Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001700.1 Hibiscus syriacus cultivar Beakdansim tig00003398_pilon, 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: 2632955
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:904914 original size:17 final size:17
Alignment explanation
Indices: 904859--904931 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
904849 TGAACTCTCC
904859 TTTTATTCATTTTCTT-T
1 TTTTATTCATTTT-TTAT
*
904876 TTTT-TCTCATTTTCTTTTT
1 TTTTAT-TCA-TTT-TTTAT
*
904895 TTTTCTTC-TTTTTTCAT
1 TTTTATTCATTTTTT-AT
904912 TTTTATTCATTTTTTAT
1 TTTTATTCATTTTTTAT
904929 TTT
1 TTT
904932 CTTTCTTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
16 4 0.09
17 23 0.49
18 11 0.23
19 8 0.17
20 1 0.02
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTCATTTTTTAT
Found at i:939212 original size:23 final size:22
Alignment explanation
Indices: 939176--939220 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
939166 ATTTTAGGTG
* * *
939176 CTTTTGTAAGCCCTGATCTTCAT
1 CTTTTGAAACCCCTCAT-TTCAT
939199 CTTTTGAAACCCCTCATTTCAT
1 CTTTTGAAACCCCTCATTTCAT
939221 TACCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.42
Consensus pattern (22 bp):
CTTTTGAAACCCCTCATTTCAT
Found at i:941332 original size:27 final size:27
Alignment explanation
Indices: 941297--941363 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
941287 TGAATGAAAG
* *
941297 GACTAAAATACCCTTGAACTCTAAAAT
1 GACTAAAATACCCTTAAAATCTAAAAT
* * *
941324 GACTTAAATACCGTTAAAATTTAAAAT
1 GACTAAAATACCCTTAAAATCTAAAAT
*
941351 GACCAAAATACCC
1 GACTAAAATACCC
941364 CGAGCTTTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (27 bp):
GACTAAAATACCCTTAAAATCTAAAAT
Found at i:945870 original size:38 final size:39
Alignment explanation
Indices: 945803--945925 Score: 142
Period size: 39 Copynumber: 3.2 Consensus size: 39
945793 TATACCAAAA
*
945803 AAATT-AAAAAAAAAAACTCTACATCTTCCAAGA-ACTCTT
1 AAATTCAAAATAAAAAACTCTA-A-CTTCCAAGAGACTCTT
* *
945842 AAATTCAAAATAAAATACTCTAACTTCCAAGAGAATCTT
1 AAATTCAAAATAAAAAACTCTAACTTCCAAGAGACTCTT
* * * * *
945881 AATTTCATAATAAAACACTTTAACTCCCAAGAGACTCTT
1 AAATTCAAAATAAAAAACTCTAACTTCCAAGAGACTCTT
945920 AAATTC
1 AAATTC
945926 CCCCATTAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
38 9 0.12
39 49 0.68
40 14 0.19
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.28
Consensus pattern (39 bp):
AAATTCAAAATAAAAAACTCTAACTTCCAAGAGACTCTT
Found at i:957686 original size:2 final size:2
Alignment explanation
Indices: 957679--957710 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
957669 TTTTAAGTAA
957679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
957711 GTTTAAGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:958380 original size:20 final size:20
Alignment explanation
Indices: 958355--958407 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
958345 GTTTGAGTCG
958355 AGTTGAGCCGAGCCACGTCT
1 AGTTGAGCCGAGCCACGTCT
958375 AGTTGAGCCGAGCCACGTCT
1 AGTTGAGCCGAGCCACGTCT
958395 AGTTGAGCCGAGC
1 AGTTGAGCCGAGC
958408 AGTTAGCCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.32, T:0.19
Consensus pattern (20 bp):
AGTTGAGCCGAGCCACGTCT
Found at i:960508 original size:32 final size:32
Alignment explanation
Indices: 960472--960559 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
960462 TAAGTTGACA
* **
960472 CTTGGGTAGGCTCTAAGGCCCCAAGTTATTCC
1 CTTGGGTAGGCTCTAAGGCCCCAAGGTACACC
* * * *
960504 CTTGGCTAGGCTCTTAGGACCCAAGGTACACT
1 CTTGGGTAGGCTCTAAGGCCCCAAGGTACACC
960536 CTTGGGTAGGCTCTCAA-GCCCCAA
1 CTTGGGTAGGCTCT-AAGGCCCCAA
960560 TATAATCTCT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
32 44 0.98
33 1 0.02
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (32 bp):
CTTGGGTAGGCTCTAAGGCCCCAAGGTACACC
Found at i:960570 original size:32 final size:30
Alignment explanation
Indices: 960472--960580 Score: 76
Period size: 32 Copynumber: 3.4 Consensus size: 30
960462 TAAGTTGACA
* *
960472 CTTGGGTAGGCTCTAAGGCCCCAAGTTATTCC
1 CTTGGGTAGGCTCTAA-GCCCCAA-TTAATCT
* * * *
960504 CTTGGCTAGGCTCTTAGGACCCAAGGTACA-CT
1 CTTGGGTAGGCTC-TAAGCCCCAA-TTA-ATCT
960536 CTTGGGTAGGCTCTCAAGCCCCAATATAATCT
1 CTTGGGTAGGCTCT-AAGCCCCAAT-TAATCT
* *
960568 CTTAGGTTGGCTC
1 CTTGGGTAGGCTC
960581 CTATGCCCAA
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
31 2 0.03
32 56 0.93
33 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (30 bp):
CTTGGGTAGGCTCTAAGCCCCAATTAATCT
Found at i:961077 original size:32 final size:31
Alignment explanation
Indices: 961041--961103 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
961031 CTGGATATTA
961041 TTGAA-TTCTATTTTTAATATATAAATGATTTT
1 TTGAACTTCTA-TTTT-ATATATAAATGATTTT
* * *
961073 TTGAACTTTTATTTTATCTATAAATTATTTT
1 TTGAACTTCTATTTTATATATAAATGATTTT
961104 ACAATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 14 0.52
32 9 0.33
33 4 0.15
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (31 bp):
TTGAACTTCTATTTTATATATAAATGATTTT
Found at i:966507 original size:21 final size:21
Alignment explanation
Indices: 966481--966522 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
966471 TCTACATCTT
966481 TACATTAGCAT-ATATACATTG
1 TACATTA-CATGATATACATTG
*
966502 TACATTACATGCTATACATTG
1 TACATTACATGATATACATTG
966523 CATCTCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
TACATTACATGATATACATTG
Found at i:967880 original size:25 final size:24
Alignment explanation
Indices: 967831--967897 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
967821 TAGATATAGC
* *
967831 AAAAAAATATAAGAAAATAGAGAA
1 AAAAAAAAATAAGAAAAAAGAGAA
*
967855 AAAAAAGAAATAAGAAAAAA-AGGA
1 AAAAAA-AAATAAGAAAAAAGAGAA
* *
967879 AAAACAAAATGAATAAAAA
1 AAAAAAAAAT-AAGAAAAA
967898 TAAAAAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.11
24 21 0.58
25 11 0.31
ACGTcount: A:0.78, C:0.01, G:0.12, T:0.09
Consensus pattern (24 bp):
AAAAAAAAATAAGAAAAAAGAGAA
Found at i:969932 original size:58 final size:57
Alignment explanation
Indices: 969850--970015 Score: 219
Period size: 58 Copynumber: 2.9 Consensus size: 57
969840 ATATTTTTAA
* * * **
969850 AAAGAATTTTT-AAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATTTTT
1 AAAGAATTTTTAAAAGATA-TAAGCCTAATTTTTAGGGGTTTCTTGATGATGATCTCC
* *
969907 AATGAATTTTTAAAAGCATATAAGCCTAATTTTTAGGGGTTTCTTGATGATTATCTCC
1 AAAGAATTTTTAAAAG-ATATAAGCCTAATTTTTAGGGGTTTCTTGATGATGATCTCC
969965 AAAGAATTTTTAAAAGA-AGTTAAGCCTAATTTTTAGGGGTTTCTTGATGAT
1 AAAGAATTTTTAAAAGATA--TAAGCCTAATTTTTAGGGGTTTCTTGATGAT
970016 AACTCAAAAC
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
56 1 0.01
57 11 0.11
58 83 0.86
59 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (57 bp):
AAAGAATTTTTAAAAGATATAAGCCTAATTTTTAGGGGTTTCTTGATGATGATCTCC
Found at i:970314 original size:38 final size:38
Alignment explanation
Indices: 970271--970359 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
970261 CAACATCTAG
* *
970271 CTTGAGATAGTTTCACTCAAAACATAAGATTTATCTCG
1 CTTGAGATAGTTTCACTCAAAACAAAAGATTTATCTCA
* * * *
970309 TTTGAGACATTTTCACTCGAAACAAAAGATTTATCTCA
1 CTTGAGATAGTTTCACTCAAAACAAAAGATTTATCTCA
*
970347 CTTGAGATTGTTT
1 CTTGAGATAGTTT
970360 TTCTTAAAAC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (38 bp):
CTTGAGATAGTTTCACTCAAAACAAAAGATTTATCTCA
Found at i:970471 original size:59 final size:59
Alignment explanation
Indices: 970375--970497 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 59
970365 AAAACGAAAA
* * * *
970375 ACGCCCCACAAGAGGGGTTAACATTTCCTTCATTCGATTCACGACATTTCGAATCAGTG
1 ACGCCCCACAAGAGGAGTTAACATTTCCTTCACTCGATTCACGACATTTCAAATCAGCG
* * ** * *
970434 ACGCCCCACCAGAGGAGTTAACTTTTCCTTTGCTCGATTCATGACATTTCAAATTAGCG
1 ACGCCCCACAAGAGGAGTTAACATTTCCTTCACTCGATTCACGACATTTCAAATCAGCG
970493 ACGCC
1 ACGCC
970498 TCACTTAAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (59 bp):
ACGCCCCACAAGAGGAGTTAACATTTCCTTCACTCGATTCACGACATTTCAAATCAGCG
Found at i:970594 original size:39 final size:39
Alignment explanation
Indices: 970515--970612 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
970505 AGGGATCAAC
* * *** *
970515 ATCTCATTTGAGGTAGTTTCACTTGGAAAATAAGATTTT
1 ATCTCATTTGAGATAGTTTTACTAAAAAAAAAAGATTTT
970554 ATCTCATTTGAGATAGTTTTACTCAAAAAAAAAAGA-TTT
1 ATCTCATTTGAGATAGTTTTACT-AAAAAAAAAAGATTTT
* *
970593 ATCTCACTTGAGATTGTTTT
1 ATCTCATTTGAGATAGTTTT
970613 TCTTAAAACG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
39 42 0.84
40 8 0.16
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (39 bp):
ATCTCATTTGAGATAGTTTTACTAAAAAAAAAAGATTTT
Found at i:970666 original size:252 final size:252
Alignment explanation
Indices: 970247--970828 Score: 798
Period size: 252 Copynumber: 2.3 Consensus size: 252
970237 TCAGCAATGG
** *
970247 CTCACTTGAGGGATCAACATCT-AGCTTGAGATAGTTTCACTCAAAACATAAGA-TTTATCTCGT
1 CTCACTTGAGGGATCAACATCTCA-CTTGAGATAGTTTCACTTGAAACATAAGATTTTATCTCAT
* * *
970310 TTGAGACA-TTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACGAAA
65 TTGAGATAGTTTTCACTCAAAAAAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACGAAA
* * * * *
970374 AACGCCCCACAAGAGGGGTTAACATTTCCTTCATTCGATTCACGACATTTCGAATCAGTGACGCC
130 AACACCCCACAAGAGGGATTAAAATTTCCTTCACTCGATTCACGACATTTCGAATCACTGACGCC
* * * * * * *
970439 CCACCAGAGGAGTTAACTTTTCCTTTGCTCGATTCATGACATTTCAAATTAGCGACGC
195 CCACCAAAGGAGTTAAATGTTCCTTTGCTCGATTCACGACATTTCAAATCAACGACCC
* * *
970497 CTCACTTAAGGGATCAACATCTCATTTGAGGTAGTTTCACTTGGAAA-ATAAGATTTTATCTCAT
1 CTCACTTGAGGGATCAACATCTCACTTGAGATAGTTTCACTT-GAAACATAAGATTTTATCTCAT
*
970561 TTGAGATAGTTTT-ACTCAAAAAAAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACGAT
65 TTGAGATAGTTTTCACTC-AAAAAAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACGAA
* * * *
970625 TAATACCCCACCAGAGGGATTAAAATTTCCTTCACTCGATTCACGACATTTCGAATCACTGATGC
129 AAACACCCCACAAGAGGGATTAAAATTTCCTTCACTCGATTCACGACATTTCGAATCACTGACGC
* * *
970690 CCTACCAAAGGGGTTAAATGTTCCTTTGCTCGATTCACGACATTTCGAATCAACGACCC
194 CCCACCAAAGGAGTTAAATGTTCCTTTGCTCGATTCACGACATTTCAAATCAACGACCC
* * *
970749 CTCACTTGAGGGATCAACATCTCGCTTGAGATAGTTTCACTTGAAACAGAAGATTTTATCTCACT
1 CTCACTTGAGGGATCAACATCTCACTTGAGATAGTTTCACTTGAAACATAAGATTTTATCTCATT
*
970814 TGAGAT-GGTTTCACT
66 TGAGATAGTTTTCACT
970829 TGAAACAGAA
Statistics
Matches: 289, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
250 42 0.15
251 32 0.11
252 215 0.74
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (252 bp):
