Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002520.1 Hibiscus syriacus cultivar Beakdansim tig00005131_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: 97324
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1325 original size:20 final size:20
Alignment explanation
Indices: 1302--1364 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
1292 ATCTAAATTC
1302 TAAACAGATTACCTAACAAT
1 TAAACAGATTACCTAACAAT
* **
1322 TAAACATATTATAGATAAACAAT
1 TAAACAGA-T-TACCT-AACAAT
1345 TAAACAGATTACCTTAACAA
1 TAAACAGATTACC-TAACAA
1365 AATAACAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 5 0.15
23 13 0.39
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAACAGATTACCTAACAAT
Found at i:1520 original size:24 final size:27
Alignment explanation
Indices: 1459--1512 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
1449 CCAATATATA
*
1459 AACAATTAAACAAATTACATTGAAGAT
1 AACAATTAAACAAATTACAGTGAAGAT
1486 GAAGCAATTAAACAAATTACAGTGAAG
1 -AA-CAATTAAACAAATTACAGTGAAG
1513 TAAATTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (27 bp):
AACAATTAAACAAATTACAGTGAAGAT
Found at i:3637 original size:17 final size:18
Alignment explanation
Indices: 3602--3639 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3592 TTTTATGACC
3602 AGGAGGGTAATGAGGGAG
1 AGGAGGGTAATGAGGGAG
*
3620 AGGAGGGTAAT-TGGGAG
1 AGGAGGGTAATGAGGGAG
3637 AGG
1 AGG
3640 CATGTTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.55, T:0.13
Consensus pattern (18 bp):
AGGAGGGTAATGAGGGAG
Found at i:10485 original size:142 final size:143
Alignment explanation
Indices: 10290--10571 Score: 539
Period size: 142 Copynumber: 2.0 Consensus size: 143
10280 ACCTTTAGTC
*
10290 TTTGCCGCTATGATTTTATTATTTCGTCTTTTTCAACAGATCTCATAATAAATCGAGAATATGAT
1 TTTGCCGCTATGATTTTATTATTTCGTCTTTTTCAACAGATCTCATAATAAATCGAGAAGATGAT
10355 GTAAACAAATAAATAGGTAAAGAAACAAAAGGGGAATACCTGGAAAACAGCAGAACTAGGGGTAA
66 GTAAACAAATAAATAGGTAAAGAAACAAAAGGGGAATACCTGGAAAACAGCAGAACTAGGGGTAA
10420 TAACAGAGAATTA
131 TAACAGAGAATTA
*
10433 TTTGCCGTTATGATTTTATTATTTCGTC-TTTTCAACAGATCTCATAATAAATCGAGAAGATGAT
1 TTTGCCGCTATGATTTTATTATTTCGTCTTTTTCAACAGATCTCATAATAAATCGAGAAGATGAT
10497 GTAAACAAATAAATAGGTAAAGAAACAAAAGGGGAATACCTGGAAAACAGCAGAACTAGGGGTAA
66 GTAAACAAATAAATAGGTAAAGAAACAAAAGGGGAATACCTGGAAAACAGCAGAACTAGGGGTAA
10562 TAACAGAGAA
131 TAACAGAGAA
10572 AGACGAGGTA
Statistics
Matches: 137, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
142 110 0.80
143 27 0.20
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (143 bp):
TTTGCCGCTATGATTTTATTATTTCGTCTTTTTCAACAGATCTCATAATAAATCGAGAAGATGAT
GTAAACAAATAAATAGGTAAAGAAACAAAAGGGGAATACCTGGAAAACAGCAGAACTAGGGGTAA
TAACAGAGAATTA
Found at i:20896 original size:18 final size:19
Alignment explanation
Indices: 20873--20915 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
20863 CAAGAATCCT
20873 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
20891 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
20911 ATTCC
1 ATTCC
20916 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:20903 original size:20 final size:20
Alignment explanation
Indices: 20878--20915 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
20868 ATCCTATTCC
20878 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
20898 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
20916 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:23727 original size:16 final size:16
Alignment explanation
Indices: 23706--23742 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
23696 TCAAATATAC
23706 ATTCCAATAATCTTTT
1 ATTCCAATAATCTTTT
23722 ATTCCAATAATCTTTT
1 ATTCCAATAATCTTTT
23738 ATTCC
1 ATTCC
23743 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTCCAATAATCTTTT
Found at i:23837 original size:18 final size:19
Alignment explanation
Indices: 23814--23851 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
23804 CTCAGTAATG
23814 TTATT-CACTGGTAATCTT
1 TTATTCCACTGGTAATCTT
23832 TTATTCCCACTGGTAATCTT
1 TTATT-CCACTGGTAATCTT
23852 ACATTCCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
TTATTCCACTGGTAATCTT
Found at i:23857 original size:20 final size:20
Alignment explanation
Indices: 23819--23858 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23809 TAATGTTATT
**
23819 CACTGGTAATCTTTTATTCC
1 CACTGGTAATCTTACATTCC
23839 CACTGGTAATCTTACATTCC
1 CACTGGTAATCTTACATTCC
23859 GTGAACCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.40
Consensus pattern (20 bp):
CACTGGTAATCTTACATTCC
Found at i:34477 original size:64 final size:64
Alignment explanation
Indices: 34409--34633 Score: 258
Period size: 64 Copynumber: 3.5 Consensus size: 64
34399 TTGTTTGAAG
** ** *
34409 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATACAATT
34472 T
64 T
* ** *
34473 GTGCATCGATGCATAAGTAGTGCATCGATACATCCCATTAATAAGGAAACATCGAATACAATTA
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTT
* * * *
34537 GTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTT
1 GTGCATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTT
* * *
34601 ATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCAT
