Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000846.1 Hibiscus syriacus cultivar Beakdansim tig00001630_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: 988667
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:727536 original size:83 final size:83
Alignment explanation
Indices: 727397--727573 Score: 282
Period size: 83 Copynumber: 2.1 Consensus size: 83
727387 CCCATAGATA
* * * * *
727397 AATAAAAGTAATTCGTACTCGAAAGTGCCCATATCAATATGCACCGTAGGTGCTACACGTGAAGT
1 AATAAAAGTAATCCGCACTCGAAAGTGCCCATATCAATATACACCATAGGTGCTACACATGAAGT
727462 ACAAAAATGTATTATATC
66 ACAAAAATGTATTATATC
*
727480 AATAATAGTAATCCGCACTCGAAAGTGCCCATATCAATATACACCATAGGTGCTACACATGAAGT
1 AATAAAAGTAATCCGCACTCGAAAGTGCCCATATCAATATACACCATAGGTGCTACACATGAAGT
*
727545 ACACAAATGTATTATATC
66 ACAAAAATGTATTATATC
*
727563 AATAACAGTAA
1 AATAAAAGTAA
727574 ACAGTGATCA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 86 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (83 bp):
AATAAAAGTAATCCGCACTCGAAAGTGCCCATATCAATATACACCATAGGTGCTACACATGAAGT
ACAAAAATGTATTATATC
Found at i:731556 original size:545 final size:545
Alignment explanation
Indices: 730523--731616 Score: 1877
Period size: 545 Copynumber: 2.0 Consensus size: 545
730513 AATTCAGTAT
* *
730523 AGTC-CCCAAGGCTTTATTCAAAAACTTCCAAAATCTCAAAGTAAACCTTGGGTATCTATCAGAT
1 AGTCTCCCAAGGCTTTATGCAAAAACTTCCAAAATCTCAAAGTAAACCTTAGGTATCTATCAGAT
*
730587 ACTATCGATAAAAATACTCCATGAAGTCACACAATCTCCCCTATATACAACTTAGCATACTTATC
66 ACTATCGATAAAAATACTCCATAAAGTCACACAATCTCCCCTATATACAACTTAGCATACTTATC
* * * * *
730652 CATTGAGTAGTCGGCTCGAACTGGAATAACGTGTGTTAATTTAGTCAACCTATCCAGAATCATCT
131 CATCGAGTAGTCAGCTCGAACTGGAATAAAGTGTGTTAATTTAGTCAACCTATCCACAATCATCC
*
730717 AGATTGAGTATTTCTTATTGGGTGTCAAAGGTAAACCTGTCATGAAATCCATAGTAACTCTTTCC
196 AGATCGAGTATTTCTTATTGGGTGTCAAAGGTAAACCTGTCATGAAATCCATAGTAACTCTTTCC
* * * * *
730782 TATTTCCATGAAGGAATGGAAATAGGTTGTAGTAGTCTAGATGACACTTGGTGTTATACTTTTAT
261 CATTTCCATGAAGGAATAGAAATAGGTTGCAGTAGTCTAGATGACACTTGATGTTATACTTATAT
* *
730847 ATGTTGACATGTCAAACACTTGGAAACAAACTCAGTTATAGCCCTTTTCATGCCTGCCCACCAAT
326 ATGCTGACATGTCAAACACTTGGAAACAAACTCAGTTATAGCCCTTTTCATGCCTACCCACCAAT
*
730912 ATATTCTCTTTAAATCTTGGTACCTTTTATTTCCTCCTGGATGTATTGCCGAAGGTCTAAAATGA
391 ATATGCTCTTTAAATCTTGGTACCTTTTATTTCCTCCTGGATGTATTGCCGAAGGTCTAAAATGA
730977 ACTTTAGAAAGAAGATCCTGCTTTTATTATTCATCATTAGGAATACAAATTGACCTCGATAATAT
456 ACTTTAGAAAGAAGATCCTGCTTTTATTATTCATCATTAGGAATACAAATTGACCTCGATAATAT
*
731042 AAATATTCATCAGATTTAACTTTAA
521 AAACATTCATCAGATTTAACTTTAA
* *
731067 AGTCTCCCAAGGCTTTATGCAAAGACTTCCAAAATCTCAAATTAAACCTTAGGTATCTATCAGAT
1 AGTCTCCCAAGGCTTTATGCAAAAACTTCCAAAATCTCAAAGTAAACCTTAGGTATCTATCAGAT
* * * * *
731132 GCTATCGATAAAAGTACTCTATAAAGTCACACAATCTCCCTTATATACAACTTGGCATACTTATC
66 ACTATCGATAAAAATACTCCATAAAGTCACACAATCTCCCCTATATACAACTTAGCATACTTATC
* *
731197 CATCGAGTAGTTAGCTCGAACTGGAATAAAGTGTGTTGATTTAGTCAACCTATCCACAATCATCC
131 CATCGAGTAGTCAGCTCGAACTGGAATAAAGTGTGTTAATTTAGTCAACCTATCCACAATCATCC
