Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007717.1 Hibiscus syriacus cultivar Beakdansim tig00109948_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: 900945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:677515 original size:12 final size:10
Alignment explanation
Indices: 677474--677514 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
677464 TTTATCACAC
677474 CAAATTCTCT
1 CAAATTCTCT
677484 CAAATTCTCT
1 CAAATTCTCT
677494 -AAATTTCTCT
1 CAAA-TTCTCT
*
677504 CAAATACTCT
1 CAAATTCTCT
677514 C
1 C
677515 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:683571 original size:46 final size:48
Alignment explanation
Indices: 683504--683622 Score: 163
Period size: 50 Copynumber: 2.5 Consensus size: 48
683494 TTATACAAAA
*
683504 CGCGGTACCTGCCGCGCGCTATATAAAATTA-T-GAGTAAAGGTAT-G
1 CGCGGTACCTGCCCCGCGCTATATAAAATTATTAGAGTAAAGGTATAG
683549 TCGCGGTACCTGCCCCGCGCTATATAAAATTATTCAGGAGTAAAGGTATAG
1 -CGCGGTACCTGCCCCGCGCTATATAAAATTATT-A-GAGTAAAGGTATAG
**
683600 CGCGGTACCTGATCCGCGCTATA
1 CGCGGTACCTGCCCCGCGCTATA
683623 CCCCTACGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 30 0.46
47 1 0.02
50 33 0.51
51 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (48 bp):
CGCGGTACCTGCCCCGCGCTATATAAAATTATTAGAGTAAAGGTATAG
Found at i:683709 original size:50 final size:49
Alignment explanation
Indices: 683634--683766 Score: 140
Period size: 51 Copynumber: 2.7 Consensus size: 49
683624 CCCTACGTGG
* * * **
683634 CGTATAGCGCGCTGCAGGGGCCGCGCTATACTCACGTGGCGCCAGCTCA
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACTCACGTAGCGCCAAATCA
* *
683683 CCGTATAGCGCGGTGCAGGGGGCGCGCTACACCCCACGTAGCGCCAAATCA
1 -CGTATAGCGCGGTGCAGGGGGCGCGCTATA-CTCACGTAGCGCCAAATCA
* * * *
683734 TGTTATAGCGCAGTGCAGGGGGCACGCTTTACT
1 CG-TATAGCGCGGTGCAGGGGGCGCGCTATACT
683767 GCTAAAGGTG
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 29 0.43
51 39 0.57
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (49 bp):
CGTATAGCGCGGTGCAGGGGGCGCGCTATACTCACGTAGCGCCAAATCA
Found at i:687250 original size:45 final size:45
Alignment explanation
Indices: 687167--687464 Score: 217
Period size: 45 Copynumber: 6.9 Consensus size: 45
687157 TTATACCTTT
* **
687167 TCAA-TATAGCATACTTTTCTGTTGATAATGTGCCCATATACATA
1 TCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
* * * *
687211 TCAACCATAGCATACTTTTATGTTGATAATGCACTCATATGCATT
1 TCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
* * * * * * *
687256 TCAACTTTTGCATCCTTTCATGCTAATAATGCACCCATATGC--A
1 TCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
* ** * * *
687299 T----TAT----T-CTGTTATGCCGATAATGTACTCATACACATA
1 TCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
* *
687335 T-AAGCTATAGCATACTTTTTTGTTGATAATGTACCCATATACATA
1 TCAA-CTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
* *
687380 TCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATT
1 TCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
* * * * ***
687425 TCAACTTTGGCATCCTTTCATGCCAATAATGCACCCATAT
1 TCAACTATAGCATACTTTTATGTTGATAATGCACCCATAT
687465 GCATTATTCG
Statistics
Matches: 199, Mismatches: 42, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
34 20 0.10
35 1 0.01
36 2 0.01
39 2 0.01
40 3 0.02
43 1 0.01
44 5 0.03
45 163 0.82
46 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (45 bp):
TCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
Found at i:687410 original size:124 final size:124
Alignment explanation
Indices: 687190--687424 Score: 319
Period size: 124 Copynumber: 1.9 Consensus size: 124
687180 CTTTTCTGTT
* * * *
687190 GATAATGTGCCCATATACATATCAACCATAGCATACTTTTATGTTGATAATGCACTCATATGCAT
1 GATAATGTACCCATACACATATCAACCATAGCATACTTTTATGTTGATAATGCACCCATATACAT
* * * *
687255 TTCAACTTTTGCATCCTTTCATGCTAATAATGCACCCATATGCATTATTCTGTTATGCC
66 ATCAACTATAGCATACTTTCATGCTAATAATGCACCCATATGCATTATTCTGTTATGCC
* * * *
687314 GATAATGTACTCATACACATAT-AAGCTATAGCATACTTTTTTGTTGATAATGTACCCATATACA
1 GATAATGTACCCATACACATATCAA-CCATAGCATACTTTTATGTTGATAATGCACCCATATACA
* * *
687378 TATCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATT
65 TATCAACTATAGCATACTTTCATGCTAATAATGCACCCATATGCATT
687425 TCAACTTTGG
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 2 0.02
124 93 0.98
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (124 bp):
GATAATGTACCCATACACATATCAACCATAGCATACTTTTATGTTGATAATGCACCCATATACAT
ATCAACTATAGCATACTTTCATGCTAATAATGCACCCATATGCATTATTCTGTTATGCC
Found at i:687888 original size:21 final size:20
Alignment explanation
Indices: 687858--687920 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 20
687848 CATTTCTGGC
687858 CCTTAGGTATCGATACCCCT
1 CCTTAGGTATCGATACCCCT
*
687878 CCTTATGGTATCAATACTACCCT
1 CCTTA-GGTATCGATAC--CCCT
*
687901 -ATTAGGGTATCGATACCCCT
1 CCTTA-GGTATCGATACCCCT
687921 TCATGTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 9 0.25
21 10 0.28
22 13 0.36
23 4 0.11
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (20 bp):
CCTTAGGTATCGATACCCCT
Found at i:693336 original size:31 final size:31
Alignment explanation
Indices: 693301--693375 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
693291 ATTGAAAAGG
*
693301 AAGAAAAAAAATGAAA-ATGAG-AAAGATGAGA
1 AAGAAAAAAAA-GAAATA-GAGAAAAAATGAGA
693332 AAGAAAAGAAAAGAAATAGAGAAAAAATGAGA
1 AAGAAAA-AAAAGAAATAGAGAAAAAATGAGA
693364 AATGAAAAAAAA
1 AA-GAAAAAAAA
693376 ATGCGAGACT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
31 14 0.36
32 20 0.51
33 5 0.13
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (31 bp):
AAGAAAAAAAAGAAATAGAGAAAAAATGAGA
Found at i:697361 original size:44 final size:46
Alignment explanation
Indices: 697313--697422 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
697303 GTAACCATGC
* *
697313 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTAAGGAATTAAATGGCAAGTATATAGGAA
* * * *
697357 AAATAAGCTTACGAGCTTAAGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTAAGGAA-TTAAATGGCAAGTATATAGGAA
697404 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
697423 TTGGATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 22 0.39
46 1 0.02
47 34 0.60
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTAAGGAATTAAATGGCAAGTATATAGGAA
Found at i:698177 original size:21 final size:21
Alignment explanation
Indices: 698128--698186 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
698118 GTTATGGGTG
698128 TTACATA-GTATCGATA-CCC
1 TTACATAGGTATCGATACCCC
698147 TTACCATAGGTATCGATACCCC
1 TTA-CATAGGTATCGATACCCC
*
698169 TT-CATTAGGTACCGATAC
1 TTACA-TAGGTATCGATAC
698187 TGATTGAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 3 0.09
20 6 0.17
21 21 0.60
22 5 0.14
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (21 bp):
TTACATAGGTATCGATACCCC
Found at i:700245 original size:2 final size:2
Alignment explanation
Indices: 700238--700268 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
700228 CCATAAAAGC
700238 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
700269 CTTTATAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:702722 original size:45 final size:45
Alignment explanation
Indices: 702671--702964 Score: 200
Period size: 45 Copynumber: 6.8 Consensus size: 45
702661 CCTTTTTCAT
* **
702671 TATAGCATACTTTTCTGTTGATAATGTGCCCATATACATATCAAC
1 TATAGCATACTTTTATGTTGATAATGCACCCATATACATATCAAC
* * *
702716 TATAGCATACTTTTATGTTGATAATGCACTCATATGCATTTCAAC
1 TATAGCATACTTTTATGTTGATAATGCACCCATATACATATCAAC
* * * *** *
702761 TTTTGCAT-CATTTCATGCCAATAATGCACCCATATGC--AT----
1 TATAGCATAC-TTTTATGTTGATAATGCACCCATATACATATCAAC
* *** * * *
702800 TAT----T-CTGTTATGCCAATAATGTACCCATACACATATCATC
1 TATAGCATACTTTTATGTTGATAATGCACCCATATACATATCAAC
*
702840 TATAGCATACATTTT-TGTTGATAATGTACCCATATACATATCAAC
1 TATAGCATAC-TTTTATGTTGATAATGCACCCATATACATATCAAC
* * *
702885 TATAGCGTACTTTTATGTTGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTATGTTGATAATGCACCCATATACATATCAAC
* * * * ***
702930 TTTGGCATTCTTTCATGCCAATAATGCACCCATAT
1 TATAGCATACTTTTATGTTGATAATGCACCCATAT
702965 GCATTATTCG
Statistics
Matches: 197, Mismatches: 38, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
34 22 0.11
35 2 0.01
36 2 0.01
39 2 0.01
40 3 0.02
43 1 0.01
44 6 0.03
45 156 0.79
46 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (45 bp):
TATAGCATACTTTTATGTTGATAATGCACCCATATACATATCAAC
Found at i:702911 original size:124 final size:124
Alignment explanation
Indices: 702691--702924 Score: 310
Period size: 124 Copynumber: 1.9 Consensus size: 124
702681 TTTTCTGTTG
* * * * *
702691 ATAATGTGCCCATATACATATCAACTATAGCATACTTTTATGTTGATAATGCACTCATATGCATT
1 ATAATGTACCCATACACATATCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
* *
702756 TCAACTTTTGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTGTTATGCCA
66 TCAACTATAGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTGTTATGCCA
* *
702815 ATAATGTACCCATACACATATCATCTATAGCATACATTTT-TGTTGATAATGTACCCATATACAT
1 ATAATGTACCCATACACATATCAACTATAGCATAC-TTTTATGTTGATAATGCACCCATATACAT
* * ***
702879 ATCAACTATAGCGT-ACTTTTATGTTGATAATGCACCCATATGCATT
65 ATCAACTATAGCATCA-TTTCATGCCAATAATGCACCCATATGCATT
702925 TCAACTTTGG
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
123 1 0.01
124 89 0.95
125 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (124 bp):
ATAATGTACCCATACACATATCAACTATAGCATACTTTTATGTTGATAATGCACCCATATACATA
TCAACTATAGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTGTTATGCCA
Found at i:702950 original size:169 final size:168
Alignment explanation
Indices: 702667--702973 Score: 537
Period size: 169 Copynumber: 1.8 Consensus size: 168
702657 TATACCTTTT
*
702667 TCATTATAGCATACTTTTCTGTTGATAATGTGCCCATATACATATCAACTATAGCATACTTTTAT
1 TCATTATAGCATACTTTTCTGTTGATAATGTACCCATATACATATCAACTATAGCATACTTTTAT
* *
702732 GTTGATAATGCACTCATATGCATTTCAACTTTTGCATCATTTCATGCCAATAATGCACCCATATG
66 GTTGATAATGCACCCATATGCATTTCAACTTTGGCATCATTTCATGCCAATAATGCACCCATATG
702797 CATTATTCTGTTATGCCAATAATGTACCCATACACATA
131 CATTATTCTGTTATGCCAATAATGTACCCATACACATA
*
702835 TCATCTATAGCATACATTTT-TGTTGATAATGTACCCATATACATATCAACTATAGCGTACTTTT
1 TCAT-TATAGCATAC-TTTTCTGTTGATAATGTACCCATATACATATCAACTATAGCATACTTTT
702899 ATGTTGATAATGCACCCATATGCATTTCAACTTTGGCATTC-TTTCATGCCAATAATGCACCCAT
64 ATGTTGATAATGCACCCATATGCATTTCAACTTTGGCA-TCATTTCATGCCAATAATGCACCCAT
702963 ATGCATTATTC
128 ATGCATTATTC
702974 GTTTATTCAT
Statistics
Matches: 132, Mismatches: 4, Indels: 5
0.94 0.03 0.04
Matches are distributed among these distances:
168 4 0.03
169 122 0.92
170 6 0.05
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (168 bp):
TCATTATAGCATACTTTTCTGTTGATAATGTACCCATATACATATCAACTATAGCATACTTTTAT
GTTGATAATGCACCCATATGCATTTCAACTTTGGCATCATTTCATGCCAATAATGCACCCATATG
CATTATTCTGTTATGCCAATAATGTACCCATACACATA
Found at i:703388 original size:21 final size:20
Alignment explanation
Indices: 703358--703398 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
703348 CATTTCTGGC
703358 CCTTAGGTATCGATACCCCT
1 CCTTAGGTATCGATACCCCT
703378 CCTTATGGTATCGATACCCCT
1 CCTTA-GGTATCGATACCCCT
703399 TCATGTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.32
Consensus pattern (20 bp):
CCTTAGGTATCGATACCCCT
Found at i:703406 original size:18 final size:18
Alignment explanation
Indices: 703364--703431 Score: 91
Period size: 18 Copynumber: 3.6 Consensus size: 18
703354 TGGCCCTTAG
*
703364 GTATCGATACCCCTCCTTAT
1 GTATCGATACCCCT--TCAT
703384 GGTATCGATACCCCTTCAT
1 -GTATCGATACCCCTTCAT
*
703403 GTATCGATACTCCTTCAT
1 GTATCGATACCCCTTCAT
703421 GTATCGATACC
1 GTATCGATACC
703432 AAAATTAGCT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 27 0.61
19 3 0.07
21 14 0.32
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (18 bp):
GTATCGATACCCCTTCAT
Found at i:705357 original size:10 final size:10
Alignment explanation
Indices: 705342--705370 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
705332 GATTAGGGAC
705342 TAAAATGAAT
1 TAAAATGAAT
705352 TAAAATGAAT
1 TAAAATGAAT
705362 TAAAATGAA
1 TAAAATGAA