34634 ACCTTCATTA
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
63 2 0.01
64 127 0.93
65 7 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTT
Found at i:35509 original size:103 final size:103
Alignment explanation
Indices: 35385--35607 Score: 446
Period size: 103 Copynumber: 2.2 Consensus size: 103
35375 GTCGAGGGTC
35385 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
35450 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
35488 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
35553 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
35591 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
35608 CATTATTATA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 120 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:35653 original size:23 final size:23
Alignment explanation
Indices: 35619--35681 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
35609 ATTATTATAT
35619 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
35642 GGCACT-CTGGTGCAATTCTACGT
1 GGCACTAC-GGTGCAATTCTACGC
* *
35665 GGCACTTCGGTACAATT
1 GGCACTACGGTGCAATT
35682 ATATGAGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 1 0.03
23 34 0.94
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:40220 original size:64 final size:64
Alignment explanation
Indices: 40152--40376 Score: 188
Period size: 64 Copynumber: 3.5 Consensus size: 64
40142 TTGTTTGAAG
** ** *
40152 GTGCATCGATGCATTGGTAGTACATAGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATT
1 GTGCATCGATGCATAAGTAGTACATAGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATT
*
40215 T
64 A
* * *
40216 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTA
1 GTGCATCGATGCATAAGTAGTACATAGATGCATCCCATTAATAAGAAAACATCGAATGCAATTA
* * * * * * * * *
40280 GTGTATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTT
1 GTGCATCGATGCATAA-GTAGTACATAGATGCATCCCATTAATAAGAAAACATCGAATGCA-ATT
40344 A
64 A
* * * *
40345 -TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTACATAGATGCAT
40377 ACCTTCATTA
Statistics
Matches: 135, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
63 2 0.01
64 123 0.91
65 10 0.07
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTACATAGATGCATCCCATTAATAAGAAAACATCGAATGCAATTA
Found at i:41252 original size:103 final size:103
Alignment explanation
Indices: 41127--41349 Score: 419
Period size: 103 Copynumber: 2.2 Consensus size: 103
41117 GTCGAGGGTC
* *
41127 TATGTGGTTCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
41192 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCATAAGGAGTGA
41230 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
41295 TTGATCCCTAGTATATGTATATGATTCATAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCATAAGGAGTGA
41333 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
41350 CATTATTATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
103 117 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCATAAGGAGTGA
Found at i:41395 original size:23 final size:23
Alignment explanation
Indices: 41361--41423 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
41351 ATTATTATAT
41361 GGCACTAC-GGTGCAATTCTACGC
1 GGCACT-CTGGTGCAATTCTACGC
*
41384 GGCACTCTGGTGCAATTCTACGT
1 GGCACTCTGGTGCAATTCTACGC
41407 GGCACT-TCGGTGCAATT
1 GGCACTCT-GGTGCAATT
41424 ATATGAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTCTACGC
Found at i:51770 original size:17 final size:18
Alignment explanation
Indices: 51748--51781 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51738 ATTTTAAAGT
51748 TTAATA-AAAAAATATTC
1 TTAATAGAAAAAATATTC
*
51765 TTAATAGAAAATATATT
1 TTAATAGAAAAAATATT
51782 TATATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
TTAATAGAAAAAATATTC
Found at i:52008 original size:30 final size:29
Alignment explanation
Indices: 51945--52014 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
51935 GAAGTCAATA
* *
51945 ATAAAATTATATTTTAATCATTTAAAATG
1 ATAAAATTTTAATTTAATCATTTAAAATG
* * *
51974 ATAAAATTTTAATTTATTCGTTCTAAAATT
1 ATAAAATTTTAATTTAATCATT-TAAAATG
52004 AT-AAATTTTAA
1 ATAAAATTTTAA
52015 AAATCTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 27 0.77
30 8 0.23
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (29 bp):
ATAAAATTTTAATTTAATCATTTAAAATG
Found at i:52355 original size:21 final size:20
Alignment explanation
Indices: 52269--52426 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
52259 AAATGACCAA
**
52269 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
52288 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
52308 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
52328 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
52349 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
52370 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
52390 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
52411 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
52427 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:52455 original size:20 final size:20
Alignment explanation