* *
731262 AGATCGAGTCTTTCTTATTGGGTGTCAAAGGTAAACCTGTCGTGAAATCCATAGTAACTCTTTCC
196 AGATCGAGTATTTCTTATTGGGTGTCAAAGGTAAACCTGTCATGAAATCCATAGTAACTCTTTCC
* *
731327 CATTTCCATTG-AGGAATAGAAATAGGTTGCAGTAGTCTAGGTGTCACTTGATGTTATACTTATA
261 CATTTCCA-TGAAGGAATAGAAATAGGTTGCAGTAGTCTAGATGACACTTGATGTTATACTTATA
*
731391 TATGCTGACATGTCAAACACTTGGAAACAAACTCATTTATAGCCCTTTTCATGCCTACCCACCAA
325 TATGCTGACATGTCAAACACTTGGAAACAAACTCAGTTATAGCCCTTTTCATGCCTACCCACCAA
731456 TATATGCTCTTTAAATCTTGGTACCTTTTATTTCCTCCTGGATGTATTGCCGAAGGTCTAAAATG
390 TATATGCTCTTTAAATCTTGGTACCTTTTATTTCCTCCTGGATGTATTGCCGAAGGTCTAAAATG
731521 AACTTTAGAAAGAAGATCCTGCTTTTATTATTCATCATTAGGAATACAAATTGACCTCGATAATA
455 AACTTTAGAAAGAAGATCCTGCTTTTATTATTCATCATTAGGAATACAAATTGACCTCGATAATA
731586 TAAACATTCATCAGATTTAACTTTAA
520 TAAACATTCATCAGATTTAACTTTAA
731612 AGTCT
1 AGTCT
731617 TTAGTTTTGC
Statistics
Matches: 516, Mismatches: 32, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
544 4 0.01
545 510 0.99
546 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (545 bp):
AGTCTCCCAAGGCTTTATGCAAAAACTTCCAAAATCTCAAAGTAAACCTTAGGTATCTATCAGAT
ACTATCGATAAAAATACTCCATAAAGTCACACAATCTCCCCTATATACAACTTAGCATACTTATC
CATCGAGTAGTCAGCTCGAACTGGAATAAAGTGTGTTAATTTAGTCAACCTATCCACAATCATCC
AGATCGAGTATTTCTTATTGGGTGTCAAAGGTAAACCTGTCATGAAATCCATAGTAACTCTTTCC
CATTTCCATGAAGGAATAGAAATAGGTTGCAGTAGTCTAGATGACACTTGATGTTATACTTATAT
ATGCTGACATGTCAAACACTTGGAAACAAACTCAGTTATAGCCCTTTTCATGCCTACCCACCAAT
ATATGCTCTTTAAATCTTGGTACCTTTTATTTCCTCCTGGATGTATTGCCGAAGGTCTAAAATGA
ACTTTAGAAAGAAGATCCTGCTTTTATTATTCATCATTAGGAATACAAATTGACCTCGATAATAT
AAACATTCATCAGATTTAACTTTAA
Found at i:744880 original size:23 final size:23
Alignment explanation
Indices: 744854--744900 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
744844 GTCCATTCAT
744854 ACACCTGATGCATTTCCACCTTC
1 ACACCTGATGCATTTCCACCTTC
*
744877 ACACCTGATGCATTTCCACTTTC
1 ACACCTGATGCATTTCCACCTTC
744900 A
1 A
744901 TGAATCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.36, G:0.09, T:0.32
Consensus pattern (23 bp):
ACACCTGATGCATTTCCACCTTC
Found at i:750092 original size:7 final size:7
Alignment explanation
Indices: 750080--750120 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
750070 ATTGACTTAC
750080 CCGTTGA
1 CCGTTGA
750087 CCGTTGA
1 CCGTTGA
750094 CCGTTGA
1 CCGTTGA
*
750101 CC--TGC
1 CCGTTGA
750106 CCGTTGA
1 CCGTTGA
750113 CCGTTGA
1 CCGTTGA
750120 C
1 C
750121 TTTGACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 4 0.13
7 26 0.87
ACGTcount: A:0.12, C:0.34, G:0.27, T:0.27
Consensus pattern (7 bp):
CCGTTGA
Found at i:750100 original size:26 final size:26
Alignment explanation
Indices: 750071--750120 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
750061 GACATGATCA
*
750071 TTGACTTACCCGTTGACCGTTGACCG
1 TTGACCTACCCGTTGACCGTTGACCG
*
750097 TTGACCTGCCCGTTGACCGTTGAC
1 TTGACCTACCCGTTGACCGTTGAC
750121 TTTGACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.24, T:0.30
Consensus pattern (26 bp):
