Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009423.1 Kokia drynarioides strain JFW-HI SEQ_124130, 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: 84993
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Warning! 20 characters in sequence are not A, C, G, or T
Found at i:679 original size:23 final size:22
Alignment explanation
Indices: 653--699 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
643 TAATATTATT
* *
653 ATTATTAGTTATTATTAATTACC
1 ATTATTAATGATTATTAA-TACC
*
676 ATTATTAATGCTTATTAATACC
1 ATTATTAATGATTATTAATACC
698 AT
1 AT
700 CAATATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTATTAATGATTATTAATACC
Found at i:1438 original size:17 final size:17
Alignment explanation
Indices: 1376--1439 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
1366 ATTTATATTT
* *
1376 AAATTTAAACTTAATTT
1 AAATTTAAACTTAAATA
* *
1393 AAATTTAATCTTTAAAAGA
1 AAATTTAAAC-TT-AAATA
*
1412 AAAGTTTAAACTTAAATC
1 AAA-TTTAAACTTAAATA
1430 AAATTTAAAC
1 AAATTTAAAC
1440 CCAAAAAGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
17 16 0.43
18 8 0.22
19 7 0.19
20 6 0.16
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTAAACTTAAATA
Found at i:3414 original size:23 final size:25
Alignment explanation
Indices: 3388--3433 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
3378 TTTTATTATT
3388 ATATTGGTATT-TTTT-TTTTATCA
1 ATATTGGTATTATTTTGTTTTATCA
3411 ATATTGGTATTATTTTGTTTTAT
1 ATATTGGTATTATTTTGTTTTAT
3434 TATTACTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.52
24 4 0.19
25 6 0.29
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.65
Consensus pattern (25 bp):
ATATTGGTATTATTTTGTTTTATCA
Found at i:3426 original size:25 final size:23
Alignment explanation
Indices: 3388--3433 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
3378 TTTTATTATT
*
3388 ATATTGGTATTTTTTTTTTATCA
1 ATATTGGTATTTTTGTTTTATCA
3411 ATATTGGTATTATTTTGTTTTAT
1 ATATTGGTA-T-TTTTGTTTTAT
3434 TATTACTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.65
Consensus pattern (23 bp):
ATATTGGTATTTTTGTTTTATCA
Found at i:5169 original size:17 final size:18
Alignment explanation
Indices: 5147--5193 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
5137 TTAAATTTAG
5147 TTTTTA-ATAATTACAT-T
1 TTTTTAGATAATT-CATAT
*
5164 TTTTTAGTTAATTCATAT
1 TTTTTAGATAATTCATAT
*
5182 TTTTTAGTTAAT
1 TTTTTAGATAAT
5194 CTATCATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTAGATAATTCATAT
Found at i:5200 original size:21 final size:18
Alignment explanation
Indices: 5154--5193 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
5144 TAGTTTTTAA
5154 TAATTACAT-TTTTTTAGT
1 TAATT-CATATTTTTTAGT
5172 TAATTCATATTTTTTAGT
1 TAATTCATATTTTTTAGT
5190 TAAT
1 TAAT
5194 CTATCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TAATTCATATTTTTTAGT
Found at i:13652 original size:71 final size:71
Alignment explanation
Indices: 13414--13638 Score: 324
Period size: 71 Copynumber: 3.2 Consensus size: 71
13404 CATATCTTGG
* * * *
13414 TTCTACCGATACAACCAAGACTTCTATCAGTAGAACAAACTTCAGAGAGTAAAGAAGTTGTGGCC
1 TTCTATCGATACAACCAAGAGTTCTATCGGTAGAACAAACTTCAGAGAGCAAAGAAGTTGTGGCC
*
13479 TGGGGC
66 TGGGAC
* * *
13485 TTCTACCAATGCAACCAAGAGTTCTATCGGTAGAACAAACTTCAGAGAGCAAAGAAGTTGTGGCC
1 TTCTATCGATACAACCAAGAGTTCTATCGGTAGAACAAACTTCAGAGAGCAAAGAAGTTGTGGCC
13550 TGGGAC
66 TGGGAC
* * * * *
13556 TTTTTTCGATACAACCAAGAGTTCTATCGGTAGAACAAACTCCAGAAAGCAAAGAAGTTGTGGCT
1 TTCTATCGATACAACCAAGAGTTCTATCGGTAGAACAAACTTCAGAGAGCAAAGAAGTTGTGGCC
*
13621 TGAGAC
66 TGGGAC
13627 TTCTATCGATAC
1 TTCTATCGATAC
13639 CTGGAAGGTT
Statistics
Matches: 137, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 137 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (71 bp):
TTCTATCGATACAACCAAGAGTTCTATCGGTAGAACAAACTTCAGAGAGCAAAGAAGTTGTGGCC
TGGGAC
Found at i:16842 original size:33 final size:33
Alignment explanation
Indices: 16800--16866 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
16790 CTCATCTGGT
16800 TCCAAACTAATTGGTTTGGTCAGATGTAAAGCC
1 TCCAAACTAATTGGTTTGGTCAGATGTAAAGCC
16833 TCCAAACTAATTGGTTTGGTCAGATGTAAAGCC
1 TCCAAACTAATTGGTTTGGTCAGATGTAAAGCC
16866 T
1 T
16867 AAATTGTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (33 bp):
TCCAAACTAATTGGTTTGGTCAGATGTAAAGCC
Found at i:19643 original size:2 final size:2
Alignment explanation
Indices: 19636--19661 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19626 CCAATTGCCA
19636 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19662 TATGCTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24851 original size:32 final size:32
Alignment explanation
Indices: 24806--24870 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
24796 TTCAATACTA
* *
24806 ATCAGAACGATAAAGTGAAGTTGATAGATGCT
1 ATCAGAACAATAAAGTGAAGTTGACAGATGCT
*
24838 ATCAGAACAATAAAGTGAAGTTGGCAGATGCT
1 ATCAGAACAATAAAGTGAAGTTGACAGATGCT
24870 A
1 A
24871 ACTCTGAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.23
Consensus pattern (32 bp):
ATCAGAACAATAAAGTGAAGTTGACAGATGCT
Found at i:27860 original size:13 final size:14
Alignment explanation
Indices: 27840--27890 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
27830 AAAATACATT
27840 AATATAATAAACAC
1 AATATAATAAACAC
27854 AAT-TAAT-AACAC
1 AATATAATAAACAC
*
27866 AATAAAATAAA-AC
1 AATATAATAAACAC
27879 AATAGTAATAAA
1 AATA-TAATAAA
27891 TAAAATAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 8 0.25
