Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001229.1 Hibiscus syriacus cultivar Beakdansim tig00002418_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: 77831
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2734 original size:2 final size:2
Alignment explanation
Indices: 2729--2772 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
2719 TCTTTTTAAG
*
2729 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2770 AT A
1 AT A
2773 GTTTACAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2867 original size:38 final size:38
Alignment explanation
Indices: 2825--2898 Score: 87
Period size: 40 Copynumber: 1.9 Consensus size: 38
2815 TTTAAAATAT
* * *
2825 TTTTGGAAAC-TATATAATATATATATATATATATATAA
1 TTTTGAAAACATATAGAAAATATATATAT-TATATATAA
*
2863 TTTTGAAAACATTTTAGAAAATATATATATTATATA
1 TTTTGAAAACA-TATAGAAAATATATATATTATATA
2899 GTTTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
38 9 0.30
39 6 0.20
40 15 0.50
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (38 bp):
TTTTGAAAACATATAGAAAATATATATATTATATATAA
Found at i:2897 original size:49 final size:49
Alignment explanation
Indices: 2800--2898 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 49
2790 GAAAACAAAC
* * * *
2800 ATATAATATATAGTCTTTAAAATATTTTTGGAAACTATATAATATATAT
1 ATATAATATATAATCTTTAAAACATTTTTAGAAAATATATAATATATAT
2849 ATATATATATATAAT-TTTGAAAACA-TTTTAGAAAATATAT-ATAT-TAT
1 ATATA-ATATATAATCTTT-AAAACATTTTTAGAAAATATATAATATATAT
2896 ATA
1 ATA
2899 GTTTTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
47 6 0.14
48 4 0.09
49 21 0.48
50 13 0.30
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (49 bp):
ATATAATATATAATCTTTAAAACATTTTTAGAAAATATATAATATATAT
Found at i:2909 original size:37 final size:36
Alignment explanation
Indices: 2845--2980 Score: 139
Period size: 37 Copynumber: 3.6 Consensus size: 36
2835 TATATAATAT
* *
2845 ATATATATATATATATAATTTTGAAAACATTTTAGAAA
1 ATATATATA-ATATATAGTTTTTAAAACATTTT-GAAA
*
2883 ATATATATATTATATAGTTTTTAAAACCATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAA-CATTTTGAAA
* **
2920 ACT-TATATAATATAAAGTTTTTTTGCAACATTTTTGAAA
1 A-TATATATAATATATAG--TTTTTAAAACA-TTTTGAAA
*
2959 ATTTATATAATATATAGTTTTT
1 ATATATATAATATATAGTTTTT
2981 TTTTAAAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
37 36 0.43
38 19 0.23
39 29 0.35
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:2981 original size:39 final size:39
Alignment explanation
Indices: 2846--2982 Score: 138
Period size: 39 Copynumber: 3.5 Consensus size: 39
2836 ATATAATATA
* * * *
2846 TATATATATATATA-TAATTTTGAAAACATTTTAGAAAATA
1 TATATA-ATATATAGT-TTTTTTAAAACATTTTTGAAAATT
* *
2886 TATATATTATATAG--TTTTTAAAACCA-TTTTGAAAACT
1 TATATAATATATAGTTTTTTTAAAA-CATTTTTGAAAATT
* **
2923 TATATAATATAAAGTTTTTTTGCAACATTTTTGAAAATT
1 TATATAATATATAGTTTTTTTAAAACATTTTTGAAAATT
2962 TATATAATATATAGTTTTTTT
1 TATATAATATATAGTTTTTTT
2983 TTAAAAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
37 28 0.35
38 4 0.05
39 43 0.53
40 6 0.07
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (39 bp):
TATATAATATATAGTTTTTTTAAAACATTTTTGAAAATT
Found at i:3068 original size:37 final size:37
Alignment explanation
Indices: 3009--3083 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
2999 AAGAAATATT
*
3009 TTGAAAACATTTATATATTATATAGTTTTTTAAAAAAAA
1 TTGAAAACA-TTATATAATATATAG-TTTTTAAAAAAAA
3048 TTGAAAAC-TTATATAATATATAGTTTTTAAAAAAAA
1 TTGAAAACATTATATAATATATAGTTTTTAAAAAAAA
3084 CATTTTAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 13 0.37
37 14 0.40
39 8 0.23
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (37 bp):
TTGAAAACATTATATAATATATAGTTTTTAAAAAAAA
Found at i:3120 original size:38 final size:37
Alignment explanation
Indices: 3036--3204 Score: 128
Period size: 38 Copynumber: 4.4 Consensus size: 37
3026 TTATATAGTT
* *
3036 TTTTAAAAAA-A-ATTGAAAACT-TATATAATATATAGT
1 TTTTAAAAAACATTTTGAAAA-TATATATAATATATA-A
*
3072 TTTTAAAAAAAACATTTTAGAAAATATATATAATATGTAA
1 TTTT--AAAAAACATTTT-GAAAATATATATAATATATAA
** * *
3112 TTTTAAAAATATTTTTTGAAAATATATTATATTATATGA
1 TTTTAAAAA-ACATTTTGAAAATATA-TATAATATATAA
* ** * *
3151 TTTTGAAAAACATTTTTCAAATCGTATATAAAATATAA
1 TTTTAAAAAACATTTTGAAAAT-ATATATAATATATAA
*
3189 TTTTAAAAAATATTTT
1 TTTTAAAAAACATTTT
3205 TCCTTTTATT
Statistics
Matches: 105, Mismatches: 19, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
36 4 0.04
38 52 0.50
39 25 0.24
40 7 0.07
41 17 0.16
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (37 bp):
TTTTAAAAAACATTTTGAAAATATATATAATATATAA
Found at i:3227 original size:14 final size:14
Alignment explanation
Indices: 3208--3238 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3198 ATATTTTTCC
*
3208 TTTTATTTATTTAT
1 TTTTATTTATTAAT
3222 TTTTATTTATTAAT
1 TTTTATTTATTAAT
3236 TTT
1 TTT
3239 CCTTCGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTATTAAT
Found at i:4407 original size:2 final size:2
Alignment explanation
Indices: 4400--4460 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
4390 TTTGATTTAC
4400 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