TTGACCTACCCGTTGACCGTTGACCG
Found at i:755969 original size:22 final size:22
Alignment explanation
Indices: 755929--755970 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
755919 TTGGTGCTGG
*
755929 AAACAAGATATAAATAAGATTA
1 AAACAAGATATAAAAAAGATTA
755951 AAACAAGATA-AAGAAAAGAT
1 AAACAAGATATAA-AAAAGAT
755971 AAATGAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.67, C:0.05, G:0.12, T:0.17
Consensus pattern (22 bp):
AAACAAGATATAAAAAAGATTA
Found at i:757546 original size:9 final size:9
Alignment explanation
Indices: 757532--757558 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
757522 AAGTATGGAT
757532 AGAAATATC
1 AGAAATATC
757541 AGAAATATC
1 AGAAATATC
757550 AGAAATATC
1 AGAAATATC
757559 CGAGTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (9 bp):
AGAAATATC
Found at i:760188 original size:12 final size:12
Alignment explanation
Indices: 760171--760210 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
760161 AAATTTTGGC
760171 TTTTTTGGCTTT
1 TTTTTTGGCTTT
*
760183 TTTTTT-GTTTT
1 TTTTTTGGCTTT
*
760194 TTTTTTGCCTTT
1 TTTTTTGGCTTT
760206 TTTTT
1 TTTTT
760211 GTTTTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.82
Consensus pattern (12 bp):
TTTTTTGGCTTT
Found at i:760206 original size:22 final size:22
Alignment explanation
Indices: 760171--760222 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
760161 AAATTTTGGC
* *
760171 TTTTTTGGCTTTTTTTTTGTTT
1 TTTTTTTGCCTTTTTTTTGTTT
760193 TTTTTTTGCCTTTTTTTTGTTT
1 TTTTTTTGCCTTTTTTTTGTTT
760215 TTTGTTTT
1 TTT-TTTT
760223 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.83
Consensus pattern (22 bp):
TTTTTTTGCCTTTTTTTTGTTT
Found at i:760217 original size:11 final size:11
Alignment explanation
Indices: 760180--760222 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
760170 CTTTTTTGGC
760180 TTTTTTTTTGT
1 TTTTTTTTTGT
*
760191 TTTTTTTTTGC
1 TTTTTTTTTGT
*
760202 CTTTTTTTTGT
1 TTTTTTTTTGT
760213 TTTTTGTTTT
1 TTTTT-TTTT
760223 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 23 0.85
12 4 0.15
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:760567 original size:11 final size:11
Alignment explanation
Indices: 760543--760587 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
760533 TTGGTGCTAG
760543 AAACAAGATAA
1 AAACAAGATAA
* *
760554 AAATAAGATTA
1 AAACAAGATAA
760565 AAACAAGATAA
1 AAACAAGATAA
760576 AGAA-AAGATAA
1 A-AACAAGATAA
760587 A
1 A
760588 TGAATTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:760571 original size:22 final size:22
Alignment explanation
Indices: 760543--760584 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
760533 TTGGTGCTAG
760543 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
760565 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
760585 AAATGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:762459 original size:48 final size:47
Alignment explanation
Indices: 762310--762460 Score: 134
Period size: 48 Copynumber: 3.2 Consensus size: 47
