Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007932.1 Hibiscus syriacus cultivar Beakdansim tig00110342_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: 1116633
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:751030 original size:117 final size:118
Alignment explanation
Indices: 750816--751037 Score: 306
Period size: 117 Copynumber: 1.9 Consensus size: 118
750806 AAGCTTAACT
*
750816 TTTAAATCGAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTT
1 TTTAAATCGAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTT
*
750881 TAATATTTCATTTTGATTCTCAAAATCCATTTTAG-TTTCTATAATAAGTTTA
66 TAACATTTCATTTTGATTCTCAAAATCCATTTTAGCTTTCTATAATAAGTTTA
* ** * *
750933 TTTAATTCGAAAATTTCTTTTTCAA-ACTTTTCTTATTTCATTTTTGAAAGCTCTAACT-CTTTT
1 TTTAAATCGAAAATTTCTTTTTCAATAC-TTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT
* * * *
750996 TTCAACATTTCATTTTGATTTTCCAAGTCTATTTTAGCTTTC
65 TT-AACATTTCATTTTGATTCTCAAAATCCATTTTAGCTTTC
751038 AAAAGAAGAT
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
116 8 0.09
117 79 0.87
118 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (118 bp):
TTTAAATCGAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTT
TAACATTTCATTTTGATTCTCAAAATCCATTTTAGCTTTCTATAATAAGTTTA
Found at i:755430 original size:133 final size:131
Alignment explanation
Indices: 755225--755755 Score: 552
Period size: 133 Copynumber: 4.0 Consensus size: 131
755215 TGAATCAAAA
* * * * * * * *
755225 TTTTCTAGATCTAATCTTCCCTGAAGAGAAATGTAATAAATCTGCCCCAATTCATTCATCCTTGA
1 TTTTCTAGATTTGATCTTCCCTGAAGAGAAGTGGAACAAATCTACCCCAATTCAATCTTCCTTGA
* * * *
755290 AGAGCAGCATAATGAATCAAAACTTTCTAGATCCGATCTTCCCTAAAGAGAAGTGGAACGTATCC
66 AGAGCAGCA-AATGAATCAAAACTTTCTAGATCTGATCTTCCCTGAAGAGAAGTGGAGCATATCC
755355 AT
130 AT
* * * * * * * *
755357 TTTCCCTAGATTTGATATTCCTTAAAGAGAAGTGGAATAAATATACCCCGATTCAATCTTCCATG
1 TTT-TCTAGATTTGATCTTCCCTGAAGAGAAGTGGAACAAATCTACCCCAATTCAATCTTCCTTG
* *
755422 AAGAGCAGCAGAATGAATCAAAACTTTCTAGATATGATCTTCCCTGAATA-ACAGTGGAGCATAT
65 AAGAGCAGCA-AATGAATCAAAACTTTCTAGATCTGATCTTCCCTGAAGAGA-AGTGGAGCATAT
*
755486 CCTTT
128 CC-AT
* * * * *
755491 TTTTCTAGATTTAATCTTCCCTGAAGAGCAGTGCAACAAATCTA-CCCGATTCAATCTTTCTTGA
1 TTTTCTAGATTTGATCTTCCCTGAAGAGAAGTGGAACAAATCTACCCCAATTCAATCTTCCTTGA
* * * * *
755555 AGAGCAGCGAAATGAATCAAAATTTTCCAGATCTGGTCTTCACTGAAGAGTAGTGGAGCATATCC
66 AGAGCAGC-AAATGAATCAAAACTTTCTAGATCTGATCTTCCCTGAAGAGAAGTGGAGCATATCC
755620 AT
130 AT
* *
755622 TTTTC-AGATTTGATCTTCCCTGAAGAGCAGTGGAGCAAATCTACCCCAATTCAATCTTCCCTT-
1 TTTTCTAGATTTGATCTTCCCTGAAGAGAAGTGGAACAAATCTACCCCAATTCAATCTT-CCTTG
* ** * * * * *
755685 AA-AGTAGTGGAGTGAGTCAAAACTTTCCAAATCTGATCTTCCCTGAAGAGCAGT-GAGCATATC
65 AAGAGCAG-CAAATGAATCAAAACTTTCTAGATCTGATCTTCCCTGAAGAGAAGTGGAGCATATC
*
755748 CCT
129 CAT
755751 TTTTC
1 TTTTC
755756 ATATTCGATT
Statistics
Matches: 334, Mismatches: 57, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
129 16 0.05
130 76 0.23
131 21 0.06
132 80 0.24
133 137 0.41
134 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (131 bp):
TTTTCTAGATTTGATCTTCCCTGAAGAGAAGTGGAACAAATCTACCCCAATTCAATCTTCCTTGA
AGAGCAGCAAATGAATCAAAACTTTCTAGATCTGATCTTCCCTGAAGAGAAGTGGAGCATATCCA
T
Found at i:755797 original size:129 final size:130
Alignment explanation
Indices: 755439--755807 Score: 343
Period size: 130 Copynumber: 2.8 Consensus size: 130
755429 GCAGAATGAA
* * * * * * * **
755439 TCAAAACTTTCTAGATATGATCTTCCCTGAATAACAGTGGAGCATATCCTTTTTTTCTAGATTTA
1 TCAAAACTTTCCAAATCTGATCTTCACTGAAGAGCAGTGGAGCATATCC-ATTTTTC-AGATTCG
* * * * * * *
755504 ATCTTCCCTGAAGAGCAGTGCAA-CAAATCTA-CCCGATTCAATCTT-TCTTGAAGAGCAGCGAA
64 ATCTTCCCTGAAGAGCAGTG-AAGCAAACCAACCCCAATTCAATCTTCCCTT-AA-AGTAGTGGA
* *
755566 ATGAA
126 GTGAG
* * * * *
755571 TCAAAATTTTCCAGATCTGGTCTTCACTGAAGAGTAGTGGAGCATATCCATTTTTCAGATTTGAT
1 TCAAAACTTTCCAAATCTGATCTTCACTGAAGAGCAGTGGAGCATATCCATTTTTCAGATTCGAT
* * *
755636 CTTCCCTGAAGAGCAGTGGAGCAAATCTACCCCAATTCAATCTTCCCTTAAAGTAGTGGAGTGAG
66 CTTCCCTGAAGAGCAGTGAAGCAAACCAACCCCAATTCAATCTTCCCTTAAAGTAGTGGAGTGAG
* * *
755701 TCAAAACTTTCCAAATCTGATCTTCCCTGAAGAGCAGT-GAGCATATCCCTTTTTCATATTCGAT
1 TCAAAACTTTCCAAATCTGATCTTCACTGAAGAGCAGTGGAGCATATCCATTTTTCAGATTCGAT
* * ** *
755765 -TATCTCTGAAGAGTAGTGAATTAAACCAACCCCAATTCTATCT
66 CT-TCCCTGAAGAGCAGTGAAGCAAACCAACCCCAATTCAATCT
755808 GAAGTCGAGT
Statistics
Matches: 199, Mismatches: 34, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
128 1 0.01
129 57 0.29
130 76 0.38
131 21 0.11
132 44 0.22
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (130 bp):
TCAAAACTTTCCAAATCTGATCTTCACTGAAGAGCAGTGGAGCATATCCATTTTTCAGATTCGAT
CTTCCCTGAAGAGCAGTGAAGCAAACCAACCCCAATTCAATCTTCCCTTAAAGTAGTGGAGTGAG
Found at i:755912 original size:43 final size:44
Alignment explanation
Indices: 755848--755962 Score: 151
Period size: 43 Copynumber: 2.6 Consensus size: 44
755838 CTGAAGAGTC
* * *
755848 ATAAATATATTATATAATTTTGAAATATGGTTTTTGAAA-TAAT
1 ATAAATATATTATATAGTTTTGAAATATGATTTTCGAAATTAAT
*
755891 ATAAATATATTATATAGTTTTGAAATTTTGATTTTCGAAATTAAT
1 ATAAATATATTATATAGTTTTGAAA-TATGATTTTCGAAATTAAT
* *
755936 ATAAATATTATTTTATAGTTTGGAAAT
1 ATAAATA-TATTATATAGTTTTGAAAT
755963 CAAGAATTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
43 24 0.38
44 11 0.17
45 12 0.19
46 16 0.25
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.48
Consensus pattern (44 bp):
ATAAATATATTATATAGTTTTGAAATATGATTTTCGAAATTAAT
Found at i:757210 original size:32 final size:32
Alignment explanation
Indices: 757174--757238 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
757164 GGAGATGAAT
757174 TAGTTTATGGGTTTCTGGTGAGTAAGGGCGTC
1 TAGTTTATGGGTTTCTGGTGAGTAAGGGCGTC
*
757206 TAGTTTATGGGTTTCTGGTGAGTAAGGGGGTC
1 TAGTTTATGGGTTTCTGGTGAGTAAGGGCGTC
757238 T
1 T
757239 TTTAGGAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.15, C:0.08, G:0.38, T:0.38
Consensus pattern (32 bp):
TAGTTTATGGGTTTCTGGTGAGTAAGGGCGTC
Found at i:768245 original size:4 final size:4
Alignment explanation
Indices: 768233--768280 Score: 89
Period size: 4 Copynumber: 12.2 Consensus size: 4
768223 TTTATGTGTG
768233 TGTA T-TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
768280 T
1 T
768281 ATCTTTATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 3 0.07
4 40 0.93
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:771344 original size:50 final size:50
Alignment explanation
Indices: 771286--771398 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 50
771276 TTAGTAGAAA
* * * *
771286 AGCGCGCCCCCTGCACCGCGCTATATGCTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGATATACGCTGATCTGACGCCACGTGGGTAT
* *
771336 AGCGCGCCCCCTGCCCCGCGATATACGGTGATCTGACGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGATATACGCTGATCTGACGCCACGTGGGTAT
*
771386 AACGCGCCCCCTG
1 AGCGCGCCCCCTG
771399 ATCCTCGCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.15, C:0.37, G:0.29, T:0.19
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGATATACGCTGATCTGACGCCACGTGGGTAT
Found at i:771411 original size:50 final size:49
Alignment explanation
Indices: 771288--771413 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 49
771278 AGTAGAAAAG
* * * *
771288 CGCGCCCCCTGCACCGCGCTATATGCTGATTTGGCGCCACGTGGGTATAG
1 CGCGCCCCCTG-ACCGCGCTATACGCTGATCTGACGCCACGTGGGTATAA
* * *
771338 CGCGCCCCCTGCCCCGCGATATACGGTGATCTGACGCCACGTGGGTATAA
1 CGCGCCCCCTG-ACCGCGCTATACGCTGATCTGACGCCACGTGGGTATAA
*
771388 CGCGCCCCCTGATCCTCGCTATACGC
1 CGCGCCCCCTGA-CCGCGCTATACGC
771414 CACGTAGGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.20
Consensus pattern (49 bp):
CGCGCCCCCTGACCGCGCTATACGCTGATCTGACGCCACGTGGGTATAA
Found at i:771778 original size:3 final size:3
Alignment explanation
Indices: 771770--771892 Score: 189
Period size: 3 Copynumber: 41.7 Consensus size: 3
771760 TTTTTATCCA
* *
771770 TAT TAT TAT TAT TAG TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
771819 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
771865 TA- TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
771893 AATATACATA
Statistics
Matches: 110, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
2 6 0.05
3 101 0.92
4 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:772403 original size:21 final size:21
Alignment explanation
Indices: 772379--772419 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
772369 GAGACAAGAG
*
772379 ACAGAGAACGAAAAAAAAAAA
1 ACAGAGAAAGAAAAAAAAAAA
*
772400 ACAGAGAAAGGAAAAAAAAA
1 ACAGAGAAAGAAAAAAAAAA
772420 CAAATATACC
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:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (21 bp):
ACAGAGAAAGAAAAAAAAAAA
Found at i:774029 original size:18 final size:17
Alignment explanation
Indices: 774006--774055 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
773996 TTCTTTTCAA
774006 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
774023 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
774041 ATGTTTTATTTATTT
1 ATTTTTTATTTATTT
774056 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.04
17 12 0.44
18 13 0.48
19 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:777414 original size:14 final size:15
Alignment explanation
Indices: 777384--777416 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
777374 TTATTATTTT
777384 ATTTATTAAGATAAA
1 ATTTATTAAGATAAA
*
777399 ATTTATTAA-TTAAA
1 ATTTATTAAGATAAA
777413 ATTT
1 ATTT
777417 GAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTATTAAGATAAA
Found at i:784685 original size:11 final size:10
Alignment explanation
Indices: 784669--784738 Score: 68
Period size: 11 Copynumber: 6.3 Consensus size: 10
784659 GAGAAAAGAA
784669 AAAAAAAGAAG
1 AAAAAAA-AAG
784680 AAAAAAAGAAG
1 AAAAAAA-AAG
784691 AAAAAAAATAG
1 AAAAAAAA-AG
784702 AAAATGAAAAAG
1 AAAA--AAAAAG
784714 AAAAAAAAAAG
1 -AAAAAAAAAG
*
784725 AGAAGAAAAAG
1 A-AAAAAAAAG
784736 AAA
1 AAA
784739 GGGGGTCAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
10 4 0.08
11 39 0.74
12 2 0.04
13 8 0.15
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:786070 original size:83 final size:83
Alignment explanation
Indices: 785763--786069 Score: 521
Period size: 83 Copynumber: 3.7 Consensus size: 83
785753 CATTAAATGA
785763 AAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATTTGTCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
785827 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTTAG
*
785846 AAGATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
785911 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
* *
785929 AAGATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TAGCAG
1 AAGATGAATTTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAG
**
785993 AACCAATCATTGAATTGGG
65 AACCAATCATTGAATTTAG
786012 AAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AAGATGAATTTGTCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
786070 TGGTAAGAAC
Statistics
Matches: 216, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
82 2 0.01
83 213 0.99
84 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
AAGATGAATTTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAATTTAG
Found at i:787251 original size:117 final size:115
Alignment explanation
Indices: 786804--787564 Score: 999
Period size: 114 Copynumber: 6.6 Consensus size: 115
786794 ATTCAAATCT
*
786804 ATCATTTGATGGATTATCTTTGCCAGGTAAAGTTCATAATGAGAAGAA--CTCATCTGAAGAAGG
1 ATCATTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTCTCATCTGAAGAAGG
* *
786867 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTC
* * * *
786917 ATCAAATTGATGGATTATCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--CTCATTTGAAGAA
1 ATC-ATTTGATGGATTATCTTTGCCAG-GTAGAGTTCATAATGAGAAGAACTCTCATCTGAAGAA
* * * * *
786979 TGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCCGAATCC
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTC
* * *
787031 ATCATTTGATGGATCAGTCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACT-T-ATCTGAAGAA
1 ATCATTTGATGGATTA-TCTTTGCCAG-GTAGAGTTCATAATGAGAAGAACTCTCATCTGAAGAA
* *
787093 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTC
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTC
*
787145 ATCAAGTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATC-ATTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTC-TCATCTGAAGAA
* *
787210 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTC
*
787262 ATCAAGTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATC-ATTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTC-TCATCTGAAGAA
* * *
787327 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTC
* * *
787379 ATCATTTGATGGATCAACATTG-CAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCATTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTC-TCATCTGAAGAAG
* * *
787443 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
65 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTC
* * ** * *
787494 ATCATTTGATGGATCATCATCCCCAGCAG-AAAGTTCATAATGAGAAGAA--ATCATCTGAAGAA
1 ATCATTTGATGGATTATCTTTGCCAG--GTAGAGTTCATAATGAGAAGAACTCTCATCTGAAGAA
*
787556 AG-AGAAGAA
64 GGAAGAAGAA
787565 TTTATTCAAT
Statistics
Matches: 598, Mismatches: 36, Indels: 28
0.90 0.05 0.04
Matches are distributed among these distances:
113 23 0.04
114 233 0.39
115 126 0.21
116 19 0.03
117 196 0.33
118 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (115 bp):
ATCATTTGATGGATTATCTTTGCCAGGTAGAGTTCATAATGAGAAGAACTCTCATCTGAAGAAGG
AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTC
Found at i:787707 original size:3 final size:3
Alignment explanation
Indices: 787699--787835 Score: 229
Period size: 3 Copynumber: 45.7 Consensus size: 3
787689 TTTTTATCCA
* * *
787699 TAT TAT TAT TAT TAG TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
787747 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
787795 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
787836 AATATATATT
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 124 1.00
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:788365 original size:20 final size:19
Alignment explanation
Indices: 788331--788371 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
788321 AGAGACAGAG
788331 ACAGAGAACGAAAAAAAAA
1 ACAGAGAACGAAAAAAAAA
* *
788350 ACAGAGAAAGGAAAAAAAA
1 ACAGAGAACGAAAAAAAAA
788369 ACA
1 ACA
788372 AATATACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (19 bp):
ACAGAGAACGAAAAAAAAA
Found at i:789297 original size:20 final size:21
Alignment explanation
Indices: 789260--789300 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
789250 GATATTTTTA
**
789260 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
789281 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
789301 ACATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:793229 original size:35 final size:34
Alignment explanation
Indices: 793144--793230 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
793134 ATTTGATATT
*
793144 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
793178 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
793216 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
793231 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:793462 original size:15 final size:15
Alignment explanation
Indices: 793442--793486 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
793432 ACTCCTCGCT
793442 GTCATCATCATCGTC
1 GTCATCATCATCGTC
*
793457 GTCATCACCATCGTC
1 GTCATCATCATCGTC
* * *
793472 ATCGTCGTCATCGTC
1 GTCATCATCATCGTC
793487 ATCGTCGTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.18, C:0.36, G:0.16, T:0.31
Consensus pattern (15 bp):
GTCATCATCATCGTC
Found at i:793473 original size:21 final size:21
Alignment explanation
Indices: 793444--793498 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
793434 TCCTCGCTGT
*
793444 CATCATCATCGTCGTCATCAC
1 CATCGTCATCGTCGTCATCAC
**
793465 CATCGTCATCGTCGTCATCGT
1 CATCGTCATCGTCGTCATCAC
*
793486 CATCGTCGTCGTC
1 CATCGTCATCGTC
793499 CTGAGCAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.31
Consensus pattern (21 bp):
CATCGTCATCGTCGTCATCAC
Found at i:793487 original size:15 final size:15
Alignment explanation
Indices: 793465--793495 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
793455 TCGTCATCAC
793465 CATCGTCATCGTCGT
1 CATCGTCATCGTCGT
793480 CATCGTCATCGTCGT
1 CATCGTCATCGTCGT
793495 C
1 C
793496 GTCCTGAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.35, G:0.19, T:0.32
Consensus pattern (15 bp):
CATCGTCATCGTCGT
Found at i:793829 original size:18 final size:18
Alignment explanation
Indices: 793806--793847 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
793796 TGAAGGCGGC
793806 GGCGGCAGCATCTGGTAA
1 GGCGGCAGCATCTGGTAA
793824 GGCGGCAGCATCTGGTAA
1 GGCGGCAGCATCTGGTAA
793842 GGCGGC
1 GGCGGC
793848 GGCGGCGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.24, G:0.43, T:0.14
Consensus pattern (18 bp):
GGCGGCAGCATCTGGTAA
Found at i:793829 original size:21 final size:21
Alignment explanation
Indices: 793803--793850 Score: 75
Period size: 18 Copynumber: 2.4 Consensus size: 21
793793 AGGTGAAGGC
793803 GGCGGCGGCAGCATCTGGTAA
1 GGCGGCGGCAGCATCTGGTAA
793824 ---GGCGGCAGCATCTGGTAA
1 GGCGGCGGCAGCATCTGGTAA
793842 GGCGGCGGC
1 GGCGGCGGC
793851 GGCGGCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 18 0.75
21 6 0.25
ACGTcount: A:0.17, C:0.25, G:0.46, T:0.12
Consensus pattern (21 bp):
GGCGGCGGCAGCATCTGGTAA
Found at i:793902 original size:18 final size:18
Alignment explanation
Indices: 793879--793954 Score: 116
Period size: 18 Copynumber: 4.2 Consensus size: 18
793869 AAAGGTGATG
793879 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
* *
793897 GCGGCATCATACATGGTT
1 GCGGCATCATATATGGCT
*
793915 GCGGCATCATATATGGTT
1 GCGGCATCATATATGGCT
*
793933 GCGGCATCATATATAGCT
1 GCGGCATCATATATGGCT
793951 GCGG
1 GCGG
793955 TGGCTGCTGG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:795809 original size:12 final size:10
Alignment explanation
Indices: 795795--795836 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
795785 ACCTTAAAAA
*
795795 GAGAGTATTT
1 GAGAGAATTT
795805 GAGAGAAATTT
1 GAGAG-AATTT
795816 -AGAGAATTT
1 GAGAGAATTT
795825 GAGAGAAATTT
1 GAGAG-AATTT
795836 G
1 G
795837 TGTGATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 5 0.18
10 13 0.46
11 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:795824 original size:20 final size:20
Alignment explanation
Indices: 795796--795835 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
795786 CCTTAAAAAG
*
795796 AGAGTATTTGAGAGAAATTT
1 AGAGAATTTGAGAGAAATTT
795816 AGAGAATTTGAGAGAAATTT
1 AGAGAATTTGAGAGAAATTT
795836 GTGTGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (20 bp):
AGAGAATTTGAGAGAAATTT
Found at i:795834 original size:11 final size:11
Alignment explanation
Indices: 795801--795836 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
795791 AAAAGAGAGT
795801 ATTTGAGAGAA
1 ATTTGAGAGAA