705371 AACTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (10 bp):
TAAAATGAAT
Found at i:706585 original size:16 final size:16
Alignment explanation
Indices: 706546--706587 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
706536 ATATACGGAG
706546 TGATCGGTTAAACAAT
1 TGATCGGTTAAACAAT
* *
706562 TGACCGGTTAAA-ATT
1 TGATCGGTTAAACAAT
706577 TAGATCGGTTA
1 T-GATCGGTTA
706588 TGTTATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (16 bp):
TGATCGGTTAAACAAT
Found at i:706650 original size:23 final size:23
Alignment explanation
Indices: 706624--706673 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
706614 ATCAAGTATA
*
706624 ATAACAT-ATAAGGTAACGCTTAT
1 ATAACATAAT-AGATAACGCTTAT
* *
706647 ATAATATAATAGATAGCGCTTAT
1 ATAACATAATAGATAACGCTTAT
706670 ATAA
1 ATAA
706674 TAAAATAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGATAACGCTTAT
Found at i:706653 original size:21 final size:23
Alignment explanation
Indices: 706637--706681 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
706627 ACATATAAGG
706637 TAACGCTTATATAATATAATAGA
1 TAACGCTTATATAATATAATAGA
* *
706660 TAGCGCTTATATAATAAAATAG
1 TAACGCTTATATAATATAATAG
706682 GTATTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
TAACGCTTATATAATATAATAGA
Found at i:706758 original size:87 final size:87
Alignment explanation
Indices: 706596--706758 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 87
706586 TATGTTATAT
*
706596 TATTTAACCAGAAATATTATCAAGTATAATAACATATAAGGTAACGCTTATATAATATAATAGAT
1 TATTTAACCAGAAATATTATCAAGTACAATAACATATAAGGTAACGCTTATATAATATAATAGAT
* *
706661 AGCGCTTATATAATAAAATAGG
66 AACGCATATATAATAAAATAGG
** * * * * * *
706683 TATTTAACTGGAAATATTTTTAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATACG-
1 TATTTAACCAGAAATATTATCAAGTACAATAACATATAAGGTAACGCTTATATAATATAATA-GA
706747 TAACGCATATAT
65 TAACGCATATAT
706759 TAACCTATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (87 bp):
TATTTAACCAGAAATATTATCAAGTACAATAACATATAAGGTAACGCTTATATAATATAATAGAT
AACGCATATATAATAAAATAGG
Found at i:707201 original size:182 final size:182
Alignment explanation
Indices: 706894--708931 Score: 2928
Period size: 182 Copynumber: 11.3 Consensus size: 182
706884 TGCGTTAATC
** * * * * * *
706894 TTTTGTCATTTATAGATCGGTTTTATCATATTTTTACATGTTATATTATTATGGATAGATATATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * *
706959 TTTATAAAGTATCGACACTTTATTGGCGTTATAACTTATTCTCTTATT-AATTCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCTAAAAGTGTCG
* * *
707023 ATACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTATCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
707076 TTTTGTCATTTCGAAATCGGTTTTTTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* *
707141 TTTATAAAGTATCGACACATTATTGGCGCTATAACTTCATCTCTTTTAAATTCTAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
* *
707206 TACTTATAATAAATTATCGTCACTTTCAACATAACCGGTAGCGCTTTACATG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * * *
707258 TTTTATTATTTCGAGACCGGTTTTATCATATTATTACCTGTTATATTGTTATGGAACGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * * * *
707323 TTTATAAAGTATGGACACTTTATTGCCACTATAACTTCTTCCCTTTTAAAATCTAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
* * *
707388 TACTTATAATAAATTATTGACATTTTTAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
707440 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATTGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * *
707505 TTTATAAAGTATCGACACGTTATTGGTGCTATAATTTCTTCTCTTATT-AATTCTAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCTAAAAGTGTCG
* * *
707567 ATACTTATAATAAATTATCGACACTTTCAACATAATCGGTAGCACTTTATCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
707620 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCCATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * * *
707685 TTTATAAAGTATCGACACTTTATTGGCGTTATAAC-TATTCTCTTTTAAATTCAAAAAATGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
*
707749 TA-TGTATAATAAATTATCGACACTTTCAACATAACCGATAGCGCTTTACCTG
131 TACT-TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
** *
707801 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTATTTGTTATATTGTTATGGATCGATATATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * *
707866 TTTATTAAGTATCGACACTTTATTGGTGCTATAATTTCTTCTCTTTTAAATT-TCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCT-AAAAGTGTCG
*
707930 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
707983 TTTTGTCATTTTC-AGACCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCAATATAT
1 TTTTGTCA-TTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
* ** * *
708047 TTTTATAAATTATCGACACTTTATTGGCATTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCG
65 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCG
* * *
708112 ATACTTATAATAAATTATCGACACTTTCAACATATCAGGTAGCGCTTTATCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
708165 TTTTGTCATTTCGATACC-GTTTTTTCATATTTTTACCTGTTATATTGTTATGAATCGATACATA
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * * *
708229 TTTATAAAATATCGACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCTA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
* * **
708294 TACTTATAATAAATTATCGATATTTTCAACATAACCGGTAAAGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
708346 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTAATAGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
*
708411 TTTATAAAGTATCGACACGTTATTGGCGCTATAA---CTTCTCTTTTAAATTCTAAAA--GTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
*
708471 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
708523 TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * * *
708588 TTTATAAAGTATCGACATTTTATTGGCGTTATAAC-TCTTCTCTTTTAAATTCCAAAAGTATCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
* *
708652 TA-TGTATAATAAATTACCGACACTTTCAACATAACAGGTAGCGCTTTACCTG
131 TACT-TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
708704 TTTTGTCATTTCGATACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* ** *
708769 TTTATAAAATATCGACACTTTATTGGCG-T-T-ACAACTTCTCTTTTAAATT-TCAAAAGTGTTG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCT-AAAAGTGTCG
* *
708830 ATACTTATAATCAATTATCGACATTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
708883 TTTTATTATTTCGAGACCGGTTTCGTCATATTTTTACCTGTTATATTGT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGT
708932 CGATATTTTT
Statistics
Matches: 1669, Mismatches: 166, Indels: 45
0.89 0.09 0.02
Matches are distributed among these distances:
177 144 0.09
178 4 0.00
179 173 0.10
180 148 0.09
181 449 0.27
182 744 0.45
183 7 0.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:707878 original size:725 final size:724
Alignment explanation
Indices: 706894--708931 Score: 3021
Period size: 725 Copynumber: 2.8 Consensus size: 724
706884 TGCGTTAATC
** * * * * * * *
706894 TTTTGTCATTTATAGATCGGTTTTATCATATTTTTACATGTTATATTATTATGGATAGATATATT
1 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATT
*
706959 TTTATAAAGTATCGACACTTTATTGGCGTTATAACTTATTCTCTTATT-AATTCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGTTATAAC-TATTCTCTT-TTAAATT-CAAAAATGTCG
* * *
707023 ATACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTATCTGTTTTGTCATTTC
128 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTC
* * * *
707088 GAAATCGGTTTTTTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
193 GAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
* *
707153 CGACACATTATTGGCGCTATAACTTCATCTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAA
258 CGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAA
* * * * *
707218 ATTATCGTCACTTTCAACATAACCGGTAGCGCTTTACATGTTTTATTATTTCGAGACCGGTTTTA
323 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTG
* * * *
707283 TCATATTATTACCTGTTATATTGTTATGGAACGATACATTTTTATAAAGTATGGACACTTTATTG
388 TCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTG
* * *
707348 CCACTATAACTTCTTCCCTTTTAAAATCTAAAAGTGTCGATACTTATAATAAATTATTGACATTT
453 GCATTATAACTTCTT-CCTTTTAAAATCTAAAAGTGTCGATACTTATAATAAATTATCGACATTT
* *
707413 TTAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACA
517 TCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACC
* * ** *
707478 TGTTATATTGTTATTG-ATCGATACATTTTTATAAAGTATCGACACGTTATTGGTGCTATAATTT
582 TGTTATATTGTTA-TGAATCGATACATATTTATAAAATATCGACACGTTATTGGCACTATAACTT
* *
707542 CTTCTCTTATT-AATTCTAAAA-GTCGATACTTATAATAAATTATCGACACTTTCAACATAATCG
646 CTTCTCTT-TTAAATTCCAAAAGGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCG
* *
707605 GTAGCA-CTTTATCTG
710 GTA-AAGCTTTACCTG
*
707620 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCCATACATT
1 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATT
707685 TTTATAAAGTATCGACACTTTATTGGCGTTATAACTATTCTCTTTTAAATTCAAAAAATGTCGAT
66 TTTATAAAGTATCGACACTTTATTGGCGTTATAACTATTCTCTTTTAAATTC-AAAAATGTCGAT
*
707750 A-TGTATAATAAATTATCGACACTTTCAACATAACCGATAGCGCTTTACCTGTTTTGTCATTTCG
130 ACT-TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
* ** * *
707814 AGACCGGTTTTGTCATATTTTTATTTGTTATATTGTTATGGATCGATATATTTTTATTAAGTATC
194 AGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
* *
707879 GACACTTTATTGGTGCTATAATTTCTTCTCTTTTAAATT-TCAAAAGTGTCGATACTTATAATAA
259 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCT-AAAAGTGTCGATACTTATAATAA
*
707943 ATTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTGTTTTGTCATTTTC-AGACCGGTTTT
323 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCA-TTTCGAGACCGGTTTT
* * * *
708007 GTCATATTTTTACCTATTATATTGTTATGGATCAATATATTTTTATAAATTATCGACACTTTATT
387 GTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATT
* * * *
708072 GGCATTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACT
452 GGCATTATAACTTCTTC-CTTTTAAAATCTAAAAGTGTCGATACTTATAATAAATTATCGACATT
* * * * *
708137 TTCAACATATCAGGTAGCGCTTTATCTGTTTTGTCATTTCGATACC-GTTTTTTCATATTTTTAC
516 TTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTAC
*
708201 CTGTTATATTGTTATGAATCGATACATATTTATAAAATATCGACACTTTATTGGCACTATAACTT
581 CTGTTATATTGTTATGAATCGATACATATTTATAAAATATCGACACGTTATTGGCACTATAACTT
* * *
708266 CTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATAATAAATTATCGATATTTTCAACATAACCG
646 CTTCTCTTTTAAATTCCAAAAG-GTCGATACTTATAATAAATTATCGACACTTTCAACATAACCG
708331 GTAAAGCTTTACCTG
710 GTAAAGCTTTACCTG
*
708346 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTAATAGATCGATACATT
1 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATT
* * *
708411 TTTATAAAGTATCGACACGTTATTGGCGCTATAAC--TTCTCTTTTAAATTCTAAAA-GTCGATA
66 TTTATAAAGTATCGACACTTTATTGGCGTTATAACTATTCTCTTTTAAATTCAAAAATGTCGATA
*
708473 CTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGCTTTACCTGTTTTGTCATTTCGAG
131 CTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAG
708538 ACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
196 ACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
* * * *
708603 CATTTTATTGGCGTTATAAC-TCTTCTCTTTTAAATTCCAAAAGTATCGATA-TGTATAATAAAT
261 CACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACT-TATAATAAAT
* * *
708666 TACCGACACTTTCAACATAACAGGTAGCGCTTTACCTGTTTTGTCATTTCGATACCGGTTTTGTC
325 TATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTC
708731 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGC
390 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGC
* * * * *
708796 GTTACAACTTC-T-CTTTT-AAATTTCAAAAGTGTTGATACTTATAATCAATTATCGACATTTTC
455 ATTATAACTTCTTCCTTTTAAAATCT-AAAAGTGTCGATACTTATAATAAATTATCGACATTTTC
* * *
708858 AACATAACCGGTAGCGCTTTACCTGTTTTATTATTTCGAGACCGGTTTCGTCATATTTTTACCTG
519 AACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTG
708923 TTATATTGT
584 TTATATTGT
708932 CGATATTTTT
Statistics
Matches: 1186, Mismatches: 109, Indels: 41
0.89 0.08 0.03
Matches are distributed among these distances:
717 3 0.00
718 77 0.06
719 28 0.02
720 6 0.01
721 163 0.14
722 144 0.12
723 9 0.01
724 110 0.09
725 407 0.34
726 239 0.20
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (724 bp):
TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGTTATAACTATTCTCTTTTAAATTCAAAAATGTCGATA
CTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAG
ACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
CACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAAATT
ATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCA
TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTTATTGGCA
TTATAACTTCTTCCTTTTAAAATCTAAAAGTGTCGATACTTATAATAAATTATCGACATTTTCAA
CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTT
ATATTGTTATGAATCGATACATATTTATAAAATATCGACACGTTATTGGCACTATAACTTCTTCT
CTTTTAAATTCCAAAAGGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAAAG
CTTTACCTG
Found at i:708741 original size:20 final size:20
Alignment explanation
Indices: 708695--708741 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
708685 ACAGGTAGCG
*
708695 CTTTACCTGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
708715 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
708736 -TTTACC
1 CTTTACC
708742 TGTTATATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.15, C:0.21, G:0.13, T:0.51
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:711367 original size:184 final size:184
Alignment explanation
Indices: 711050--711398 Score: 574
Period size: 184 Copynumber: 1.9 Consensus size: 184
711040 GCGTTACTTA
*
711050 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCTCTCATAAAACTGG
1 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCTCTCATAAAACCGG
* * *
711115 TATATTTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTGTAGGTTTCGATATTTTT
66 TATATCTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTCCGATATTTTT
* *
711180 TCAATCAACACTTTTTGAAAATGTATCGACACTTTTTTCATCCATTCTGGACAT
131 TCAATCAACACTTTTTGAAAAGGTATCAACACTTTTTTCATCCATTCTGGACAT
* *
711234 AAAGTA-GCGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCTCTCATAAAACCG
1 AAAGTATG-GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCTCTCATAAAACCG
* * *
711298 GTATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAGTTATAGGTTCCGATGTTTT
65 GTATATCTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTCCGATATTTT
*
711363 TTCAATCGACACTTTTTGAAAAGGTATCAACACTTT
130 TTCAATCAACACTTTTTGAAAAGGTATCAACACTTT
711399 ATACTGATAT
Statistics
Matches: 152, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
183 1 0.01
184 151 0.99
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (184 bp):
AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCTCTCATAAAACCGG
TATATCTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTCCGATATTTTT
TCAATCAACACTTTTTGAAAAGGTATCAACACTTTTTTCATCCATTCTGGACAT
Found at i:712709 original size:18 final size:18
Alignment explanation
Indices: 712682--712727 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
712672 GTTTGGATCA
*
712682 TCATCGTCATCGTCA-TCT
1 TCATCTTCATCGTCAGT-T
712700 TCATCTTCATCGTCAGTT
1 TCATCTTCATCGTCAGTT
*
712718 TTATCTTCAT
1 TCATCTTCAT
712728 TGACCGCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.17, C:0.28, G:0.09, T:0.46
Consensus pattern (18 bp):
TCATCTTCATCGTCAGTT
Found at i:714583 original size:198 final size:195
Alignment explanation
Indices: 714233--714609 Score: 673
Period size: 198 Copynumber: 1.9 Consensus size: 195
714223 GATATTTAAA
*
714233 AATAGTATCGACACAAATTAAAAAGTGTCGATACATATTACACCTATTCTCTCATAAATCCGGTA
1 AATAGTATCGACACAAATTAAAAAATGTCGATACATATTACACCTATTCTCTCATAAATCCGGTA
*
714298 TACTGATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTTTGG
66 TACTGATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
*
714363 GATCGACACCTTTTATATGGATCGACACTTTATGGTTGCACCTTGTTTGTCATTCATTCTGGACC
131 GATCGACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGTCATTCATTCTGGACC
714428 AATAGTATCGACACAAAATTAAAAAATGTCGATACATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACAC-AAATTAAAAAATGTCGATAC--ATATTACACCTATTCTCTCATAAATCCG
* *
714493 GTATACTTATATCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
63 GTATACTGATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
714558 TGGGATCGACACCTTTTATATGGATCGACATTTTATGGTTGCACCCTGTTTG
128 TGGGATCGACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTG
714610 CCATATTGTA
Statistics
Matches: 173, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
195 14 0.08
196 19 0.11
198 140 0.81
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (195 bp):
AATAGTATCGACACAAATTAAAAAATGTCGATACATATTACACCTATTCTCTCATAAATCCGGTA
TACTGATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
GATCGACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGTCATTCATTCTGGACC
Found at i:716489 original size:32 final size:32
Alignment explanation
Indices: 716453--716516 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
716443 TTCCTCCTCA
*
716453 TTTCTTCCA-TCTCTCTTCTTCCTCCTCCCTTT
1 TTTCTTCCATTCT-TCTTCCTCCTCCTCCCTTT
*
716485 TTTCTTCCATTCTTCTTCCTCCTCCTCTCTTT
1 TTTCTTCCATTCTTCTTCCTCCTCCTCCCTTT
716517 CTTCATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.90
33 3 0.10
ACGTcount: A:0.03, C:0.42, G:0.00, T:0.55
Consensus pattern (32 bp):
TTTCTTCCATTCTTCTTCCTCCTCCTCCCTTT
Found at i:716517 original size:29 final size:31
Alignment explanation
Indices: 716438--716520 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 31
716428 ATGACATCGA
716438 CTTCCTTCCTCCTC-ATTTCTTCCATCTCTCTT
1 CTTCC-TCCTCCTCTATTTCTTCCA-CTCTCTT
*
716470 CTTCCTCCTCC-CTTTTTTCTTCCA-T-TCTT
1 CTTCCTCCTCCTC-TATTTCTTCCACTCTCTT
*
716499 CTTCCTCCTCCTCTCTTTCTTC
1 CTTCCTCCTCCTCTATTTCTTC
716521 ATATTTTTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
29 23 0.50
30 3 0.07
31 6 0.13
32 14 0.30
ACGTcount: A:0.04, C:0.45, G:0.00, T:0.52
Consensus pattern (31 bp):
CTTCCTCCTCCTCTATTTCTTCCACTCTCTT
Found at i:716829 original size:21 final size:21
Alignment explanation
Indices: 716805--716845 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
716795 CTTATGCCTC
716805 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* *
716826 TCAAGTTTCTCTTCGACTCT
1 TCAAGTGTATCTTCGACTCT
716846 TGATTGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTA
Found at i:719140 original size:20 final size:19
Alignment explanation
Indices: 719090--719145 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
719080 ATCCGTATCA
*
719090 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
* *
719109 TTGATACATGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
*
719130 TTTTACCTGTTATATC
1 TTTTACCTGTTTTATC
719146 GTTGTTTGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:719364 original size:179 final size:179
Alignment explanation
Indices: 719058--719527 Score: 676
Period size: 179 Copynumber: 2.6 Consensus size: 179
719048 CGTACTTACG
* * *
719058 AAAGTATCGACACTTTTAATATATCC-GTATCATTTTACCGGTTTTATCATTTTGATACATGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACA--TTT
719122 TATCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTAAAGTATCGACACTTTAT
64 TATCATATTTTTACCTGTTATATCGTTG-TTGATCGATACATTTTTTAAAGTATCGACACTTTAT
*
719187 AGGCGCTAAAACTGCTTCTC-TTTAAATTCACAAAGTGTCGATCCTTATA-T
128 AGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * *
719237 AAAGTTTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCATTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATA-CATTTT
* *
719302 ATCATATTTTTACCTGTTATATCGTTGTTGATCAATATATTTTTTGAAAGTATCGACACTTTATA
65 ATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTT-AAAGTATCGACACTTTATA
*
719367 GGCGCTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
129 GGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * ** *
719418 AAAGTACCGACACTTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATTTCAATAATGATTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGAT-A-CATTT
* * *
719483 TGTCATAGTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
64 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTT
719528 AATTTGGATC
Statistics
Matches: 260, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
178 16 0.06
179 93 0.36
180 55 0.21
181 51 0.20
182 45 0.17
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (179 bp):
AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACATTTTA
TCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTAAAGTATCGACACTTTATAGG
CGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:719992 original size:21 final size:21
Alignment explanation
Indices: 719963--720012 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
719953 GCCTGCAAAT
719963 ATAA-AATAAAATAATTAATA
1 ATAATAATAAAATAATTAATA
* *
719983 ATAATAATAATATATTTAATA
1 ATAATAATAAAATAATTAATA
* *
720004 TTTATAATA
1 ATAATAATA
720013 TTTTTTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATAATAAAATAATTAATA
Found at i:728612 original size:2 final size:2
Alignment explanation
Indices: 728559--728593 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
728549 ATTCCTTCAC
728559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
728594 CACATATTAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:732911 original size:20 final size:21
Alignment explanation
Indices: 732886--732937 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
732876 TTTTCCCAAT
*
732886 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
732906 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
732927 TCGCAATGCGA
1 TCGCAATGCGA
732938 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:732950 original size:41 final size:41
Alignment explanation
Indices: 732923--733000 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
732913 GCGAATTGGG
* * *
732923 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
732964 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
733001 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:732951 original size:20 final size:20
Alignment explanation
Indices: 732926--733020 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
732916 AATTGGGAAA
*
732926 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
732946 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
732967 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
732987 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
733007 TTCGCAACGCGATA
1 ATCGCAACGCGATA
733021 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:733233 original size:22 final size:22
Alignment explanation
Indices: 733205--733248 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
733195 CACTCTCTCA
733205 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
733227 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
733249 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:734887 original size:18 final size:18
Alignment explanation
Indices: 734866--734910 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
734856 TCCACTTCGG
*
734866 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
734884 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
734902 GAGCCATCA
1 GAGCCATCA
734911 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:735415 original size:20 final size:20
Alignment explanation
Indices: 735390--735435 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
735380 TAGTTTACTT
735390 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
735410 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
735430 TCGCAA
1 TCGCAA
735436 TGCGAATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:735463 original size:14 final size:14
Alignment explanation
Indices: 735444--735501 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
735434 AATGCGAATG
735444 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
735458 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
735474 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
735490 AAAATCGCAACG
1 AAAATCGCAACG
735502 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:735470 original size:32 final size:33
Alignment explanation
Indices: 735429--735518 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
735419 GGAAATGGCT