762300 CTCCCAGGTC
* *
762310 TGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTTTTTTCCAAGATT
1 TGATATTCCCTTCAGAACAAGTGGAACATGTCCCTCTTTTCCAAGA-T
* * * * *
762358 TGATATTCCC-TAAGTAACAA-CGG-A-ATGAAT-CCACTATACC-AGAT
1 TGATATTCCCTTCAG-AACAAGTGGAACATG--TCCCTCTTTTCCAAGAT
*
762402 CTGATATTCCCTTCAGAACAAGTGGAACATGTCCCTCTTTTCCAAAAGT
1 -TGATATTCCCTTCAGAACAAGTGGAACATGTCCCTCTTTTCCAAGA-T
762451 TGATATTCCC
1 TGATATTCCC
762461 CGAGTGACAG
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
44 1 0.01
45 21 0.27
46 13 0.16
47 14 0.18
48 29 0.37
49 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (47 bp):
TGATATTCCCTTCAGAACAAGTGGAACATGTCCCTCTTTTCCAAGAT
Found at i:762475 original size:93 final size:93
Alignment explanation
Indices: 762270--762475 Score: 288
Period size: 93 Copynumber: 2.2 Consensus size: 93
762260 AGATTCAATC
* * * * *
762270 TTCCCAGAGTGACAACGGAATGGATCAACTCTCCCAGGTCTGATATTCCCTTCAGAAGAAGTGGA
1 TTCCCAGAGTGACAACGGAATGAATCAACTATACCAGATCTGATATTCCCTTCAGAACAAGTGGA
* * *
762335 ACATGTCCCTTTTTTCCAAGATTTGATA
66 ACATGTCCCTCTTTTCCAAAAGTTGATA
* *
762363 TTCCCTA-AGTAACAACGGAATGAATCCACTATACCAGATCTGATATTCCCTTCAGAACAAGTGG
1 TTCCC-AGAGTGACAACGGAATGAATCAACTATACCAGATCTGATATTCCCTTCAGAACAAGTGG
762427 AACATGTCCCTCTTTTCCAAAAGTTGATA
65 AACATGTCCCTCTTTTCCAAAAGTTGATA
* *
762456 TTCCCCGAGTGACAGCGGAA
1 TTCCCAGAGTGACAACGGAA
762476 CAAGTCTACC
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
93 97 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (93 bp):
TTCCCAGAGTGACAACGGAATGAATCAACTATACCAGATCTGATATTCCCTTCAGAACAAGTGGA
ACATGTCCCTCTTTTCCAAAAGTTGATA
Found at i:762566 original size:227 final size:227
Alignment explanation
Indices: 762171--762605 Score: 665
Period size: 227 Copynumber: 1.9 Consensus size: 227
762161 TTTAATTTAA
* * * *
762171 AGATCTGATATTCCCTTCAGAAGAAGCGAAACAAGTCCCTATTTTCCAAGATTTGATATTCCCTG
1 AGATCTGATATTCCCTTCAGAACAAGCGAAACAAGTCCCTATTTTCCAAAAGTTGATATTCCCCG
* * *
762236 AGTGATAACAGAACAAGTCTGCCCAGATTCAATCTTCCCAGAGTGACAACGGAATGGATCAACTC
66 AGTGACAACAGAACAAGTCTACCCAGATTCAATCTTCCCAGAGTGACAACAGAATGGATCAACTC
* * *
762301 TCCCAGGTCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTTTTTTCCAAGATTTGATATTC
131 TCCCAGATCTGATATTCCCTTCAGAAGAACTGGAACATGTCCCTCTTTTCCAAGATTTGATATTC
762366 CCTAAGTAACAACGGAATGAATCCACTATACC
196 CCTAAGTAACAACGGAATGAATCCACTATACC
* * * *
762398 AGATCTGATATTCCCTTCAGAACAAGTGGAACATGTCCCTCTTTTCCAAAAGTTGATATTCCCCG
1 AGATCTGATATTCCCTTCAGAACAAGCGAAACAAGTCCCTATTTTCCAAAAGTTGATATTCCCCG
* * * * *
762463 AGTGACAGCGGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGATAACAGAATGGATCAACTC
66 AGTGACAACAGAACAAGTCTACCCAGATTCAATCTTCCCAGAGTGACAACAGAATGGATCAACTC
762528 -CTCCAGATCTGATATTCCCTTCAGAAGAACTGGAACATGTCCCTCTTTTCCAAGATTTGATATT
131 TC-CCAGATCTGATATTCCCTTCAGAAGAACTGGAACATGTCCCTCTTTTCCAAGATTTGATATT
* *
762592 CCCTGAGTGACAAC
195 CCCTAAGTAACAAC
762606 AGAACAAGTC
Statistics
Matches: 186, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