795812 ATTT-AGAG-A
1 ATTTGAGAGAA
795821 ATTTGAGAGAA
1 ATTTGAGAGAA
795832 ATTTG
1 ATTTG
795837 TGTGATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 8 0.35
11 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:796062 original size:50 final size:50
Alignment explanation
Indices: 795982--796082 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
795972 GGGGGTGCGT
* * * * * *
795982 TATACCCACGTGGCGCCAGATTACCGTATATCGCGGGGCAGGGGGCGTGC
1 TATACCCACGTGGCGCCAAATCAACATATATCACGGGGCAGGGGGCATGC
* *
796032 TATACCCACGTGGCGCCAAATCAACATATATCATGGTGCAGGGGGCATGC
1 TATACCCACGTGGCGCCAAATCAACATATATCACGGGGCAGGGGGCATGC
796082 T
1 T
796083 TTTTCTGTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.23, C:0.27, G:0.31, T:0.20
Consensus pattern (50 bp):
TATACCCACGTGGCGCCAAATCAACATATATCACGGGGCAGGGGGCATGC
Found at i:796263 original size:17 final size:17
Alignment explanation
Indices: 796238--796287 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
796228 TTTTCTTTTC
796238 TTTTATTATATATATAT
1 TTTTATTATATATATAT
* * * *
796255 TTTTCTTATGTACATTT
1 TTTTATTATATATATAT
796272 TTTTATTATATATATA
1 TTTTATTATATATATA
796288 CGTTTATTTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTATTATATATATAT
Found at i:796471 original size:26 final size:23
Alignment explanation
Indices: 796434--796501 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 23
796424 TTTAATCATC
*
796434 TTTTTATTTTTACTTTATTTT-TGT
1 TTTTTATATTTA-TTTATTTTAT-T
796458 TCCTTTTATATTTATTTTATTTTATT
1 T--TTTTATATTTA-TTTATTTTATT
796484 TTTTTATATTTATTTATT
1 TTTTTATATTTATTTATT
796502 CATTGGTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.15
24 12 0.31
26 20 0.51
27 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTTTATATTTATTTATTTTATT
Found at i:796495 original size:14 final size:14
Alignment explanation
Indices: 796466--796558 Score: 59
Period size: 14 Copynumber: 6.4 Consensus size: 14
796456 GTTCCTTTTA
796466 TATTTATTTTATTT
1 TATTTATTTTATTT
796480 TATTT-TTTTATATT
1 TATTTATTTTAT-TT
*
796494 TATTTATTCATTGGTTGT
1 TATTTATT--TT-ATT-T
**
796512 ATATAGATTTTA-TT
1 -TATTTATTTTATTT
796526 TATTTA-TTTA-TT
1 TATTTATTTTATTT
796538 TATTTCATTTTATTTT
1 TATTT-ATTTTA-TTT
796554 TATTT
1 TATTT
796559 TTGTTCCTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
12 11 0.18
13 11 0.18
14 17 0.27
15 3 0.05
16 7 0.11
17 5 0.08
18 2 0.03
19 6 0.10
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (14 bp):
TATTTATTTTATTT
Found at i:796537 original size:12 final size:14
Alignment explanation
Indices: 796518--796552 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
796508 TTGTATATAG
796518 ATTTTATTTATTT-
1 ATTTTATTTATTTC
796531 A-TTTATTTATTTC
1 ATTTTATTTATTTC
796544 ATTTTATTT
1 ATTTTATTT
796553 TTATTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 11 0.55
13 2 0.10
14 7 0.35
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTATTTATTTC
Found at i:796555 original size:32 final size:32
Alignment explanation
Indices: 796466--796558 Score: 82
Period size: 36 Copynumber: 2.8 Consensus size: 32
796456 GTTCCTTTTA
*
796466 TATTTATTTTATTTTATTTTT-TTATATTTATT
1 TATTTATTTCATTTTATTTTTATT-TATTTATT
* **
796498 TATTCA-TTGGTTGTATATAGATTTTATTTATTTATT
1 TATTTATTTCATT-T-TAT---TTTTATTTATTTATT
796534 TATTTATTTCATTTTATTTTTATTT
1 TATTTATTTCATTTTATTTTTATTT
796559 TTGTTCCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
31 4 0.08
32 14 0.29
33 3 0.06
35 3 0.06
36 18 0.38
37 6 0.12
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (32 bp):
TATTTATTTCATTTTATTTTTATTTATTTATT
Found at i:796659 original size:18 final size:17
Alignment explanation
Indices: 796631--796671 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
796621 TTTCTCTATC
*
796631 TTATT-TATTTTTTTTT
1 TTATTGTATTTTTATTT
796647 TTACTTGTATTTTTATTT
1 TTA-TTGTATTTTTATTT
796665 TTATTGT
1 TTATTGT
796672 TCTCTAACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 6 0.27
18 13 0.59
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (17 bp):
TTATTGTATTTTTATTT
Found at i:802167 original size:15 final size:16
Alignment explanation
Indices: 802131--802167 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
802121 CCCCCGGTTT
802131 CAACTCCTCCTCCTAG
1 CAACTCCTCCTCCTAG
*
802147 C-TCTCCTCCTCC-AG
1 CAACTCCTCCTCCTAG
802161 CAACTCC
1 CAACTCC
802168 CCCACCAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
14 3 0.17
15 14 0.78
16 1 0.06
ACGTcount: A:0.16, C:0.54, G:0.05, T:0.24
Consensus pattern (16 bp):
CAACTCCTCCTCCTAG
Found at i:802201 original size:30 final size:32
Alignment explanation
Indices: 802144--802203 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
802134 CTCCTCCTCC
*
802144 TAGCTCTCCTCCTCCAGCAACTCCCCCACCAGT
1 TAGCTCTCCTCCTCCAGC-ACTACCCCACCAGT
*
802177 TAGCTCTCCTCCTCCTGC-C-ACCCCACC
1 TAGCTCTCCTCCTCCAGCACTACCCCACC
802204 TCCCGCCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 1 0.04
33 17 0.68
ACGTcount: A:0.15, C:0.55, G:0.08, T:0.22
Consensus pattern (32 bp):
TAGCTCTCCTCCTCCAGCACTACCCCACCAGT
Found at i:802233 original size:30 final size:30
Alignment explanation
Indices: 802199--802311 Score: 118
Period size: 30 Copynumber: 3.8 Consensus size: 30
802189 TCCTGCCACC
* * *
802199 CCACCTCCCGCCACTCCTCCACCGGCTTCT
1 CCACCTCCCGCAACCCCTCCACCCGCTTCT
* *
802229 CCACCTCCCGCAACCCCACCACCCTCTTCT
1 CCACCTCCCGCAACCCCTCCACCCGCTTCT
* * * **
802259 CCTCCTCCCGCTACCCCTCCACCTGCAACT
1 CCACCTCCCGCAACCCCTCCACCCGCTTCT
* *
802289 CCTCCTCCCGCAACCCCACCACC
1 CCACCTCCCGCAACCCCTCCACC
802312 TGCTCCTTTG
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.14, C:0.63, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCTCCCGCAACCCCTCCACCCGCTTCT
Found at i:802247 original size:15 final size:15
Alignment explanation
Indices: 802229--802308 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
802219 ACCGGCTTCT
802229 CCACCTCCCGCAACC
1 CCACCTCCCGCAACC
* * ** *
802244 CCACCACCCTCTTCT
1 CCACCTCCCGCAACC
* *
802259 CCTCCTCCCGCTACC
1 CCACCTCCCGCAACC
* * * *
802274 CCTCCACCTGCAACT
1 CCACCTCCCGCAACC
*
802289 CCTCCTCCCGCAACC
1 CCACCTCCCGCAACC
802304 CCACC
1 CCACC
802309 ACCTGCTCCT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.15, C:0.64, G:0.05, T:0.16
Consensus pattern (15 bp):
CCACCTCCCGCAACC
Found at i:803726 original size:21 final size:21
Alignment explanation
Indices: 803702--803744 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
803692 TTTTCTTCAC
*
803702 CCTTCTTTGTCTCTTC-TTCTT
1 CCTTCTTTATC-CTTCATTCTT
*
803723 CCTTTTTTATCCTTCATTCTT
1 CCTTCTTTATCCTTCATTCTT
803744 C
1 C
803745 TTTCCCTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.05, C:0.33, G:0.02, T:0.60
Consensus pattern (21 bp):
CCTTCTTTATCCTTCATTCTT
Found at i:803740 original size:168 final size:168
Alignment explanation
Indices: 803462--803793 Score: 524
Period size: 168 Copynumber: 2.0 Consensus size: 168
803452 TTAACCATTG
** * * *
803462 TTCAAAATAAAGGTTGAAAACCAATTAAGGTTGGTGATCTCATGTCTGGCAATCTTCTCTCTCTT
1 TTCAAAATAAAGGTTGAAAACCAATTAAGACTGGTGATCTCACGTCTGGAAACCTTCTCTCTCTT
* * *
803527 TTTTTACCCTTCTTTGTGTCTTCTTCTTCCTTTTTCATCCTTCATTCTTCCTTCCCTTGTAGTCT
66 TTTTTACCCTTCTTTGTCTCTTCTTCTTCCTTTTTCATCCTTCATTCTTCCTTCCCTTGCAATCT
*
803592 CCAAAGGTGAAAACTTGGTGGTCTTTTAAACCTAATTC
131 CCAAAGGTGAAAACTTGGTGATCTTTTAAACCTAATTC
*
803630 TTCAAAATAAAGGTTGAAAACCAATTGAGACTGGTGATCTCACGTCTGGAAACCTTCTCT-T-TT
1 TTCAAAATAAAGGTTGAAAACCAATTAAGACTGGTGATCTCACGTCTGGAAACCTTCTCTCTCTT
* *
803693 TTTCTTCACCCTTCTTTGTCTCTTCTTCTTCCTTTTTTATCCTTCATTCTTCTTTCCCTTGCAAT
66 TTT-TT-ACCCTTCTTTGTCTCTTCTTCTTCCTTTTTCATCCTTCATTCTTCCTTCCCTTGCAAT
803758 CTCCAAAGGTGAAAACTTGGTGATCTTTTAAACCTA
129 CTCCAAAGGTGAAAACTTGGTGATCTTTTAAACCTA
803794 GTTCAGTGTT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
166 5 0.03
167 3 0.02
168 142 0.95
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (168 bp):
TTCAAAATAAAGGTTGAAAACCAATTAAGACTGGTGATCTCACGTCTGGAAACCTTCTCTCTCTT
TTTTTACCCTTCTTTGTCTCTTCTTCTTCCTTTTTCATCCTTCATTCTTCCTTCCCTTGCAATCT
CCAAAGGTGAAAACTTGGTGATCTTTTAAACCTAATTC
Found at i:804634 original size:20 final size:19
Alignment explanation
Indices: 804605--804643 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
804595 CTTTATTAGT
*
804605 CAGGGGGTATCTATACCAA
1 CAGGGGGTATCGATACCAA
804624 CAGGTGGGTATCGATACCAA
1 CAGG-GGGTATCGATACCAA
804644 AGGATTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (19 bp):
CAGGGGGTATCGATACCAA
Found at i:804673 original size:20 final size:20
Alignment explanation
Indices: 804631--804681 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
804621 CAACAGGTGG
* *
804631 GTATCGATACCAAAGGATTA
1 GTATTGATACCAAAGGATCA
* *
804651 GTATTGATACTAAAGGGTCA
1 GTATTGATACCAAAGGATCA
*
804671 GTATTGGTACC
1 GTATTGATACC
804682 CACAAATAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (20 bp):
GTATTGATACCAAAGGATCA
Found at i:808921 original size:2 final size:2
Alignment explanation
Indices: 808914--808963 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
808904 ATATTTGTAA
808914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
808956 AT AT AT AT
1 AT AT AT AT
808964 CAGTAAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:809326 original size:14 final size:14
Alignment explanation
Indices: 809307--809335 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
809297 CGATTTCCTG
809307 TCTATATTCGGAGT
1 TCTATATTCGGAGT
809321 TCTATATTCGGAGT
1 TCTATATTCGGAGT
809335 T
1 T
809336 TTTACTGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (14 bp):