13 13 0.41
14 11 0.34
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.22
Consensus pattern (14 bp):
AATATAATAAACAC
Found at i:27969 original size:2 final size:2
Alignment explanation
Indices: 27962--28004 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
27952 GCAACAGTAA
27962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28004 A
1 A
28005 ACACAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:28205 original size:60 final size:61
Alignment explanation
Indices: 28095--28243 Score: 160
Period size: 60 Copynumber: 2.4 Consensus size: 61
28085 ACATACAAAT
* * * * * *
28095 AAATAACAAATCAATGAATAAATAAAATTAAATGAAGACAAAAATATAAATAGC-A-TAAA
1 AAATAACAAATAAATAAATAAATAAAATTAAATAAAGACAAAAACATAAATAACAAGAAAA
* * *
28154 AAATAACAAATAAATAAAATACATAAAATTAAATAAA-AGCAATAACGTAAATAACAAAGAAAA
1 AAATAACAAATAAAT-AAATAAATAAAATTAAATAAAGA-CAAAAACATAAATAAC-AAGAAAA
28217 AGAATAACAAATAAATAAATAAATAAA
1 A-AATAACAAATAAATAAATAAATAAA
28244 TATATGAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
59 15 0.20
60 30 0.41
62 1 0.01
63 14 0.19
64 14 0.19
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (61 bp):
AAATAACAAATAAATAAATAAATAAAATTAAATAAAGACAAAAACATAAATAACAAGAAAA
Found at i:28334 original size:13 final size:14
Alignment explanation
Indices: 28309--28341 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
28299 TAAAATAAAT
28309 AAATAAACAAATAA
1 AAATAAACAAATAA
*
28323 ATATAAAC-AATAA
1 AAATAAACAAATAA
28336 AAATAA
1 AAATAA
28342 TTGAGATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAATAAACAAATAA
Found at i:28436 original size:3 final size:3
Alignment explanation
Indices: 28428--28459 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
28418 ACTAAATATA
28428 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
28460 AAGATGAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:29399 original size:19 final size:19
Alignment explanation
Indices: 29375--29414 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
29365 TCGATATTCT
29375 TTCAGTT-TAATTTTTTATA
1 TTCAGTTCT-ATTTTTTATA
*
29394 TTCAGTTCTTTTTTTTATA
1 TTCAGTTCTATTTTTTATA
29413 TT
1 TT
29415 TTGGTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (19 bp):
TTCAGTTCTATTTTTTATA
Found at i:32707 original size:30 final size:30
Alignment explanation
Indices: 32673--32976 Score: 226
Period size: 30 Copynumber: 10.2 Consensus size: 30
32663 TTAAAACCGA
* * *
32673 GTCAATTTTGAATTTTTGGAAACTTCAGGG
1 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
* *
32703 GTCAAATTAGAATTTTTGGAAACTTT-GAGG
1 GTCAAATTTGAATTTTTGGAAAGTTTAG-GG
* * * * *
32733 GTCAAATTAGAATATTTGGAAAATTCAAGG
1 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
* * *
32763 GTTAAATTTGATTTTTTAGAAAGTTTAGGG
1 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
* ** * * *
32793 GTTAAATTCAAATATTTGGAAAATTTAAGG
1 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
*
32823 GTTAAATTTGAA-TTTTGGAAAGTTTAGGG
1 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
* * *
32852 GTTAAATTAT-AATTTTTGAAAAG-TTCGAGG
1 GTCAAATT-TGAATTTTTGGAAAGTTTAG-GG
* * *
32882 GTCAAA-TTCAAATTTTGGAAAGTTTAGAG
1 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
* * *
32911 GTCAATTTTGAATCTTTGGGAAGTTTGAGGG
1 GTCAAATTTGAATTTTTGGAAAGTTT-AGGG
* * *
32942 AT-AAATTTAAATTTTTTGGAAA-TTTGGGG
1 GTCAAATTTGAA-TTTTTGGAAAGTTTAGGG
32971 GTCAAA
1 GTCAAA
32977 ATAATTTTCA
Statistics
Matches: 216, Mismatches: 47, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.00
29 50 0.23
30 153 0.71
31 12 0.06
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (30 bp):
GTCAAATTTGAATTTTTGGAAAGTTTAGGG
Found at i:32800 original size:90 final size:89
Alignment explanation
Indices: 32679--32929 Score: 251
Period size: 90 Copynumber: 2.8 Consensus size: 89
32669 CCGAGTCAAT
* * * * * *
32679 TTTGAATTTTTGGAAACTTCAGGGGTCAAATT-AGAATTTTTGGAAACTTTGAGGGTCAAATTAG
1 TTTGATTTTTTAGAAAGTTCAGGGGTCAAATTCA-AATATTTGGAAAATTTAAGGGTCAAATTAG
32743 AATATTTGGAAAATTCAAGGGTTAAA
65 AAT-TTTGGAAAATTCAAGGGTTAAA
* * * *
32769 TTTGATTTTTTAGAAAGTTTAGGGGTTAAATTCAAATATTTGGAAAATTTAAGGGTTAAATTTGA
1 TTTGATTTTTTAGAAAGTTCAGGGGTCAAATTCAAATATTTGGAAAATTTAAGGGTCAAATTAGA
* * *
32834 ATTTTGGAAAGTTTAGGGGTTAAA
66 ATTTTGGAAAATTCAAGGGTTAAA
* * * *
32858 TTATAATTTTTGA-AAAGTTC-GAGGGTCAAATTCAAAT-TTTGGAAAGTTT-AGAGGTCAATTT
1 TT-TGATTTTTTAGAAAGTTCAG-GGGTCAAATTCAAATATTTGGAAAATTTAAG-GGTCAAATT
*
32919 TGAATCTTTGG
63 AGAAT-TTTGG
32930 GAAGTTTGAG
Statistics
Matches: 136, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
87 2 0.01
88 24 0.18
89 46 0.34
90 63 0.46
91 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (89 bp):
TTTGATTTTTTAGAAAGTTCAGGGGTCAAATTCAAATATTTGGAAAATTTAAGGGTCAAATTAGA
ATTTTGGAAAATTCAAGGGTTAAA
Found at i:34935 original size:40 final size:40
Alignment explanation
Indices: 34808--35472 Score: 554
Period size: 40 Copynumber: 16.8 Consensus size: 40
34798 ATAACTTTAG
* *
34808 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTTG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTA
* * * * * *
34847 GGGTAAGAGATCGGATGGTCTTTAATATGCTCTCATGGTTT
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTA
* *
34888 GGGTAAAAGATTGAATGGTCTTCAATCTGCCCTCTAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* * * *
34928 GGGTAAAAGATTAGATTG-CTTCAACCTGCCCTCTGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* * *
