Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005516.1 Hibiscus syriacus cultivar Beakdansim tig00012742_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: 117231
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:286 original size:17 final size:18
Alignment explanation
Indices: 246--287 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
236 ATATTTCTTG
*
246 TAAG-ATGAAAGCTTTTG
1 TAAGAATGAAAGCTTTTC
*
263 TACGAATGAAA-CTTTTC
1 TAAGAATGAAAGCTTTTC
280 TAAGAATG
1 TAAGAATG
288 GTTACTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (18 bp):
TAAGAATGAAAGCTTTTC
Found at i:401 original size:30 final size:29
Alignment explanation
Indices: 355--422 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 29
345 TATGCATAAT
* *
355 AAATGCATTATTATAACACATTACCAATA
1 AAATGCATCATTATAACACATCACCAATA
384 AAATGCATCATTTATAACACATCACCAATA
1 AAATGCATCA-TTATAACACATCACCAATA
*
414 ATATGCATC
1 AAATGCATC
423 CAAATTTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (29 bp):
AAATGCATCATTATAACACATCACCAATA
Found at i:8606 original size:40 final size:40
Alignment explanation
Indices: 8539--8690 Score: 106
Period size: 40 Copynumber: 3.7 Consensus size: 40
8529 TAGATGGCCA
* *
8539 GAACTCTTCATCACGTATGAGTCGTGTCATCACCCGACCT
1 GAACTCCTCATCACGTAGGAGTCGTGTCATCACCCGACCT
* * * **** *
8579 GAACTCCTCATCATGTAGGAGTTGTGTCAACTTTTGATAACCA
1 GAACTCCTCATCACGTAGGAGTCGTGTCATCACCCG---ACCT
*** * ** *
8622 GCTGTTCTCATCACGTAGGAACCGTGTTATCACCCGACCT
1 GAACTCCTCATCACGTAGGAGTCGTGTCATCACCCGACCT
* *
8662 GAACTCCTCATCATGTAGGAGTTGTGTCA
1 GAACTCCTCATCACGTAGGAGTCGTGTCA
8691 ACCTTTGATA
Statistics
Matches: 75, Mismatches: 34, Indels: 6
0.65 0.30 0.05
Matches are distributed among these distances:
40 50 0.67
43 25 0.33
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
GAACTCCTCATCACGTAGGAGTCGTGTCATCACCCGACCT
Found at i:8648 original size:83 final size:83
Alignment explanation
Indices: 8546--8738 Score: 296
Period size: 83 Copynumber: 2.3 Consensus size: 83
8536 CCAGAACTCT
* ** * *
8546 TCATCACGTATGAGTCGTGTCATCACCCGACCTGAACTCCTCATCATGTAGGAGTTGTGTCAACT
1 TCATCACGTAGGAACCGTGTTATCACCCGACCTGAACTCCTCATCATGTAGGAGTTGTGTCAACC
* *
8611 TTTGATAACCAGCTGTTC
66 TTTGATAACCAGCCGTCC
8629 TCATCACGTAGGAACCGTGTTATCACCCGACCTGAACTCCTCATCATGTAGGAGTTGTGTCAACC
1 TCATCACGTAGGAACCGTGTTATCACCCGACCTGAACTCCTCATCATGTAGGAGTTGTGTCAACC
8694 TTTGATAACCAGCCGTCC
66 TTTGATAACCAGCCGTCC
* * *
8712 TCATCACTTAGAAACCATGTTATCACC
1 TCATCACGTAGGAACCGTGTTATCACC
8739 TTTTGATGGC
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 100 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (83 bp):
TCATCACGTAGGAACCGTGTTATCACCCGACCTGAACTCCTCATCATGTAGGAGTTGTGTCAACC
TTTGATAACCAGCCGTCC
Found at i:16254 original size:2 final size:2
Alignment explanation
Indices: 16247--16278 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16237 CAAATTGATT
16247 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16279 TTTATTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17645 original size:20 final size:20
Alignment explanation
Indices: 17620--17675 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
17610 GAATAGTATT
17620 ATATTGTATGAACAGTATCG
1 ATATTGTATGAACAGTATCG
* *
17640 ATATTGTATGAATAGTATTG
1 ATATTGTATGAACAGTATCG
* *
17660 ATACTGTGTGAACAGT
1 ATATTGTATGAACAGT
17676 GATGAACAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (20 bp):
ATATTGTATGAACAGTATCG
Found at i:17756 original size:17 final size:20
Alignment explanation
Indices: 17717--17757 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17707 ATACAAAATG
*
17717 AGTATCGATACTGCTATAGT
1 AGTATAGATACTGCTATAGT
*
17737 AGTATAGATACTGTTATAGT
1 AGTATAGATACTGCTATAGT
17757 A
1 A
17758 ATATCAAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
AGTATAGATACTGCTATAGT
Found at i:17998 original size:17 final size:17
Alignment explanation
Indices: 17976--18009 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17966 CACCTATCCC
17976 AGCAATCAAACACAGGA
1 AGCAATCAAACACAGGA
17993 AGCAATCAAACACAGGA
1 AGCAATCAAACACAGGA
18010 GAAGAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.18, T:0.06
Consensus pattern (17 bp):
AGCAATCAAACACAGGA
Found at i:22163 original size:3 final size:3
Alignment explanation
Indices: 22143--22250 Score: 114
Period size: 3 Copynumber: 36.0 Consensus size: 3
22133 CCTGTAAAAT
* *
22143 ATA ATA AGTA ACA TTA ATA ATA GA-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
22189 ATA ATGT ATT ATA AT- ATA ATA GTT ATA ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22234 ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
22251 TTATAATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
2 5 0.06
3 78 0.88
4 6 0.07
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:22216 original size:14 final size:14
Alignment explanation
Indices: 22168--22276 Score: 83
Period size: 15 Copynumber: 7.3 Consensus size: 14
22158 AATAATAGAA
*
22168 ATAATAATAATAATA
1 ATAAT-ATAATAATT
*
22183 ATAATAATAATGTATT
1 ATAAT-ATAAT-AATT
*
22199 ATAATATAATAGTT
1 ATAATATAATAATT
*
22213 ATAATAATAATAATA
1 ATAAT-ATAATAATT
*
22228 ATAATAATAATATAATA
1 ATAAT-AT-A-ATAATT
*
22245 ATAATATTATAATT
1 ATAATATAATAATT
* *
22259 TTAATATAATATTT
1 ATAATATAATAATT
22273 ATAA
1 ATAA
22277 AATGATATTT
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
14 26 0.33
15 31 0.40
16 10 0.13
17 11 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
ATAATATAATAATT
Found at i:23048 original size:19 final size:20
Alignment explanation
Indices: 23024--23068 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
23014 ACAATTTTTT
*
23024 TATGAATAGTATTG-TACTA
1 TATGAATAGTATCGATACTA
*
23043 TATGAATAGTATCGATACTG
1 TATGAATAGTATCGATACTA
23063 TATGAA
1 TATGAA
23069 AAATATTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (20 bp):
TATGAATAGTATCGATACTA
Found at i:23066 original size:20 final size:20
Alignment explanation
Indices: 23024--23088 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
23014 ACAATTTTTT
*
23024 TATGAATAGTATTG-TACTA
1 TATGAATAGTATTGATACTG
*
23043 TATGAATAGTATCGATACTG
1 TATGAATAGTATTGATACTG
* *
23063 TATGAAAAATATTGATACTG
1 TATGAATAGTATTGATACTG
*
23083 TGTGAA
1 TATGAA
23089 CAGTGATGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.37
Consensus pattern (20 bp):
TATGAATAGTATTGATACTG
Found at i:24669 original size:66 final size:66
Alignment explanation
Indices: 24427--24892 Score: 503
Period size: 66 Copynumber: 7.2 Consensus size: 66
24417 TTTTTCCTAA
* * * **
24427 AAACAAATTTTGTCTCGCTTGATACAATTTCTCTTGAAATAGAAACCTTTTTGATTGTTTCTCTC
