842 GAAGGTCCCT
* * * *
103852 AAACTATCCAAAAATTCTATTTTTA-CCCTCGTACTTCCAAAAATCCATTTTTGACCCCA
1 AAACT-TCCAAAAATCCCATTTTTACCCCT-GAACTTCCAAAAATCCATTTTTTACCCCA
** * * *
103911 AAACTTCCAAAAATTTCATTTTTACCCTTGAACTTCCAAAAATCTCATTTTTGACCCTA
1 AAACTTCCAAAAATCCCATTTTTACCCCTGAACTTCCAAAAATC-CATTTTTTACCCCA
** *
103970 AAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAATCCCTTTTTTACCACC-
1 AAACTTCCAAAAATCCCATTTTT-ACCCCTGAACTTCCAAAAATCCATTTTTTACC-CCA
*
104029 AAACTTCCAAAAATCCCATTTTTTA-CCCTAAAACTTCCAAAAATCCA-TTTTTACCCTC-
1 AAACTTCCAAAAATCCCA-TTTTTACCCCT-GAACTTCCAAAAATCCATTTTTTACCC-CA
* * *
104087 AAACTTCTAAAAATCCCATTTTTGACCTC-GAAACTTCCAAAAATCCAATTTTTACCCTC-
1 AAACTTCCAAAAATCCCATTTTT-ACCCCTG-AACTTCCAAAAATCCATTTTTTACCC-CA
* * * * ** ** *
104146 GAACTTCCAAAAATCCCATTTTCGATCCCTAAACTATAAAAAAAT-TTTGTTTTTACCCCC
1 AAACTTCCAAAAATCCCATTTT-TACCCCTGAACT-TCCAAAAATCCAT-TTTTTACCCCA
* * * **
104206 GAACTTACAAAAATCTCATTTTTGACCCC-GAAACTTATAAAAATTCCA-TTTTTACCCCA
1 AAACTTCCAAAAATCCCATTTTT-ACCCCTG-AACTTCCAAAAA-TCCATTTTTTACCCCA
* *
104265 AAACTTCTAAAAATCCCATTTTTACCCCTGAACTTTCAAAAATCCCATTTTTTGACCCCA
1 AAACTTCCAAAAATCCCATTTTTACCCCTGAACTTCCAAAAAT-CCATTTTTT-ACCCCA
104325 A
1 A
104326 TTTTTCCCAA
Statistics
Matches: 347, Mismatches: 44, Indels: 47
0.79 0.10 0.11
Matches are distributed among these distances:
57 7 0.02
58 95 0.27
59 169 0.49
60 76 0.22
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (58 bp):
AAACTTCCAAAAATCCCATTTTTACCCCTGAACTTCCAAAAATCCATTTTTTACCCCA
Found at i:115680 original size:16 final size:18
Alignment explanation
Indices: 115646--115682 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
115636 GCCGTCCATT
115646 ATTAATATTATTCTGATTA
1 ATTAATATTA-TCTGATTA
115665 ATTAATATTA-CT-ATTA
1 ATTAATATTATCTGATTA
115681 AT
1 AT
115683 ACTTATCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
19 10 0.56
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTAATATTATCTGATTA
Found at i:116412 original size:6 final size:6
Alignment explanation
Indices: 116384--116430 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
116374 ATTTAGCAAT
* *
116384 TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
116431 ACAAATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
5 8 0.23
6 24 0.69
7 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:116420 original size:17 final size:17
Alignment explanation
Indices: 116384--116438 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
116374 ATTTAGCAAT
116384 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
* *
116402 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
116419 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
116436 TTT
1 TTT
116439 TAAAAAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 24 0.75
18 8 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:117112 original size:201 final size:200
Alignment explanation
Indices: 116766--117196 Score: 668
Period size: 201 Copynumber: 2.1 Consensus size: 200
116756 TTAACTCGGC
* * * *
116766 CTTCTTCTCGGTATCTCATCAGG-AGAATGACCGCGTTGCTTGTTTCAAATCCGCTTCTCTGTAT
1 CTTCTTCTCGGTGTCTCATCAGGAAG-ATGACCGCATCGCTTGTTACAAATCCGCTTCTCTGTAT
* * * *
116830 CTCATTAGGAAGACGAATTTGGTTTATTTCTCAGTATCTCATCAGGAAGATAACCATTTATTGCT
65 ATCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGATAACCATTTATTGCT
*
116895 TCCACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTTTTGAAGATTTCGCTCACTTTGAGCCTC
130 TCCACCTGCTTCTCAGTGTCTCATCAAGAAGATGGGTTTTGAAGATTT--CTCACTTTGAGCCTC
116960 ATTTAGGT
193 ATTTAGGT
* *
116968 CTTCTTCTCGGTGTCTCATCAGGAAGATGACCGCATCGTTTGTTACAACT-CGCTTCTCTGTATA
1 CTTCTTCTCGGTGTCTCATCAGGAAGATGACCGCATCGCTTGTTACAAATCCGCTTCTCTGTATA
*
117032 TCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTT
66 TCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGATAACCATTTATTGCTT
* **
117097 CCACCTGCTTCTCAGTGTCTCATCAGGAAGATGGGTTTTGAAGATTTCTCACTTTGAGCCTTGTT
131 CCACCTGCTTCTCAGTGTCTCATCAAGAAGATGGGTTTTGAAGATTTCTCACTTTGAGCCTCATT
*
117162 TGGGT
196 TAGGT
*
117167 CTTCTTCTCGGTGTCTCATTAGGAAGATGA
1 CTTCTTCTCGGTGTCTCATCAGGAAGATGA
117197 TCGCGTTGTT
Statistics
Matches: 211, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
199 49 0.23
201 119 0.56
202 41 0.19
203 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (200 bp):
CTTCTTCTCGGTGTCTCATCAGGAAGATGACCGCATCGCTTGTTACAAATCCGCTTCTCTGTATA
TCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGATAACCATTTATTGCTT
CCACCTGCTTCTCAGTGTCTCATCAAGAAGATGGGTTTTGAAGATTTCTCACTTTGAGCCTCATT
TAGGT
Found at i:117715 original size:27 final size:28
Alignment explanation
Indices: 117685--117745 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
117675 CCAAGAATTC
*
117685 TATTAAAA-GAGGATCGAAGGAAACAAT
1 TATTAAAAGGAGGATCAAAGGAAACAAT
* *
117712 TATTAAAAGGAGGATTAAAGGAAATAAT
1 TATTAAAAGGAGGATCAAAGGAAACAAT
*
117740 CATTAA
1 TATTAA
117746 CTGAAAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.52, C:0.05, G:0.20, T:0.23
Consensus pattern (28 bp):
TATTAAAAGGAGGATCAAAGGAAACAAT
Found at i:119121 original size:32 final size:32
Alignment explanation
Indices: 119085--119148 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
119075 CCATCGTGAA
*
119085 ACCATTGGCATGTGTCCCACAAATGCCTTCGT
1 ACCATTAGCATGTGTCCCACAAATGCCTTCGT
119117 ACCATTAGCATGTGTCCCACAAATGCCTTCGT
1 ACCATTAGCATGTGTCCCACAAATGCCTTCGT
119149 GAACCTCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (32 bp):
ACCATTAGCATGTGTCCCACAAATGCCTTCGT
Done.