TCTATATTCGGAGT
Found at i:809353 original size:36 final size:36
Alignment explanation
Indices: 809304--809373 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
809294 AGCCGATTTC
* *
809304 CTGTCTATATTCGGAGTTCTATATTCGGAGTTTTTA
1 CTGTCTACATTCGGAGTCCTATATTCGGAGTTTTTA
*
809340 CTGTCTACGTTCGGAGTCCTATATTCGGAGTTTT
1 CTGTCTACATTCGGAGTCCTATATTCGGAGTTTT
809374 ACCACCTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.44
Consensus pattern (36 bp):
CTGTCTACATTCGGAGTCCTATATTCGGAGTTTTTA
Found at i:812635 original size:15 final size:14
Alignment explanation
Indices: 812615--812659 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
812605 AAATAAAATT
812615 ATAATTAAATTTAAA
1 ATAATT-AATTTAAA
812630 ATAATTTAATATTAAA
1 ATAA-TTAAT-TTAAA
*
812646 ATAAATAATTTAAA
1 ATAATTAATTTAAA
812660 TGTTAAGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.19
15 11 0.41
16 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATTAATTTAAA
Found at i:816940 original size:24 final size:23
Alignment explanation
Indices: 816874--816934 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
816864 AACTATGATA
* *
816874 AAAGA-AAGAAGAAAACATATCGT
1 AAAGATAA-AAGAAAACGTATCAT
*
816897 AAAGGTAAAAGAAAACGTATCAT
1 AAAGATAAAAGAAAACGTATCAT
816920 AAAGATAAAA-AAAAC
1 AAAGATAAAAGAAAAC
816935 ATGTATAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 5 0.15
23 26 0.79
24 2 0.06
ACGTcount: A:0.64, C:0.08, G:0.15, T:0.13
Consensus pattern (23 bp):
AAAGATAAAAGAAAACGTATCAT
Found at i:818441 original size:28 final size:28
Alignment explanation
Indices: 818409--818501 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 28
818399 AAATTACCTC
818409 TTTATTTTGTTTTAACTTATTAAATAT-T
1 TTTATTTT-TTTTAACTTATTAAATATAT
*
818437 TTTATTTTTTTCTTAATTTATTAAATATAT
1 TTTA-TTTTTT-TTAACTTATTAAATATAT
*
818467 TTTATTTTTTTTAA--TATAAAAATATAT
1 TTTATTTTTTTTAACTTAT-TAAATATAT
*
818494 ATTATTTT
1 TTTATTTT
818502 ATCTTTATCA
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
26 3 0.05
27 15 0.26
28 10 0.17
29 25 0.43
30 5 0.09
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTATTTTTTTTAACTTATTAAATATAT
Found at i:818452 original size:29 final size:29
Alignment explanation
Indices: 818409--818478 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
818399 AAATTACCTC
*
818409 TTTATTTTGTTTTAACTTATTAAATAT-T
1 TTTATTTTTTTTTAACTTATTAAATATAT
*
818437 TTTATTTTTTTCTTAATTTATTAAATATAT
1 TTTATTTTTTT-TTAACTTATTAAATATAT
818467 TTTATTTTTTTT
1 TTTATTTTTTTT
818479 AATATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 10 0.26
29 16 0.42
30 12 0.32
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (29 bp):
TTTATTTTTTTTTAACTTATTAAATATAT
Found at i:819811 original size:17 final size:18
Alignment explanation
Indices: 819780--819814 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
819770 ACACGAAATC
819780 AAAAATCGAAGCTCGAAA
1 AAAAATCGAAGCTCGAAA
*
819798 AAAAATTGAA-CTCGAAA
1 AAAAATCGAAGCTCGAAA
819815 CATTCTCAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAAATCGAAGCTCGAAA
Found at i:825608 original size:15 final size:15
Alignment explanation
Indices: 825577--825628 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
825567 GTATAGTATT
825577 TATTTATTTATTCATA
1 TATTTA-TTATTCATA
825593 TATTTATTATT--TA
1 TATTTATTATTCATA
825606 TATTT-TTATTCACTAA
1 TATTTATTATTCA-T-A
825622 TATTTAT
1 TATTTAT
825629 ATGAAATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
12 5 0.16
13 7 0.23
15 6 0.19
16 12 0.39
17 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATTATTCATA
Found at i:825613 original size:27 final size:29
Alignment explanation
Indices: 825573--825628 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
825563 ATTAGTATAG
825573 TATTTATTTATTTATTCA-T-ATATTTAT
1 TATTTATTTATTTATTCACTAATATTTAT
825600 TATTTATATT-TTTATTCACTAATATTTAT
1 TATTTAT-TTATTTATTCACTAATATTTAT
825629 ATGAAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 15 0.58
28 3 0.12
29 8 0.31
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATTTATTTATTCACTAATATTTAT
Found at i:827088 original size:32 final size:31
Alignment explanation
Indices: 827052--827128 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
827042 TCGGGCCGTG
*
827052 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
827084 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
827115 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
827129 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:828018 original size:21 final size:21
Alignment explanation
Indices: 828007--828076 Score: 115
Period size: 22 Copynumber: 3.3 Consensus size: 21
827997 ACGGTCAACG
*
828007 TCGGGTCGGTCAATGGTCGGG
1 TCGGGTCGGTCAACGGTCGGG
828028 TCGGGTCGGTC-ACGGTCGGG
1 TCGGGTCGGTCAACGGTCGGG
828048 TCGGGTCGGGTCAACGGTCGGG
1 TCGGGTC-GGTCAACGGTCGGG
828070 TCGGGTC
1 TCGGGTC
828077 AGACCGGTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 15 0.33
21 15 0.33
22 16 0.35
ACGTcount: A:0.07, C:0.23, G:0.49, T:0.21
Consensus pattern (21 bp):
TCGGGTCGGTCAACGGTCGGG
Found at i:828029 original size:5 final size:5
Alignment explanation
Indices: 828021--828076 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
828011 GTCGGTCAAT
* *
828021 GGTCG GGTCG GGTC- GGTCAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC-G GGTCG GGTCG GGTCG GGTC--G GGTCG
828068 GGTCG GGTC
1 GGTCG GGTC
828077 AGACCGGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
4 4 0.09
5 32 0.73
6 4 0.09
7 4 0.09
ACGTcount: A:0.05, C:0.23, G:0.52, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:828060 original size:42 final size:42
Alignment explanation
Indices: 827992--828076 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
827982 AAGAAAGTCA
*
827992 CGGTCACGGTCAACGTCGGGTCGGTCAATGGTCGGGTCGGGT
1 CGGTCACGGTCAACGTCGGGTCGGTCAACGGTCGGGTCGGGT
**
828034 CGGTCACGGTC-GGGTCGGGTCGGGTCAACGGTCGGGTCGGGT
1 CGGTCACGGTCAACGTCGGGTC-GGTCAACGGTCGGGTCGGGT
828076 C
1 C
828077 AGACCGGTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 8 0.21
42 31 0.79
ACGTcount: A:0.09, C:0.25, G:0.46, T:0.20
Consensus pattern (42 bp):
CGGTCACGGTCAACGTCGGGTCGGTCAACGGTCGGGTCGGGT
Found at i:828091 original size:9 final size:9
Alignment explanation
Indices: 828073--828170 Score: 63
Period size: 9 Copynumber: 10.3 Consensus size: 9
828063 GGTCGGGTCG
*
828073 GGTCAGACC
1 GGTCAAACC
828082 GGTCAAACC
1 GGTCAAACC
* *
828091 GATTCAGACC
1 G-GTCAAACC
828101 GGTC-AACC
1 GGTCAAACC
*
828109 GGTTCGAACC
1 GG-TCAAACC
*
828119 GGTTGAAACC
1 GG-TCAAACC
828129 GGTCAAACC
1 GGTCAAACC
828138 GGTCAGAACC
1 GGTCA-AACC
* *
828148 AGTTGAAAACC
1 -GGT-CAAACC
*
828159 GGTTAAACC
1 GGTCAAACC
828168 GGT
1 GGT
828171 TTCCAGCAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
8 5 0.07
9 32 0.45
10 27 0.38
11 6 0.08
12 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:835211 original size:7 final size:7
Alignment explanation
Indices: 835199--835226 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
835189 GTCAAAGAAA
835199 GTCAACG
1 GTCAACG
835206 GTCAACG
1 GTCAACG
835213 GTCAACG
1 GTCAACG
835220 GTCAACG
1 GTCAACG
835227 TCGGGTCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (7 bp):
GTCAACG
Found at i:835238 original size:15 final size:16
Alignment explanation
Indices: 835218--835253 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
835208 CAACGGTCAA
835218 CGGTCAAC-GTCGGGT
1 CGGTCAACAGTCGGGT
835233 CGGTCAACAGTCGGGT
1 CGGTCAACAGTCGGGT
835249 CGGTC
1 CGGTC
835254 GGGTCAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.14, C:0.28, G:0.39, T:0.19
Consensus pattern (16 bp):
CGGTCAACAGTCGGGT
Found at i:835286 original size:16 final size:16
Alignment explanation
Indices: 835218--835293 Score: 58
Period size: 16 Copynumber: 5.2 Consensus size: 16
835208 CAACGGTCAA
835218 CGGTCAAC-GTCGGGT
1 CGGTCAACGGTCGGGT
*
835233 CGGTCAACAGTCGGGT
1 CGGTCAACGGTCGGGT
* **
835249 CGGTC--GGGTC--AA
1 CGGTCAACGGTCGGGT
*
835261 CGGTC--GGGTCGGGT
1 CGGTCAACGGTCGGGT
835275 CGGTCAACGGTCGGGT
1 CGGTCAACGGTCGGGT
835291 CGG
1 CGG
835294 GTCAGACCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
12 10 0.20
14 8 0.16
15 8 0.16
16 23 0.47
ACGTcount: A:0.12, C:0.25, G:0.45, T:0.18
Consensus pattern (16 bp):
CGGTCAACGGTCGGGT
Found at i:835294 original size:21 final size:21
Alignment explanation
Indices: 835211--835296 Score: 120
Period size: 21 Copynumber: 4.0 Consensus size: 21
835201 CAACGGTCAA
**
835211 CGGTCAACGGTCAACGTCGGGT
1 CGGTCAACGGTC-GGGTCGGGT
*
835233 CGGTCAACAGTCGGGTC-GGT
1 CGGTCAACGGTCGGGTCGGGT
835253 CGGGTCAACGGTCGGGTCGGGT
1 C-GGTCAACGGTCGGGTCGGGT
835275 CGGTCAACGGTCGGGTCGGGT
1 CGGTCAACGGTCGGGTCGGGT
835296 C
1 C
835297 AGACCGTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
20 4 0.07
21 39 0.67
22 15 0.26
ACGTcount: A:0.13, C:0.26, G:0.43, T:0.19
Consensus pattern (21 bp):
CGGTCAACGGTCGGGTCGGGT
Found at i:835338 original size:19 final size:18
Alignment explanation
Indices: 835316--835366 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
835306 ACCGATTCAG
*
835316 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGG-TCAA
*
835335 ACCGGTTGAAACCGGTCAA
1 ACCGG-TCAAACCGGTCAA
835354 ACCGGTCAGAACC
1 ACCGGTCA-AACC
835367 AGTTGAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.07
19 17 0.63
20 8 0.30
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.14
Consensus pattern (18 bp):
ACCGGTCAAACCGGTCAA
Found at i:835348 original size:29 final size:31