4442 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
4461 GTTTATTATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10199 original size:333 final size:333
Alignment explanation
Indices: 9349--10470 Score: 1653
Period size: 333 Copynumber: 3.4 Consensus size: 333
9339 TTTAAAAGAA
* * ** * * ** * *
9349 ATCAGTTGCAACATAGCTTAAGGCAAGAAGGGTTATTTGCCAATAAAGGACTTTCGAGTTCGACT
1 ATCATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACT
* * * * *
9414 ACGCTCAGCTCAAAGGCACCAACATTTGCAGCATAACTTAAGTCGAGAAGGGTTATATACCAACC
66 ACACTCAGCTCAAAGGCACCAGCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACC
* * * *** * *
9479 AAAGACCTTCGAGTTTGGCTACGCTCAGCTCCAAGATACATCATTTGTAGCATAGCTTAAGTCAA
131 AACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCGA
* * * *
9544 GAAGGGCTATTTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
196 GATGGGCTATCTGCCAAATACCCTTGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* *
9609 GCATAACTCAAGGCTAGAAGGGTTATATGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
261 GCATAACTCAAGGCTAGAAGGGTTATATGTCGCCAAAGACCTTCGAGTTCAACTACGCTCAGCTC
*
9674 CAAGGCACT
326 TAAGGCA-T
* * * * ** * * *
9683 -TCATTTGCAGCATAGCTTAAGTTGAGAAGGCATATGTGCC-A--AA-GACCTTCGAGTTCTATT
1 ATCATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACT
* *
9743 ACACCCAGCTCAAAGGCACCAGTATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACC
66 ACACTCAGCTCAAAGGCACCAGCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACC
9808 AACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCGA
131 AACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCGA
9873 GATGGGCTATCTGCCAAATACCCTTGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
196 GATGGGCTATCTGCCAAATACCCTTGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* * *
9938 GCATAACTCAAGGCTAGAAGGGTTATATGTTGCCAAAGACCTTCAAGTTCAACTACGCTTAGCTC
261 GCATAACTCAAGGCTAGAAGGGTTATATGTCGCCAAAGACCTTCGAGTTCAACTACGCTCAGCTC
10003 TAAGGCAT
326 TAAGGCAT
* *
10011 ATCATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTTGATT
1 ATCATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACT
10076 ACACTCAGCTCAAAGGCACCAGCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACC
66 ACACTCAGCTCAAAGGCACCAGCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACC
* *
10141 AACGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCGCATCATTTGCAGTATAGCTTAAGTCGA
131 AACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCGA
*
10206 GATGGGCTATCTGCCAAATACCCTTGAGTTTGATTACACTCAGCTTCGAGGGCATATCATTTACA
196 GATGGGCTATCTGCCAAATACCCTTGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
*
10271 GCATAACTCAAGGCTAGAAGGGTTATCTGTCGCCAAAGACCTTCGAGTTCAACTACGCTCAGCTC
261 GCATAACTCAAGGCTAGAAGGGTTATATGTCGCCAAAGACCTTCGAGTTCAACTACGCTCAGCTC
10336 TAAGGCAT
326 TAAGGCAT
* *
10344 ATCATTTACAACATAACTTAAATCGAGAAGGGTTATCTACCAACCAACGACCTTCGAGTTCGACT
1 ATCATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACT
* * ** * * * *
10409 ACGCTCAGCTCCAAGGC-GTATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
66 ACACTCAGCTCAAAGGCACCAGCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAA
10471 ATACCCTTGA
Statistics
Matches: 717, Mismatches: 66, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
328 1 0.00
329 289 0.40
330 3 0.00
332 42 0.06
333 382 0.53
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (333 bp):
ATCATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACT
ACACTCAGCTCAAAGGCACCAGCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACC
AACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCGA
GATGGGCTATCTGCCAAATACCCTTGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
GCATAACTCAAGGCTAGAAGGGTTATATGTCGCCAAAGACCTTCGAGTTCAACTACGCTCAGCTC
TAAGGCAT
Found at i:10389 original size:248 final size:248
Alignment explanation
Indices: 9374--10555 Score: 1077
Period size: 248 Copynumber: 4.8 Consensus size: 248
9364 GCTTAAGGCA
* ** * * * * *
9374 AGAAGGGTTATTTGCCAATAAAGGACTTTCGAGTTCGACTACGCTCAGCTCAAAGGCACCAACAT
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC-GCATCAT
* * ** * ** *
9439 TTGCAGCATAACTTAAGTCGAGAAGGGTTATATACCAACCAAAGACCTTCGAGTTTGGCTACGCT
65 TTGCAGCATAGCTTAAGTCGAGAAGGG--CTAT--CTGCCAAAGACCTTCGAGTTCGATTACACT
* ** * ** * * * * *
9504 CAGCTCCAAGATACATCATTTGTAGCATAGCT-TAAGTCAAGAAGGGCTATTTG----CCAAAGA
126 CAGCTCGAAGGCATATCATTTACAGCATAACTCAAAG-CGAGAAGGGTTATCTGCCAACCAAAGA
* * * * * * ** *
9564 CCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCT
190 CCTTCGAGTTCGACTACACTCAGC-TCAAAGGCACATCATTTACAGCATAACTTAAATCG
* * * * *
9624 AGAAGGGTTATATGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACTTCATT
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATT
* * * *
9688 TGCAGCATAGCTTAAGTTGAGAA-GGCATATGTGCCAAAGACCTTCGAGTTCTATTACACCCAGC
66 TGCAGCATAGCTTAAGTCGAGAAGGGC-TATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC
* * * * * *
9752 TCAAAGGCACCAGT-ATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCT
130 TCGAAGGCA-TA-TCATTTACAGCATAACTCAAAGCGAGAAGGGTTATCTGCCAACCAAAGACCT
* * * * * *
9816 TCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCG
193 TCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTTAAATCG
* * * * * *
9872 AGATGGGCTATCTGCCAA--ATAC--CCTT-GAGTTCGATTACACTCAGCTTCGAGG-GCATATC
1 AGAAGGGTTATCTGCCAACCA-ACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGC--ATC
* * * * * * * * * * *
9931 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTTGCCAAAGACCTTCAAGTTCAACTACGC
63 ATTTGCAGCATAGCTTAAGTCGAGAAGGG--CTAT-CTGCCAAAGACCTTCGAGTTCGATTACAC
* * * * * * *
9996 TTAGCTCTAAGGCATATCATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGA
125 TCAGCTCGAAGGCATATCATTTACAGCATAACTCAAAGCGAGAAGGGTTATCTGCCAACCAAAGA
* * * *
10061 CCTTCGAGTTTGATTACACTCAGCTCAAAGGCACCAGCATTTGCAGCATAACTTAAATCG
190 CCTTCGAGTTCGACTACACTCAGCTCAAAGGCA-CATCATTTACAGCATAACTTAAATCG
*
10121 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCGCATCATT
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATT
* * * *
10186 TGCAGTATAGCTTAAGTCGAGATGGGCTATCTGCCAAATACCCTT-GAGTTTGATTACACTCAGC
66 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCTTCGAGTTCGATTACACTCAGC
* * * * *
10250 TTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-GCCAAAGACCTT
130 -TCGAAGGCATATCATTTACAGCATAACTCAAAGCGAGAAGGGTTATCTGCCAACCAAAGACCTT
* * * * *
10314 CGAGTTCAACTACGCTCAGCTCTAAGGCATATCATTTACAACATAACTTAAATCG
194 CGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTTAAATCG
* *
10369 AGAAGGGTTATCTACCAACCAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGTATCATT
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATT
*
10434 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAATACCCTT-GAGTTCGATTACACTCAGC
66 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCTTCGAGTTCGATTACACTCAGC
* * * * *
10498 TTCGAGGGTATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAA
130 -TCGAAGGCATATCATTTACAGCATAACTCAAAGCGAGAAGGGTTATCTGCCAACCAAA
10556 ATGGTCGAGT
Statistics
Matches: 776, Mismatches: 130, Indels: 54
0.81 0.14 0.06
Matches are distributed among these distances:
244 32 0.04
245 50 0.06
246 32 0.04
247 6 0.01
248 344 0.44
249 192 0.25
250 65 0.08
251 1 0.00
252 29 0.04
253 23 0.03
254 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (248 bp):
AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATT
TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCT
CGAAGGCATATCATTTACAGCATAACTCAAAGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCG
AGTTCGACTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTTAAATCG
Found at i:10540 original size:165 final size:164
Alignment explanation
Indices: 9374--10547 Score: 831
Period size: 164 Copynumber: 7.1 Consensus size: 164
9364 GCTTAAGGCA
* ** * * * * * * *
9374 AGAAGGGTTATTTGCCAATAAAGGACTTTCGAGTTCGACTACGCTCAGCTCAAAGGCACCAACAT
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCA-TATCAT
* * * * *
9439 TTGCAGCATAACTTAAGTCGAGAAGGGTTATATACCAACCAAAGACCTTCGAGTTTGGCTACGCT
65 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-A--AAA-CCCTTCGAGTTCGACTACGCT
* ** * ** * * * *
9504 CAGCTCCAAGATACATCATTTGTAGCATAGCTTAAGTCA
126 CAGCTTCAAGGGATATCATTTACAACATAACTTAAATCG
* * * * * *
9543 AGAAGGGCTATTTGCC-A--AA-GACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCAT
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTTGATTACACTCAGC-TCAAAGGCATATCAT
* * * * *
9604 TTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCACCAAAGA-CCTTCGAGTTCGACTACGCT
65 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---CCAAA-ACCCTTCGAGTTCGACTACGCT
* * * * * * *
9668 CAGCTCCAAGGCACT-TCATTTGCAGCATAGCTTAAGTTG
126 CAGCTTCAAGGGA-TATCATTTACAACATAACTTAAATCG
** * * *
9707 AGAAGGCATATGTGCC-A--AA-GACCTTCGAGTTCT-ATTACACCCAGCTCAAAGGCACCAGT-
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTT-TGATTACACTCAGCTCAAAGGCA-TA-TC
*
9766 ATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACTACG
63 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA--AAC--CCTTCGAGTTCGACTACG
* * * * * *
9831 CTCAGCTCCAAGGCG-CATCATTTGCAGCATAGCTTAAGTCG
124 CTCAGCTTCAAGG-GATATCATTTACAACATAACTTAAATCG
* * * * *
9872 AGATGGGCTATCTGCCAA--ATAC--CCTT-GAGTTCGATTACACTCAGCTTCGAGGGCATATCA
1 AGAAGGGTTATCTGCCAACCA-ACGACCTTCGAGTTTGATTACACTCAGC-TCAAAGGCATATCA
* * * * * * *
9932 TTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTTGCCAAAGA-CCTTCAAGTTCAACTACGC
64 TTTGCAGCATAACTTAAGTCGAGAAGGG-T-TAT-CTGCCAAA-ACCCTTCGAGTTCGACTACGC
* * *
9996 TTAGC-TCTAAGGCATATCATTTGCAACATAACTTAAATCG
125 TCAGCTTC-AAGGGATATCATTTACAACATAACTTAAATCG
* *
10036 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACCAGCAT
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCA-TATCAT
*
10101 TTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTCGACTACGCT
65 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA--AAC--CCTTCGAGTTCGACTACGCT
* * ** * *
10166 CAGCTTCAAGGCG-CATCATTTGCAGTATAGCTTAAGTCG
126 CAGCTTCAAGG-GATATCATTTACAACATAACTTAAATCG
* * * *
10205 AGATGGGCTATCTGCCAA--ATAC--CCTT-GAGTTTGATTACACTCAGCTTCGAGGGCATATCA
1 AGAAGGGTTATCTGCCAACCA-ACGACCTTCGAGTTTGATTACACTCAGC-TCAAAGGCATATCA
* * * * *
10265 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCGCCAAAGA-CCTTCGAGTTCAACTACGC