Indices: 52393--52586 Score: 205
Period size: 20 Copynumber: 9.7 Consensus size: 20
52383 CGATTTTCCA
* ** *
52393 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
52413 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
52433 AAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGT
52453 AAATCGCAAC-CTGTATCCGT
1 AAATCGCAACGC-GTATCCGT
**
52473 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
52493 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52513 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
52533 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
52553 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
52574 AAATCGCAACGCG
1 AAATCGCAACGCG
52587 ATATTTAAAG
Statistics
Matches: 145, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.02
20 123 0.85
21 18 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:52477 original size:60 final size:60
Alignment explanation
Indices: 52393--52586 Score: 230
Period size: 60 Copynumber: 3.2 Consensus size: 60
52383 CGATTTTCCA
* ** * *
52393 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
* ***
52453 AAATCGCAAC-CTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAA-TGCGTATCCGT
1 AAATCGCAACGC-GTATCCGTAAATCGCAACGCGAATACATAAATCGCAACT-CGTATCCGT
* ** *
52513 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACTCGTATCCGT
52574 AAATCGCAACGCG
1 AAATCGCAACGCG
52587 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
59 2 0.02
60 78 0.70
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
Found at i:53009 original size:33 final size:33
Alignment explanation
Indices: 52970--53040 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
52960 TTCACTTAGA
*
52970 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
53003 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
53036 TTTCA
1 TTTCA
53041 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:53177 original size:41 final size:41
Alignment explanation
Indices: 53119--53196 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
53109 TTGCAGAAGA
*
53119 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
*
53160 GTCGCAACGAGAGAAATGAAAATCGCAACGATAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
53197 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:53195 original size:21 final size:21
Alignment explanation
Indices: 53120--53195 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
53110 TGCAGAAGAG
*
53120 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
53141 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
53161 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
*
53182 TCGCAACGATAGAA
1 TCGCAACGAGAGAA
53196 TCGCAACGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:53199 original size:14 final size:14
Alignment explanation
Indices: 53180--53236 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
53170 GAGAAATGAA
53180 AATCGCAACGATAG
1 AATCGCAACGATAG
53194 AATCGCAACGCGATATG
1 AATCGCAA--CGATA-G
*
53211 AAAATCGCAACGAGAG
1 --AATCGCAACGATAG
53227 AATCGCAACG
1 AATCGCAACG
53237 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 6 0.16
17 5 0.14
19 8 0.22
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12
Consensus pattern (14 bp):
AATCGCAACGATAG
Found at i:53215 original size:33 final size:33
Alignment explanation
Indices: 53175--53239 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
53165 AACGAGAGAA
*
53175 ATGAAAATCGCAACGATAGAATCGCAACGCGAT
1 ATGAAAATCGCAACGAGAGAATCGCAACGCGAT
53208 ATGAAAATCGCAACGAGAGAATCGCAACGCGA
1 ATGAAAATCGCAACGAGAGAATCGCAACGCGA
53240 AACCAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (33 bp):
ATGAAAATCGCAACGAGAGAATCGCAACGCGAT
Found at i:53218 original size:19 final size:19
Alignment explanation
Indices: 53175--53222 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
53165 AACGAGAGAA
53175 ATGAAAATCGCAA--CGAT
1 ATGAAAATCGCAACGCGAT
53192 A-G--AATCGCAACGCGAT
1 ATGAAAATCGCAACGCGAT
53208 ATGAAAATCGCAACG
1 ATGAAAATCGCAACG
53223 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 8 0.31
16 6 0.23
17 2 0.08
19 10 0.38
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.15
Consensus pattern (19 bp):
ATGAAAATCGCAACGCGAT
Found at i:53248 original size:33 final size:33
Alignment explanation
Indices: 53178--53252 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
53168 GAGAGAAATG
* * **
53178 AAAATCGCAACGATAGAATCGCAACGCGATATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
53211 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
53244 AAAATCGCA
1 AAAATCGCA
53253 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:53289 original size:14 final size:14
Alignment explanation
Indices: 53270--53326 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
53260 TTTAATTTCG
53270 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
53284 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
53303 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
53317 CGTTGCGATT
1 CGTTGCGATT
53327 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:53295 original size:33 final size:33