1 AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTC
24492 G
66 G
*
24493 AAACAAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAGACATAAACCTTTGAGATTGTTTCTCT
1 AAAC-AAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
*
24558 CA
65 CG
* *
24560 AAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTATTTCTCT
1 AAACAAA-TTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
*
24625 GG
65 CG
*
24627 AAACAAATTTTGTCTCGCTTGAGGCAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTC
1 AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTC
24692 -
66 G
* * * * * *
24692 AAACCAAATTTTGTGTCGCTTGAGATAGTTTATCTTAAAACATAAACCTTTGAGATTGTTCCTCT
1 AAA-CAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
24757 C-
65 CG
* * *
24758 AAAGCAAA----GT-T---TT--GTCAATTTCTTTTGAAACATAAACTTTTGAGATTGTTTCTCT
1 AAA-CAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
*
24813 TG
65 CG
* * * * * * *
24815 AAA-ATAAGTTTTGTCTCGCTTGATACAATTTTCCCTTAAAACGTAAA-TTTTGA-AATGTTTCA
1 AAACA-AA-TTTTGTCTCGCTTGAGACAA-TTTCTCTTGAAACATAAACCTTTGAGATTGTTTCT
24877 CTCG
63 CTCG
24881 AAACAAAATTTT
1 AAAC-AAATTTT
24893 ATAACACCCG
Statistics
Matches: 339, Mismatches: 42, Indels: 38
0.81 0.10 0.09
Matches are distributed among these distances:
55 1 0.00
56 36 0.11
57 3 0.01
58 2 0.01
61 3 0.01
62 3 0.01
65 5 0.01
66 140 0.41
67 131 0.39
68 15 0.04
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (66 bp):
AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTC
G
Found at i:24669 original size:133 final size:131
Alignment explanation
Indices: 24409--24837 Score: 502
Period size: 133 Copynumber: 3.3 Consensus size: 131
24399 TTGATCTCAC
* * * * * *
24409 TTGAGATATTTTTC-CTAAAAACAAATTTTGTCTCGCTTGATACAATTTCTCTTGAAATAGAAAC
1 TTGAGAT-TGTTTCTCTCAAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAC
** *
24473 CTTTTTGATTGTTTCTCTCGAAACAAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAGACATAA
65 CTTTGAGATTGTTTCTCT-GAAAC-AAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAA
24538 ACCT
128 ACCT
24542 TTGAGATTGTTTCTCTCAAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGAGATTGTTTCTCTCAAAACAAA-TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAC
* *
24607 CTTTGAGATTATTTCTCTGGAAACAAATTTTGTCTCGCTTGAGGCAATTTCTCTTGAAACATAAA
65 CTTTGAGATTGTTTCTCT-GAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAA
24672 CCT
129 CCT
* * * * *
24675 TTGAGATTGTTTCTCTCAAACCAAATTTTGTGTCGCTTGAGATAGTTTATCTTAAAACATAAACC
1 TTGAGATTGTTTCTCTCAAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACC
* * * *
24740 TTTGAGATTGTTCCTCTCAAAGCAAA----GT-T---TT--GTCAATTTCTTTTGAAACATAAAC
66 TTTGAGATTGTTTCTCTGAAA-CAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAAC
*
24795 TT
130 CT
* * *
24797 TTGAGATTGTTTCTCTTGAAAATAAGTTTTGTCTCGCTTGA
1 TTGAGATTGTTTCTC-TCAAAACAAATTTTGTCTCGCTTGA
24838 TACAATTTTC
Statistics
Matches: 264, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
122 38 0.14
123 20 0.08
124 2 0.01
127 1 0.00
128 2 0.01
131 3 0.01
132 60 0.23
133 83 0.31
134 55 0.21
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (131 bp):
TTGAGATTGTTTCTCTCAAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACC
TTTGAGATTGTTTCTCTGAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAACC
T
Found at i:25297 original size:139 final size:139
Alignment explanation
Indices: 25041--25958 Score: 958
Period size: 139 Copynumber: 6.6 Consensus size: 139
25031 CAATCATTAG
* * * * * *
25041 CCACCGACCAGATCTCCTCAACGTGTAGAAGCAGTGTCATCCTCAGATAACTAAACTTCCTCATC
1 CCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTCATC
* * * * * *
25106 ATGTAGGAAACATTTTGTCTCCAAATTATCCCTATAA-A-AGGCTAGATATCCTCATCACATAGG
66 ACGTAGGAACCGTGTTGTCTCCAAAGTATCCCTA-AAGACA-GCTAGACATCCTCATCACATAGG
* *
25169 AACAATATTGT
129 AACAATGTCGT
* * * ** *
25180 CCATTGACCAGATCTCTTCAACACGTAGGAGCAGCGTCATCCTCAGATAATTAGACTTACTCATC
1 CCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTCATC
* * * *
25245 ACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAGGACAGCTAGACGTCCTCATCACATAGCAA
66 ACGTAGGAACCGTGTTGTCTCCAAAGTATCCCTAAAGACAGCTAGACATCCTCATCACATAGGAA
25310 CAATGTCGT
131 CAATGTCGT
* * * * * *
25319 CTACTGACCAGATCTCCTCAACGCATAGGAGTAGAGTCATCCTCAGATAACCAGATTTCCTTATC
1 CCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTCATC
* * * *
25384 ACGTAGAAACTGTGTTGTCTCCAAAGTATCCCTAAATAC-GACTAGACATCCTCATCACGTAGGA
66 ACGTAGGAACCGTGTTGTCTCCAAAGTATCCCTAAAGACAG-CTAGACATCCTCATCACATAGGA
*
25448 ACAATGTCTT
130 ACAATGTCGT
* * * *
25458 CCACCGACC-GATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGACAATCAGAATTCCTCATC
1 CCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTCATC
** * * * * * * *
25522 ACGTAAAAATCGTGTTATCTCCAAACTATCCATAAAGA-AGGCTGGACATCCTGATCACATACGA
66 ACGTAGGAACCGTGTTGTCTCCAAAGTATCCCTAAAGACA-GCTAGACATCCTCATCACATAGGA
*
25586 ATAATGTCGT
130 ACAATGTCGT
* * * *
25596 CCACCGACCAGATCTCCTCAACGCGTAGGATCAGTGTCATCCTCATATAACCAGACTTCCTCATC
1 CCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTCATC
* * * * * * *
25661 ACGTAGGAACCATGTTATCTCCAAAATATCCTTAAAGACTGCTAGACGTCCTCATCACGTAGGAA
66 ACGTAGGAACCGTGTTGTCTCCAAAGTATCCCTAAAGACAGCTAGACATCCTCATCACATAGGAA
* *
25726 TAATGTCAT
131 CAATGTCGT
* * * *
25735 CCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCATCATTCTCAGATAACCAAACTTCCTTATC
1 CCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTCATC
* * ** * *
25800 ACGTAGGAATCGTGTTGTCTCCAAAGTATCCCTAAAAATGGCTAGATATCCTCATCACGTAGGAA
66 ACGTAGGAACCGTGTTGTCTCCAAAGTATCCCTAAAGACAGCTAGACATCCTCATCACATAGGAA
25865 CAATGTCGT
131 CAATGTCGT
** * * * * * * * * *
25874 CCACCAACTAGTTCTCTTCAACGCGAATGAGTAGTC-TCTTCCTTAG---A-CA-ACTTTCTCAT
1 CCACTGACCAGATCTCCTCAACGCGTAGGAGCAG-CGTCATCCTCAGATAACCAGACTTCCTCAT
*
25933 CACGTAGGAACCGTGTTGTCACCAAA
65 CACGTAGGAACCGTGTTGTCTCCAAA
25959 TTAAATTCAT
Statistics
Matches: 654, Mismatches: 117, Indels: 21
0.83 0.15 0.03
Matches are distributed among these distances:
134 32 0.05
135 2 0.00
136 1 0.00
138 117 0.18
139 500 0.76
140 2 0.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (139 bp):
CCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTCATC
ACGTAGGAACCGTGTTGTCTCCAAAGTATCCCTAAAGACAGCTAGACATCCTCATCACATAGGAA
CAATGTCGT
Found at i:25822 original size:416 final size:417
Alignment explanation
Indices: 25041--25898 Score: 1127
Period size: 416 Copynumber: 2.1 Consensus size: 417
25031 CAATCATTAG
* * *
25041 CCACCGACCAGATCTCCTCAACGTGTAGAAGCAGTGTCATCCTCAGATAACTAAACTTCCTCATC
1 CCACCGACCAGATCTCCTCAACGCGTAGAAGCAGCGTCATCCTCAGACAACTAAACTTCCTCATC
* * * * * * * *
25106 ATGTAGGAAACATTTTGTCTCCAAATTATCCCTATAAAAGGCTAGATATCCTCATCACATAGGAA