64 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--T-GCCAAA-ACCCTTCGAGTTCGACTACGC
*
10329 TCAGC-TCTAAGGCATATCATTTACAACATAACTTAAATCG
125 TCAGCTTC-AAGGGATATCATTTACAACATAACTTAAATCG
* * * * * *
10369 AGAAGGGTTATCTACCAACCAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGTATCATT
1 AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCATT
* * * *
10434 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAATACCCTT-GAGTTCGATTACACTCAGC
66 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAA-ACCCTTCGAGTTCGACTACGCTCAGC
* * * ** *
10498 TTCGAGGGTATATCATTTACAGCATAACTCAAGGCT
130 TTCAAGGG-ATATCATTTACAACATAACTTAAATCG
10534 AGAAGGGTTATCTG
1 AGAAGGGTTATCTG
10548 TCACCAAAAT
Statistics
Matches: 816, Mismatches: 132, Indels: 118
0.77 0.12 0.11
Matches are distributed among these distances:
161 4 0.00
162 1 0.00
163 11 0.01
164 271 0.33
165 267 0.33
166 43 0.05
167 64 0.08
168 76 0.09
169 77 0.09
170 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (164 bp):
AGAAGGGTTATCTGCCAACCAACGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCATT
TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAACCCTTCGAGTTCGACTACGCTCAGCT
TCAAGGGATATCATTTACAACATAACTTAAATCG
Found at i:11200 original size:36 final size:35
Alignment explanation
Indices: 11153--11324 Score: 168
Period size: 36 Copynumber: 4.7 Consensus size: 35
11143 TGAAAACAAA
* * *
11153 TATATAATATATAGTCTTTAAAATATTTTTGGAAAC
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAAC
*
11189 TATATAATATATATATAGTTTTGAAAACATTTTAGAAATA-
1 --TAT-ATA-ATATATAGTTTTTAAAACATTTT-GAAA-AC
*
11229 TATATATTATATAGTTTTTAAAACTATTTTGAAAAC
1 TATATAATATATAGTTTTTAAAAC-ATTTTGAAAAC
* *
11265 T-TATAATATAAAGTTTTTTAAAACATTTTTGAAAATT
1 TATATAATATATAG-TTTTTAAAACA-TTTTGAAAA-C
11302 TATATAATATATAGTTTTTAAAA
1 TATATAATATATAGTTTTTAAAA
11325 AAACATTTTT
Statistics
Matches: 114, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
35 12 0.11
36 40 0.35
37 18 0.16
38 17 0.15
39 7 0.06
40 19 0.17
41 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:11336 original size:15 final size:16
Alignment explanation
Indices: 11316--11349 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11306 TAATATATAG
11316 TTTTTAAAA-AAACAT
1 TTTTTAAAAGAAACAT
*
11331 TTTTTAAAAGAAATAT
1 TTTTTAAAAGAAACAT
11347 TTT
1 TTT
11350 GAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTTTAAAAGAAACAT
Found at i:11394 original size:41 final size:41
Alignment explanation
Indices: 11331--11547 Score: 209
Period size: 40 Copynumber: 5.4 Consensus size: 41
11321 AAAAAAACAT
*
11331 TTTTTAAAAGAAATATTTTGAAAATATTTATATATTATATAG
1 TTTTTAAAA-AAACATTTTGAAAATATTTATATATTATATAG
*
11373 TTTTTAAAAAAACATTTTGAAAACATTTATATATTATATAG
1 TTTTTAAAAAAACATTTTGAAAATATTTATATATTATATAG
* * *
11414 TTTTT-AAAAAATATTTTG-AAA-ACTTATATAATATATAG
1 TTTTTAAAAAAACATTTTGAAAATATTTATATATTATATAG
* * *
11452 TTTTTTAAAAAACATTTTAGAAAATA--TATATAATATGTA-
1 TTTTTAAAAAAACATTTT-GAAAATATTTATATATTATATAG
* *** *
11491 ATTTTAAAAATATTTTTTTGAAAATATAT-TATATTATAT-G
1 TTTTTAAAAA-AACATTTTGAAAATATTTATATATTATATAG
* *
11531 ATTTT-GAAAAACATTTT
1 TTTTTAAAAAAACATTTT
11548 TCAAATCGTA
Statistics
Matches: 149, Mismatches: 18, Indels: 20
0.80 0.10 0.11
Matches are distributed among these distances:
38 25 0.17
39 32 0.21
40 43 0.29
41 39 0.26
42 10 0.07
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.47
Consensus pattern (41 bp):
TTTTTAAAAAAACATTTTGAAAATATTTATATATTATATAG
Found at i:11586 original size:38 final size:37
Alignment explanation
Indices: 11473--11587 Score: 115
Period size: 38 Copynumber: 3.0 Consensus size: 37
11463 ACATTTTAGA
* *
11473 AAATATATATAATATGTAATTTTAAAAATATTTTTTTGA
1 AAATATATATAATATATAATTTTAAAAATA-TTTTTT-C
* * *
11512 AAATATATTATATTATATGATTTTGAAAAACA-TTTTTC
1 AAATATA-TATAATATATAATTTT-AAAAATATTTTTTC
* *
11550 AAATCGTATATAAAATATAATTTTAAAAATATTTTTTC
1 AAAT-ATATATAATATATAATTTTAAAAATATTTTTTC
11588 CTTTTATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
37 6 0.10
38 23 0.37
39 14 0.23
40 13 0.21
41 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (37 bp):
AAATATATATAATATATAATTTTAAAAATATTTTTTC
Found at i:11595 original size:13 final size:13
Alignment explanation
Indices: 11579--11609 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
11569 ATTTTAAAAA
11579 TATTTTTTCCTTT
1 TATTTTTTCCTTT
11592 TATTTTTTCCTTT
1 TATTTTTTCCTTT
11605 TATTT
1 TATTT
11610 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTTTCCTTT
Found at i:13057 original size:12 final size:12
Alignment explanation
Indices: 13040--13064 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13030 TCGAATTGGG
13040 TAATTTAAATTT
1 TAATTTAAATTT
13052 TAATTTAAATTT
1 TAATTTAAATTT
13064 T
1 T
13065 CTAATTCTCG
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:14224 original size:21 final size:22
Alignment explanation
Indices: 14198--14240 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
14188 GCCACAGCAG
14198 AACATGGATTT-TTAAGACAAA
1 AACATGGATTTCTTAAGACAAA
14219 AACATGGATTTCTTAAGACAAA
1 AACATGGATTTCTTAAGACAAA
