Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005801.1 Kokia drynarioides strain JFW-HI SEQ_120075, 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: 142643
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Warning! 13 characters in sequence are not A, C, G, or T
Found at i:2650 original size:29 final size:30
Alignment explanation
Indices: 2617--2714 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 30
2607 GGAGAATTTG
*
2617 GGGTCAAAATGTAATCTTAGAAAAATTCAA
1 GGGTCAAAATGTAATTTTAGAAAAATTCAA
** * *
2647 -GGTCAAAATGTAATTTTTTAAAAGTTTAA
1 GGGTCAAAATGTAATTTTAGAAAAATTCAA
* * * *
2676 GGGTTAAAATATAATTTTAGAAAAATTTAG
1 GGGTCAAAATGTAATTTTAGAAAAATTCAA
2706 GGGTCAAAA
1 GGGTCAAAA
2715 CATGATTTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 24 0.44
30 31 0.56
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTAGAAAAATTCAA
Found at i:4900 original size:48 final size:48
Alignment explanation
Indices: 4828--4920 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
4818 ACATTGAACT
** * *
4828 TCGCTTCATTGATTTGGTCTACTTCTCTATACCTCATCAGGAAGATGA
1 TCGCTTCATTGATTTAATCAACTTCTCTATACCTCATCAAGAAGATGA
*
4876 TCGCTTCATTGATTTAATCAACTTCTCTATATCTCATCAAGAAGA
1 TCGCTTCATTGATTTAATCAACTTCTCTATACCTCATCAAGAAGA
4921 CGAATTTGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (48 bp):
TCGCTTCATTGATTTAATCAACTTCTCTATACCTCATCAAGAAGATGA
Found at i:4986 original size:85 final size:85
Alignment explanation
Indices: 4839--5005 Score: 194
Period size: 85 Copynumber: 2.0 Consensus size: 85
4829 CGCTTCATTG
* * * *
4839 ATTTGGTCTACTTCTCTATACCTCATCAGGAAGATGATCGCTTCATTGATTTAATCAACTTCTCT
1 ATTTGGTCTACTTCTCTATACCTCAACAAGAAGATGACCGCTTCATTGATTTAACCAACTTCT-T
4904 A-TATCTCATCAAGAAGACGA
65 AGTATCTCATCAAGAAGACGA
* * * * * **
4924 ATTTGGTTTACTTCTCTATATCTCAACAAGAAGATGACCTCTTTATT-ACTTTGACCCGCTTCTT
1 ATTTGGTCTACTTCTCTATACCTCAACAAGAAGATGACCGCTTCATTGA-TTTAACCAACTTCTT
*
4988 AGTATCTCATCAGGAAGA
65 AGTATCTCATCAAGAAGA
5006 TGAGGTTTGA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 3 0.04
85 65 0.96
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCTATACCTCAACAAGAAGATGACCGCTTCATTGATTTAACCAACTTCTTA
GTATCTCATCAAGAAGACGA
Found at i:5119 original size:208 final size:208
Alignment explanation
Indices: 4717--5544 Score: 1025
Period size: 208 Copynumber: 4.0 Consensus size: 208
4707 ACTTCATTTC
* * *
4717 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTACTTCGACCCACTTTTTTGT
1 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTACTTTGACCCACTTCTTTGT
* * * * * *
4782 ATCTCATCAGGAAGATAAGGGTTTGAAGTTTCACTCACATTGAACTTCGCTTCATTGATTTGGTC
66 ATCTCATCAGGAAGATGA-GGTTTGAAGTCTCATTCATATTGAGCTTCGATTCATTGATTTGGTC
* * * * *
4847 TACTTCTCTATACCTCATCAGGAAGATGATCGCTTCATTGATTTAATCAACTTCTCTATATCTCA
130 TACTTCTCTATATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCA
*
4912 TCAAGAAGACGAAT
195 TCAAGAAGACGGAT
** * * * * *
4926 TTGGTTTACTTCTCTATATCTCAACAAGAAGATGACCTCTTTATTACTTTGACCCGCTTCTTAGT
1 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTACTTTGACCCACTTCTTTGT
4991 ATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCATATTGAGCTTCGATTCATTGATTTGGTCT
66 ATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCATATTGAGCTTCGATTCATTGATTTGGTCT
* * * * * *
5056 ACTTCTCTGTATCTCGAT-AGGAAGATGACCACTTCATTGATTCAATCCATTTTTCTGTATCTCA
131 ACTTCTCTATATCTC-ATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCA
*
5120 TCAAGAAGGCGGAT
195 TCAAGAAGACGGAT
* * * * *
5134 TTGGTCCACTTCTCTGTATCCCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTATTTGT
1 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTACTTTGACCCACTTCTTTGT
* * * ** * * *
5199 ATCTCATTAAGAAGATGGGGTTTGAAGTCTCATTTGTATTAAGCTTCGCTTTATTGATTTGGTCT
66 ATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCATATTGAGCTTCGATTCATTGATTTGGTCT
* * * * *
5264 ACTTCTTTATATTTCATCAAGAAGATGACCGCTTCATTGATTTAATCTATTTCTTTGTATCTCAT
131 ACTTCTCTATATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
*
5329 C-AGAAAGGCGGAT
196 CAAG-AAGACGGAT
* * * * * *
5342 TTGGTCCACTTCTCTGTATCTCATTAGGAAGATGATCGCTTTATTGCTTTGCCCCACTTCTCTGT
1 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTACTTTGACCCACTTCTTTGT
* * * *
5407 ATCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTC-ATTTCATTAATTTGGTC
66 ATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCATATTGAGCTTCGA-TTCATTGATTTGGTC
* * * *
5471 TACATCTCTGTATCTCGTCAAGAAGATGACCG-TGTCATTGATTTAACCCACTTCTCTGTATCTC
130 TACTTCTCTATATCTCATCAAGAAGATGACCGCT-TCATTGATTTAATCCACTTCTCTGTATCTC
5535 ATCAAGAAGA
194 ATCAAGAAGA
5545 TGGCCGCTTT
Statistics
Matches: 535, Mismatches: 78, Indels: 13
0.85 0.12 0.02
Matches are distributed among these distances:
207 5 0.01
208 452 0.84
209 78 0.15
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (208 bp):
TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTACTTTGACCCACTTCTTTGT
ATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCATATTGAGCTTCGATTCATTGATTTGGTCT
ACTTCTCTATATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
CAAGAAGACGGAT
Found at i:5200 original size:85 final size:85
Alignment explanation
Indices: 5046--5212 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 85
5036 TCGATTCATT
* * * *
5046 GATTTGGTCTACTTCTCTGTATCTCGATAGGAAGATGACCACTTCATTGATTCAATCCATTTTTC
1 GATTTGGTCCACTTCTCTGTATCTCCATAGGAAGATGACCACTTCATTGATTCAACCCATTATTC
5111 TGTATCTCATCAAGAAGGCG
66 TGTATCTCATCAAGAAGGCG
* * **
5131 GATTTGGTCCACTTCTCTGTATC-CCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTAT
1 GATTTGGTCCACTTCTCTGTATCTCCAT-AGGAAGATGACCACTTCATTGATTCAACCCA-TTAT
*
5195 T-TGTATCTCATTAAGAAG
64 TCTGTATCTCATCAAGAAG
5213 ATGGGGTTTG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
84 3 0.04
85 64 0.90
86 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCCATAGGAAGATGACCACTTCATTGATTCAACCCATTATTC
TGTATCTCATCAAGAAGGCG
Found at i:5571 original size:48 final size:48
Alignment explanation
Indices: 5475--5595 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
5465 TTGGTCTACA
* *
5475 TCTCTGTATCTCGTCAAGAAGATGACCGTGTCATTGATTTAACCCACT
1 TCTCTGTATCTCATCAAGAAGATGGCCGTGTCATTGATTTAACCCACT
* ** ** *
5523 TCTCTGTATCTCATCAAGAAGATGGCCGCT-TTATTTCTTTGTCTCACT
1 TCTCTGTATCTCATCAAGAAGATGGCCG-TGTCATTGATTTAACCCACT
* *
5571 TCTTTGTATCTCATCAGGAAGATGG