Alignment explanation
Indices: 835316--835389 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
835306 ACCGATTCAG
*
835316 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCAGTTGAAA
835345 ACCGGTCAAACCGG-TCAGAACCAGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCAGTTGAAA
*
835375 ACC-GTTAAACCGGTT
1 ACCGGTCAAACCGGTT
835390 TCCAGCAGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 2 0.05
29 32 0.80
30 6 0.15
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCAGTTGAAA
Found at i:847159 original size:222 final size:223
Alignment explanation
Indices: 846569--847341 Score: 1182
Period size: 222 Copynumber: 3.5 Consensus size: 223
846559 GATTCAAATC
*
846569 CATCATAT-GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCAT-TCGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
846633 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATC
65 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATC
* * * *
846698 AGCTTTTCCATAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
130 AGCTTTTCCA-GAAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
846763 GAGAAGAATTTGTTCAACCTTTTGCTCAAATC
194 GAGAAGAACTTGTTCAACC-TTTGCT-GAATT
* *
846795 CATCA-TCTGATGGATCAGCTTTTCCATAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTC-GATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
846859 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATC
65 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATC
846924 AGCTTTTCCAGAAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATG
130 AGCTTTTCCAGAAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATG
846989 AGAAGAACTTGTTCAACCTTTGCTGAATT
195 AGAAGAACTTGTTCAACCTTTGCTGAATT
* *
847018 CATCATTCGATGGATCAGCATTTCCAG-AAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * ** *
847082 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAT-TCGATGGATC
66 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCT-GATGGATC
*
847146 AGCATTTCCAGAAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATG
130 AGCTTTTCCAGAAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *
847211 AGAAGAACTTGTTTAACATTTTGCTTGAATT
195 AGAAGAACTTGTTCAAC-CTTTGC-TGAATT
* * ****
847242 CATCATTCGATGGATCAACATTGCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG-AGG-
1 CATCATTCGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
847305 AGAAG-AGTTCATAATGAGAAGAATTTGTTCAACCTTT
66 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTT
847342 GCATGACTCT
Statistics
Matches: 514, Mismatches: 26, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
221 1 0.00
222 203 0.39
223 35 0.07
224 43 0.08
225 97 0.19
226 135 0.26
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (223 bp):
CATCATTCGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCA
GCTTTTCCAGAAGAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTTGCTGAATT
Found at i:847205 original size:112 final size:112
Alignment explanation
Indices: 846562--847341 Score: 1146
Period size: 113 Copynumber: 7.0 Consensus size: 112
846552 TAGCAAAGAT
*
846562 TCAAATCCATCATAT-GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCAT-TCGATGGATCAGCTTTTCCAG-AAGAGTTCATAATGAGAAGAACTCATCTG
*
846626 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
846675 TCAAATCCATCA-TCTGATGGATCAGCTTTTCCATAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTC-GATGGATCAGCTTTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTG
*
846739 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
846788 TCAAATCCATCA-TCTGATGGATCAGCTTTTCCATAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTC-GATGGATCAGCTTTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTG
*
846852 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
846901 TCAAATCCATCA-TCTGATGGATCAGCTTTTCCAGAAGAGTTCATAATGAGAAGAACACATCTGA
1 TCAAATCCATCATTC-GATGGATCAGCTTTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGA
*
846965 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTTGC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
847012 T-GAATTCATCATTCGATGGATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACACATCTGAA
1 TCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAA
*
847076 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * *
847123 TTGAATTCATCATTCGATGGATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACACATCTGAA
1 TCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAA
* * *
847188 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACATTTTGC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * * * **
847235 TTGAATTCATCATTCGATGGATCAACATTGCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTCGATGGATCAGCTTTTCCAG-AAGAGTTCATAATGAGAAGAACTCATCTGA
847300 AG-AGG-AGAAG-AGTTCATAATGAGAAGAATTTGTTCAACCTTT
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
847342 GCATGACTCT
Statistics
Matches: 641, Mismatches: 19, Indels: 17
0.95 0.03 0.03
Matches are distributed among these distances:
110 127 0.20
111 20 0.03
112 211 0.33
113 283 0.44
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (112 bp):
TCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:848666 original size:15 final size:15
Alignment explanation
Indices: 848635--848686 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
848625 GTATAGTATT
848635 TATTTATTTATTCATA
1 TATTTA-TTATTCATA
848651 TATTTATTATT--TA
1 TATTTATTATTCATA
848664 TATTT-TTATTCACTAA
1 TATTTATTATTCA-T-A
848680 TATTTAT
1 TATTTAT
848687 ATGAAATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
12 5 0.16
13 7 0.23
15 6 0.19
16 12 0.39
17 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATTATTCATA
Found at i:848671 original size:27 final size:29
Alignment explanation
Indices: 848631--848686 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
848621 ATTAGTATAG
848631 TATTTATTTATTTATTCA-T-ATATTTAT
1 TATTTATTTATTTATTCACTAATATTTAT
848658 TATTTATATT-TTTATTCACTAATATTTAT
1 TATTTAT-TTATTTATTCACTAATATTTAT
848687 ATGAAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 15 0.58
28 3 0.12
29 8 0.31
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATTTATTTATTCACTAATATTTAT
Found at i:853405 original size:24 final size:24
Alignment explanation
Indices: 853376--853455 Score: 142
Period size: 24 Copynumber: 3.3 Consensus size: 24
853366 TAGAAATTCG
*
853376 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCTTAAAATTTGAGCTCA
853400 ATTGAAGCTTAAAATTTGAGCTCA
1 ATTGAAGCTTAAAATTTGAGCTCA
*
853424 ATTGAAGCTTAAAATTTGAGCACA
1 ATTGAAGCTTAAAATTTGAGCTCA
853448 ATTGAAGC
1 ATTGAAGC
853456 GAAAGAATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (24 bp):
ATTGAAGCTTAAAATTTGAGCTCA
Found at i:854701 original size:24 final size:24
Alignment explanation
Indices: 854656--854704 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
854646 CACTCACCAG
*
854656 TGTTTAATAATTAATATAATATTT
1 TGTTTAATAATTAAGATAATATTT
*
854680 TGTTTAATAATATAAGCT-ATATTT
1 TGTTTAATAAT-TAAGATAATATTT
854704 T
1 T
854705 TTAATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (24 bp):
TGTTTAATAATTAAGATAATATTT
Found at i:855488 original size:35 final size:35
Alignment explanation
Indices: 855431--855505 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
855421 AAAATACTTC
* *
855431 AATTTAGGGTTTATAATATAATTGAAGTATTTTGA
1 AATTTAGGATTTAGAATATAATTGAAGTATTTTGA
* *
855466 AATTTAGGATTTAGAATGTAATTGAAGTATTTTGG
1 AATTTAGGATTTAGAATATAATTGAAGTATTTTGA
855501 AATTT
1 AATTT
855506 TGAACATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (35 bp):
AATTTAGGATTTAGAATATAATTGAAGTATTTTGA
Found at i:859384 original size:20 final size:21
Alignment explanation
Indices: 859336--859391 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
859326 AATATAAGGA
*
859336 TAAATTATATA-TTTAGTCAC
1 TAAATTATTTATTTTAGTCAC
*
859356 TAAACTATTTATTTTAGTCAC
1 TAAATTATTTATTTTAGTCAC
*
859377 -CAATTATTCTATTTT
1 TAAATTATT-TATTTT
859392 TTATAATCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.50
Consensus pattern (21 bp):
TAAATTATTTATTTTAGTCAC
Found at i:863033 original size:14 final size:14
Alignment explanation
Indices: 863016--863042 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
863006 ATATTAAATA
863016 ATAAATATAATTAT
1 ATAAATATAATTAT
863030 ATAAATATAATTA
1 ATAAATATAATTA
863043 AAAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATATAATTAT
Found at i:864149 original size:19 final size:20
Alignment explanation
Indices: 864125--864167 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
864115 AGAAGTCAAA
*
864125 TTCGCAAAGCG-CTTTTATT
1 TTCGCAAAGCGAATTTTATT
*
864144 TTCGCAACGCGAATTTTATT
1 TTCGCAAAGCGAATTTTATT
864164 TTCG
1 TTCG
864168 AATTCGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (20 bp):
TTCGCAAAGCGAATTTTATT
Found at i:864311 original size:22 final size:22
Alignment explanation
Indices: 864286--864336 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
864276 CTACGGCGAC
864286 ATCCGTCCACATCTCCGACGAA
1 ATCCGTCCACATCTCCGACGAA
* *
864308 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCACATCTCCGACGAA
864330 ATCCGTC
1 ATCCGTC
864337 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
ATCCGTCCACATCTCCGACGAA
Found at i:864760 original size:21 final size:20
Alignment explanation
Indices: 864736--864791 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
864726 AATATGTAAA
*
864736 TCGCATTGCAATTTTCCAAAT
1 TCGCGTTGCAATTTTCC-AAT
* *
864757 TCGCGTTGCGATTTT-CATT
1 TCGCGTTGCAATTTTCCAAT