226 1 0.01
227 185 0.99
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (227 bp):
AGATCTGATATTCCCTTCAGAACAAGCGAAACAAGTCCCTATTTTCCAAAAGTTGATATTCCCCG
AGTGACAACAGAACAAGTCTACCCAGATTCAATCTTCCCAGAGTGACAACAGAATGGATCAACTC
TCCCAGATCTGATATTCCCTTCAGAAGAACTGGAACATGTCCCTCTTTTCCAAGATTTGATATTC
CCTAAGTAACAACGGAATGAATCCACTATACC
Found at i:762603 original size:134 final size:133
Alignment explanation
Indices: 762396--762815 Score: 601
Period size: 134 Copynumber: 3.1 Consensus size: 133
762386 ATCCACTATA
* * *
762396 CCAGATCTGATATTCCCTTCAGAACAAGTGGAACATGTCCCTCTTTTCCAAAAGTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCC
*
762461 CGAGTGACAGCGGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGATAACAGAATGGATCAAC
66 TGAGTGACAGCGGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGATAA-AGAATGGATCAAC
762526 TCCT
130 TCCT
*
762530 CCAGATCTGATATTCCCTTCAGAAGAACTGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCC
* * * ** *
762595 TGAGTGACAACAGAACAAGTCTACCCCGATTCAATCTTCCCTAAGTGATAGTGGAGTGGATCAAC
66 TGAGTGACAGCGGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGATA-AAGAATGGATCAAC
762660 TCCT
130 TCCT
* * *
762664 CCAGATCTGATATTCCCTTCCGAAGAAGTAGAACATGTCCATCTTTTCCAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCC
* * * * * *
762729 TGAGTGACAGCGGAATAAGTCTGCTCCTATTCAATCTT-CCTGGAGTGACAGATGAATGGATCAA
66 TGAGTGACAGCGGAACAAGTCTACCCCGATTCAATCTTCCCT-GAGTGATA-AAGAATGGATCAA
762793 CATCC-
129 C-TCCT
762798 CCAGATCTGATATTCCCT
1 CCAGATCTGATATTCCCT
762816 GAGTGACAGC
Statistics
Matches: 257, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
133 3 0.01
134 251 0.98
135 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (133 bp):
CCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCC
TGAGTGACAGCGGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGATAAAGAATGGATCAACT
CCT
Found at i:762976 original size:3 final size:3
Alignment explanation
Indices: 762968--763063 Score: 185
Period size: 3 Copynumber: 32.3 Consensus size: 3
762958 TCCCATTCGA
762968 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
763016 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
763063 T
1 T
763064 CAGATCCAAT
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 90 0.98
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:765940 original size:78 final size:78
Alignment explanation
Indices: 765806--765963 Score: 246
Period size: 78 Copynumber: 2.0 Consensus size: 78
765796 TCTTAATCAG
* * * *
765806 GAAATTATTGAGAAATAATCTTTCATTGAAAAGAAAAGATTTTAGGCGACTAAAAGGAGTGACAT
1 GAAAGTATTGAGAAATAATCTTCCATGGAAAAGAAAAGATTTTAGGCGACTAAAAGGAGTGAAAT
765871 CTAAGAGCGGTGT
66 CTAAGAGCGGTGT
* *
765884 GAAAGTATTGAGGAATAATCTTCCATGGAAAAGAGAAA-ATTTTAGGCGACTAAAAGGAGTTAAA
1 GAAAGTATTGAGAAATAATCTTCCATGGAAAAGA-AAAGATTTTAGGCGACTAAAAGGAGTGAAA
765948 TCTAAGAGCGGTGT
65 TCTAAGAGCGGTGT
765962 GA
1 GA
765964 TTACTTAGTC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
78 70 0.96
79 3 0.04