14241 TCTTTGTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (22 bp):
AACATGGATTTCTTAAGACAAA
Found at i:28510 original size:18 final size:17
Alignment explanation
Indices: 28462--28516 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
28452 AATATAATCA
*
28462 AATAAAATTTAATAAAT
1 AATATAATTTAATAAAT
28479 AATATAATTT--TAAAT
1 AATATAATTTAATAAAT
* *
28494 GGATATATTTTAATAAAT
1 -AATATAATTTAATAAAT
*
28512 TATAT
1 AATAT
28517 CCATTCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 5 0.16
16 8 0.26
17 13 0.42
18 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (17 bp):
AATATAATTTAATAAAT
Found at i:31092 original size:23 final size:23
Alignment explanation
Indices: 31051--31095 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
31041 CGTATAAATA
*
31051 CACCGAAGTACCACGTAGAATTG
1 CACCGAAGTACCACATAGAATTG
* *
31074 CACCGAAGTGCCGCATAGAATT
1 CACCGAAGTACCACATAGAATT
31096 ACACAGTAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
CACCGAAGTACCACATAGAATTG
Found at i:37859 original size:23 final size:23
Alignment explanation
Indices: 37833--37876 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37823 AAATGCATCG
*
37833 AAGTACCACGTAGAATTGCACTA
1 AAGTACCACGTAGAACTGCACTA
* *
37856 AAGTGCCGCGTAGAACTGCAC
1 AAGTACCACGTAGAACTGCAC
37877 CATAGTGCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
AAGTACCACGTAGAACTGCACTA
Found at i:37883 original size:23 final size:23
Alignment explanation
Indices: 37841--37885 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
37831 CGAAGTACCA
* *
37841 CGTAGAATTGCACTAAAGTGCCG
1 CGTAGAACTGCACCAAAGTGCCG
*
37864 CGTAGAACTGCACCATAGTGCC
1 CGTAGAACTGCACCAAAGTGCC
37886 ATATAAGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAACTGCACCAAAGTGCCG
Found at i:40800 original size:20 final size:16
Alignment explanation
Indices: 40759--40802 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
40749 AACAAATATG
40759 TAAACTAACTTTTAAT
1 TAAACTAACTTTTAAT
40775 TAAACTAACTTTTAAT
1 TAAACTAACTTTTAAT
40791 TAAACTAACTTT
1 TAAACTAACTTT
40803 GAAATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAACTAACTTTTAAT
Found at i:40813 original size:2 final size:2
Alignment explanation
Indices: 40806--40840 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
40796 TAACTTTGAA
40806 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
40841 ATTATCTCGT
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:41438 original size:82 final size:82
Alignment explanation
Indices: 41288--41841 Score: 495
Period size: 82 Copynumber: 6.6 Consensus size: 82
41278 ATTTGAATGG
* * * * *
41288 AAATTATTTCAGTTTATCTAAGTTGATGTAAAATGTCAATGAAAAACAAATGACGTGAATAATAT
1 AAATTATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAAGCAAATGAAGTAAATAATAT
*
41353 AGATTGTCTGATTCTCT
66 AGATTCTCTGATTCTCT
* * * * *
41370 AAATTATTTCAGTTTATCTGAGTTGATGTGATATGTCAAT-AAAACCCAAATGAAGCAAATAGTG
1 AAATTATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAA-GCAAATGAAGTAAATAATA
* *
41434 TAGATTCTATAATTCTCT
65 TAGATTCTCTGATTCTCT
*
41452 AAATTATTTCAGTTTATCTAAATTATTTCAGTTGATGTGATATGTCAATGAAAAGCAAATGACGT
1 AAATTATTTCAGTTTATC-----TA----AGTTGATGTGATATGTCAATGAAAAGCAAATGAAGT
* * *
41517 GAATAATATAGATTCTCAGTTTCTCT
57 AAATAATATAGATTCTCTGATTCTCT
* * * * * * *
41543 AAATTATTTTAATTTATCTAAGTTGGTGTGACATGTCAATTAAAAACAAATGACA-TGAAA-AGT
1 AAATTATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAAGCAAATGA-AGT-AAATAAT
* * * * *
41606 GTAAATTATTTGATTATCT
64 ATAGATTCTCTGATTCTCT
* * * * * ** * * *
41625 AAATTATTTCAGTTTCTCTAAGTTGATATGAAATGTCAATGAAAATCAAAGGGCGTGAATAGTGT
1 AAATTATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAAGCAAATGAAGTAAATAATAT
* *
41690 AGATTCTCTTATTTTCT
66 AGATTCTCTGATTCTCT
* * * * * *
41707 AAATAATTTCAATTTATTTGAGTTGATATGATATGTCAATGAAAAGCAAATGACA-TGAATAATA
1 AAATTATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAAGCAAATGA-AGTAAATAATA
* *
41771 TAAATTCTTTGATTCTCT
65 TAGATTCTCTGATTCTCT
* * *
41789 AAATTATTTTAGTTTATCTTAGTTGATGTGTTATGTCAATGAAAAGCAAATGA
1 AAATTATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAAGCAAATGA
41842 TGTGAATAGT
Statistics
Matches: 377, Mismatches: 79, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
81 6 0.02
82 299 0.79
83 2 0.01
86 2 0.01
87 1 0.00
91 63 0.17
92 4 0.01
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (82 bp):
AAATTATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAAGCAAATGAAGTAAATAATAT
AGATTCTCTGATTCTCT
Found at i:41493 original size:91 final size:91
Alignment explanation
Indices: 41390--41563 Score: 228
Period size: 91 Copynumber: 1.9 Consensus size: 91
41380 AGTTTATCTG
* *
41390 AGTTGATGTGATATGTCAAT-AAAACCCAAATGAAGCAAATAGTGTAGATTCT-A-TAATTCTCT
1 AGTTGATGTGATATGTCAATGAAAA-CCAAATGAAGCAAATAATATAGATTCTCAGT--TTCTCT
*
41452 AAATTATTTCAGTTTATCTAAATTATTTC
63 AAATTATTTCAATTTATCTAAATTATTTC
* * **
41481 AGTTGATGTGATATGTCAATGAAAAGCAAATGACGTGAATAATATAGATTCTCAGTTTCTCTAAA
1 AGTTGATGTGATATGTCAATGAAAACCAAATGAAGCAAATAATATAGATTCTCAGTTTCTCTAAA
*
41546 TTATTTTAATTTATCTAA
66 TTATTTCAATTTATCTAA
41564 GTTGGTGTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
91 66 0.92