66 ACGTAGAAAACATGTTATCTCCAAACTATCCATATAAAAGGCTAGACATCCTCATCACATACGAA
* ** * **
25171 CAATATTGTCCATTGACCAGATCTCTTCAACACGTAGGAGCAGCGTCATCCTCAGATAATTAGAC
131 CAATATCGTCCACCGACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACCAGAC
* * * *
25236 TTACTCATCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAGGACAGCTAGACGTCCTCATC
196 TTACTCATCACGTAGGAACCATGTTATCTCCAAAATATCCCTAAAGACAGCTAGACGTCCTCATC
* * *
25301 ACATAGCAACAATGTCGTCTACTGACCAGATCTCCTCAACGCATAGGAGTAGAGTCATCCTCAGA
261 ACATAGCAACAATGTCATCCACTGACCAGATCTCCTCAACGCATAGGAGCAGAGTCATCCTCAGA
* * *
25366 TAACCAGATTTCCTTATCACGTAGAAACTGTGTTGTCTCCAAAGTATCCCTAAATACGACTAGAC
326 TAACCAAACTTCCTTATCACGTAGAAACTGTGTTGTCTCCAAAGTATCCCTAAAAACGACTAGAC
*
25431 ATCCTCATCACGTAGGAACAATGTCTT
391 ATCCTCATCACGTAGGAACAATGTCGT
*
25458 CCACCGACC-GATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGACAA-TCAGAA-TTCCTCA
1 CCACCGACCAGATCTCCTCAACGCGTAGAAGCAGCGTCATCCTCAGACAACT-A-AACTTCCTCA
* * *
25520 TCACGTA-AAAATCGTGTTATCTCCAAACTATCCATA-AAGAAGGCTGGACATCCTGATCACATA
64 TCACGTAGAAAA-CATGTTATCTCCAAACTATCCATATAA-AAGGCTAGACATCCTCATCACATA
* * * * * *
25583 CGAATAATGTCGTCCACCGACCAGATCTCCTCAACGCGTAGGATCAGTGTCATCCTCATATAACC
127 CGAACAATATCGTCCACCGACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACC
* * *
25648 AGACTTCCTCATCACGTAGGAACCATGTTATCTCCAAAATATCCTTAAAGACTGCTAGACGTCCT
192 AGACTTACTCATCACGTAGGAACCATGTTATCTCCAAAATATCCCTAAAGACAGCTAGACGTCCT
* * * * *
25713 CATCACGTAGGAATAATGTCATCCACTGACCAGATCTCCTCAACGCGTAGGAGCAGCA-TCATTC
257 CATCACATAGCAACAATGTCATCCACTGACCAGATCTCCTCAACGCATAGGAGCAG-AGTCATCC
* * *
25777 TCAGATAACCAAACTTCCTTATCACGTAGGAA-TCGTGTTGTCTCCAAAGTATCCCTAAAAATGG
321 TCAGATAACCAAACTTCCTTATCACGTAGAAACT-GTGTTGTCTCCAAAGTATCCCTAAAAACGA
*
25841 CTAGATATCCTCATCACGTAGGAACAATGTCGT
385 CTAGACATCCTCATCACGTAGGAACAATGTCGT
* * * *
25874 CCACCAACTAGTTCTCTTCAACGCG
1 CCACCGACCAGATCTCCTCAACGCG
25899 AATGAGTAGT
Statistics
Matches: 380, Mismatches: 54, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
415 7 0.02
416 348 0.92
417 25 0.07
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (417 bp):
CCACCGACCAGATCTCCTCAACGCGTAGAAGCAGCGTCATCCTCAGACAACTAAACTTCCTCATC
ACGTAGAAAACATGTTATCTCCAAACTATCCATATAAAAGGCTAGACATCCTCATCACATACGAA
CAATATCGTCCACCGACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACCAGAC
TTACTCATCACGTAGGAACCATGTTATCTCCAAAATATCCCTAAAGACAGCTAGACGTCCTCATC
ACATAGCAACAATGTCATCCACTGACCAGATCTCCTCAACGCATAGGAGCAGAGTCATCCTCAGA
TAACCAAACTTCCTTATCACGTAGAAACTGTGTTGTCTCCAAAGTATCCCTAAAAACGACTAGAC
ATCCTCATCACGTAGGAACAATGTCGT
Found at i:26232 original size:3 final size:3
Alignment explanation
Indices: 26224--26288 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
26214 TATTGTTCAC
26224 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26272 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
26289 TAGATATTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27915 original size:305 final size:303
Alignment explanation
Indices: 27341--27949 Score: 1065
Period size: 305 Copynumber: 2.0 Consensus size: 303
27331 AACGACGTAG
* * *
27341 TTTTGAAATGGGTGGTTTTTATTTTAGCTCGTGAGATAATCAAAGTTTAAGTCCTTCTGTCTTTG
1 TTTTGAAATAGGTGGTTTGTATTATAGCTCGTGAGATAATCAAAGTTTAAGTCCTTCTGTCTTTG
*
27406 TAATCTCATCTTTCGGTCATTGAACAAAGTATCATGTTATCTTGTTTCGAGCCTTTATTTTTTTA
66 TAATCTCATCTTTCGATCATTGAACAAAGTATCATGTTATCTTGTTTCGAGCCTTTATTTTTTTA
27471 TGCTTACATTTAAGTCACTAGTTTACATACTGCGCCATGTGGGTCAATGTTTGAATCCGACCCTG
131 TGCTTACATTTAAGTCACTAGTTTACATACTGCGCCATGTGGGTCAATGTTTGAATCCGACCCTG
**
27536 AGGTTTATGAGTCTTATGTTTTGGTCATTATTTACTATGAATGCATTTAGGTATAATTATATTTT
196 AGGTTTACAAGTCTTATGTTTTGGTCATTATTTACTATGAATGCATTTAGGTATAATTATATTTT
* *
27601 GTCCTTTTATGTTTCTGGTTTAGTTTATTTTAGTCCTTAATAT
261 GCCCTTTTATGTTTCTGATTTAGTTTATTTTAGTCCTTAATAT
*
27644 TTTTGAAATAGGTGGGTTTGTATTATAGCTCGTGGGATAATCAAAGTTTAAGTCCTTCTGTCTTT
1 TTTTGAAATAGGT-GGTTTGTATTATAGCTCGTGAGATAATCAAAGTTTAAGTCCTTCTGTCTTT
**
27709 GTAATCTCATCTTTCGATCATTGAATGAAGTATCATGTTATCTTGTTTCGAGCCTTTATTTTTTT
65 GTAATCTCATCTTTCGATCATTGAACAAAGTATCATGTTATCTTGTTTCGAGCCTTTA-TTTTTT
* *
27774 TATGCTTACATTTAAGTCACTAGTTTACATATTGCGCCATGTGGGTTAATGTTTGAATCCGACCC
129 TATGCTTACATTTAAGTCACTAGTTTACATACTGCGCCATGTGGGTCAATGTTTGAATCCGACCC
*
27839 TGAGGTTTGCAAGTCTTATGTTTTGGTCATTATTTACTATGAATGCATTTAGGTATAATTATATT
194 TGAGGTTTACAAGTCTTATGTTTTGGTCATTATTTACTATGAATGCATTTAGGTATAATTATATT
*
27904 TTGCCCTTTTATGTTTCTGATTTATTTTATTTTAGTCCTTAATAT
259 TTGCCCTTTTATGTTTCTGATTTAGTTTATTTTAGTCCTTAATAT
27949 T
1 T
27950 ATTTATAGAT
Statistics
Matches: 289, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
303 12 0.04
304 103 0.36
305 174 0.60
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.47
Consensus pattern (303 bp):
TTTTGAAATAGGTGGTTTGTATTATAGCTCGTGAGATAATCAAAGTTTAAGTCCTTCTGTCTTTG
TAATCTCATCTTTCGATCATTGAACAAAGTATCATGTTATCTTGTTTCGAGCCTTTATTTTTTTA
TGCTTACATTTAAGTCACTAGTTTACATACTGCGCCATGTGGGTCAATGTTTGAATCCGACCCTG
AGGTTTACAAGTCTTATGTTTTGGTCATTATTTACTATGAATGCATTTAGGTATAATTATATTTT
GCCCTTTTATGTTTCTGATTTAGTTTATTTTAGTCCTTAATAT
Found at i:28444 original size:6 final size:6
Alignment explanation
Indices: 28433--28491 Score: 59
Period size: 6 Copynumber: 9.5 Consensus size: 6
28423 ATAATGGTCT
28433 TTTTTA TTTTTA TTTTTA TAATATTTCA -TTTTA TTTTTA TTTTTA TTTTT-
1 TTTTTA TTTTTA TTTTTA T--T-TTT-A TTTTTA TTTTTA TTTTTA TTTTTA
*
28483 GTTTTA TTT
1 TTTTTA TTT
28492 AATGTTGGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
5 5 0.11
6 34 0.76
7 1 0.02
8 1 0.02
9 3 0.07
10 1 0.02
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:30070 original size:120 final size:120
Alignment explanation
Indices: 29929--30171 Score: 477
Period size: 120 Copynumber: 2.0 Consensus size: 120
29919 ACCTTTTCAG
*
29929 TGACCGAAATATTGGAATTACAAGATTTGAAACTCGAAATATAAACTTGAAATTTGCATTAAGTG
1 TGACCGAAATATTGGAATTACAAGATTTGAAACTCGAAATATAAACTTGAAATTTGCACTAAGTG
29994 ACTAAAATGGAATATTACAAAACCTTGAGGACCCAAGAAGGGTTTACCCAAGAGC
66 ACTAAAATGGAATATTACAAAACCTTGAGGACCCAAGAAGGGTTTACCCAAGAGC
30049 TGACCGAAATATTGGAATTACAAGATTTGAAACTCGAAATATAAACTTGAAATTTGCACTAAGTG
1 TGACCGAAATATTGGAATTACAAGATTTGAAACTCGAAATATAAACTTGAAATTTGCACTAAGTG
30114 ACTAAAATGGAATATTACAAAACCTTGAGGACCCAAGAAGGGTTTACCCAAGAGC
66 ACTAAAATGGAATATTACAAAACCTTGAGGACCCAAGAAGGGTTTACCCAAGAGC
30169 TGA
1 TGA
30172 ATGTACATCC
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (120 bp):
TGACCGAAATATTGGAATTACAAGATTTGAAACTCGAAATATAAACTTGAAATTTGCACTAAGTG
ACTAAAATGGAATATTACAAAACCTTGAGGACCCAAGAAGGGTTTACCCAAGAGC
Found at i:34107 original size:16 final size:16
Alignment explanation