1 TCTCTGTATCTCATCAAGAAGATGG
5596 GGGTTTGAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 61 0.98
49 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (48 bp):
TCTCTGTATCTCATCAAGAAGATGGCCGTGTCATTGATTTAACCCACT
Found at i:15815 original size:847 final size:851
Alignment explanation
Indices: 14190--15883 Score: 2725
Period size: 847 Copynumber: 2.0 Consensus size: 851
14180 ACTCAAGGAA
* * *
14190 AAGTAAAAACTGAAGTTTGGGGGTATGAAAGCATTAGAAATGACACTTATTTTCTCCCTAAATTT
1 AAGTAAAAACTCAAGTTTGAGGGTATGAAAGCATTACAAATGACACTTATTTTCTCCCTAAATTT
*
14255 GTATATTAATTATCTCTTTTATGGCATATTTAGCATGCATGATAGACATTTCATACTTAGTTTTT
66 GTATATTAATTATCTCTTTTATGGCATATTAAGCATGCATGATAGACATTTCATACTTAGTTTTT
14320 ATGTTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTGTTATTTTATCTCTTTTTGTGCACTAAT
131 ATGTTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTGTTATTTTATCTCTTTTTGTGCACTAAT
* *
14385 GTCGCCACATGAAACATATATATATATTGCGTCTAAAAATTTTCAACACAAGGACGCATCTCAAT
196 GTCGCCACATGAAACA-ATATATATATTGCATCTAAAAATTTGCAACACAAGGACGCATCTCAAT
* * * * *
14450 AGATCAAGGTTAAAAAAAATTCAGAATACAGCCACAAATTCAGCTTGAAATTGCGACCATAGCTT
260 AAATCAAGGTTAAAAAAAATTCAGAATACAGCCACAAATTCAGCTTGAAATTACGACCAAAGATG
* * * *
14515 TCGCCACATAGGAATCTTTATGTTGGAATGGGTGAATTCAAGTTACAAGTATATCTGGAAGCACC
325 TCACCACATAGGAATCTTTATGTTGGAATGAGTGAATTCAAGCTACAAGTATATCTAGAAGCACC
* ** *
14580 AGCGCAGGAATTTCACATGTTGTCATCGCAATTAAAGATTTCAGATCGTGACCAAAGATGAGACG
390 AGCGCAGGAAATTCACACATTGTCATCGCAATTAAAGATTTCAGATCGCGACC----A--AGACG
* * *
14645 ACAATCTACAAATTTATTAAGATCACACCAGATCTGTGTAAGTGTACAGATGGACTGTAACAAAC
449 ACAATCTACAAATTTATGAAGATCACACCAGATCTGCGTAAGTGTACAGATGAACTGTAACAAAC
* * *
14710 TTTGCTAGCTGCAAATAGAATTGGATCTGAGAAAAGATGAGATCTATCATTCTTGAAGCCAAAAA
514 TTTGCCAGATGCAAATAGAATTGGATCTGAGAAAAGATGAAATCTATCATTCTTGAAGCCAAAAA
* *
14775 GCATTCAGAGTTACGACCACAAGTTGGTTTAGAAATGCGACAAATTGTCACCACAAATTATAATT
579 ACATTCAGAGTTACGACCACAAGTTGGTCTAGAAATGCGACAAATTGTCACCACAAATTATAATT
* *
14840 TGCACCGACATTCTGCAATAGTGTAGTAAACAAATCAGATCTGCGTAGCTGTCAATAACAAACTT
644 TACACCGACATTCTGCAATAGTCTAGTAAACAAATCAGATCTGCGTAGCTGTCAATAACAAACTT
*
14905 TTACAGCTGTACAAAGTAGTTGGATCTAAGAAAGGAGGAAATCTACAGTCTCTTGAGCCTATAAA
709 TTACAGCTGTACAAAGTAGTTGAATCTAAGAAAGGAGGAAATCTACAGTCTCTTGAGCCTATAAA
* *
14970 TAGAGGAAAGAAGATGAAGAAAAATCATCAAGAGTTGAAGAATTAAATTTGCAAATTACTTTTTG
774 TAGAGGAAAGAAGATAAAGAAAAATCATCAAGAGTTGAAGAATTAAATTTGCAAATTACTTTGTG
15035 TTAACTTGAGGGC
839 TTAACTTGAGGGC
* *
15048 AAGTAAAAACTCAAGTTTGAGGGTATGATAGCATTACAAATGACATTTATTTTCTCCCTAAATTT
1 AAGTAAAAACTCAAGTTTGAGGGTATGAAAGCATTACAAATGACACTTATTTTCTCCCTAAATTT
15113 GTATATTAATTATCTCTTTTATGGCATATTAAGCATGCATGATAGACATTTCATACTTAGTTTTT
66 GTATATTAATTATCTCTTTTATGGCATATTAAGCATGCATGATAGACATTTCATACTTAGTTTTT
15178 ATGTTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTGTTATTTTATCTC-TTTTGTGCACTAAT
131 ATGTTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTGTTATTTTATCTCTTTTTGTGCACTAAT
* *
15242 GTCGCCACATGCAAC-ATATATATATTGCATCTAAAAATTTGCAACATAAGGACGCATCTCAATA
196 GTCGCCACATGAAACAATATATATATTGCATCTAAAAATTTGCAACACAAGGACGCATCTCAATA
* * ** *
15306 AATCAAGGTTAGAAAGAATTCAGAATGTAGCCACAACTTCAGCTTGAAATTACGACCAAAGATGT
261 AATCAAGGTTAAAAAAAATTCAGAATACAGCCACAAATTCAGCTTGAAATTACGACCAAAGATGT
15371 CACCACATAGGAATCTTTATGTTGGAATGAGTGAATTCAAGCTACAAGTATATCTAGAAGCACCA
326 CACCACATAGGAATCTTTATGTTGGAATGAGTGAATTCAAGCTACAAGTATATCTAGAAGCACCA
* * *
15436 GCGTAGGAAATTCACACATTTTCGA-CGCAATTAAAGATTTCAGATCGCGACC-CGACGACAATC
391 GCGCAGGAAATTCACACATTGTC-ATCGCAATTAAAGATTTCAGATCGCGACCAAGACGACAATC
* * * *
15499 TGCAGATTTATGAAGATCACACCAGATCTGCGTGAGTGTACA-ACTGAACTGTAACAAACTTTTC
455 TACAAATTTATGAAGATCACACCAGATCTGCGTAAGTGTACAGA-TGAACTGTAACAAACTTTGC
*
15563 CAGATGCAAATAGAATTGGATCTGA-CAAAGATGAAATCTATCATTCTTGAAGCCAAAAAACATT
519 CAGATGCAAATAGAATTGGATCTGAGAAAAGATGAAATCTATCATTCTTGAAGCCAAAAAACATT
* * * * *
15627 CAGAGTTGCGGCCACAAGTTGGTCTAGAAATGCGGCAAATTGTCACCGCAAATTATAATTTACGC
584 CAGAGTTACGACCACAAGTTGGTCTAGAAATGCGACAAATTGTCACCACAAATTATAATTTACAC
** *
15692 CGACATTCTTTAATAGTCTAGTAAACAAATCAGATTTGCGTAGCTGTCAATAACAAACTTTTACA
649 CGACATTCTGCAATAGTCTAGTAAACAAATCAGATCTGCGTAGCTGTCAATAACAAACTTTTACA
* * *
15757 GCTGTACAAAGTAGTTGAATCTAAGAAGGGAGGAAATCTGCAGTTTCTTGAGCCTATAAATAGAG
714 GCTGTACAAAGTAGTTGAATCTAAGAAAGGAGGAAATCTACAGTCTCTTGAGCCTATAAATAGAG
15822 GAAAGAAGATAAAGAAAAATCATCAAGAGTTGAAGAATTAAATTTGCAAATTACTTTGTGTT
779 GAAAGAAGATAAAGAAAAATCATCAAGAGTTGAAGAATTAAATTTGCAAATTACTTTGTGTT
15884 TTTGGAATTT
Statistics
Matches: 774, Mismatches: 60, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
847 277 0.36
848 88 0.11
855 206 0.27
856 1 0.00
857 28 0.04
858 174 0.22
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (851 bp):
AAGTAAAAACTCAAGTTTGAGGGTATGAAAGCATTACAAATGACACTTATTTTCTCCCTAAATTT
GTATATTAATTATCTCTTTTATGGCATATTAAGCATGCATGATAGACATTTCATACTTAGTTTTT
ATGTTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTGTTATTTTATCTCTTTTTGTGCACTAAT
GTCGCCACATGAAACAATATATATATTGCATCTAAAAATTTGCAACACAAGGACGCATCTCAATA
AATCAAGGTTAAAAAAAATTCAGAATACAGCCACAAATTCAGCTTGAAATTACGACCAAAGATGT
CACCACATAGGAATCTTTATGTTGGAATGAGTGAATTCAAGCTACAAGTATATCTAGAAGCACCA
GCGCAGGAAATTCACACATTGTCATCGCAATTAAAGATTTCAGATCGCGACCAAGACGACAATCT
ACAAATTTATGAAGATCACACCAGATCTGCGTAAGTGTACAGATGAACTGTAACAAACTTTGCCA
GATGCAAATAGAATTGGATCTGAGAAAAGATGAAATCTATCATTCTTGAAGCCAAAAAACATTCA
GAGTTACGACCACAAGTTGGTCTAGAAATGCGACAAATTGTCACCACAAATTATAATTTACACCG
ACATTCTGCAATAGTCTAGTAAACAAATCAGATCTGCGTAGCTGTCAATAACAAACTTTTACAGC
TGTACAAAGTAGTTGAATCTAAGAAAGGAGGAAATCTACAGTCTCTTGAGCCTATAAATAGAGGA
AAGAAGATAAAGAAAAATCATCAAGAGTTGAAGAATTAAATTTGCAAATTACTTTGTGTTAACTT
GAGGGC
Found at i:22425 original size:3 final size:3
Alignment explanation
Indices: 22417--22444 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22407 AATGGCCTAA
22417 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
22445 GGGCTTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:23008 original size:123 final size:128
Alignment explanation
Indices: 22866--23108 Score: 347
Period size: 123 Copynumber: 1.9 Consensus size: 128
22856 AGTTTTGATA
* * *
22866 TTTTTAATAATTTCAAAATAAAAGTTTTGAGTTTTAAGAAAAATAATGGCTTTCTTTAATAA-AA
1 TTTTTAATAATTTCAAAATAAAAGTTTGGAGTTTTAAGAAAAATAATGACTTTCATTAA-AACAA
22930 AA-AAAGTTTAGA-TTTAAAAA-AAAAATA-G-TTTTTAGTCATTTTAAAGAAAATTTTAATTT