34967 GGGTTAAAGATTGGATAGTCTTCAATTTGCCC-CATGGTT-
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTA
* *
35006 GAGGTAAAAGATTGGA-GGTCTTTAATCTGCCCTCTAGTTA
1 G-GGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* * *
35046 GGGTAAAAGATTGGATTG-CTTCAA-CTTGCCCTTTGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATC-TGCCCTCTGGTTA
* * * * **
35085 GGGTAAAAAATTGGATAGTCTTCAATATGTCCC-ATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCTCTGGTTA
* * * * *
35125 GGGTAAAAGATTGGATTG-CTTCAATCTACCTTATGG-TC
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* * * * * **
35163 GGGATAAGAGATCGGATGGTCTTCAATCTACCTTCATAGTCG
1 GGG-TAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTA
* * *
35205 GGGTAAAATATTGGATGGTCTTCAATCTGCCCTTTAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* *
35245 GGGTAAAAGATTGGAT--TACTTCAACCTGCCCTCTGATTA
1 GGGTAAAAGATTGGATGGT-CTTCAATCTGCCCTCTGGTTA
* * * *
35284 GGGTAAAAGATTGAATAGTCTTCAATTTGCCC-CATGGTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTA
* * * *
35324 AGGTAAAATATTAGATGGTCTTCAATCTACCCTCTGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* * **
35364 GGGTAAAATATTGGAT--TACTTCAACCTGCCCTCTAATTA
1 GGGTAAAAGATTGGATGGT-CTTCAATCTGCCCTCTGGTTA
* **
35403 GGGTAAAAGATTGGATAGTCTTCAATCTG-CCTCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTA
*
35443 GGGTAAAAGATTGGATGATCTTCAATCTGC
1 GGGTAAAAGATTGGATGGTCTTCAATCTGC
35473 ATCATGATCG
Statistics
Matches: 501, Mismatches: 98, Indels: 52
0.77 0.15 0.08
Matches are distributed among these distances:
38 8 0.02
39 205 0.41
40 217 0.43
41 68 0.14
42 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
Found at i:34998 original size:79 final size:79
Alignment explanation
Indices: 34808--35472 Score: 497
Period size: 79 Copynumber: 8.4 Consensus size: 79
34798 ATAACTTTAG
* * * * *
34808 GGGTAAAAGATTGGAT-TGCTTCAATCTGCCC-CATGGTTGGGGTAAGAGATCGGATGGTCTTTA
1 GGGTAAAAGATTGGATGT-CTTCAATCTGCCCTC-TAGTTAGGGTAAAAGATTGGATGGTCTTCA
* * * *
34871 ATATGCTCTCATGGTTT
64 ATCTGCCCTC-TGATTA
* * *
34888 GGGTAAAAGATTGAATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTAGATTG-CTTCAA
1 GGGTAAAAGATTGGAT-GTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCAA
*
34952 CCTGCCCTCTGATTA
65 TCTGCCCTCTGATTA
* * * *
34967 GGGTTAAAGATTGGATAGTCTTCAATTTGCCC-CATGGTT-GAGGTAAAAGATTGGA-GGTCTTT
1 GGGTAAAAGATTGGAT-GTCTTCAATCTGCCCTC-TAGTTAG-GGTAAAAGATTGGATGGTCTTC
35029 AATCTGCCCTCT-AGTTA
63 AATCTGCCCTCTGA-TTA
* * *
35046 GGGTAAAAGATTGGAT-TGCTTCAA-CTTGCCCT-TTGATTAGGGTAAAAAATTGGATAGTCTTC
1 GGGTAAAAGATTGGATGT-CTTCAATC-TGCCCTCTAG-TTAGGGTAAAAGATTGGATGGTCTTC
* * * **
35108 AATATGTCCC-ATGGTCG
63 AATCTG-CCCTCTGATTA
* * * * *
35125 GGGTAAAAGATTGGAT-TGCTTCAATCT-ACCT-TATGGTCGGGATAAGAGATCGGATGGTCTTC
1 GGGTAAAAGATTGGATGT-CTTCAATCTGCCCTCTA-GTTAGGG-TAAAAGATTGGATGGTCTTC
* * **
35187 AATCTACCTTCAT-AGTCG
63 AATCTGCCCTC-TGA-TTA
* *
35205 GGGTAAAATATTGGATGGTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGAT--TACTTCA
1 GGGTAAAAGATTGGAT-GTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGT-CTTCA
*
35268 ACCTGCCCTCTGATTA
64 ATCTGCCCTCTGATTA
* * * * * * *
35284 GGGTAAAAGATTGAATAGTCTTCAATTTGCCC-CATGGTCAAGGTAAAATATTAGATGGTCTTCA
1 GGGTAAAAGATTGGAT-GTCTTCAATCTGCCCTC-TAGTTAGGGTAAAAGATTGGATGGTCTTCA
* *
35348 ATCTACCCTCTGGTTA
64 ATCTGCCCTCTGATTA
* * * *
35364 GGGTAAAATATTGGAT-TACTTCAACCTGCCCTCTAATTAGGGTAAAAGATTGGATAGTCTTCAA
1 GGGTAAAAGATTGGATGT-CTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCAA
* **
35428 TCTG-CCTCATGGTCG
65 TCTGCCCTC-TGATTA
35443 GGGTAAAAGATTGGATGATCTTCAATCTGC
1 GGGTAAAAGATTGGATG-TCTTCAATCTGC
35473 ATCATGATCG
Statistics
Matches: 464, Mismatches: 86, Indels: 70
0.75 0.14 0.11
Matches are distributed among these distances:
77 3 0.01
78 45 0.10
79 245 0.53
80 105 0.23
81 53 0.11
82 11 0.02
83 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATTGGATGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTCTTCAAT
CTGCCCTCTGATTA
Found at i:35056 original size:118 final size:118
Alignment explanation
Indices: 34808--35468 Score: 481
Period size: 119 Copynumber: 5.6 Consensus size: 118
34798 ATAACTTTAG
* * * * * *
34808 GGGTAAAAGATTGGATTGCTTCAATCTGCCC-CATGGTT-GGGGTAAGAGATCGGATGGTCTTTA
1 GGGTAAAAGATTGGATTGCTTCAACCTGCCCTC-TGATTAGGGTTAA-AGATTGGATAGTCTTCA
* *
34871 ATATGCTCTCATGGTTTGGGTAAAAGATTGAATGGTCTTCAATCTGCCCTCTAGTTA
64 ATATGC-CCCATGG-TTGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
*
34928 GGGTAAAAGATTAGATTGCTTCAACCTGCCCTCTGATTAGGGTTAAAGATTGGATAGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAACCTGCCCTCTGATTAGGGTTAAAGATTGGATAGTCTTCAAT
* *
34993 TTGCCCCATGGTTGAGGTAAAAGATTGGA-GGTCTTTAATCTGCCCTCTAGTTA
66 ATGCCCCATGGTTG-GGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
* * * *
35046 GGGTAAAAGATTGGATTGCTTCAACTTGCCCTTTGATTAGGGTAAAAAATTGGATAGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAACCTGCCCTCTGATTAGGGTTAAAGATTGGATAGTCTTCAAT
* * * * * *
35111 ATGTCCCATGGTCGGGGTAAAAGATTGGATTG-CTTCAATCT-ACCT-TATGGTC
66 ATGCCCCATGGT-TGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTA-GTTA
* * * * * * ** * * *
35163 GGGATAAGAGATCGGATGGTCTTCAATCTACCTTCAT-AGTCGGGGTAAAATATTGGATGGTCTT
1 GGG-TAAAAGATTGGATTG-CTTCAACCTGCCCTC-TGA-TTAGGGTTAAAGATTGGATAGTCTT
* ** * *
35227 CAATCTGCCCTTTAGTTAGGGTAAAAGATTGGAT--TACTTCAACCTGCCCTCT-GATTA
62 CAATATGCCCCATGGTT-GGGTAAAAGATTGGATGGT-CTTCAATCTGCCCTCTAG-TTA
* * ** * * * * * * *