Indices: 34086--34118 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34076 ATTTGATTTC
34086 TTTTAAAATAAAAATA
1 TTTTAAAATAAAAATA
*
34102 TTTTAAATTAAAAATA
1 TTTTAAAATAAAAATA
34118 T
1 T
34119 AAAAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTAAAATAAAAATA
Found at i:34122 original size:24 final size:23
Alignment explanation
Indices: 34093--34154 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
34083 TTCTTTTAAA
**
34093 ATAAAAATATTTTAAATTAAAAAT
1 ATAAAAATATTAAAAATT-AAAAT
*
34117 ATAAAAATATTAAAAATTTAAAT
1 ATAAAAATATTAAAAATTAAAAT
34140 ATAAAATATCATTAA
1 ATAAAA-AT-ATTAA
34155 TTATTAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.30
24 18 0.55
25 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAAAAATATTAAAAATTAAAAT
Found at i:40238 original size:12 final size:12
Alignment explanation
Indices: 40221--40245 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40211 AATATAGACC
40221 AGAAATTTAATA
1 AGAAATTTAATA
40233 AGAAATTTAATA
1 AGAAATTTAATA
40245 A
1 A
40246 AGTCGGTTAA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AGAAATTTAATA
Found at i:40647 original size:20 final size:20
Alignment explanation
Indices: 40560--40653 Score: 57
Period size: 20 Copynumber: 4.7 Consensus size: 20
40550 AACAGGTTAA
* *
40560 AATTTGACAAATCCGATTTC
1 AATTTGACAAAACCGATTAC
* *
40580 AATTTGACAAAA-CAAGTAAC
1 AATTTGACAAAACCGA-TTAC
** *
40600 GAATTTGATTAAACCGATTAA
1 -AATTTGACAAAACCGATTAC
* *
40621 AAATTGACAAAACC-AGTTTC
1 AATTTGACAAAACCGA-TTAC
*
40641 AATTTGAGAAAAC
1 AATTTGACAAAAC
40654 TTGTAAAGAG
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
19 3 0.06
20 37 0.69
21 12 0.22
22 2 0.04
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.28
Consensus pattern (20 bp):
AATTTGACAAAACCGATTAC
Found at i:41631 original size:20 final size:21
Alignment explanation
Indices: 41578--41631 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
41568 ATCCGATTTC
41578 AATTTGACAAAACAAGTAATA
1 AATTTGACAAAACAAGTAATA
* *
41599 AATTTGACTAAACAAATTAA-A
1 AATTTGACAAAAC-AAGTAATA
41620 AA-TTGACAAAAC
1 AATTTGACAAAAC
41632 CGGTTTCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.31
21 15 0.52
22 5 0.17
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.24
Consensus pattern (21 bp):
AATTTGACAAAACAAGTAATA
Found at i:41645 original size:20 final size:20
Alignment explanation
Indices: 41557--41631 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
41547 TAACAAGCTA
* **
41557 AAATTTGACAAATCCGATTT
1 AAATTTGACAAAACAAATTT
* * *
41577 CAATTTGACAAAACAAGTAAT
1 AAATTTGACAAAACAAAT-TT
* *
41598 AAATTTGACTAAACAAATTA
1 AAATTTGACAAAACAAATTT
*
41618 AAAATTGACAAAAC
1 AAATTTGACAAAAC
41632 CGGTTTCAAT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 25 0.61
21 16 0.39
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (20 bp):
AAATTTGACAAAACAAATTT
Found at i:42045 original size:197 final size:197
Alignment explanation
Indices: 41618--42179 Score: 584
Period size: 197 Copynumber: 2.8 Consensus size: 197
41608 AAACAAATTA
* * * * *
41618 AAAATTGACAAAACCGGTTTCAATTTGAGAAAACTTGTAAAGAGCTACCAGAATTGTTGAAATTT
1 AAAATTGACAAAACCAGTTTCAATTTGACAAAACTGGTAAAGAGCTACCGGAA-TGTTGACATTT
* * * * * * * *
41683 GTATCGATGCATTTATAAGTATGTATATCAAAGTATCGATACTATAGTAATTTAAAAGAAATGAA
65 GTATCGATACTTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAAATGAA
* * ** * * *
41748 AAAAGGAAAACGTGTCGAAAGTATGGATATCTTACATACATGTATAGATACATGATAATATAACA
130 AAAAGGAAAACCTATC-AAAGTATCAATACCTTACACACATGTATAGATACATGACAATATAACA
41813 TGTT
194 TGTT
* * *
41817 AAAATT-TCATGAAACCAGTTTCAATTTGACAAAACCGGTAAAGAGATACCGGAATGGTTGACAT
1 AAAATTGACA--AAACCAGTTTCAATTTGACAAAACTGGTAAAGAGCTACCGGAAT-GTTGACAT
* *
41881 TTGTATCGATACTTTTATAAATATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTG
63 TTGTATCGATACTTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAAATG
* * * * * *
41946 CAATAA-TAAAGCCTAT-AAAGTATCAATACCTTAGACACATGTATCGATACATGACAATATAAC
128 AAAAAAGGAAAACCTATCAAAGTATCAATACCTTACACACATGTATAGATACATGACAATATAAC
42009 ATGTT
193 ATGTT
* * *
42014 GAAAATTGACAAAATCAGTTTCAATTTGACAAAACTGGTAAAGCGCTATCGGATATGTTGAC---
1 -AAAATTGACAAAACCAGTTTCAATTTGACAAAACTGGTAAAGAGCTACCGGA-ATGTTGACATT
* * * *
42076 GGTATCGATACTGTTATAAGTATATGTACCATAATGT-T-AGTACTTTAGGAATTGAAAAGAAAT
64 TGTATCGATACTTTTATAAGTATATGTACCA-AA-GTATCGGTACTTTAGGAATTTAAAAGAAAT
** * *
42139 -AAAAAATTAAAAACGTCTCAAAAGTATCAATACCTTACACA
127 GAAAAAA-GGAAAACCTATC-AAAGTATCAATACCTTACACA
42180 AAAGTATCGA
Statistics
Matches: 301, Mismatches: 50, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
193 4 0.01
194 50 0.17
195 9 0.03
196 2 0.01
197 108 0.36
198 10 0.03
199 15 0.05
200 103 0.34
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (197 bp):
AAAATTGACAAAACCAGTTTCAATTTGACAAAACTGGTAAAGAGCTACCGGAATGTTGACATTTG
TATCGATACTTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAAATGAAA
AAAGGAAAACCTATCAAAGTATCAATACCTTACACACATGTATAGATACATGACAATATAACATG
TT
Found at i:44260 original size:12 final size:12
Alignment explanation
Indices: 44235--44270 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
44225 GAGAAGAAAA
*
44235 AAGAGAAGGAAG
1 AAGAGAAGGTAG
*
44247 AAGAGAACGTAG
1 AAGAGAAGGTAG
44259 AAGAGAAGGTAG
1 AAGAGAAGGTAG
44271 TAGGGGGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.39, T:0.06
Consensus pattern (12 bp):
AAGAGAAGGTAG
Found at i:51693 original size:22 final size:22
Alignment explanation
Indices: 51668--51735 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
51658 TATCAACCAA
51668 TATTTTGTCTAACGTAGTTTAT
1 TATTTTGTCTAACGTAGTTTAT
* **
51690 TA-TTT-TCT--TGTCACCTTA-
1 TATTTTGTCTAACGT-AGTTTAT
51708 TATTTTGTCTAACGTAGTTTAT
1 TATTTTGTCTAACGTAGTTTAT
51730 TATTTT
1 TATTTT
51736 CTTTTGTAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 4 0.12
19 7 0.21
20 6 0.18
21 7 0.21
22 10 0.29
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (22 bp):
TATTTTGTCTAACGTAGTTTAT
Found at i:51729 original size:21 final size:21
Alignment explanation
Indices: 51667--51735 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
51657 TTATCAACCA
51667 ATATTTTGTCTAACGTAGTTT
1 ATATTTTGTCTAACGTAGTTT
* **
51688 AT-TATTT-TCT--TGTCACCTT
1 ATAT-TTTGTCTAACGT-AGTTT
51707 ATATTTTGTCTAACGTAGTTT
1 ATATTTTGTCTAACGTAGTTT
51728 ATTATTTT
1 A-TATTTT
51736 CTTTTGTAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
18 2 0.06
19 8 0.23
20 8 0.23
21 9 0.26
22 8 0.23
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.57
Consensus pattern (21 bp):
ATATTTTGTCTAACGTAGTTT
Found at i:62590 original size:3 final size:3
Alignment explanation