65 AAGAAAGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAATTTTAATTT
* *
22989 TTTTTAACT-ATTTCGAAATAAAAGTTTGGAGTTTTAAGAAAAATAATGATTTTCATTAAAACAA
1 TTTTTAA-TAATTTCAAAATAAAAGTTTGGAGTTTTAAGAAAAATAATGACTTTCATTAAAACAA
* *
23053 AAGAAGGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTTATTTTAAAGAAAA
65 AAGAAAGTTTAGA-TTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAA
23109 AGTTTAAATT
Statistics
Matches: 105, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
122 2 0.02
123 56 0.53
124 10 0.10
126 8 0.08
127 7 0.07
128 1 0.01
129 21 0.20
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (128 bp):
TTTTTAATAATTTCAAAATAAAAGTTTGGAGTTTTAAGAAAAATAATGACTTTCATTAAAACAAA
AGAAAGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAATTTTAATTT
Found at i:23152 original size:151 final size:151
Alignment explanation
Indices: 22967--23346 Score: 451
Period size: 151 Copynumber: 2.5 Consensus size: 151
22957 GTTTTTAGTC
* * *
22967 ATTTTAAAGAAAATTTTAATTTTTTTTAACTATTTCGAAATAAAAGTTTGGAGTTTTAAGAAAAA
1 ATTTTAAA-CAAATTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGAAAAA
* * **
23032 TAATGATTTTCATTAAAACAAAAGAAGGTTTAGATTTTTAAAAATAAAAATATG-TTTTTTAGTT
65 TAATGATTTTCATTAAAACAAAAGAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTTAGAC
23096 ATTTT-AAAGA-AAAAGTTTAA
130 ATTTTAAAAGAGAAAAGTTTAA
*
23116 ATTTATAAACAAAGTTTTGATTTCTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAA
1 ATTT-TAAACAAA-TTTTGATTT-TTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGAAA
* * ** ***** *
23181 AGTATTGATTTTTTTTTTTTTAAAAGAAAGTTTAAATTTTTAAAAATAAAAATCTGTTTTTTTTA
63 AATAATGATTTTCATTAAAACAAAAGAAAGTTTAAATTTTTAAAAATAAAAATATG-TTTTTTTA
23246 GACATTTTAAAAGAGAAAAGTTTAA
127 GACATTTTAAAAGAGAAAAGTTTAA
* ** * * *
23271 GTTTTTAAACAAAAATTGATTTTTTTAAAACTATTTCGAAGTAAAAGTTTTGATTTTTAAGAAAA
1 -ATTTTAAACAAATTTTGATTTTTTT-TAACTATTTCGAAATAAAAGTTTGGATTTTTAAGAAAA
*
23336 ATAGTGATTTT
64 ATAATGATTTT
23347 GTTTTAAAAA
Statistics
Matches: 195, Mismatches: 27, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
149 7 0.04
150 12 0.06
151 83 0.43
153 17 0.09
154 55 0.28
155 18 0.09
156 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (151 bp):
ATTTTAAACAAATTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGAAAAAT
AATGATTTTCATTAAAACAAAAGAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTTTAGACA
TTTTAAAAGAGAAAAGTTTAA
Found at i:23370 original size:24 final size:23
Alignment explanation
Indices: 23343--23389 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
23333 AAAATAGTGA
* *
23343 TTTTGTTTTAAAAAAGAGAAAATT
1 TTTTATTTCAAAAAAGA-AAAATT
*
23367 TTTTATTTCAAAAAATAAAAATT
1 TTTTATTTCAAAAAAGAAAAATT
23390 CGACCACCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
TTTTATTTCAAAAAAGAAAAATT
Found at i:26302 original size:34 final size:34
Alignment explanation
Indices: 26229--26310 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
26219 ACTATCAATC
* *
26229 CAGCACACCAAATGCTTGTATGAGTCAGTCCATA
1 CAGCACACCAAATGCTCGTATGAGTCAATCCATA
*
26263 CAGCACACCAAATGCTCGTATGAG-CTAATCTAT-
1 CAGCACACCAAATGCTCGTATGAGTC-AATCCATA
26296 CTAGCACACCAAATG
1 C-AGCACACCAAATG
26311 GCACTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 2 0.05
34 41 0.95
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (34 bp):
CAGCACACCAAATGCTCGTATGAGTCAATCCATA
Found at i:35585 original size:21 final size:21
Alignment explanation
Indices: 35561--35605 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
35551 GAATTGAAGT
35561 TTGATCCG-ATAATTTTGATGA
1 TTGAT-CGTATAATTTTGATGA
* *
35582 TTGATTGTTTAATTTTGATGA
1 TTGATCGTATAATTTTGATGA
35603 TTG
1 TTG
35606 CTTAATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.51
Consensus pattern (21 bp):
TTGATCGTATAATTTTGATGA
Found at i:36436 original size:16 final size:16
Alignment explanation
Indices: 36417--36451 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36407 TGGTAATTTT
36417 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGAC-AA
36433 AATGTTAAAGTGACAA
1 AATGTTAAAGTGACAA
36449 AAT
1 AAT
36452 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (16 bp):
AATGTTAAAGTGACAA
Found at i:37490 original size:51 final size:51
Alignment explanation
Indices: 37426--37556 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
37416 GGCAGTGTAT
* * *
37426 TATATCGGGCCTTGGGCCTAGAAGGCTTTAATG-TCGGTGTATTGTACTATA
1 TATATTGGACCTTGGGCCTAGAAGGCTTTAATGAT-GGTGTACTGTACTATA
* * *
37477 TTTATTGGACCTTGGGCCTAGTAGGCTTTAATGATGGTGTACTGTATTATA
1 TATATTGGACCTTGGGCCTAGAAGGCTTTAATGATGGTGTACTGTACTATA
* *
37528 TATATTGGGCCTTGTGCCTAGCAA-GCTTT
1 TATATTGGACCTTGGGCCTAG-AAGGCTTT
37557 GTGGCAATGT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
51 66 0.97
52 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (51 bp):
TATATTGGACCTTGGGCCTAGAAGGCTTTAATGATGGTGTACTGTACTATA
Found at i:38948 original size:17 final size:16
Alignment explanation
Indices: 38928--38966 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
38918 ATAAAGTGAT
*
38928 AAAAGGATTAAATTTAA
1 AAAAGAATTAAA-TTAA
*
38945 AAAAGAATTTAATTAA
1 AAAAGAATTAAATTAA
38961 AAAAGA
1 AAAAGA
38967 TATAAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAAGAATTAAATTAA
Found at i:40139 original size:9 final size:9
Alignment explanation
Indices: 40125--40173 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
40115 AAAGAAGATA
40125 AAATAAAAT
1 AAATAAAAT
40134 AAATAAAAT
1 AAATAAAAT
*
40143 ACAAAATAAAT
1 A-AATA-AAAT
40154 AAATAAATAT
1 AAATAAA-AT
*
40164 AAGTAAAAT
1 AAATAAAAT
40173 A
1 A
40174 CAACAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 15 0.44
10 14 0.41
11 5 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:40156 original size:30 final size:31
Alignment explanation
Indices: 40109--40181 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
40099 TTTATTTTTG
*
40109 AAATA-AAAAGAAGATAAAATAAA-ATAAATA
1 AAATACAAAATAAGAT-AAATAAATATAAATA
*
40139 AAATACAAAATAA-ATAAATAAATATAAGTA
1 AAATACAAAATAAGATAAATAAATATAAATA
40169 AAATACAACAATA
1 AAATACAA-AATA
40182 TACCTTTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 7 0.18
30 21 0.55
31 10 0.26
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (31 bp):
AAATACAAAATAAGATAAATAAATATAAATA