92 5 0.07
93 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (91 bp):
AGTTGATGTGATATGTCAATGAAAACCAAATGAAGCAAATAATATAGATTCTCAGTTTCTCTAAA
TTATTTCAATTTATCTAAATTATTTC
Found at i:41745 original size:164 final size:163
Alignment explanation
Indices: 41288--41863 Score: 631
Period size: 164 Copynumber: 3.5 Consensus size: 163
41278 ATTTGAATGG
* *
41288 AAATTATTTCAGTTTATCTAAGTTGATGTAAAATGTCAATGAAAAACAAATGACGTGAATAATAT
1 AAATTATTTCAGTTTATCTAAGTTGATGTGAAATGTCAATGAAAAGCAAATGACGTGAATAATAT
* * * *
41353 AGATTGTCTGATTCTCTAAATTATTTCAGTTTATCTGAGTTGATGTGATATGTCAA-TAAAACCC
66 AGATTCTCT-ATTTTCTAAATTATTTCAATTTATCTGAGTTGATGTGATATGTCAATTAAAA-AC
* * *
41417 AAATGA-A-GCAAATAGTGTAGATTCTATAATTCTCT
129 AAATGACATG-AAA-AGTGTAAATTCTTTGATTCTCT
*
41452 AAATTATTTCAGTTTATCTAAATTATTTCAGTTGATGTGATATGTCAATGAAAAGCAAATGACGT
1 AAATTATTTCAGTTTATC-----TA----AGTTGATGTGAAATGTCAATGAAAAGCAAATGACGT
* * * *
41517 GAATAATATAGATTCTC-AGTTTCTCTAAATTATTTTAATTTATCTAAGTTGGTGTGACATGTCA
57 GAATAATATAGATTCTCTA-TTT-TCTAAATTATTTCAATTTATCTGAGTTGATGTGATATGTCA
* *
41581 ATTAAAAACAAATGACATGAAAAGTGTAAATTATTTGATTATCT
120 ATTAAAAACAAATGACATGAAAAGTGTAAATTCTTTGATTCTCT
* * * * * * *
41625 AAATTATTTCAGTTTCTCTAAGTTGATATGAAATGTCAATGAAAATCAAAGGGCGTGAATAGTGT
1 AAATTATTTCAGTTTATCTAAGTTGATGTGAAATGTCAATGAAAAGCAAATGACGTGAATAATAT
* * * * *
41690 AGATTCTCTTATTTTCTAAATAATTTCAATTTATTTGAGTTGATATGATATGTCAATGAAAAGCA
66 AGATTCTC-TATTTTCTAAATTATTTCAATTTATCTGAGTTGATGTGATATGTCAATTAAAAACA
*
41755 AATGACATGAATAA-TATAAATTCTTTGATTCTCT
130 AATGACATGAA-AAGTGTAAATTCTTTGATTCTCT
* * ** * *
41789 AAATTATTTTAGTTTATCTTAGTTGATGTGTTATGTCAATGAAAAGCAAATGATGTGAATAGTAT
1 AAATTATTTCAGTTTATCTAAGTTGATGTGAAATGTCAATGAAAAGCAAATGACGTGAATAATAT
* *
41854 ATATTGTCTA
66 AGATTCTCTA
41864 CAATGTTTAA
Statistics
Matches: 346, Mismatches: 49, Indels: 35
0.80 0.11 0.08
Matches are distributed among these distances:
163 2 0.01
164 194 0.56
165 5 0.01
166 1 0.00
168 2 0.01
169 2 0.01
171 1 0.00
172 2 0.01
173 127 0.37
174 9 0.03
175 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (163 bp):
AAATTATTTCAGTTTATCTAAGTTGATGTGAAATGTCAATGAAAAGCAAATGACGTGAATAATAT
AGATTCTCTATTTTCTAAATTATTTCAATTTATCTGAGTTGATGTGATATGTCAATTAAAAACAA
ATGACATGAAAAGTGTAAATTCTTTGATTCTCT
Found at i:47638 original size:28 final size:28
Alignment explanation
Indices: 47606--47663 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
47596 AACCGATAAA
47606 TTAAATCAATT-ATATACTTTAATCTATT
1 TTAAA-CAATTAATATACTTTAATCTATT
* * *
47634 TTAAACAGTTAATCTATTTTAATCTATT
1 TTAAACAATTAATATACTTTAATCTATT
47662 TT
1 TT
47664 GAACCGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (28 bp):
TTAAACAATTAATATACTTTAATCTATT
Found at i:47655 original size:10 final size:10
Alignment explanation
Indices: 47623--47663 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
47613 AATTATATAC
47623 TTTAATCTAT
1 TTTAATCTAT
*
47633 TTTAAAC-A-
1 TTTAATCTAT
*
47641 GTTAATCTAT
1 TTTAATCTAT
47651 TTTAATCTAT
1 TTTAATCTAT
47661 TTT
1 TTT
47664 GAACCGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
8 5 0.20
9 2 0.08
10 18 0.72
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (10 bp):
TTTAATCTAT
Found at i:57060 original size:21 final size:21
Alignment explanation
Indices: 57036--57082 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
57026 TAAAAGACAA
*
57036 ATTAACATCATATGTCTTCAT
1 ATTAACATCATATCTCTTCAT
57057 ATTAACATCATATCTCTTCAT
1 ATTAACATCATATCTCTTCAT
*
57078 GTTAA
1 ATTAA
57083 TATGATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
ATTAACATCATATCTCTTCAT
Found at i:57094 original size:32 final size:32
Alignment explanation
Indices: 57058--57146 Score: 151
Period size: 32 Copynumber: 2.8 Consensus size: 32
57048 TGTCTTCATA
*
57058 TTAACATCATATCTCTTCATGTTAATATGATG
1 TTAACATCACATCTCTTCATGTTAATATGATG
57090 TTAACATCACATCTCTTCATGTTAATATGATG
1 TTAACATCACATCTCTTCATGTTAATATGATG
* *
57122 TTAACATCACATCTATTCATATTAA
1 TTAACATCACATCTCTTCATGTTAA
57147 CATCATATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.42
Consensus pattern (32 bp):
TTAACATCACATCTCTTCATGTTAATATGATG
Found at i:57148 original size:21 final size:21
Alignment explanation
Indices: 57122--57211 Score: 108
Period size: 21 Copynumber: 4.3 Consensus size: 21
57112 TAATATGATG
57122 TTAACATCACATCTATTCATA
1 TTAACATCACATCTATTCATA
* * *
57143 TTAACATCATATTTATTCATG
1 TTAACATCACATCTATTCATA
*
57164 TTAACATCACATTTATTCATA
1 TTAACATCACATCTATTCATA
* * * *
57185 TTAATATCTCAACTCTTCATA
1 TTAACATCACATCTATTCATA
57206 TTAACA
1 TTAACA
57212 CTTAAGATTA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.37, C:0.20, G:0.01, T:0.42
Consensus pattern (21 bp):
TTAACATCACATCTATTCATA
Found at i:60392 original size:16 final size:16
Alignment explanation
Indices: 60371--60401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60361 AAACAAAGGA
60371 GAGATATGAGCCGAGG
1 GAGATATGAGCCGAGG
*
60387 GAGATATTAGCCGAG
1 GAGATATGAGCCGAG
60402 CGTGATCAGG
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:0.32, C:0.13, G:0.39, T:0.16
Consensus pattern (16 bp):
GAGATATGAGCCGAGG