735429 ATCGCAATGCG-AATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
735461 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
735493 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
735519 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
32 42 0.76
33 13 0.24
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:735558 original size:14 final size:14
Alignment explanation
Indices: 735535--735592 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
735525 TTGTGTTTCG
735535 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
735549 CGTTGTGATTTCATTT
1 CGTTGCGATTT--TGT
735565 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
735581 CGTTGCGATTTT
1 CGTTGCGATTTT
735593 TATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:735566 original size:32 final size:33
Alignment explanation
Indices: 735530--735608 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
735520 GCGATTTGTG
*
735530 TTTCGCGTTGCGATTTTGTCGTTGTGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
735562 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTTA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
735595 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
735609 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 26 0.60
33 17 0.40
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:735627 original size:20 final size:19
Alignment explanation
Indices: 735594--735647 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
735584 TGCGATTTTT
*
735594 ATTTCGCATTGCGATAGCC
1 ATTTCGCGTTGCGATAGCC
*
735613 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGATAGCC
735633 ATTTCGCGTTGCGAT
1 ATTTCGCGTTGCGAT
735648 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
ATTTCGCGTTGCGATAGCC
Found at i:737521 original size:14 final size:14
Alignment explanation
Indices: 737501--737578 Score: 95
Period size: 14 Copynumber: 5.6 Consensus size: 14
737491 GATTGTTTAA
737501 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
737515 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
**
737529 TTGATTTGTTTAA-
1 TTGATTTGTAAAAG
737542 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
737556 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
737570 TTGATTTGT
1 TTGATTTGT
737579 TTAATTGATG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
13 11 0.21
14 41 0.79
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:737533 original size:28 final size:28
Alignment explanation
Indices: 737501--737578 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
737491 GATTGTTTAA
* *
737501 TTGATTTGTAAAAGATGATTTGTAAATG
1 TTGATTTGTAAAAGTTGATTTGTAAAAG
**
737529 TTGATTTGTTTAA-TTGATTTGTAAAAG
1 TTGATTTGTAAAAGTTGATTTGTAAAAG
* *
737556 ATGATTTGTAAATGTTGATTTGT
1 TTGATTTGTAAAAGTTGATTTGT
737579 TTAATTGATG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (28 bp):
TTGATTTGTAAAAGTTGATTTGTAAAAG
Found at i:737541 original size:41 final size:41
Alignment explanation
Indices: 737489--737592 Score: 192
Period size: 41 Copynumber: 2.6 Consensus size: 41
737479 TTATTATTTT
737489 TTGA-TTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
1 TTGATTTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
737529 TTGATTTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
1 TTGATTTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
*
737570 TTGATTTGTTTAATTGATGTGTA
1 TTGATTTGTTTAATTGATTTGTA
737593 CATAATTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
40 4 0.06
41 58 0.94
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (41 bp):
TTGATTTGTTTAATTGATTTGTAAAAGATGATTTGTAAATG
Found at i:737587 original size:27 final size:27
Alignment explanation
Indices: 737489--737592 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
737479 TTATTATTTT
*
737489 TTGA-TTGTTTAA-TTGATTTGTAAAAG
1 TTGATTTGTTAAAGTTGATTTGT-AAAG
* *
737515 ATGATTTG-TAAATGTTGATTTGTTTAA-
1 TTGATTTGTTAAA-GTTGATTTG-TAAAG
* *
737542 TTGATTTGTAAAAGATGATTTGTAAATG
1 TTGATTTGTTAAAGTTGATTTGTAAA-G
* *
737570 TTGATTTGTTTAA-TTGATGTGTA
1 TTGATTTGTTAAAGTTGATTTGTA
737593 CATAATTTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
26 9 0.15
27 26 0.43
28 24 0.40
29 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (27 bp):
TTGATTTGTTAAAGTTGATTTGTAAAG
Found at i:737717 original size:19 final size:19
Alignment explanation
Indices: 737695--737762 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
737685 ATCGCAACGA
737695 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
737714 GAAAATCGCAATGTGAAAT
1 GAAAATCGCAATGCGAAAT
737733 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
737747 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
737763 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 1 0.02
19 29 0.66
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:737806 original size:20 final size:20
Alignment explanation
Indices: 737781--737884 Score: 156
Period size: 20 Copynumber: 5.2 Consensus size: 20
737771 TCGCATTGCG
*
737781 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
737801 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAACC
*
737821 ATTTTCGCATTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
737841 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAACC
*
737861 ATTTTCGCATTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
737881 -TTTT
1 ATTTT
737885 GGTTTGAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
19 4 0.05
20 72 0.95
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:737826 original size:40 final size:40
Alignment explanation
Indices: 737781--737884 Score: 183
Period size: 40 Copynumber: 2.6 Consensus size: 40
737771 TCGCATTGCG
* *
737781 ATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGCC
1 ATTTTCGCATTGCGATAACCATTTTCGCGTTGCGATAGCC
737821 ATTTTCGCATTGCGATAACCATTTTCGCGTTGCGATAGCC
1 ATTTTCGCATTGCGATAACCATTTTCGCGTTGCGATAGCC
737861 ATTTTCGCATTGCGATAACC-TTTT
1 ATTTTCGCATTGCGATAACCATTTT
737885 GGTTTGAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 4 0.06
40 58 0.94
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (40 bp):
ATTTTCGCATTGCGATAACCATTTTCGCGTTGCGATAGCC
Found at i:738858 original size:24 final size:24
Alignment explanation
Indices: 738802--738860 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
738792 AGTCAGTATT
* * *
738802 CGAAATTTGATCTTGGTCAGTACC
1 CGAAATTTGATATTGGTCAATACA
* *
738826 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
738850 CGAATTTTGAT
1 CGAAATTTGAT
738861 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:739052 original size:12 final size:12
Alignment explanation
Indices: 739035--739059 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
739025 ATATAATCCT
739035 GAAGAAGAAAAA
1 GAAGAAGAAAAA
739047 GAAGAAGAAAAA
1 GAAGAAGAAAAA
739059 G
1 G
739060 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:741376 original size:19 final size:19
Alignment explanation
Indices: 741354--741451 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 19
741344 GAAAATTACT
741354 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
741373 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
741387 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
741406 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
741420 ATCGCAATGCGTAATGAAA
1 ATCGCAATGCGAAATGAAA
*
741439 ATCGCAACGCGAA
1 ATCGCAATGCGAA
741452 TTTAATTTCG
Statistics
Matches: 57, Mismatches: 12, Indels: 20
0.64 0.13 0.22
Matches are distributed among these distances:
14 17 0.30
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 28 0.49
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:741397 original size:33 final size:33
Alignment explanation
Indices: 741355--741454 Score: 141
Period size: 33 Copynumber: 3.0 Consensus size: 33
741345 AAAATTACTA
*
741355 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
741388 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA--
1 TCGCAATGCGAAATGAAAATCGCAAC--GCGAATT
*
741421 TCGCAATGCGTAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
741454 T
1 T
741455 AATTTCGCGT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
31 4 0.07
33 52 0.88
35 3 0.05
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:741469 original size:19 final size:20
Alignment explanation
Indices: 741447--741489 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
741437 AAATCGCAAC
741447 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
741466 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
741486 GCGA
1 GCGA
741490 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:741474 original size:14 final size:14
Alignment explanation
Indices: 741475--741508 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
741465 TGCGATTTTC
741475 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
741489 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
741503 ATTTTC
1 ATTTTC
741509 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:741649 original size:14 final size:14
Alignment explanation
Indices: 741630--741666 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
741620 CATCAATTAA
741630 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
741644 ACAAATCACCTTTT
1 ACAAATCAACTTTT
741658 ACAAATCAA
1 ACAAATCAA
741667 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:743050 original size:21 final size:20
Alignment explanation
Indices: 743026--743085 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
743016 TGAATCGGGA
*
743026 TCTTGAATGGTGGGAGGGACC
1 TCTTGAACGGTGGGAGGG-CC
* * **
743047 TCTTCAACGATGACAGTGGCC
1 TCTTGAACGGTGGGAG-GGCC
743068 TCTTGAACGGTGGGAGGG
1 TCTTGAACGGTGGGAGGG
743086 GACTCTCGAG
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.23
Consensus pattern (20 bp):
TCTTGAACGGTGGGAGGGCC
Found at i:743091 original size:21 final size:21
Alignment explanation
Indices: 743022--743091 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
743012 CATGTGAATC
*
743022 GGGA-TCTTGAATGGTGGGA-
1 GGGACTCTTGAACGGTGGGAG
* * **
743041 GGGACCTCTTCAACGATGACAG
1 GGGA-CTCTTGAACGGTGGGAG
* *
743063 TGGCCTCTTGAACGGTGGGAG
1 GGGACTCTTGAACGGTGGGAG
743084 GGGACTCT
1 GGGACTCT
743092 CGAGGAATGA
Statistics
Matches: 35, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 4 0.11
21 29 0.83
22 2 0.06
ACGTcount: A:0.20, C:0.19, G:0.39, T:0.23
Consensus pattern (21 bp):
GGGACTCTTGAACGGTGGGAG
Found at i:743110 original size:42 final size:42
Alignment explanation
Indices: 743064--743147 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
743054 CGATGACAGT
* * *
743064 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
743106 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
743148 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:745176 original size:20 final size:19
Alignment explanation
Indices: 745145--745304 Score: 97
Period size: 19 Copynumber: 8.8 Consensus size: 19
745135 TCTTTTTGTT
745145 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
745164 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
745185 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
745204 G--A-G--AATCGTAACGC
1 GAAATGAAAATCGCAACGA
**
745218 GAAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * *
745234 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
745251 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
* *
745270 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
745289 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
745305 TACGTTTTTG
Statistics
Matches: 110, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
14 16 0.15
15 1 0.01
16 4 0.04
17 4 0.04
18 1 0.01
19 53 0.48
20 29 0.26
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:745227 original size:33 final size:33
Alignment explanation
Indices: 745170--745268 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
745160 ACGAGATAAT
745170 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* * *