Indices: 62578--62630 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
62568 TTATGTATTT
62578 ATA A-A 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
62625 ATA ATA
1 ATA ATA
62631 TTATTATTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:64034 original size:38 final size:39
Alignment explanation
Indices: 63990--64070 Score: 148
Period size: 38 Copynumber: 2.1 Consensus size: 39
63980 AATCATAAAA
63990 ATATTTCCTTTAACTTATTAGGAA-TTATTTTAAATGAT
1 ATATTTCCTTTAACTTATTAGGAATTTATTTTAAATGAT
64028 ATATTTCCTTTAACTTATTAGGAATTTATTTTAAATGAT
1 ATATTTCCTTTAACTTATTAGGAATTTATTTTAAATGAT
64067 -TATT
1 ATATT
64071 GGTATAACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 28 0.67
39 14 0.33
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (39 bp):
ATATTTCCTTTAACTTATTAGGAATTTATTTTAAATGAT
Found at i:64060 original size:21 final size:21
Alignment explanation
Indices: 63998--64061 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 21
63988 AAATATTTCC
63998 TTTAACTTATTAGGAA-TTAT
1 TTTAACTTATTAGGAATTTAT
* * * **
64018 TTTAAATGA-TA--TATTTCC
1 TTTAACTTATTAGGAATTTAT
64036 TTTAACTTATTAGGAATTTAT
1 TTTAACTTATTAGGAATTTAT
64057 TTTAA
1 TTTAA
64062 ATGATTATTG
Statistics
Matches: 30, Mismatches: 10, Indels: 7
0.64 0.21 0.15
Matches are distributed among these distances:
17 1 0.03
18 9 0.30
19 4 0.13
20 7 0.23
21 9 0.30
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (21 bp):
TTTAACTTATTAGGAATTTAT
Found at i:65881 original size:18 final size:18
Alignment explanation
Indices: 65858--65893 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
65848 TGAAGAAATG
65858 GAAATAGCTTGCATAGGA
1 GAAATAGCTTGCATAGGA
65876 GAAATAGCTTGCATAGGA
1 GAAATAGCTTGCATAGGA
65894 AATTAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (18 bp):
GAAATAGCTTGCATAGGA
Found at i:68879 original size:38 final size:39
Alignment explanation
Indices: 68836--69007 Score: 208
Period size: 38 Copynumber: 4.5 Consensus size: 39
68826 TACAACTTGG
* * *
68836 AATGTTGGGACATTTTGAAGGTTCATATCAGCATGAAA-
1 AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
** *
68874 AATGTTGGGTTATTTGGAAGGCTCATATCAACAAGAAAT
1 AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
* * *
68913 CATGTTGGGACATTTTAAAGGCTCACATCAACATA-AAA-
1 AATGTTGGGACATTTTGAAGGCTCATATCAACA-AGAAAT
* *
68951 AATGTTTGG-CATTTGGAAGGCTCATATCAACAAGAAAT
1 AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
68989 AATGTTGGGACATTTTGAA
1 AATGTTGGGACATTTTGAA
69008 CGTTCGTATC
Statistics
Matches: 110, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
36 1 0.01
37 23 0.21
38 47 0.43
39 38 0.35
40 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (39 bp):
AATGTTGGGACATTTTGAAGGCTCATATCAACAAGAAAT
Found at i:68979 original size:76 final size:77
Alignment explanation
Indices: 68836--69004 Score: 259
Period size: 76 Copynumber: 2.2 Consensus size: 77
68826 TACAACTTGG
* * * * * *
68836 AATGTTGGGACATTTTGAAGGTTCATATCAGCATGAAAAATGTTGGGTTATTTGGAAGGCTCATA
1 AATGTTGGGACATTTTAAAGGCTCACATCAACATAAAAAATGTTGGGTCATTTGGAAGGCTCATA
68901 TCAACAAGAAAT
66 TCAACAAGAAAT
* *
68913 CATGTTGGGACATTTTAAAGGCTCACATCAACATAAAAAATGTTTGG-CATTTGGAAGGCTCATA
1 AATGTTGGGACATTTTAAAGGCTCACATCAACATAAAAAATGTTGGGTCATTTGGAAGGCTCATA
68977 TCAACAAGAAAT
66 TCAACAAGAAAT
68989 AATGTTGGGACATTTT
1 AATGTTGGGACATTTT
69005 GAACGTTCGT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
76 43 0.52
77 40 0.48
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (77 bp):
AATGTTGGGACATTTTAAAGGCTCACATCAACATAAAAAATGTTGGGTCATTTGGAAGGCTCATA
TCAACAAGAAAT
Found at i:70172 original size:43 final size:43
Alignment explanation
Indices: 70120--70355 Score: 129
Period size: 43 Copynumber: 5.3 Consensus size: 43
70110 GTCTCCCTGG
*
70120 AAGAGTAGTGGAAACAAATCAACATCGAGTATGATCTCCACGA
1 AAGAGTAGTGGAAACAAATCAACATCGAGTCTGATCTCCACGA
* ** * * * *
70163 AAGAGTAGTGG-AACAGATTCTTCTTATTTC-AGATTTGGTCTCCCCGG
1 AAGAGTAGTGGAAACA-AATCAAC--A--TCGAG-TCTGATCTCCACGA
* * * *
70210 AAGAGTAGTGGAAGCAAATCAACCTTGAGTCTGATCTTCACGA
1 AAGAGTAGTGGAAACAAATCAACATCGAGTCTGATCTCCACGA
* * * ** * * *
70253 AAGAGTTGTGG-AACAGATTCTTTTTATTTC-AGATTTGGTCTCCACGG
1 AAGAGTAGTGGAAACA-AATC----AACATCGAG-TCTGATCTCCACGA
* * *
70300 AAGAGTAGTGGAAGCGAATCAACCTCGAGTCTGATCTCCACGA
1 AAGAGTAGTGGAAACAAATCAACATCGAGTCTGATCTCCACGA
70343 AAGAGTAGTGGAA
1 AAGAGTAGTGGAA
70356 TAAATTCTTC
Statistics
Matches: 138, Mismatches: 39, Indels: 32
0.66 0.19 0.15
Matches are distributed among these distances:
42 7 0.05
43 65 0.47
44 4 0.03
45 1 0.01
46 4 0.03
47 52 0.38
48 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
AAGAGTAGTGGAAACAAATCAACATCGAGTCTGATCTCCACGA
Found at i:70217 original size:47 final size:47
Alignment explanation
Indices: 70154--70312 Score: 157
Period size: 47 Copynumber: 3.5 Consensus size: 47
70144 TCGAGTATGA
70154 TCTCCACGAAAGAGTAGTGGAACAGATTCTTCTTATTTCAGATTTGG
1 TCTCCACGAAAGAGTAGTGGAACAGATTCTTCTTATTTCAGATTTGG
* * * ** * * * *
70201 TCTCCCCGGAAGAGTAGTGGAAGCA-AATCAAC---CTTGAG-TCTGA
1 TCTCCACGAAAGAGTAGTGGAA-CAGATTCTTCTTATTTCAGATTTGG
* * *
70244 TCTTCACGAAAGAGTTGTGGAACAGATTCTTTTTATTTCAGATTTGG
1 TCTCCACGAAAGAGTAGTGGAACAGATTCTTCTTATTTCAGATTTGG
*
70291 TCTCCACGGAAGAGTAGTGGAA
1 TCTCCACGAAAGAGTAGTGGAA
70313 GCGAATCAAC
Statistics
Matches: 82, Mismatches: 24, Indels: 12
0.69 0.20 0.10
Matches are distributed among these distances:
42 2 0.02
43 24 0.29
44 4 0.05
46 4 0.05
47 46 0.56
48 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (47 bp):
TCTCCACGAAAGAGTAGTGGAACAGATTCTTCTTATTTCAGATTTGG
Found at i:70220 original size:90 final size:90
Alignment explanation
Indices: 70102--70366 Score: 422
Period size: 90 Copynumber: 2.9 Consensus size: 90
70092 GTCAAGATTG
* * * *
70102 CAGATTTGGTCTCCCTGGAAGAGTAGTGGAAACAAATCAACATCGAGTATGATCTCCACGAAAGA
1 CAGATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTCTGATCTCCACGAAAGA
70167 GTAGTGGAACAGATTCTTCTTATTT
66 GTAGTGGAACAGATTCTTCTTATTT
* *
70192 CAGATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTTGAGTCTGATCTTCACGAAAGA
1 CAGATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTCTGATCTCCACGAAAGA
* *
70257 GTTGTGGAACAGATTCTTTTTATTT
66 GTAGTGGAACAGATTCTTCTTATTT
* *
70282 CAGATTTGGTCTCCACGGAAGAGTAGTGGAAGCGAATCAACCTCGAGTCTGATCTCCACGAAAGA
1 CAGATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTCTGATCTCCACGAAAGA
* *
70347 GTAGTGGAATAAATTCTTCT
66 GTAGTGGAACAGATTCTTCT
70367 CCATCATAGA
Statistics
Matches: 159, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 159 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (90 bp):
CAGATTTGGTCTCCCCGGAAGAGTAGTGGAAGCAAATCAACCTCGAGTCTGATCTCCACGAAAGA