Alignment explanation
Indices: 53253--53345 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
53243 CAAAATCGCA
*
53253 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
53286 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
53319 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
53346 TTCATTTCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:53308 original size:19 final size:19
Alignment explanation
Indices: 53248--53353 Score: 106
Period size: 19 Copynumber: 6.1 Consensus size: 19
53238 GAAACCAAAA
* *
53248 TCGCATTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
53267 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
53281 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
53300 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
53314 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
53333 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
53352 TC
1 TC
53354 AACCAAAAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.28
16 6 0.08
17 5 0.07
19 40 0.56
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:53468 original size:24 final size:26
Alignment explanation
Indices: 53422--53473 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
53412 ATGTTTATTG
*
53422 TTTTGGTATATCTTCACAGTGTA-GT
1 TTTTGGTATATCTTAACAGTGTATGT
**
53447 TTTTGGTATATC-TAACTTTGTATGT
1 TTTTGGTATATCTTAACAGTGTATGT
53472 TT
1 TT
53474 ATTGTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.19, C:0.10, G:0.17, T:0.54
Consensus pattern (26 bp):
TTTTGGTATATCTTAACAGTGTATGT
Found at i:55204 original size:93 final size:93
Alignment explanation
Indices: 55045--55512 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
55035 TAGATTGCTT
*
55045 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55110 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
55138 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55203 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
55231 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55296 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
55323 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55388 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
55416 AGTAACTTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55481 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
55508 AGTAA
1 AGTAA
55513 TGCAATCCAT
Statistics
Matches: 372, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
92 98 0.26
93 274 0.74
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:55361 original size:185 final size:186
Alignment explanation
Indices: 55045--55512 Score: 904
Period size: 185 Copynumber: 2.5 Consensus size: 186
55035 TAGATTGCTT
*
55045 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55110 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
55175 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
55231 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55296 -TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
55360 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
55416 AGTAACTTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
55481 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
55513 TGCAATCCAT
Statistics
Matches: 279, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
185 190 0.68
186 89 0.32
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:55600 original size:19 final size:19
Alignment explanation
Indices: 55560--55688 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
55550 TAGTTTACTT
* *
55560 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
55580 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
55599 TCGCAACGCGAAATAAAAA
1 TCGCAACGCGAAACCAAAA
*
55618 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
55632 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
55651 TCGCAA--CG--A-CAATA
1 TCGCAACGCGAAACCAAAA
55665 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
55684 TCGCA
1 TCGCA
55689 TTGCAGGTGT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:55634 original size:33 final size:32
Alignment explanation
Indices: 55596--55688 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
55586 CGCGAAACCA
**
55596 AAATCGCAACGCGAAATAAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
55628 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
55661 AATATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
55689 TTGCAGGTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:55686 original size:52 final size:52
Alignment explanation
Indices: 55560--55688 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
55550 TAGTTTACTT
* **
55560 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACGCGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
*** *
55612 TAAAAATCGC--AACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AATA
1 TCGCAA-CGCGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
55665 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACGCGAAACACAAAATCGCA
55689 TTGCAGGTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