35284 GGGTAAAAGATTGAATAGTCTTCAATTTGCCC-CATGGTCAAGGTAAAATATTAGATGGTCTTCA
1 GGGTAAAAGATTGGATTG-CTTCAACCTGCCCTC-TGATTAGGGTTAAAGATTGGATAGTCTTCA
* * * * *
35348 ATCTACCCTC-TGGTTAGGGTAAAATATTGGAT--TACTTCAACCTGCCCTCTAATTA
64 ATATGCCC-CATGGTT-GGGTAAAAGATTGGATGGT-CTTCAATCTGCCCTCTAGTTA
* * * ** *
35403 GGGTAAAAGATTGGATAGTCTTCAATCTG-CCTCATGGTCGGGGTAAAAGATTGGAT-GATCTTC
1 GGGTAAAAGATTGGATTG-CTTCAACCTGCCCTC-TGATTAGGGTTAAAGATTGGATAG-TCTTC
35466 AAT
63 AAT
35469 CTGCATCATG
Statistics
Matches: 452, Mismatches: 68, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
116 2 0.00
117 8 0.02
118 133 0.29
119 162 0.36
120 132 0.29
121 14 0.03
122 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (118 bp):
GGGTAAAAGATTGGATTGCTTCAACCTGCCCTCTGATTAGGGTTAAAGATTGGATAGTCTTCAAT
ATGCCCCATGGTTGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
Found at i:35589 original size:50 final size:50
Alignment explanation
Indices: 35519--35646 Score: 186
Period size: 50 Copynumber: 2.6 Consensus size: 50
35509 CGCTCTATTT
*
35519 CAGCTTTAGGAGTATAAGATTCGTCC-TTACGACTTCAATCTGCCCCTTTA
1 CAGCTTTAGGTGTATAAGATTCG-CCATTACGACTTCAATCTGCCCCTTTA
* * * *
35569 CAGCTTTAGGTGAATGAGATTCGCCATTACGGCTTCAATCTGCCCTTTTA
1 CAGCTTTAGGTGTATAAGATTCGCCATTACGACTTCAATCTGCCCCTTTA
*
35619 CAGCTTTAGGTGTATAAGATTTGCCATT
1 CAGCTTTAGGTGTATAAGATTCGCCATT
35647 GCAGTTTCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 2 0.03
50 67 0.97
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (50 bp):
CAGCTTTAGGTGTATAAGATTCGCCATTACGACTTCAATCTGCCCCTTTA
Found at i:42779 original size:59 final size:59
Alignment explanation
Indices: 42694--42993 Score: 261
Period size: 59 Copynumber: 5.1 Consensus size: 59
42684 TAAAATCGGG
* * * * ***
42694 TAAATTTTGAATTTTTAGAAACTTTAAGGGTCAAATCAAAATTTTTAGAAATTTTGGGGT
1 TAAA-TTTAAATTTTTGGAAAATTTAAGGGTTAAATTTGAATTTTTAGAAATTTTGGGGT
* *
42754 TAAATTGT-AATTTTTGGAAAATTTAA-GGTTAAATTTGAATTTCTAGAAAGTTTGGGGT
1 TAAATT-TAAATTTTTGGAAAATTTAAGGGTTAAATTTGAATTTTTAGAAATTTTGGGGT
* * *
42812 TAAATTTAAATTTTTGGAAAGTTTGAGGGTTAAATTTGAATTTTTAGAAAATTTGGGGGT
1 TAAATTTAAATTTTTGGAAAATTTAAGGGTTAAATTTGAATTTTTAG-AAATTTTGGGGT
* * * ** *
42872 TAAATTCAAATTTTTGGAAAGTTT--GGAGTTAAATTTTAATTTTT-GAAAAGATTGAGGGA
1 TAAATTTAAATTTTTGGAAAATTTAAGG-GTTAAATTTGAATTTTTAG-AAATTTTG-GGGT
* * * * * ** *
42931 CAAATTCAATTTTTTGGAGAATTTGAGGGTTAAAACAT-AATTTTTAGACATTTTGGGGT
1 TAAATTTAAATTTTTGGAAAATTTAAGGGTT-AAATTTGAATTTTTAGAAATTTTGGGGT
42990 TAAA
1 TAAA
42994 AATAATTTTA
Statistics
Matches: 200, Mismatches: 30, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
57 1 0.00
58 57 0.28
59 82 0.41
60 53 0.26
61 7 0.04
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (59 bp):
TAAATTTAAATTTTTGGAAAATTTAAGGGTTAAATTTGAATTTTTAGAAATTTTGGGGT
Found at i:42844 original size:30 final size:30
Alignment explanation
Indices: 42694--42964 Score: 230
Period size: 29 Copynumber: 9.1 Consensus size: 30
42684 TAAAATCGGG
* * * *
42694 TAAATTTTGAATTTTTAGAAACTTTAAGGGT
1 TAAA-TTTAAATTTTTGGAAAGTTTGAGGGT
* ** * *
42725 CAAATCAAAATTTTTAGAAATTTTG-GGGT
1 TAAATTTAAATTTTTGGAAAGTTTGAGGGT
* *
42754 TAAATTGT-AATTTTTGGAAAATTT-AAGGT
1 TAAATT-TAAATTTTTGGAAAGTTTGAGGGT
* * *
42783 TAAATTTGAATTTCTAGAAAGTTTG-GGGT
1 TAAATTTAAATTTTTGGAAAGTTTGAGGGT
42812 TAAATTTAAATTTTTGGAAAGTTTGAGGGT
1 TAAATTTAAATTTTTGGAAAGTTTGAGGGT
* * * *
42842 TAAATTTGAATTTTTAGAAAATTTGGGGGT
1 TAAATTTAAATTTTTGGAAAGTTTGAGGGT
* *
42872 TAAATTCAAATTTTTGGAAAGTTTG-GAGT
1 TAAATTTAAATTTTTGGAAAGTTTGAGGGT
* * * *
42901 TAAATTTTAATTTTTGAAAAGATTGAGGGA
1 TAAATTTAAATTTTTGGAAAGTTTGAGGGT
* * *
42931 CAAATTCAATTTTTTGGAGAA-TTTGAGGGT
1 TAAATTTAAATTTTTGGA-AAGTTTGAGGGT
42961 TAAA
1 TAAA
42965 ACATAATTTT
Statistics
Matches: 191, Mismatches: 42, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
28 1 0.01
29 93 0.49
30 92 0.48
31 5 0.03
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (30 bp):
TAAATTTAAATTTTTGGAAAGTTTGAGGGT
Found at i:42973 original size:89 final size:89
Alignment explanation
Indices: 42762--42993 Score: 245
Period size: 89 Copynumber: 2.6 Consensus size: 89
42752 GTTAAATTGT
* * *** *
42762 AATTTTTGGAAAATTT-AAGGTTAAATTTGAATTTCTAGAAAGTTTGGGGTTAAATTTAAATTTT
1 AATTTTTAGAAAATTTGAGGGTTAAATACAAATTTTTAGAAAGTTTGGGGTTAAATTTAAATTTT
* * ** *
42826 TGGAAAGTTTGAGGGTTAAATTTG
66 TGAAAAGATTGAGGGACAAATTTC
* * * * *
42850 AATTTTTAGAAAATTTGGGGGTTAAATTCAAATTTTTGGAAAGTTTGGAGTTAAATTTTAATTTT
1 AATTTTTAGAAAATTTGAGGGTTAAATACAAATTTTTAGAAAGTTTGGGGTTAAATTTAAATTTT
42915 TGAAAAGATTGAGGGACAAA-TTC
66 TGAAAAGATTGAGGGACAAATTTC
* * * *
42938 AATTTTTTGGAGAATTTGAGGGTTAAA-ACATAATTTTTAGACATTTTGGGGTTAAA
1 AA-TTTTTAGAAAATTTGAGGGTTAAATACA-AATTTTTAGAAAGTTTGGGGTTAAA
42994 AATAATTTTA
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
88 21 0.18
89 98 0.82
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (89 bp):
AATTTTTAGAAAATTTGAGGGTTAAATACAAATTTTTAGAAAGTTTGGGGTTAAATTTAAATTTT
TGAAAAGATTGAGGGACAAATTTC
Found at i:45610 original size:16 final size:17
Alignment explanation
Indices: 45589--45621 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
45579 ATAATTTTAC
*
45589 TTTTATTAATT-TAAAA
1 TTTTATAAATTATAAAA
45605 TTTTATAAATTATAAAA
1 TTTTATAAATTATAAAA
45622 GGTCTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTATAAATTATAAAA
Found at i:48203 original size:23 final size:24
Alignment explanation
Indices: 48177--48232 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