Found at i:43852 original size:17 final size:17
Alignment explanation
Indices: 43813--43860 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
43803 TGATATATGG
**
43813 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
43830 AGATGCAGTGACAATAA
1 AAATGCAATGACAATAA
43847 AAATGCAATGACAA
1 AAATGCAATGACAA
43861 AGGAAATGTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:43867 original size:17 final size:17
Alignment explanation
Indices: 43811--43868 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
43801 AATGATATAT
*
43811 GGAAATGCAATGACAAT
1 GGAAATGCAATGACAAA
* * *
43828 GTAGATGCAGTGACAATA
1 GGAAATGCAATGACAA-A
*
43846 -AAAATGCAATGACAAA
1 GGAAATGCAATGACAAA
43862 GGAAATG
1 GGAAATG
43869 TCGTAACAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
16 1 0.03
17 30 0.97
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.17
Consensus pattern (17 bp):
GGAAATGCAATGACAAA
Found at i:46112 original size:51 final size:51
Alignment explanation
Indices: 46030--46269 Score: 288
Period size: 51 Copynumber: 4.6 Consensus size: 51
46020 GCTATAAACA
* * * *
46030 AAAGAGTCCGATGACTAAGCGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATT
*
46082 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATT
* *
46133 AAAGGTTCGATGACTAAGTGTCATCATGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATT
* * * * *
46184 AAAGGTCCGATAACTCAGTGTCATCGTGAGCATATGAATTCCTAT-ACGGAA-C
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCC-ATGAC-GAATT
46236 AAAGGGGTCCGATGACTATA-TGTCATCGTGAGTA
1 AAA--GGTCCGATGACTA-AGTGTCATCGTGAGTA
46270 TTAAATGAAA
Statistics
Matches: 166, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
51 124 0.75
52 12 0.07
53 5 0.03
54 24 0.14
55 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATT
Found at i:47065 original size:20 final size:21
Alignment explanation
Indices: 47026--47065 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47016 TAGTTGCATG
47026 ACTTGTATCGATAGAAATTAT
1 ACTTGTATCGATAGAAATTAT
*
47047 ACTTGTATCGGTA-AAATTA
1 ACTTGTATCGATAGAAATTA
47066 GTAAAGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
ACTTGTATCGATAGAAATTAT
Found at i:56608 original size:7 final size:6
Alignment explanation
Indices: 56588--56621 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
56578 ATTTCAGCAA
*
56588 TTTATT TTTATT TTTATTT TTTATT TTTGTT TTT
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT TTT
56622 CAAGTAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:56608 original size:13 final size:13
Alignment explanation
Indices: 56588--56621 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
56578 ATTTCAGCAA
56588 TTTA-TTTTTATT
1 TTTATTTTTTATT
56600 TTTATTTTTTATT
1 TTTATTTTTTATT
*
56613 TTTGTTTTT
1 TTTATTTTT
56622 CAAGTAACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:73526 original size:31 final size:30
Alignment explanation
Indices: 73465--73531 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
73455 TCATCCTTCC
* *
73465 TTTTTCATTTTTTTAATAAATGGCTCAATA
1 TTTTTAATTTTTTTAATAAATGCCTCAATA
*
73495 TTTTTAATTTTTTTACGTAAATGACCT-AATA
1 TTTTTAATTTTTTTA-ATAAATG-CCTCAATA
*
73526 TGTTTA
1 TTTTTA
73532 TACTTCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 14 0.45
31 15 0.48
32 2 0.06
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (30 bp):
TTTTTAATTTTTTTAATAAATGCCTCAATA
Found at i:74900 original size:51 final size:51
Alignment explanation
Indices: 74757--74985 Score: 300
Period size: 51 Copynumber: 4.5 Consensus size: 51
74747 TAAAGGGTTA
*
74757 GATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
*
74808 GATAACTAAG-GTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* * *
74858 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGATGGATTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* * * * * *
74909 GATGACTTAGAGTCATCGTGAGTATATGAATTCCTATACGGAATAAGAGGTCT
1 GATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATTAA-AGGTCC
* *
74962 GTTGACTATA-TGTCATTGTGAGTA
1 GATGACTA-AGTGTCATCGTGAGTA
74986 TTAAATGAAA
Statistics
Matches: 155, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 48 0.31
51 73 0.47
52 10 0.06
53 23 0.15
54 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
Found at i:76599 original size:3 final size:3
Alignment explanation
Indices: 76593--76633 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
76583 CCTCCTTTTC
*
76593 TCT TCT TCT TCT TCT TCT T-T TCT TCT TTT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
76634 CTACTTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:76640 original size:20 final size:20
Alignment explanation
Indices: 76590--76640 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
76580 CTTCCTCCTT
*
76590 TTCTCTTCTTCTTCTTCTTC
1 TTCTCTTCTTTTTCTTCTTC
*
76610 TTTTCTTCTTTTTCTTCTTC
1 TTCTCTTCTTTTTCTTCTTC
*
76630 TTCTCTACTTT
1 TTCTCTTCTTT
76641 GTTTTTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (20 bp):
TTCTCTTCTTTTTCTTCTTC
Found at i:77001 original size:21 final size:21
Alignment explanation
Indices: 76950--77002 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
76940 AATCATATTG
*
76950 TCAACAAGATTTTAATTTAACT
1 TCAACAA-TTTTTAATTTAACT
**
76972 TGC-GTAATTTTTAATTTAACT
1 T-CAACAATTTTTAATTTAACT
76993 TCAACAATTT
1 TCAACAATTT
77003 CATTCGACTC
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
20 1 0.04
21 19 0.79
22 3 0.12
23 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (21 bp):
TCAACAATTTTTAATTTAACT
Found at i:77864 original size:22 final size:20
Alignment explanation
Indices: 77816--77867 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
77806 AGAAACAAAG
* *
77816 AATCAAATTATGACAACACA
1 AATCAAACTATGACAAAACA
77836 AA-CAAACTATGAACAAGAACA
1 AATCAAACTATG-ACAA-AACA
77857 AATCAAACTAT
1 AATCAAACTAT
77868 AAATTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.30
20 6 0.22
21 5 0.19
22 8 0.30
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.17
Consensus pattern (20 bp):
AATCAAACTATGACAAAACA
Found at i:78537 original size:23 final size:23
Alignment explanation
Indices: 78494--78538 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
78484 AAAAAGATTC
**
78494 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
78517 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