745204 GAGAATCGTAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
745237 GACAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
745269 CGAAATAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
33 43 0.77
34 13 0.23
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:745262 original size:19 final size:19
Alignment explanation
Indices: 745240--745304 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
745230 GCGACCAGAC
745240 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
745259 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
745278 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
745297 AATCGCAA
1 AATCGCAA
745305 TACGTTTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:745332 original size:19 final size:19
Alignment explanation
Indices: 745310--745349 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
745300 CGCAATACGT
*
745310 TTTTGGTTTCGCGTTGCGA
1 TTTTGATTTCGCGTTGCGA
*
745329 TTTTTATTTCGCGTTGCGA
1 TTTTGATTTCGCGTTGCGA
745348 TT
1 TT
745350 ATCTCGTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.07, C:0.15, G:0.25, T:0.53
Consensus pattern (19 bp):
TTTTGATTTCGCGTTGCGA
Found at i:745925 original size:20 final size:20
Alignment explanation
Indices: 745900--745952 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
745890 GCGCTATGTA
745900 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
745920 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
745940 TATCTCGTTGCGA
1 AATCGCGTTGCGA
745953 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:745986 original size:20 final size:20
Alignment explanation
Indices: 745961--746014 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
745951 GATTTTGTAT
745961 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
745981 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
746001 TATCGCATTGCGAT
1 TATCGCATTGCGAT
746015 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:745999 original size:61 final size:61
Alignment explanation
Indices: 745901--746017 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
745891 CGCTATGTAA
* * * * *
745901 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
745962 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
746018 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:746033 original size:61 final size:61
Alignment explanation
Indices: 745901--746035 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
745891 CGCTATGTAA
* * * * * ** *
745901 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
745962 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
746024 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
746036 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:748851 original size:79 final size:79
Alignment explanation
Indices: 748711--748859 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 79
748701 CTAGAAATCG
** * * * * *
748711 ATGGACCTCGTGTTATATAGGACGTGAGGTCCATTGAAAAGACACGACTTTTAATTAGAATAATA
1 ATGGACCTCACGTTACACAGGACGTGAGGTACATTGAAAAGACACGACATTTAATTAGAATAAAA
748776 TCCAACGTGTCAGA
66 TCCAACGTGTCAGA
* * * *
748790 ATGGACCTCACGTTACACAGGACGTGAGGTACGTTGAAAA-ATCATGACATTTGATTCGAATAAA
1 ATGGACCTCACGTTACACAGGACGTGAGGTACATTGAAAAGA-CACGACATTTAATTAGAATAAA
748854 ATCCAA
65 ATCCAA
748860 TATGCAGAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 1 0.02
79 57 0.98
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (79 bp):
ATGGACCTCACGTTACACAGGACGTGAGGTACATTGAAAAGACACGACATTTAATTAGAATAAAA
TCCAACGTGTCAGA
Found at i:749290 original size:50 final size:50
Alignment explanation
Indices: 749231--749357 Score: 218
Period size: 50 Copynumber: 2.5 Consensus size: 50
749221 TCCTATCGAG
**
749231 CCCTCCTAGTCGCAATGAAAAGGCAAACACGATAATATGGCTCTAACCAA
1 CCCTCCTAGTCGTGATGAAAAGGCAAACACGATAATATGGCTCTAACCAA
*
749281 CCCTCCTAGTCGTGATGAAAAGTCAAACACGATAATATGGCTCTAACCAA
1 CCCTCCTAGTCGTGATGAAAAGGCAAACACGATAATATGGCTCTAACCAA
*
749331 CCCTCCTAGTCATGATGAAAAGGCAAA
1 CCCTCCTAGTCGTGATGAAAAGGCAAA
749358 TTGGAGTGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (50 bp):
CCCTCCTAGTCGTGATGAAAAGGCAAACACGATAATATGGCTCTAACCAA
Found at i:751929 original size:432 final size:432
Alignment explanation
Indices: 751120--751984 Score: 1500
Period size: 432 Copynumber: 2.0 Consensus size: 432
751110 CTTTTACTTT
*
751120 TTCATTATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
1 TTCATCATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
* * *
751185 GTCTTTAAGATGGAATCCAAACTAAGGCTTTCCTGGATGTAGCCTTTTCGTAAAAAATCTAACTC
66 ATCATTAAGATGGAATCCAAACTAAGGCTTTCCTGGATGTAGCATTTTCGTAAAAAATCTAACTC
*
751250 TTTGGTTTCTTCGATATTGTATGTTTGACGAGGTGTGATGAAACCTTGAATTAGATTGGTTTGGT
131 TTTGGTTTCTTCGATATTGTATGTTTGACGAGGTGTGATGAAACCTTGAATTAGATTGGTTTGGC
* * * *
751315 GTTATTTTTTTCTTTTCTATGGTAATTTGTTAGGTGGATCACCTAACACTTCTTGAAAATCCTGT
196 GTTATTTTCTTCTTTTCGATGGTAATTCGTTAGGTGGATCACATAACACTTCTTGAAAATCCTGT
* *
751380 AACAAAGATGAAAACACGCTAGGAAAATCCTTGCTAATGTTAGAAATCGAAACAATTAATTCCCT
261 AACAAAGATGAAAACACACTAGGAAAATCCTTGCTAATGTTAGAAATCAAAACAATTAATTCCCT
**
751445 AAAGTGAACAAGGATGAAAGGTTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTGA-GCTCACA
326 AAAGTGAACAAGGATGAAAGACTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTT-ATGCTCACA
751509 CATTGATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
390 CATTGATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
751552 TTCATCATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
1 TTCATCATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
*
751617 ATCATTAAGATGGAATCCAGACTAAGGCTTTCCTGGATGTAGCATTTTCGTAAAAAATCTAACTC
66 ATCATTAAGATGGAATCCAAACTAAGGCTTTCCTGGATGTAGCATTTTCGTAAAAAATCTAACTC
*
751682 TTTGGTTTCTTCGATATTGTATGTTT-ATCGAGGTGTGATGGAACCTTGAATTAGATTGGTTTGG
131 TTTGGTTTCTTCGATATTGTATGTTTGA-CGAGGTGTGATGAAACCTTGAATTAGATTGGTTTGG
* *
751746 CGTTGTTTTCTTCTTTTCGGTGGTAATTCGTTAGGTGGATCACATAACACTTCTTGAAAATCCTG
195 CGTTATTTTCTTCTTTTCGATGGTAATTCGTTAGGTGGATCACATAACACTTCTTGAAAATCCTG
* * * *
751811 TAACAAAGATGAAAACACACTAGGCAAATCCTTGTTAATGTTAGAAATCAAAATAATTGATTCCC
260 TAACAAAGATGAAAACACACTAGGAAAATCCTTGCTAATGTTAGAAATCAAAACAATTAATTCCC
751876 TAAAGTGAACAAGGATGAAAGACTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTATGCTCACA
325 TAAAGTGAACAAGGATGAAAGACTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTATGCTCACA
*
751941 CATTTATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
390 CATTGATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
751984 T
1 T
751985 CACCACCCAT
Statistics
Matches: 409, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
431 2 0.00
432 407 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (432 bp):
TTCATCATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
ATCATTAAGATGGAATCCAAACTAAGGCTTTCCTGGATGTAGCATTTTCGTAAAAAATCTAACTC
TTTGGTTTCTTCGATATTGTATGTTTGACGAGGTGTGATGAAACCTTGAATTAGATTGGTTTGGC
GTTATTTTCTTCTTTTCGATGGTAATTCGTTAGGTGGATCACATAACACTTCTTGAAAATCCTGT
AACAAAGATGAAAACACACTAGGAAAATCCTTGCTAATGTTAGAAATCAAAACAATTAATTCCCT
AAAGTGAACAAGGATGAAAGACTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTATGCTCACAC
ATTGATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
Found at i:755823 original size:20 final size:22
Alignment explanation
Indices: 755790--755836 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
755780 AACCGACCTG
755790 AAATAATATATTTATT-AA-AA
1 AAATAATATATTTATTCAATAA
* *
755810 AAATATTATTTTTATTCAATAA
1 AAATAATATATTTATTCAATAA
755832 AAATA
1 AAATA
755837 GGGATCTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 2 0.09
22 7 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATAATATATTTATTCAATAA
Found at i:759122 original size:24 final size:24
Alignment explanation
Indices: 759068--759125 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
759058 AAAAGATTTT
*
759068 GACAGAATCACCAGTTTTGGTGTA
1 GACAGAATCACCAGTTTTGGTGCA
* *
759092 GAAAGAATCACCGGTTTTGGTGCA
1 GACAGAATCACCAGTTTTGGTGCA
*
759116 GCCAGAATCA
1 GACAGAATCA
759126 GGCAAAGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (24 bp):
GACAGAATCACCAGTTTTGGTGCA
Found at i:764761 original size:32 final size:32
Alignment explanation
Indices: 764714--764829 Score: 155
Period size: 32 Copynumber: 3.6 Consensus size: 32
764704 TTAAAAACCC
* *
764714 AATCAATCAATATTCTATAATCGAATGATCAT
1 AATCAAACAACATTCTATAATCGAATGATCAT
764746 AATCAAACAACATTCTATAATCGAATGATCAT
1 AATCAAACAACATTCTATAATCGAATGATCAT
*
764778 AATCAAACAACATTCGATAATCGAA-GAATCAT
1 AATCAAACAACATTCTATAATCGAATG-ATCAT
* *
764810 AGTCAAA-AATCATTTTATAA
1 AATCAAACAA-CATTCTATAA
764830 CTTTTAATAA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
31 3 0.04
32 73 0.96
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (32 bp):
AATCAAACAACATTCTATAATCGAATGATCAT
Found at i:792602 original size:7 final size:7
Alignment explanation
Indices: 792590--792689 Score: 60
Period size: 7 Copynumber: 13.3 Consensus size: 7
792580 ATTCATATTT
792590 AAGAAAA
1 AAGAAAA
792597 AAGAAAA
1 AAGAAAA
792604 GATAG-AAA
1 -A-AGAAAA
792612 AAGAAAA
1 AAGAAAA
*
792619 TAGAAAA
1 AAGAAAA
792626 GATAGAAAA
1 -A-AGAAAA
*
792635 ATAAAAATA
1 A-AGAAA-A
*
792644 AAAATAAA
1 AAGA-AAA
*
792652 AAGAGAA
1 AAGAAAA
792659 AAGAAAA
1 AAGAAAA
792666 AA-AAAGA
1 AAGAAA-A
792673 AAGAAAA
1 AAGAAAA
*
792680 TAGAAGAA
1 AAGAA-AA
792688 AA
1 AA
792690 AGAACATAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 19
0.74 0.08 0.19
Matches are distributed among these distances:
6 5 0.07
7 35 0.47
8 23 0.31
9 12 0.16
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (7 bp):
AAGAAAA
Found at i:792616 original size:6 final size:6
Alignment explanation
Indices: 792607--792693 Score: 54
Period size: 6 Copynumber: 13.7 Consensus size: 6
792597 AAGAAAAGAT
* * *
792607 AGAAAA AGAAAA TAGAAAAGA TAGAAAA ATAAAA ATAAAA ATAAAA AGAGAAA
1 AGAAAA AGAAAA -AG-AAA-A -AGAAAA AGAAAA AGAAAA AGAAAA AGA-AAA
792660 AG-AAA A-AAAA AGAAAGA A-AATAGA AGAAAA AGAA
1 AGAAAA AGAAAA AGAAA-A AGAA-A-A AGAAAA AGAA
792694 CATAATAAGC
Statistics
Matches: 70, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
5 8 0.11
6 35 0.50
7 15 0.21
8 8 0.11
9 4 0.06
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (6 bp):
AGAAAA
Found at i:792618 original size:22 final size:22
Alignment explanation
Indices: 792590--792665 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
792580 ATTCATATTT
792590 AAGAAAAAAGAAAAGATAGAAA
1 AAGAAAAAAGAAAAGATAGAAA
*
792612 AAGAAAATAGAAAAGATAGAAA
1 AAGAAAAAAGAAAAGATAGAAA
* *
792634 AA-TAAAAATAAAA-AT--AAA
1 AAGAAAAAAGAAAAGATAGAAA
*
792652 AAGAGAAAAGAAAA
1 AAGAAAAAAGAAAA
792666 AAAAAGAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.11
19 8 0.17
20 2 0.04
21 8 0.17
22 23 0.50
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (22 bp):
AAGAAAAAAGAAAAGATAGAAA
Found at i:792641 original size:28 final size:31
Alignment explanation
Indices: 792590--792693 Score: 92
Period size: 31 Copynumber: 3.4 Consensus size: 31
792580 ATTCATATTT
* *
792590 AAGAAAAAAGAAAAGATAGAAAAAGAAAATAGA
1 AAGAGAAAAGAAAA-A-AAAAAAAGAAAATAGA
* * *
792623 AA-AG-ATAGAAAAATAAAAATA-AAAATAAA
1 AAGAGAAAAGAAAAA-AAAAAAAGAAAATAGA
792652 AAGAGAAAAGAAAAAAAAAGAAAGAAAATAG-
1 AAGAGAAAAGAAAAAAAAA-AAAGAAAATAGA
792683 AAGA-AAAAGAA
1 AAGAGAAAAGAA
792694 CATAATAAGC
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
29 9 0.15
30 20 0.34
31 21 0.36
32 7 0.12
33 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (31 bp):
AAGAGAAAAGAAAAAAAAAAAAGAAAATAGA
Found at i:792660 original size:19 final size:19
Alignment explanation
Indices: 792638--792693 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
792628 TAGAAAAATA
*
792638 AAAATAAAAATAAAA-AGAG
1 AAAATAAAAA-AAAAGAAAG
*
792657 AAAAGAAAAAAAAAGAAAG
1 AAAATAAAAAAAAAGAAAG
*
792676 AAAATAGAAGAAAAAGAA
1 AAAATA-AAAAAAAAGAA
792694 CATAATAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 17 0.55
20 10 0.32
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAATAAAAAAAAAGAAAG
Found at i:795993 original size:104 final size:104
Alignment explanation
Indices: 795806--796058 Score: 319
Period size: 104 Copynumber: 2.4 Consensus size: 104
795796 ATTTTTAAAT
* * * *
795806 TATCTAGATTGACCTGACTTCCTCAATGAGAAGGAACAACTTCATATAAAAGCGACCATAACTCT
1 TATCTAGATTGACCTGACTTCCTCAACGAGAAGGAACAACGTCATATAAAAGCGACCAGAACACT
* * ** *
795871 TCAACATTGATGAGCAGTGTTGTCTTCAACACCAGATAA
66 TCAACATGGATGACCAGTGTCATCTTCAACACCAAATAA
* * * * * *
795910 TCTCTAGATTGACTTGACTTCCTCAACAAGAAGGAACAACGTCCTCTGAAAGC-AGCCAGAACAC
1 TATCTAGATTGACCTGACTTCCTCAACGAGAAGGAACAACGTCATATAAAAGCGA-CCAGAACAC
* *
795974 TTCAACATGGATGACCAGTGTCATCTTCAACACTAAATTA
65 TTCAACATGGATGACCAGTGTCATCTTCAACACCAAATAA
* *
796014 TATCTAGATTGACCCGACTTCCTCAACGAGAAGGAACATCGTCAT
1 TATCTAGATTGACCTGACTTCCTCAACGAGAAGGAACAACGTCAT
796059 CTTCAGTAAA
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
103 1 0.01
104 124 0.99
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (104 bp):
TATCTAGATTGACCTGACTTCCTCAACGAGAAGGAACAACGTCATATAAAAGCGACCAGAACACT
TCAACATGGATGACCAGTGTCATCTTCAACACCAAATAA
Found at i:798778 original size:17 final size:16
Alignment explanation
Indices: 798747--798780 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
798737 CACGTGAGGA
798747 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
798763 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
798780 T
1 T
798781 ACTGTCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:808890 original size:16 final size:16
Alignment explanation
Indices: 808869--808901 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
808859 CACGTGAGGA
808869 TTATTT-TCTTCTTATT
1 TTATTTATCTT-TTATT
808885 TTATTTATCTTTTATT
1 TTATTTATCTTTTATT
808901 T
1 T
808902 ATGTCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTATCTTTTATT
Found at i:812462 original size:27 final size:27
Alignment explanation
Indices: 812373--812466 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 27
812363 TCATTCCATA
* *
812373 ACTTAAAGGTA-TTTA-GTCATTTCAGG
1 ACTTAAGGGTATTTTAGGTCATTTCA-C
* * *
812399 GCTTGAGGGTATTTTAGGTTATTTCAC
1 ACTTAAGGGTATTTTAGGTCATTTCAC
* *
812426 ACTTAGGGGTATTTTA-GTCATTTTAC
1 ACTTAAGGGTATTTTAGGTCATTTCAC
*
812452 AGTTCAAGGGTATTT
1 ACTT-AAGGGTATTT
812467 CAATCCTTTC
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
26 19 0.36
27 26 0.49
28 8 0.15
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (27 bp):
ACTTAAGGGTATTTTAGGTCATTTCAC
Found at i:812708 original size:63 final size:63
Alignment explanation
Indices: 812639--812763 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
812629 CTAATTCTTA
*
812639 AAAAAAATTATGAACAAATCAATTATTTAACAAGTGAATTAGTAATTTATCGGATTAAATACT
1 AAAAAAATTATGAACAAATCAATAATTTAACAAGTGAATTAGTAATTTATCGGATTAAATACT
812702 AAAAAAATTATGAACAAATCAATAATTTAACAAGTGAATTAGTAATTTATCGGATTAAATAC
1 AAAAAAATTATGAACAAATCAATAATTTAACAAGTGAATTAGTAATTTATCGGATTAAATAC
812764 AAATTCTTAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (63 bp):
AAAAAAATTATGAACAAATCAATAATTTAACAAGTGAATTAGTAATTTATCGGATTAAATACT
Found at i:816523 original size:3 final size:3
Alignment explanation
Indices: 816511--816563 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
816501 TGGGTTTTGT
*
816511 ATA ATAA ATA ATA TATA TTA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
816557 ATA ATA A
1 ATA ATA A
816564 ATTTTAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:816536 original size:20 final size:18
Alignment explanation
Indices: 816511--816563 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
816501 TGGGTTTTGT
*
816511 ATAATAAATAATATATATTA
1 ATAAT-AATAATA-ATAATA
816531 ATAATAATAATAATAATA
1 ATAATAATAATAATAATA
816549 AT-ATAATAATAATAA
1 ATAATAATAATAATAA
816564 ATTTTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 13 0.41
18 7 0.22
19 7 0.22
20 5 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATAATAATAATA
Found at i:816574 original size:23 final size:24
Alignment explanation
Indices: 816518--816587 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
816508 TGTATAATAA
*
816518 ATAATATATATTAATAATAAT-AATA
1 ATAATA-ATA-TAATAATAATAAATT
816543 ATAATAATATAATAATAATAAATT
1 ATAATAATATAATAATAATAAATT
* *
816567 TTAA-AATAGAATAA-AA-AAATT
1 ATAATAATATAATAATAATAAATT
816588 GATGTCTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 19 0.46
24 9 0.22
25 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (24 bp):
ATAATAATATAATAATAATAAATT
Found at i:816940 original size:123 final size:121
Alignment explanation
Indices: 816766--816990 Score: 315
Period size: 123 Copynumber: 1.8 Consensus size: 121
816756 GACCTATTTC
* * * * * * * *
816766 CTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGTTCTTCTTATTTTGAACTTCTTCTTTCTTT
1 CTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAAC-TCTTC-TTCCTC
* * *
816831 TTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGAAAGGTTATGCTAATCTATCTG
64 TTCAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAAGGTTATGCTAATCTATCTG
*
816889 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTCTTCTTCCTCTT
1 CTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTCTTCTTCCTCTT
*
816954 CAAATAAGTTTTTCTTATTACGAACTTTCTCTGGAAA
66 CAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAA
816991 TGTTGATCCA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 39 0.44
122 5 0.06
123 45 0.51
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (121 bp):
CTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTCTTCTTCCTCTT
CAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAAGGTTATGCTAATCTATCTG
Found at i:817254 original size:114 final size:113
Alignment explanation
Indices: 816908--817382 Score: 474
Period size: 114 Copynumber: 4.3 Consensus size: 113
816898 TAGAATTATG
* ** * * * * *
816908 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAAC-TCTTCTTCCT-CTTCA-AATAAGTTTTTCTT
1 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTC-TCCTCCTTCAGTATGAGTTCTTCTC
* * * * *
816970 ATTACGAACT-TTCTCTGGAAATGTTGATCCATC-AGTGATGAATTTGAA
65 ATTATGAACTCTAC-CTGGAAAAGCTGATCCATCAAGTGATGAATTTAAA
* * *
817018 CAAAAGGTTAACCAAGTTCTTCTCATTATGAACTT-TT-T--TCCTTCTG-ATGA-TTCTTCTCA
1 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTCCTCCTTCAGTATGAGTTCTTCTCA
* * * * *
817077 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCTACCTGGAAAAGCTGATCCATCAAGTGATGAATTTAAA
* * * *
817125 CATAAGGTTGAACAAATTATTCTCATTATGAATTTCTTCTCCTCCTTCAAGTAATGAGTTCTTCT
1 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTCCTCCTTC-AGT-ATGAGTTCTTCT
** * * *
817190 CATTATGAACTCTACCTGG-AAATTTAATCCATCAAATGATGAATTCAAA
64 CATTATGAACTCTACCTGGAAAAGCTGATCCATCAAGTGATGAATTTAAA
*
817239 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG-ATGAGTTCTTCTC
1 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTC-TCCTCCTTCAGTATGAGTTCTTCTC
* * *
817303 ATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTAAG
65 ATTATGAACTCTAC-CTGGAAAAGCTGATCCATCAAGTGATGAATTTAAA
* *
817352 CAAAAGGTTGACCAAATTCTTCTCATTATGA
1 CAAAAGGTTAAACAAATTCTTCTCATTATGA
817383 TGACGAGTTC
Statistics
Matches: 301, Mismatches: 48, Indels: 29
0.80 0.13 0.08
Matches are distributed among these distances:
106 33 0.11
107 49 0.16
108 3 0.01
109 1 0.00
110 31 0.10
111 9 0.03
112 28 0.09
113 52 0.17
114 63 0.21
115 32 0.11
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTCCTCCTTCAGTATGAGTTCTTCTCA
TTATGAACTCTACCTGGAAAAGCTGATCCATCAAGTGATGAATTTAAA
Found at i:817347 original size:227 final size:222
Alignment explanation
Indices: 816785--817557 Score: 661
Period size: 227 Copynumber: 3.5 Consensus size: 222
816775 TAGAGTCATT
* * * * * * *
816785 CAAAAGGTTGAATAAGTTCTTCTTATTTTGAACTTCTTCTTTCTTTTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * ** * *
816850 TTATGAACTTTCTCTGGAAAGGTTATGCTAATCTATCTGCTTCTGTGATAGAATTATGCAAAAGG
66 TTATGAACTTTCTCTGGAAA----A-GCTGATCCA--T-C--AAGTGATGGATTTA-GCAAAAGG
** * * *
816915 TTGAACAAGCTCTTCTCATTGTGAACTCTTCTTCCTCTTCAAATAAGTTTTTCTTATTACGAACT
120 TTGAACAAATTCTTCTCATTATGAACTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTACGAACT
* * * **
816980 TTCTCTGGAAATGTTGATCCATCAGTGATGAATTTGAA
185 TACTCTGGAAATGTTAATCCATCAATGATGAATTCAAA
*
817018 CAAAAGGTTAACCAAGTTCTTCTCATTATGAACTT-TT-TTCCTTC-T--GATGA-TTCTTCTCA
1 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** *
817077 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT-AGCAAAAGGTTGAACAAAT
* * * *
817142 TATTCTCATTATGAATTTCTTC-TCCTCCTTCAAGTAATGAGTTCTTCTCATTATGAACTCTAC-
130 TCTTCTCATTATGAA-CTCTTCTTCCT-CTTC-A--AATAAGTTCTTCTCATTACGAACT-TACT
817205 CTGGAAAT-TTAATCCATCAAATGATGAATTCAAA
189 CTGGAAATGTTAATCCATC-AATGATGAATTCAAA
*
817239 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
817304 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGACCAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT-AGCAAAAGGTTGAACAAAT
* ** * *
817369 TCTTCTCATTATG-A-------------T--GACGAGTTCTTCTCATTATGAACTCTAC-CTAG-
130 TCTTCTCATTATGAACTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTACGAACT-TACTCTGGA
* *
817416 CATGTTAATCCATCAAATAATGAATTCAAA
194 AATGTTAATCCATC-AATGATGAATTCAAA
* * * *
817446 CAAAATGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAAATAACGAGTTCTTC
1 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* *
817510 TCATTATGAACTCTGC-CTGGAAATA-CTGATCCATCAAATGATGGATTT
63 TCATTATGAACT-TTCTCTGGAAA-AGCTGATCCATCAAGTGATGGATTT
817558 GAATCTTTGC
Statistics
Matches: 467, Mismatches: 53, Indels: 64
0.80 0.09 0.11
Matches are distributed among these distances:
206 10 0.02
207 95 0.20
209 50 0.11
210 3 0.01
212 1 0.00
217 41 0.09
218 10 0.02
219 2 0.00
220 10 0.02
221 73 0.16
222 11 0.02
223 8 0.02
224 1 0.00
226 6 0.01
227 103 0.22
228 5 0.01
230 1 0.00
231 5 0.01
232 2 0.00
233 30 0.06
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (222 bp):
CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTAGCAAAAGGTTGAACAAATT
CTTCTCATTATGAACTCTTCTTCCTCTTCAAATAAGTTCTTCTCATTACGAACTTACTCTGGAAA
TGTTAATCCATCAATGATGAATTCAAA
Found at i:817507 original size:321 final size:326
Alignment explanation
Indices: 816908--817552 Score: 779
Period size: 321 Copynumber: 2.0 Consensus size: 326
816898 TAGAATTATG
* * * * *
816908 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTCTTCTTCCTCTTCAAATAAGTTTTTCTTATT
1 CAAAAGGTTAAACAAACTCTTCTCATTATGAACTCTTCTTCCTCTTCAAATAAGTTCTTCTCATT
* * *
816973 ACGAACTTTCTCTGGAAATGTTGATCCATCAGTGATGAATTTGAACAAAAGGTTAACCAAGTTCT
66 ACGAACTTTCTCTGGAAAAGCTGATCCATCAGTGATGAATTTGAACAAAAGGTTAACCAAATTCT
** * *
817038 TCTCATTATGAACTTTTTTCCTTCTGATGATTCTTCTCATTATGAACTCGAACTGGAAAAGCTGA
131 TCTCATTATGAA-----TT-CGACTGATGATTCTTCTCATTATGAACTCGAACTAGAAAAGCTAA
* * * ** * * *
817103 TCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTATTCTCATTATGAATTTCTTCTCCT
190 TCCATCAAATAATGAATTCAAACAAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTCCT
* * *
817168 CCTTCAAGTAATGAGTTCTTCTCATTATGAACTCTACCTGGAAAT-TTAATCCATCAAATGATGA
255 CCTTCAAATAACGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTAATCCATCAAATGATGA
817232 ATTCAAA
320 ATTCAAA
* * *
817239 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTAAACAAACTCTTCTCATTATGAAC-TCTTCTTCC-TCTTCAAATAAGTTCTTCTCA
* * *
817304 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT-AAGCAAAAGGTTGACCAAA
64 TTACGAACTTTCTCTGGAAAAGCTGATCCATC-AGTGATGAATTTGAA-CAAAAGGTTAACCAAA
* * * * *
817368 TTCTTCTCATTATG-A-T-GAC-GA-G-TTCTTCTCATTATGAACTCTACCTAG-CATGTTAATC
127 TTCTTCTCATTATGAATTCGACTGATGATTCTTCTCATTATGAACTCGAACTAGAAAAGCTAATC
* *
817426 CATCAAATAATGAATTCAAACAAAATGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT-
192 CATCAAATAATGAATTCAAACAAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTC-TCCTC
* *
817490 CTTCAAATAACGAGTTCTTCTCATTATGAACTCTGCCTGGAAATACTGATCCATCAAATGATG
256 CTTCAAATAACGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTAATCCATCAAATGATG
817553 GATTTGAATC
Statistics
Matches: 270, Mismatches: 38, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