51 3 0.05
52 47 0.78
53 7 0.12
54 3 0.05
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACGCGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:56504 original size:14 final size:14
Alignment explanation
Indices: 56485--56520 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
56475 ATTGTTTAAT
56485 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
56499 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
56513 TGATTTGT
1 TGATTTGT
56521 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:56711 original size:33 final size:33
Alignment explanation
Indices: 56674--56839 Score: 144
Period size: 32 Copynumber: 4.9 Consensus size: 33
56664 TGCGTTTATA
56674 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
56707 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * *
56747 -TTT-GCGATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGC-A-TTGCGATTCTCTCGTTGCGATTTTC
*
56778 ATTTCGCGTTGCGATTCTCTCGTTGCGA-TTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* * *
56810 ATTTCGCATTGCGATTTTCGCATTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
56840 CTCTCGTTGC
Statistics
Matches: 106, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
31 5 0.05
32 35 0.33
33 34 0.32
35 5 0.05
36 4 0.04
37 2 0.02
38 10 0.09
39 6 0.06
40 5 0.05
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:56720 original size:19 final size:19
Alignment explanation
Indices: 56696--56905 Score: 175
Period size: 19 Copynumber: 12.4 Consensus size: 19
56686 GATTCTCTCG
56696 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
56715 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
56734 TTGCGA--TTC---TCTCT
1 TTGCGATTTTCATTTCGCA
56748 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
56767 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
56786 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
56800 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
56818 TTGCGA---T--TTTCGCA
1 TTGCGATTTTCATTTCGCA
*
56832 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
56846 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
56865 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
56879 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
56898 TTGCGATT
1 TTGCGATT
56906 GTAATTTCCG
Statistics
Matches: 159, Mismatches: 11, Indels: 42
0.75 0.05 0.20
Matches are distributed among these distances:
14 40 0.25
15 4 0.03
16 26 0.16
17 17 0.11
18 6 0.04
19 66 0.42
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:56731 original size:52 final size:52
Alignment explanation
Indices: 56674--56872 Score: 338
Period size: 52 Copynumber: 3.9 Consensus size: 52
56664 TGCGTTTATA
56674 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
56726 ATTTCGCATTGCGATTCTCTCTTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
56778 ATTTCGCGTTGCGATTCTCTCGTTGCGA-TTTCATTTCGCATTGCGA---T-
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
56825 -TTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
56873 CTCTCGTTGC
Statistics
Matches: 140, Mismatches: 4, Indels: 9
0.92 0.03 0.06
Matches are distributed among these distances:
46 26 0.19
47 18 0.13
48 1 0.01
51 18 0.13
52 77 0.55
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:56803 original size:14 final size:14
Alignment explanation
Indices: 56784--56886 Score: 80
Period size: 14 Copynumber: 6.7 Consensus size: 14
56774 TTTCATTTCG
56784 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
56798 CGTTGCGATTTCATTT
1 CGTTGCGA-TTC-TCT
* *
56814 CGCATTGCGATTTTCG
1 CG--TTGCGATTCTCT
*
56830 CATTGCGATTCTCT
1 CGTTGCGATTCTCT
*
56844 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
56861 CGCATTGCGATTCTCT
1 CG--TTGCGATTCTCT
56877 CGTTGCGATT
1 CGTTGCGATT
56887 TTCATTTCGC
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
14 33 0.47
15 3 0.04
16 13 0.19
17 9 0.13
18 6 0.09
19 6 0.09
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:56865 original size:33 final size:33
Alignment explanation
Indices: 56715--56905 Score: 191
Period size: 33 Copynumber: 5.8 Consensus size: 33
56705 TCATTTCGCA
*
56715 TTGCGATTTTCATTTCGCATTGCGATTCTCTCT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
56748 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC---TCTCG
* * * * *
56786 TTGCGATTCTCTCGTTGCG-ATTTC-ATT-TCGCA
1 TTGCGATT-T-TCATTTCGCATTGCGATTCTCTCG
56818 TTGCGA---T--TTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
56846 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
56879 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
56906 GTAATTTCCG
Statistics
Matches: 132, Mismatches: 11, Indels: 30
0.76 0.06 0.17
Matches are distributed among these distances:
25 4 0.03
26 4 0.03
27 4 0.03
28 9 0.07
31 1 0.01
32 10 0.08
33 72 0.55
35 3 0.02
36 2 0.02
38 12 0.09
39 5 0.04
40 6 0.05
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:56912 original size:19 final size:20
Alignment explanation
Indices: 56877--56924 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
56867 GCGATTCTCT