78539 ATTCAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:80095 original size:24 final size:24
Alignment explanation
Indices: 80041--80270 Score: 214
Period size: 24 Copynumber: 9.7 Consensus size: 24
80031 TAGTGTTCAT
* * *
80041 GAACATGTTCGTTTA-ATGTTCGT
1 GAACATGTTCATTTATACGTTCGC
* **
80064 GAACATGTTCATTTATACGCTCAT
1 GAACATGTTCATTTATACGTTCGC
* * *
80088 GAACATGTTCGTCTA-ACGTTTGC
1 GAACATGTTCATTTATACGTTCGC
80111 GAACATGTTCATTTATACGTTCGC
1 GAACATGTTCATTTATACGTTCGC
* * *
80135 AAACATGTTCATTTATACATTTGC
1 GAACATGTTCATTTATACGTTCGC
* **
80159 GAACATGTTCATTTATACATTCAT
1 GAACATGTTCATTTATACGTTCGC
* * *
80183 GAAACATGTTCGTCTA-ATGTTCGC
1 G-AACATGTTCATTTATACGTTCGC
* *
80207 GAACATGTTCGTTTATACGTTCGT
1 GAACATGTTCATTTATACGTTCGC
* * *
80231 GAATATGTTCGTTTATATGTTCGC
1 GAACATGTTCATTTATACGTTCGC
*
80255 AAACATGTTCATTTAT
1 GAACATGTTCATTTAT
80271 GTTAACTAAA
Statistics
Matches: 168, Mismatches: 35, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
23 44 0.26
24 112 0.67
25 12 0.07
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (24 bp):
GAACATGTTCATTTATACGTTCGC
Found at i:80176 original size:48 final size:47
Alignment explanation
Indices: 80042--80270 Score: 242
Period size: 48 Copynumber: 4.8 Consensus size: 47
80032 AGTGTTCATG
* * * * * *
80042 AACATGTTCGTTTAATGTTCGTGAACATGTTCATTTATACGCTCATG
1 AACATGTTCGTCTAACGTTCGCGAACATGTTCATTTATACGTTCGTA
* *
80089 AACATGTTCGTCTAACGTTTGCGAACATGTTCATTTATACGTTCGCA
1 AACATGTTCGTCTAACGTTCGCGAACATGTTCATTTATACGTTCGTA
* * * * * *
80136 AACATGTTCATTTATACATTTGCGAACATGTTCATTTATACATTCATGA
1 AACATGTTCGTCTA-ACGTTCGCGAACATGTTCATTTATACGTTCGT-A
* * *
80185 AACATGTTCGTCTAATGTTCGCGAACATGTTCGTTTATACGTTCGTG
1 AACATGTTCGTCTAACGTTCGCGAACATGTTCATTTATACGTTCGTA
* * * *
80232 AATATGTTCGTTTATATGTTCGCAAACATGTTCATTTAT
1 AACATGTTCGTCTA-ACGTTCGCGAACATGTTCATTTAT
80271 GTTAACTAAA
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
47 63 0.41
48 76 0.50
49 13 0.09
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (47 bp):
AACATGTTCGTCTAACGTTCGCGAACATGTTCATTTATACGTTCGTA
Found at i:80214 original size:96 final size:95
Alignment explanation
Indices: 80042--80270 Score: 289
Period size: 96 Copynumber: 2.4 Consensus size: 95
80032 AGTGTTCATG
* ** * *
80042 AACATGTTCGTTTA-ATGTTCGTGAACATGTTCATTTATACGCTCATGAACATGTTCGTCTAACG
1 AACATGTTCATTTATACATTCGCGAACATGTTCATTTATACACTCATGAACATGTTCGTCTAACG
*
80106 TTTGCGAACATGTTCATTTATACGTTCGCA
66 TTCGCGAACATGTTCATTTATACGTTCGCA
* * *
80136 AACATGTTCATTTATACATTTGCGAACATGTTCATTTATACATTCATGAAACATGTTCGTCTAAT
1 AACATGTTCATTTATACATTCGCGAACATGTTCATTTATACACTCATG-AACATGTTCGTCTAAC
* **
80201 GTTCGCGAACATGTTCGTTTATACGTTCGTG
65 GTTCGCGAACATGTTCATTTATACGTTCGCA
* * ** *
80232 AATATGTTCGTTTATATGTTCGCAAACATGTTCATTTAT
1 AACATGTTCATTTATACATTCGCGAACATGTTCATTTAT
80271 GTTAACTAAA
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
94 13 0.11
95 27 0.23
96 75 0.65
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (95 bp):
AACATGTTCATTTATACATTCGCGAACATGTTCATTTATACACTCATGAACATGTTCGTCTAACG
TTCGCGAACATGTTCATTTATACGTTCGCA
Found at i:80228 original size:12 final size:12
Alignment explanation
Indices: 80211--80253 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
80201 GTTCGCGAAC
80211 ATGTTCGTTTAT
1 ATGTTCGTTTAT
* **
80223 ACGTTCGTGAAT
1 ATGTTCGTTTAT
80235 ATGTTCGTTTAT
1 ATGTTCGTTTAT
80247 ATGTTCG
1 ATGTTCG
80254 CAAACATGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.49
Consensus pattern (12 bp):
ATGTTCGTTTAT
Found at i:82553 original size:35 final size:36
Alignment explanation
Indices: 82506--82579 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 36
82496 CTTTGGCCAT
* *
82506 TTTTTATTTTCATTT-TTTTCTTTTATAT-TTTATTA
1 TTTTTATATTCATTTATTAT-TTTTATATATTTATTA
82541 TTTTTATATTCATTTATTATTTTTATATATTTATTA
1 TTTTTATATTCATTTATTATTTTTATATATTTATTA
82577 TTT
1 TTT
82580 ATTTTTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (36 bp):
TTTTTATATTCATTTATTATTTTTATATATTTATTA
Found at i:82561 original size:11 final size:9
Alignment explanation
Indices: 82505--82585 Score: 58
Period size: 10 Copynumber: 8.4 Consensus size: 9
82495 CCTTTGGCCA
82505 TTTT-TTAT
1 TTTTATTAT
* *
82513 TTTCATTTT
1 TTTTATTAT
*
82522 TTTCTTTTAT
1 TTT-TATTAT
82532 ATTTTATTAT
1 -TTTTATTAT
82542 TTTTA-TAT
1 TTTTATTAT
82550 TCATTTATTAT
1 T--TTTATTAT
82561 TTTTATATAT
1 TTTTAT-TAT
82571 TTATTATTTAT
1 TT-TTA-TTAT
82582 TTTT
1 TTTT
82586 TTGTCCTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
8 7 0.12
9 16 0.28
10 19 0.33
11 15 0.26
12 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTATTAT
Found at i:82571 original size:21 final size:20
Alignment explanation
Indices: 82504--82586 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 20
82494 TCCTTTGGCC
*
82504 ATTTTTTATTTTCATTT-TT
1 ATTTTTTATATTCATTTATT
82523 -TTCTTTTATA-T--TTTATT
1 ATT-TTTTATATTCATTTATT
82540 A-TTTTTATATTCATTTATT
1 ATTTTTTATATTCATTTATT
*
82559 ATTTTTATATATTTA-TTATTT
1 ATTTTT-TATATTCATTTA-TT
82580 ATTTTTT
1 ATTTTTT
82587 TGTCCTTTAC
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
16 10 0.19
17 4 0.08
18 3 0.06
19 13 0.25
20 8 0.15
21 15 0.28
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (20 bp):
ATTTTTTATATTCATTTATT
Found at i:82574 original size:17 final size:17
Alignment explanation
Indices: 82526--82579 Score: 83
Period size: 19 Copynumber: 3.1 Consensus size: 17
82516 CATTTTTTTC
82526 TTTTATAT-TTTATTAT
1 TTTTATATATTTATTAT
82542 TTTTATATTCATTTATTAT
1 TTTTATA-T-ATTTATTAT
82561 TTTTATATATTTATTAT
1 TTTTATATATTTATTAT
82578 TT
1 TT
82580 ATTTTTTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.20
17 12 0.34
18 1 0.03
19 15 0.43
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATATATTTATTAT
Found at i:99283 original size:30 final size:30
Alignment explanation
Indices: 99249--99307 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
99239 CTAATTGAAT
* *
99249 TTTAAAATTTTAAGTTTCATTTTTTTGTTG
1 TTTAAAATTTTAAGTTTAATTTTTATGTTG
*
99279 TTTAAAATTTTAATTTTAATTTTTATGTT
1 TTTAAAATTTTAAGTTTAATTTTTATGTT
99308 AATAAAGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (30 bp):
TTTAAAATTTTAAGTTTAATTTTTATGTTG
Found at i:102732 original size:15 final size:15
Alignment explanation
Indices: 102697--102725 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