GTAGTGGAACAGATTCTTCTTATTT
Found at i:70480 original size:36 final size:36
Alignment explanation
Indices: 70381--70669 Score: 301
Period size: 36 Copynumber: 7.9 Consensus size: 36
70371 CATAGATTTC
*
70381 AGCCTTCACAGATGAGTAGTGAAGCAAAGCAATCTT
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
** * *
70417 AGTATTCACAGAAGAGAGAGTAGTGAAGCAAAGAAATGTT
1 AGCCTTCAC---AGA-AGAGTAGTGAAGCAAAGCAATCTT
*
70457 AGCCTTCATAGAAGAGTAGTGAAGCAAAGCAATCTT
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
* * *
70493 AGTCTTCACAGAAGGGTAGTGAAGCAAAGCAATCAT
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
* * * * *
70529 AGCC-TAACAAAAAGAGTAGTGAAGAAAATCAATCTC
1 AGCCTTCAC-AGAAGAGTAGTGAAGCAAAGCAATCTT
* * **
70565 AGCCTTCACAAAAGAGTAGTGAAGCAAATCAATCAC
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
* * *
70601 ATCCTTCACAGAAGAGTAGTGAAGCAAATCAATCAT
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
* * * *
70637 ATCCTTAACAAAAGAGTAGTGAAGCAAATCAAT
1 AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAAT
70670 TCCAATCTTT
Statistics
Matches: 217, Mismatches: 30, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
35 3 0.01
36 178 0.82
37 6 0.03
39 3 0.01
40 27 0.12
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (36 bp):
AGCCTTCACAGAAGAGTAGTGAAGCAAAGCAATCTT
Found at i:70588 original size:108 final size:107
Alignment explanation
Indices: 70383--70701 Score: 345
Period size: 108 Copynumber: 2.9 Consensus size: 107
70373 TAGATTTCAG
* * ** *
70383 CCTTCACAGATGAGTAGTGAAGCAAAGCAATCTTAGTATTCACAGAAGAGAGAGTAGTGAAGCAA
1 CCTTCACAGAAGAGTAGTGAAGCAAAGCAATCATAG-CCTAACA-AA-A-AGAGTAGTGAAGCAA
** * * * **
70448 AGAAATGTTAGCCTTCATAGAAGAGTAGTGAAGCAAAGCAATCTTAGT
62 ATCAAT-TCAGCCTTCACAAAAGAGTAGTGAAGCAAAGCAATCACA-T
* *
70496 -CTTCACAGAAGGGTAGTGAAGCAAAGCAATCATAGCCTAACAAAAAGAGTAGTGAAGAAAATCA
1 CCTTCACAGAAGAGTAGTGAAGCAAAGCAATCATAGCCTAACAAAAAGAGTAGTGAAGCAAATCA
*
70560 ATCTCAGCCTTCACAAAAGAGTAGTGAAGCAAATCAATCACAT
66 AT-TCAGCCTTCACAAAAGAGTAGTGAAGCAAAGCAATCACAT
* *
70603 CCTTCACAGAAGAGTAGTGAAGCAAATCAATCATATCCTTAAC-AAAAGAGTAGTGAAGCAAATC
1 CCTTCACAGAAGAGTAGTGAAGCAAAGCAATCATAGCC-TAACAAAAAGAGTAGTGAAGCAAATC
* * *
70667 AATTCCAATCTTTCACAAAAAGAGTAGTAAAGCAA
65 AATT-C-AGCCTTCAC-AAAAGAGTAGTGAAGCAA
70702 GATAAAATCA
Statistics
Matches: 178, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
107 2 0.01
108 109 0.61
109 12 0.07
110 19 0.11
111 4 0.02
112 32 0.18
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.20
Consensus pattern (107 bp):
CCTTCACAGAAGAGTAGTGAAGCAAAGCAATCATAGCCTAACAAAAAGAGTAGTGAAGCAAATCA
ATTCAGCCTTCACAAAAGAGTAGTGAAGCAAAGCAATCACAT
Found at i:73805 original size:24 final size:24
Alignment explanation
Indices: 73778--73823 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
73768 AAATTAAAAT
73778 AAAAT-ATCTAAAAGATAAATCCTA
1 AAAATAATC-AAAAGATAAATCCTA
73802 AAAATAATCAAAAGATAAATCC
1 AAAATAATCAAAAGATAAATCC
73824 CAAGATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.61, C:0.13, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAATAATCAAAAGATAAATCCTA
Found at i:73822 original size:12 final size:13
Alignment explanation
Indices: 73783--73822 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
73773 AAAATAAAAT
73783 ATCTAAAAGATAA
1 ATCTAAAAGATAA
73796 ATCCTAAAA-AT-A
1 AT-CTAAAAGATAA
73808 ATC-AAAAGATAA
1 ATCTAAAAGATAA
73820 ATC
1 ATC
73823 CCAAGATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 4 0.17
11 3 0.12
12 7 0.29
13 4 0.17
14 6 0.25
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.23
Consensus pattern (13 bp):
ATCTAAAAGATAA
Found at i:79191 original size:2 final size:2
Alignment explanation
Indices: 79186--79220 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
79176 CTTTCATTAA
79186 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79221 GTTCTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:82481 original size:15 final size:16
Alignment explanation
Indices: 82461--82490 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
82451 CACTATTTAC
82461 TATTTAAAA-AAATAA
1 TATTTAAAATAAATAA
82476 TATTTAAAATAAATA
1 TATTTAAAATAAATA
82491 TTTTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATTTAAAATAAATAA
Found at i:82858 original size:30 final size:30
Alignment explanation
Indices: 82802--82859 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
82792 TAAGTCTTCT
** *
82802 AATTTATATAATTAATATTATTTAATTTTA
1 AATTTATATAATTAATAAAATATAATTTTA
82832 AATTTATATAA-TAATAAAATCATAATTT
1 AATTTATATAATTAATAAAAT-ATAATTT
82860 ATATCTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
AATTTATATAATTAATAAAATATAATTTTA
Found at i:84245 original size:17 final size:18
Alignment explanation
Indices: 84212--84248 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
84202 AATTTTAAGA
84212 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
84230 AAATATA-TACTTTTTAT
1 AAATATATTAATTTTTAT
84247 AA
1 AA
84249 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:86879 original size:38 final size:40
Alignment explanation
Indices: 86833--86932 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 40
86823 GAATGACCAC
*
86833 TATGTCCCGAAGGACCACTGATTGTTCC-AAAGA-ACTAT
1 TATGTCCCGAAGGACCACTGATTGTCCCGAAAGACACTAT
* * *
86871 TATGTCCCGAAGGACCACTGTTTGTCCCGAAGGACCACTGT
1 TATGTCCCGAAGGACCACTGATTGTCCCGAAAGA-CACTAT
86912 T-TGTCCCGAAGGACCACTGAT
1 TATGTCCCGAAGGACCACTGAT
86933 AATCCCTCGA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 26 0.48
39 4 0.07
40 19 0.35
41 5 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TATGTCCCGAAGGACCACTGATTGTCCCGAAAGACACTAT
Found at i:86938 original size:20 final size:20
Alignment explanation
Indices: 86835--86930 Score: 126
Period size: 20 Copynumber: 4.9 Consensus size: 20
86825 ATGACCACTA
*
86835 TGTCCCGAAGGACCACTGAT
1 TGTCCCGAAGGACCACTGTT
* * *
86855 TGTTCC-AAAGA--ACTATT
1 TGTCCCGAAGGACCACTGTT
86872 ATGTCCCGAAGGACCACTGTT
1 -TGTCCCGAAGGACCACTGTT
86893 TGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCACTGTT
86913 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
86931 ATAATCCCTC
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
17 4 0.06
18 5 0.08
19 8 0.12
20 43 0.66
21 5 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (20 bp):
TGTCCCGAAGGACCACTGTT
Found at i:88383 original size:19 final size:19
Alignment explanation
Indices: 88355--88406 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
88345 CTTAAGGGGG
*
88355 TGCATTGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
88374 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