CTCACTTGAGGGATCAACATCTCACTTGAGATAGTTTCACTTGAAACATAAGATTTTATCTCATT
TGAGATAGTTTTCACTCAAAAAAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACGAAAA
ACACCCCACAAGAGGGATTAAAATTTCCTTCACTCGATTCACGACATTTCGAATCACTGACGCCC
CACCAAAGGAGTTAAATGTTCCTTTGCTCGATTCACGACATTTCAAATCAACGACCC
Found at i:970816 original size:39 final size:39
Alignment explanation
Indices: 970767--971019 Score: 303
Period size: 39 Copynumber: 6.5 Consensus size: 39
970757 AGGGATCAAC
*
970767 ATCTCGCTTGAGATAGTTTCACTTGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
970806 ATCTCACTTGAGATGGTTTCACTTGAAACAGAAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
* * * *
970846 ATCTCGCATGAGATAGTTTCACTCGATACAAAAGATTTC
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
970885 ATCTTGCTTGAGATGGTTTAACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
970924 ATCTTC-CTTAAGATAATTTCACTCGAAACAGGAGATTTT
1 ATC-TCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
970963 ATCTCGCTTGAGATAGTTTCACTCGTAACAAAACA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
971001 ATCTCACTTGAGATTGTTT
1 ATCTCGCTTGAGATAGTTT
971020 TTCTTCAAAC
Statistics
Matches: 181, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
38 22 0.12
39 125 0.69
40 34 0.19
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:970898 original size:79 final size:78
Alignment explanation
Indices: 970767--971019 Score: 312
Period size: 79 Copynumber: 3.2 Consensus size: 78
970757 AGGGATCAAC
* * *
970767 ATCTCGCTTGAGATAGTTTCACTTGAAACAGAAGATTTTATCTCACTTGAGATGGTTTCACTTGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATGGTTTCACTCGA
970832 AACAGAAGATTTTT
66 AACAGAAGA-TTTT
* * * * * *
970846 ATCTCGCATGAGATAGTTTCACTCGATACAAAAGATTTCATCTTGCTTGAGATGGTTTAACTCGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATGGTTTCACTCGA
970911 AACAGAAGATTTT
66 AACAGAAGATTTT
* * * *
970924 ATCTTC-CTTAAGATAATTTCACTCGAAACAGGAGATTTTATCTCGCTTGAGATAGTTTCACTCG
1 ATC-TCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATGGTTTCACTCG
* * *
970988 TAACAAAACA-TTT
65 AAACAGAAGATTTT
* *
971001 ATCTCACTTGAGATTGTTT
1 ATCTCGCTTGAGATAGTTT
971020 TTCTTCAAAC
Statistics
Matches: 147, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
76 2 0.01
77 16 0.11
78 62 0.42
79 67 0.46
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (78 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATGGTTTCACTCGA
AACAGAAGATTTT
Found at i:971773 original size:2 final size:2
Alignment explanation
Indices: 971768--971808 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
971758 TCATTTCAAT
*
971768 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
971809 TGTTTTCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:972631 original size:21 final size:22
Alignment explanation
Indices: 972594--972634 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
972584 TTTTATTGTA
972594 ATTTAGTCACTATTTATTTCTG
1 ATTTAGTCACTATTTATTTCTG
972616 ATTTAG-CTACTA-TTATTTC
1 ATTTAGTC-ACTATTTATTTC
972635 AAAATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (22 bp):
ATTTAGTCACTATTTATTTCTG
Found at i:976354 original size:2 final size:2
Alignment explanation
Indices: 976347--976408 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
976337 TGTAAGAATC
976347 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
976389 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
976409 TAATTTTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:979191 original size:41 final size:41
Alignment explanation
Indices: 979094--979197 Score: 124
Period size: 41 Copynumber: 2.5 Consensus size: 41
979084 CAATAACGGT
* *
979094 GTTTATAGTAAAAACGCCGCAATATAGTAGACATTTAGCGGC
1 GTTTATAGT-AAAACGCCGCAATATAGTAGACATATAGCGAC
979136 GTTT-TAGCTAAAACGCCGCAATATAGT-GTA-ATATAGCGAC
1 GTTTATAG-TAAAACGCCGCAATATAGTAG-ACATATAGCGAC
*
979176 GTTTATTGTATAAACGCCGCAA
1 GTTTATAGTA-AAACGCCGCAA
979198 AAAACATGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
40 15 0.27
41 35 0.64
42 5 0.09
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (41 bp):
GTTTATAGTAAAACGCCGCAATATAGTAGACATATAGCGAC
Found at i:979236 original size:40 final size:42
Alignment explanation
Indices: 979162--979239 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
979152 CGCAATATAG
* *
979162 TGTAATATAGCGACGTTTATTGTATAAACGCCGCAAAAAACA
1 TGTAATATAGCGACGTTTATTGTAAAAACACCGCAAAAAACA
* *
979204 TGTAATATAGTGGCG-TT-TTGTAAAAACACCGCAAAA
1 TGTAATATAGCGACGTTTATTGTAAAAACACCGCAAAA
979240 TGTTAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 17 0.53
41 2 0.06
42 13 0.41
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (42 bp):
TGTAATATAGCGACGTTTATTGTAAAAACACCGCAAAAAACA
Found at i:980398 original size:57 final size:57
Alignment explanation
Indices: 980263--980449 Score: 367
Period size: 57 Copynumber: 3.3 Consensus size: 57
980253 GTGAAGACTG
980263 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTT-TTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
980319 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
980376 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
980433 TTTATGCATAAGTACTT
1 TTTATGCATAAGTACTT
980450 CTGTTTTAAT
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
56 47 0.36
57 83 0.64
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (57 bp):
TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
Found at i:980696 original size:42 final size:41
Alignment explanation
Indices: 980647--980732 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 41
980637 GGCTTTTTAC
* *
980647 AAATGCCG-CAATAGGTGTATTATATAGTGGCGTTTTTATAAA
1 AAATGCCGAAAATAGGTGTATT-T-TAGTGGCGTTTGTATAAA
**
980689 AAATGCCGTAAAATATTTGTATTTTAGTGGCGTTTGTATAAA
1 AAATGCCG-AAAATAGGTGTATTTTAGTGGCGTTTGTATAAA
980731 AA
1 AA
980733 CGCCGCTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 27 0.71
43 1 0.03
44 10 0.26
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (41 bp):
AAATGCCGAAAATAGGTGTATTTTAGTGGCGTTTGTATAAA
Found at i:980756 original size:41 final size:41
Alignment explanation
Indices: 980711--980805 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
980701 ATATTTGTAT
980711 TTTAGTGGCGTTTGTATAAAAACGCCGCTATAGACTTC-TAC
1 TTTAGTGGCGTTTGTATAAAAACGCCGCTATAGAC-TCGTAC
* *
980752 TTTAGTGGCGTTCGTATGAAAACGCCGCTATAGACTCGTAC
1 TTTAGTGGCGTTTGTATAAAAACGCCGCTATAGACTCGTAC
980793 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
980806 TCGTAGAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 2 0.04
41 48 0.96
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTAGTGGCGTTTGTATAAAAACGCCGCTATAGACTCGTAC
Found at i:980816 original size:41 final size:41
Alignment explanation
Indices: 980711--980820 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 41
980701 ATATTTGTAT
* *
980711 TTTAGTGGCGTTTGT-ATAAAAACGCCGCTATAGACTTCTAC
1 TTTAGTGGCGTTT-TCGTAGAAACGCCGCTATAGACTTCTAC
980752 TTTAGTGGCG--TTCGTATGAAAACGCCGCTATAGAC-TCGTAC
1 TTTAGTGGCGTTTTCGTA-G-AAACGCCGCTATAGACTTC-TAC
980793 TTTAGTGGCGTTTTCGTAGAAACGCCGC
1 TTTAGTGGCGTTTTCGTAGAAACGCCGC
980821 AAAGTATTAG
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 2 0.03
41 48 0.79
42 1 0.02
43 6 0.10
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTAGTGGCGTTTTCGTAGAAACGCCGCTATAGACTTCTAC
Found at i:980838 original size:41 final size:42
Alignment explanation
Indices: 980793--980909 Score: 118
Period size: 42 Copynumber: 2.8 Consensus size: 42
980783 AGACTCGTAC
*
980793 TTTAGTGGCGTTTT-CGT-AGAAACGCCGCAAA-GTAT-TAGTAA
1 TTTAGTGGCGTTTTGC-TAACAAACGCCGCAAATG-ATGT-GTAA
** *
980834 TTTAGCAGCGTTTTGCTAACAAACGCCGCAAATGATGTGTAC
1 TTTAGTGGCGTTTTGCTAACAAACGCCGCAAATGATGTGTAA
*
980876 TTTAGTGGCGTTTTGAC-AAAAAACGCCGCAAATG
1 TTTAGTGGCGTTTTG-CTAACAAACGCCGCAAATG
980910 TTTTTAACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
41 13 0.20
42 48 0.75
43 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (42 bp):
TTTAGTGGCGTTTTGCTAACAAACGCCGCAAATGATGTGTAA
Found at i:980923 original size:42 final size:42
Alignment explanation
Indices: 980841--980949 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
980831 TAATTTAGCA
* *
980841 GCGTTTTG-CTAACAAACGCCGCAAATGATGTGTACTTTAGTG
1 GCGTTTTGAC-AAAAAACGCCGCAAATGATGTGTACATTAGTG
* * *
980883 GCGTTTTGACAAAAAACGCCGCAAATG-TTTTTAACATTAGTT
1 GCGTTTTGACAAAAAACGCCGCAAATGATGTGT-ACATTAGTG
*
980925 GCGTTTTTA-ATTAAAAACGCCGCAA
1 GCGTTTTGACA--AAAAACGCCGCAA
980950 TTGGTTACCC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
41 4 0.07
42 39 0.68
43 14 0.25
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (42 bp):
GCGTTTTGACAAAAAACGCCGCAAATGATGTGTACATTAGTG
Found at i:981801 original size:46 final size:46
Alignment explanation
Indices: 981731--981821 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
981721 CTAAGGTACT
*
981731 TACTTGCCTTCATTCCTCTTTCTTGTTTGACCATGTAGTTATTTCG
1 TACTTGCCTTCATTCCTCTGTCTTGTTTGACCATGTAGTTATTTCG
*
981777 TACTTGCCTTCGTTCCTCTGTCTTGTTTGACCATGTAGTTATTTC
1 TACTTGCCTTCATTCCTCTGTCTTGTTTGACCATGTAGTTATTTC
981822 AGAATCGCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.12, C:0.24, G:0.14, T:0.49
Consensus pattern (46 bp):
TACTTGCCTTCATTCCTCTGTCTTGTTTGACCATGTAGTTATTTCG
Found at i:983433 original size:43 final size:43
Alignment explanation
Indices: 983376--983523 Score: 197
Period size: 43 Copynumber: 3.4 Consensus size: 43
983366 CGCCAAATCA
* *
983376 AACACATATTGCGGCGTTTAAGCTAAAAACGCCACGAAACCTT
1 AACACCTATTGCGGCGTTTAAGATAAAAACGCCACGAAACCTT
* * *
983419 AACACTTATTGCGGCGTTTACGATAAAAACGCCGCGAAACCTT
1 AACACCTATTGCGGCGTTTAAGATAAAAACGCCACGAAACCTT
** * * *
983462 AACACCTATTGCGGCGTTTGTGATAAAAACGCCACTAAACATC
1 AACACCTATTGCGGCGTTTAAGATAAAAACGCCACGAAACCTT
*
983505 AACACCTACTGCGGCGTTT
1 AACACCTATTGCGGCGTTT
983524 CTGGGAAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
AACACCTATTGCGGCGTTTAAGATAAAAACGCCACGAAACCTT
Found at i:983533 original size:43 final size:43
Alignment explanation
Indices: 983376--983566 Score: 177
Period size: 43 Copynumber: 4.4 Consensus size: 43
983366 CGCCAAATCA
* * ** * * *
983376 AACACATATTGCGGCGTTTAAGCTAAAAACGCCACGAAACCTT
1 AACACCTACTGCGGCGTTTCTGATAAAAACGCCACGAAACATC
* * * * *
983419 AACACTTATTGCGGCGTTTAC-GATAAAAACGCCGCGAAACCTT
1 AACACCTACTGCGGCGTTT-CTGATAAAAACGCCACGAAACATC
* * *
983462 AACACCTATTGCGGCGTTTGTGATAAAAACGCCACTAAACATC
