Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015232.1 Kokia drynarioides strain JFW-HI SEQ_130277, 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: 719139
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 336 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:499055 original size:6 final size:6
Alignment explanation
Indices: 498867--499064 Score: 135
Period size: 6 Copynumber: 33.0 Consensus size: 6
498857 GTCCATAATT
* * * * *
498867 TATATA TATACA CATATA TACATA TATATA TATATG TATACA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
498915 CATAGA TATACA TATACA TATATA TACATA TACATA TACATA TACATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
498963 TATACA CATATA CATATA CATATA CATATA CATACA TATATA CATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
499011 CATATA CATATA CATATA CATACA TATACA TATACA TATGTA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
499059 TATATA
1 TATATA
499065 ATCACTTTAA
Statistics
Matches: 163, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 163 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (6 bp):
TATATA
Found at i:499241 original size:3 final size:3
Alignment explanation
Indices: 499233--499281 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
499223 AAATAAAGCG
499233 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
499281 A
1 A
499282 ATCATTGACG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:504967 original size:51 final size:51
Alignment explanation
Indices: 504711--504979 Score: 360
Period size: 51 Copynumber: 5.3 Consensus size: 51
504701 CTATAAACGA
* * * **
504711 AAAGGTCCGGTGACAAAGTGTCATCGTTAGTAAATGAATCCTTTACAAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*
504762 AAAGG-CACAATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTC-CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
504813 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGATTCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
504864 AAAGGTCCAATGACTAAGTGTCATCGTGGGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * * **
504915 AAAGGTCCGGTGACTAAGTGTCACCGTGAGTGAATGAATCCATGACAAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
504966 AAATGGTCCGATGA
1 AAA-GGTCCGATGA
504980 AAATAGATCA
Statistics
Matches: 192, Mismatches: 23, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
50 1 0.01
51 181 0.94
52 10 0.05
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:506957 original size:26 final size:26
Alignment explanation
Indices: 506920--507058 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
506910 ACTCTAGTGA
* * *
506920 CGTAAACGTATATCCATGCTGATGAG
1 CGTAAACATATATTCATGCTGACGAG
* **
506946 CGTAAACATATATTCATACTGGTGAG
1 CGTAAACATATATTCATGCTGACGAG
* * *
506972 CGTAAACGTATATTCATGTTAACGAG
1 CGTAAACATATATTCATGCTGACGAG
506998 CGTAAACATATATTCATGCT-AGCGAG
1 CGTAAACATATATTCATGCTGA-CGAG
*
507024 CGTAAACGTATATTCATGCTGACGAG
1 CGTAAACATATATTCATGCTGACGAG
507050 CGTAAACAT
1 CGTAAACAT
507059 GGAAGTTATG
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
25 1 0.01
26 95 0.98
27 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (26 bp):
CGTAAACATATATTCATGCTGACGAG
Found at i:506999 original size:52 final size:52
Alignment explanation
Indices: 506913--507058 Score: 222
Period size: 52 Copynumber: 2.8 Consensus size: 52
506903 AAAGGGAACT
* *
506913 CTAGTGA-CGTAAACGTATATCCATGCTGATGAGCGTAAACATATATTCATA
1 CTAGTGAGCGTAAACGTATATTCATGCTGACGAGCGTAAACATATATTCATA
* * * *
506964 CTGGTGAGCGTAAACGTATATTCATGTTAACGAGCGTAAACATATATTCATG
1 CTAGTGAGCGTAAACGTATATTCATGCTGACGAGCGTAAACATATATTCATA
*
507016 CTAGCGAGCGTAAACGTATATTCATGCTGACGAGCGTAAACAT
1 CTAGTGAGCGTAAACGTATATTCATGCTGACGAGCGTAAACAT
507059 GGAAGTTATG
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 6 0.07
52 78 0.93
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (52 bp):
CTAGTGAGCGTAAACGTATATTCATGCTGACGAGCGTAAACATATATTCATA
Found at i:508579 original size:37 final size:37
Alignment explanation
Indices: 508516--508731 Score: 191
Period size: 37 Copynumber: 5.8 Consensus size: 37
508506 GTTCTTGGAT
* * * **
508516 CACCAGCACAAAGCCTACGAGGCACATAGCCCA-ATTA
1 CACCGGCACGAAGCCTACTAGGCACATAG-CCAGAAAA
* *
508553 CACCGGTACGAAGCCTACTAGTCACATAGCCAGAAAA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCAGAAAA
** *
508590 CACCGGCACGAAGCCTACTAGGCATGTAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCAGAAAA
* * * * *
508627 CACCAGCACCAAGCTTACTAGGCGCATAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCAGAAAA
** * *
508664 CACCAACACAAAGCCTACTAGGCACATAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCAGAAAA
* ** * * *
508701 TATTGGCACAAAGCCTACTAAGCACTTAGCC
1 CACCGGCACGAAGCCTACTAGGCACATAGCC
508732 TGAATATTGT
Statistics
Matches: 149, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
36 3 0.02
37 146 0.98
ACGTcount: A:0.37, C:0.31, G:0.18, T:0.14
Consensus pattern (37 bp):
CACCGGCACGAAGCCTACTAGGCACATAGCCAGAAAA
Found at i:508720 original size:74 final size:74
Alignment explanation
Indices: 508516--508735 Score: 217
Period size: 74 Copynumber: 3.0 Consensus size: 74
508506 GTTCTTGGAT
* * * * * * * *
508516 CACCAGCACAAAGCCTACGAGGCACATAGCC-CAATTACACCGGTACGAAGCCTACTAGTCACAT
1 CACCAACACAAAGCCTACTAGGCACATAGCCTGAA-AACACCAGCACAAAGCCTACTAGGCACAT
*
508580 AGCCAGAAAA
65 AGCCTGAAAA
** * ** * * *
508590 CACCGGCACGAAGCCTACTAGGCATGTAGCCTGAAAACACCAGCACCAAGCTTACTAGGCGCATA
1 CACCAACACAAAGCCTACTAGGCACATAGCCTGAAAACACCAGCACAAAGCCTACTAGGCACATA
508655 GCCTGAAAA
66 GCCTGAAAA
* *** * *
508664 CACCAACACAAAGCCTACTAGGCACATAGCCTGAAAATATTGGCACAAAGCCTACTAAGCACTTA
1 CACCAACACAAAGCCTACTAGGCACATAGCCTGAAAACACCAGCACAAAGCCTACTAGGCACATA
508729 GCCTGAA
66 GCCTGAA
508736 TATTGTGTAA
Statistics
Matches: 117, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
74 115 0.98
75 2 0.02
ACGTcount: A:0.37, C:0.31, G:0.18, T:0.14
Consensus pattern (74 bp):
CACCAACACAAAGCCTACTAGGCACATAGCCTGAAAACACCAGCACAAAGCCTACTAGGCACATA
GCCTGAAAA
Found at i:508933 original size:6 final size:6
Alignment explanation
Indices: 508924--508996 Score: 80
Period size: 6 Copynumber: 12.7 Consensus size: 6
508914 TTAATTTTAT
* * * *
508924 TTTAAA TTTAGA TTT-AT TTTAAA TTTGAA TTTAAA -TTAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
508970 TTTAAA TTT-AA TCTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA
508997 TTTTCAAATT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 11 0.20
6 43 0.80
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:508939 original size:17 final size:17
Alignment explanation
Indices: 508913--509012 Score: 83
Period size: 17 Copynumber: 5.4 Consensus size: 17
508903 TCGAGCCCCT
*
508913 TTTAATTTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
508930 TTTAGATTTATTTTAAATTTGAA
1 TTTAAATTTATTTT--A----AA
*
508953 TTTAAATTAATTTTAAA
1 TTTAAATTTATTTTAAA
* *
508970 TTTAAATTTAATCTAAA
1 TTTAAATTTATTTTAAA
508987 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
509005 TTTTAAAT
1 -TTTAAAT
509013 GATTATTATA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
17 40 0.61
18 3 0.05
19 8 0.12
21 1 0.02
23 14 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:508954 original size:23 final size:23
Alignment explanation
Indices: 508914--508996 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
508904 CGAGCCCCTT
* *
508914 TTAATTTT-ATTTTAAATTTAGA
1 TTAATTTTAAATTTAAATTTAAA
* *
508936 TTTATTTTAAATTTGAATTTAAA
1 TTAATTTTAAATTTAAATTTAAA
508959 TTAATTTTAAATTTAAATTT-AA
1 TTAATTTTAAATTTAAATTTAAA
*
508981 TCTAAATTTAAATTTA
1 T-TAATTTTAAATTTA
508997 TTTTCAAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 10 0.19
23 42 0.81
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (23 bp):
TTAATTTTAAATTTAAATTTAAA
Found at i:509745 original size:3 final size:3
Alignment explanation
Indices: 509739--509801 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
509729 ATAACTATTT
* * ** *
509739 TAA TAA TAA TAA TAA TGA TAA TAA CTAT TCG TAA TTAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA TAA
509786 TAA TAA TTAA TAA TAA
1 TAA TAA -TAA TAA TAA
509802 GAAAAAAACC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 40 0.83
4 8 0.17
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:509786 original size:19 final size:20
Alignment explanation
Indices: 509739--509801 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 20
509729 ATAACTATTT
* *
509739 TAATAA-TAATAATAA-TGA
1 TAATAACTATTAATAATTAA
**
509757 TAATAACTATTCGTAATTAA
1 TAATAACTATTAATAATTAA
509777 TAATAA-TATTAATAATTAA
1 TAATAACTATTAATAATTAA
509796 TAATAA
1 TAATAA
509802 GAAAAAAACC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 6 0.16
19 23 0.62
20 8 0.22
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
TAATAACTATTAATAATTAA
Found at i:510907 original size:30 final size:29
Alignment explanation
Indices: 510843--511219 Score: 326
Period size: 29 Copynumber: 12.7 Consensus size: 29
510833 AAGGTCTCTA
* *
510843 AACTATCCGAAAATTACATTTTTACCCAT-G
1 AACT-TCCAAAAATTCCATTTTTACCC-TCG
*
510873 AACTTCCAAAAATTCCATTTTTAACCCTTG
1 AACTTCCAAAAATTCCATTTTT-ACCCTCG
* * *
510903 AACTTCCAAAACTTACATTTTTACCCTCA
1 AACTTCCAAAAATTCCATTTTTACCCTCG
510932 AACTTCCAAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
*
510961 AAACTTCCAAAAATTCCATTTTTACCCTCA
1 -AACTTCCAAAAATTCCATTTTTACCCTCG
* * *
510991 AACTTCAAAAAAATCCATTTTTGACCCCCG
1 AACTTCCAAAAATTCCATTTTT-ACCCTCG
*
511021 AAACTTCCAAAAATTCCATTTTTACTCTCG
1 -AACTTCCAAAAATTCCATTTTTACCCTCG
* *
511051 AACCTCCAAAAATTCCATTTTGA-CCTCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
*
511079 AAACTTTCAAAAATTACCA-TTTTACCCTCG
1 -AACTTCCAAAAATT-CCATTTTTACCCTCG
* * *
511109 GA-TGTCCAAAAACTCCATTTTCGACCC-CG
1 AACT-TCCAAAAATTCCATTTT-TACCCTCG
*
511138 AAAC-TCTC-AAAATTACC-CTTTTACCC-CTG
1 -AACTTC-CAAAAATT-CCATTTTTACCCTC-G
*
511167 AA-TGTCTAAAAATTCCATTTTTTAACCCT-G
1 AACT-TCCAAAAATTCCA-TTTTT-ACCCTCG
*
511197 AACTTCGCTAAAATTACCATTTT
1 AACTTC-CAAAAATT-CCATTTT
511220 GCCCCGAGAA
Statistics
Matches: 285, Mismatches: 36, Indels: 51
0.77 0.10 0.14
Matches are distributed among these distances:
28 17 0.06
29 138 0.48
30 92 0.32
31 35 0.12
32 3 0.01
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:510948 original size:59 final size:59
Alignment explanation
Indices: 510842--511219 Score: 339
Period size: 59 Copynumber: 6.4 Consensus size: 59
510832 GAAGGTCTCT
* * *
510842 AAACTATCCGAAAATTACATTTTTACCCAT-GAACTTCCAAAAATTCCATTTTTAACCCTTG
1 AAACT-TCCAAAAATTACATTTTTACCC-TCAAACTTCCAAAAATTCCATTTTT-ACCCTCG
*
510903 -AACTTCCAAAACTTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTACCCTCG
1 AAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTACCCTCG
* * * *
510961 AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCAAAAAAATCCATTTTTGACCCCCG
1 AAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTT-ACCCTCG
* * * * *
511021 AAACTTCCAAAAATTCCATTTTTACTCTCGAACCTCCAAAAATTCCATTTTGA-CCTCG
1 AAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTACCCTCG
* ** * *
511079 AAACTTTCAAAAATTACCA-TTTTACCCTCGGA-TGTCCAAAAACTCCATTTTCGACCC-CG
1 AAACTTCCAAAAATTA-CATTTTTACCCTCAAACT-TCCAAAAATTCCATTTT-TACCCTCG
** * *
511138 AAAC-TCTC-AAAATTACCCTTTTACCC-CTGAA-TGTCTAAAAATTCCATTTTTTAACCCT-G
1 AAACTTC-CAAAAATTACATTTTTACCCTC-AAACT-TCCAAAAATTCCA-TTTTT-ACCCTCG
*
511197 -AACTTCGCTAAAATTACCATTTT
1 AAACTTC-CAAAAATTA-CATTTT
511220 GCCCCGAGAA
Statistics
Matches: 270, Mismatches: 31, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
57 2 0.01
58 86 0.32
59 113 0.42
60 65 0.24
61 4 0.01
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (59 bp):
AAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:514199 original size:45 final size:45
Alignment explanation
Indices: 514130--514218 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
514120 GGAGAAACTT
*
514130 ATATCATACATATCGTATAGCATAATCAATCAAATAATATTTACC
1 ATATCATACATATCGTATAACATAATCAATCAAATAATATTTACC
* *
514175 ATATCATGCATATCGTATAACATAATCAATCAAATTATATTTAC
1 ATATCATACATATCGTATAACATAATCAATCAAATAATATTTAC
514219 TATACCATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (45 bp):
ATATCATACATATCGTATAACATAATCAATCAAATAATATTTACC
Found at i:516554 original size:13 final size:13
Alignment explanation
Indices: 516536--516561 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
516526 CTTAACATGA
516536 GTTATTTGCTCAT
1 GTTATTTGCTCAT
516549 GTTATTTGCTCAT
1 GTTATTTGCTCAT
516562 TTGACTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
GTTATTTGCTCAT
Found at i:517947 original size:19 final size:19
Alignment explanation
Indices: 517909--517965 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
517899 TTTTTAAAAA
*
517909 TTTAAAATA-AAAAAACTATT
1 TTTAAAATATTAAAAA-TA-T
517929 TTTAAAA-ATTAAAAATA-
1 TTTAAAATATTAAAAATAT
517946 TTTAAAATTATTAAAAATAT
1 TTTAAAA-TATTAAAAATAT
517966 ATATAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 7 0.22
19 13 0.41
20 12 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTAAAATATTAAAAATAT
Found at i:517973 original size:19 final size:19
Alignment explanation
Indices: 517936--517973 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
517926 ATTTTTAAAA
*
517936 ATTAAAAATATTTAAAATT
1 ATTAAAAATATATAAAATT
*
517955 ATTAAAAATATATATAATT
1 ATTAAAAATATATAAAATT
517974 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAAAAATATATAAAATT
Found at i:529967 original size:21 final size:21
Alignment explanation
Indices: 529941--529991 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
529931 GACTTCTACC
* *
529941 GATACATGTGACAATTTTACT
1 GATACAAGTGACAATTTTACA
**
529962 GATACAAGTGACTCTTTTACA
1 GATACAAGTGACAATTTTACA
529983 GATACAAGT
1 GATACAAGT
529992 CTTACTTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
GATACAAGTGACAATTTTACA
Found at i:530954 original size:18 final size:18
Alignment explanation
Indices: 530931--530965 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
530921 CAAACATATT
530931 CAACA-TTGATAAGATTCA
1 CAACATTTGAT-AGATTCA
530949 CAACATTTGATAGATTC
1 CAACATTTGATAGATTC
530966 GCAAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (18 bp):
CAACATTTGATAGATTCA
Found at i:534160 original size:21 final size:19
Alignment explanation
Indices: 534093--534169 Score: 55
Period size: 21 Copynumber: 3.7 Consensus size: 19
534083 AATAGTATAC
* *
534093 ACTTCTACCAATACATGTGG
1 ACTTCTACCGATACAAGT-G
* *
534113 CAGTTCTACCCATACAAGTG
1 -ACTTCTACCGATACAAGTG
534133 ACTCTTCTACCGATACAAGTCG
1 A--CTTCTACCGATACAAGT-G
*
534155 TACTTCTATCGATAC
1 -ACTTCTACCGATAC
534170 TAAAAAACTC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 42 0.91
22 1 0.02
23 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (19 bp):
ACTTCTACCGATACAAGTG
Found at i:541955 original size:51 final size:51
Alignment explanation
Indices: 541878--542015 Score: 188
Period size: 52 Copynumber: 2.7 Consensus size: 51
541868 AGCTATAAAA
*
541878 GAAAGGGTCTGATAACTAAGTGTCATCGTGAGTAACAAATCCTTTACGGATT
1 GAAA-GGTCTGATAACTAAGTGTCATCGTGAGTAACAAATCCTTTACGAATT
* *
541930 -AAAGGTTCTGATGACTAAGTGTCATCGTGAGTAAACGAATCCTTTACGAATT
1 GAAAGG-TCTGATAACTAAGTGTCATCGTGAGT-AACAAATCCTTTACGAATT
* * *
541982 GAAAAGACCGATAACTAAGTGTCATCGTGAGTAA
1 GAAAGGTCTGATAACTAAGTGTCATCGTGAGTAA
542016 ATGAATCCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.03
51 30 0.39
52 40 0.53
53 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
GAAAGGTCTGATAACTAAGTGTCATCGTGAGTAACAAATCCTTTACGAATT
Found at i:542165 original size:61 final size:61
Alignment explanation
Indices: 542070--542239 Score: 245
Period size: 61 Copynumber: 2.8 Consensus size: 61
542060 TGAGAATATT
* *
542070 AATTCCTATACGAAACAAGAGG-CTTGATGACTATATGTCATCGTGAGTATTAAATGAAATG
1 AATTCCTATACGGAACAAGAGGTC-CGATGACTATATGTCATCGTGAGTATTAAATGAAATG
542131 AATTCCTATACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGTATTAAATGAAATG
1 AATTCCTATACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGTATTAAATGAAATG
** * * * *
542192 AGGTCCAATGCGGAACAAG-GGTCCGATGACTTTGTGTCATCGTGAGTA
1 AATTCCTATACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGTA
542240 ACAAATGCAA
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
60 27 0.27
61 72 0.72
62 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (61 bp):
AATTCCTATACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGTATTAAATGAAATG
Found at i:549179 original size:52 final size:52
Alignment explanation
Indices: 549118--549358 Score: 283
Period size: 52 Copynumber: 4.6 Consensus size: 52
549108 GTTATAAATG
*
549118 AAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTTTACGGATT
1 AAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTATACGGATT
* *
549170 AAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACTAATCCTTTACGGATT
1 AAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTATACGGATT
* * * * * * *
549222 AAAGGGTCCGATGAATAAGTGTCATCGTGGGTAAATGAATCCAAGATGGATT
1 AAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTATACGGATT
* *
549274 AAAA-GTCCGATGACTTAA-TGTCATCGTGAG-AATATGAATTCCTATACGGAAT
1 AAAAGGTCCGATGAC-TAAGTGTCATCGTGAGTAA-ACGAA-TCCTATACGGATT
* * *
549326 AAGAGGTCTGATGACCATA-TGTCATCGTGAGTA
1 AAAAGGTCCGATGACTA-AGTGTCATCGTGAGTA
549359 TTAAATGAAA
Statistics
Matches: 163, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
50 2 0.01
51 25 0.15
52 113 0.69
53 22 0.13
54 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
AAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTATACGGATT
Found at i:549407 original size:61 final size:61
Alignment explanation
Indices: 549307--549479 Score: 226
Period size: 61 Copynumber: 2.9 Consensus size: 61
549297 TCGTGAGAAT
* *
549307 ATGAATTCCTATACGGAATAAGAGG-TCTGATGACCATATGTCATCGTGAGTATTAAATGAA
1 ATGAATTCCTATACGGAACAAGAGGTTC-GATGACTATATGTCATCGTGAGTATTAAATGAA
* * *
549368 ATGAATTCTTATACGAAACAAGAGGTTCGATGACTATATGTCATCATGAGTATTAAATGAA
1 ATGAATTCCTATACGGAACAAGAGGTTCGATGACTATATGTCATCGTGAGTATTAAATGAA
* * * *
549429 AT-AAGTTCCAATGCGGAACAAG-GGTCCGATGACTTTATGTCATCGTGAGTA
1 ATGAA-TTCCTATACGGAACAAGAGGTTCGATGACTATATGTCATCGTGAGTA
549480 ACAAATGCAA
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
60 28 0.29
61 68 0.69
62 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (61 bp):
ATGAATTCCTATACGGAACAAGAGGTTCGATGACTATATGTCATCGTGAGTATTAAATGAA
Found at i:550164 original size:21 final size:21
Alignment explanation
Indices: 550138--550195 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
550128 TAGTTGCATG
550138 ACTTGTATCGATAGAAACTAT
1 ACTTGTATCGATAGAAACTAT
* *
550159 ACTTGTATCGCTAGAAATTAT
1 ACTTGTATCGATAGAAACTAT
*
550180 ACTTGTATCGGTAGAA
1 ACTTGTATCGATAGAA
550196 TTAGTAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (21 bp):
ACTTGTATCGATAGAAACTAT
Found at i:567668 original size:52 final size:52
Alignment explanation
Indices: 567581--567706 Score: 164
Period size: 52 Copynumber: 2.4 Consensus size: 52
567571 CGAACTTGTG
* * * *
567581 TCTTCTAATATTCTATATTTATCTGACTTTCGC-AAAAGGATTAAAAATTACA
1 TCTT-TAATATTCTATATTTATATCACTTTAGCAAAAAGGACTAAAAATTACA
**
567633 TCTTGTAATATTCTATATTTATATCACTTTAGCAAAAAGGACTAAACCTTACA
1 TCTT-TAATATTCTATATTTATATCACTTTAGCAAAAAGGACTAAAAATTACA
*
567686 TCTTCAATATTCTATATTTAT
1 TCTTTAATATTCTATATTTAT
567707 CTCCAACTGC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
52 45 0.69
53 20 0.31
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (52 bp):
TCTTTAATATTCTATATTTATATCACTTTAGCAAAAAGGACTAAAAATTACA
Found at i:569390 original size:6 final size:6
Alignment explanation
Indices: 569381--569484 Score: 54
Period size: 6 Copynumber: 16.8 Consensus size: 6
569371 TTTAAATTGG
** **
569381 TTTAAA TTTATT TTTTAAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTATCCC
1 TTTAAA TTTAAA T-TTAA-A TTTAAA TTTAAA T-TTAAA TTTAAA TTTA--AA
* **
569432 TTTAAA TTTAAA TTT-AA -TCAAA TTTAAA TTTATCTT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA
569480 TTTAA
1 TTTAA
569485 TCAAATTTGA
Statistics
Matches: 73, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
4 3 0.04
5 6 0.08
6 46 0.63
7 9 0.12
8 9 0.12
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:569406 original size:20 final size:18
Alignment explanation
Indices: 569381--569483 Score: 95
Period size: 20 Copynumber: 5.6 Consensus size: 18
569371 TTTAAATTGG
569381 TTTAAATTTATTTTTTAAAA
1 TTTAAATTTA-TTTTT-AAA
*
569401 TTTAAATTTA-TCTTAAA
1 TTTAAATTTATTTTTAAA
*
569418 TTTAAATTTATCCCTTTAAA
1 TTTAAATTTAT--TTTTAAA
* *
569438 TTTAAATTTA--ATCAAA
1 TTTAAATTTATTTTTAAA
569454 TTTAAATTTATCTTTTTAAA
1 TTTAAATTTA--TTTTTAAA
569474 TTTAAATTTA
1 TTTAAATTTA
569484 ATCAAATTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
16 14 0.20
17 13 0.19
18 3 0.04
20 39 0.57
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAAATTTATTTTTAAA
Found at i:569456 original size:16 final size:16
Alignment explanation
Indices: 569435--569492 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 16
569425 TTATCCCTTT
569435 AAATTTAAATTTAATC
1 AAATTTAAATTTAATC
569451 AAATTTAAATTT-ATC
1 AAATTTAAATTTAATC
569466 TTTTTAAATTTAAATTTAATC
1 -----AAATTTAAATTTAATC
569487 AAATTT
1 AAATTT
569493 GAATGGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
15 3 0.08
16 18 0.50
20 12 0.33
21 3 0.08
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTTAAATTTAATC
Found at i:569462 original size:36 final size:36
Alignment explanation
Indices: 569381--569492 Score: 165
Period size: 36 Copynumber: 3.1 Consensus size: 36
569371 TTTAAATTGG
569381 TTTAAATTTAT-TTTTTAAAATTTAAATTT-ATCTTAAA
1 TTTAAATTTATCTTTTT-AAATTTAAATTTAATC--AAA
**
569418 TTTAAATTTATCCCTTTAAATTTAAATTTAATCAAA
1 TTTAAATTTATCTTTTTAAATTTAAATTTAATCAAA
569454 TTTAAATTTATCTTTTTAAATTTAAATTTAATCAAA
1 TTTAAATTTATCTTTTTAAATTTAAATTTAATCAAA
569490 TTT
1 TTT
569493 GAATGGATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
36 40 0.58
37 23 0.33
38 6 0.09
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (36 bp):
TTTAAATTTATCTTTTTAAATTTAAATTTAATCAAA
Found at i:571329 original size:22 final size:21
Alignment explanation
Indices: 571288--571338 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
571278 CCTAGACAAA
*
571288 TAGAGGAAAAATACAGGCGAT
1 TAGAGGAAAAATACACGCGAT
571309 TAGAGGAGAAAAT-CGACGCGAT
1 TAGAGGA-AAAATAC-ACGCGAT
571331 GTAG-GGAA
1 -TAGAGGAA
571339 TTGAAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 9 0.35
22 14 0.54
23 3 0.12
ACGTcount: A:0.43, C:0.10, G:0.33, T:0.14
Consensus pattern (21 bp):
TAGAGGAAAAATACACGCGAT
Found at i:579219 original size:119 final size:119
Alignment explanation
Indices: 579008--579284 Score: 428
Period size: 119 Copynumber: 2.3 Consensus size: 119
578998 CAAACGACAC
* * *
579008 GGTCATCTTCCTGATGAGATACTGGGAAGAAGACCAAATCAAACGCACGCTCAATGTGAGCTAAT
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAAT
* * *
579073 CTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCATGTCGAATCAATAAAA
66 CTTCCAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* *
579127 GGTCATATTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAAT
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAAT
* *
579192 CTTCCAACCCCAGCTTCCTGATGAGACATTGAGAAGTAGGTCGAAGCAATAAAA
66 CTTCCAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* * **
579246 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAAT
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAAT
579285 TCGTCTTCCT
Statistics
Matches: 143, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 143 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (119 bp):
GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAAT
CTTCCAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
Found at i:579407 original size:324 final size:324
Alignment explanation
Indices: 578803--579480 Score: 1022
Period size: 324 Copynumber: 2.1 Consensus size: 324
578793 CAAATGACGC
* * *
578803 GGTCATCTTCCTGATGAGATACTTAGAAAAAGACCAAATCAAACCCATGCTCGATGTGAGCAAAT
1 GGTCAT-TTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAAT
* *
578868 CTTCGAACCCTAACTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCC
65 CTTCCAACCCCAACTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCC
* * *
578933 AGATAAGATGCTGAGAAGTGGATCAAATTCGTCTTCCTGATGAGATACAGAAAAGTGAATTTAAA
130 AGATAAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAAAAGTGAATTGAAA
* * *
578998 CAAACGACACGGTCATCTTCCTGATGAGATACTGGGAAGAAGACCAAATCAAACGCACGCTCAAT
195 CAAACGACACGGTCATCTTCCTGATAAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAAT
* *
579063 GTGAGCTAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCATGTCGAA-TCAATAAAA
260 GTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGT-AATAAAA
579127 -
324 T
579127 GGTCATATTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAAT
1 GGTCAT-TTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAAT
* * *
579192 CTTCCAACCCCAGCTTCCTGATGAGACATTGAGAAGTAGGTCGAAGCAATAAAAGGTTAGCTTCC
65 CTTCCAACCCCAACTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCC
* * * *
579257 TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGTGAATTGAAA
130 AGATAAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAAAAGTGAATTGAAA
** *
579322 CAAACGATGCGGTCATCTT-CTAGATAAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
195 CAAACGACACGGTCATCTTCCT-GATAAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
* *
579386 TGTGAGCAAATCCTT-GAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGTAATAAA
259 TGTGAGCAAAT-CTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGTAATAAA
579450 AT
323 AT
* * *
579452 GATTAGTTTCCTAATGAGATACTGAGAAG
1 GGTCA-TTTCCTGATGAGATACTGAGAAG
579481 TGAACCAAAT
Statistics
Matches: 320, Mismatches: 29, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
323 2 0.01
324 289 0.90
325 28 0.09
326 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (324 bp):
GGTCATTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATC
TTCCAACCCCAACTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCA
GATAAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAAAAGTGAATTGAAAC
AAACGACACGGTCATCTTCCTGATAAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAATG
TGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGTAATAAAAT
Found at i:579760 original size:206 final size:206
Alignment explanation
Indices: 579127--579711 Score: 872
Period size: 206 Copynumber: 2.8 Consensus size: 206
579117 ATCAATAAAA
*
579127 GGTCATATTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAAT
1 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAAT
* * * *
579192 CTTCCAACCCCAGCTTCCTGATGAGACATTGAGAAGTAGGTCGAAGCAATAAAA-GGTTAGCTTC
66 CTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTTC
* * *
579256 CTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGTGAATTGAA
131 CTAATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAGATATAGAGAAGTGAATTGAA
*
579321 ACAAACGATGC
196 ACAAACGATGT
*
579332 GGTCATCTT-CTAGATAAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAA
1 GGTCATCTTCCT-GATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAA
* * * *
579396 TCCTT-GAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGTAATAAAATGATTAGTT
65 T-CTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCT
* *
579460 TCCTAATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGTTGAGATATAGAGAAGCGAATTG
129 TCCTAATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAGATATAGAGAAGTGAATTG
*
579525 AAACAAACGACGT
194 AAACAAACGATGT
* *
579538 GGTCATCTTCCTGATGAGACACAGA-AGAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAA
1 GGTCATCTTCCTGATGAGATACTGAGA-AGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAA
* *
579602 TATTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAAGTCGAAGTAATAAAATGGTTAGCTT
65 TCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTT
* * * ** *
579667 CCTAATGAAATACAGGGAAGTGAACCAAAACCATCTTCATGATGA
130 CCTAATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGA
579712 ATCACGAAGA
Statistics
Matches: 341, Mismatches: 33, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
204 2 0.01
205 107 0.31
206 230 0.67
207 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (206 bp):
GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAAT
CTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTTC
CTAATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAGATATAGAGAAGTGAATTGAA
ACAAACGATGT
Found at i:580148 original size:20 final size:21
Alignment explanation
Indices: 580107--580157 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
580097 TTTAAATTGG
*
580107 TTTAAATTTATTTTTTTAAAA
1 TTTAAATTTATCTTTTTAAAA
580128 TTTAAATTTATCTTTTT-AAA
1 TTTAAATTTATCTTTTTAAAA
580148 TTTAAATTTA
1 TTTAAATTTA
580158 ATCAAATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAAATTTATCTTTTTAAAA
Found at i:582217 original size:58 final size:59
Alignment explanation
Indices: 582042--582386 Score: 278
Period size: 58 Copynumber: 5.9 Consensus size: 59
582032 AAACTGTCTG
* * * * **
582042 AAAATTACATTTTTACCC-CTAAACTTCTAAAAATTCCATTTTTGACCCCGAGGCTTCCA
1 AAAATTCCATTTTTACCCTC-GAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * * *
582101 AAAATTCCATTTTTGACCC-CTAAATTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCA
1 AAAATTCCATTTTT-ACCCTC-GAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * *
582161 AAAATTCCATTTATACCCTCGAACTTCCAAAAA-TCCATTTTTGATCTCAAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * * * * *
582219 AAAATTACATTTTTACCCTCGAACCTCCAAAATTTCCATTTTTAACCCCGAAACTTTCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * * * ***
582278 AAAATTACCA-TTTTGCCC-CGAA-TGTCAAAAAACTCCATTTTCGACCTTGAAAC-TCTC-
1 AAAATT-CCATTTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGACCCCAAAACTTC-CA
* * * *
582335 AAAATTACC-CTTTTACCCTCTAA-TGTCTAAAAATTCCATTTTTAACCCCAAA
1 AAAATT-CCATTTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGACCCCAAA
582387 CTTTCCCAAA
Statistics
Matches: 234, Mismatches: 44, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
57 17 0.07
58 102 0.44
59 61 0.26
60 54 0.23
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (59 bp):
AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
Found at i:582297 original size:29 final size:29
Alignment explanation
Indices: 582042--582299 Score: 254
Period size: 30 Copynumber: 8.8 Consensus size: 29
582032 AAACTGTCTG
* * *
582042 AAAATTACATTTTTACCCCTAAACTTCTA
1 AAAATTCCATTTTTACCCCGAAACTTCCA
**
582071 AAAATTCCATTTTTGACCCCGAGGCTTCCA
1 AAAATTCCATTTTT-ACCCCGAAACTTCCA
* *
582101 AAAATTCCATTTTTGACCCCTAAATTTCCA
1 AAAATTCCATTTTT-ACCCCGAAACTTCCA
**
582131 AAAATTCCATTTTTAACCCTAAAACTTCCA
1 AAAATTCCATTTTT-ACCCCGAAACTTCCA
*
582161 AAAATTCCATTTATACCCTCG-AACTTCCA
1 AAAATTCCATTTTTACCC-CGAAACTTCCA
* * *
582190 AAAA-TCCATTTTTGATCTCAAAACTTCCA
1 AAAATTCCATTTTT-ACCCCGAAACTTCCA
* *
582219 AAAATTACATTTTTACCCTCG-AACCTCCA
1 AAAATTCCATTTTTACCC-CGAAACTTCCA
* *
582248 AAATTTCCATTTTTAACCCCGAAACTTTCA
1 AAAATTCCATTTTT-ACCCCGAAACTTCCA
*
582278 AAAATTACCA-TTTTGCCCCGAA
1 AAAATT-CCATTTTTACCCCGAA
582300 TGTCAAAAAA
Statistics
Matches: 189, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
28 9 0.05
29 73 0.39
30 104 0.55
31 3 0.02
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCCGAAACTTCCA
Found at i:582383 original size:116 final size:115
Alignment explanation
Indices: 582127--582412 Score: 319
Period size: 116 Copynumber: 2.5 Consensus size: 115
582117 CCCCTAAATT
* * * *
582127 TCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATT-CCATTTATACCCTCGAACTTCCAA
1 TCCAAAAATTCCATTTTTAACCC-CAAACTTTCAAAAATTACCATTT-TGCCC-CGAACTTCAAA
* * *
582191 AAATCCATTTTTGATCTCAAAACTTCCAAAAATTACATTTTTACCCTCGAACC
63 AAATCCATTTTCGACCTCAAAACTTCCAAAAATTACACTTTTACCCTCGAACC
*
582244 TCCAAAATTTCCATTTTTAACCCCGAAACTTTCAAAAATTACCATTTTGCCCCGAA-TGTCAAAA
1 TCCAAAAATTCCATTTTTAACCCC-AAACTTTCAAAAATTACCATTTTGCCCCGAACT-TCAAAA
** * * **
582308 AACTCCATTTTCGACCTTGAAAC-TCTC-AAAATTACCCTTTTACCCTCTAATG
64 AA-TCCATTTTCGACCTCAAAACTTC-CAAAAATTACACTTTTACCCTCGAACC
* * *
582360 TCTAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAGTTACCATTTTGCCCC
1 TCCAAAAATTCCATTTTTAACCCCAAACTTT-CAAAAATTACCATTTTGCCCC
582413 CGAGAATCCA
Statistics
Matches: 145, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
115 8 0.06
116 74 0.51
117 57 0.39
118 6 0.04
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (115 bp):
TCCAAAAATTCCATTTTTAACCCCAAACTTTCAAAAATTACCATTTTGCCCCGAACTTCAAAAAA
TCCATTTTCGACCTCAAAACTTCCAAAAATTACACTTTTACCCTCGAACC
Found at i:585341 original size:23 final size:24
Alignment explanation
Indices: 585315--585381 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
585305 TCCTATTCCA
* *
585315 TCTCACCT-CGTTATTTCTCTTGC
1 TCTCACCTCCCTTATTTCTCTTAC
585338 TCTCACCTCCCTTATTTCTCTTAC
1 TCTCACCTCCCTTATTTCTCTTAC
**
585362 TCTCACCTTTCTTATTTCTC
1 TCTCACCTCCCTTATTTCTC
585382 CATTTTGGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 8 0.21
24 31 0.79
ACGTcount: A:0.10, C:0.37, G:0.03, T:0.49
Consensus pattern (24 bp):
TCTCACCTCCCTTATTTCTCTTAC
Found at i:591271 original size:21 final size:22
Alignment explanation
Indices: 591247--591290 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
591237 TTTCAAGGAA
591247 GTGT-ATGATATAGACCTATGT
1 GTGTCATGATATAGACCTATGT
* *
591268 GTGTGCCTGATATAGACTTATGT
1 GTGT-CATGATATAGACCTATGT
591291 AGGAAGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
23 15 0.79
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (22 bp):
GTGTCATGATATAGACCTATGT
Found at i:593380 original size:30 final size:30
Alignment explanation
Indices: 593346--593477 Score: 113
Period size: 30 Copynumber: 4.4 Consensus size: 30
593336 GTCAAATTTG
* *
593346 AATTTTTGAAAACCTCAAGGGTCAGATCAA
1 AATTTTTGAAAAACTCAAGGGTCAAATCAA
* * *
593376 AATTTTTAAAAAATTCAAGGGTCAAATCCA
1 AATTTTTGAAAAACTCAAGGGTCAAATCAA
* * * *
593406 AATTTTCGAAAAATTCGAGGGTCAAATAAA
1 AATTTTTGAAAAACTCAAGGGTCAAATCAA
* * * **
593436 AAATTTTGGAAAATTTTAGGGTCAAATTC-A
1 AATTTTTGAAAAACTCAAGGGTCAAA-TCAA
*
593466 AATTTTAGAAAA
1 AATTTTTGAAAA
593478 TTTTAATGCT
Statistics
Matches: 82, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
30 81 0.99
31 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (30 bp):
AATTTTTGAAAAACTCAAGGGTCAAATCAA
Found at i:593410 original size:60 final size:60
Alignment explanation
Indices: 593346--593477 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
593336 GTCAAATTTG
* * * * *
593346 AATTTTTGAAAACCTCAAGGGTCAGATCAAAATTTTTAAAAAATTCAAGGGTCAAATCCA
1 AATTTTAGAAAAACTCAAGGGTCAAATAAAAAATTTTAAAAAATTCAAGGGTCAAATCCA
* * * ** ** *
593406 AATTTTCGAAAAATTCGAGGGTCAAATAAAAAATTTTGGAAAATTTTAGGGTCAAATTCA
1 AATTTTAGAAAAACTCAAGGGTCAAATAAAAAATTTTAAAAAATTCAAGGGTCAAATCCA
593466 AATTTTAGAAAA
1 AATTTTAGAAAA
593478 TTTTAATGCT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (60 bp):
AATTTTAGAAAAACTCAAGGGTCAAATAAAAAATTTTAAAAAATTCAAGGGTCAAATCCA
Found at i:593529 original size:30 final size:29
Alignment explanation
Indices: 593495--593576 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 29