102687 TGAAATATGT
102697 GAAAATATGAAATTA
1 GAAAATATGAAATTA
102712 GAAAATA-GAAATTA
1 GAAAATATGAAATTA
102726 TTAAAATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (15 bp):
GAAAATATGAAATTA
Found at i:102916 original size:22 final size:22
Alignment explanation
Indices: 102891--102933 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
102881 AAAATATTTC
*
102891 ATTA-ATAATTTGGGTTTAATTA
1 ATTATATAAATTGGG-TTAATTA
*
102913 ATTATTTAAATTGGGTTAATT
1 ATTATATAAATTGGGTTAATT
102934 TTATTCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
ATTATATAAATTGGGTTAATTA
Found at i:105427 original size:196 final size:196
Alignment explanation
Indices: 105026--105445 Score: 458
Period size: 196 Copynumber: 2.1 Consensus size: 196
105016 GCAGATCTCA
* * * *
105026 ATCTCCCTGAAGTTGCAATGGAATGGAGTGAAGTTACAACATTATATCCTATACCCTGAAGTTGC
1 ATCTCCCTGAAGTTGC-AT----TGGAGTGAAGATACAACATCAAATCCTATACCCTGAAGTGGC
*
105091 AGGGATCGGATTAAAACTACGAAAGCAAATCTTTATCTCTCTGAAGATGCAATATAGCAAGATTA
61 AGGGATCGGATTAAAACTACGAAAGCAAATCTTTATCTCTCTGAAGATGCAATAGAGCAAGATTA
* * * *
105156 AAGCTACAAAATCAAATCCTATACCCCTAAAGTTGCAGTGGGGCAGATTGAAGCTATAGAAGCAA
126 AAGCTACAAAACCAAATCCTATACCCCTAAAGTTACAGTGGGGCAGATTGAAGCTACAGAAACAA
105221 ATCTTT
191 ATCTTT
*
105227 ATCTCCCTGAAGTTGCATTGGAGT-AAGAT-CAACATCAAATCCTATATCCCTGAAGTGGTAGTG
1 ATCTCCCTGAAGTTGCATTGGAGTGAAGATACAACATCAAATCCTATA-CCCTGAAGTGGCAG-G
* * * * * * *
105290 GATCGGATTGAAAATTGC-AGTAGCAAATC-TTATCTCTCTGAAGTTGTAGTAGAGCAAGA-TGA
64 GATCGGATT-AAAACTACGA-AAGCAAATCTTTATCTCTCTGAAGATGCAATAGAGCAAGATTAA
* * * * *
105352 AGCTACCACACCAAATCCTATACCCCTGAAGTTACAAGTGGGTC-GAATTGAGGCTACAGACAAC
127 AGCTACAAAACCAAATCCTATACCCCTAAAGTTAC-AGTGGGGCAG-ATTGAAGCTACAGA-AAC
105416 AAATC-TT
189 AAATCTTT
* * *
105423 ATCTCCCTAAAGTTACAGTGGAG
1 ATCTCCCTGAAGTTGCATTGGAG
105446 CAAGGTGAAG
Statistics
Matches: 187, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
194 15 0.08
195 49 0.26
196 84 0.45
197 21 0.11
200 2 0.01
201 16 0.09
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (196 bp):
ATCTCCCTGAAGTTGCATTGGAGTGAAGATACAACATCAAATCCTATACCCTGAAGTGGCAGGGA
TCGGATTAAAACTACGAAAGCAAATCTTTATCTCTCTGAAGATGCAATAGAGCAAGATTAAAGCT
ACAAAACCAAATCCTATACCCCTAAAGTTACAGTGGGGCAGATTGAAGCTACAGAAACAAATCTT
T
Found at i:108778 original size:7 final size:7
Alignment explanation
Indices: 108761--108853 Score: 66
Period size: 7 Copynumber: 12.7 Consensus size: 7
108751 TTTCGACCAT
108761 TTTTTTA
1 TTTTTTA
108768 -TTTTTA
1 TTTTTTA
108774 TTTTTT-
1 TTTTTTA
108780 TCTTTTTA
1 T-TTTTTA
*
108788 CTTTTATA
1 -TTTTTTA
108796 TTTTATTA
1 TTTT-TTA
108804 TTTTTATA
1 TTTTT-TA
*
108812 TTAATTTA
1 TT-TTTTA
108820 TTTTTTATA
1 -TTTTT-TA
108829 TTTTTTA
1 TTTTTTA
*
108836 TTATTTA
1 TTTTTTA
*
108843 -TTGTTA
1 TTTTTTA
108849 TTTTT
1 TTTTT
108854 CTTTATGATT
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
6 11 0.16
7 26 0.38
8 24 0.35
9 7 0.10
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:108797 original size:22 final size:20
Alignment explanation
Indices: 108762--108853 Score: 73
Period size: 20 Copynumber: 4.5 Consensus size: 20
108752 TTCGACCATT
* *
108762 TTTTTATTTTTATTTTTTTC
1 TTTTTATTTTTATTTTATTA
108782 TTTTTACTTTTATATTTTATTA
1 TTTTTA-TTTT-TATTTTATTA
* *
108804 TTTTTA-TATTAATTTATT-
1 TTTTTATTTTTATTTTATTA
*
108822 TTTTATATTTTT-TATTATTTA
1 TTTT-TATTTTTATTTTA-TTA
*
108843 TTGTTATTTTT
1 TTTTTATTTTT
108854 CTTTATGATT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
18 4 0.07
19 13 0.22
20 20 0.34
21 7 0.12
22 14 0.24
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.77
Consensus pattern (20 bp):
TTTTTATTTTTATTTTATTA
Found at i:108808 original size:42 final size:39
Alignment explanation
Indices: 108765--108859 Score: 91
Period size: 39 Copynumber: 2.4 Consensus size: 39
108755 GACCATTTTT
* * *
108765 TTATTTTTATTTTTTTCTTTTTACTTTTATATTTTATTATTT
1 TTATTTTTATTTATTT-TTTATA-TTTTATATTAT-TTATTT
* * * *
108807 TTATATTAATTTATTTTTTATATTTTTTATTATTTATTG
1 TTATTTTTATTTATTTTTTATATTTTATATTATTTATTT
*
108846 TTATTTTTCTTTAT
1 TTATTTTTATTTAT
108860 GATTTTGTCC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
39 16 0.37
40 9 0.21
41 5 0.12
42 13 0.30
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (39 bp):
TTATTTTTATTTATTTTTTATATTTTATATTATTTATTT
Found at i:108810 original size:16 final size:16
Alignment explanation
Indices: 108789--108865 Score: 61
Period size: 16 Copynumber: 4.7 Consensus size: 16
108779 TTCTTTTTAC
108789 TTTTATATTTTATTAT
1 TTTTATATTTTATTAT
*
108805 TTTTATA-TTAATTTATT
1 TTTTATATTTTA-TTA-T
108822 TTTTATATTTT-TTAT
1 TTTTATATTTTATTAT
* *
108837 TATTTAT-TGTTATTTT
1 T-TTTATATTTTATTAT
108853 TCTTTATGATTTT
1 T-TTTAT-ATTTT
108866 GTCCCTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
15 8 0.17
16 27 0.56
17 8 0.17
18 5 0.10
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTATATTTTATTAT
Found at i:108821 original size:19 final size:18
Alignment explanation
Indices: 108789--108841 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
108779 TTCTTTTTAC
108789 TTTTATA-T-TTTATTAT
1 TTTTATATTATTTATTAT
108805 TTTTATATTAATTTA-T-T
1 TTTTATATT-ATTTATTAT
*
108822 TTTTATATTTTTTATTAT
1 TTTTATATTATTTATTAT
108840 TT
1 TT
108842 ATTGTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 11 0.35
17 12 0.39
18 4 0.13
19 4 0.13
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATATTATTTATTAT
Found at i:108826 original size:17 final size:16
Alignment explanation
Indices: 108759--108843 Score: 65
Period size: 16 Copynumber: 5.6 Consensus size: 16
108749 ACTTTCGACC
108759 ATTTTTT-TATT-TTT
1 ATTTTTTATATTATTT
*
108773 ATTTTTT-TCTT-TTT
1 ATTTTTTATATTATTT
* *
108787 A-CTTTTATATTTTATT
1 ATTTTTTATATTAT-TT
108803 A-TTTTTATATTAATTT
1 ATTTTTTATATT-ATTT
*
108819 ATTTTTTATATTTTTT
1 ATTTTTTATATTATTT
*
108835 ATTATTTAT
1 ATTTTTTAT
108844 TGTTATTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
13 4 0.07
14 17 0.29
15 1 0.02
16 26 0.44
17 11 0.19
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTATATTATTT
Found at i:108990 original size:11 final size:10
Alignment explanation
Indices: 108961--108995 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
108951 TATCTTACTA
*
108961 TTTATTTCGC
1 TTTATTTTGC
108971 TTTATTTTGC