1 AACACCTACTGCGGCGTTTCTGATAAAAACGCCACGAAACATC
** * * *
983505 AACACCTACTGCGGCGTTTCTGGGAAAAACGCCGCTAAAAATC
1 AACACCTACTGCGGCGTTTCTGATAAAAACGCCACGAAACATC
*
983548 GACACCTACTGCGGCGTTT
1 AACACCTACTGCGGCGTTT
983567 GTCTTCCAAA
Statistics
Matches: 129, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
AACACCTACTGCGGCGTTTCTGATAAAAACGCCACGAAACATC
Found at i:983533 original size:86 final size:86
Alignment explanation
Indices: 983370--983695 Score: 237
Period size: 86 Copynumber: 3.8 Consensus size: 86
983360 AGACGCCGCC
* ** * * * * *
983370 AAATCAAACACATATTGCGGCGTTTAAGCTAAAAACGCCACGAAACCTTAACACTTATTGCGGCG
1 AAATC-AACACCTATTGCGGCGTTTGTGATAAAAACGCCACTAAACATCAACACCTATTGCGGCG
*
983435 TTTACGATAAAAACGCCGCGAA
65 TTTACGAGAAAAACGCCGCGAA
** * *
983457 ACCTTAACACCTATTGCGGCGTTTGTGATAAAAACGCCACTAAACATCAACACCTACTGCGGCGT
1 AAATCAACACCTATTGCGGCGTTTGTGATAAAAACGCCACTAAACATCAACACCTATTGCGGCGT
* *
983522 TT-CTGGGAAAAACGCCGCTAA
66 TTAC-GAGAAAAACGCCGCGAA
* * ** ** * * * *
983543 AAATCGACACCTACTGCGGCGTTTGTCTTCCAAATGCCGCTAAATATCAACATCTATTGCGGCGT
1 AAATCAACACCTATTGCGGCGTTTGTGATAAAAACGCCACTAAACATCAACACCTATTGCGGCGT
* **** *
983608 TTGTC-TTCCAAACGCCGCTAA
66 TT-ACGAGAAAAACGCCGCGAA
* * * * * * *
983629 ATATCAACATCTATTGTGGTGTTTGTCTG-T-CAAACGCCGCTAAATATCAACACCTATTGCGGC
1 AAATCAACACCTATTGCGGCGTTTG--TGATAAAAACGCCACTAAACATCAACACCTATTGCGGC
983692 GTTT
64 GTTT
983696 TTTCTTGAAA
Statistics
Matches: 192, Mismatches: 42, Indels: 11
0.78 0.17 0.04
Matches are distributed among these distances:
85 1 0.01
86 186 0.97
87 3 0.02
88 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (86 bp):
AAATCAACACCTATTGCGGCGTTTGTGATAAAAACGCCACTAAACATCAACACCTATTGCGGCGT
TTACGAGAAAAACGCCGCGAA
Found at i:983582 original size:43 final size:43
Alignment explanation
Indices: 983462--983695 Score: 263
Period size: 43 Copynumber: 5.4 Consensus size: 43
983452 GCGAAACCTT
** * * *
983462 AACACCTATTGCGGCGTTTGTGATAAAAACGCCACTAAACATC
1 AACACCTATTGCGGCGTTTGTCTTACAAACGCCGCTAAATATC
* * *** * *
983505 AACACCTACTGCGGCGTTTCTGGGAAAAACGCCGCTAAAAATC
1 AACACCTATTGCGGCGTTTGTCTTACAAACGCCGCTAAATATC
* * * *
983548 GACACCTACTGCGGCGTTTGTCTTCCAAATGCCGCTAAATATC
1 AACACCTATTGCGGCGTTTGTCTTACAAACGCCGCTAAATATC
* *
983591 AACATCTATTGCGGCGTTTGTCTTCCAAACGCCGCTAAATATC
1 AACACCTATTGCGGCGTTTGTCTTACAAACGCCGCTAAATATC
* * *
983634 AACATCTATTGTGGTGTTTGTCTGT-CAAACGCCGCTAAATATC
1 AACACCTATTGCGGCGTTTGTCT-TACAAACGCCGCTAAATATC
983677 AACACCTATTGCGGCGTTT
1 AACACCTATTGCGGCGTTT
983696 TTTCTTGAAA
Statistics
Matches: 166, Mismatches: 24, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
43 165 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
AACACCTATTGCGGCGTTTGTCTTACAAACGCCGCTAAATATC
Found at i:987322 original size:32 final size:32
Alignment explanation
Indices: 987286--987405 Score: 111
Period size: 32 Copynumber: 3.8 Consensus size: 32
987276 TAAGGTGACA
* *
987286 CTTGGGTAGGCTCTGAAGCCCCAAGGTATTTC
1 CTTGGGTAGGCTCTTAAGCCCCAAGGTATTAC
* * *
987318 CTTGGGTAGTCT-TTAAGGCCCTAAGGTATTCC
1 CTTGGGTAGGCTCTTAA-GCCCCAAGGTATTAC
* * * *
987350 CTTGGATAGGCTCTTAGGACCCAAGGTA-CAC
1 CTTGGGTAGGCTCTTAAGCCCCAAGGTATTAC
987381 TCTTGGGTAGGCT-TTCAAGCCCCAA
1 -CTTGGGTAGGCTCTT-AAGCCCCAA
987406 TATAATCCCT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
31 6 0.09
32 61 0.87
33 3 0.04
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (32 bp):
CTTGGGTAGGCTCTTAAGCCCCAAGGTATTAC
Found at i:988934 original size:30 final size:29
Alignment explanation
Indices: 988900--988980 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 29
988890 TTTAAAACTA
988900 ATTTATTATTTATATTTTAATAATATTTAT
1 ATTTATTATTTATATTTTAATAATA-TTAT
* * *
988930 ATTTATTACTAATAATTTT-A-GA-ATTAT
1 ATTTATTATTTAT-ATTTTAATAATATTAT
*
988957 -TTTATTATTTATATTCTAATAATA
1 ATTTATTATTTATATTTTAATAATA
988981 GTTTTTAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
25 4 0.10
26 11 0.28
27 5 0.12
28 2 0.05
29 1 0.03
30 12 0.30
31 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (29 bp):
ATTTATTATTTATATTTTAATAATATTAT
Found at i:989303 original size:2 final size:2
Alignment explanation
Indices: 989296--989329 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
989286 ATTAGCGTTC
989296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
989330 GGGTTGGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:998272 original size:18 final size:18
Alignment explanation
Indices: 998246--998287 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
998236 GGAGGGTTTT
*
998246 TTAATCAAATTAAATGAA
1 TTAACCAAATTAAATGAA
998264 TTAACCAAATTAAATGAA
1 TTAACCAAATTAAATGAA
998282 TTAACC
1 TTAACC
998288 GAAAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (18 bp):
TTAACCAAATTAAATGAA
Found at i:998386 original size:7 final size:7
Alignment explanation
Indices: 998374--998398 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
998364 TAACCGAAAG
998374 TATTGAA
1 TATTGAA
998381 TATTGAA
1 TATTGAA
998388 TATTGAA
1 TATTGAA
998395 TATT
1 TATT
998399 TTGGTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (7 bp):
TATTGAA
Found at i:999805 original size:9 final size:9
Alignment explanation
Indices: 999791--999846 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
999781 AAATATTTCG
999791 TTAATATTA
1 TTAATATTA
*
999800 TTAATAATA
1 TTAATATTA
*
999809 ATAATTATTA
1 TTAA-TATTA
*
999819 TTTA-ATTA
1 TTAATATTA
*
999827 TTATTATTA
1 TTAATATTA
*
999836 TTATTATTA
1 TTAATATTA
999845 TT
1 TT
999847 TCTTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 6 0.16
9 26 0.68
10 6 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTAATATTA
Found at i:999818 original size:3 final size:3
Alignment explanation
Indices: 999812--999846 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
999802 AATAATAATA
*
999812 ATT ATT ATT -TA ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
999847 TCTTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 28 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:999823 original size:20 final size:20
Alignment explanation
Indices: 999795--999840 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
999785 ATTTCGTTAA
999795 TATTA-TTAATAATAATAAT
1 TATTATTTAATAATAATAAT
* * *
999814 TATTATTTAATTATTATTAT
1 TATTATTTAATAATAATAAT
999834 TATTATT
1 TATTATT
999841 ATTATTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATTTAATAATAATAAT
Found at i:1000642 original size:16 final size:16
Alignment explanation
Indices: 1000621--1000651 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1000611 TAAAAATTAC
1000621 AAAAAGAAAGAAAGAA
1 AAAAAGAAAGAAAGAA
*
1000637 AAAAAGAGAGAAAGA
1 AAAAAGAAAGAAAGA
1000652 TGAGAGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAGAA
Found at i:1000694 original size:28 final size:28
Alignment explanation
Indices: 1000659--1000724 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
1000649 AGATGAGAGA
*
1000659 AAGGGGGTTGAATGGTTGAGGGAGAAAT
1 AAGGGGGTTAAATGGTTGAGGGAGAAAT
1000687 AAGGGGGTTAAATGGTTGAGGGAGAAAT
1 AAGGGGGTTAAATGGTTGAGGGAGAAAT
1000715 AAGGGGGTTA
1 AAGGGGGTTA
1000725 GGTTTTCCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.45, T:0.21
Consensus pattern (28 bp):
AAGGGGGTTAAATGGTTGAGGGAGAAAT
Found at i:1007866 original size:13 final size:13
Alignment explanation
Indices: 1007848--1007877 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1007838 GTCACAACCC
1007848 GACCCGACCCGTT
1 GACCCGACCCGTT
1007861 GACCCGACCCGTT
1 GACCCGACCCGTT
1007874 GACC
1 GACC
1007878 GTTGACCGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1008105 original size:16 final size:17
Alignment explanation
Indices: 1008073--1008105 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1008063 TGATTTTGAC
*
1008073 CGAAAATTCCAAATTTT
1 CGAAAAGTCCAAATTTT
1008090 CGAAAAGTCC-AATTTT
1 CGAAAAGTCCAAATTTT
1008106 ATGCTTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (17 bp):
CGAAAAGTCCAAATTTT
Found at i:1010410 original size:23 final size:24
Alignment explanation
Indices: 1010363--1010453 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
1010353 TCTGATTTGA
* * *
1010363 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
1010387 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
*
1010410 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
* *
1010434 ATTCTAATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
1010454 TTGAATTATG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.37
24 36 0.63
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:1010423 original size:47 final size:48
Alignment explanation
Indices: 1010363--1010453 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
1010353 TCTGATTTGA
* * * *
1010363 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTCTAATATGATACTTGACATGG
*
1010410 ATTCTGATCTGATACATGACCTGGATTCTAATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTCTAATATGATACTTGAC
1010454 TTGAATTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTCTAATATGATACTTGACATGG
Found at i:1010577 original size:35 final size:35
Alignment explanation
Indices: 1010530--1010604 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
1010520 TGGAGGAAGA
*
1010530 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1010565 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1010600 TTACT
1 TTACT
1010605 GTTCGTGACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.09, C:0.29, G:0.28, T:0.33
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
Found at i:1012382 original size:33 final size:33
Alignment explanation
Indices: 1012332--1012399 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
1012322 GTTCTCTAAT
* *
1012332 TTGTGTTTGTTTTAATTTAGTCACTA-TTATTA
1 TTGTGTTTATTTGAATTTAGTCACTAGTTATTA
* *
1012364 TTGTGGTTTATTTGAATTTATTCACTAGTTTTTA
1 TTGT-GTTTATTTGAATTTAGTCACTAGTTATTA
1012398 TT
1 TT
1012400 TTTATTCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 4 0.13
33 19 0.63
34 7 0.23
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (33 bp):
TTGTGTTTATTTGAATTTAGTCACTAGTTATTA
Found at i:1018607 original size:38 final size:38
Alignment explanation
Indices: 1018559--1019126 Score: 406
Period size: 38 Copynumber: 14.2 Consensus size: 38
1018549 CCTAGAAACA
* **
1018559 TCAATATTTGTTATTCTTGACTTTATCGTGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * *
1018597 TCGATCTTTGTTATTCTTGACTTTCTCATGAAGAAAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * *
1018635 CCAATCGTTGTTATTATTGAC-TCTCTCGTGAAGAGTAG
1 TCAATCTTTGTTATTCTTGACTTC-CTCGTGAAGAGAAG
* **
1018673 TCAATCTTTTAATGTTATTCTTGACATCCTCGTGAAGAGTGG
1 TCAATC--TT--TGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * *
1018715 TCAATCTTTGTTATTCTTAAATTCCTCATGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
1018753 TCAATCTTTGTTATTTTTGACTTCCTCGTGAAGAGAGG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
1018791 TCAATCTTTGTTATTCTTCACTTCCTCATGAAGAGAAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * *
1018829 TCAATATTTGTTATTCTTGACTCCCTCGTGAAGAGGAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
1018867 TTAATCTTTAAATGTTATTCTCGACTTCCTCGTGAAGAGAAG
1 TCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * *
1018909 TTAATCTTTCGGTATTGTCTTTCTTGAC-TCCATCATGAAGATG-AG
1 TCAATCTTT--G---T-T-ATTCTTGACTTCC-TCGTGAAGA-GAAG
** * ** *
1018954 TCAATCTTTCAATGTTATTCTCAAATTAATCTTGAAGAGAAG
1 TCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAG
* *
1018996 TCAATCTTTGTTATTCTTGACTCCCTCATGAAGA-AGAG
1 TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGA-AG
* * * *
1019034 TCAATATTTCAATATTATTCTTGACTTCCTTGTGAAGAGGAG
1 TCAAT-CTT---TGTTATTCTTGACTTCCTCGTGAAGAGAAG
* * * * *
1019076 TCAATATTTCAGTGTTATTCTTGGCTTTCTCATGAAGATAAG
1 TCAAT-CTT---TGTTATTCTTGACTTCCTCGTGAAGAGAAG
*
1019118 CCAATCTTT
1 TCAATCTTT
1019127 CAGTGATGTC
Statistics
Matches: 423, Mismatches: 76, Indels: 62
0.75 0.14 0.11
Matches are distributed among these distances:
37 2 0.00
38 222 0.52
39 4 0.01
40 4 0.01
41 7 0.02
42 147 0.35
43 5 0.01
44 5 0.01
45 22 0.05
46 3 0.01
47 1 0.00
49 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (38 bp):
TCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAG
Found at i:1018655 original size:76 final size:76
Alignment explanation
Indices: 1018559--1019080 Score: 388
Period size: 80 Copynumber: 6.6 Consensus size: 76
1018549 CCTAGAAACA
* ** * * *
1018559 TCAATATTTGTTATTCTTGACTTTATCGTGAAGAGAAGTCGATCTTTGTTATTCTTGACTTTCTC
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTC
* * *
1018624 ATGAAGAAAAG
66 GTGAAGAGAGG
* * * * * *
1018635 CCAATCGTTGTTATTATTGAC-TCTCTCGTGAAGAGTAGTCAATCTTTTAATGTTATTCTTGACA
1 TCAATCTTTGTTATTCTTGACTTC-CTCATGAAGAGAAGTCAATC--TT--TGTTATTCTTGACT
*
1018699 TCCTCGTGAAGAGTGG
61 TCCTCGTGAAGAGAGG
* * *
1018715 TCAATCTTTGTTATTCTTAAATTCCTCATGAAGAGAAGTCAATCTTTGTTATTTTTGACTTCCTC
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTC
1018780 GTGAAGAGAGG
66 GTGAAGAGAGG
* * *
1018791 TCAATCTTTGTTATTCTTCACTTCCTCATGAAGAGAAGTCAATATTTGTTATTCTTGACTCCCTC
1 TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTC
1018856 GTGAAGAG-GAG
66 GTGAAGAGAG-G
* * * * *
1018867 TTAATCTTTAAATGTTATTCTCGACTTCCTCGTGAAGAGAAGTTAATCTTTCGGTATTGTCTTTC
1 TCAATC-TT---TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTT--G---T-T-ATTC
*
1018932 TTGAC-TCCATCATGAAGATGA-G
55 TTGACTTCC-TCGTGAAGA-GAGG
** * ** * *
1018954 TCAATCTTTCAATGTTATTCTCAAATTAATCTTGAAGAGAAGTCAATCTTTGTTATTCTTGACTC
1 TCAATC-TT---TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
*
1019019 CCTCATGAAGA-AGAG
62 CCTCGTGAAGAGAG-G
* * ** *
1019034 TCAATATTTCAATATTATTCTTGACTTCCTTGTGAAGAGGAGTCAAT
1 TCAAT-CTT---TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT
1019081 ATTTCAGTGT
Statistics
Matches: 363, Mismatches: 58, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
75 2 0.01
76 135 0.37
77 2 0.01
78 5 0.01
80 146 0.40
81 5 0.01
82 2 0.01
85 2 0.01
86 3 0.01
87 60 0.17
88 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (76 bp):
TCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTC
GTGAAGAGAGG
Found at i:1018697 original size:42 final size:40
Alignment explanation
Indices: 1018567--1019211 Score: 314
Period size: 38 Copynumber: 15.8 Consensus size: 40
1018557 CATCAATATT
* *
1018567 TGTTATTCTTGACTTTATCGTGAAGAGAAGTCGATC--TT-
1 TGTTATTCTTGAC-TTCTCGTGAAGAGAAGTCAATCTTTTA
* * * *
1018605 TGTTATTCTTGACTTTCTCATGAAGAAAAGCCAATC--GT-
1 TGTTATTCTTGAC-TTCTCGTGAAGAGAAGTCAATCTTTTA
* *
1018643 TGTTATTATTGACTCTCTCGTGAAGAGTAGTCAATCTTTTAA
1 TGTTATTCTTGACT-TCTCGTGAAGAGAAGTCAATCTTTT-A
* **
1018685 TGTTATTCTTGACATCCTCGTGAAGAGTGGTCAATC--TT-
1 TGTTATTCTTGAC-TTCTCGTGAAGAGAAGTCAATCTTTTA
* * *
1018723 TGTTATTCTTAAATTCCTCATGAAGAGAAGTCAATC--TT-
1 TGTTATTCTTGACTT-CTCGTGAAGAGAAGTCAATCTTTTA
* *
1018761 TGTTATTTTTGACTTCCTCGTGAAGAGAGGTCAATC--TT-
1 TGTTATTCTTGACTT-CTCGTGAAGAGAAGTCAATCTTTTA
* * *
1018799 TGTTATTCTTCACTTCCTCATGAAGAGAAGTCAA--TATT-
1 TGTTATTCTTGACTT-CTCGTGAAGAGAAGTCAATCTTTTA
* * * *
1018837 TGTTATTCTTGACTCCCTCGTGAAGAGGAGTTAATCTTTAAA
1 TGTTATTCTTGACT-TCTCGTGAAGAGAAGTCAATCTTT-TA
* *
1018879 TGTTATTCTCGACTTCCTCGTGAAGAGAAGTTAATCTTTCGGTA
1 TGTTATTCTTGACTT-CTCGTGAAGAGAAGTCAATCTTT---TA
* * *
1018923 TTGTCT-TTCTTGACTCCATCATGAAGATG-AGTCAATCTTTCAA
1 -TGT-TATTCTTGACTTC-TCGTGAAGA-GAAGTCAATCTTT-TA
** * * *
1018966 TGTTATTCTCAAATTAATCTTGAAGAGAAGTCAATC--TT-
1 TGTTATTCTTGACTT-CTCGTGAAGAGAAGTCAATCTTTTA
* * * *
1019004 TGTTATTCTTGACTCCCTCATGAAGA-AGAGTCAATATTTCAA
1 TGTTATTCTTGACT-TCTCGTGAAGAGA-AGTCAATCTTT-TA
* * * * *
1019046 TATTATTCTTGACTTCCTTGTGAAGAGGAGTCAATATTTCA
1 TGTTATTCTTGACTT-CTCGTGAAGAGAAGTCAATCTTTTA
* * * *
1019087 GTGTTATTCTTGGCTTTCTCATGAAGATAAGCCAATCTTTCAGTGA
1 -TGTTATTCTTGAC-TTCTCGTGAAGAGAAGTCAATCTTT---T-A
* * * *
1019133 TGTCATTCTTTACTTTCTCGTGAAGAGGAGTTAA-CTTTTACTA
1 TGTTATTCTTGAC-TTCTCGTGAAGAGAAGTCAATC-TTT--TA
* * *
1019176 TTTTCATTCTTGAATTTCCCGTGAAGAGAAGTCAAT
1 TGTT-ATTCTTG-ACTTCTCGTGAAGAGAAGTCAAT
1019212 GTTTCAATGT
Statistics
Matches: 471, Mismatches: 94, Indels: 77
0.73 0.15 0.12
Matches are distributed among these distances:
37 3 0.01
38 210 0.45
40 7 0.01
41 3 0.01
42 151 0.32
43 7 0.01
44 28 0.06
45 59 0.13
46 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (40 bp):
TGTTATTCTTGACTTCTCGTGAAGAGAAGTCAATCTTTTA
Found at i:1019128 original size:84 final size:87
Alignment explanation
Indices: 1018803--1019163 Score: 229
Period size: 80 Copynumber: 4.3 Consensus size: 87
1018793 AATCTTTGTT
* * * * *
1018803 ATTCTTCACTTCCTCATGAAGAGAAGTCAATA-TT---TGTTATTCTTGACTCCCTCGTGAAGAG
1 ATTCTTGACTTCCTCGTGAAGAGGAGTCAATATTTCAGTGTTATTCTTGACTCCCTCATGAAGAA
** * *
1018864 GAGTTAATCTTT-AA--ATGTT
66 GAGCCAATATTTCAATGATGTC
* * * * * *
1018883 ATTCTCGACTTCCTCGTGAAGAGAAGTTAATCTTTCGGTATTGTCT-TTCTTGACTCCATCATGA
1 ATTCTTGACTTCCTCGTGAAGAGGAGTCAATATTTC---AGTGT-TATTCTTGACTCCCTCATGA
* * *
1018947 AGATGAGTCAATCTTTCAATG-T-T-
62 AGAAGAGCCAATATTTCAATGATGTC
** * ** * * *
1018970 ATTCTCAAATTAATCTTGAAGAGAAGTCAAT-CTT---TGTTATTCTTGACTCCCTCATGAAGAA
1 ATTCTTGACTTCCTCGTGAAGAGGAGTCAATATTTCAGTGTTATTCTTGACTCCCTCATGAAGAA
*
1019031 GAGTCAATATTTCAAT-AT-T-
66 GAGCCAATATTTCAATGATGTC
* * **
1019050 ATTCTTGACTTCCTTGTGAAGAGGAGTCAATATTTCAGTGTTATTCTTGGCTTTCTCATGAAGAT
1 ATTCTTGACTTCCTCGTGAAGAGGAGTCAATATTTCAGTGTTATTCTTGACTCCCTCATGAAGA-
* *
1019115 A-AGCCAATCTTTCAGTGATGTC
65 AGAGCCAATATTTCAATGATGTC
* *
1019137 ATTCTTTACTTTCTCGTGAAGAGGAGT
1 ATTCTTGACTTCCTCGTGAAGAGGAGT
1019164 TAACTTTTAC
Statistics
Matches: 223, Mismatches: 37, Indels: 35
0.76 0.13 0.12
Matches are distributed among these distances:
79 1 0.00
80 90 0.40
81 4 0.02
84 35 0.16
85 3 0.01
86 3 0.01
87 82 0.37
88 4 0.02
89 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (87 bp):
ATTCTTGACTTCCTCGTGAAGAGGAGTCAATATTTCAGTGTTATTCTTGACTCCCTCATGAAGAA
GAGCCAATATTTCAATGATGTC
Found at i:1019159 original size:167 final size:165
Alignment explanation
Indices: 1018803--1019159 Score: 387
Period size: 167 Copynumber: 2.1 Consensus size: 165
1018793 AATCTTTGTT
* * * *
1018803 ATTCTTCACTTCCTCATGAAGAGAAGTCAATATTTGTTATTCTTGACTCCCTCGTGAAGAGGAGT
1 ATTCTTAACTTACTCATGAAGAGAAGTCAATATTTGTTATTCTTGACTCCCTCATGAAGAAGAGT
* * * * * *
1018868 TAATCTTTAAATGTTATTCTCGACTTCCTCGTGAAGAGAAGTTAATCTTTCGGTATTGTCTTTCT
66 CAATATTTAAATATTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTC-G-AGTGTCTTTCT
* * *
1018933 TGACTCCATCATGAAGATGAGTCAATCTTTCAATGTT
129 TGACTCCATCATGAAGATAAGCCAATCTTTCAATGTC
* * * * *
1018970 ATTCTCAAATTAATCTTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCATGAAGAAGAGT
1 ATTCTTAACTTACTCATGAAGAGAAGTCAATATTTGTTATTCTTGACTCCCTCATGAAGAAGAGT
* * * *
1019035 CAATATTTCAATATTATTCTTGACTTCCTTGTGAAGAGGAGTCAATATTTC-AGTGT-TATTCTT
66 CAATATTTAAATATTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTCGAGTGTCT-TTCTT
* *
1019098 GGCTTTC-TCATGAAGATAAGCCAATCTTTCAGTGATGTC
130 GAC-TCCATCATGAAGATAAGCCAATCTTTCA---ATGTC
* * *
1019137 ATTCTTTACTTTCTCGTGAAGAG
1 ATTCTTAACTTACTCATGAAGAG
1019160 GAGTTAACTT
Statistics
Matches: 155, Mismatches: 30, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
163 1 0.01
164 33 0.21
165 2 0.01
167 119 0.77
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (165 bp):
ATTCTTAACTTACTCATGAAGAGAAGTCAATATTTGTTATTCTTGACTCCCTCATGAAGAAGAGT
CAATATTTAAATATTATTCTCGACTTCCTCGTGAAGAGAAGTCAATATTTCGAGTGTCTTTCTTG
ACTCCATCATGAAGATAAGCCAATCTTTCAATGTC
Found at i:1020107 original size:134 final size:133
Alignment explanation
Indices: 1019912--1020433 Score: 668
Period size: 134 Copynumber: 3.9 Consensus size: 133
1019902 AACCACGTTC
* * * ** * * *
1019912 GATTCAATCTTTCCTAAAGAGAATTGAAGTAAATCAAAGATTTCTCGAATATGATCTCCCCTAAA
1 GATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAA
* * *
1019977 AAGTAGTGGAGCAAATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAATGAAGCAAATCGA
66 GAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGA
1020042 TTT
131 TTT
* *
1020045 GAATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAGTTTTATCGAGTTTGATCTCCCCTAA
1 G-ATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAA
* * *
1020110 AGAGTAGTGGAGGAGATTCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGTGAAACAAATCG
65 AGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCG
1020175 ATTCT
130 ATT-T
* ** *
1020180 GATTCAATCTTCCCTAAAGAGCAGTAAAGTCTATCAAAGTTTTTTCGAGTCTGATCTCCCCTAAA
1 GATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAA
** * * * * * *
1020245 TTGTAGTGGAACATATGCTTATTCTTTTACATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGA
66 GAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGA
1020310 TTTT
131 -TTT
* * ** * *
1020314 GATTCAATCTTCCTTGAAGAATAGTGAAGTGGATCAAAGTTTTCT-GTAGTCTAATCTCCCTTAA