593485 GCTCAAAATG
*
593495 GAATTTTTGAAGAGTTTAGGGGTTAATTTT
1 GAATTTTTGAAGA-TTTAGGGGTTAAATTT
*
593525 GAATTTTTTGGAAAATTTA-GGGTTAAATTT
1 GAA-TTTTT-GAAGATTTAGGGGTTAAATTT
* *
593555 AAATTTTTAAAGATTTAGGGGT
1 GAATTTTTGAAGATTTAGGGGT
593577 CAAAACATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 7 0.16
29 9 0.20
30 15 0.34
31 9 0.20
32 4 0.09
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (29 bp):
GAATTTTTGAAGATTTAGGGGTTAAATTT
Found at i:594325 original size:30 final size:30
Alignment explanation
Indices: 594291--594356 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
594281 ATCAAATTTG
*
594291 AATTTTTGAAAA-CCTCAAGGGTCAAATCAA
1 AATTTTT-AAAATACTCAAGGGTCAAATCAA
*
594321 AATTTTTAAAATATTCAAGGGTCAAATCAA
1 AATTTTTAAAATACTCAAGGGTCAAATCAA
594351 AATTTT
1 AATTTT
594357 CAAATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (30 bp):
AATTTTTAAAATACTCAAGGGTCAAATCAA
Found at i:594374 original size:30 final size:30
Alignment explanation
Indices: 594305--594386 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
594295 TTTGAAAACC
*
594305 TCAAGGGTCAAATCAAAATTTTTAAAATAT
1 TCAAGGGTCAAATCAAAATTTTCAAAATAT
594335 TCAAGGGTCAAATCAAAATTTTC-AAATAAT
1 TCAAGGGTCAAATCAAAATTTTCAAAAT-AT
** * *
594365 TTGATGGTCAAATCAGAATTTT
1 TCAAGGGTCAAATCAAAATTTT
594387 TGTAAAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 4 0.09
30 42 0.91
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (30 bp):
TCAAGGGTCAAATCAAAATTTTCAAAATAT
Found at i:594396 original size:30 final size:29
Alignment explanation
Indices: 594310--594436 Score: 87
Period size: 30 Copynumber: 4.2 Consensus size: 29
594300 AAACCTCAAG
* *
594310 GGTCAAATCAAAATTTT-TAAAATATTCAAG
1 GGTCAAATCAAAATTTTGTAAAAT-TT-GAT
**
594340 GGTCAAATCAAAATTTTCAAATAATTTGAT
1 GGTCAAATCAAAATTTTGTAA-AATTTGAT
* *
594370 GGTCAAATCAGAATTTTTGTAAAATTTTA-
1 GGTCAAATCA-AAATTTTGTAAAATTTGAT
** * * *
594399 GGCTCAAATTTGAATTTTTGGAAATTTTGAT
1 GG-TCAAA-TCAAAATTTTGTAAAATTTGAT
594430 GGTCAAA
1 GGTCAAA
594437 ATGGAATTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
29 2 0.03
30 59 0.75
31 15 0.19
32 3 0.04
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (29 bp):
GGTCAAATCAAAATTTTGTAAAATTTGAT
Found at i:594444 original size:30 final size:31
Alignment explanation
Indices: 594364--594447 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 31
594354 TTTCAAATAA
594364 TTTGATGGTC-AAATCAGAATTTTTGTAAAAT
1 TTTGATGGTCAAAAT-AGAATTTTTGTAAAAT
* * *
594395 TTT-A-GGCTCAAATTTGAATTTTTG-GAAAT
1 TTTGATGG-TCAAAATAGAATTTTTGTAAAAT
*
594424 TTTGATGGTCAAAATGGAATTTTT
1 TTTGATGGTCAAAATAGAATTTTT
594448 AAAGAGTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
29 9 0.20
30 27 0.61
31 8 0.18
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (31 bp):
TTTGATGGTCAAAATAGAATTTTTGTAAAAT
Found at i:594471 original size:60 final size:60
Alignment explanation
Indices: 594407--594522 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
594397 TAGGCTCAAA
* * *
594407 TTTGAA-TTTTTGGAAATTTTGATGGTCAAAATGGAATTTTT-AAAGAGTTTAGGGGTTAAT
1 TTTGAATTTTTTGGAAAATTAGA-GGTCAAAATGAAATTTTTAAAAGA-TTTAGGGGTTAAT
* * *
594467 TTTGAATTTTTTGGAAAATTAGAGGTTAAATTTAAATTTTTAAAAGATTTAGGGGT
1 TTTGAATTTTTTGGAAAATTAGAGGTCAAAATGAAATTTTTAAAAGATTTAGGGGT
594523 CAAAACATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 29 0.60
61 19 0.40
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.44
Consensus pattern (60 bp):
TTTGAATTTTTTGGAAAATTAGAGGTCAAAATGAAATTTTTAAAAGATTTAGGGGTTAAT
Found at i:595247 original size:30 final size:30
Alignment explanation
Indices: 595213--595329 Score: 146
Period size: 30 Copynumber: 3.9 Consensus size: 30
595203 GTCAAATTTG
* *
595213 AATTTTTGAAAACA-TCAAGGGTCAGATCGA
1 AATTTTTGAAAA-ATTCAAGGGTCAAATCAA
*
595243 AATTTTTAAAAAATTCAAGGGTCAAATCAA
1 AATTTTTGAAAAATTCAAGGGTCAAATCAA
* *
595273 AATTTTCGAAAAATTCGAGGGTCAAATCAA
1 AATTTTTGAAAAATTCAAGGGTCAAATCAA
* **
595303 AATTTTTGGAAAATTTTAGGGTCAAAT
1 AATTTTTGAAAAATTCAAGGGTCAAAT
595330 TTGAATTTTG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
29 1 0.01
30 75 0.99
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (30 bp):
AATTTTTGAAAAATTCAAGGGTCAAATCAA
Found at i:595337 original size:30 final size:30
Alignment explanation
Indices: 595201--595477 Score: 140
Period size: 30 Copynumber: 9.3 Consensus size: 30
595191 CATTAAAACT
* *
595201 GGGTCAAATTTGAATTTTT-GAAAACATCAA
1 GGGTCAAATTTGAATTTTTGGAAAA-TTTAA
* * ** *
595231 GGGTCAGA-TCGAAATTTTTAAAAAATTCAA
1 GGGTCAAATTTG-AATTTTTGGAAAATTTAA
*** * * **
595261 GGGTCAAATCAAAATTTTCGAAAAATTCGA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
*** *
595291 GGGTCAAATCAAAATTTTTGGAAAATTTTA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
*
595321 GGGTCAAATTTGAA-TTTTGG-AAATTTCGA
1 GGGTCAAATTTGAATTTTTGGAAAATTT-AA
* * * *
595350 TGGTCAAAATGGAATTTTT-GAAGAGTTTAA
1 GGGTCAAATTTGAATTTTTGGAA-AATTTAA
* * *
595380 GGGTTAATTTTGAATTTTTTGGAAAATTT-G
1 GGGTCAAATTTGAA-TTTTTGGAAAATTTAA
* *
595410 GGGTCAAATTTAAATTTTT-AAAAGATTT-A
1 GGGTCAAATTTGAATTTTTGGAAA-ATTTAA
** *
595439 GGAGTCAAAACAT-AATTTTTGGAAAGTTTAA
1 GG-GTC-AAATTTGAATTTTTGGAAAATTTAA
595470 GGGTCAAA
1 GGGTCAAA
595478 GACAATTTTA
Statistics
Matches: 193, Mismatches: 40, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
28 9 0.05
29 35 0.18
30 119 0.62
31 27 0.14
32 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.35
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAATTTAA
Found at i:595337 original size:60 final size:59
Alignment explanation
Indices: 595201--595432 Score: 164
Period size: 60 Copynumber: 3.9 Consensus size: 59
595191 CATTAAAACT
* * *
595201 GGGTCAAATTTGAATTTTTGAAAACA-TCAAGGGTCAGATCGAAATTTTTAAAAAATTCAA
1 GGGTCAAATTTGAA-TTTTGAAAA-ATTCGAGGGTCAAATCAAAATTTTTAAAAAATTCAA
*** ** **
595261 GGGTCAAATCAAAATTTTCGAAAAATTCGAGGGTCAAATCAAAATTTTTGGAAAATTTTA
1 GGGTCAAATTTGAATTTT-GAAAAATTCGAGGGTCAAATCAAAATTTTTAAAAAATTCAA
* * * ** * * * *
595321 GGGTCAAATTTGAATTTTGGAAATTTCGATGGTCAAAAT-GGAATTTTTGAAGAGTTTAA
1 GGGTCAAATTTGAATTTTGAAAAATTCGAGGGTC-AAATCAAAATTTTTAAAAAATTCAA
* * * * **
595380 GGGTTAATTTTGAATTTTTTGGAAAATTTG-GGGTCAAATTTAAATTTTTAAAA
1 GGGTCAAATTTGAA--TTTTGAAAAATTCGAGGGTCAAATCAAAATTTTTAAAA
595433 GATTTAGGAG
Statistics
Matches: 135, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
59 48 0.36
60 75 0.56
61 12 0.09
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (59 bp):
GGGTCAAATTTGAATTTTGAAAAATTCGAGGGTCAAATCAAAATTTTTAAAAAATTCAA
Found at i:596479 original size:17 final size:16
Alignment explanation
Indices: 596457--596505 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
596447 TTATTTATAT
596457 AAAATAATAAATAAATA
1 AAAATAATAAATAAA-A
596474 AAAAT-A-AAATAAAA
1 AAAATAATAAATAAAA
596488 AACAA-AATAAATAAAA
1 AA-AATAATAAATAAAA
596504 AA
1 AA
596506 TTAAATTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
16 11 0.38
17 5 0.17
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAATAAATAAAA
Found at i:597054 original size:40 final size:39
Alignment explanation
Indices: 596936--597140 Score: 193
Period size: 39 Copynumber: 5.2 Consensus size: 39
596926 ATAACTTTAG
*
596936 GGGTAAAAGATTAGATTGTC-TCAATCTACCCCCT-GCTTA
1 GGGTAAAAGATTGGATTGTCTTCAATCTA-CCCCTAG-TTA
* * *
596975 GGGTATAAGATTGGATTG-CTTCAATCTATCCCATGGTTA
1 GGGTAAAAGATTGGATTGTCTTCAATCTA-CCCCTAGTTA
* * *
597014 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTAGTTA
1 GGGTAAAAGATTGGATTGTCTTCAATCTACCC-CTAGTTA
* *
597054 GGGTAAAAGATTGGATTG-CTTCAATCTACCCCATGGTCA
1 GGGTAAAAGATTGGATTGTCTTCAATCTACCCC-TAGTTA
* * * * * *
597093 AGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTAGTTT
1 GGGTAAAAGATTGGATTGTCTTCAATCTACCC-CTAGTTA
597133 GGGTAAAA
1 GGGTAAAA
597141 TATTTGGTGT
Statistics
Matches: 134, Mismatches: 25, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
38 2 0.01
39 79 0.59
40 52 0.39
41 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (39 bp):
GGGTAAAAGATTGGATTGTCTTCAATCTACCCCTAGTTA
Found at i:597055 original size:79 final size:79
Alignment explanation
Indices: 596936--597140 Score: 288
Period size: 79 Copynumber: 2.6 Consensus size: 79
596926 ATAACTTTAG
* * * * * *
596936 GGGTAAAAGATTAGATTGTC-TCAATCTACCCCCT-GCTTAGGGTATAAGATTGGATTGCTTCAA
1 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTAG-TTAGGGTAAAAGATTGGATTGCTTCAA
* *
596999 TCTATCCCATGGTTA
65 TCTACCCCATGGTCA
597014 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAAT
1 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAAT
597079 CTACCCCATGGTCA
66 CTACCCCATGGTCA
* * *
597093 AGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTAGTTTGGGTAAAA
1 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAA
597141 TATTTGGTGT
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
78 17 0.15
79 96 0.84
80 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (79 bp):
GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAAT
CTACCCCATGGTCA
Found at i:597289 original size:50 final size:50
Alignment explanation
Indices: 597180--597289 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 50
597170 AGCTTCAAGA
* *
597180 GTATAAGATTCGTCCTTGCGACTTCAATCTGCCCCTCTATAGCTTTAGGT
1 GTATAAGATTCGTCCTTGCGACTTCAATCTGCCCCTCTAAAACTTTAGGT
* *
597230 GAATGAGATTCG-CCATTGCGACTTCAATCTGCCCCTCTAAAACTTTAAGG-
1 GTATAAGATTCGTCC-TTGCGACTTCAATCTGCCCCTCTAAAACTTT-AGGT
597280 GTATAAGATT
1 GTATAAGATT
597290 TGTCGTTCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.04
50 47 0.90
51 3 0.06
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (50 bp):
GTATAAGATTCGTCCTTGCGACTTCAATCTGCCCCTCTAAAACTTTAGGT
Found at i:604332 original size:16 final size:15
Alignment explanation
Indices: 604313--604368 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
604303 TTTATTTATT
604313 TAAATAAAATAATAAA
1 TAAATAAAATAA-AAA
*
604329 TAAAT-AAATGAAAA
1 TAAATAAAATAAAAA
604343 TGAAATAAAA-AACAATA
1 T-AAATAAAATAA-AA-A
604360 TAAATAAAA
1 TAAATAAAA
604369 AATTAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.12
15 10 0.29
16 18 0.53
17 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (15 bp):
TAAATAAAATAAAAA
Found at i:604981 original size:41 final size:41
Alignment explanation
Indices: 604932--605072 Score: 160
Period size: 41 Copynumber: 3.4 Consensus size: 41
604922 TGTAAAAAAA
* *
604932 GAAGACTCATGACTCG-GAATGAGCATGGGATTATGAATAAG
1 GAAGACTCATGACTCGAG-ATGAGAATGAGATTATGAATAAG
*
604973 GAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAAG
1 GAAGACTCATGACTCGAGATGAGAATGAGATTATGAATAAG
* * * * *
605014 GAAGACTCATGTCTTGGGATGATAATGAGAATATGGTAA-AAG
1 GAAGACTCATGACTCGAGATGAGAATGAGATTAT-G-AATAAG
*
605056 GAAGACTTATGACTCGA
1 GAAGACTCATGACTCGA
605073 TAGAGCATAA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 66 0.77
42 18 0.21
43 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.24
Consensus pattern (41 bp):
GAAGACTCATGACTCGAGATGAGAATGAGATTATGAATAAG
Found at i:609851 original size:25 final size:23
Alignment explanation
Indices: 609822--609867 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
609812 GTTGGATCCA
609822 AATTAAACTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
609847 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
609868 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:611914 original size:5 final size:5
Alignment explanation
Indices: 611904--611947 Score: 61
Period size: 5 Copynumber: 8.2 Consensus size: 5
611894 AATAGTGCAT
611904 AATAA AATAA AATTAAA AATAA AATAA AATAA AATAAA AATAA A
1 AATAA AATAA AA-T-AA AATAA AATAA AATAA AAT-AA AATAA A
611948 TGTACTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 25 0.69
6 7 0.19