Found at i:66926 original size:21 final size:21
Alignment explanation
Indices: 66902--66952 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
66892 ATCAGAACAA
* *
66902 AAAGAAAAAAGAGAAAAAAGC
1 AAAGAAAAAAGAAAAAAAAAC
* *
66923 AAAGAGAAAATAAAAAAAAAC
1 AAAGAAAAAAGAAAAAAAAAC
*
66944 AAAGGAAAA
1 AAAGAAAAA
66953 TTGAAGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAGAAAAAAAAAC
Found at i:66940 original size:20 final size:20
Alignment explanation
Indices: 66915--66953 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
66905 GAAAAAAGAG
*
66915 AAAAAAGCAAAGAGAAAATAA
1 AAAAAAACAAAG-GAAAATAA
66936 AAAAAAACAAAGGAAAAT
1 AAAAAAACAAAGGAAAAT
66954 TGAAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.77, C:0.05, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAAAAACAAAGGAAAATAA
Found at i:67108 original size:69 final size:69
Alignment explanation
Indices: 67025--67162 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
67015 GATTCAAACT
*
67025 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTAATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
67090 TCAA
66 TCAA
*
67094 ATGAGATTAATCAAGCACAATCATTTTCGAATCACTGAATCACTTTACTCGAAGATCATAGAGCA
1 ATGAGATTAATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
67159 TCAA
66 TCAA
67163 GAGAGAGACA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (69 bp):
ATGAGATTAATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:68123 original size:32 final size:31
Alignment explanation
Indices: 68087--68175 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 31
68077 AGGAACAATG
*
68087 AGGGCATCTTTGAAGATTCAACATCAAATGTT
1 AGGGCATCTTTG-AGATTCAACATCAAATATT
* *
68119 AGGGCATTTTGTGAGATTCAACATCGAATATT
1 AGGGCATCTT-TGAGATTCAACATCAAATATT
* *
68151 GGGGCATCTTTGGGAATTCAACATC
1 AGGGCATCTTTGAG-ATTCAACATC
68176 CTGATGCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.06
32 44 0.90
33 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (31 bp):
AGGGCATCTTTGAGATTCAACATCAAATATT
Found at i:68876 original size:106 final size:106
Alignment explanation
Indices: 68753--69055 Score: 372
Period size: 106 Copynumber: 2.9 Consensus size: 106
68743 ATATCGTGCC
* *
68753 ACTCGAGACAAAACAAGTTCAACTCCACAACGAAGGGACGACTAGTTTTCAACAAATAATTTCCC
1 ACTCGAGACAAAACAAGTTCAACTCCACAACGAAGGGACGACTAGTTGTCAACAAACAATTTCCC
* *
68818 AATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGA
* * * *
68859 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAAAACAAGTTCAACTCCACAACGAAGGGACGACTAGTTGTCAACAAACAATTTCCC
*
68924 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGA
** * * * * * * * * * * **
68965 ACTCGAGACAGTATAAGCTCAACTTCATAGCAAAGGGGCGGCTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAAAACAAGTTCAACTCCACAACGAAGGGACGACTAGTTGTCAACAAACAATTTCCC
* * *
69030 AGTTCCAGAGCCAATTTTAACTTCAC
66 AATTTCAGAGCCAATTTCAACTTCAC
69056 GACGGAGGAT
Statistics
Matches: 172, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
106 172 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAAAACAAGTTCAACTCCACAACGAAGGGACGACTAGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGA
Found at i:69425 original size:65 final size:65
Alignment explanation
Indices: 69305--69461 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 65
69295 TTTGGAACTA
69305 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
** * * * *
69370 AATTTTGTCTCTTTTGAGATAGTTTCTCTTGAAACA-AAATCTTTG-AATCTGTTTCCCTTGAAA
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAC-ATTTCCCTTGAAA
**
69433 CA
64 TG
* *
69435 AATTTCGTCTCCCTTGAGACATTTTCT
1 AATTTTGTCTCCCTTGAGACAGTTTCT
69462 TTTGGAACTA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 6 0.08
65 71 0.92
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (65 bp):
AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
Found at i:69507 original size:167 final size:167
Alignment explanation
Indices: 69223--69747 Score: 874
Period size: 167 Copynumber: 3.1 Consensus size: 167
69213 ACAATTTCCA
* * * * * *
69223 AGTTTCAT-TTGAAACAAAATATTTAAATCTATTTTCATTGAAACTAATTTCGTCTCCCTTGAGA
1 AGTTTC-TCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGA
* * * *
69287 CATTTCCTTTTGGAACTAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
65 CATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAA
69352 AACATTTCCCTTGAAATGAATTTTGTCTCTTTTGAGAT
130 AACATTTCCCTTGAAATGAATTTTGTCTCTTTTGAGAT
69390 AGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
1 AGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
69455 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
66 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
*
69520 ACATTTCACTTGAAATGAATTTTGTCTCTTTTGAGAT
131 ACATTTCCCTTGAAATGAATTTTGTCTCTTTTGAGAT
* *
69557 AGTTTCTCTTGAAACAAAATCTTTGAATTTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAT
1 AGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
69622 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
66 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
* *
69687 ACATTTCCCTTGAGATGAATTTTGTCTCTCTTGAGAT
131 ACATTTCCCTTGAAATGAATTTTGTCTCTTTTGAGAT
* *