48167 TATTTTGAAA
* *
48177 AAAAATATATGTAAAGTA-TTTTG
1 AAAAATAAATGTAAAATATTTTTG
*
48200 AAAAAAAAATGTAAAATATTTTTTG
1 AAAAATAAATGTAAAATA-TTTTTG
48225 AAAAATAA
1 AAAAATAA
48233 TAACTCCTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 15 0.56
25 12 0.44
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (24 bp):
AAAAATAAATGTAAAATATTTTTG
Found at i:48229 original size:25 final size:25
Alignment explanation
Indices: 48166--48221 Score: 80
Period size: 23 Copynumber: 2.3 Consensus size: 25
48156 TTTAAATTGT
48166 ATATTTTGAAAAAAAATATATGTAAA
1 ATATTTTG-AAAAAAATATATGTAAA
*
48192 GTATTTTGAAAAAAA-A-ATGTAAA
1 ATATTTTGAAAAAAATATATGTAAA
48215 ATATTTT
1 ATATTTT
48222 TTGAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 13 0.46
24 1 0.04
25 7 0.25
26 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.38
Consensus pattern (25 bp):
ATATTTTGAAAAAAATATATGTAAA
Found at i:54198 original size:27 final size:27
Alignment explanation
Indices: 54168--54220 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
54158 TCGAAAAGGA
*
54168 TTCAAG-TTTGAGGTTTGAGATTTGGGG
1 TTCAAGATTTGA-GTTAGAGATTTGGGG
* *
54195 TTCATGATTTGAGTTAGAGGTTTGGG
1 TTCAAGATTTGAGTTAGAGATTTGGG
54221 TTTGATGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.19, C:0.04, G:0.36, T:0.42
Consensus pattern (27 bp):
TTCAAGATTTGAGTTAGAGATTTGGGG
Found at i:54228 original size:27 final size:28
Alignment explanation
Indices: 54174--54229 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
54164 AGGATTCAAG
*
54174 TTTGAGGTTTGAGATTTGGGGTTCATGA
1 TTTGAGGTTAGAGATTTGGGGTTCATGA
* * *
54202 TTTGA-GTTAGAGGTTTGGGTTTGATGA
1 TTTGAGGTTAGAGATTTGGGGTTCATGA
54229 T
1 T
54230 CAGTGTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.45
Consensus pattern (28 bp):
TTTGAGGTTAGAGATTTGGGGTTCATGA
Found at i:55304 original size:91 final size:90
Alignment explanation
Indices: 55193--55468 Score: 286
Period size: 91 Copynumber: 3.0 Consensus size: 90
55183 CAAGTACAAT
* * * * *
55193 AATAATACAAAAATTGATAGTTTAGGTACCACATT-GAACATTTTCAAAGTATAAGTACCACATT
1 AATAATACACAAACTAATAGTTCAGGTACCACATTAG-ACATTTTCAAAGTACAAGTACCACATT
*
55257 GGACATTTTATGAAAGTACA-TACCCTA
65 GGACATCTTATGAAAGTACAGTA-CC-A
* * * *
55284 AATAATACACTAACTAATAGTTCAAGTACCACATTAGACATTTTCAAAATACAAGTACCACATTA
1 AATAATACACAAACTAATAGTTCAGGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTG
* * * *
55349 TACATGTTATGAATGTACATGTATCA
66 GACATCTTATGAAAGTACA-GTACCA
* * * * * **
55375 AATAATACACAAATTGATGGTTCAGGTACCGCATTAGACATTTTCAAGGTACGTGTACCACATTG
1 AATAATACACAAACTAATAGTTCAGGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTG
* *
55440 GATATCTTATGAAAGTATAGGTACCA
66 GACATCTTATGAAAGTACA-GTACCA
55466 AAT
1 AAT
55469 GTGACATTAT
Statistics
Matches: 151, Mismatches: 31, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
91 147 0.97
92 2 0.01
93 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (90 bp):
AATAATACACAAACTAATAGTTCAGGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTG
GACATCTTATGAAAGTACAGTACCA
Found at i:58678 original size:105 final size:105
Alignment explanation
Indices: 58496--58716 Score: 397
Period size: 105 Copynumber: 2.1 Consensus size: 105
58486 TTGTACCATG
* **
58496 CATGCAATCTTTCCCGGTTATCATGGTTAAATTCTGTCAATCCAGCTGACTATTACTGAGAGTCA
1 CATGCAATCTTTCCCGGGTATCATGGTTAAATTCTGTCAATCCAGCTGACTACAACTGAGAGTCA
58561 CTCAACCATTTGCCTTGGTCATAGTTCAGTTTTCTGTTTT
66 CTCAACCATTTGCCTTGGTCATAGTTCAGTTTTCTGTTTT
*
58601 CATGCAATCTTTCCCGGGTATCATGGTTAAATTCTGTCAATCCAGCTGACTACAACTGAGGGTCA
1 CATGCAATCTTTCCCGGGTATCATGGTTAAATTCTGTCAATCCAGCTGACTACAACTGAGAGTCA
*
58666 CTCAACCATTTGCCTTGGTCATAGTTCGGTTTTCTGTTTT
66 CTCAACCATTTGCCTTGGTCATAGTTCAGTTTTCTGTTTT
58706 CATGCAATCTT
1 CATGCAATCTT
58717 GGTACCATGC
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 111 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (105 bp):
CATGCAATCTTTCCCGGGTATCATGGTTAAATTCTGTCAATCCAGCTGACTACAACTGAGAGTCA
CTCAACCATTTGCCTTGGTCATAGTTCAGTTTTCTGTTTT
Found at i:61880 original size:17 final size:17
Alignment explanation
Indices: 61860--61897 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
61850 TTAAAGTTAA
61860 ATATATG-GTAATAAAAT
1 ATATATGTGTAA-AAAAT
*
61877 ATATATGTGTAAAAATT
1 ATATATGTGTAAAAAAT
61894 ATAT
1 ATAT
61898 TTGTACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
ATATATGTGTAAAAAAT
Found at i:62487 original size:17 final size:18
Alignment explanation
Indices: 62465--62500 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62455 TAAACGAGTT
62465 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
62482 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
62500 A
1 A
62501 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:62772 original size:22 final size:22
Alignment explanation
Indices: 62729--62782 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
62719 GTAAGCGTTA
62729 ATATTGAGATTAATGAAAATTT-
1 ATATTGA-ATTAATGAAAATTTG
62751 ATATTGAATTAA-GAATATATTTG
1 ATATTGAATTAATGAA-A-ATTTG
62774 A-ATTGAATT
1 ATATTGAATT
62783 TGAATGATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.10
21 6 0.21
22 19 0.66
23 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (22 bp):
ATATTGAATTAATGAAAATTTG
Found at i:64856 original size:59 final size:58
Alignment explanation
Indices: 64780--64929 Score: 158
Period size: 59 Copynumber: 2.6 Consensus size: 58
64770 TTAAGACTTG