7 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:611926 original size:6 final size:6
Alignment explanation
Indices: 611907--611947 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
611897 AGTGCATAAT
*
611907 AAAATA AAATTA AAAAT- AAAAT- AAAAT- AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
611948 TGTACTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:611932 original size:22 final size:21
Alignment explanation
Indices: 611904--611947 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 21
611894 AATAGTGCAT
611904 AATAAAATAAAATTAAAAATAA
1 AATAAAATAAAA-TAAAAATAA
611926 AATAAAATAAAATAAAAATAA
1 AATAAAATAAAATAAAAATAA
611947 A
1 A
611948 TGTACTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (21 bp):
AATAAAATAAAATAAAAATAA
Found at i:626537 original size:23 final size:24
Alignment explanation
Indices: 626511--626575 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
626501 TTAACTTAGT
*
626511 CGAACATGTTCACAAACAT-TAAA
1 CGAACATGTTCACGAACATATAAA
* *
626534 CGAACATGTTCATGAACATATAAT
1 CGAACATGTTCACGAACATATAAA
*
626558 TGAACATGTTCACGAACA
1 CGAACATGTTCACGAACA
626576 ATGTTAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (24 bp):
CGAACATGTTCACGAACATATAAA
Found at i:627044 original size:24 final size:24
Alignment explanation
Indices: 626983--627045 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
626973 TAGAATAATA
* * *
626983 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
*
627007 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
627031 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
627046 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:629017 original size:24 final size:24
Alignment explanation
Indices: 628956--629018 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
628946 TAGAGTAATA
* * *
628956 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
*
628980 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
629004 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
629019 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:632497 original size:40 final size:40
Alignment explanation
Indices: 632451--632533 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
632441 TTTTGATAAA
* ** *
632451 AAATGCCACAAAAGGTAAAACATTAGTGGCGTTTTTCCGT
1 AAATGCCACAAAAGGTAAAACAATAACGGCGTTTTTCCAT
** *
632491 AAATGCCGTAAAAGGTAAAGCAATAACGGCGTTTTTCCAT
1 AAATGCCACAAAAGGTAAAACAATAACGGCGTTTTTCCAT
632531 AAA
1 AAA
632534 CGCCGCTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (40 bp):
AAATGCCACAAAAGGTAAAACAATAACGGCGTTTTTCCAT
Found at i:632664 original size:41 final size:41
Alignment explanation
Indices: 632619--632728 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 41
632609 GAGGAAGCGT
*
632619 CGCTAAAGATCAGAGCATTAGCGGCGCTTTAT-CATAAACGC
1 CGCTAAAGATCAGAGCATTAGCGACG-TTTATACATAAACGC
* * * * *
632660 CGCTAAAGGTCATAGTATTAGCGACGTTTATAGATAAGCGC
1 CGCTAAAGATCAGAGCATTAGCGACGTTTATACATAAACGC
* * *
632701 CGCTAAAGGTTAG-GCAATAGCGACGTTT
1 CGCTAAAGATCAGAGCATTAGCGACGTTT
632729 TCAATAGGCG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 18 0.31
41 40 0.69
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (41 bp):
CGCTAAAGATCAGAGCATTAGCGACGTTTATACATAAACGC
Found at i:637170 original size:69 final size:65
Alignment explanation
Indices: 637084--637214 Score: 172
Period size: 69 Copynumber: 2.0 Consensus size: 65
637074 AACAGGATAC
* * * *
637084 AGTTTACCCATATTATAAACCGTAATTAGAAAAAACACTCTTTTTTTCTTTTTCAAATTTTAATA
1 AGTTTACACAAATTATAAACCGTAATT--AAAAAA-ACTCTTTTTGTC-TATTCAAATTTTAATA
637149 TTTT
62 TTTT
* *
637153 AGTTTACACAAATTATAAACCGTAGTTAAAAAAATTCTTTTTGTCTATTCAAATTTTAATAT
1 AGTTTACACAAATTATAAACCGTAATTAAAAAAACTCTTTTTGTCTATTCAAATTTTAATAT
637215 ATTTTATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 16 0.29
66 10 0.18
67 6 0.11
69 24 0.43
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.44
Consensus pattern (65 bp):
AGTTTACACAAATTATAAACCGTAATTAAAAAAACTCTTTTTGTCTATTCAAATTTTAATATTTT
Found at i:648058 original size:51 final size:51
Alignment explanation
Indices: 647979--648272 Score: 394
Period size: 51 Copynumber: 5.8 Consensus size: 51
647969 TCGTGTAGGA
* * * * * * *
647979 ATTCATATACTCACGATGATACTGAGTCATCGGACCCTTAATTCATCATGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCCTTAATCCGTAAAGG
* * *
648030 ATTCATTTACTTACGATGACACTTAGTCATCGGA-CCTGTAATTCTTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCCT-TAATCCGTAAAGG
* * * *
648081 ATTCATTTACTCATGATGACACTTAGTCATTGAACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCCTTAATCCGTAAAGG
* *
648132 ATTCATTTACTCATGATGACACTTAGTCAGT-GGACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCA-TCGGACCCTTAATCCGTAAAGG
* *
648183 ATTCATTTACTCATGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCCTTAATCCGTAAAGG
648234 ATTCATTTACTCACGATGACACTTAGTCATCGGACCCTT
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCCTT
648273 TCATTTATAG
Statistics
Matches: 222, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
50 4 0.02
51 215 0.97
52 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (51 bp):
ATTCATTTACTCACGATGACACTTAGTCATCGGACCCTTAATCCGTAAAGG
Found at i:653513 original size:6 final size:6
Alignment explanation
Indices: 653488--653526 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
653478 TACAATCATA
* * *
653488 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
653527 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:657271 original size:14 final size:15
Alignment explanation
Indices: 657240--657273 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
657230 ATTTTATATG
657240 GAATTTTGAATTAGT
1 GAATTTTGAATTAGT
*
657255 GAATTTT-AATTATT
1 GAATTTTGAATTAGT
657269 GAATT
1 GAATT
657274 AAAAGTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (15 bp):
GAATTTTGAATTAGT
Found at i:658773 original size:33 final size:33
Alignment explanation
Indices: 658728--658836 Score: 130
Period size: 33 Copynumber: 3.3 Consensus size: 33
658718 TGTATGTACG
*
658728 TAAGACCATAGTTGGGCTATGGCATTTTGATGA
1 TAAGACCATAGTTGGGCTATGGCATTCTGATGA
* *
658761 TATGACCATAGTTGGGCTATGGCATTCTGATGT
1 TAAGACCATAGTTGGGCTATGGCATTCTGATGA
*** * *
658794 TAAGACCATAACCGGGTTATGGCATTCTAAATG-
1 TAAGACCATAGTTGGGCTATGGCATTCT-GATGA
658827 TAAGACCATA
1 TAAGACCATA
658837 ACCGGGTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
33 63 0.95
34 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCTATGGCATTCTGATGA
Found at i:658837 original size:33 final size:32
Alignment explanation
Indices: 658778--658868 Score: 119
Period size: 33 Copynumber: 2.8 Consensus size: 32
658768 ATAGTTGGGC
*
658778 TATGGCATTCTGATGTTAAGACCATAACCGGGT
1 TATGGCATTCTAATG-TAAGACCATAACCGGGT
658811 TATGGCATTCTAAATGTAAGACCATAACCGGGT
1 TATGGCATTCT-AATGTAAGACCATAACCGGGT
* * *
658844 TATGACATTATGAATGTGAGACCAT
1 TATGGCATTCT-AATGTAAGACCAT
658869 GGCAGGACCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
33 49 0.94
34 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (32 bp):
TATGGCATTCTAATGTAAGACCATAACCGGGT
Found at i:661233 original size:15 final size:16
Alignment explanation
Indices: 661215--661245 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
661205 AAAAATAAAT
661215 AATAAAAA-TCCTTTA
1 AATAAAAAGTCCTTTA
661230 AATAAAAAGTCCTTTA
1 AATAAAAAGTCCTTTA
661246 CAAATTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (16 bp):
AATAAAAAGTCCTTTA
Found at i:672592 original size:49 final size:49
Alignment explanation
Indices: 672539--673346 Score: 523
Period size: 49 Copynumber: 16.6 Consensus size: 49
672529 TATACCTTAA
** * *
672539 AGATGTGAAAAGAAAGATTGAAGCCGCAACGACGAA-TTTGATACCCTAG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTG-TACCCTAG
* * * * ** * *
672588 AGATGTGGAGGGAAAGGTTAAAGTCGTAACGTTGAACCTTATACCTTAG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * * * * ** * * * *
672637 AGATATGATGAGAAAGATTGAAGCCGTAACGGTGAATCTTATACCATGG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * * *
672686 AGATATGGAGGGAAAGGTTGAAGCCGTAACGGCGAACCTTGTACCCTAG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * ***
672735 AGATGTGAAGGGAAAGGTTGAAGTCACAACGGTAAACCTTGTACCCTAG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
*
672784 AGATATTG-AGGGAAAGGTTGAAGCCGCAAC-A-GCAAGCCTTGTACCCTAG
1 AGAT-GTGAAGGGAAAGGTTGAAGCCGCAACGACG-AA-CCTTGTACCCTAG
* * * ** *
672833 AGATGTGATGAGAAAGATTGAAGCCAG-AACGATAAATCTTGTACCCTAG
1 AGATGTGAAGGGAAAGGTTGAAGCC-GCAACGACGAACCTTGTACCCTAG
* * * * * *
672882 AGTATG-G-AGGGAAAGGTTGAAGTCACAATGACAAACCTTATACCTTAG
1 AG-ATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * ** * * * * * *
672930 AGATATGATGGGAAATATTGAAACTGCAACGATGAATCTTGTACCATGG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * * * *
672979 AGATATGGAA-GGAAAGGTTGAAGCTGCAATGGCGAACCTTGTACCTTAG
1 AGATGT-GAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * *
673028 AGATGTGGAGGGAAAGGTTGAAGCTGCAACGACGAACCTTGTACCTTAG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * * *** * *
673077 AGATGTGATGGGAAAGATTGAAGCCACAACGGTAAATCTTGTACCCTAA
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * * ** * *
673126 AGTATG-G-AGGGAAAGGTTGAAGTCACGACGGTGAACCTTATACCTTAG
1 AG-ATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * * * ** *
673174 AGATGTGATGGGAAAGATTGAAGTCGCAACGACAAATCC-TAAACACTAG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAA-CCTTGTACCCTAG
* * * * *
673223 AGTATG-G-AGGGAAAGATTGAAGCCACAACGACGAATCTTGAACACTAG
1 AG-ATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
* * * * ** * *
673271 AG-TATGAAGGGAAAGATTAAAGCCGCAATGGTGAATCTTGAACCCTAG
1 AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
673319 AGTATG-G-AGGGAAAGGTTGAAGCCGCAA
1 AG-ATGTGAAGGGAAAGGTTGAAGCCGCAA
673347 AGGTGAATCT
Statistics
Matches: 600, Mismatches: 135, Indels: 49
0.77 0.17 0.06
Matches are distributed among these distances:
46 1 0.00
47 7 0.01
48 165 0.28
49 405 0.68
50 22 0.04
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (49 bp):
AGATGTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCCTAG
Found at i:673205 original size:244 final size:244
Alignment explanation
Indices: 672664--673298 Score: 705
Period size: 244 Copynumber: 2.6 Consensus size: 244
672654 TTGAAGCCGT
* * * * * * *
672664 AACGGTGAATCTTATACCATGGAGATATGGA-GGGAAAGGTTGAAGCCGTAACGGCGAACCTTGT
1 AACGGTGAACCTTATACCTTAGAGATAT-GATGGGAAAGATTGAAGACGCAACGACGAACCTTGT
* * * *
672728 ACCCTAGAGATGTGAAGGGAAAGGTTGAAGTCACAACGGTAAACCTTGTACCCTAGAGATATTGA
65 ACCATAGAGATATGAAGGGAAAGGTTGAAGTCACAACGGCAAACCTTGTACCCTAGAGATATGGA
672793 GGGAAAGGTTGAAGCCGCAACAGCAAGCCTTGTACCCTAGAGATGTGATGAGAAAGATTGAAGCC
130 GGGAAAGGTTGAAGCCGCAACAGCAAGCCTTGTACCCTAGAGATGTGATGAGAAAGATTGAAGCC
* *
672858 AGAACGATAAATCTTGTACCCTAGAGTATGGAGGGAAAGGTTGAAGTCAC
195 ACAACGATAAATCTTGTACCCTAAAGTATGGAGGGAAAGGTTGAAGTCAC
* *** * * *
672908 AATGACAAACCTTATACCTTAGAGATATGATGGGAAATATTGAA-ACTGCAACGATGAATCTTGT
1 AACGGTGAACCTTATACCTTAGAGATATGATGGGAAAGATTGAAGAC-GCAACGACGAACCTTGT
* * * * * *
672972 ACCATGGAGATATGGAA-GGAAAGGTTGAAG-CTGCAATGGCGAACCTTGTACCTTAGAGATGTG
65 ACCATAGAGATAT-GAAGGGAAAGGTTGAAGTC-ACAACGGCAAACCTTGTACCCTAGAGATATG
* * *
673035 GAGGGAAAGGTTGAAGCTGCAAC-GACGAA-CCTTGTACCTTAGAGATGTGATGGGAAAGATTGA
128 GAGGGAAAGGTTGAAGCCGCAACAG-C-AAGCCTTGTACCCTAGAGATGTGATGAGAAAGATTGA
*
673098 AGCCACAACGGTAAATCTTGTACCCTAAAGTATGGAGGGAAAGGTTGAAGTCAC
191 AGCCACAACGATAAATCTTGTACCCTAAAGTATGGAGGGAAAGGTTGAAGTCAC
* * * * *
673152 GACGGTGAACCTTATACCTTAGAGATGTGATGGGAAAGATTGAAGTCGCAACGACAAATCC-T-A
1 AACGGTGAACCTTATACCTTAGAGATATGATGGGAAAGATTGAAGACGCAACGACGAA-CCTTGT
* * * * * * * * * *
673215 AACACTAGAG-TATGGAGGGAAAGATTGAAGCCACAACGACGAATCTTGAACACTAGAG-TATGA