69724 AGGTTCCCTTGAAACAAAAT-TTTG
1 AGTTTCTCTTGAAACAAAATCTTTG
69748 TCTCCCTTGA
Statistics
Matches: 339, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
166 5 0.01
167 334 0.99
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (167 bp):
AGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC
ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
ACATTTCCCTTGAAATGAATTTTGTCTCTTTTGAGAT
Found at i:69563 original size:102 final size:102
Alignment explanation
Indices: 69372--69563 Score: 244
Period size: 102 Copynumber: 1.9 Consensus size: 102
69362 TTGAAATGAA
* * * * *
69372 TTTTGTCTCTTTTGAGATAGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTGAAACTATTTCACTTGAAACAAA
*
69437 TTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAG
66 TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
**
69474 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAAAAC-ATTTCACTTGAAATG
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATCATTG-AAACTATTTCACTTGAAACA
* ** *
69537 AATTTTGTCTCTTTTGAGATAGTTTCT
64 AATTTCGTCTCCCTTGAGACAGTTTCT
69564 CTTGAAACAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
102 70 0.92
103 6 0.08
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (102 bp):
TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTGAAACTATTTCACTTGAAACAAA
TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
Found at i:69597 original size:65 final size:65
Alignment explanation
Indices: 69474--69628 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 65
69464 TGGAACTAAG
**
69474 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCACTTGAAATGAA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCACTTGAAACAAA
* * **** *
69539 TTTTGTCTCTTTTGAGATAGTTTCTCTTGAAACA-AAATCTTTGAATTTGTTTCCCTTGAAACAA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAAAACATTTCACTTGAAACAA
69603 A
65 A
* * *
69604 TTTCGTCTCCCTTGAGATATTTTCT
1 TTTTGTCTCTCTTGAGATAGTTTCT
69629 TTTGGAACTA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 3 0.04
65 73 0.96
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (65 bp):
TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCACTTGAAACAAA
Found at i:69656 original size:102 final size:101
Alignment explanation
Indices: 69523--69897 Score: 446
Period size: 102 Copynumber: 3.7 Consensus size: 101
69513 ATTGAAAACA
* ** ** * * ***
69523 TTTCACTTGAAATGAATTTTGTCTCTTTTGAGATAGTTTCTCTTGAAACA-AAATCTTTGAATTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAC
* ** * * *
69587 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATAT
65 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
** * * * *
69624 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
*
69689 ATTTCCCTTGAGATGAATTTTGTCTCTCTTGAGATAG
65 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
*
69726 GTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
69791 ATTTCCCTTGAAATGAATTTTGTCACTCATGAGATAG
65 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
* * *
69828 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTTCTTGAAGCATAAACTTTGAAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
69893 GTTTC
66 -TTTC
69898 ATTTGAAACA
Statistics
Matches: 238, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
101 58 0.24
102 177 0.74
103 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (101 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
Found at i:69749 original size:37 final size:37
Alignment explanation
Indices: 69704--69776 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
69694 CCTTGAGATG
* *
69704 AATTTTGTCTCTCTTGAGATAGGTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGACAGGTTCCCTTGAAACAA
* *
69741 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGGTTCCCTTGAAACA
69777 TAAACATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGGTTCCCTTGAAACAA
Found at i:69874 original size:36 final size:36
Alignment explanation
Indices: 69792--69866 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
69782 ATTGAAAACA
** * *
69792 TTTCCCTTGAAATGAATTTTGTCACTCATGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCACCCATGAGACAG
* *
69828 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCACCCATGAGACAG
69864 TTT
1 TTT
69867 TTCTTGAAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCACCCATGAGACAG
Found at i:70022 original size:36 final size:36
Alignment explanation
Indices: 69973--70041 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
69963 TTTTGGAAGT
* *
69973 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
70009 TTTTGTCTATCTTGAGACAGTTTCCCTTGAAAC
1 TTTTGTCTATCTTGAGACAGTTTCCCTTGAAAC
70042 TTCAATCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:77605 original size:26 final size:27
Alignment explanation
Indices: 77576--77634 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
77566 TACATTTAAT
**
77576 TGCATTTGTGTTTCATTTATAAA-CCA
1 TGCATTTGTGTTTCATACATAAACCCA
77602 TGCATTTGTGTTTCATACATAAACCCA
1 TGCATTTGTGTTTCATACATAAACCCA
77629 TG-ATTT
1 TGCATTT
77635 TGACAGGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (27 bp):
TGCATTTGTGTTTCATACATAAACCCA
Done.