* * *
64780 AACATTTTTTGGGTCCAAGTTAATTTTTGAATTAGACAATTGTTCCCACATTGGGCCTT
1 AACATTTTTT-AGTCCAAGTTAATCTTTGAATTAGACAATTGTTCCCACATTGGGCCTA
**** * * * *
64839 AACATTTTCCTTA-TCCAAGTTAATCCCAAAATTTGGCAATTGTTCTCACATTGGGTCTA
1 AACATTTT--TTAGTCCAAGTTAATCTTTGAATTAGACAATTGTTCCCACATTGGGCCTA
*
64898 AACATTTTTTAGTCCAAGTTAGTCTTTGAATT
1 AACATTTTTTAGTCCAAGTTAATCTTTGAATT
64930 TCATTGAAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
57 3 0.04
58 15 0.21
59 52 0.72
61 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (58 bp):
AACATTTTTTAGTCCAAGTTAATCTTTGAATTAGACAATTGTTCCCACATTGGGCCTA
Found at i:65102 original size:90 final size:90
Alignment explanation
Indices: 64977--65152 Score: 221
Period size: 90 Copynumber: 2.0 Consensus size: 90
64967 ATAACTATCA
** *
64977 AGTTCAAGCCTTAATATAAGAACAATTGTCAAGTTTAGGGACTAAATGAGACAAAAAAAAGTTCA
1 AGTTCAAGCCTTAATATAAGAACAATTACCAAGTTTAAGGACTAAATGAGACAAAAAAAAGTTCA
65042 AGCT-CCAATGTGGCAACAATTGTCT
66 AG-TACCAATGTGGCAACAATTGTCT
* * * * * * *
65067 AGTTCATA-CCTTAATATAGGAACAATTACCTAGTTTAAGGACTAATTTAGGCGAAAAAAAGTTT
1 AGTTCA-AGCCTTAATATAAGAACAATTACCAAGTTTAAGGACTAAATGAGACAAAAAAAAGTTC
*
65131 AAGTACTAATGTGGCAACAATT
65 AAGTACCAATGTGGCAACAATT
65153 ACCAAGTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 1 0.01
90 71 0.97
91 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (90 bp):
AGTTCAAGCCTTAATATAAGAACAATTACCAAGTTTAAGGACTAAATGAGACAAAAAAAAGTTCA
AGTACCAATGTGGCAACAATTGTCT
Found at i:65517 original size:102 final size:102
Alignment explanation
Indices: 65324--65522 Score: 310
Period size: 102 Copynumber: 2.0 Consensus size: 102
65314 GATACTAACT
* **
65324 AAATTAGGACTCAATCAATTTCAAATAATAATTTTATCTAATAACAAACTTAATAAAATTAAATC
1 AAATTAGGACTCAATAAATCCCAAATAATAATTTTATCTAATAACAAACTTAATAAAATTAAATC
* *
65389 TGCACAAAAATTAATAAAAAATTTAAAAAAATCAACC
66 TGCACAAAAATGAACAAAAAATTTAAAAAAATCAACC
* *
65426 AAATTAGGACTCAATAAATCCCAAATAATGATTTTCTCTAATAACAAAACTTAATAAAATTAAAT
1 AAATTAGGACTCAATAAATCCCAAATAATAATTTTATCTAATAAC-AAACTTAATAAAATTAAAT
*
65491 CTGCACAAAAATGAACAGAAAA-TTAAAAAAAT
65 CTGCACAAAAATGAACAAAAAATTTAAAAAAAT
65523 TACATCATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 50 0.57
103 38 0.43
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.28
Consensus pattern (102 bp):
AAATTAGGACTCAATAAATCCCAAATAATAATTTTATCTAATAACAAACTTAATAAAATTAAATC
TGCACAAAAATGAACAAAAAATTTAAAAAAATCAACC
Found at i:68158 original size:17 final size:17
Alignment explanation
Indices: 68133--68213 Score: 101
Period size: 17 Copynumber: 4.8 Consensus size: 17
68123 CTGGGCCCAA
*
68133 TAAACTTAAATTTATTT
1 TAAATTTAAATTTATTT
* * *
68150 TAAAATTAAGTTTATTC
1 TAAATTTAAATTTATTT
*
68167 TAAATTTAAATTTA-GT
1 TAAATTTAAATTTATTT
*
68183 TAAATTTAAATTTATTA
1 TAAATTTAAATTTATTT
68200 TAAATTTAAATTTA
1 TAAATTTAAATTTA
68214 AAATTCATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
16 14 0.26
17 40 0.74
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TAAATTTAAATTTATTT
Found at i:68176 original size:6 final size:6
Alignment explanation
Indices: 68133--68215 Score: 54
Period size: 6 Copynumber: 14.7 Consensus size: 6
68123 CTGGGCCCAA
* * * *
68133 TAAACT TAAATT T-ATTT TAAAAT TAAGTT T--ATT CTAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT
*
68179 T--AGT TAAATT TAAATT T--ATT ATAAATT TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT TAAA
68216 ATTCATTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
4 8 0.14
5 6 0.10
6 39 0.66
7 6 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:68183 original size:22 final size:22
Alignment explanation
Indices: 68138--68215 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
68128 CCCAATAAAC
*
68138 TTAAATTT-ATTTTAAAATTAAG
1 TTAAATTTAAATTT-AAATTAAG
* *
68160 TT-TATTCTAAATTTAAATTTAG
1 TTAAATT-TAAATTTAAATTAAG
68182 TTAAATTTAAATTT--ATT-A-
1 TTAAATTTAAATTTAAATTAAG
68200 -TAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAA
68216 ATTCATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
17 13 0.28
19 2 0.04
20 3 0.06
21 3 0.06
22 19 0.40
23 7 0.15
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (22 bp):
TTAAATTTAAATTTAAATTAAG
Found at i:68197 original size:33 final size:34
Alignment explanation
Indices: 68132--68213 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 34
68122 TCTGGGCCCA
* * *
68132 ATAAACTTAAATTTATTTTAAAATTAAGTTTATT
1 ATAAATTTAAATTTATGTTAAAATTAAATTTATT
* *
68166 CTAAATTTAAATTTA-GTTAAATTTAAATTTATT
1 ATAAATTTAAATTTATGTTAAAATTAAATTTATT
68199 ATAAATTTAAATTTA
1 ATAAATTTAAATTTA
68214 AAATTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 29 0.69
34 13 0.31
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (34 bp):
ATAAATTTAAATTTATGTTAAAATTAAATTTATT
Found at i:68226 original size:23 final size:23
Alignment explanation
Indices: 68182--68227 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
68172 TTAAATTTAG
*
68182 TTAAATTTAAATTTATTATAAAT
1 TTAAATTTAAATTCATTATAAAT
68205 TTAAATTTAAAATTCATT-TAAAT
1 TTAAATTT-AAATTCATTATAAAT
68228 AATGTTCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAAATTTAAATTCATTATAAAT
Found at i:68854 original size:3 final size:3
Alignment explanation
Indices: 68846--68876 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
68836 GCTCATAAGT
68846 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
68877 GTGACAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:69922 original size:29 final size:29