864776 TCGCGTTGCAATTTTC
1 TCGCGTTGCAATTTTC
864792 ATTTTCGCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.53
20 1 0.03
21 13 0.43
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCAATTTTCCAAT
Found at i:864780 original size:19 final size:20
Alignment explanation
Indices: 864756--864810 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
864746 ATTTTCCAAA
864756 TTCGCGTTGCGATTTTCA-T
1 TTCGCGTTGCGATTTTCATT
*
864775 TTCGCGTTGCAATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
864795 TTCGCGTTACGATTTT
1 TTCGCGTTGCGATTTT
864811 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.13, C:0.20, G:0.18, T:0.49
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:866513 original size:21 final size:21
Alignment explanation
Indices: 866486--866535 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
866476 GTTAGTGGAG
* *
866486 TTACGTGATGAGGTCAATGCT
1 TTACGTGAGGAGGTCAATACT
*
866507 TTGCGTGAGGAGGTCAATACT
1 TTACGTGAGGAGGTCAATACT
866528 TTACGTGA
1 TTACGTGA
866536 AGATAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAATACT
Found at i:866576 original size:21 final size:21
Alignment explanation
Indices: 866552--866601 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
866542 TGGTGCATGT
*
866552 CGTGATGAGGTA-CGGTCTTTA
1 CGTGATGAGGTAGAGGT-TTTA
*
866573 CGTGGTGAGGTAGAGGTTTTA
1 CGTGATGAGGTAGAGGTTTTA
*
866594 CGCGATGA
1 CGTGATGA
866602 CAATGGTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGAGGTTTTA
Found at i:866632 original size:21 final size:21
Alignment explanation
Indices: 866608--866656 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
866598 ATGACAATGG
*
866608 TACTTTACGTGGTAAGGTATC
1 TACTTTACATGGTAAGGTATC
*
866629 TACTTTACATGGTGAGGTATC
1 TACTTTACATGGTAAGGTATC
866650 TACTTTA
1 TACTTTA
866657 AGTGATGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (21 bp):
TACTTTACATGGTAAGGTATC
Found at i:866665 original size:21 final size:21
Alignment explanation
Indices: 866608--866668 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
866598 ATGACAATGG
* *
866608 TACTTTACGTGGTAAGGTATC
1 TACTTTAAGTGGTGAGGTATC
866629 TACTTTACA-TGGTGAGGTATC
1 TACTTTA-AGTGGTGAGGTATC
*
866650 TACTTTAAGTGATGAGGTA
1 TACTTTAAGTGGTGAGGTA
866669 GCCGCTCTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (21 bp):
TACTTTAAGTGGTGAGGTATC
Found at i:866989 original size:18 final size:19
Alignment explanation
Indices: 866949--867000 Score: 79
Period size: 18 Copynumber: 2.7 Consensus size: 19
866939 CCTGTCATTG
866949 TTCAAGAGGCCTCTCCTACCA
1 TTCAAGAGGCC-C-CCTACCA
866970 TTCAAGAGGCCCCC-ACCA
1 TTCAAGAGGCCCCCTACCA
866988 TTCAAGAGGCCCC
1 TTCAAGAGGCCCC
867001 TGTCATAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.55
19 2 0.06
20 1 0.03
21 11 0.35
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.17
Consensus pattern (19 bp):
TTCAAGAGGCCCCCTACCA
Found at i:868559 original size:20 final size:20
Alignment explanation
Indices: 868534--868578 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
868524 AAGGTACACT
*
868534 TTCGCAACGTGAAAATCAAA
1 TTCGCAACGCGAAAATCAAA
*
868554 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAATCAAA
868574 TTCGC
1 TTCGC
868579 GTTGCAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
TTCGCAACGCGAAAATCAAA
Found at i:868817 original size:18 final size:18
Alignment explanation
Indices: 868794--868829 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
868784 AAGCCGGTTG
868794 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
868812 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
868830 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:869572 original size:34 final size:34
Alignment explanation
Indices: 869529--869654 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
869519 TTCGTCCTAC
*
869529 TAGGATTCAAACTCCTAAAAATAGGATATAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
869563 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
869598 GCTAGGATTC-AA-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
869628 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
869655 CCACAAGCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
28 6 0.08
29 2 0.03
30 3 0.04
31 13 0.17
34 38 0.51
35 3 0.04
36 2 0.03
37 8 0.11
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:869961 original size:24 final size:23
Alignment explanation
Indices: 869932--869986 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
869922 TTTCATGTAA
*
869932 TATTTTTTACATTT-TATGTATTT
1 TATTTTTTAC-TTTATATATATTT
*
869955 TCTTTTTTACTTTAGTATATATTT
1 TATTTTTTACTTTA-TATATATTT
869979 TATTTTTT
1 TATTTTTT
869987 TTAGATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.11
23 9 0.33
24 15 0.56
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (23 bp):
TATTTTTTACTTTATATATATTT
Found at i:870041 original size:40 final size:37
Alignment explanation
Indices: 869993--870106 Score: 113
Period size: 40 Copynumber: 3.0 Consensus size: 37
869983 TTTTTTAGAT
*
869993 TATATATATAAATATTATTTTTTATTATCAATTTTATTAA
1 TATATATATAAATATTACTTTTTATTAT--ATTTTATT-A
* * *
870033 TTTATATATATATATTTACTTTTT-TTATTTTTTATTA
1 TATATATATAAATA-TTACTTTTTATTATATTTTATTA
* * *
870070 TATATATATTATTTTTACTTTTTATTATTATTTTATT
1 TATATATATAAATATTACTTTTTATTA-TATTTTATT
870107 TTTTTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
36 9 0.15
37 13 0.21
38 15 0.25
40 16 0.26
41 8 0.13
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (37 bp):
TATATATATAAATATTACTTTTTATTATATTTTATTA
Found at i:870062 original size:27 final size:27
Alignment explanation
Indices: 870032--870164 Score: 78
Period size: 27 Copynumber: 4.8 Consensus size: 27
870022 AATTTTATTA
*
870032 ATTTATATATATATATTTACTTTTTTT
1 ATTTATATATATTTATTTACTTTTTTT
* *
870059 ATTTTTTATTATATATATATTA-TTTTTACTT
1 A-TTTATA-TATATTTAT-TTACTTTTT--TT
*
870090 -TTTAT-TATTATTTTATTT-TTTTTTTT
1 ATTTATATA-TA-TTTATTTACTTTTTTT
* * * *
870116 ATTTCTATATTTTTTTTTATTTTTTTT
1 ATTTATATATATTTATTTACTTTTTTT
*
870143 ATTT-TTTATATTTATTTTACTT
1 ATTTATATATATTTA-TTTACTT
870165 ACTATTTTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 24
0.71 0.08 0.20
Matches are distributed among these distances:
26 15 0.18
27 26 0.31
28 16 0.19
29 22 0.26
30 3 0.04
31 2 0.02
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (27 bp):
ATTTATATATATTTATTTACTTTTTTT
Found at i:870076 original size:33 final size:37
Alignment explanation
Indices: 869991--870106 Score: 121
Period size: 38 Copynumber: 3.1 Consensus size: 37
869981 TTTTTTTTAG
* * * *
869991 ATTATATATATA-AATATTATTTTTTATTATCAATTTT
1 ATTATATATATATTATTTTACTTTTTATTAT-TATTTT
*
870028 ATTAATTTATATATATATATTTACTTTTT-TTATT-TTTT
1 ATT-ATATATATAT-TAT-TTTACTTTTTATTATTATTTT
870066 ATTATATATATATTATTTTTACTTTTTATTATTATTTT
1 ATTATATATATATTA-TTTTACTTTTTATTATTATTTT
870104 ATT
1 ATT
870107 TTTTTTTTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
36 12 0.18
37 18 0.27
38 22 0.33
40 6 0.09
41 8 0.12
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (37 bp):
ATTATATATATATTATTTTACTTTTTATTATTATTTT
Found at i:870125 original size:47 final size:46
Alignment explanation
Indices: 870052--870160 Score: 123
Period size: 47 Copynumber: 2.4 Consensus size: 46
870042 ATATATTTAC
*
870052 TTTTTT-TATTTTTTATTATATATATA-TTATTTTTACTTTTTATTA
1 TTTTTTATATTTTTTTTTATATATATATTTATTTTTA-TTTTTATTA
* * * * *
870097 TTATTTTATTTTTTTTTTTATTTCTATATTTTTTTTTATTTTTTTTA
1 TT-TTTTATATTTTTTTTTATATATATATTTATTTTTATTTTTATTA
*
870144 TTTTTTATATTTATTTT
1 TTTTTTATATTTTTTTT
870161 ACTTACTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.04
46 17 0.32
47 26 0.49
48 8 0.15
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (46 bp):
TTTTTTATATTTTTTTTTATATATATATTTATTTTTATTTTTATTA
Found at i:870266 original size:15 final size:15
Alignment explanation
Indices: 870248--870277 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
870238 TATTTATTTC
870248 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
870263 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
870278 ACATGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:873289 original size:6 final size:7
Alignment explanation
Indices: 873273--873352 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
873263 ACAAAAAGGC
873273 AAAAAGA
1 AAAAAGA
873280 AAAAAGA
1 AAAAAGA
873287 AAAGAAGCA
1 AAA-AAG-A
873296 AAAAAGGA
1 AAAAA-GA
873304 AAAAAGGA
1 AAAAA-GA
*
873312 AAAAA-C
1 AAAAAGA
* *
873318 AAGAACA
1 AAAAAGA
873325 AAAAAGA
1 AAAAAGA
* *
873332 AAGAACA
1 AAAAAGA
873339 AAAATA-A
1 AAAA-AGA
873346 AAAAAGA
1 AAAAAGA
873353 GGACAAAAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
6 5 0.08
7 29 0.49
8 20 0.34
9 5 0.08
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:873308 original size:31 final size:29
Alignment explanation
Indices: 873260--873348 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 29
873250 TGATTCAATC
*
873260 AGAAC-AAAAAGGCAAAAAGAAAAAAGAAA
1 AGAACAAAAAAGGAAAAAAGAAAAAA-AAA
* *
873289 AGAAGCAAAAAAGGAAAAAAGGAAAAAACA
1 AGAA-CAAAAAAGGAAAAAAGAAAAAAAAA
* *
873319 AGAACAAAAAA-GAAAGAACAAAAATAAAA
1 AGAACAAAAAAGGAAAAAAGAAAAA-AAAA
873348 A
1 A
873349 AAGAGGACAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 10 0.20
29 15 0.30
30 7 0.14
31 18 0.36
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.01
Consensus pattern (29 bp):
AGAACAAAAAAGGAAAAAAGAAAAAAAAA
Found at i:873316 original size:8 final size:8
Alignment explanation