1 TTTATTTTGC
108981 TTTCATTTTGC
1 TTT-ATTTTGC
108992 TTTA
1 TTTA
108996 GTATTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (10 bp):
TTTATTTTGC
Found at i:111793 original size:22 final size:22
Alignment explanation
Indices: 111762--111815 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
111752 CTAGGGTCGA
*
111762 TGTCGTGACACACCAAGAACTG
1 TGTCGCGACACACCAAGAACTG
111784 TGTCGCGACACACCAAGAACTG
1 TGTCGCGACACACCAAGAACTG
111806 TGTCGCGACA
1 TGTCGCGACA
111816 AAGCAAGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.17
Consensus pattern (22 bp):
TGTCGCGACACACCAAGAACTG
Found at i:111822 original size:22 final size:22
Alignment explanation
Indices: 111762--111822 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
111752 CTAGGGTCGA
* *
111762 TGTCGTGACACACCAAGAACTG
1 TGTCGCGACAAACCAAGAACTG
*
111784 TGTCGCGACACACCAAGAACTG
1 TGTCGCGACAAACCAAGAACTG
*
111806 TGTCGCGACAAAGCAAG
1 TGTCGCGACAAACCAAG
111823 CAATCCCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.15
Consensus pattern (22 bp):
TGTCGCGACAAACCAAGAACTG
Found at i:112664 original size:37 final size:37
Alignment explanation
Indices: 112622--112696 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
112612 TTATGTCTCA
*
112622 CTCCATCTCACGTCCTTATTTCTCCCTCTCTCACCTC
1 CTCCATCTCACCTCCTTATTTCTCCCTCTCTCACCTC
112659 CTCCATCTCACCTCCTTATTTCTCCCTCTCTCACCTC
1 CTCCATCTCACCTCCTTATTTCTCCCTCTCTCACCTC
112696 C
1 C
112697 CTTATTTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.11, C:0.51, G:0.01, T:0.37
Consensus pattern (37 bp):
CTCCATCTCACCTCCTTATTTCTCCCTCTCTCACCTC
Found at i:117363 original size:12 final size:12
Alignment explanation
Indices: 117348--117380 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
117338 GGAAAAGCAT
*
117348 AAAATAAAGTAG
1 AAAATAAAATAG
117360 AAAATAAAATAG
1 AAAATAAAATAG
117372 AAAATAAAA
1 AAAATAAAA
117381 GCAAGATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAG
Found at i:119700 original size:43 final size:43
Alignment explanation
Indices: 119633--119715 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
119623 TATCGTATTA
* * *
119633 GTAGCTTTTACTTGCAAATATGTTGTGCATCTACAGCCCAGTT
1 GTAGATTTTACTTGCAAATATGTTGTGCACCCACAGCCCAGTT
* * *
119676 GTAGATTTTATTTGCAAGTTTGTTGTGCACCCACAGCCCA
1 GTAGATTTTACTTGCAAATATGTTGTGCACCCACAGCCCA
119716 ATGGTAATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (43 bp):
GTAGATTTTACTTGCAAATATGTTGTGCACCCACAGCCCAGTT
Found at i:119729 original size:43 final size:43
Alignment explanation
Indices: 119633--119729 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
119623 TATCGTATTA
* * * * * *
119633 GTAGCTTTTACTTGCAAATATGTTGTGCATCTACAGCCCAGTT
1 GTAGATTTTATTTGCAAATATGTTGTGCACCCACAGCCCAATG
* *
119676 GTAGATTTTATTTGCAAGTTTGTTGTGCACCCACAGCCCAATG
1 GTAGATTTTATTTGCAAATATGTTGTGCACCCACAGCCCAATG
119719 GTA-ATGTTTAT
1 GTAGAT-TTTAT
119730 CATTTAATTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (43 bp):
GTAGATTTTATTTGCAAATATGTTGTGCACCCACAGCCCAATG
Found at i:119875 original size:43 final size:43
Alignment explanation
Indices: 119784--119897 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 43
119774 TTTTACATGA
* * *
119784 AAATATGTTGTGTATCTACAACCTAGTGATAGATTTTATCTGC
1 AAATTTGTTGTGCATCTACAACCTAGTGATAGATTTTATCTAC
*
119827 AAATTTGTTGTGCATCTACAACGTAGTGATAGATTTTATCTAC
1 AAATTTGTTGTGCATCTACAACCTAGTGATAGATTTTATCTAC
* * * * *
119870 GAATTTGTTATGCACCTACGACCCAGTG
1 AAATTTGTTGTGCATCTACAACCTAGTG
119898 GTAGTGTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (43 bp):
AAATTTGTTGTGCATCTACAACCTAGTGATAGATTTTATCTAC
Found at i:120874 original size:23 final size:23
Alignment explanation
Indices: 120831--120876 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
120821 TCATGGATTT
* *
120831 TTCTAAAAATAAGCTAAGTTTTA
1 TTCTAAAAATAAACAAAGTTTTA
120854 TTCT-AAAATAAACAAATGTTTTA
1 TTCTAAAAATAAACAAA-GTTTTA
120877 AATCGACTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
TTCTAAAAATAAACAAAGTTTTA
Found at i:122111 original size:25 final size:23
Alignment explanation
Indices: 122062--122111 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 23
122052 TTTTAACTTC
* *
122062 ATTTTTTTAATTTTATATATTCA
1 ATTTTTTAAATTTTATATATACA
*
122085 ATTTTTTGAAATTTTATTGTATACA
1 ATTTTTT-AAATTTTA-TATATACA
122110 AT
1 AT
122112 ATCTCTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 7 0.32
24 7 0.32
25 8 0.36
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (23 bp):
ATTTTTTAAATTTTATATATACA
Found at i:130334 original size:34 final size:35
Alignment explanation
Indices: 130273--130340 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
130263 AAATATAATT
*
130273 TAAAATAAATTATTTTAATATAATTAATATAAAAC
1 TAAAATAAATTATTTTAACATAATTAATATAAAAC
130308 TAAAA-AAA-TATTTTAACATAAGTTAATATAAAA
1 TAAAATAAATTATTTTAACATAA-TTAATATAAAA
130341 ATAATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 12 0.39
34 14 0.45
35 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (35 bp):
TAAAATAAATTATTTTAACATAATTAATATAAAAC
Found at i:130454 original size:60 final size:59
Alignment explanation
Indices: 130340--130460 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 59
130330 TTAATATAAA
*
130340 AATAATTATATTAAGAAGATTATTAAATTATATATTATTTTTATTAAAATATATTTAAT
1 AATAATTATATTAAGAAGATAATTAAATTATATATTATTTTTATTAAAATATATTTAAT
* * * *
130399 AATAATTATATTGA-AATATAATTAAATTATTTATTATAATTTTATTAAATTATATTTAAT
1 AATAATTATATTAAGAAGATAATTAAATTATATATTAT--TTTTATTAAAATATATTTAAT
130459 AA
1 AA
130461 CAATAACAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 20 0.36
59 13 0.24
60 22 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (59 bp):
AATAATTATATTAAGAAGATAATTAAATTATATATTATTTTTATTAAAATATATTTAAT
Found at i:138615 original size:29 final size:28
Alignment explanation
Indices: 138583--138780 Score: 136
Period size: 30 Copynumber: 6.8 Consensus size: 28
138573 TAAAATTTAA
138583 AAAATCTCATTTTTGACCATCGAACTTCC
1 AAAATCTCATTTTTGACC-TCGAACTTCC
* * *
138612 AAAAATCCCGTTTTT-ACCCTCGAACTTTCA
1 -AAAATCTCATTTTTGA-CCTCGAAC-TTCC
138642 AAAATCTCATTTTTGACCTCGAAACTTCC
1 AAAATCTCATTTTTGACCTCG-AACTTCC
* *
138671 AAAAAT-TGCATTTTT-CCCTCGAACTTCT
1 -AAAATCT-CATTTTTGACCTCGAACTTCC
* *
138699 ACAAATCCCATTTTTGACCCCGAAACTTCC
1 A-AAATCTCATTTTTGACCTCG-AACTTCC
* **