65 ACCA-TAGAGATATGAAGGGAAAGGTTGAAGTCACAACGGCAAACCTTGTACCCTAGAGATATGG
* *
673278 AGGGAAAGATTAAAGCCGCAA
129 AGGGAAAGGTTGAAGCCGCAA
673299 TGGTGAATCT
Statistics
Matches: 322, Mismatches: 58, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
242 23 0.07
243 42 0.13
244 250 0.78
245 7 0.02
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.21
Consensus pattern (244 bp):
AACGGTGAACCTTATACCTTAGAGATATGATGGGAAAGATTGAAGACGCAACGACGAACCTTGTA
CCATAGAGATATGAAGGGAAAGGTTGAAGTCACAACGGCAAACCTTGTACCCTAGAGATATGGAG
GGAAAGGTTGAAGCCGCAACAGCAAGCCTTGTACCCTAGAGATGTGATGAGAAAGATTGAAGCCA
CAACGATAAATCTTGTACCCTAAAGTATGGAGGGAAAGGTTGAAGTCAC
Found at i:674304 original size:14 final size:14
Alignment explanation
Indices: 674285--674311 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
674275 GAAAATACGC
674285 ATATAAATAAAAAT
1 ATATAAATAAAAAT
674299 ATATAAATAAAAA
1 ATATAAATAAAAA
674312 GAGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
ATATAAATAAAAAT
Found at i:676538 original size:17 final size:18
Alignment explanation
Indices: 676518--676579 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 18
676508 ACCTTTAGTG
676518 AGCTCGCAGTC-TGAGTA
1 AGCTCGCAGTCTTGAGTA
* *
676535 AGCTCACAGTCTTG-GTG
1 AGCTCGCAGTCTTGAGTA
* * *
676552 AGCTAGCATTCTTGAGTT
1 AGCTCGCAGTCTTGAGTA
676570 AGCTCGCAGT
1 AGCTCGCAGT
676580 TTTGTAAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 23 0.66
18 12 0.34
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (18 bp):
AGCTCGCAGTCTTGAGTA
Found at i:702340 original size:21 final size:20
Alignment explanation
Indices: 702299--702342 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
702289 ATTTTGGAAC
* **
702299 TTTTTATTAATTTTCTGAGT
1 TTTTTATAAATTTTCAAAGT
702319 TTTTTATAAATGTTTCAAAGT
1 TTTTTATAAAT-TTTCAAAGT
702340 TTT
1 TTT
702343 ATAAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.25, C:0.05, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTTTATAAATTTTCAAAGT
Found at i:704459 original size:29 final size:29
Alignment explanation
Indices: 704427--704590 Score: 95
Period size: 29 Copynumber: 5.7 Consensus size: 29
704417 GAGACACTTG
* * *
704427 GGGGTAAAATGGTAATTTTCGTATGTTTA
1 GGGGTAAAATGGTAATTTTCGGATGCTCA
* *
704456 GGGGTAAAGAT-GTAATTTTTGGATGCTCG
1 GGGGTAAA-ATGGTAATTTTCGGATGCTCA
* * * *
704485 GGGGCAAAATGGTAATTTTAGAAAGCTC-
1 GGGGTAAAATGGTAATTTTCGGATGCTCA
* *
704513 GGGGTCAAAAATAGTAATTTT-GAATGCTC-
1 GGGGT--AAAATGGTAATTTTCGGATGCTCA
** * ** *
704542 GAGCATGAAATGGTAATTTTTAGATGTTC-
1 G-GGGTAAAATGGTAATTTTCGGATGCTCA
704571 GAGGGTAAAATGGTAATTTT
1 G-GGGTAAAATGGTAATTTT
704591 AGAAAGTTTA
Statistics
Matches: 107, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
28 18 0.17
29 72 0.67
30 17 0.16
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTCGGATGCTCA
Found at i:704534 original size:58 final size:57
Alignment explanation
Indices: 704346--704542 Score: 143
Period size: 58 Copynumber: 3.4 Consensus size: 57
704336 AAATGGAGTC
* * * * **
704346 AAAAATGTAATTTTTGGATGC-CGGGGGCAAAACGGTAATTTTTGGACATC-CAAGG-
1 AAAAATGTAATTTTTGGATGCTCGGGGGCAAAATGGTAA-TTTTAGAAAGCTCGGGGT
** * * * * * * *
704401 ATAAAATAGTAA-TTTTGAGACACTTGGGGGTAAAATGGTAATTTTCGTATGTTTAGGGGT
1 A-AAAAT-GTAATTTTTG-GATGCTCGGGGGCAAAATGGTAATTTTAGAAAG-CTCGGGGT
*
704461 AAAGATGTAATTTTTGGATGCTCGGGGGCAAAATGGTAATTTTAGAAAGCTCGGGGT
1 AAAAATGTAATTTTTGGATGCTCGGGGGCAAAATGGTAATTTTAGAAAGCTCGGGGT
*
704518 CAAAAATAGTAA-TTTTGAATGCTCG
1 -AAAAAT-GTAATTTTTGGATGCTCG
704543 AGCATGAAAT
Statistics
Matches: 106, Mismatches: 26, Indels: 17
0.71 0.17 0.11
Matches are distributed among these distances:
55 1 0.01
56 10 0.09
57 18 0.17
58 61 0.58
59 15 0.14
60 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.31
Consensus pattern (57 bp):
AAAAATGTAATTTTTGGATGCTCGGGGGCAAAATGGTAATTTTAGAAAGCTCGGGGT
Found at i:704609 original size:29 final size:27
Alignment explanation
Indices: 704574--704892 Score: 171
Period size: 29 Copynumber: 10.9 Consensus size: 27
704564 GATGTTCGAG
704574 GGTAAAATGGTAATTTTAGAAAGTTTAA
1 GGTAAAAT-GTAATTTTAGAAAGTTTAA
* * * * **
704602 GGTAAAAAAATGTATTTTTTG-GACTTTCGGG
1 GGT---AAAATGTAATTTTAGAAAGTTT--AA
* * *
704633 GGTAAAATGGTAATTTTTGAATG-TTAGG
1 GGTAAAAT-GTAATTTTAGAAAGTTTA-A
704661 GGTAAAATAGTAATTTTTAGAAAGTTTAA
1 GGTAAAAT-GTAA-TTTTAGAAAGTTTAA
*
704690 GGTTAAGAATGTAATTTT-GAAAAGTTTGAG
1 GG-TAA-AATGTAATTTTAG-AAAGTTT-AA
*
704720 GGTAAAATGTAATTTTGGAAAGTTTTAA
1 GGTAAAATGTAATTTTAGAAAG-TTTAA
* * * *
704748 GGTAAAAAAGTAATTTTGGAAAGTTCAGG
1 GGT-AAAATGTAATTTTAGAAAGTTTA-A
*
704777 GGTTAAAATGTAATTTTTGAGAAGTTTAA
1 GG-TAAAATGTAATTTTAGA-AAGTTTAA
704806 GGGTTAAAATGTAATTTTTAGAAAG-TTAA
1 -GG-TAAAATGTAA-TTTTAGAAAGTTTAA
* *
704835 GGGGTTAAAATGTAATTTTTAG-AAGCTTAGG
1 --GG-TAAAATGTAA-TTTTAGAAAGTTTA-A
*
704866 GGCTAAAATGTAATTTTTGAAAAGTTT
1 GG-TAAAATGTAATTTTAG-AAAGTTT
704893 GGGAGTTAAA
Statistics
Matches: 235, Mismatches: 29, Indels: 52
0.74 0.09 0.16
Matches are distributed among these distances:
28 49 0.21
29 96 0.41
30 73 0.31
31 17 0.07
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.37
Consensus pattern (27 bp):
GGTAAAATGTAATTTTAGAAAGTTTAA
Found at i:704610 original size:87 final size:84
Alignment explanation
Indices: 704467--704710 Score: 222
Period size: 87 Copynumber: 2.8 Consensus size: 84
704457 GGGTAAAGAT
* * * *** *
704467 GTAATTTTTGGATGCTCGGGGGCAAAATGGTAATTTTAGAAAGCTCGGGGTCAAAAATAGTAATT
1 GTAATTTTT-GATGTTC-GGGGTAAAATGGTAATTTTAGAAAGTTTAAGGTAAAAAATAGTAATT
*
704532 TTGAATGCTCGAGCATGAAATG
64 TTGAAT-CTCGAGCATAAAATG
*
704554 GTAATTTTTAGATGTTCGAGGGTAAAATGGTAATTTTAGAAAGTTTAAGGTAAAAAA-ATGTATT
1 GTAATTTTT-GATGTTCG-GGGTAAAATGGTAATTTTAGAAAGTTTAAGGTAAAAAATA-GTA-A
* * * **
704618 TTTTGGACTTTCGGGGGTAAAATG
62 TTTT-GAATCTCGAGCATAAAATG
* * * *
704642 GTAATTTTTGAATGTTAGGGGTAAAATAGTAATTTTTAGAAAGTTTAAGGTTAAGAAT-GTAATT
1 GTAATTTTTG-ATGTTCGGGGTAAAATGGTAA-TTTTAGAAAGTTTAAGGTAAAAAATAGTAATT
704706 TTGAA
64 TTGAA
704711 AAGTTTGAGG
Statistics
Matches: 129, Mismatches: 21, Indels: 16
0.78 0.13 0.10
Matches are distributed among these distances:
85 2 0.02
86 6 0.05
87 67 0.52
88 51 0.40
89 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (84 bp):
GTAATTTTTGATGTTCGGGGTAAAATGGTAATTTTAGAAAGTTTAAGGTAAAAAATAGTAATTTT
GAATCTCGAGCATAAAATG
Found at i:704706 original size:30 final size:29
Alignment explanation
Indices: 704549--704921 Score: 223
Period size: 30 Copynumber: 12.7 Consensus size: 29
704539 CTCGAGCATG
* ** *
704549 AAATGGTAATTTTTAG-ATGTTCGAGGGTA
1 AAAT-GTAATTTTTAGAAAGTTTAAGGTTA
*
704578 AAATGGTAA-TTTTAGAAAGTTTAAGGTAAAA
1 AAAT-GTAATTTTTAGAAAGTTTAAGGT--TA
* * * ** *
704609 AAATGT-ATTTTTTG-GACTTTCGGGGGTA
1 AAATGTAATTTTTAGAAAGTTT-AAGGTTA
* * *
704637 AAATGGTAATTTTT-GAATG-TTAGGGGTA
1 AAAT-GTAATTTTTAGAAAGTTTAAGGTTA
704665 AAATAGTAATTTTTAGAAAGTTTAAGGTTA
1 AAAT-GTAATTTTTAGAAAGTTTAAGGTTA
* * *
704695 AGAATGTAATTTTGA-AAAGTTTGAGGGTA
1 A-AATGTAATTTTTAGAAAGTTTAAGGTTA
* *
704724 AAATGTAA-TTTTGGAAAGTTTTAAGGTAA
1 AAATGTAATTTTTAGAAAG-TTTAAGGTTA
* * * *
704753 AAAAGTAA-TTTTGGAAAGTTCAGGGGTTA
1 AAATGTAATTTTTAGAAAGTTTA-AGGTTA
704782 AAATGTAATTTTT-GAGAAGTTTAAGGGTTA
1 AAATGTAATTTTTAGA-AAGTTTAA-GGTTA
704812 AAATGTAATTTTTAGAAAG-TTAAGGGGTTA
1 AAATGTAATTTTTAGAAAGTTTAA--GGTTA
* * *
704842 AAATGTAATTTTTAG-AAGCTTAGGGGCTA
1 AAATGTAATTTTTAGAAAGTTTA-AGGTTA
**
704871 AAATGTAATTTTT-GAAAAGTTTGGGAGTTA
1 AAATGTAATTTTTAG-AAAGTTTAAG-GTTA
* * *
704901 AAACGTGATTTTTAGATAGTT
1 AAATGTAATTTTTAGAAAGTT
704922 CAGGGACTTT
Statistics
Matches: 276, Mismatches: 43, Indels: 49
0.75 0.12 0.13
Matches are distributed among these distances:
27 3 0.01
28 45 0.16
29 106 0.38
30 111 0.40
31 11 0.04
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.38
Consensus pattern (29 bp):
AAATGTAATTTTTAGAAAGTTTAAGGTTA
Found at i:704725 original size:59 final size:58
Alignment explanation
Indices: 704635--704921 Score: 268
Period size: 59 Copynumber: 4.9 Consensus size: 58
704625 CTTTCGGGGG
*
704635 TAAAATGGTAATTTTTG-AATGTT-AGGGG-TAAAATAGTAATTTTTAGAAAGTTTAAGGT
1 TAAAAT-GTAA-TTTTGAAAAGTTGAGGGGTTAAAAT-GTAATTTTTAGAAAGTTTAAGGT
*
704693 TAAGAATGTAATTTTGAAAAGTTTGA-GGG-TAAAATGTAA-TTTTGGAAAGTTTTAAGGT
1 TAA-AATGTAATTTTGAAAAG-TTGAGGGGTTAAAATGTAATTTTTAGAAAG-TTTAAGGT
* * * *
704751 AAAAAAGTAATTTTGGAAAGTTCAGGGGTTAAAATGTAATTTTT-GAGAAGTTTAAGGGT
1 TAAAATGTAATTTTGAAAAGTTGAGGGGTTAAAATGTAATTTTTAGA-AAGTTTAA-GGT
* * * * *
704810 TAAAATGTAATTTTTAGAAAGTTAAGGGGTTAAAATGTAATTTTTAG-AAGCTTAGGGGC
1 TAAAATGTAATTTTGA-AAAGTTGAGGGGTTAAAATGTAATTTTTAGAAAGTTTA-AGGT
* * * *
704869 TAAAATGTAATTTTTGAAAAGTTTG-GGAGTTAAAACGTGATTTTTAGATAGTT
1 TAAAATGTAA-TTTTGAAAAG-TTGAGGGGTTAAAATGTAATTTTTAGAAAGTT
704922 CAGGGACTTT
Statistics
Matches: 192, Mismatches: 21, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
56 3 0.02
57 32 0.17
58 41 0.21
59 77 0.40
60 38 0.20
61 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (58 bp):
TAAAATGTAATTTTGAAAAGTTGAGGGGTTAAAATGTAATTTTTAGAAAGTTTAAGGT
Found at i:706727 original size:17 final size:17
Alignment explanation
Indices: 706707--706797 Score: 110
Period size: 17 Copynumber: 5.4 Consensus size: 17
706697 AATTTTTAAT
706707 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
706724 TAAATTCAAATTTAAAA
1 TAAATTTAAATTTAAAA
* * *
706741 TGAACTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
* *
706758 TAAATTTAAATTTATAC
1 TAAATTTAAATTTAAAA
* *
706775 TAAATTCAAACTTAAAA
1 TAAATTTAAATTTAAAA
706792 TAAATT
1 TAAATT
706798 AAAAATGGGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 60 1.00
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:707527 original size:208 final size:207
Alignment explanation
Indices: 707154--708457 Score: 1332
Period size: 208 Copynumber: 6.3 Consensus size: 207
707144 ATTTCACTAA
* * * * * * * *
707154 GAAGACGGATTTGGTTCACTTCTTTGCAT-TCCGTTAGGAAGATGACCACTTTATTGCTTCGACC
1 GAAGACGAATTTGGTCCACTTCTCTGTATCT-CATCAGGAAGGTGACCATTTTATTGCTTCGACC
* * * * *
707218 TGCTTCTTAGTATCTCATCAGGAAGGTGACGTTTGAAGTTTCGCTCACATTGAGCTTTGTTTTAT
65 TGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTT-AAGTTTCGCTCACATTGAGCCTTGTTTCAT
* * * * * * *
707283 TGATTTGGTATACTTCTCTATATTTCATCAGGAAGATTATCACCTCCCTTGTTTTAATCCGCTTC
129 TGATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCT-CCTTGTTTTGATCCACTTC
*
707348 TCTGTATCTCATCAA
193 TCTGTATCTCATCAG
* * *
707363 GAAGACGAATTTGATCCACTTCTCAGTATCTCATCAGGAAGTTGACCATTTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGACCT
* * **
707428 GCTTCTCAGTATCTCATCAAGAAGCT-AGGTTTAATGTTTCACTCACATTGAGTTTTGTTTCATT
66 GCTTCTCAGTATCTCATCAGGAAGCTGAGGTTTAA-GTTTCGCTCACATTGAGCCTTGTTTCATT
*
707492 GATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCGTTGTTTTGATCCACTTCTC
130 GATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCCTTGTTTTGATCCACTTCTC
*
707557 TATATCTCATCAG
195 TGTATCTCATCAG
* * * * *
707570 GAAGACGAATCTGGTTCACTTCTCTGTGTCTCATCAGGAAGGT-A--ATTGCGTTATTACTTTGA
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGTGACCATT---TTATTGCTTCGA
* * * * * *
707632 CCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCAAAGATTT-GCTCACTTTGAACCTGGTTT
63 CCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTT-TAAG-TTTCGCTCACATTGAGCCTTGTTT
* * *
707696 CATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCGTTGTTTTGATCCACT
126 CATTGATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCCTTGTTTTGATCCACT
707761 TCTCTGTATCTCATCAG
191 TCTCTGTATCTCATCAG
* * * * *
707778 GAAGATGAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGCTGACCATTTTATTGCTTCGACTT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGACCT
* * * * * *
707843 GCTTCTTAGTACCTCATCAGGAAGCTG-GGATTCGAAGTTTCTCTCATATTGAGTCTTGTTTCAT