1 GATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAGTTTTCTCG-AGTCTGATCTCCCCTAA
* * *
1020378 AGAGTAGTGGAGTAGATTATTCTTCTTTCAGATTTGGTCTTCTTGAAGAGCAGTGA
65 AGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGA
1020434 TGTAATACCC
Statistics
Matches: 333, Mismatches: 52, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
133 2 0.01
134 327 0.98
135 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (133 bp):
GATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAA
GAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGA
TTT
Found at i:1022663 original size:47 final size:45
Alignment explanation
Indices: 1022570--1022684 Score: 162
Period size: 47 Copynumber: 2.6 Consensus size: 45
1022560 GTAAGTATGC
1022570 AAATAAGCTTACGAGCTTAT-G-AATAATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAAATAATGGCAAGTATATTGATA
* * * *
1022613 AAATAAGCTTACAAGCTTATGGAATATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-AT-AATGGCAAGTATATTGATA
1022660 AAATAAGCTTACGAGCTTATGGAAA
1 AAATAAGCTTACGAGCTTATGGAAA
1022685 AAAAGTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 19 0.30
44 1 0.02
45 1 0.02
46 3 0.05
47 39 0.62
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAAATAATGGCAAGTATATTGATA
Found at i:1030326 original size:13 final size:13
Alignment explanation
Indices: 1030308--1030334 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1030298 CCCATTTTTA
1030308 TATTATTATTATT
1 TATTATTATTATT
1030321 TATTATTATTATT
1 TATTATTATTATT
1030334 T
1 T
1030335 TTTGCAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:1035256 original size:3 final size:3
Alignment explanation
Indices: 1035248--1035307 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
1035238 TTAATCCGAG
1035248 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
*
1035296 AAA ATA A-A ATA A
1 ATA ATA ATA ATA A
1035308 ATATTATTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1049236 original size:17 final size:17
Alignment explanation
Indices: 1049208--1049251 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1049198 ATTTCGTTAA
*
1049208 TATTATTA-TTAATTAT
1 TATTATTATTTAACTAT
*
1049224 TTTTATTATTTAACTAT
1 TATTATTATTTAACTAT
1049241 TATTATTATTT
1 TATTATTATTT
1049252 TTATTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTTAACTAT
Found at i:1052395 original size:2 final size:2
Alignment explanation
Indices: 1052388--1052437 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1052378 TATTCCAATA
1052388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1052430 AT AT AT AT
1 AT AT AT AT
1052438 CAAACCAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1053021 original size:14 final size:15
Alignment explanation
Indices: 1052987--1053055 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 15
1052977 TCGAGCATTT
1052987 GGGTCGGGTC-GAGC
1 GGGTCGGGTCAGAGC
*
1053001 -AGTCGGGTCAGA-C
1 GGGTCGGGTCAGAGC
*
1053014 GGGTCGGGTAAGATAGGC
1 GGGTCGGGTCAG--A-GC
*
1053032 GGGTCGGGTCAGATC
1 GGGTCGGGTCAGAGC
1053047 -GGTCGGGTC
1 GGGTCGGGTC
1053056 GGGTCGGACC
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
13 9 0.20
14 20 0.45
15 1 0.02
16 2 0.05
18 12 0.27
ACGTcount: A:0.14, C:0.19, G:0.49, T:0.17
Consensus pattern (15 bp):
GGGTCGGGTCAGAGC
Found at i:1053055 original size:19 final size:18
Alignment explanation
Indices: 1053013--1053060 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
1053003 TCGGGTCAGA
*
1053013 CGGGTCGGGTAAGATAGG
1 CGGGTCGGGTCAGATAGG
*
1053031 CGGGTCGGGTCAGATCGG
1 CGGGTCGGGTCAGATAGG
1053049 TCGGGTCGGGTC
1 -CGGGTCGGGTC
1053061 GGACCGGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.12, C:0.19, G:0.50, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAGATAGG
Found at i:1053084 original size:24 final size:25
Alignment explanation
Indices: 1053048--1053112 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 25
1053038 GGTCAGATCG
* **
1053048 GTCGGGTCGGGTCGGACCGGGTCGA
1 GTCGAGTCGGGTCAAACCGGGTCGA
*
1053073 GTCGAGTC-GGTCAAACCGGGTCGG
1 GTCGAGTCGGGTCAAACCGGGTCGA
**
1053097 GTC-AACCGGGTCAAAC
1 GTCGAGTCGGGTCAAAC
1053113 TGTCCCCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 2 0.06
24 24 0.73
25 7 0.21
ACGTcount: A:0.17, C:0.26, G:0.42, T:0.15
Consensus pattern (25 bp):
GTCGAGTCGGGTCAAACCGGGTCGA
Found at i:1069907 original size:45 final size:45
Alignment explanation
Indices: 1069838--1069957 Score: 141
Period size: 48 Copynumber: 2.6 Consensus size: 45
1069828 GTAACCATGC
* * *
1069838 AAATAATCTTATGAGCTGACGGAATAATGGCAAGTATATTGGAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGGAAA
* * * *
1069883 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTATGGAA--T-AATGGCAAGTATATTGGAAA
*
1069931 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
1069958 AAGGTGAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
45 22 0.35
46 1 0.02
47 1 0.02
48 39 0.62
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGGAAA
Found at i:1075501 original size:16 final size:16
Alignment explanation
Indices: 1075482--1075581 Score: 51
Period size: 16 Copynumber: 5.8 Consensus size: 16
1075472 AGAGAGAAGA
1075482 AAAAAGAGAAAAAAAG
1 AAAAAGAGAAAAAAAG
*
1075498 -AAAAGATAGAAAAAAG
1 AAAAAGAGA-AAAAAAG
* *
1075514 -AAAAGGGAAAATATAGAA
1 AAAAAGAGAAAA-A-A-AG
*
1075532 AAATAAGAAGAAGAAGAAG
1 AAA-AAG-AGAA-AAAAAG
* *
1075551 AAGAAGAGAGAAAAAG
1 AAAAAGAGAAAAAAAG
1075567 AAAAAATGAGAAAAA
1 -AAAAA-GAGAAAAA
1075582 TAAATGAAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
15 10 0.16
16 19 0.31
17 8 0.13
18 11 0.18
19 5 0.08
20 4 0.06
21 3 0.05
22 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (16 bp):
AAAAAGAGAAAAAAAG
Found at i:1075546 original size:31 final size:30
Alignment explanation
Indices: 1075476--1075551 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
1075466 AAGAGGAGAG
1075476 AGAAGAA-AAAAGAGAAAAAAAGAAAAGAT
1 AGAAGAAGAAAAGAGAAAAAAAGAAAAGAT
* * *
1075505 AGAAAAAAGAAAAGGGAAAATATAGAAAA-AT
1 AG-AAGAAGAAAAGAGAAAA-AAAGAAAAGAT
1075536 AAGAAGAAGAAGAAGA
1 -AGAAGAAGAA-AAGA
1075552 AGAAGAGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.05
30 4 0.11
31 19 0.51
32 12 0.32
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.05
Consensus pattern (30 bp):
AGAAGAAGAAAAGAGAAAAAAAGAAAAGAT
Found at i:1075555 original size:40 final size:40
Alignment explanation
Indices: 1075479--1075564 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
1075469 AGGAGAGAGA
* *
1075479 AGAAAAAAGAGAAAAAAAGAAAAGATAGAAAAAAGAAAAG
1 AGAAAATATAGAAAAAAAGAAAAGATAGAAAAAAGAAAAG
* * *
1075519 GGAAAATATAGAAAAATAAGAAGAAGA-AG-AAGAAGAAGAG
1 AGAAAATATAGAAAAA-AAGAA-AAGATAGAAAAAAGAAAAG
1075559 AGAAAA
1 AGAAAA
1075565 AGAAAAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
40 27 0.71
41 7 0.18
42 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (40 bp):
AGAAAATATAGAAAAAAAGAAAAGATAGAAAAAAGAAAAG
Found at i:1075563 original size:47 final size:47
Alignment explanation
Indices: 1075495--1075584 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 47
1075485 AAGAGAAAAA
* *
1075495 AAGAAAAGATAGAAAAAAGAAAAGGGAAAATAT-AGAAAAATAAGAAG
1 AAGAAAAGATAGAAAAAAGAAAA-AGAAAAAATGAGAAAAATAAGAAG
* *
1075542 AAGAAGAAGA-AGAAGAGAGAAAAAGAAAAAATGAGAAAAATAA
1 AAGAA-AAGATAGAAAAAAGAAAAAGAAAAAATGAGAAAAATAA
1075585 ATGAAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 7 0.19
47 26 0.70
48 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (47 bp):
AAGAAAAGATAGAAAAAAGAAAAAGAAAAAATGAGAAAAATAAGAAG
Found at i:1076988 original size:42 final size:40
Alignment explanation
Indices: 1076877--1077623 Score: 464
Period size: 38 Copynumber: 18.5 Consensus size: 40
1076867 CACAGTATCT
* * * *
1076877 TGAAAAGAAGTCGATC-TT-TGTTATTCTTGACTTTCTTG
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
* * * *
1076915 TGAAGAAAAGTAAATC-TT-TGTTACTCTTGACTTTCTCG
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
* *
1076953 TGAAGAGTAGTCGATCTTTCAATGTTATTCTTGACTTCCTCG
1 TGAAGAGAAGTCAATCTTT--ATGTTATTCTTGACTTCCTCG
* *
1076995 TGAAGAGAGGTCAATC-TT-TGTTATTCTTAACTTCCTCG
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
*
1077033 TGAAGAGAAGTCAATC-TT-TGTTATTCTTGAATTCCTCG
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
* * * ** **
1077071 TGAAGAGAGGTCAATCTTT-T-TTATTTTTCACTTATTTA
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
*
1077109 TGAAGAGAAGTCAATC-TT-TGTTATCCTTGAC-TCCGTCG
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCC-TCG
* * *
1077147 TAAAGAGGAGTCAATCTTTCAATGTTATTCTCGACTTCCTCG
1 TGAAGAGAAGTCAATCTTT--ATGTTATTCTTGACTTCCTCG
* *
1077189 TGAAGAGAAGTTAATCTTTCAGTATTGTCT-TTCTTAAC-TCCATCG
1 TGAAGAGAAGTCAATC-TT---TA-TGT-TATTCTTGACTTCC-TCG
* * ** * *
1077234 TGAAGAGGAGTCGATCTTTCAATGTTATTCTAAAATTCCTCT
1 TGAAGAGAAGTCAATCTTT--ATGTTATTCTTGACTTCCTCG
* * *
1077276 TGAAGAAAAGTCAATCTTTA--TTATTCTTGACTCCCTCA
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
* * *
1077314 TGAAGA-AGAGTCAATCATTCAATATTATTCTTGACTTCCTCA
1 TGAAGAGA-AGTCAATC-TT-TATGTTATTCTTGACTTCCTCG
* * * * *
1077356 TGAAGAGGAGTCAATCTTTTAATATTATTATTTACTTCCTCA
1 TGAAGAGAAGTCAATC-TTT-ATGTTATTCTTGACTTCCTCG
** * *
1077398 TGAAGAGAAGTTGATC-TT-TGTTATGCTTGACTTCCTCC
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
* * * *
1077436 TGAAGAGAAGTTAATC-TT-TGTTATTATTGTCTCCCTCG
1 TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
* * * * *
1077474 TGAAGAGGAGTCAATATTTCAATGTTATGT-TTAACTTTCTCA
1 TGAAGAGAAGTCAATCTTT--ATGTTAT-TCTTGACTTCCTCG
* * *
1077516 TGAAGAGAAGCCAATCTTTTAGTGATGTCATTCTTTACTTTCTCG
1 TGAAGAGAAGTCAATC-TTTA-TG-T-T-ATTCTTGACTTCCTCG
* *
1077561 TGAAGAGGAA-TCAACCTTTACTGTTGTCATTCTTGAATTTCC-CG
1 TGAAGA-GAAGTCAATCTTTA-TG-T-T-ATTCTTG-ACTTCCTCG
*
1077605 TGAGGAGAAGTCAATCTTT
1 TGAAGAGAAGTCAATCTTT
1077624 TAGTCTTGTG
Statistics
Matches: 564, Mismatches: 101, Indels: 82
0.76 0.14 0.11
Matches are distributed among these distances:
37 5 0.01
38 249 0.44
39 11 0.02
40 4 0.01
41 5 0.01
42 178 0.32
43 17 0.03
44 39 0.07
45 51 0.09
46 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (40 bp):
TGAAGAGAAGTCAATCTTTATGTTATTCTTGACTTCCTCG
Found at i:1077014 original size:80 final size:76
Alignment explanation
Indices: 1076877--1077488 Score: 365
Period size: 80 Copynumber: 7.7 Consensus size: 76
1076867 CACAGTATCT
* * * * * * *
1076877 TGAAAAGAAGTCGATCTTTGTTATTCTTGACTTTCTTGTGAAGAAAAGTAAATCTTTGTTACTCT