* *
56877 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTGTAATTTCCG
56896 CGTTGCGATTGTAATTTCCG
1 CGTTGCGATTGTAATTTCCG
*
56916 TGTTGCGAT
1 CGTTGCGAT
56925 AGTCAAATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTAATTTCCG
Found at i:59195 original size:12 final size:12
Alignment explanation
Indices: 59178--59202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59168 TCTTCGGGGA
59178 CTTTTTCTTCTT
1 CTTTTTCTTCTT
59190 CTTTTTCTTCTT
1 CTTTTTCTTCTT
59202 C
1 C
59203 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:60127 original size:20 final size:20
Alignment explanation
Indices: 60099--60328 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
60089 AAATTTCAGT
* * *
60099 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
60119 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
60139 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
60159 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
60179 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
60199 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
60219 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
60239 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
60259 GTTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATTCGC
*
60279 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
60299 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
60319 GTTGCGATTT
1 GTTGCGATTT
60329 TGGAAAATCG
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:60345 original size:21 final size:21
Alignment explanation
Indices: 60315--60397 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
60305 ATTTTCATAT
*
60315 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
60336 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
60357 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
60378 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
60398 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:60388 original size:42 final size:43
Alignment explanation
Indices: 60295--60393 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
60285 ATTTATGTGT
* *
60295 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
60336 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
60378 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
60394 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:63180 original size:2 final size:2
Alignment explanation
Indices: 63175--63211 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
63165 TTCTAAACAC
*
63175 AT AT AT AT AT AT AT AT AT AT AT AT -T AC 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
63212 TATTGTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:64999 original size:6 final size:6
Alignment explanation
Indices: 64988--65013 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
64978 GCGAAAATGG
64988 TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TA
65014 TTTATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:68590 original size:105 final size:105
Alignment explanation
Indices: 68315--70197 Score: 3221
Period size: 105 Copynumber: 18.0 Consensus size: 105
68305 GGGTCGCTCA
* *
68315 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTAC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
* * *
68380 AGAGCCAATTTCAACTTCTCAACGGAGGATATT-GACTCT
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
68419 AGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
* *
68484 CAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCT
65 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
68525 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
68590 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
68630 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
68695 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
68735 AGACAATGCAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
68800 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
68840 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
68905 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
68945 AGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTGAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
69010 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
69050 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
69115 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
69155 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
69220 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
69260 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
69325 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
69365 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
69430 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
69470 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
69535 AGAGCCAATTTCAACTTCACAACGAACGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
69575 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
69640 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