66 GCTTCTCAGTATCTCATCAGGAAGCTGAGG-TT-TAAGTTTCGCTCACATTGAGCCTTGTTTCAT
* * * * * * *
707907 TGAATTGGTTTACTTCTCAATATCTCATCAGGAAGATAACCGCATCACTTATTTTGATCCGCTTC
129 TGATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTC-CTTGTTTTGATCCACTTC
*
707972 TCTGTATCTCAGCAG
193 TCTGTATCTCATCAG
* * * ** *
707987 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGGTAACCGCTTTATTGCTTCGACTT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGACCT
* ** * * *
708052 GCTTCTCAGTATCTCATCAGGAAGCTGGGGTACGAAAATTT-GCTCACTTTGAGCCTGGTTTCAT
66 GCTTCTCAGTATCTCATCAGGAAGCTGAGGT--TTAAGTTTCGCTCACATTGAGCCTTGTTTCAT
* * ** *
708116 TGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGATTACCTCGTTGTTTTGATCCACTTCT
129 TGATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCCTTGTTTTGATCCACTTCT
708181 CTGTATCTCATCAG
194 CTGTATCTCATCAG
* * * * * * * * *
708195 GAAGATGGATTTGGTTCACTTCTCTGTATCTCGTTAGGAAGATGAACACTTTATTGCTTCGACCC
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGACCT
* * * * * * * * * * *
708260 ACTTTTCAGTATTTTATCAAGAAGAT-AGGTTTGAAGTTTCACTCACACTGAGCTTTGCTTAATT
66 GCTTCTCAGTATCTCATCAGGAAGCTGAGGTTT-AAGTTTCGCTCACATTGAGCCTTGTTTCATT
* * ** * *** * ** *
708324 GATGTGGTCTTCTTCTCTGTATCTCATCAGAAAGATGATTGCATCAC-TGTTTCAATCCGCTTCT
130 GATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTC-CTTGTTTTGATCCACTTCT
*
708388 CTATATCTCATCAG
194 CTGTATCTCATCAG
* * * **
708402 AAAGACGAATTTGGTCTACTTCTCTGTATCTTATCAATAAGGTGACCATTTTATTG
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTG
708458 TTTTAGATAA
Statistics
Matches: 915, Mismatches: 160, Indels: 42
0.82 0.14 0.04
Matches are distributed among these distances:
204 3 0.00
206 6 0.01
207 238 0.26
208 407 0.44
209 250 0.27
210 8 0.01
211 3 0.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (207 bp):
GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGACCT
GCTTCTCAGTATCTCATCAGGAAGCTGAGGTTTAAGTTTCGCTCACATTGAGCCTTGTTTCATTG
ATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCCTTGTTTTGATCCACTTCTCT
GTATCTCATCAG
Found at i:708075 original size:417 final size:415
Alignment explanation
Indices: 707202--708444 Score: 1534
Period size: 417 Copynumber: 3.0 Consensus size: 415
707192 AAGATGACCA
* * ** **
707202 CTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGGTGACGTTTGAAG-TTTCGCTCAC
1 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTT-GCTCAC
* * * * * * *
707266 ATTGAGCTTTGTTTTATTGATTTGGTATACTTCTCTA-TATTTCATCAGGAAGATTATCACCTCC
65 TTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTC-AGTATCTCATCAGGAAGATGATCACCT-C
* * * * * * * *
707330 CTTGTTTTAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGATCCACTTCTCAGTATCTC
128 GTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCTACTTCTCTGTATCTC
* * *
707395 ATCAGGAAGTTGACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGTTT
193 ATCAGGAAGATGACCATTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAAGAAGCTAGGTTG
* * *
707460 AATGTTTCACTCACATTGAGTTTTGTTTCATTGATTTGGTCTACTTCTCAATATCTCATCAGGAA
258 AA-GTTTCACTCACATTGAGTCTTGTTTCATTGAATTGGTTTACTTCTCAATATCTCATCAGGAA
* * * * * *
707525 GATGACCACCTC-GTTGTTTTGATCCACTTCTCTATATCTCATCAGGAAGACGAATCTGGTTCAC
322 GATGACCGCATCACTTGTTTTGATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCAC
* * **
707589 TTCTCTGTGTCTCATCAGGAAGGTAATTG
387 TTCTCTGTATCTCATCAAGAAGGTAACCG
* * * *
707618 CGTTATTACTTTGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCAAAGATTTGCTCACT
1 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTTGCTCACT
* * *
707683 TTGAACCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCGTT
66 TTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCACCTCGTT
707748 GTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCTACTTCTCTGTATCTCATC
131 GTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCTACTTCTCTGTATCTCATC
* * * * * *
707813 AAGAAGCTGACCATTTTATTGCTTCGACTTGCTTCTTAGTACCTCATCAGGAAGCTGGGATTCGA
196 AGGAAGATGACCATTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAAGAAGCTAGG-TT-GA
* *
707878 AGTTTCTCTCATATTGAGTCTTGTTTCATTGAATTGGTTTACTTCTCAATATCTCATCAGGAAGA
259 AGTTTCACTCACATTGAGTCTTGTTTCATTGAATTGGTTTACTTCTCAATATCTCATCAGGAAGA
* * * * *
707943 TAACCGCATCACTTATTTTGATCCGCTTCTCTGTATCTCAGCAGGAAGACGGATTTGGTCCACTT
324 TGACCGCATCACTTGTTTTGATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCACTT
708008 CTCTGTATCTCATCAAGAAGGTAACCG
389 CTCTGTATCTCATCAAGAAGGTAACCG
* *
708035 CTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTACGAAA-ATTTGCTCAC
1 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTC-AAAGATTTGCTCAC
* *
708099 TTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGATTACCTCGT
65 TTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCACCTCGT
* *
708164 TGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGATTTGGT-TCACTTCTCTGTATCTCG
130 TGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCT-ACTTCTCTGTATCTCA
* * * ** * * *
708228 TTAGGAAGATGAACACTTTATTGCTTCGACCCACTT-TTCAGTATTTTATCAAGAAGATAGGTTT
194 TCAGGAAGATGACCATTTTATTGCTTCGACCTGCTTCTT-AGTATCTCATCAAGAAGCTAGG-TT
* * * **
708292 GAAGTTTCACTCACACTGAG-CTTTGCTTAATTG-ATGTGGTCTT-CTTCTCTGTATCTCATCAG
257 GAAGTTTCACTCACATTGAGTC-TTGTTTCATTGAAT-TGGT-TTACTTCTCAATATCTCATCAG
* ** ** *
708354 AAAGATGATTGCATCAC-TGTTTCAATCCGCTTCTCTATATCTCATCAGAAAGACGAATTTGGTC
319 GAAGATGACCGCATCACTTGTTTTGATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTC
* * *
708418 TACTTCTCTGTATCTTATCAATAAGGT
384 CACTTCTCTGTATCTCATCAAGAAGGT
708445 GACCATTTTA
Statistics
Matches: 712, Mismatches: 104, Indels: 23
0.85 0.12 0.03
Matches are distributed among these distances:
415 181 0.25
416 232 0.33
417 296 0.42
418 3 0.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (415 bp):
CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTTGCTCACT
TTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCACCTCGTT
GTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCTACTTCTCTGTATCTCATC
AGGAAGATGACCATTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAAGAAGCTAGGTTGAAG
TTTCACTCACATTGAGTCTTGTTTCATTGAATTGGTTTACTTCTCAATATCTCATCAGGAAGATG
ACCGCATCACTTGTTTTGATCCGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCACTTCT
CTGTATCTCATCAAGAAGGTAACCG
Found at i:708350 original size:624 final size:624
Alignment explanation
Indices: 707191--708457 Score: 1574
Period size: 624 Copynumber: 2.0 Consensus size: 624
707181 ATTCCGTTAG
* * * *
707191 GAAGATGACCACTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGGTGACGTTTGAAG
1 GAAGATGACCATTTTATTGCTTCGACCTGCTTCTTAGTACCTCATCAGGAAGCTGACGTTCGAAG
* * * * *
707256 TTTCGCTCACATTGAGCTTTGTTTTATTGATTTGGTATACTTCTCTATATTTCATCAGGAAGATT
66 TTTCGCTCACATTGAGCTTTGTTTCATTGAATTGGTATACTTCTCAATATCTCATCAGGAAGATA
* * * * *
707321 ATCACCTCCCTTGTTTTAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGATCCACTTCT
131 ACCACATCACTTATTTTAATCCGCTTCTCTGTATCTCAGCAAGAAGACGAATTTGATCCACTTCT
* * * *
707386 CAGTATCTCATCAGGAAGTTGACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAA
196 CAGTATCTCATCAAGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAA
** ** ** *
707451 GCTAGGTTTAATGTTTCACTCACATTGAGTTTTGTTTCATTGATTTGGTCTACTTCTCAATATCT
261 GCTAGGTCGAAAATTTCACTCACATTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAATATCT
*
707516 CATCAGGAAGATGACCACCTCGTTGTTTTGATCCACTTCTCTATATCTCATCAGGAAGACGAATC
326 CATCAAGAAGATGACCACCTCGTTGTTTTGATCCACTTCTCTATATCTCATCAGGAAGACGAATC
* * ** * **
707581 TGGTTCACTTCTCTGTGTCTCATCAGGAAGGTAATTGCGTTATTACTTTGACCTGCTTCTCAGTA
391 TGGTTCACTTCTCTGTATCTCATCAGGAAGATAATCACGTTATTACTTCGACCCACTTCTCAGTA
* * * * ** * * *
707646 TCTCATCAGGAAGTTGGGGTTCAAAGATTTGCTCACTTTGAACCTGGTTTCATTGATTTGGTCTA
456 TCTCATCAAGAAGATGAGGTTCAAAGATTTACTCACACTGAACCTGGCTTAATTGATGTGGTCTA
* * ** ** *
707711 CTTCTCAGTATCTCATCAGGAAGATGACCGCCTCGTTGTTTTGATCCACTTCTCTGTATCTCATC
521 CTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTGTTTCAATCCACTTCTCTATATCTCATC
* *
707776 AGGAAGATGAATTTGGTCTACTTCTCTGTATCTCATCAA
586 AGAAAGACGAATTTGGTCTACTTCTCTGTATCTCATCAA
* * *
707815 GAAGCTGACCATTTTATTGCTTCGACTTGCTTCTTAGTACCTCATCAGGAAGCTG-GGATTCGAA
1 GAAGATGACCATTTTATTGCTTCGACCTGCTTCTTAGTACCTCATCAGGAAGCTGACG-TTCGAA
* * *
707879 GTTTCTCTCATATTGAG-TCTTGTTTCATTGAATTGGTTTACTTCTCAATATCTCATCAGGAAGA
65 GTTTCGCTCACATTGAGCT-TTGTTTCATTGAATTGGTATACTTCTCAATATCTCATCAGGAAGA
* * * * *
707943 TAACCGCATCACTTATTTTGATCCGCTTCTCTGTATCTCAGCAGGAAGACGGATTTGGTCCACTT
129 TAACCACATCACTTATTTTAATCCGCTTCTCTGTATCTCAGCAAGAAGACGAATTTGATCCACTT
* * * *
708008 CTCTGTATCTCATCAAGAAGGTAACCGCTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGG
194 CTCAGTATCTCATCAAGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAG
* * * *
708073 AAGCTGGGGTACGAAAATTT-GCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGT
259 AAGCT-AGGT-CGAAAATTTCACTCACATTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAAT
** * *
708137 ATCTCATCAAGAAGATGATTACCTCGTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATG
322 ATCTCATCAAGAAGATGACCACCTCGTTGTTTTGATCCACTTCTCTATATCTCATCAGGAAGACG
* * * * * * *
708202 GATTTGGTTCACTTCTCTGTATCTCGTTAGGAAGATGAA-CACTTTATTGCTTCGACCCACTTTT
387 AATCTGGTTCACTTCTCTGTATCTCATCAGGAAGAT-AATCACGTTATTACTTCGACCCACTTCT
* * ** * * *
708266 CAGTATTTTATCAAGAAGAT-AGGTTTGAAG-TTTCACTCACACTGAGCTTTGCTTAATTGATGT
451 CAGTATCTCATCAAGAAGATGAGGTTCAAAGATTT-ACTCACACTGAACCTGGCTTAATTGATGT
* * ** *
708329 GGTCTTCTTCTCTGTATCTCATCAGAAAGATGATTGCATCACTGTTTCAATCCGCTTCTCTATAT
515 GGTCTACTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTGTTTCAATCCACTTCTCTATAT
*
708394 CTCATCAGAAAGACGAATTTGGTCTACTTCTCTGTATCTTATCAA
580 CTCATCAGAAAGACGAATTTGGTCTACTTCTCTGTATCTCATCAA
* *
708439 TAAGGTGACCATTTTATTG
1 GAAGATGACCATTTTATTG
708458 TTTTAGATAA
Statistics
Matches: 541, Mismatches: 96, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
623 5 0.01
624 365 0.67
625 164 0.30
626 7 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (624 bp):
GAAGATGACCATTTTATTGCTTCGACCTGCTTCTTAGTACCTCATCAGGAAGCTGACGTTCGAAG
TTTCGCTCACATTGAGCTTTGTTTCATTGAATTGGTATACTTCTCAATATCTCATCAGGAAGATA
ACCACATCACTTATTTTAATCCGCTTCTCTGTATCTCAGCAAGAAGACGAATTTGATCCACTTCT
CAGTATCTCATCAAGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAA
GCTAGGTCGAAAATTTCACTCACATTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAATATCT
CATCAAGAAGATGACCACCTCGTTGTTTTGATCCACTTCTCTATATCTCATCAGGAAGACGAATC
TGGTTCACTTCTCTGTATCTCATCAGGAAGATAATCACGTTATTACTTCGACCCACTTCTCAGTA
TCTCATCAAGAAGATGAGGTTCAAAGATTTACTCACACTGAACCTGGCTTAATTGATGTGGTCTA
CTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTGTTTCAATCCACTTCTCTATATCTCATC
AGAAAGACGAATTTGGTCTACTTCTCTGTATCTCATCAA
Found at i:709013 original size:50 final size:50
Alignment explanation
Indices: 708928--709282 Score: 249
Period size: 50 Copynumber: 7.1 Consensus size: 50
708918 TTTTCTTCAT
* *
708928 GGTATCG-GATTCGCTGTTGCGACCTCAATCC-TTCCCATCGCATCTTCTTA
1 GGTATCGAG-TTCGCCGTTGCGACCTCAA-CCTTTCCCATCACATCTTCTTA
* * ** * * * * *
708978 GGTACCGGGTTCATCGTTACGGCCTCAACCTTTCCCTTTACATCTTTTTTAA
1 GGTATCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATC-TTCTT-A
* * * *
709030 GGTATCGAATTCGCTGTTGCGACCTCAATCC-TCCCCTATCATC-TCTTCAT-
1 GGTATCGAGTTCGCCGTTGCGACCTCAA-CCTTTCCC-ATCA-CATCTTCTTA
* * * **
709080 GGTATTGAGTTCGCCATTGCGGCCTCAACCTTTCTAATCACATCTTCTTA
1 GGTATCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTA
* *
709130 GGTATCGAGTTCGCCGTTGCGACCTCAATCTTTCCCTTCACATCTTCTTA
1 GGTATCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTA
* * * * ** * * *
709180 GGTATCGGGTTTGCCATTACGGTCTCAACCTTTCTCTTTACATCTTCTTA
1 GGTATCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTA
* ** * *