1 TGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAGGTCAATCTTTGTTACTCT
* *
1076942 TGACTTTCTCG
66 TAACTTCCTCG
* *
1076953 TGAAGAGTAGTCGATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAGGTCAATCTTTGTTA
1 TGAAGAGAAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAGGTCAATCTTTGTTA
*
1077018 TTCTTAACTTCCTCG
62 CTCTTAACTTCCTCG
* * * *
1077033 TGAAGAGAAGTCAATCTTTGTTATTCTTGAATTCCTCGTGAAGAGAGGTCAATCTTTTTTATTTT
1 TGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAGGTCAATCTTTGTTACTCT
* ** **
1077098 TCACTTATTTA
66 TAACTTCCTCG
* *
1077109 TGAAGAGAAGTCAATCTTTGTTATCCTTGAC-TCCGTCGTAAAGAG-GAGTCAATCTTTCAATGT
1 TGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCC-TCGTGAAGAGAG-GTCAATC-TT---TGT
* **
1077172 TATTCTCGACTTCCTCG
60 TACTCTTAACTTCCTCG
* * * *
1077189 TGAAGAGAAGTTAATCTTTCAGTATTGTCTTTCTTAAC-TCCATCGTGAAGAG-GAGTCGATCTT
1 TGAAGAGAAGTCAATCTTT--G---T-T-ATTCTTGACTTCC-TCGTGAAGAGAG-GTCAATC-T
* * * *
1077252 TCAATGTTATTCTAAAATTCCTCT
56 T---TGTTACTCTTAACTTCCTCG
* * * * *
1077276 TGAAGAAAAGTCAATCTTTATTATTCTTGACTCCCTCATGAAGA-AGAGTCAATCATTCAATATT
1 TGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAG-GTCAATC-TT---TGTT
* * *
1077340 ATTCTTGACTTCCTCA
61 ACTCTTAACTTCCTCG
* * * * * * **
1077356 TGAAGAGGAGTCAATCTTTTAATATTATTATTTACTTCCTCATGAAGAGAAGTTGATCTTTGTTA
1 TGAAGAGAAGTCAATC--TT--TGTTATTCTTGACTTCCTCGTGAAGAGAGGTCAATCTTTGTTA
* *
1077421 -TGCTTGACTTCCTCC
62 CT-CTTAACTTCCTCG
* * * *
1077436 TGAAGAGAAGTTAATCTTTGTTATTATTGTCTCCCTCGTGAAGAG-GAGTCAAT
1 TGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAG-GTCAAT
1077489 ATTTCAATGT
Statistics
Matches: 434, Mismatches: 76, Indels: 52
0.77 0.14 0.09
Matches are distributed among these distances:
75 4 0.01
76 135 0.31
77 4 0.01
78 2 0.00
79 3 0.01
80 181 0.42
81 3 0.01
82 4 0.01
83 2 0.00
84 28 0.06
85 2 0.00
86 1 0.00
87 65 0.15
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (76 bp):
TGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAGGTCAATCTTTGTTACTCT
TAACTTCCTCG
Found at i:1077500 original size:80 final size:79
Alignment explanation
Indices: 1077234--1077535 Score: 254
Period size: 80 Copynumber: 3.8 Consensus size: 79
1077224 AACTCCATCG
* * * * * * *
1077234 TGAAGAGGAGTCGATCTTTCAATGTTATTCTAAAATTCCTCTTGAAGAAAAGTCAATCTTTATTA
1 TGAAGAGGAGTCAATATTTCAATGTTATGCTTAACTTCCTCATGAAGAGAAGTCAATCTTT-TTA
* *
1077299 TTCTTGACTCCCTCA
65 TTATTGTCTCCCTCA
* * * * *
1077314 TGAAGAAGAGTCAATCA-TTCAATATTATTCTTGACTTCCTCATGAAGAGGAGTCAATCTTTTAA
1 TGAAGAGGAGTCAAT-ATTTCAATGTTATGCTTAACTTCCTCATGAAGAGAAGTCAATCTTTT--
* *
1077378 TATTATTATTTACTTCCTCA
63 TATTA-T-TGT-CTCCCTCA
* ** * * * *
1077398 TGAAGAGAAGTTGAT-CTT---TGTTATGCTTGACTTCCTCCTGAAGAGAAGTTAATCTTTGTTA
1 TGAAGAGGAGTCAATATTTCAATGTTATGCTTAACTTCCTCATGAAGAGAAGTCAATCTTT-TTA
*
1077459 TTATTGTCTCCCTCG
65 TTATTGTCTCCCTCA
* * *
1077474 TGAAGAGGAGTCAATATTTCAATGTTATGTTTAACTTTCTCATGAAGAGAAGCCAATCTTTT
1 TGAAGAGGAGTCAATATTTCAATGTTATGCTTAACTTCCTCATGAAGAGAAGTCAATCTTTT
1077536 AGTGATGTCA
Statistics
Matches: 174, Mismatches: 36, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
76 18 0.10
77 4 0.02
78 1 0.01
79 7 0.04
80 117 0.67
81 5 0.03
82 1 0.01
83 3 0.02
84 18 0.10
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (79 bp):
TGAAGAGGAGTCAATATTTCAATGTTATGCTTAACTTCCTCATGAAGAGAAGTCAATCTTTTTAT
TATTGTCTCCCTCA
Found at i:1077607 original size:44 final size:44
Alignment explanation
Indices: 1077541--1077668 Score: 116
Period size: 44 Copynumber: 2.9 Consensus size: 44
1077531 CTTTTAGTGA
* * *
1077541 TGTCATTCTTTACTTTCTCGTGAAGAGGAATCAACCTTTACTGT
1 TGTCATTCTTGACTTTCCCGTGAAGAGGAATCAACCTTTACTCT
* * * *
1077585 TGTCATTCTTGAATTTCCCGTGAGGA-GAAGTCAATCTTTTAGTCT
1 TGTCATTCTTGACTTTCCCGTGAAGAGGAA-TCAA-CCTTTACTCT
* * * *
1077630 TGTGATTCTTGACTTTCTCAG-AAAGAGGAGTCAACCTTT
1 TGTCATTCTTGACTTTC-CCGTGAAGAGGAATCAACCTTT
1077669 TAGTGATGTC
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
43 3 0.05
44 30 0.45
45 29 0.44
46 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (44 bp):
TGTCATTCTTGACTTTCCCGTGAAGAGGAATCAACCTTTACTCT
Found at i:1077638 original size:45 final size:45
Alignment explanation
Indices: 1077507--1077681 Score: 158
Period size: 45 Copynumber: 3.9 Consensus size: 45
1077497 GTTATGTTTA
* * * * *
1077507 ACTTTCTCATGAAGAGAAGCCAATCTTTTAGTGATGTCATTCTTT
1 ACTTTCCCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCTTG
* * *
1077552 ACTTTCTCGTGAAGAGGAA-TCAA-CCTTTACTGTTGTCATTCTTG
1 ACTTTCCCGTGAAGA-GAAGTCAATCTTTTAGTGTTGTCATTCTTG
* * * *
1077596 AATTTCCCGTGAGGAGAAGTCAATCTTTTAGTCTTGTGATTCTTG
1 ACTTTCCCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCTTG
* * * * *
1077641 ACTTTCTCAG-AAAGAGGAGTCAACCTTTTAGTGATGTCATT
1 ACTTTC-CCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATT
1077682 TTCAACTTGA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
43 3 0.03
44 33 0.32
45 63 0.61
46 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (45 bp):
ACTTTCCCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCTTG
Found at i:1078515 original size:134 final size:134
Alignment explanation
Indices: 1078321--1078900 Score: 665
Period size: 134 Copynumber: 4.3 Consensus size: 134
1078311 ACCATGTTCA
* * * * * * *
1078321 ATTCAATCTTTCCTAAAGATCATTGAAGTTGATCAAAGATTTCTTGAATCTGATCTCCCCTAAAG
1 ATTCAATCTTCCCTGAAGATCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAG
* *
1078386 AGTAGTGGAGCAA-ATTCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAATGAAGCAAATCGA
66 AGTAGTGGAGCAACATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGA
1078450 TTCTG
131 TT-TG
*
1078455 ATTCAATCTTCCCTAAAGATCAGTGAA-TGGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAA
1 ATTCAATCTTCCCTGAAGATCAGTGAAGT-GGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAA
* * * * *
1078519 GAATAGTGGAG-AAGATTCTTTTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTGAAGTAAATCG
65 GAGTAGTGGAGCAACATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCG
1078583 ATTATG
130 ATT-TG
* ** * *
1078589 ATTCAATCTTCCCTGAAGATTAGTGAAGTCTATCAAAGTTTTTTTGAGTCTGATCTCCCCTAAAG
1 ATTCAATCTTCCCTGAAGATCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAG
* * * * * *
1078654 AGTATTAGAGCAGACA-T-TTATTCTTTTACATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCA
66 AGTAGTGGAGCA-ACATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCG
1078717 ATTTCG
130 ATTT-G
* * * *
1078723 ATTTAAACTTCCTTGAAGAAT-AGTGAAGTGGATCAAAGTTTTCTCGAGTCTAATC-CCTCCTAA
1 ATTCAATCTTCCCTGAAG-ATCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCC-CCTAA
* * * * *
1078786 AGAGTAGTGGAGC-AGATTATTCTTCTTTCATATTTGGTCTTCTTGAAGAGCAGTGAAACAAATC
64 AGAGTAGTGGAGCAACATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATC
1078850 GATTTTG
129 GA-TTTG
* * * * *
1078857 ATTCAATATTCCCTGAAGAACAGTGAAATGAATC-AACTTTTCTC
1 ATTCAATCTTCCCTGAAGATCAGTGAAGTGGATCAAAGTTTTCTC
1078901 ATTCTATTCT
Statistics
Matches: 380, Mismatches: 54, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
132 2 0.01
133 17 0.04
134 351 0.92
135 8 0.02
136 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (134 bp):
ATTCAATCTTCCCTGAAGATCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCCTAAAG
AGTAGTGGAGCAACATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGA
TTTG
Found at i:1079691 original size:2 final size:2
Alignment explanation
Indices: 1079684--1079741 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1079674 TTCATTCGAA
1079684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1079726 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
1079742 TATTTTTTCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1081288 original size:2 final size:2
Alignment explanation
Indices: 1081283--1081312 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1081273 AATTTAATTA
1081283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1081313 TATCTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1081624 original size:11 final size:11
Alignment explanation
Indices: 1081608--1081641 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
1081598 CATTTTTATG
1081608 TATTTTAAAAT
1 TATTTTAAAAT
1081619 TATTTTTTAAAAT
1 TA--TTTTAAAAT
1081632 TATTTTAAAA
1 TATTTTAAAA
1081642 GGTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTTAAAAT
Found at i:1081628 original size:13 final size:13
Alignment explanation
Indices: 1081610--1081637 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1081600 TTTTTATGTA
1081610 TTTTAAAATTATT
1 TTTTAAAATTATT
1081623 TTTTAAAATTATT
1 TTTTAAAATTATT
1081636 TT
1 TT
1081638 AAAAGGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAAATTATT
Found at i:1085199 original size:2 final size:2
Alignment explanation
Indices: 1085192--1085225 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1085182 ATTAAATCGA
1085192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1085226 GCACTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1086857 original size:24 final size:24
Alignment explanation
Indices: 1086830--1086875 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1086820 ATTTACATAT
*
1086830 TCATTTAA-TTTCCTATTATTTGCA
1 TCATTTAAGCTTCCTA-TATTTGCA
1086854 TCATTTAAGCTTCCTATATTTG
1 TCATTTAAGCTTCCTATATTTG
1086876 TGGTATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (24 bp):
TCATTTAAGCTTCCTATATTTGCA
Found at i:1087052 original size:2 final size:2
Alignment explanation
Indices: 1087045--1087081 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1087035 TCCCAATGAT
1087045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1087082 TAAAAATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1090706 original size:41 final size:41
Alignment explanation
Indices: 1090649--1090729 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
1090639 CCAACGTTGT
* *
1090649 TGAACATTGATACACGAATATACCAAAGCTGAACTGATAAC
1 TGAACATTGATACACGAATATACCAAAGATGAACTAATAAC
*
1090690 TGAACATTGATACACGAATGTACCAAAGATGAACTAATAA
1 TGAACATTGATACACGAATATACCAAAGATGAACTAATAA
1090730 TTACTCACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (41 bp):
TGAACATTGATACACGAATATACCAAAGATGAACTAATAAC
Found at i:1091582 original size:70 final size:70
Alignment explanation
Indices: 1091501--1091644 Score: 261
Period size: 70 Copynumber: 2.1 Consensus size: 70