321 96 0.36
322 43 0.16
323 1 0.00
324 2 0.01
325 1 0.00
327 1 0.00
331 29 0.11
332 9 0.03
333 49 0.18
334 39 0.14
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (326 bp):
CAAAAGGTTAAACAAACTCTTCTCATTATGAACTCTTCTTCCTCTTCAAATAAGTTCTTCTCATT
ACGAACTTTCTCTGGAAAAGCTGATCCATCAGTGATGAATTTGAACAAAAGGTTAACCAAATTCT
TCTCATTATGAATTCGACTGATGATTCTTCTCATTATGAACTCGAACTAGAAAAGCTAATCCATC
AAATAATGAATTCAAACAAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTCCTCCTTCA
AATAACGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTAATCCATCAAATGATGAATTCAA
A
Found at i:817878 original size:50 final size:50
Alignment explanation
Indices: 817803--817904 Score: 170
Period size: 50 Copynumber: 2.0 Consensus size: 50
817793 CAACATGCTA
*
817803 ATTCTGATAACAACTCATCTGATTATGAA-GATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGGATCTTT-AAGATAATTTCAC
817853 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTAAGATAATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAG-GATCTTTAAGATAATTTCAC
817904 A
1 A
817905 GATATCGATA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
50 29 0.59
51 13 0.27
52 7 0.14
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (50 bp):
ATTCTGATAACAACTCATCTGATTATGAAGGATCTTTAAGATAATTTCAC
Found at i:818514 original size:78 final size:81
Alignment explanation
Indices: 818362--818644 Score: 450
Period size: 78 Copynumber: 3.5 Consensus size: 81
818352 CTGTGGTTCA
* *
818362 TACCAAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC-ATGAGCACATTCCTCTTCA
818427 AATTCAATGATTGATTT
65 AATTCAATGATTGATTT
818444 TACCAAACCAGATCAGAT-ACTCAAAGAAC-CTTCCAGAAGATGC-TGAGCACATTCCTCTTCAA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCATGAGCACATTCCTCTTC-A
* * *
818506 AATT-AATGACTGGTTC
65 AATTCAATGATTGATTT
818522 TACCAAACCAGATCAGAT-ACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC-ATGAGCACATTCCTCTT-C
818586 AAATTCAATGATTGATTT
64 AAATTCAATGATTGATTT
818604 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
818645 CAGTTAATGT
Statistics
Matches: 186, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
78 55 0.30
79 18 0.10
80 14 0.08
81 32 0.17
82 45 0.24
83 22 0.12
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (81 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCATGAGCACATTCCTCTTCAA
ATTCAATGATTGATTT
Found at i:819859 original size:18 final size:18
Alignment explanation
Indices: 819838--819932 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 18
819828 CCTTGACCCC
819838 CTTTTTTCTTT-TTTCTTT
1 CTTTTTTCTTTCTTT-TTT
819856 CTTTTTTCCTTTCTTTTTT
1 CTTTTTT-CTTTCTTTTTT
819875 -TTTCTTTC-TT-TTTTTT
1 CTTT-TTTCTTTCTTTTTT
819891 CTTTTTCTTCTTTC-TTTTT
1 C-TTTT-TTCTTTCTTTTTT
*
819910 CTTCTCTTTCTTCTCTTTCTT
1 CTT-T-TTTCTT-TCTTTTTT
819931 CT
1 CT
819933 CTTCAAGCAT
Statistics
Matches: 64, Mismatches: 1, Indels: 21
0.74 0.01 0.24
Matches are distributed among these distances:
16 6 0.09
17 3 0.05
18 19 0.30
19 24 0.38
20 6 0.09
21 6 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
CTTTTTTCTTTCTTTTTT
Found at i:819866 original size:26 final size:26
Alignment explanation
Indices: 819837--819907 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 26
819827 ACCTTGACCC
819837 CCTTTTTTCTTTTTTCTTTCTTTTTT
1 CCTTTTTTCTTTTTTCTTTCTTTTTT
819863 CCTTTCTTT-TTTTTTCTTTCTTTTTT
1 CCTTT-TTTCTTTTTTCTTTCTTTTTT
* *
819889 -TTCTTTTTCTTCTTTCTTT
1 CCT-TTTTTCTTTTTTCTTT
819908 TTCTTCTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 4 0.10
26 33 0.82
27 3 0.08
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (26 bp):
CCTTTTTTCTTTTTTCTTTCTTTTTT
Found at i:819873 original size:13 final size:12
Alignment explanation
Indices: 819842--819914 Score: 80
Period size: 13 Copynumber: 6.1 Consensus size: 12
819832 GACCCCCTTT
819842 TTTC-TTTTTTC
1 TTTCTTTTTTTC
*
819853 TTTCTTTTTTCC
1 TTTCTTTTTTTC
819865 TTTC-TTTTTT-
1 TTTCTTTTTTTC
*
819875 TTTCTTTCTTTTT
1 TTTCTTT-TTTTC
819888 TTTCTTTTTCTTC
1 TTTCTTTTT-TTC
819901 TTTCTTTTTCTTC
1 TTTCTTTTT-TTC
819914 T
1 T
819915 CTTTCTTCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
10 4 0.07
11 11 0.20
12 16 0.30
13 23 0.43
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:819901 original size:22 final size:22
Alignment explanation
Indices: 819839--819923 Score: 93
Period size: 22 Copynumber: 3.8 Consensus size: 22
819829 CTTGACCCCC
819839 TTTTTTC-TTTT-TTCTTTCTTT
1 TTTTTTCTTTTTCTTCTTTC-TT
*
819860 TTTCCTTTCTTTTTTTTTCTTTCTT
1 TTT--TTTC-TTTTTCTTCTTTCTT
819885 TTTTTTCTTTTTCTTCTTTCTT
1 TTTTTTCTTTTTCTTCTTTCTT
* *
819907 TTTCTTCTCTTTCTTCT
1 TTTTTTCTTTTTCTTCT
819924 CTTTCTTCTC
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
21 3 0.05
22 29 0.52
23 8 0.14
25 9 0.16
26 7 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTCTTTTTCTTCTTTCTT
Found at i:819933 original size:9 final size:9
Alignment explanation
Indices: 819849--819935 Score: 62
Period size: 9 Copynumber: 10.2 Consensus size: 9
819839 TTTTTTCTTT
819849 TTTCTT-TC
1 TTTCTTCTC
*
819857 TTTTTTC-C
1 TTTCTTCTC
819865 TTTCTT-T-
1 TTTCTTCTC
819872 TTT-TT-TC
1 TTTCTTCTC
* *
819879 TTTCTTTTT
1 TTTCTTCTC
*
819888 TTTCTT-TT
1 TTTCTTCTC
*
819896 TCTTCTTTCTT
1 T-TTC-TTCTC
819907 TTTCTTCTC
1 TTTCTTCTC
819916 TTTCTTCTC
1 TTTCTTCTC
819925 TTTCTTCTC
1 TTTCTTCTC
819934 TT
1 TT
819936 CAAGCATAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
6 3 0.04
7 6 0.09
8 16 0.24
9 34 0.51
10 5 0.07
11 3 0.04
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTCTTCTC
Found at i:819933 original size:18 final size:17
Alignment explanation
Indices: 819838--819935 Score: 74
Period size: 15 Copynumber: 6.2 Consensus size: 17
819828 CCTTGACCCC
819838 CTTT-TTTCTTT-TT-T
1 CTTTCTTTCTTTCTTCT
819852 CTTTCTTT-TTTCCTT-T
1 CTTTCTTTCTTT-CTTCT
819868 CTTT-TTT-TTTCTT-T
1 CTTTCTTTCTTTCTTCT
*
819882 CTTTTTTTTCTTT-TTCTT
1 C-TTTCTTTCTTTCTTC-T
819900 CTTTC-TT-TTTCTTCT
1 CTTTCTTTCTTTCTTCT
819915 CTTTCTTCTCTTTCTTCT
1 CTTTCTT-TCTTTCTTCT
819933 CTT
1 CTT
819936 CAAGCATAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 20
0.77 0.01 0.22
Matches are distributed among these distances:
14 12 0.17
15 21 0.30
16 18 0.25
17 7 0.10
18 13 0.18
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
CTTTCTTTCTTTCTTCT
Found at i:821500 original size:62 final size:62
Alignment explanation
Indices: 821403--821527 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
821393 GGATCTTTTG
821403 TTCCCATTCTCCTCGCAATTGATACACCACTAACGATGAATCTCCATATATTTTGAGACATT
1 TTCCCATTCTCCTCGCAATTGATACACCACTAACGATGAATCTCCATATATTTTGAGACATT
821465 TTCCCATTCTCCTCGCAATTGATACACCACTAACGATGAATCTCCATATATTTTGAGACATT
1 TTCCCATTCTCCTCGCAATTGATACACCACTAACGATGAATCTCCATATATTTTGAGACATT
821527 T
1 T
821528 GATTTTTCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (62 bp):
TTCCCATTCTCCTCGCAATTGATACACCACTAACGATGAATCTCCATATATTTTGAGACATT
Found at i:827228 original size:15 final size:15
Alignment explanation
Indices: 827205--827236 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
827195 TGAAATGAAT
827205 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
827220 AATGCATGTATGCAA
1 AATGAATGTATGCAA
827235 AA
1 AA
827237 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:832430 original size:3 final size:3
Alignment explanation
Indices: 832401--832459 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
832391 TTGGGTTTTG
* * *
832401 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
832448 TAA TAA TAA TAA
1 TAA TAA TAA TAA
832460 ATTTTAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:838262 original size:27 final size:26
Alignment explanation
Indices: 838231--838298 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 26
838221 TCTATTTACA
838231 AAATCATTTCTCTATAGGAATGGTAAC
1 AAATCA-TTCTCTATAGGAATGGTAAC
838258 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCAT-TCTCTATAGGAATGGTAAC
838285 AAATCA-TCTCTATA
1 AAATCATTCTCTATA
838299 ATTCCTACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
25 8 0.20
26 1 0.03
27 31 0.77
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATCATTCTCTATAGGAATGGTAAC
Found at i:842028 original size:27 final size:27
Alignment explanation
Indices: 841997--842091 Score: 167
Period size: 27 Copynumber: 3.6 Consensus size: 27
841987 TCTATTTACA
841997 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
842024 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
842051 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGGTAAC
842078 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
842092 ATTCCTACAC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
25 9 0.13
27 58 0.87
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:861999 original size:16 final size:16
Alignment explanation
Indices: 861978--862017 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
861968 ATAACGACGA
*
861978 AACCAGAGAAATCGAC
1 AACCAGAGAAATCCAC
861994 AACCAGAGAAATCCAC
1 AACCAGAGAAATCCAC
862010 AACCAGAG
1 AACCAGAG
862018 TCTAAAATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.28, G:0.17, T:0.05
Consensus pattern (16 bp):
AACCAGAGAAATCCAC
Found at i:869536 original size:127 final size:127
Alignment explanation
Indices: 869269--869579 Score: 423
Period size: 127 Copynumber: 2.4 Consensus size: 127
869259 AAGTTGCGAT
* * * * **
869269 ATGTTGTGGCACGGCTGAACCCACATTAGGTTGAGATGACAAA-ATTCAGAAGAAGAAGAAGGCA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGA-AAAGATTCAGACCAAG-AGAAGGCA
* *
869333 TGAAGAATGAGCCTTACAAACTAAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
64 TGAAGAATGAGCCTTACAAACTAAGGTAATGGGGCATTTTGAAGGCCCGCACCAGTATAAGATA
869397 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAG-G-AGGCATG
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGAGAAGGCATG
* ** *
869460 AAGAATGAGCCTTATAATTTGAGGTAATAGGGGCATTTTGAAAGGCCCGCACCAGTATAAGATA
66 AAGAATGAGCCTTACAAACTAAGGTAAT-GGGGCATTTTG-AAGGCCCGCACCAGTATAAGATA
* *
869524 ATGTTGGGGCACGACTGAACCCACATCATGATGAGA-AAATAAGATTCAGACCAAGA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAA-AAGATTCAGACCAAGA
869580 AGTTATTGAG
Statistics
Matches: 164, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
125 30 0.18
126 14 0.09
127 75 0.46
128 45 0.27
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (127 bp):
ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGAGAAGGCATG
AAGAATGAGCCTTACAAACTAAGGTAATGGGGCATTTTGAAGGCCCGCACCAGTATAAGATA
Found at i:869621 original size:127 final size:126
Alignment explanation
Indices: 869324--869611 Score: 343
Period size: 127 Copynumber: 2.3 Consensus size: 126
869314 TCAGAAGAAG
** * *
869324 AAGAAGGCATGAAGAATGAGCCTTACAAACT--AAGGTGAT-GGGGCATTTTGAAGGCCCGTACC
1 AAGAAGGCATGAAGAATGAGCCGCAC-AACTCGAA-GTAATAGGGGCATTTTGAAGGCCCGCACC
* *
869386 AGTATAAGATAATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACC
64 AGTATAAGATAATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAAAAGATTCAGACC
* ** * * * *
869449 AAGGAGGCATGAAGAATGAGCCTTATAATTTGAGGTAATAGGGGCATTTTGAAAGGCCCGCACCA
1 AAGAAGGCATGAAGAATGAGCCGCACAACTCGAAGTAATAGGGGCATTTTG-AAGGCCCGCACCA
869514 GTATAAGATAATGTTGGGGCACGACTGAACCCACATCATGATGAGA-AAATAAGATTCAGACC
65 GTATAAGATAATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAA-AAGATTCAGACC
** * *
869576 AAGAAGTTATTG-AGAATGAGTCGCGCAACTCGAAGT
1 AAGAAGGCA-TGAAGAATGAGCCGCACAACTCGAAGT
869612 GTCAGGGGCA
Statistics
Matches: 138, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
124 3 0.02
125 28 0.20
126 14 0.10
127 91 0.66
128 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (126 bp):
AAGAAGGCATGAAGAATGAGCCGCACAACTCGAAGTAATAGGGGCATTTTGAAGGCCCGCACCAG
TATAAGATAATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAAAAGATTCAGACC
Found at i:870338 original size:36 final size:36
Alignment explanation
Indices: 870292--870557 Score: 290
Period size: 36 Copynumber: 7.4 Consensus size: 36
870282 AGCAAAGTCA
*
870292 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGA-ATAGTGAAGCAAACC
* *