138729 AAAAAT-TCCATTTTT-ACCCCCGAGTTTCC
1 -AAAATCT-CATTTTTGA-CCTCGAACTTCC
* * *
138758 AAAATCCCATTTTCGTCCTCGAA
1 AAAATCTCATTTTTGACCTCGAA
138781 ACTCTCAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
27 1 0.01
28 33 0.25
29 43 0.32
30 55 0.41
31 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (28 bp):
AAAATCTCATTTTTGACCTCGAACTTCC
Found at i:138751 original size:30 final size:30
Alignment explanation
Indices: 138544--138747 Score: 174
Period size: 30 Copynumber: 6.9 Consensus size: 30
138534 AAAGGTCCCT
* *
138544 AAACTATCTAAAAATTCCATTTTTACCC-CT
1 AAACT-TCCAAAAATTCCATTTTTACCCTCG
* * * *
138574 AAAATT-TAAAAAATCTCATTTTTGACCATCG
1 AAACTTCCAAAAATTC-CATTTTT-ACCCTCG
* *
138605 -AACTTCCAAAAATCCCGTTTTTACCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
*
138634 -AACTTTCAAAAA-TCTCATTTTTGA-CCTCG
1 AAACTTCCAAAAATTC-CATTTTT-ACCCTCG
*
138663 AAACTTCCAAAAATTGCATTTTT-CCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* * *
138692 -AACTTCTACAAATCCCATTTTTGACCC-CG
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
138721 AAACTTCCAAAAATTCCATTTTTACCC
1 AAACTTCCAAAAATTCCATTTTTACCC
138748 CCGAGTTTCC
Statistics
Matches: 140, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
28 27 0.19
29 47 0.34
30 58 0.41
31 8 0.06
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.34
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:138790 original size:58 final size:58
Alignment explanation
Indices: 138544--138810 Score: 265
Period size: 58 Copynumber: 4.6 Consensus size: 58
138534 AAAGGTCCCT
* ** * *
138544 AAACTATCTAAAAATTCCATTTTTACCCCTAAAATTTAAAAAATCTCATTTTTGACCATCG
1 AAACT-TCCAAAAATTCCATTTTTACCCC-CGAATTTCAAAAATCCCATTTTTGACC-TCG
* * * *
138605 -AACTTCCAAAAATCCCGTTTTTACCCTCGAACTTTCAAAAATCTCATTTTTGACCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAA-TTTCAAAAATCCCATTTTTGACCTCG
* * * * *
138663 AAACTTCCAAAAATTGCATTTTT-CCCTCGAACTTCTACAAATCCCATTTTTGACCCCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAATTTC-AAAAATCCCATTTTTGACCTCG
* * * *
138721 AAACTTCCAAAAATTCCATTTTTACCCCCGAGTTTCCAAAATCCCATTTTCGTCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAATTTCAAAAATCCCATTTTTGACCTCG
*
138779 AAAC-TCTC-AAAATTACC-CTTTTACCCCCGAAT
1 AAACTTC-CAAAAATT-CCATTTTTACCCCCGAAT
138811 GTTTAAAATT
Statistics
Matches: 175, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
57 24 0.14
58 78 0.45
59 69 0.39
60 4 0.02
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (58 bp):
AAACTTCCAAAAATTCCATTTTTACCCCCGAATTTCAAAAATCCCATTTTTGACCTCG
Found at i:140986 original size:29 final size:28
Alignment explanation
Indices: 140954--141151 Score: 136
Period size: 30 Copynumber: 6.8 Consensus size: 28
140944 TAAAATTTAA
140954 AAAATCTCATTTTTGACCATCGAACTTCC
1 AAAATCTCATTTTTGACC-TCGAACTTCC
* * *
140983 AAAAATCCCGTTTTT-ACCCTCGAACTTTCA
1 -AAAATCTCATTTTTGA-CCTCGAAC-TTCC
141013 AAAATCTCATTTTTGACCTCGAAACTTCC
1 AAAATCTCATTTTTGACCTCG-AACTTCC
* *
141042 AAAAAT-TGCATTTTT-CCCTCGAACTTCT
1 -AAAATCT-CATTTTTGACCTCGAACTTCC
* *
141070 ACAAATCCCATTTTTGACCCCGAAACTTCC
1 A-AAATCTCATTTTTGACCTCG-AACTTCC
* **
141100 AAAAAT-TCCATTTTT-ACCCCCGAGTTTCC
1 -AAAATCT-CATTTTTGA-CCTCGAACTTCC
* * *
141129 AAAATCCCATTTTCGTCCTCGAA
1 AAAATCTCATTTTTGACCTCGAA
141152 ACTCTCAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
27 1 0.01
28 33 0.25
29 43 0.32
30 55 0.41
31 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (28 bp):
AAAATCTCATTTTTGACCTCGAACTTCC
Found at i:141122 original size:30 final size:30
Alignment explanation
Indices: 140915--141118 Score: 174
Period size: 30 Copynumber: 6.9 Consensus size: 30
140905 AAAGGTCCCT
* *
140915 AAACTATCTAAAAATTCCATTTTTACCC-CT
1 AAACT-TCCAAAAATTCCATTTTTACCCTCG
* * * *
140945 AAAATT-TAAAAAATCTCATTTTTGACCATCG
1 AAACTTCCAAAAATTC-CATTTTT-ACCCTCG
* *
140976 -AACTTCCAAAAATCCCGTTTTTACCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
*
141005 -AACTTTCAAAAA-TCTCATTTTTGA-CCTCG
1 AAACTTCCAAAAATTC-CATTTTT-ACCCTCG
*
141034 AAACTTCCAAAAATTGCATTTTT-CCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* * *
141063 -AACTTCTACAAATCCCATTTTTGACCC-CG
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
141092 AAACTTCCAAAAATTCCATTTTTACCC
1 AAACTTCCAAAAATTCCATTTTTACCC
141119 CCGAGTTTCC
Statistics
Matches: 140, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
28 27 0.19
29 47 0.34
30 58 0.41
31 8 0.06
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.34
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:141161 original size:58 final size:58
Alignment explanation
Indices: 140915--141181 Score: 265
Period size: 58 Copynumber: 4.6 Consensus size: 58
140905 AAAGGTCCCT
* ** * *
140915 AAACTATCTAAAAATTCCATTTTTACCCCTAAAATTTAAAAAATCTCATTTTTGACCATCG
1 AAACT-TCCAAAAATTCCATTTTTACCCC-CGAATTTCAAAAATCCCATTTTTGACC-TCG
* * * *
140976 -AACTTCCAAAAATCCCGTTTTTACCCTCGAACTTTCAAAAATCTCATTTTTGACCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAA-TTTCAAAAATCCCATTTTTGACCTCG
* * * * *
141034 AAACTTCCAAAAATTGCATTTTT-CCCTCGAACTTCTACAAATCCCATTTTTGACCCCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAATTTC-AAAAATCCCATTTTTGACCTCG
* * * *
141092 AAACTTCCAAAAATTCCATTTTTACCCCCGAGTTTCCAAAATCCCATTTTCGTCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAATTTCAAAAATCCCATTTTTGACCTCG
*
141150 AAAC-TCTC-AAAATTACC-CTTTTACCCCCGAAT
1 AAACTTC-CAAAAATT-CCATTTTTACCCCCGAAT
141182 GTTTAAAATT
Statistics
Matches: 175, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
57 24 0.14
58 78 0.45
59 69 0.39
60 4 0.02
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (58 bp):
AAACTTCCAAAAATTCCATTTTTACCCCCGAATTTCAAAAATCCCATTTTTGACCTCG
Found at i:142425 original size:60 final size:60
Alignment explanation
Indices: 142332--142455 Score: 239
Period size: 60 Copynumber: 2.1 Consensus size: 60
142322 TGAAACTATT
*
142332 CCTTCGTGAGGTGTTCACCTCCGTGCAGGATAGTGGATCGCTTTCGGGATTACAAAGTGC
1 CCTTCGTGAGGTCTTCACCTCCGTGCAGGATAGTGGATCGCTTTCGGGATTACAAAGTGC
142392 CCTTCGTGAGGTCTTCACCTCCGTGCAGGATAGTGGATCGCTTTCGGGATTACAAAGTGC
1 CCTTCGTGAGGTCTTCACCTCCGTGCAGGATAGTGGATCGCTTTCGGGATTACAAAGTGC
142452 CCTT
1 CCTT
142456 GTTTTCGTGA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.29
Consensus pattern (60 bp):
CCTTCGTGAGGTCTTCACCTCCGTGCAGGATAGTGGATCGCTTTCGGGATTACAAAGTGC
Done.