1091491 ACTTAAAACG
1091501 ATATAAAACTAAATCGTACTTCCATCGTAACTTTCAAATTTCTCAAAATATTTTCCTTAAATTCC
1 ATATAAAACTAAATCGTACTTCCATCGTAACTTTCAAATTTCTCAAAATATTTTCCTTAAATTCC
*
1091566 AATAT
66 AAAAT
* *
1091571 ATATATAACTAAATCGTTCTTCCATCGTAACTTTCAAATTTCTCAAAATATTTTCCTTAAATTCC
1 ATATAAAACTAAATCGTACTTCCATCGTAACTTTCAAATTTCTCAAAATATTTTCCTTAAATTCC
1091636 AAAAT
66 AAAAT
1091641 ATAT
1 ATAT
1091645 CAACCCTTCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (70 bp):
ATATAAAACTAAATCGTACTTCCATCGTAACTTTCAAATTTCTCAAAATATTTTCCTTAAATTCC
AAAAT
Found at i:1097675 original size:2 final size:2
Alignment explanation
Indices: 1097668--1097694 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1097658 CCTGTATTTG
1097668 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1097695 TCTCATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1101222 original size:26 final size:25
Alignment explanation
Indices: 1101167--1101222 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
1101157 TTACCTAAAT
* * *
1101167 AAAAAAAGAAAAAAGAAGAATAAGG
1 AAAAAAAGAAAAAAAAAGAAGAAGA
*
1101192 TAAAAAAGAAATAAAAAAGAAGAAGA
1 AAAAAAAGAAA-AAAAAAGAAGAAGA
1101218 AAAAA
1 AAAAA
1101223 TAATAATGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAAAGAAGAAGA
Found at i:1102676 original size:136 final size:132
Alignment explanation
Indices: 1102486--1102862 Score: 441
Period size: 136 Copynumber: 2.8 Consensus size: 132
1102476 ATTTGGTTTT
** * * * * * * *
1102486 CCCTAAAGAGTAGCGGAGAAGATCATCATTTTTTTCAGATTTGGCCTGCCTGAATACCAGTAAAG
1 CCCTAAAGAGTAGAAGAGCAGATCCTC-CTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTAAAG
* *
1102551 CAAATCAAGTTTGATTCAATCTTCCTTAACGAGCAGTGAAGTGGATCAAAGTTTTTTAAGTCTGA
65 CAAATCAAGTTTGATTCAATCTTCCTTAA-GAGCAGTGAAGTGGATCAAAGTTTTTCAAGTCTAA
1102616 TATC
129 TATC
* ** *
1102620 CCCTAAATAGTAGTGGAGCAGATCCTCCTCCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTGA
1 CCCTAAAGAGTAGAAGAGCAGA---TCCTCCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTAA
* *
1102685 AGCAAATCAAGTTTGATTCAATCTACCCTTAAGAGCAGTGAAGTGGATCAAAGTTTTTCGAGTCT
63 AGCAAATCAAGTTTGATTCAATCT-TCCTTAAGAGCAGTGAAGTGGATCAAAGTTTTTCAAGTCT
*
1102750 AATCTC
127 AATATC
* * * * *
1102756 CCCTAAAGAGTAGAAGAGCAGATCCTCCTTCTTTCAGAATTGATCTTCCTGAAGAGAAATGAAA-
1 CCCTAAAGAGTAGAAGAGCAGATCCTCCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGT-AAAG
* * *
1102820 CAAATCAAGTTCGATTCAATCTTCCTTGAAGAGAAGCGAAGTG
65 CAAATCAAGTTTGATTCAATCTTCCTT-AAGAGCAGTGAAGTG
1102863 AGTCAAATTC
Statistics
Matches: 209, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
132 4 0.02
133 67 0.32
134 21 0.10
136 107 0.51
137 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (132 bp):
CCCTAAAGAGTAGAAGAGCAGATCCTCCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTAAAGC
AAATCAAGTTTGATTCAATCTTCCTTAAGAGCAGTGAAGTGGATCAAAGTTTTTCAAGTCTAATA
TC
Found at i:1107030 original size:80 final size:80
Alignment explanation
Indices: 1106871--1107197 Score: 424
Period size: 80 Copynumber: 4.1 Consensus size: 80
1106861 CAGAACTGCG
* * * ** *
1106871 TCCGTAGGGCTTACCCTAAGCACACAGCAAAGGGAGCCAACCTAAGGTTATACAAT-GGATCTAC
1 TCCGTAGGG-TTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTAC
*
1106935 CCAAGGACATCCTTAGA
65 CCAA-GATATCCTTAGA
* *
1106952 TCCGTAGGGTTACCTTAAGCACACAGCTAAGGGAACCAACCTAAGGATATACCTTGGGGCCTACC
1 TCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTACC
* *
1107017 CAAGATATTCTTAGG
66 CAAGATATCCTTAGA
* * *
1107032 TCCGTAGGGTTACCTTATGCACATAGCAAAGGAAACCAACCTAAGGATATACCTTGGGACCTACC
1 TCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTACC
1107097 CAAGATATCCTTAGGA
66 CAAGATATCCTTA-GA
* * * * * *
1107113 -CCGTAGGGTTACCTTATGCAAACAACAAAGGGAACCAACTTAAGGATATGCCTTGGGGCCTACC
1 TCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTACC
*
1107177 CAAGATATCCTTAGG
66 CAAGATATCCTTAGA
1107192 TCCGTA
1 TCCGTA
1107198 AGGACTTACA
Statistics
Matches: 217, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.00
80 196 0.90
81 20 0.09
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (80 bp):
TCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTACC
CAAGATATCCTTAGA
Found at i:1110282 original size:22 final size:23
Alignment explanation
Indices: 1110252--1110299 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
1110242 CACATTCTGT
1110252 AAATATTTACT-AAACTAACACCC
1 AAATATTTACTCAAA-TAACACCC
1110275 AAAT-TTTACTCAAATAACACCC
1 AAATATTTACTCAAATAACACCC
1110297 AAA
1 AAA
1110300 CATAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (23 bp):
AAATATTTACTCAAATAACACCC
Found at i:1112386 original size:80 final size:80
Alignment explanation
Indices: 1112226--1112553 Score: 460
Period size: 80 Copynumber: 4.1 Consensus size: 80
1112216 CCAGAACTGT
* * *
1112226 GTCCGTAGGGCTTACCCTAAGCACACAGCAAAGGGAGCCAACCTAAGGATATACCTT-GGATCTA
1 GTCCGTAGGG-TTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTA
*
1112290 CCCAAGGACATCCTTAG
65 CCCAA-GATATCCTTAG
* * * *
1112307 ATCTGTAGGGTTACCTTAAGCACACAGCTAAGGGAACCAACCTAAGGATATACCTTGGGGCCTAC
1 GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTAC
*
1112372 CCAAGATATTCTTAG
66 CCAAGATATCCTTAG
** * * *
1112387 GTCCGTAGGGTTACCTTTTGCACACAGCAAAGGAAACTAACCTAAGGATATACATTGGGACCTAC
1 GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTAC
1112452 CCAAGATATCCTTAG
66 CCAAGATATCCTTAG
* * * * *
1112467 GTCCGTAGGGTTACCTTATGCACACAGCAAAGTGAACCTACCTAAGGATATGCCTTGGGGCCTAC
1 GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTAC
1112532 CCAAGATATCCTTAG
66 CCAAGATATCCTTAG
1112547 GTCCGTA
1 GTCCGTA
1112554 AGGACTTACA
Statistics
Matches: 219, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
80 201 0.92
81 18 0.08
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.23
Consensus pattern (80 bp):
GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGACCTAC
CCAAGATATCCTTAG
Found at i:1116460 original size:35 final size:35
Alignment explanation
Indices: 1116414--1116482 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
1116404 ATACTTCTTA
1116414 GGGTTTAGAATGTAATTAAAGTATTTTGAAATTTG
1 GGGTTTAGAATGTAATTAAAGTATTTTGAAATTTG
* * *
1116449 GGGTTTAGAATGTAATTGAAGTGTTTTGGAATTT
1 GGGTTTAGAATGTAATTAAAGTATTTTGAAATTT
1116483 TGAGCAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (35 bp):
GGGTTTAGAATGTAATTAAAGTATTTTGAAATTTG
Found at i:1119997 original size:17 final size:17
Alignment explanation
Indices: 1119975--1120009 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1119965 AAATGAGATT
1119975 GAGAATCGCAATCGATG
1 GAGAATCGCAATCGATG
1119992 GAGAATCGCAATCGATG
1 GAGAATCGCAATCGATG
1120009 G
1 G
1120010 TCAAATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (17 bp):
GAGAATCGCAATCGATG
Found at i:1126868 original size:32 final size:31
Alignment explanation
Indices: 1126823--1126906 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
1126813 GAAAGTTCGA
*
1126823 GGCCAC-GGAGCCTACCTAAGAACACATCTTAG
1 GGCCACAGG-GCCTACCTAAGAA-ACATCTCAG
** **
1126855 GGCCACAGGGCCTACCCGAGAATGATCTCAG
1 GGCCACAGGGCCTACCTAAGAAACATCTCAG
* *
1126886 GGCCGCAGAGCCTACCTAAGA
1 GGCCACAGGGCCTACCTAAGA
1126907 GTCACATTAG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
31 23 0.55
32 17 0.40
33 2 0.05
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (31 bp):
GGCCACAGGGCCTACCTAAGAAACATCTCAG
Found at i:1151818 original size:39 final size:38
Alignment explanation
Indices: 1151757--1151834 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 38
1151747 TCGTGGATGT
* * *
1151757 AGTCATGACAAGATAATGGCTCACCTTTTGCTTCTTTG
1 AGTCACGACAAGATAATGGCTCACCTTTTGATTATTTG
*
1151795 AGTCACGACAAAGGTAATGGCTCACCTTTTGATTATTTG
1 AGTCACGAC-AAGATAATGGCTCACCTTTTGATTATTTG
1151834 A
1 A
1151835 TAGGTAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 8 0.23
39 27 0.77
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (38 bp):
AGTCACGACAAGATAATGGCTCACCTTTTGATTATTTG
Found at i:1152535 original size:24 final size:25
Alignment explanation
Indices: 1152508--1152557 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
1152498 AAGCACAATA
1152508 TTTTT-ATT-TTTTAAAATGA-ATTT
1 TTTTTAATTGTTTTAAAA-GATATTT
1152531 TTTTTAATTGTTTTAAAAGATATTT
1 TTTTTAATTGTTTTAAAAGATATTT
1152556 TT
1 TT
1152558 AGGCGTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.21
24 5 0.21
25 14 0.58
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (25 bp):
TTTTTAATTGTTTTAAAAGATATTT
Found at i:1152956 original size:51 final size:51
Alignment explanation
Indices: 1152870--1152967 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
1152860 TACATCTTAG
* * *
1152870 ATATTTAATATTACAAATATCTAAATTCTTCTATAGATAATTCTAGACGTA
1 ATATTAAATATTACAAATATCTAAATTATTCTATAGACAATTCTAGACGTA
* * *
1152921 ATATTAAATATTACAAATATCTAGATTATTTTATAGACATTTCTAGA
1 ATATTAAATATTACAAATATCTAAATTATTCTATAGACAATTCTAGA
1152968 AATGTACTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (51 bp):
ATATTAAATATTACAAATATCTAAATTATTCTATAGACAATTCTAGACGTA
Found at i:1161600 original size:30 final size:30
Alignment explanation
Indices: 1161564--1161630 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
1161554 AAGGTCCTCG
*
1161564 TATAAAATTGTATTATTGATGTCTAGTTGA
1 TATAAAAATGTATTATTGATGTCTAGTTGA
*
1161594 TATAAAAATGTATTTTTGATGTCTAGTTGA
1 TATAAAAATGTATTATTGATGTCTAGTTGA
1161624 TATAAAA
1 TATAAAA
1161631 GCCACTCTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (30 bp):
TATAAAAATGTATTATTGATGTCTAGTTGA
Found at i:1161928 original size:30 final size:30
Alignment explanation
Indices: 1161894--1161988 Score: 154
Period size: 30 Copynumber: 3.2 Consensus size: 30
1161884 GGTTCTCGTT
* *
1161894 TAAAAATGTATTATTGATGTCTAGGTGATA
1 TAAAAATGTATTTTTGATGTCTAGTTGATA
* *
1161924 TAAAAATTTATTTTTGATGTCTACTTGATA
1 TAAAAATGTATTTTTGATGTCTAGTTGATA
1161954 TAAAAATGTATTTTTGATGTCTAGTTGATA
1 TAAAAATGTATTTTTGATGTCTAGTTGATA
1161984 TAAAA
1 TAAAA
1161989 GCCACTCTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (30 bp):
TAAAAATGTATTTTTGATGTCTAGTTGATA
Found at i:1166990 original size:21 final size:21
Alignment explanation
Indices: 1166939--1166991 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1166929 ATTATGACTA
1166939 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
1166960 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
1166981 TCGCAATGCGA
1 TCGCAATGCGA