Alignment explanation
Indices: 69880--70232 Score: 214
Period size: 30 Copynumber: 12.0 Consensus size: 29
69870 GAAGGTCCCT
*
69880 AAACTTCCAAAAATTTTATTTTTACCCCA
1 AAACTTCCAAAAATTTCATTTTTACCCCA
* ** *
69909 AAACTCCCAAAAATCCCATTTTTAACCCTA
1 AAACTTCCAAAAATTTCATTTTT-ACCCCA
*** *
69939 AAACTTCCAAAAACCCCATTTTTATCCTCA
1 AAACTTCCAAAAATTTCATTTTTA-CCCCA
** *
69969 AAACTTCCAAAAATTTCATTAATACCCCC
1 AAACTTCCAAAAATTTCATTTTTACCCCA
* * **
69998 AAACTTCCCAAAATATCATTTTTGACCTTA
1 AAACTTCCAAAAATTTCATTTTT-ACCCCA
** * *
70028 AAACTTTTAAAAATTCCATTTTTACCCCT
1 AAACTTCCAAAAATTTCATTTTTACCCCA
* *
70057 AAACTTCCAAAAA-TTCAATTTTTAACCTCG
1 AAACTTCCAAAAATTTC-ATTTTT-ACCCCA
* *
70087 AAACTTCCAAAAATTTTATTTTTACCCCC
1 AAACTTCCAAAAATTTCATTTTTACCCCA
*
70116 AAAC-TCTTAAAAATCTT-ATTTTTAACCCC-
1 AAACTTC-CAAAAAT-TTCATTTTT-ACCCCA
* * ** * *
70145 GAACATAAAAAAATTCCATTTTTAACCTCA
1 AAACTTCCAAAAATTTCATTTTT-ACCCCA
* * * * *
70175 AAATTTCCCAAAATTACCA-TTTCACCCCCG
1 AAACTTCCAAAAATT-TCATTTTTA-CCCCA
* *
70205 AAACTTACAAAAATTACCA-TTTTACCCC
1 AAACTTCCAAAAATT-TCATTTTTACCCC
70233 CAAGTATCGA
Statistics
Matches: 252, Mismatches: 58, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
28 5 0.02
29 107 0.42
30 135 0.54
31 5 0.02
ACGTcount: A:0.39, C:0.27, G:0.01, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATTTCATTTTTACCCCA
Found at i:70128 original size:59 final size:58
Alignment explanation
Indices: 69880--70142 Score: 242
Period size: 59 Copynumber: 4.4 Consensus size: 58
69870 GAAGGTCCCT
* * * ** **
69880 AAACTTCCAAAAATTTTATTTTT-ACCCCAAAACTCCCAAAAATCCCATTTTTAACCCTA
1 AAACTTCCAAAAA-TTCATTTTTAACCTCAAAACTTCCAAAAATTTCATTTTT-ACCCCC
** * **
69939 AAACTTCCAAAAACCCCATTTTTATCCTCAAAACTTCCAAAAATTTCATTAATACCCCC
1 AAACTTCCAAAAA-TTCATTTTTAACCTCAAAACTTCCAAAAATTTCATTTTTACCCCC
* * * ** * *
69998 AAACTTCCCAAAATATCATTTTTGACCTTAAAACTTTTAAAAATTCCATTTTTACCCCT
1 AAACTTCCAAAAAT-TCATTTTTAACCTCAAAACTTCCAAAAATTTCATTTTTACCCCC
* *
70057 AAACTTCCAAAAATTCAATTTTTAACCTCGAAACTTCCAAAAATTTTATTTTTACCCCC
1 AAACTTCCAAAAATTC-ATTTTTAACCTCAAAACTTCCAAAAATTTCATTTTTACCCCC
* *
70116 AAAC-TCTTAAAAATCTTATTTTTAACC
1 AAACTTC-CAAAAAT-TCATTTTTAACC
70143 CCGAACATAA
Statistics
Matches: 163, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
58 4 0.02
59 136 0.83
60 23 0.14
ACGTcount: A:0.38, C:0.27, G:0.01, T:0.35
Consensus pattern (58 bp):
AAACTTCCAAAAATTCATTTTTAACCTCAAAACTTCCAAAAATTTCATTTTTACCCCC
Found at i:82362 original size:207 final size:207
Alignment explanation
Indices: 82006--83018 Score: 1589
Period size: 207 Copynumber: 4.9 Consensus size: 207
81996 ACAGCAATGC
* * *
82006 GGTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAGTCAAATCCACGCTCAAAGCGAGCAAAA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAAGCGAGCAAAA
* *
82071 TCTTCGAACTCCAGCTTCTTGAGGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTT
66 TCTTCGAACCCCAGCTTCCTGAGGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTT
* *
82136 ACTGTTGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGA
131 CCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGA
82201 AACAAATGACGT
196 AACAAATGACGT
82213 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAAGCGAGCAAAA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAAGCGAGCAAAA
* * * *
82278 TCTTCGAACCCCAACTTCCTGAGAAGATACTAAGAAGCAGGTTGAAGCAATAAAATTGTTAGCTT
66 TCTTCGAACCCCAGCTTCCTGAGGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTT
* * * * *
82343 CTTTATGAGATATTGAGAAGTGAACCAAATTCGTCTTCCTAATAAGATACAGAGAAGCAGATTGA
131 CCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGA
*
82408 AACAAATGGCGT
196 AACAAATGACGT
* * *
82420 GGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAAACGAACAAAA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAAGCGAGCAAAA
* *
82485 TCTTCGAACCCTAGCTTCCTGAGGAGATACTAAGAAGCATGTCGAAGCAATAAAATGGTTAGCTT
66 TCTTCGAACCCCAGCTTCCTGAGGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTT
82550 CCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGA
131 CCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGA
82615 AACAAATGACGT
196 AACAAATGACGT
* * *
82627 GGTAATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCATGCTCAAAGCGAGCAAAA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAAGCGAGCAAAA
* * * *
82692 TCTTCGAACCTCAGCTTCCTGAGGAGATACTAAGAAGCATGTCAAAGCAATAAAATGATTAGCTT
66 TCTTCGAACCCCAGCTTCCTGAGGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTT
* * *
82757 CCTAATGAGATACTGAGAAGTAAACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCAGATTGA
131 CCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGA
82822 AACAAATGACGT
196 AACAAATGACGT
* * * * *
82834 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCATGCTCGATGTGAG-AAAA
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAAGCGAGCAAAA
* * ** * *
82898 TCTTCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGATCGAAGCAAT-AAACGGTTAGCTT
66 TCTTCGAACCCCAGCTTCCTGAGGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTT
* * * *
82962 CCTGATGAGATATTAAGAAGTGAACCAAATTCGTCTTCCTAATGAGATACTGAGAAG
131 CCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
83019 AAGACCAAAT
Statistics
Matches: 740, Mismatches: 66, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
205 61 0.08
206 47 0.06
207 632 0.85
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (207 bp):
GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAAGCGAGCAAAA
TCTTCGAACCCCAGCTTCCTGAGGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTT
CCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGA
AACAAATGACGT
Found at i:83042 original size:156 final size:156
Alignment explanation
Indices: 82839--83167 Score: 550
Period size: 156 Copynumber: 2.1 Consensus size: 156
82829 GACGTGGTCA
*
82839 TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCATGCTCGATGTGAGAAAATCTTCG
1 TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATGTGAGAAAATCTTCG
* * *
82904 AACCCCAGCTTCCTGATGAGACACCGAGAAGCAGATCGAAGCAATAAACGGTTAGCTTCCTGATG
66 AACCCCAGCTTCCTAATGAGACACCGAGAAGCAGATCAAAGCAATAAACAGTTAGCTTCCTGATG
*
82969 AGATATTAAGAAGTGAACCAAATTCG
131 AGATACTAAGAAGTGAACCAAATTCG
* *
82995 TCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATGTGAGCAAATCTTCG
1 TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATGTGAGAAAATCTTCG
* *
83060 AACCCCAGCTTCCTAATGAGACACCGAGAAGCAGGTCAAAGCAATAAACAGTTAGTTTCCTGATG
66 AACCCCAGCTTCCTAATGAGACACCGAGAAGCAGATCAAAGCAATAAACAGTTAGCTTCCTGATG
* *
83125 AGATACTGAGAAGTGAGCCAAATTCG
131 AGATACTAAGAAGTGAACCAAATTCG
*
83151 TCTTCCTGATAAGATAC
1 TCTTCCTGATGAGATAC
83168 AGCGAAGCAG
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
156 160 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (156 bp):
TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATGTGAGAAAATCTTCG
AACCCCAGCTTCCTAATGAGACACCGAGAAGCAGATCAAAGCAATAAACAGTTAGCTTCCTGATG
AGATACTAAGAAGTGAACCAAATTCG
Found at i:83407 original size:205 final size:205
Alignment explanation
Indices: 82995--83431 Score: 606
Period size: 205 Copynumber: 2.1 Consensus size: 205
82985 ACCAAATTCG
* *
82995 TCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATGTGAGCAAATCTTCG
1 TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCG
* * * * *
83060 AACCCCAGCTTCCTAATGAGACACCGAGAAGCAGGTCAAAGCAATAAACAGTTAGTTTCCTGATG
66 AAACCCAGCTTCCTAATGAGACACCGAGAAACAGGTCAAAGCAATAAACAGTTAGCTTCCTAATA
* * * * * * * **
83125 AGATACTGAGAAGTGAGCCAAATTCGTCTTCCTGATAAGATACAGCGAAGCAGATTGAAACAAAT
131 AGATACGGAGAAGTAAACCAAAATCATCTTCCTGATAAGACACAGAGAAGCAGATCAAAACAAAT
83190 GACACCGTCA
196 GACACCGTCA
83200 TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCG
1 TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCG
* * *
83265 AAACCCAGCTTCCTGATGAGACACCGAGAAACAGGTCGAAGCAATAAACGGTTAGCTTCCTAATA
66 AAACCCAGCTTCCTAATGAGACACCGAGAAACAGGTCAAAGCAATAAACAGTTAGCTTCCTAATA
* * ** *
83330 AGATACGGGGAAGTAAACCAAAATCATCTTTCTGATGAA-ACACAGAGAAGTGGATCAAAACAAG
131 AGATACGGAGAAGTAAACCAAAATCATCTTCCTGAT-AAGACACAGAGAAGCAGATCAAAACAAA
* **
83394 TGATATGGTCA
195 TGACACCGTCA
*
83405 TCTTCCAGATGAGATACTGAGAAGAAG
1 TCTTCCTGATGAGATACTGAGAAGAAG
83432 GCAAAGTCAA
Statistics
Matches: 203, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
205 201 0.99
206 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (205 bp):
TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCG
AAACCCAGCTTCCTAATGAGACACCGAGAAACAGGTCAAAGCAATAAACAGTTAGCTTCCTAATA
AGATACGGAGAAGTAAACCAAAATCATCTTCCTGATAAGACACAGAGAAGCAGATCAAAACAAAT
GACACCGTCA
Found at i:83774 original size:17 final size:17
Alignment explanation
Indices: 83749--83830 Score: 101
Period size: 17 Copynumber: 4.8 Consensus size: 17
83739 CTGGGCCTAA
*
83749 TAAACTTAAATTTATTT
1 TAAATTTAAATTTATTT
* * *
83766 TAAAATTAAGTTTATTC
1 TAAATTTAAATTTATTT
*
83783 TAAATTTAAATTTAGTT
1 TAAATTTAAATTTATTT
* *
83800 GAAATTTAAATTTATTA
1 TAAATTTAAATTTATTT
83817 TAAATTTAAATTTA
1 TAAATTTAAATTTA
83831 AAATTCATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 54 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
TAAATTTAAATTTATTT
Found at i:83792 original size:6 final size:6
Alignment explanation
Indices: 83749--83832 Score: 54
Period size: 6 Copynumber: 14.7 Consensus size: 6
83739 CTGGGCCTAA
* * * *
83749 TAAACT TAAATT T-ATTT TAAAAT TAAGTT T--ATT CTAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT
* *
83795 T-AGTT GAAATT TAAATT T--ATT ATAAATT TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT TAAA
83833 ATTCATTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
4 5 0.08
5 9 0.15
6 39 0.66
7 6 0.10
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:83814 original size:34 final size:34
Alignment explanation
Indices: 83748--83830 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
83738 TCTGGGCCTA
* * * *
83748 ATAAACTTAAATTTATTTTAAAATTAAGTTTATT
1 ATAAATTTAAATTTAGTTGAAAATTAAATTTATT
* *
83782 CTAAATTTAAATTTAGTTGAAATTTAAATTTATT
1 ATAAATTTAAATTTAGTTGAAAATTAAATTTATT
83816 ATAAATTTAAATTTA
1 ATAAATTTAAATTTA
83831 AAATTCATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (34 bp):
ATAAATTTAAATTTAGTTGAAAATTAAATTTATT
Found at i:83843 original size:23 final size:23
Alignment explanation
Indices: 83801--83844 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
83791 AATTTAGTTG
*
83801 AAATTTAAATTTATTATAAATTT
1 AAATTTAAATTCATTATAAATTT
83824 AAATTTAAAATTCATT-TAAAT
1 AAATTT-AAATTCATTATAAAT
83845 AATGTCCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATTTAAATTCATTATAAATTT
Found at i:84473 original size:3 final size:3
Alignment explanation
Indices: 84465--84492 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
84455 GCTCATAAGT
84465 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
84493 GTGACAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Done.