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (78 bp):
GAAAGTATTGAGAAATAATCTTCCATGGAAAAGAAAAGATTTTAGGCGACTAAAAGGAGTGAAAT
CTAAGAGCGGTGT
Found at i:766463 original size:19 final size:19
Alignment explanation
Indices: 766411--766463 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
766401 ACGTAACATG
766411 AGTTCATAATGAGAAGAATT
1 AGTTCATAATGAG-AGAATT
*
766431 AGTCCATAGA-GAGAGAA-T
1 AGTTCATA-ATGAGAGAATT
766449 ATGTTCATAATGAGA
1 A-GTTCATAATGAGA
766464 ATAATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 3 0.11
19 14 0.50
20 10 0.36
21 1 0.04
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (19 bp):
AGTTCATAATGAGAGAATT
Found at i:768035 original size:2 final size:2
Alignment explanation
Indices: 768028--768068 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
768018 ATTCGGACAC
768028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
768069 ATTCAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:768453 original size:6 final size:6
Alignment explanation
Indices: 768421--768450 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
768411 AATGAAAGAA
*
768421 TGAAGT TGAAGT TGAAGT TGAAGT GGAAGT
1 TGAAGT TGAAGT TGAAGT TGAAGT TGAAGT
768451 GGATTGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (6 bp):
TGAAGT
Found at i:769747 original size:18 final size:18
Alignment explanation
Indices: 769724--769770 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
769714 TAGTTTGATT
*
769724 AATGAAATAAAATCATTC
1 AATGAACTAAAATCATTC
** *
769742 AATGAACTAATTTTATTC
1 AATGAACTAAAATCATTC
769760 AATGAACTAAA
1 AATGAACTAAA
769771 TGCATGAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (18 bp):
AATGAACTAAAATCATTC
Found at i:769843 original size:17 final size:17
Alignment explanation
Indices: 769823--769857 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
769813 GAACAACTTC
769823 CCTAAATGAAATACATG
1 CCTAAATGAAATACATG
* *
769840 CCTAAATGCAATGCATG
1 CCTAAATGAAATACATG
769857 C
1 C
769858 TTTAATGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (17 bp):
CCTAAATGAAATACATG
Found at i:771198 original size:80 final size:80
Alignment explanation
Indices: 771101--771262 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
771091 CAAGTTGGAC
*
771101 ATGATATTGAGTCCCCACTAACTTCTATGTGTGATGAGGCACTTCCATGCGAATTTGTCTACAAG
1 ATGATATTGAGTCCCCACTAACTTCTATGTGTGATGAGGCACTTCCATGCGAATTTGTATACAAG
*
771166 CCTTGGTGTATCCGT
66 CCTTGGCGTATCCGT
771181 ATGATATTGAGTCCCCACTAACTTCTATGTGTGATGAGGCACTTCCATGCGAATTTGTATACAAG
1 ATGATATTGAGTCCCCACTAACTTCTATGTGTGATGAGGCACTTCCATGCGAATTTGTATACAAG
771246 CCTTGGCGTATCCGT
66 CCTTGGCGTATCCGT
771261 AT
1 AT
771263 CATAAGTGTA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (80 bp):
ATGATATTGAGTCCCCACTAACTTCTATGTGTGATGAGGCACTTCCATGCGAATTTGTATACAAG
CCTTGGCGTATCCGT
Found at i:771793 original size:19 final size:19
Alignment explanation
Indices: 771741--771796 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
771731 ACAGACTTAC
*
771741 ACCTAAAAATCTGGATTCAA