1166992 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:1167006 original size:20 final size:21
Alignment explanation
Indices: 1166981--1167032 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1166971 TTTTCCCAAT
*
1166981 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
1167001 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1167022 TCGCAATGCGA
1 TCGCAATGCGA
1167033 TACCGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1167063 original size:41 final size:41
Alignment explanation
Indices: 1167018--1167095 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
1167008 GCGAATTTGG
*
1167018 AAAATCGCAATGCGATACCGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACCGACTATCGCAACGCGATAATAC
* * * *
1167059 AAAATCGCAACGCGATACTGACTTTCGTAACGTGATA
1 AAAATCGCAACGCGATACCGACTATCGCAACGCGATA
1167096 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
AAAATCGCAACGCGATACCGACTATCGCAACGCGATAATAC
Found at i:1167095 original size:20 final size:20
Alignment explanation
Indices: 1167063--1167155 Score: 123
Period size: 20 Copynumber: 4.7 Consensus size: 20
1167053 TAATACAAAA
*
1167063 TCGCAACGCGATACTGACTT
1 TCGCAACGAGATACTGACTT
* *
1167083 TCGTAACGTGATACTGACTT
1 TCGCAACGAGATACTGACTT
* *
1167103 TCGCAACGCGATTCTGACTT
1 TCGCAACGAGATACTGACTT
* *
1167123 TCGCAACGAGATTCTGACTA
1 TCGCAACGAGATACTGACTT
1167143 TCGCAACGAGATA
1 TCGCAACGAGATA
1167156 ATACAGAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (20 bp):
TCGCAACGAGATACTGACTT
Found at i:1167109 original size:40 final size:40
Alignment explanation
Indices: 1167021--1167155 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 40
1167011 AATTTGGAAA
* * * * * *
1167021 ATCGCAATGCGATACCGACTATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGACTTTCGCAACGAGATACTGAC--T
* *
1167062 ATCGCAACGCGATACTGACTTTCGTAACGTGATACTGACT
1 ATCGCAACGCGATACTGACTTTCGCAACGAGATACTGACT
* * *
1167102 TTCGCAACGCGATTCTGACTTTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACTTTCGCAACGAGATACTGACT
*
1167142 ATCGCAACGAGATA
1 ATCGCAACGCGATA
1167156 ATACAGAATC
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 46 0.59
41 30 0.38
42 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (40 bp):
ATCGCAACGCGATACTGACTTTCGCAACGAGATACTGACT
Found at i:1167328 original size:12 final size:12
Alignment explanation
Indices: 1167309--1167342 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1167299 CTCTCCGGCG
1167309 ACATCCGTTCCT
1 ACATCCGTTCCT
*
1167321 ATATCCGTTCCT
1 ACATCCGTTCCT
1167333 ACATCC-TTCC
1 ACATCCGTTCC
1167343 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:1167924 original size:24 final size:24
Alignment explanation
Indices: 1167897--1167950 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1167887 GTATTCGAAA
*
1167897 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1167921 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1167945 TTTGAT
1 TTTGAT
1167951 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1168142 original size:12 final size:12
Alignment explanation
Indices: 1168125--1168149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1168115 ATATAATCCT
1168125 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1168137 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1168149 G
1 G
1168150 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1170530 original size:19 final size:19
Alignment explanation
Indices: 1170485--1170568 Score: 124
Period size: 19 Copynumber: 4.7 Consensus size: 19
1170475 GAAATGAAAA
1170485 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
1170501 TCG--TTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
1170518 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1170537 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1170556 TCGCATTGCGATT
1 TCGCATTGCGATT
1170569 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.16
16 3 0.05
17 3 0.05
19 45 0.74
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1170559 original size:38 final size:33
Alignment explanation
Indices: 1170485--1170581 Score: 131
Period size: 38 Copynumber: 2.8 Consensus size: 33
1170475 GAAATGAAAA
*
1170485 TCGCATTGCGATTTTCTCGTTGTGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1170518 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
*
1170556 TCGCATTGCGATTCTCTCGTTGCGAT
1 TCGCATTGCGATTTTCTCGTTGCGAT
1170582 AGTCAGTTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
33 23 0.40
35 3 0.05
36 3 0.05
38 28 0.49
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:1170727 original size:14 final size:14
Alignment explanation
Indices: 1170708--1170744 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1170698 CATCAATTAA
1170708 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1170722 ACAAATCATCTTTT
1 ACAAATCAACATTT
1170736 ACAAATCAA
1 ACAAATCAA
1170745 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1172208 original size:41 final size:42
Alignment explanation
Indices: 1172154--1172245 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
1172144 CCTCTTCAAC
* *
1172154 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
1172195 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
1172237 GATGACAGG
1 GATGACAGG
1172246 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:1172210 original size:21 final size:21
Alignment explanation
Indices: 1172181--1172241 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1172171 GAACGGTGGG
*
1172181 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
1172202 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
1172223 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
1172242 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:1172671 original size:19 final size:19
Alignment explanation
Indices: 1172590--1172714 Score: 80
Period size: 20 Copynumber: 6.7 Consensus size: 19
1172580 TAGTTTACTT
* *
1172590 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
1172610 TCGCAACGCAAAAATGACTA
1 TCGCAACGC-GAAATGAAAA
* ***
1172630 TCACAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
1172650 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
1172669 TCGCAA--TG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
1172683 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1172702 TCGCAACGCGAAA
1 TCGCAACGCGAAA
1172715 CACAAATCGC
Statistics
Matches: 81, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 30 0.37
20 34 0.42
21 3 0.04
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1172721 original size:19 final size:19
Alignment explanation
Indices: 1172678--1172725 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
1172668 ATCGCAATGA
1172678 CAAAATCGCAACGCGAAAT
1 CAAAATCGCAACGCGAAAT
*
1172697 GAAAATCGCAACGCGAAA-
1 CAAAATCGCAACGCGAAAT
1172715 CACAAATCGCA
1 CA-AAATCGCA
1172726 TTGCGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.48, C:0.27, G:0.17, T:0.08
Consensus pattern (19 bp):
CAAAATCGCAACGCGAAAT
Found at i:1172743 original size:19 final size:19
Alignment explanation
Indices: 1172721--1172803 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
1172711 GAAACACAAA
1172721 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1172740 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1172759 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1172775 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1172792 TCGCATTGCGAT
1 TCGCATTGCGAT
1172804 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 6 0.11
15 3 0.05
16 4 0.07
17 4 0.07
18 3 0.05
19 35 0.64
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1172822 original size:20 final size:19
Alignment explanation
Indices: 1172788--1172842 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1172778 TTGCGATTTT
*
1172788 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1172807 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1172827 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1172843 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1173155 original size:20 final size:20
Alignment explanation
Indices: 1173130--1173172 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1173120 TAGTTTACTT
1173130 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* *
1173150 TCGCAACGCGAAAATGGCTA
1 TCGCAACACGAAAATGACTA
1173170 TCG
1 TCG
1173173 TAATGCGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:1173180 original size:20 final size:20
Alignment explanation
Indices: 1173130--1173215 Score: 77
Period size: 19 Copynumber: 4.4 Consensus size: 20
1173120 TAGTTTACTT
*
1173130 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
1173150 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* * **
1173170 TCGTAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
* **
1173189 TTGCAACGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
1173208 TCGCAACG
1 TCGCAACG
1173216 ACAAAATCGC
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 29 0.53
20 26 0.47
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:1173263 original size:19 final size:19
Alignment explanation
Indices: 1173241--1173312 Score: 126
Period size: 19 Copynumber: 3.8 Consensus size: 19
1173231 GAAACGCAAA
*
1173241 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1173260 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1173279 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1173298 TCGCGTTGCAATTTT
1 TCGCGTTGCGATTTT
1173313 GTCGTTATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1173361 original size:20 final size:19
Alignment explanation
Indices: 1173327--1173381 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1173317 TTATGATTTT
*
1173327 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1173346 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1173366 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1173382 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1173939 original size:18 final size:18
Alignment explanation
Indices: 1173916--1173963 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
1173906 CGGGTCGATC
1173916 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
1173934 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
1173952 AGGTGATGGCTC
1 AGGTGATGGCTC
1173964 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Done.