Indices: 873265--873316 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
873255 CAATCAGAAC
*
873265 AAAAAGGC
1 AAAAAGGA
873273 AAAAA-GA
1 AAAAAGGA
873280 AAAAA-GA
1 AAAAAGGA
*
873287 AAAGAAGCA
1 AAA-AAGGA
873296 AAAAAGGA
1 AAAAAGGA
873304 AAAAAGGA
1 AAAAAGGA
873312 AAAAA
1 AAAAA
873317 CAAGAACAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
7 11 0.28
8 24 0.62
9 4 0.10
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAGGA
Found at i:873328 original size:14 final size:14
Alignment explanation
Indices: 873260--873342 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 14
873250 TGATTCAATC
*
873260 AGAACAAAAAGGCAA
1 AGAACAAAAAAG-AA
*
873275 A-AAGAAAAAAGAAA
1 AGAACAAAAAAG-AA
873289 AGAAGCAAAAAAGGAA
1 AGAA-CAAAAAA-GAA
* * *
873305 AAAAGGAAAAAA-CA
1 AGAA-CAAAAAAGAA
873319 AGAACAAAAAAGAA
1 AGAACAAAAAAGAA
873333 AGAACAAAAA
1 AGAACAAAAA
873343 TAAAAAAAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
13 6 0.11
14 26 0.48
15 3 0.06
16 18 0.33
17 1 0.02
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (14 bp):
AGAACAAAAAAGAA
Found at i:874427 original size:18 final size:18
Alignment explanation
Indices: 874404--874439 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
874394 TCAACATCAA
* *
874404 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
874422 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
874440 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:874962 original size:36 final size:36
Alignment explanation
Indices: 874919--875164 Score: 278
Period size: 36 Copynumber: 7.0 Consensus size: 36
874909 ACTAGAAGAG
*
874919 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
874955 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
874991 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
* * *
875027 ------ATAT-TTGA-ATATGTTT-TCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCTC-TTGAAACAAA
* * * * *
875056 TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAA
*
875093 TTTTTTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
* *
875128 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
875165 ATCTTTGAAT
Statistics
Matches: 176, Mismatches: 20, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.02
29 18 0.10
30 2 0.01
35 6 0.03
36 111 0.63
37 35 0.20
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
Found at i:875002 original size:21 final size:21
Alignment explanation
Indices: 874944--875005 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
874934 GACAGTTTCC
874944 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCTCT
* *
874965 CTTGAGAC--A----GTTTCT
1 CTTGAAACAAATTTTGTCTCT
874980 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCTCT
875001 CTTGA
1 CTTGA
875006 GACAGTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 12 0.39
17 1 0.03
19 1 0.03
21 17 0.55
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (21 bp):
CTTGAAACAAATTTTGTCTCT
Found at i:875057 original size:65 final size:66
Alignment explanation
Indices: 874975--875306 Score: 228
Period size: 65 Copynumber: 4.9 Consensus size: 66
874965 CTTGAGACAG
*
874975 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATAT-TTGAATAT
1 TTTCT-TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATATCTTGAATAT
875039 GT
65 GT
* * * ** *
875041 TTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTTTCTCTCTT
1 TTTCTTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AA------AATATCTT
*
875106 GAGACA-G-
59 GA-ATATGT
** * * *
875113 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCT-TTGAATT
1 TTTCT-TTGAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATATCTTGAATA
*
875176 TAT
64 TGT
* ** * * *
875179 TTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAA-ATCTTCAA-AT
1 TTTCTTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAATATCTTGAATAT
*
875242 TT
65 GT
* * * * *
875244 ATTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAACAGATATCTT
1 -TTT-CTTTGAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA-A-ATATCTT
875307 TGAGATCGTT
Statistics
Matches: 207, Mismatches: 37, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
64 1 0.00
65 77 0.37
66 28 0.14
67 10 0.05
68 33 0.16
69 1 0.00
70 5 0.02
72 14 0.07
73 36 0.17
74 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (66 bp):
TTTCTTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATATCTTGAATATG
T
Found at i:875070 original size:101 final size:102
Alignment explanation
Indices: 874945--875127 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 102
874935 ACAGTTTCCC
* *
874945 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACTAAATTTTGTCTCTCTTGAGAC
875009 AGTTTCTCTTGAAACAAAATATTTGAATATGTTTTCT
66 AGTTTCTCTTGAAACAAAATATTTGAATATGTTTTCT
* * * *
875046 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTTTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACTAAATTTTGTCTCTCTTGAGAC
875111 AGTTTCTCTTGAAACAA
66 AGTTTCTCTTGAAACAA
875128 TTTTCGTCTA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
101 39 0.52
102 36 0.48
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (102 bp):
TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACTAAATTTTGTCTCTCTTGAGAC
AGTTTCTCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:875172 original size:138 final size:137
Alignment explanation
Indices: 874923--875227 Score: 423
Period size: 138 Copynumber: 2.2 Consensus size: 137
874913 GAAGAGTTTT
*
874923 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
* * * * ** *
874988 AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATATTTGAATATGTTTTCTTTGAAAC
66 AAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCCCCTAAAAC
875053 AAATTTC
131 AAATTTC
** * * *
875060 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTTTCTCTCTTGAGACAGTTTCTCTTGAAA
1 GTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
* *
875125 C-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTAAA
65 CAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCCCCTAAA
*
875189 ACAAATTTT
129 ACAAATTTC
* *
875198 GTCTCCCTTGAGACAGTTACTCTTGAAACA
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACA
875228 CAAAATCTTC
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
137 32 0.22
138 115 0.78
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (137 bp):
GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
AAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATATTTCCCCTAAAAC
AAATTTC
Found at i:875256 original size:67 final size:67
Alignment explanation
Indices: 875113--875295 Score: 219
Period size: 68 Copynumber: 2.7 Consensus size: 67
875103 CTTGAGACAG
* * ** * **
875113 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAAT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAAT
875175 TTA
65 TTA
* *
875178 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATT
875243 TA
66 TA
* * *
875245 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACA
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
875296 ACAGATATCT
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
65 31 0.31
66 8 0.08
67 29 0.29
68 32 0.32
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (67 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATT
TA
Found at i:876129 original size:105 final size:105
Alignment explanation
Indices: 875900--876453 Score: 655
Period size: 105 Copynumber: 5.3 Consensus size: 105
875890 GCCATCTGCG
* * *
875900 ATTTCAACTCCACGAC-AGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGA
1 ATTTCAACTTCACAACGA-AGGATAT--TGG-ACTCCAGACAACACAAGTTCAACTTCACAACGA
*
875964 AGGGA-CGACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* * **
876009 ATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
*
876074 ACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
876114 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
* *
876179 ACCGCTGCTTGTCAATAACAACTTCTTAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * *
876219 ATTTCAACTTCACAACAAAGGATATTGGAC-CCAAGACAGCACAAGCTCAACTTCACAGCGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACACAAGTTCAACTTCACAACGAAGG
* * *
876283 GGCGGCTGAC-TGTCAAC-A-AA-----CAATTTCGGAGCCA
65 GACCGCTG-CTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
876317 ATCTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
* * * ** *
876382 ACGGCTGGTTGTCAACAAACAA-TTTTCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCT-CAATTTCAGAGCCA
* * *
876423 ATTTCAACTTCACGACGGAGTATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
876454 TGGAACAATG
Statistics
Matches: 390, Mismatches: 41, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
98 82 0.21
99 1 0.00
100 1 0.00
101 2 0.01
103 2 0.01
104 3 0.01
105 191 0.49
106 82 0.21
107 5 0.01
109 20 0.05
110 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:877045 original size:34 final size:34
Alignment explanation
Indices: 877002--877127 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
876992 TTCGTCCTAC
* *
877002 TAGGATTCAAACTTCTAAAAATAGGATATAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
877036 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
877071 GCTAGGATTC-AA-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
877101 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
877128 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
28 6 0.08
29 2 0.03
30 3 0.04
31 13 0.18
34 37 0.50
35 3 0.04
36 2 0.03
37 8 0.11
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:877426 original size:23 final size:22