88393 TGCATCGATGCACT
1 TGCATCGATGCACT
88407 AATCGCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:91863 original size:4 final size:4
Alignment explanation
Indices: 91799--92376 Score: 1065
Period size: 4 Copynumber: 145.5 Consensus size: 4
91789 AATATACTAT
* * * * * *
91799 ATAC ATAT ATAC ATGC ATAC ATGC ATAC ATGC ATAC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
91847 ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
91895 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
91943 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
91989 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
92035 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
92083 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
92131 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
92179 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
92227 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
92275 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
92323 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
92371 ATAC AT
1 ATAC AT
92377 GTCATTATCA
Statistics
Matches: 556, Mismatches: 14, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
2 4 0.01
4 552 0.99
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:92791 original size:20 final size:20
Alignment explanation
Indices: 92768--92838 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
92758 ACTATGTCAC
*
92768 GAAGGATCACTGATTGTTCT
1 GAAGGACCACTGATTGTTCT
92788 GAAGGACCACTGATTGTTCT
1 GAAGGACCACTGATTGTTCT
*
92808 GAAGGACCACTGATTGTTCC
1 GAAGGACCACTGATTGTTCT
*
92828 GAAGAACCACT
1 GAAGGACCACT
92839 ATATCCCGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (20 bp):
GAAGGACCACTGATTGTTCT
Found at i:92793 original size:40 final size:38
Alignment explanation
Indices: 92747--92876 Score: 113
Period size: 38 Copynumber: 3.3 Consensus size: 38
92737 ATATTTGTCT
*
92747 CGAAGGACACCACTATGTCACGAAGGATCACTGATTGTTC
1 CGAAGGA-ACCACTATGTC-CGAAGGACCACTGATTGTTC
* *
92787 TGAAGG-ACCACTGATTGTTCTGAAGGACCACTGATTGTTC
1 CGAAGGAACCACT-A-TG-TCCGAAGGACCACTGATTGTTC
* * * *
92827 CGAA-GAACCACTATATCCCGAAGGACCATTGTTTGTCC
1 CGAAGGAACCACTATGT-CCGAAGGACCACTGATTGTTC
*
92865 CGAATG-ACCACT
1 CGAAGGAACCACT
92877 GATAATCCCT
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
37 1 0.01
38 34 0.45
39 4 0.05
40 34 0.45
41 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (38 bp):
CGAAGGAACCACTATGTCCGAAGGACCACTGATTGTTC
Found at i:92868 original size:38 final size:40
Alignment explanation
Indices: 92767--92885 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
92757 CACTATGTCA
* * * * ** *
92767 CGAAGGATCACTGATTGTTCTGAAGGACCACTGATTGTTC
1 CGAAGGACCACTGATTGTCCCGAATGACCACTGATAATCC
* *
92807 TGAAGGACCACTGATTGTTCCGAA-GAACCACT-AT-ATCC
1 CGAAGGACCACTGATTGTCCCGAATG-ACCACTGATAATCC
* *
92845 CGAAGGACCATTGTTTGTCCCGAATGACCACTGATAATCC
1 CGAAGGACCACTGATTGTCCCGAATGACCACTGATAATCC
92885 C
1 C
92886 TCGACTCTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
38 28 0.42
39 6 0.09
40 32 0.48
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CGAAGGACCACTGATTGTCCCGAATGACCACTGATAATCC
Found at i:93018 original size:19 final size:20
Alignment explanation
Indices: 92986--93023 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
92976 ACATAGCTTT
92986 TCACATAACATTTC-CATAG
1 TCACATAACATTTCACATAG
* *
93005 TCACATAGCTTTTCACATA
1 TCACATAACATTTCACATA
93024 ACATTTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (20 bp):
TCACATAACATTTCACATAG
Found at i:93041 original size:31 final size:31
Alignment explanation
Indices: 92960--93033 Score: 130
Period size: 31 Copynumber: 2.3 Consensus size: 31
92950 ATACCATTAC
92960 ACATCTTCACATAGTCACATAGCTTTTCACATA
1 ACAT-TTC-CATAGTCACATAGCTTTTCACATA
92993 ACATTTCCATAGTCACATAGCTTTTCACATA
1 ACATTTCCATAGTCACATAGCTTTTCACATA
93024 ACATTTCCAT
1 ACATTTCCAT
93034 TTGCACATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 34 0.83
32 3 0.07
33 4 0.10
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (31 bp):
ACATTTCCATAGTCACATAGCTTTTCACATA
Found at i:93468 original size:2 final size:2
Alignment explanation
Indices: 93461--93500 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
93451 ATTTTCTATC
93461 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
93501 CAATGTTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93906 original size:2 final size:2
Alignment explanation
Indices: 93899--93930 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
93889 CATGAATTAG
93899 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
93931 TCATATGATT
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:95236 original size:3 final size:3
Alignment explanation
Indices: 95209--95327 Score: 111
Period size: 3 Copynumber: 40.0 Consensus size: 3
95199 ATATAAATTT
* * *
95209 ATA ATA TTA ATA CTA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * *
95258 ATA ATA A-A ATA A-A ATA A-A ATA ATT ATA ATT ATA ATA ATA TTT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
95303 ATAA ATA A-A ACTA ATA ATA AAA ATA
1 AT-A ATA ATA A-TA ATA ATA ATA ATA
95328 TAAATAAAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
2 8 0.09
3 77 0.83
4 8 0.09
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:95335 original size:24 final size:26
Alignment explanation
Indices: 95303--95351 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
95293 AATATTTATA
*
95303 ATAAAT-AAAACTAATA-ATAAAAAT
1 ATAAATAAAAACAAATAGATAAAAAT
95327 ATAAATAAAAACAAATAGATAAAAA
1 ATAAATAAAAACAAATAGATAAAAA
95352 AACTAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 9 0.41
26 7 0.32
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (26 bp):
ATAAATAAAAACAAATAGATAAAAAT
Found at i:95883 original size:122 final size:122
Alignment explanation
Indices: 95666--96481 Score: 1255
Period size: 122 Copynumber: 6.7 Consensus size: 122
95656 GGATCAAATT
*
95666 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* * * *
95730 TGAACACTTCTGGAAATATTAATGTTGATCTATCTCCTTCTGTGATAGAATCATGCAA
65 TGAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
* *
95788 AAGGTTGAACAAGCTCTTCCCATTATGAACTTCTTCTTCCTCTTCAGATGAATTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * *
95853 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATACAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
* * *
95910 AAGGTTAAACAAACTCTTCTCATTATGAAATTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
95975 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTTTGTGATAGAGTCATGCAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
* *