1 ACCT-AAAATCTGGTTTCAA
*
771761 ACCTAAAATCTGGTTTCCA
1 ACCTAAAATCTGGTTTCAA
*
771780 TCCTAAAATCTGGTTTC
1 ACCTAAAATCTGGTTTC
771797 TCCAACACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 29 0.88
20 4 0.12
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (19 bp):
ACCTAAAATCTGGTTTCAA
Found at i:775989 original size:36 final size:36
Alignment explanation
Indices: 775942--776011 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 36
775932 TGCATACGAA
775942 ACATAGTTTTAGAAATATCCT-TGCTCTTGACCTTAG
1 ACATAGTTTTAGAAATATCCTCT-CTCTTGACCTTAG
775978 ACATAGTTTTAGAAATATCCTCTCTCTTGACCTT
1 ACATAGTTTTAGAAATATCCTCTCTCTTGACCTT
776012 CAATTGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (36 bp):
ACATAGTTTTAGAAATATCCTCTCTCTTGACCTTAG
Found at i:778655 original size:45 final size:45
Alignment explanation
Indices: 778591--778873 Score: 431
Period size: 45 Copynumber: 6.3 Consensus size: 45
778581 TGTTTCATTA
*
778591 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGAGGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
778636 CATAAATGAAATGTATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * *
778681 CATAAATGAAATGCACAACGGTGCATTAAAGGTATGAAATGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
778726 CATAAATGAAATGCATAACGGTTCATTAAAGGCATGAAAGGATTC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* ** * *
778771 CATAAATGAAATACATAAAAGTGCATCAAAGGCATGAAAGGATAC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
778816 CATAAATGAAATGCATAACGGTGCATTAATGCCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
778861 CATAAATGGAAAT
1 CATAAAT-GAAAT
778874 ATTGAATAAT
Statistics
Matches: 213, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
45 208 0.98
46 5 0.02
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:780021 original size:19 final size:19
Alignment explanation
Indices: 779975--780036 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
779965 CAAAAATATT
*
779975 GTTTCCAACCTAAAATCTA
1 GTTTCCAACCTAAAATCTG
**
779994 AATTCCAACCTAAAATCTG
1 GTTTCCAACCTAAAATCTG
* *
780013 GTTTTCAACCTAAAATTTG
1 GTTTCCAACCTAAAATCTG
780032 GTTTC
1 GTTTC
780037 TCCAACACAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (19 bp):
GTTTCCAACCTAAAATCTG
Found at i:781645 original size:30 final size:30
Alignment explanation
Indices: 781569--781645 Score: 101
Period size: 25 Copynumber: 2.7 Consensus size: 30
781559 AGCATTAAAA
781569 TCCTAAATAATAACAAAATTATTGGTTTAG
1 TCCTAAATAATAACAAAATTATTGGTTTAG
**
781599 TCCT---T-A-AAGGAAATTATTGGTTTAG
1 TCCTAAATAATAACAAAATTATTGGTTTAG
781624 TCCTAAATAATAACAAAATTAT
1 TCCTAAATAATAACAAAATTAT
781646 AACCAATGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
25 21 0.55
26 1 0.03
27 1 0.03
28 1 0.03
29 1 0.03
30 13 0.34
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (30 bp):
TCCTAAATAATAACAAAATTATTGGTTTAG
Found at i:783043 original size:21 final size:21
Alignment explanation
Indices: 783017--783057 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