870328 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
*
870364 ATCCT-AAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 AT-CTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
* * * *
870400 ATCTGAAGCCTTCACCGGAGAATAGGGAAGCAATCA
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
*
870436 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
* *
870472 ATCAT-AAGTCTTCACC-AGAGAGTAGTGAAGCAAACC
1 ATC-TGAAGCCTTCACCGA-AGAATAGTGAAGCAAACC
* * * *
870508 ATCTTAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCC
1 ATCTGAAGCCTTCACCGAAGAA-TAGTGAAGCA-AACC
* *
870545 ATTTTAAGCCTTC
1 ATCTGAAGCCTTC
870558 TCAGAAGAGT
Statistics
Matches: 204, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
35 6 0.03
36 181 0.89
37 17 0.08
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (36 bp):
ATCTGAAGCCTTCACCGAAGAATAGTGAAGCAAACC
Found at i:870538 original size:108 final size:108
Alignment explanation
Indices: 870292--870557 Score: 363
Period size: 108 Copynumber: 2.5 Consensus size: 108
870282 AGCAAAGTCA
* * * *
870292 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGTGAA
1 ATCTTAAGCCTTCACCGAAAAGTAGTGAAGCAATCCATCTGAAGCCTTCACCGGAGAATAGTGAA
* *
870357 GCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
66 GCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * * *
870400 ATCTGAAGCCTTCACCGGAGAA-TAGGGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGA
1 ATCTTAAGCCTTCACC-GAAAAGTAGTGAAGCAATCCATCTGAAGCCTTCACCGGAGAATAGTGA
* *
870464 AGCAAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGCAAACC
65 AGCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * * *
870508 ATCTTAAGTCTTCACCAAAAAGTAGTGAAGCAGATCCATTTTAAGCCTTC
1 ATCTTAAGCCTTCACCGAAAAGTAGTGAAGCA-ATCCATCTGAAGCCTTC
870558 TCAGAAGAGT
Statistics
Matches: 135, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
107 3 0.02
108 115 0.85
109 17 0.13
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (108 bp):
ATCTTAAGCCTTCACCGAAAAGTAGTGAAGCAATCCATCTGAAGCCTTCACCGGAGAATAGTGAA
GCAAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACC
Found at i:871291 original size:52 final size:51
Alignment explanation
Indices: 870927--871416 Score: 580
Period size: 51 Copynumber: 9.5 Consensus size: 51
870917 GTGAAGCAAA
* *
870927 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
870978 TGAAGATG--CGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * * *
871027 TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTG
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * *
871078 TGAAGATATCCGAGTTCCATACTCCTTAATGAAAGAAGGAGCGAACCCGTT
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * *
871129 TGAAGATGTTCGAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGA
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT---T
* * * * *
871183 AGAAGATTTTTGAGTTCTATACTCCCTGAAGAAA-AAGGGAGCGAACCCAG-T
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAA-GGAGCGAACCC-GTT
*
871234 TGAAGATGTTCAAGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCAG-T
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAA-GGAGCGAACCC-GTT
871286 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAG-AGGAGCGAACCCGTT
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * * *
871336 TGAAGAGATGTTCGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTTGT
1 TG-A-AGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCC--GT-T
871392 TGAAGATTGTTCGAG-TCTTATACTC
1 TGAAGA-TGTTCGAGTTC-TATACTC
871417 TCTGAAGAAA
Statistics
Matches: 382, Mismatches: 40, Indels: 30
0.85 0.09 0.07
Matches are distributed among these distances:
49 50 0.13
50 14 0.04
51 161 0.42
52 80 0.21
53 13 0.03
54 43 0.11
55 18 0.05
56 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (51 bp):
TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
Found at i:871414 original size:55 final size:53
Alignment explanation
Indices: 870927--871751 Score: 440
Period size: 55 Copynumber: 15.6 Consensus size: 53
870917 GTGAAGCAAA
* * * * * * *
870927 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCC-GT-T
1 TGAAGATGTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTGT
* * * * *
870978 TGAAGATG--CGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCC-GT-T
1 TGAAGATGTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTGT
* * *
871027 TGAAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCC-GTG-
1 TGAAGATGTTCGAGTTCTATACTCCCTGA-AGAAATAGGGAGCGAACCCATTGT
* * * * * * *
871078 TGAAGATATCCGAGTTCCATACT-CCTTAATGAAAGAAGGAGCGAACCC-GT-T
1 TGAAGATGTTCGAGTTCTATACTCCCTGAA-GAAATAGGGAGCGAACCCATTGT
** * * * * * * *
871129 TGAAGATGTTCGAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGA
1 TGAAGATGTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCAT-TGT
* * * *
871183 AGAAGATTTTTGAGTTCTATACTCCCTGAAGAAAAAGGGAGCGAACCCA--GT
1 TGAAGATGTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTGT
* * * *
871234 TGAAGATGTTCAAGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCA--GT
1 TGAAGATGTTCGAGTTCTATACTCCCTGAAGAAA-TAGGGAGCGAACCCATTGT
* * * *
871286 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGA-GGAGCGAACCC-GT-T
1 TGAAGATGTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTGT
871336 TGAAGAGATGTTCGAGTTCTATACTCCCT-AGAGAAATAGGGAGCGAACCCATTTGT
1 TG-A-AGATGTTCGAGTTCTATACTCCCTGA-AGAAATAGGGAGCGAACCCA-TTGT
* * *
871392 TGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGG-G-GTAGACGCAATAGT
1 TGAAGA-TGTTCGAGTTC-TATACTCCCTGAAGAAATAGGGAGCG-A-AC-CCATTGT
* * * * ** **
871447 TGAAGATTGTTCG-GGTCTTATACTCTCTGAAGATATAGGGGGC-AGACACGGTCAT
1 TGAAGA-TGTTCGAGTTC-TATACTCCCTGAAGAAATAGGGAGCGA-AC-CCATTGT
* * ** * *
871502 TGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGA
1 TGAAGA-TGTTCGAGTTC-TATACTCCCTGAAGAAATAGGGAGC-GAACCCATTGT
* * * * * *
871557 TGAAGAT-TACG-GGTCTTATACTCTCTGAAGAAATAGGGGGC-AGACGCAATCGT
1 TGAAGATGTTCGAGTTC-TATACTCCCTGAAGAAATAGGGAGCGA-AC-CCATTGT
* * *
871610 TGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGC-AGA-CAAGTTTGT
1 TGAAGA-TGTTCGAGTTC-TATACTCCCTGAAGAAATAGGGAGCGA-ACCCA--TTGT
* *
871665 TGAAGATGATTCAAG-TCTTATAC-CCTCTGAAGAAATAGGGAGCGAACCCATTTTT
1 TGAAGATG-TTCGAGTTC-TATACTCC-CTGAAGAAATAGGGAGCGAACCCA-TTGT
* * *
871720 CTGAAGATTTATTGAATTCTATACTCCCTGAA
1 -TGAAGATGT-TCGAGTTCTATACTCCCTGAA
871752 AAGAATAAGG
Statistics
Matches: 653, Mismatches: 72, Indels: 93
0.80 0.09 0.11
Matches are distributed among these distances:
49 49 0.08
50 19 0.03
51 153 0.23
52 83 0.13
53 56 0.09
54 52 0.08
55 205 0.31
56 31 0.05
57 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (53 bp):
TGAAGATGTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTGT
Found at i:871616 original size:163 final size:163
Alignment explanation
Indices: 871406--871704 Score: 492
Period size: 163 Copynumber: 1.8 Consensus size: 163
871396 GATTGTTCGA
* *
871406 GTCTTATACTCTCTGAAGAAATAGGGGGTAGACGCAATAGTTGAAGATTGTTCGGGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATAGTTGAAGATTGTTCGAGTCTTATACT
* * * *
871471 CTCTGAAGATATAGGGGGCAGACACGGTCATTGAAGATTG-TTCGAGTCTTATACTCTCTGAAGA
66 CTCTGAAGAAATAGGGGGCAGACAAGGTCATTGAAGA-TGATTCAAGTCTTATACCCTCTGAAGA
871535 AATAGGGGGCAGATGCGATTGATGAAGATTACGG
130 AATAGGGGGCAGATGCGATTGATGAAGATTACGG
*
871569 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATAGTTGAAGATTGTTCGAGTCTTATACT
* **
871634 CTCTGAAGAAATAGGGGGCAGACAAGTTTGTTGAAGATGATTCAAGTCTTATACCCTCTGAAGAA
66 CTCTGAAGAAATAGGGGGCAGACAAGGTCATTGAAGATGATTCAAGTCTTATACCCTCTGAAGAA
871699 ATAGGG
131 ATAGGG
871705 AGCGAACCCA
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
162 2 0.02
163 123 0.98
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (163 bp):
GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATAGTTGAAGATTGTTCGAGTCTTATACT
CTCTGAAGAAATAGGGGGCAGACAAGGTCATTGAAGATGATTCAAGTCTTATACCCTCTGAAGAA
ATAGGGGGCAGATGCGATTGATGAAGATTACGG
Found at i:871669 original size:108 final size:108
Alignment explanation
Indices: 871390--871704 Score: 429
Period size: 108 Copynumber: 2.9 Consensus size: 108
871380 GAACCCATTT
* *
871390 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGTAGACGCAA-TAGTTGAAGAT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTTGTTGAAGA-
* **
871454 TGTTCGGGTCTTATACTCTCTGAAGATATAGGGGGCAGACACGGTC
63 TGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
* * *
871500 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGA-TTGATGAAGAT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTTGTTGAAGAT
* *
871564 -TACGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
64 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
871608 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGTTTGTTGAAGATG
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAG-TTGTTGAAGATG
** *
871673 ATTCAAGTCTTATACCCTCTGAAGAAATAGGG
65 -TTCGGGTCTTATACTCTCTGAAGAAATAGGG
871705 AGCGAACCCA
Statistics
Matches: 183, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
106 2 0.01
108 96 0.52
109 1 0.01
110 84 0.46
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (108 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGTTGTTGAAGATGT
TCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
Found at i:873156 original size:16 final size:16
Alignment explanation
Indices: 873135--873174 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
873125 ATAACGACGA
*
873135 AACCAGAGAAATCGAC
1 AACCAGAGAAATCCAC
873151 AACCAGAGAAATCCAC
1 AACCAGAGAAATCCAC
873167 AACCAGAG
1 AACCAGAG
873175 TCTAAAATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.28, G:0.17, T:0.05
Consensus pattern (16 bp):
AACCAGAGAAATCCAC
Found at i:876947 original size:11 final size:11
Alignment explanation
Indices: 876931--876955 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
876921 AACTTCCATA
876931 AGTCTTAACAT
1 AGTCTTAACAT
876942 AGTCTTAACAT
1 AGTCTTAACAT
876953 AGT
1 AGT
876956 TGACCCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (11 bp):
AGTCTTAACAT
Found at i:880931 original size:2 final size:2
Alignment explanation
Indices: 880924--880974 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
880914 ATTTTAAATC
880924 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
880966 TA TA TA TA T
1 TA TA TA TA T
880975 TGTAGCAACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:882029 original size:29 final size:29
Alignment explanation
Indices: 881985--882055 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
881975 GGCAGTATTG
* *
881985 TAATTTATTAGAAGTTTTGTCATTTATAA
1 TAATTTATAAAAAGTTTTGTCATTTATAA
* * *
882014 -ATATTTATAAAAAGTTTTTTCCTTTATCA
1 TA-ATTTATAAAAAGTTTTGTCATTTATAA
882043 TAATTTATAAAAA
1 TAATTTATAAAAA
882056 AGGTGTCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.03
29 33 0.94
30 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (29 bp):
TAATTTATAAAAAGTTTTGTCATTTATAA
Found at i:882103 original size:27 final size:28
Alignment explanation
Indices: 882033--882103 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
882023 AAAAGTTTTT
882033 TCCTTT-ATCATAATTTATAAAAAAGGTG
1 TCCTTTAAT-ATAATTTATAAAAAAGGTG
* * * * *
882061 TCCTTTATTTTTATTTAT-AAAATGTTG
1 TCCTTTAATATAATTTATAAAAAAGGTG
882088 TCCTTTAATATAATTT
1 TCCTTTAATATAATTT
882104 TTTTAATTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
27 20 0.59
28 13 0.38
29 1 0.03
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (28 bp):
TCCTTTAATATAATTTATAAAAAAGGTG
Found at i:884875 original size:32 final size:33
Alignment explanation
Indices: 884839--884918 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
884829 ATTTTGGGCA
*
884839 TTATATTCTGATATTTT-TTTTAGT-TCTTTACT
1 TTATATTCTAATATTTTATTTTAGTCT-TTTACT
* *
884871 TTATATTTTAATCTTTTATTTTAGTCTTTTACT
1 TTATATTCTAATATTTTATTTTAGTCTTTTACT
*
884904 TTATATTTTAA-ATTT
1 TTATATTCTAATATTT
884919 ATGCATTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 17 0.40
33 24 0.57
34 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (33 bp):
TTATATTCTAATATTTTATTTTAGTCTTTTACT
Done.