96032 AAGGTTGAACACGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
96097 GAACACTTATGGAAATGTTGATGCTGATATATCTGATTCTAG-GATA-AAGTCATGTAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCT-GTGATAGAA-TCATGCAA
* *
96154 AAGGTTGAACAAACTCTTCTCATTATGAAATTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
96219 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTTTGTGATAGAGTCATGCAA
66 GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
* *
96276 AAGGTTGAACACA-CTCTTCTCATTATGAACTTATTCTTCATCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACA-AGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
* * *
96340 TGAACACTTATGGAAATATTGATGCTGATCTATCTCATTCTGGGATA-AAGTCATGCAA
65 TGAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAA-TCATGCAA
* * *
96398 AAGGTTGAACAAGCTCTTCGCATTATGAACTTCTTCTTCCTTTTAAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
96463 GAACACTTCTGGAAATGTT
66 GAACACTTCTGGAAATGTT
96482 AATCCATCGA
Statistics
Matches: 634, Mismatches: 52, Indels: 16
0.90 0.07 0.02
Matches are distributed among these distances:
121 4 0.01
122 624 0.98
123 6 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (122 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCATGCAA
Found at i:96901 original size:22 final size:22
Alignment explanation
Indices: 96876--96949 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
96866 ATCTTTCTTT
96876 TTTGAAGAGAGAATCTATCATC
1 TTTGAAGAGAGAATCTATCATC
96898 TTTGAAGAGAGAATCTATCATC
1 TTTGAAGAGAGAATCTATCATC
*
96920 TTTGAAGA-ATGTATCTATCATC
1 TTTGAAGAGA-GAATCTATCATC
96942 TTTGAAGA
1 TTTGAAGA
96950 ATATAGATGT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 1 0.02
22 49 0.98
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (22 bp):
TTTGAAGAGAGAATCTATCATC
Found at i:98689 original size:77 final size:77
Alignment explanation
Indices: 98539--98690 Score: 209
Period size: 77 Copynumber: 2.0 Consensus size: 77
98529 TATTTCTTGA
* *
98539 TGATATGAGCTTTCAAAATGCCCCACATAGATCATTCCTGTCTGGAATGGGCCTTCAAAATGTCC
1 TGATATGAGCCTTCAAAATGCCCCACATAGATCATTCCTGTCTGGAATGGGCCTTCAAAATGACC
*
98604 AAATATTCAAAC
66 AAACATTCAAAC
* * *
98616 TGATGTGAGCCTTCAAAATGCCCCACATGGATCATTTCTGTCT-GAATTGGGCCTTCAAAAT-AC
1 TGATATGAGCCTTCAAAATGCCCCACATAGATCATTCCTGTCTGGAA-TGGGCCTTCAAAATGAC
*
98679 CTCAACATTCAA
65 C-AAACATTCAA
98691 TTTCTGGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 5 0.08
77 61 0.92
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (77 bp):
TGATATGAGCCTTCAAAATGCCCCACATAGATCATTCCTGTCTGGAATGGGCCTTCAAAATGACC
AAACATTCAAAC
Found at i:106816 original size:17 final size:18
Alignment explanation
Indices: 106783--106819 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
106773 AATTTTAAGA
106783 AAATATATTAATTTTTAT
1 AAATATATTAATTTTTAT
*
106801 AAATATA-TACTTTTTAT
1 AAATATATTAATTTTTAT
106818 AA
1 AA
106820 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATATTAATTTTTAT
Found at i:107244 original size:12 final size:13
Alignment explanation
Indices: 107212--107239 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
107202 AAATATATTG
107212 AAAATAAAAATAT
1 AAAATAAAAATAT
107225 AAAATAAAAATAT
1 AAAATAAAAATAT
107238 AA
1 AA
107240 CTAAATATTA
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAAATAT
Found at i:108558 original size:3 final size:3
Alignment explanation
Indices: 108550--108627 Score: 61
Period size: 3 Copynumber: 25.0 Consensus size: 3
108540 ATATAAATTT
*
108550 ATA ATA ATA ATA ATA ATAA ATAA ATAA ATA A-A ATA ATT ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA ATA ATA
* * *
108597 TTT ATA ATAA ATA A-A ACTA ATA ATA AAA ATA
1 ATA ATA AT-A ATA ATA A-TA ATA ATA ATA ATA
108628 TAAATAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
2 4 0.06
3 42 0.68
4 16 0.26
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:108635 original size:24 final size:26
Alignment explanation
Indices: 108603--108651 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
108593 AATATTTATA
*
108603 ATAAAT-AAAACTAATA-ATAAAAAT
1 ATAAATAAAAACAAATAGATAAAAAT
108627 ATAAATAAAAACAAATAGATAAAAA
1 ATAAATAAAAACAAATAGATAAAAA
108652 AAAAACTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 9 0.41
26 7 0.32
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (26 bp):
ATAAATAAAAACAAATAGATAAAAAT
Found at i:108706 original size:25 final size:25
Alignment explanation
Indices: 108674--108748 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
108664 CTTCACATGG
108674 TTAGTCTGACTATCACATTGGACTA
1 TTAGTCTGACTATCACATTGGACTA
* *
108699 TTATTCTGACTATCACAATGGACTA
1 TTAGTCTGACTATCACATTGGACTA
*
108724 TTAGTCTGACTATCACATTGTACTA
1 TTAGTCTGACTATCACATTGGACTA
108749 AGGAGCACGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (25 bp):
TTAGTCTGACTATCACATTGGACTA
Found at i:112442 original size:74 final size:76
Alignment explanation
Indices: 112314--112498 Score: 247
Period size: 74 Copynumber: 2.5 Consensus size: 76
112304 TAAATAAGGA
*
112314 GGTACCGATACCCCTCATAGGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAG
1 GGTACCGATACCCCTCATAGGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAA
112379 AATGCCCAATG
66 AATGCCCAATG
* * *
112390 GGTATCGATACCCCTCATA-GG-GTACCGATACCCTTGTGCCAATTTTGGCTCCGAGAAAAACAA
1 GGTACCGATACCCCTCATAGGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAA
*
112453 AATGCCCTA-G
66 AATGCCCAATG
* * *
112463 AGGTACCAATACCCC-C-TAGAG-GTACAGATACCCCTA
1 -GGTACCGATACCCCTCATAGGGTGTACCGATACCCCTA
112499 GTCATTTAAC
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
72 2 0.02
73 15 0.16
74 59 0.61
75 2 0.02
76 18 0.19
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (76 bp):
GGTACCGATACCCCTCATAGGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAA
AATGCCCAATG
Found at i:112499 original size:18 final size:19
Alignment explanation
Indices: 112457--112496 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
112447 AAACAAAATG
112457 CCCTAGAGGTACCAATACC
1 CCCTAGAGGTACCAATACC
112476 CCCTAGAGGTA-CAGATACC
1 CCCTAGAGGTACCA-ATACC
112495 CC
1 CC
112497 TAGTCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.30, C:0.38, G:0.17, T:0.15
Consensus pattern (19 bp):
CCCTAGAGGTACCAATACC
Found at i:115410 original size:16 final size:16
Alignment explanation
Indices: 115385--115415 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
115375 AGAGGGTTAC
*
115385 CAAAGCTAAAATTTGA
1 CAAAGATAAAATTTGA
115401 CAAAGATAAAATTTG
1 CAAAGATAAAATTTG
115416 TGATGCATGT
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:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
CAAAGATAAAATTTGA
Done.