69680 AGACAATGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
69745 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
69785 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT--TTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
69848 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
69888 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
69953 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
69993 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
* * *
70058 CAGAGCCAATTTCAACTTCTCAACGAAGGATCTT-GAATCC
65 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * *
70098 AAGACAACACAAGCTCAACTTCATGACGAATGGG-CGGCTGATTGTCAACAAA-A-TT-TC-A-T
1 -AGACAACGCAAGTTCAACTTCACGACGAA-GGGACCGCTGGTTGTCAATAAACATTTCTCAATT
* *
70157 TCAGAGTCAATTTCAACTTCACAGC-AGAGGATATTGGACTC
64 TCAGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
70198 GGAACAATGC
Statistics
Matches: 1700, Mismatches: 70, Indels: 21
0.95 0.04 0.01
Matches are distributed among these distances:
99 1 0.00
100 30 0.02
101 5 0.00
102 1 0.00
103 103 0.06
104 51 0.03
105 1367 0.80
106 139 0.08
107 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (105 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:70760 original size:2 final size:2
Alignment explanation
Indices: 70755--70809 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
70745 CTAAACACAC
70755 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
*
70797 -T AC AT AT AT AT AT
1 AT AT AT AT AT AT AT
70810 TATTGTTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73207 original size:29 final size:29
Alignment explanation
Indices: 73175--73267 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
73165 AATAATTTTT
73175 TTATTATTTTTGGTAACAAAATAAAGTTC
1 TTATTATTTTTGGTAACAAAATAAAGTTC
* * *** *
73204 TTATTA--TGT-GTAAATTCTAAATATTTTTT
1 TTATTATTTTTGGT-AA--CAAAATAAAGTTC
73233 TTATT-TTTTTGGTAACAAAATAAAGTTC
1 TTATTATTTTTGGTAACAAAATAAAGTTC
73261 TTATTAT
1 TTATTAT
73268 GTGTAAATGA
Statistics
Matches: 45, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 13 0.29
29 20 0.44
30 4 0.09
31 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (29 bp):
TTATTATTTTTGGTAACAAAATAAAGTTC
Found at i:73216 original size:26 final size:26
Alignment explanation
Indices: 73187--73273 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 26
73177 ATTATTTTTG
73187 GTAACAAAATAAAGTTCTTATTATGT
1 GTAACAAAATAAAGTTCTTATTATGT
* *** * * *
73213 GTAAATTCTAAATATTTTTTTTATTTTTTT
1 GT-AA--CAAAATAAAGTTCTTA-TTATGT
73243 GGTAACAAAATAAAGTTCTTATTATGT
1 -GTAACAAAATAAAGTTCTTATTATGT
73270 GTAA
1 GTAA
73274 ATGACGTGGG
Statistics
Matches: 42, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
26 6 0.14
27 6 0.14
28 11 0.26
29 11 0.26
30 6 0.14
31 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (26 bp):
GTAACAAAATAAAGTTCTTATTATGT
Found at i:73231 original size:57 final size:58
Alignment explanation
Indices: 73164--73275 Score: 201
Period size: 57 Copynumber: 1.9 Consensus size: 58
73154 TTGATTTAGA
73164 AAATAA-TTTTTTTATTATTTTTGGTAACAAAATAAAGTTCTTATTATGTGTAAATTCT
1 AAATAATTTTTTTTATT-TTTTTGGTAACAAAATAAAGTTCTTATTATGTGTAAATTCT
73222 AAAT-ATTTTTTTTATTTTTTTGGTAACAAAATAAAGTTCTTATTATGTGTAAAT
1 AAATAATTTTTTTTATTTTTTTGGTAACAAAATAAAGTTCTTATTATGTGTAAAT
73276 GACGTGGGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
57 39 0.74
58 14 0.26
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (58 bp):
AAATAATTTTTTTTATTTTTTTGGTAACAAAATAAAGTTCTTATTATGTGTAAATTCT
Found at i:89020 original size:38 final size:38
Alignment explanation
Indices: 88969--89046 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
88959 TGAAGGTTGG
88969 GTATAAGCGTTTGTTATTGTACGTAATGATGCGTTTGA
1 GTATAAGCGTTTGTTATTGTACGTAATGATGCGTTTGA
89007 GTATAAGCGTTTGTTATTGTACGTAATGATGCGTTTGA
1 GTATAAGCGTTTGTTATTGTACGTAATGATGCGTTTGA
89045 GT
1 GT
89047 TGAGCACTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (38 bp):
GTATAAGCGTTTGTTATTGTACGTAATGATGCGTTTGA
Found at i:93234 original size:19 final size:19
Alignment explanation
Indices: 93212--93259 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
93202 TTATTATTTG
*
93212 AAATGTTTTTATATATTAA
1 AAATGTTTATATATATTAA
** * *
93231 AAATAATTATATATTTTAT
1 AAATGTTTATATATATTAA
93250 AAATGTTTAT
1 AAATGTTTAT
93260 TACTTTAACG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
AAATGTTTATATATATTAA
Found at i:95544 original size:6 final size:6
Alignment explanation
Indices: 95533--95575 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
95523 AGCTCCGTAA
95533 CACTTC CACTTC CACTTC CACTTC CACTTC CACTTC CACTTC C
1 CACTTC CACTTC CACTTC CACTTC CACTTC CACTTC CACTTC C
95576 TCCCTCCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.33
Consensus pattern (6 bp):
CACTTC
Found at i:95588 original size:6 final size:6
Alignment explanation
Indices: 95579--95611 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
95569 CACTTCCTCC
95579 CTCCAT CTCCAT CTCCAT CTCCAT CTCCAT CTC
1 CTCCAT CTCCAT CTCCAT CTCCAT CTCCAT CTC
95612 GTTCCCCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCCAT
Done.