Alignment explanation
Indices: 877395--877456 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
877385 CTTTTCTTTT
877395 TTTTCATGTAATATTTTTTTTAC
1 TTTT-ATGTAATATTTTTTTTAC
*
877418 ATTTTATGT-ATTTTCTTTTTTAC
1 -TTTTATGTAATATT-TTTTTTAC
877441 -TTTA-GTATATATTTTT
1 TTTTATGTA-ATATTTTT
877457 ATTTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 2 0.06
21 7 0.21
22 8 0.24
23 12 0.36
24 4 0.12
ACGTcount: A:0.21, C:0.06, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTATGTAATATTTTTTTTAC
Found at i:877453 original size:24 final size:23
Alignment explanation
Indices: 877410--877455 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
877400 ATGTAATATT
*
877410 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTTTATATATTTTC
877433 TTTTTTAC-TTTAGTATATATTTT
1 TTTTTTACATTT--TATATATTTT
877456 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTACATTTTATATATTTTC
Found at i:877543 original size:9 final size:9
Alignment explanation
Indices: 877526--877655 Score: 82
Period size: 9 Copynumber: 13.4 Consensus size: 9
877516 TATATATATA
*
877526 TTTACTTTT
1 TTTATTTTT
877535 TTTATTTTT
1 TTTATTTTT
877544 TTTATTTTAT
1 TTTATTTT-T
*
877554 ATATATATTATT
1 -T-T-TATTTTT
877566 TTTACTTTTT
1 TTTA-TTTTT
877576 TATTATTATTTT
1 T-TTA-T-TTTT
877588 ATTTATTTTT
1 -TTTATTTTT
*
877598 TTTA-TTTC
1 TTTATTTTT
*
877606 TATATTTTT
1 TTTATTTTT
*
877615 TTTCTTTTT
1 TTTATTTTT
* *
877624 CTTCTTTTT
1 TTTATTTTT
877633 CTTTATTTTT
1 -TTTATTTTT
* *
877643 TATATTTAT
1 TTTATTTTT
877652 TTTA
1 TTTA
877656 CTTACTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
8 6 0.06
9 50 0.52
10 18 0.19
11 7 0.07
12 9 0.09
13 6 0.06
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTT
Found at i:877547 original size:40 final size:40
Alignment explanation
Indices: 877452--877590 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 40
877442 TTAGTATATA
* * *
877452 TTTTTATTTTTTTTA-GATTATATATATAAATATATTATTT
1 TTTTTATTTTTTTTATTATTATATATATATATAT-TTACTT
***
877492 TTTATTATCAGTTTTATTAATT-TATATATATATATTTACTT
1 TTT-TTATTTTTTTTATT-ATTATATATATATATATTTACTT
*
877533 TTTTTATTTTTTTTATT-TTATATATATATTATTTTTAC-T
1 TTTTTATTTTTTTTATTATTATATATATA-TATATTTACTT
877572 TTTTTATTATTATTTTATT
1 TTTTTATT-TT-TTTTATT
877591 TATTTTTTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
38 2 0.02
39 17 0.21
40 24 0.29
41 24 0.29
42 12 0.15
43 3 0.04
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.68
Consensus pattern (40 bp):
TTTTTATTTTTTTTATTATTATATATATATATATTTACTT
Found at i:877576 original size:25 final size:23
Alignment explanation
Indices: 877540--877623 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 23
877530 CTTTTTTTAT
*
877540 TTTTTTTA-TTTTATA-TATATA
1 TTTTTTTACTTTTTTATTATATA
877561 TTATTTTTACTTTTTTATTAT-TA
1 TT-TTTTTACTTTTTTATTATATA
* *
877584 TTTTATTTATTTTTTTTATTTCTATA
1 TTTT-TTTA-CTTTTTTA-TTATATA
*
877610 TTTTTTTTCTTTTT
1 TTTTTTTACTTTTT
877624 CTTCTTTTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
21 2 0.04
22 8 0.16
23 14 0.27
24 15 0.29
25 6 0.12
26 6 0.12
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTTACTTTTTTATTATATA
Found at i:877639 original size:54 final size:52
Alignment explanation
Indices: 877526--877655 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 52
877516 TATATATATA
877526 TTTACTTTTTTTATTTTTTTTATTTTATATATATATTATTTTTACTTTTTTAT
1 TTTA-TTTTTTTATTTTTTTTATTTTATATATATATTATTTTTACTTTTTTAT
* * * *
877579 TATTATTTTATTTATTTTTTTTATTTCTATATTTTTTTTCTTTTT-CTTCTTTT-T
1 T-TTATTTT-TTTATTTTTTTTATTT-TATATATATATTATTTTTACTT-TTTTAT
*
877633 CTTTATTTTTTATATTTATTTTA
1 -TTTATTTTTT-TATTTTTTTTA
877656 CTTACTATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
53 7 0.11
54 40 0.61
55 19 0.29
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (52 bp):
TTTATTTTTTTATTTTTTTTATTTTATATATATATTATTTTTACTTTTTTAT
Found at i:877683 original size:90 final size:90
Alignment explanation
Indices: 877530--877695 Score: 205
Period size: 90 Copynumber: 1.8 Consensus size: 90
877520 TATATATTTA
* *
877530 CTTTTTTTATTTTTTTTATTTTATATATATATTATTTTTACTTTTTTATTATTATTTTATTTAT-
1 CTTTTTTTATTTTTTTTATTTTATATATATATTATTCTTACTATTTTATTATTATTTTATTTATC
877594 TT-TTTTTATTTCTATATTTTTTTT
66 TTATTTTTATTTCTATATTTTTTTT
* * * * *
877618 CTTTTTCTTCTTTTTCTTTATTTTTTATATTTATT-TTACTTACTATTTTATCT-TTGTTTTCTT
1 CTTTTT-TTATTTTT-TTTATTTTATATATATATTATT-CTTACTATTTTAT-TATTATTTTATT
877681 TATCTTATTTTTATT
62 TATCTTATTTTTATT
877696 AATTTGTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
88 6 0.09
89 9 0.14
90 39 0.60
91 3 0.05
92 8 0.12
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.75
Consensus pattern (90 bp):
CTTTTTTTATTTTTTTTATTTTATATATATATTATTCTTACTATTTTATTATTATTTTATTTATC
TTATTTTTATTTCTATATTTTTTTT
Found at i:877757 original size:15 final size:15
Alignment explanation
Indices: 877739--877768 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
877729 AATTTATTTC
877739 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
877754 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
877769 ACATGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:880507 original size:16 final size:15
Alignment explanation
Indices: 880485--880523 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
880475 GAAATCATTG
880485 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
880501 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
880516 AAAAATTA
1 AAAAATTA
880524 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:880703 original size:20 final size:20
Alignment explanation
Indices: 880679--880787 Score: 82
Period size: 20 Copynumber: 5.4 Consensus size: 20
880669 ACTAAAACCT
*
880679 GTTGCGAAATTAAAATTCGT
1 GTTGCGAAATTAAAATTCGA
880699 GTTGCG-AATTCGAAAA-TCGA
1 GTTGCGAAATT--AAAATTCGA
** * *
880719 GTTGCGAAAACAAAATCCGC
1 GTTGCGAAATTAAAATTCGA
880739 GTTGCG-AATTCAGAAA-TCGA
1 GTTGCGAAATT-A-AAATTCGA
* *
880759 GTTGCGAATTTGAAATTCAGA
1 GTTGCGAAATTAAAATTC-GA
880780 GTTGCGAA
1 GTTGCGAA
880788 TTTGGAAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
19 13 0.19
20 34 0.49
21 22 0.32
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (20 bp):
GTTGCGAAATTAAAATTCGA
Found at i:880723 original size:40 final size:40
Alignment explanation
Indices: 880679--880799 Score: 136
Period size: 40 Copynumber: 3.0 Consensus size: 40
880669 ACTAAAACCT
*
880679 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAAATTAAAATTCGAGTTGCGAATTCGAAAATCGA
** * *
880719 GTTGCGAAAACAAAATCCGCGTTGCGAATTC-AGAAATCGA
1 GTTGCGAAATTAAAATTCGAGTTGCGAATTCGA-AAATCGA
* * *
880759 GTTGCGAATTTGAAATTCAGAGTTGCGAATTTGGAAAATCG
1 GTTGCGAAATTAAAATTC-GAGTTGCGAA-TTCGAAAATCG
880800 CAATGCAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.02
40 47 0.71
41 9 0.14
42 8 0.12
43 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (40 bp):
GTTGCGAAATTAAAATTCGAGTTGCGAATTCGAAAATCGA
Found at i:880820 original size:20 final size:20
Alignment explanation
Indices: 880797--880840 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
880787 ATTTGGAAAA
*
880797 TCGCAATGCAATTTACAGAT
1 TCGCAATGCAATTTACAAAT
** *
880817 TCGCGTTGCGATTTACAAAT
1 TCGCAATGCAATTTACAAAT
880837 TCGC
1 TCGC
880841 GTTGCGAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (20 bp):
TCGCAATGCAATTTACAAAT
Found at i:880841 original size:20 final size:20
Alignment explanation
Indices: 880807--880847 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
880797 TCGCAATGCA
*
880807 ATTTACAGATTCGCGTTGCG
1 ATTTACAAATTCGCGTTGCG
880827 ATTTACAAATTCGCGTTGCG
1 ATTTACAAATTCGCGTTGCG
880847 A
1 A
880848 ATTAGGAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (20 bp):
ATTTACAAATTCGCGTTGCG
Found at i:882717 original size:23 final size:23
Alignment explanation
Indices: 882691--882755 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
882681 CACCACAGCT
882691 CGTATAAATGCACCGAAGTGCCA
1 CGTATAAATGCACCGAAGTGCCA
* * *
882714 CGTATAATTGCATCGAAGTGCCG
1 CGTATAAATGCACCGAAGTGCCA
*
882737 CGTAGAAATGCACCGAAGT
1 CGTATAAATGCACCGAAGT
882756 TCCATATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTATAAATGCACCGAAGTGCCA
Found at i:890031 original size:65 final size:63
Alignment explanation
Indices: 889938--890060 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 63
889928 TCTCAAACGA
* * *
889938 AAAAAATTTCATAATGTCATAGGGGTACCGATACCCCCCAGTTGGGTACCGATACCCCCTTGAAC
1 AAAAAATTACATAATGTCATAGGGGTACCGATA--CCCCAGTAGAGTACCGATACCCCCTTGAAC
* * *
890003 AAAAAATTACATAATGT-TTTGAGGGTACCGATACCCCAGTAGAGTATCGATACCCCCT
1 AAAAAATTACATAATGTCATAG-GGGTACCGATACCCCAGTAGAGTACCGATACCCCCT
890061 AAAGGAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
63 22 0.43
64 2 0.04
65 27 0.53
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (63 bp):
AAAAAATTACATAATGTCATAGGGGTACCGATACCCCAGTAGAGTACCGATACCCCCTTGAAC
Found at i:891862 original size:23 final size:22
Alignment explanation
Indices: 891835--891924 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 22
891825 GTCTTATATG
*
891835 GCACTTCGGTGCATTTATACGCT
1 GCACTTCGGTGCAATTATACG-T
* *
891858 GCACTAT-GGTGCAATTCTACGAG
1 GCACT-TCGGTGCAATTATACG-T
* * *
891881 GTACTTCGGTGCAATTCTATGT
1 GCACTTCGGTGCAATTATACGT
*
891903 GGCACTTCGGTGCATTTATACG
1 -GCACTTCGGTGCAATTATACG
891925 AGCTGTGGTG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
22 1 0.02
23 51 0.96
24 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (22 bp):
GCACTTCGGTGCAATTATACGT
Done.