709230 GGTA-CTGGGTTCAACGTTGTGACCTCAACCTTTCCCCTCA-ATCTT-TTAA
1 GGTATC-GAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTT-A
709279 GGTA
1 GGTA
709283 CCAGATTTAC
Statistics
Matches: 234, Mismatches: 59, Indels: 25
0.74 0.19 0.08
Matches are distributed among these distances:
48 3 0.01
49 25 0.11
50 166 0.71
51 5 0.02
52 28 0.12
53 6 0.03
54 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (50 bp):
GGTATCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTTA
Found at i:709184 original size:100 final size:100
Alignment explanation
Indices: 708928--709233 Score: 348
Period size: 100 Copynumber: 3.0 Consensus size: 100
708918 TTTTCTTCAT
* * * * **
708928 GGTATCG-GATTCGCTGTTGCGACCTCAATCCTTCCCATCGCATCTTCTTAGGTACCGGGTTCAT
1 GGTATCGAG-TTCGCCGTTGCGACCTCAATCCTTCCCTTCACATCTTCTTAGGTATCGGGTTCGC
* * *
708992 CGTTACGGCCTCAACCTTTCCCTTTACATCTTTTTTAA
65 CATTACGGCCTCAACCTTTCTCTTTACATC-TTCTT-A
* * * * * *
709030 GGTATCGAATTCGCTGTTGCGACCTCAATCCTCCCCTATCATC-TCTTCAT-GGTATTGAGTTCG
1 GGTATCGAGTTCGCCGTTGCGACCTCAATCCTTCCCT-TCA-CATCTTCTTAGGTATCGGGTTCG
* ** *
709093 CCATTGCGGCCTCAACCTTTCTAATCACATCTTCTTA
64 CCATTACGGCCTCAACCTTTCTCTTTACATCTTCTTA
* *
709130 GGTATCGAGTTCGCCGTTGCGACCTCAATCTTTCCCTTCACATCTTCTTAGGTATCGGGTTTGCC
1 GGTATCGAGTTCGCCGTTGCGACCTCAATCCTTCCCTTCACATCTTCTTAGGTATCGGGTTCGCC
*
709195 ATTACGGTCTCAACCTTTCTCTTTACATCTTCTTA
66 ATTACGGCCTCAACCTTTCTCTTTACATCTTCTTA
709230 GGTA
1 GGTA
709234 CTGGGTTCAA
Statistics
Matches: 169, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
98 1 0.01
99 9 0.05
100 80 0.47
101 4 0.02
102 66 0.39
103 8 0.05
104 1 0.01
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.37
Consensus pattern (100 bp):
GGTATCGAGTTCGCCGTTGCGACCTCAATCCTTCCCTTCACATCTTCTTAGGTATCGGGTTCGCC
ATTACGGCCTCAACCTTTCTCTTTACATCTTCTTA
Found at i:709248 original size:100 final size:99
Alignment explanation
Indices: 708943--709282 Score: 323
Period size: 100 Copynumber: 3.4 Consensus size: 99
708933 CGGATTCGCT
* * * ** *
708943 GTTGCGACCTCAATCCTTCCCATCGCATCTTCTTAGGTACCGGGTTCATCGTTACGGCCTCAACC
1 GTTGCGACCTCAATCCTTCCCTTCACATCTTCTTAGGTATCGGGTTCGCCATTACGGCCTCAACC
* * * *
709008 TTTCCCTTTACATCTTTTTTAAGGTATCGAATTCGC
66 TTTCTCTTTACATC-TTCTT-AGGTATCGAGTTCAC
* * * * *
709044 TGTTGCGACCTCAATCCTCCCCTATCATC-TCTTCAT-GGTATTGAGTTCGCCATTGCGGCCTCA
1 -GTTGCGACCTCAATCCTTCCCT-TCA-CATCTTCTTAGGTATCGGGTTCGCCATTACGGCCTCA
** * *
709107 ACCTTTCTAATCACATCTTCTTAGGTATCGAGTTCGCC
63 ACCTTTCTCTTTACATCTTCTTAGGTATCGAGTTC-AC
* * *
709145 GTTGCGACCTCAATCTTTCCCTTCACATCTTCTTAGGTATCGGGTTTGCCATTACGGTCTCAACC
1 GTTGCGACCTCAATCCTTCCCTTCACATCTTCTTAGGTATCGGGTTCGCCATTACGGCCTCAACC
*
709210 TTTCTCTTTACATCTTCTTAGGTA-CTGGGTTCAAC
66 TTTCTCTTTACATCTTCTTAGGTATC-GAGTTC-AC
* *
709245 GTTGTGACCTCAA-CCTTTCCCCTCA-ATCTT-TTAAGGTA
1 GTTGCGACCTCAATCC-TTCCCTTCACATCTTCTT-AGGTA
709283 CCAGATTTAC
Statistics
Matches: 195, Mismatches: 35, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
98 3 0.02
99 21 0.11
100 104 0.53
101 5 0.03
102 53 0.27
103 8 0.04
104 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (99 bp):
GTTGCGACCTCAATCCTTCCCTTCACATCTTCTTAGGTATCGGGTTCGCCATTACGGCCTCAACC
TTTCTCTTTACATCTTCTTAGGTATCGAGTTCAC
Found at i:710253 original size:7 final size:7
Alignment explanation
Indices: 710225--710304 Score: 65
Period size: 7 Copynumber: 11.0 Consensus size: 7
710215 CGACCTTTCC
710225 TTTTCTT
1 TTTTCTT
*
710232 TTTCCCGTT
1 TTT-TC-TT
*
710241 TTTTCTA
1 TTTTCTT
710248 TTTTCTT
1 TTTTCTT
*
710255 TTTCCTT
1 TTTTCTT
710262 TTTTCTT
1 TTTTCTT
710269 TTTTCTT
1 TTTTCTT
710276 TTCATT-TT
1 TT--TTCTT
*
710284 TCTTCTT
1 TTTTCTT
710291 CTTTT-TT
1 -TTTTCTT
710298 TTTTCTT
1 TTTTCTT
710305 CATTGAGTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
6 6 0.10
7 37 0.64
8 8 0.14
9 7 0.12
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.78
Consensus pattern (7 bp):
TTTTCTT
Found at i:710265 original size:21 final size:23
Alignment explanation
Indices: 710225--710277 Score: 83
Period size: 21 Copynumber: 2.4 Consensus size: 23
710215 CGACCTTTCC
710225 TTTTCTTTTTCCCGTTTTTTCTA
1 TTTTCTTTTTCCCGTTTTTTCTA
*
710248 TTTTCTTTTT-CC-TTTTTTCTT
1 TTTTCTTTTTCCCGTTTTTTCTA
710269 TTTTCTTTT
1 TTTTCTTTT
710278 CATTTTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 17 0.59
22 2 0.07
23 10 0.34
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTCTTTTTCCCGTTTTTTCTA
Found at i:711954 original size:81 final size:81
Alignment explanation
Indices: 711831--711988 Score: 298
Period size: 81 Copynumber: 2.0 Consensus size: 81
711821 TCTCAACATG
*
711831 ACTTTTGCTCATATTTTTATCATTCCCTATCTTGATTTATCATGTTTCCTCTCAGCTTTAGGGTT
1 ACTTTTGCTCAAATTTTTATCATTCCCTATCTTGATTTATCATGTTTCCTCTCAGCTTTAGGGTT
711896 GATGACTCTCTCACAC
66 GATGACTCTCTCACAC
*
711912 ACTTTTGCTCAAATTTTTATCATTCTCTATCTTGATTTATCATGTTTCCTCTCAGCTTTAGGGTT
1 ACTTTTGCTCAAATTTTTATCATTCCCTATCTTGATTTATCATGTTTCCTCTCAGCTTTAGGGTT
711977 GATGACTCTCTC
66 GATGACTCTCTC
711989 TCTGTTTCAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.47
Consensus pattern (81 bp):
ACTTTTGCTCAAATTTTTATCATTCCCTATCTTGATTTATCATGTTTCCTCTCAGCTTTAGGGTT
GATGACTCTCTCACAC
Found at i:715665 original size:29 final size:28
Alignment explanation
Indices: 715511--715872 Score: 127
Period size: 29 Copynumber: 12.5 Consensus size: 28
715501 TGGAGTCAAA
* *
715511 AAAAT-GTAATATTTGGATGTTGGGGGC
1 AAAATGGTAATTTTTGGATGTTGAGGGC
* * * * *
715538 AAAACGATAATTTTTGGACGTTCAAGGGT
1 AAAATGGTAATTTTTGGATGTT-GAGGGC
* * * ***
715567 AAAACGATAATTTTGGGACACCT-AGAGGC
1 AAAATGGTAATTTTTGGA-TGTTGAG-GGC
**
715596 AAAATGGTAATTTTTGGATGTTTG-GAGAT
1 AAAATGGTAATTTTTGGATG-TTGAG-GGC
*
715625 AAAGAT-GCAATTTTTGGATGCTTGAGGGC
1 AAA-ATGGTAATTTTTGGATG-TTGAGGGC
* * *
715654 AAAATGGTAA-TTTTGGAAAGCTCGAGGTC
1 AAAATGGTAATTTTTGG-ATG-TTGAGGGC
* *
715683 AAAAATGGTAA-TTTTGGACT-CTCAGGG-
1 -AAAATGGTAATTTTTGGA-TGTTGAGGGC
**
715710 ATGAAATGGTAATTTTTGGATGTTCG-GAGAT
1 A--AAATGGTAATTTTTGGATGTT-GAG-GGC
* * *
715741 AAAATGGTAATTTTTGAAAAGTTCGAGGAC
1 AAAATGGTAATTTTTG-GATGTT-GAGGGC
* * *
715771 AAAAAT-GTAATTTTTGGATATTCGGGGGT
1 -AAAATGGTAATTTTTGGATGTT-GAGGGC
*
715800 AAAATGGTAATTTTTGGATGTT-AGTAGGT
1 AAAATGGTAATTTTTGGATGTTGAG--GGC
* * *
715829 AAAATAGTAATTTTTGGAAAGTTTAGGGC
1 AAAATGGTAATTTTTGG-ATGTTGAGGGC
715858 TAAAAAT-GTAATTTT
1 --AAAATGGTAATTTT
715873 GAAAAGTTTA
Statistics
Matches: 256, Mismatches: 50, Indels: 55
0.71 0.14 0.15
Matches are distributed among these distances:
26 1 0.00
27 5 0.02
28 41 0.16
29 144 0.56
30 51 0.20
31 14 0.05
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGATGTTGAGGGC
Found at i:715777 original size:88 final size:87
Alignment explanation
Indices: 715633--715873 Score: 267
Period size: 88 Copynumber: 2.8 Consensus size: 87
715623 ATAAAGATGC
* * *
715633 AATTTTTGGATGCTTGAGG-G-CAAAATGGTAA-TTTTGGAAAGCTCGAGGTCAAAAATGGTAAT
1 AATTTTTGGATG-TT-AGGAGATAAAATGGTAATTTTTGGAAAGTTCGAGGACAAAAAT-GTAAT
*
715695 TTTGGACT-CTCAGGGATGAAATGGT
63 TTTGGA-TACTCAGGGATAAAATGGT
* *
715720 AATTTTTGGATGTTCGGAGATAAAATGGTAATTTTTGAAAAGTTCGAGGACAAAAATGTAATTTT
1 AATTTTTGGATGTTAGGAGATAAAATGGTAATTTTTGGAAAGTTCGAGGACAAAAATGTAA-TTT
* * *
715785 TGGATATTCGGGGGTAAAATGGT
65 TGGATACTCAGGGATAAAATGGT
* * * * *
715808 AATTTTTGGATGTTAGTAGGTAAAATAGTAATTTTTGGAAAGTT-TAGGGCTAAAAATGTAATTT
1 AATTTTTGGATGTTAGGAGATAAAATGGTAATTTTTGGAAAGTTCGAGGAC-AAAAATGTAATTT
715872 TG
65 TG
715874 AAAAGTTTAA
Statistics
Matches: 132, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
85 2 0.02
86 3 0.02
87 36 0.27
88 91 0.69
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (87 bp):
AATTTTTGGATGTTAGGAGATAAAATGGTAATTTTTGGAAAGTTCGAGGACAAAAATGTAATTTT
GGATACTCAGGGATAAAATGGT
Found at i:715888 original size:88 final size:87
Alignment explanation
Indices: 715713--715994 Score: 245
Period size: 88 Copynumber: 3.2 Consensus size: 87
715703 CTCAGGGATG
* * * *
715713 AAATGGTAATTTTTGGATGTTCGGAGATAAAATGGTAATTTTTGAAAAGTTCGAGGAC-AAAAAT
1 AAATGGTAATTTTTGGATGTT-GTAGGTAAAAT-GTAATTTTTGAAAAGTT-AAGGGCTAAAAAT
* * ***
715777 GTAATTTTTGGATA-TTCGGGGGTA
63 GTAATTTTTGAAAAGTTTAAGGGTA
* *
715801 AAATGGTAATTTTTGGATGTTAGTAGGTAAAATAGTAATTTTTGGAAAGTTTAGGGCTAAAAATG
1 AAATGGTAATTTTTGGATGTT-GTAGGTAAAAT-GTAATTTTTGAAAAGTTAAGGGCTAAAAATG
715866 TAA-TTTTGAAAAGTTTAAGGGTAA
64 TAATTTTTGAAAAGTTTAAGGGT-A
* * * * * *
715890 AAAT-GCAA-TTTTGGAAAGTTTTGAGGGTGAAAATGTAA-TTTTGCAAAGTTAAGGGGTTAAAA
1 AAATGGTAATTTTTGG-ATGTTGT-A-GGT-AAAATGTAATTTTTGAAAAGTTAAGGGCTAAAAA
*
715952 TGTAATTTTTGAGAAGTTTAAGGGTTA
62 TGTAATTTTTGAAAAGTTTAAGGG-TA
*
715979 AAA-GATAATTTTTGGA
1 AAATGGTAATTTTTGGA
715995 AAGTTTAAGG
Statistics
Matches: 161, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
87 18 0.11
88 95 0.59
89 36 0.22
90 12 0.07
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (87 bp):
AAATGGTAATTTTTGGATGTTGTAGGTAAAATGTAATTTTTGAAAAGTTAAGGGCTAAAAATGTA
ATTTTTGAAAAGTTTAAGGGTA
Found at i:715923 original size:30 final size:29
Alignment explanation
Indices: 715828--716061 Score: 231
Period size: 30 Copynumber: 7.8 Consensus size: 29
715818 TGTTAGTAGG
715828 TAAAATAGTAATTTTTGGAAAGTTT-AGGGCT
1 TAAAAT-GTAA-TTTTGGAAAGTTTAAGGG-T
* *
715859 AAAAATGTAATTTTGAAAAGTTTAAGGGT
1 TAAAATGTAATTTTGGAAAGTTTAAGGGT
* * *
715888 AAAAATGCAATTTTGGAAAGTTTTGAGGGT
1 TAAAATGTAATTTTGGAAAG-TTTAAGGGT
* *
715918 GAAAATGTAATTTTGCAAAG-TTAAGGGGT
1 TAAAATGTAATTTTGGAAAGTTTAA-GGGT
*
715947 TAAAATGTAATTTTTGAGAAGTTTAAGGGT
1 TAAAATGTAATTTTGGA-AAGTTTAAGGGT
*
715977 TAAAA-GATAATTTTTGGAAAGTTTAAGGGC
1 TAAAATG-TAA-TTTTGGAAAGTTTAAGGGT
* * *
716007 CAAAATGTAATTTTTAGAAAGTTTGAGGGT
1 TAAAATGTAA-TTTTGGAAAGTTTAAGGGT
* *
716037 TAAAATGTGATTTTTGGATAGTTTA
1 TAAAATGT-AATTTTGGAAAGTTTA
716062 GGGACCTTTT
Statistics
Matches: 171, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.02
29 50 0.29
30 101 0.59
31 17 0.10
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
TAAAATGTAATTTTGGAAAGTTTAAGGGT
Found at i:716050 original size:60 final size:59
Alignment explanation
Indices: 715771--716061 Score: 253
Period size: 60 Copynumber: 4.9 Consensus size: 59
715761 GTTCGAGGAC
* * * *
715771 AAAAATGTAATTTTTGGATA-TTCG-GGGGTAAAATGGTAATTTTTGG-ATG-TT-AGTAGGT
1 AAAAATGTAATTTTTGGAAAGTTTGAGGGTTAAAAT-GTAA-TTTTGGAAAGTTTAAG--GGT
* *
715829 -AAAATAGTAATTTTTGGAAAGTTT-AGGGCTAAAAATGTAATTTTGAAAAGTTTAAGGGT
1 AAAAAT-GTAATTTTTGGAAAGTTTGAGGG-TTAAAATGTAATTTTGGAAAGTTTAAGGGT
* * *
715888 AAAAATGCAA-TTTTGGAAAGTTTTGAGGGTGAAAATGTAATTTTGCAAAG-TTAAGGGGT
1 AAAAATGTAATTTTTGGAAAG-TTTGAGGGTTAAAATGTAATTTTGGAAAGTTTAA-GGGT
* * *
715947 TAAAATGTAATTTTT-GAGAAGTTTAAGGGTTAAAA-GATAATTTTTGGAAAGTTTAAGGGC
1 AAAAATGTAATTTTTGGA-AAGTTTGAGGGTTAAAATG-TAA-TTTTGGAAAGTTTAAGGGT
* * * *
716007 CAAAATGTAATTTTTAGAAAGTTTGAGGGTTAAAATGTGATTTTTGGATAGTTTA
1 AAAAATGTAATTTTTGGAAAGTTTGAGGGTTAAAATGT-AATTTTGGAAAGTTTA
716062 GGGACCTTTT
Statistics
Matches: 195, Mismatches: 19, Indels: 36
0.78 0.08 0.14
Matches are distributed among these distances:
57 5 0.03
58 33 0.17
59 68 0.35
60 79 0.41
61 10 0.05
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.37
Consensus pattern (59 bp):
AAAAATGTAATTTTTGGAAAGTTTGAGGGTTAAAATGTAATTTTGGAAAGTTTAAGGGT
Found at i:717842 original size:17 final size:17
Alignment explanation
Indices: 717822--717912 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 17
717812 AATTTTTAAT
717822 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
717839 TAAATTCAAATTTAAAA
1 TAAATTTAAATTTAAAA
* * * *
717856 TGAACTTAAATTCAAAG
1 TAAATTTAAATTTAAAA
* * *
717873 TAAATTTTAATTTATAC
1 TAAATTTAAATTTAAAA
*
717890 TAAATTCAAATTTAAAA
1 TAAATTTAAATTTAAAA
717907 TAAATT
1 TAAATT
717913 AAAAATAGGT
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Done.