783007 CAATAAACCC
*
783017 CTTCAT-AAAATGGTCTTAACT
1 CTTCATCAAAA-GGTCATAACT
783038 CTTCATCAAAAGGTCATAAC
1 CTTCATCAAAAGGTCATAAC
783058 ATTTTGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (21 bp):
CTTCATCAAAAGGTCATAACT
Found at i:785344 original size:46 final size:46
Alignment explanation
Indices: 785277--785368 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
785267 CGCCATGGGG
785277 TGCGCCGACTATCCCAACACTTACACAACTTTAAATATATAAGTTA
1 TGCGCCGACTATCCCAACACTTACACAACTTTAAATATATAAGTTA
* * *
785323 TGCGCCGACTGTCCCAACACTTACATAACTTTAAATATCTAAGTTA
1 TGCGCCGACTATCCCAACACTTACACAACTTTAAATATATAAGTTA
785369 ACTTAACATC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (46 bp):
TGCGCCGACTATCCCAACACTTACACAACTTTAAATATATAAGTTA
Found at i:792429 original size:75 final size:77
Alignment explanation
Indices: 792339--792490 Score: 195
Period size: 75 Copynumber: 2.0 Consensus size: 77
792329 TTCGAGTTAA
* *
792339 TTAAATTCTTATTTAATTAATTC-AAATTAAATATCCATT-AAAGATTTATAAT-ATGAATTGCA
1 TTAAACTCTTATTTAATT-ATTCTAAATTAAATATCCATTAAAAGAGTTATAATCA-GAATTGCA
792401 CT-TTTTAACGTTT
64 CTCTTTTAACGTTT
* * * *
792414 TTAAACTCTTATTTAATTATTCTGAGTTAAATATCCATTAAAAGAGTTGTAATCAGAATTGCATT
1 TTAAACTCTTATTTAATTATTCTAAATTAAATATCCATTAAAAGAGTTATAATCAGAATTGCACT
*
792479 CTTTTAATGTTT
66 CTTTTAACGTTT
792491 ATTTATTATA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
74 4 0.06
75 31 0.47
76 20 0.30
77 11 0.17
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (77 bp):
TTAAACTCTTATTTAATTATTCTAAATTAAATATCCATTAAAAGAGTTATAATCAGAATTGCACT
CTTTTAACGTTT
Found at i:794888 original size:17 final size:17
Alignment explanation
Indices: 794858--794890 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
794848 ATCGAATGGA
794858 CTCGACTCGAACTCGAG
1 CTCGACTCGAACTCGAG
794875 CTCGAGCTCG-ACTCGA
1 CTCGA-CTCGAACTCGA
794891 ATTCTTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.18
Consensus pattern (17 bp):
CTCGACTCGAACTCGAG
Found at i:799109 original size:69 final size:69
Alignment explanation
Indices: 798998--799139 Score: 275
Period size: 69 Copynumber: 2.1 Consensus size: 69
798988 ACTCATTCAT
798998 CCTTCCTCATAATACTACTTGGGCCTTCATAACTCCAGTTAAATATGGACCTGAAATTGATTTTA
1 CCTTCCTCATAATACTACTTGGGCCTTCATAACTCCAGTTAAATATGGACCTGAAATTGATTTTA
799063 AACC
66 AACC
*
799067 CCTTCCTCATAATACTACTTGGGCCTTCATAACTCCAGTTAAATATGGCCCTGAAATTGATTTTA
1 CCTTCCTCATAATACTACTTGGGCCTTCATAACTCCAGTTAAATATGGACCTGAAATTGATTTTA
799132 AACC
66 AACC
799136 CCTT
1 CCTT
799140 TAAATTACTA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (69 bp):
CCTTCCTCATAATACTACTTGGGCCTTCATAACTCCAGTTAAATATGGACCTGAAATTGATTTTA
AACC
Found at i:804157 original size:11 final size:10
Alignment explanation
Indices: 804143--804198 Score: 53
Period size: 9 Copynumber: 5.7 Consensus size: 10
804133 AATTTTGGTT
804143 TTTTTTTTTGG
1 TTTTTTTTT-G
804154 TTTTTTTTTG
1 TTTTTTTTTG
***
804164 TTTTTGCCT-
1 TTTTTTTTTG
*
804173 TTTTTTGTT-
1 TTTTTTTTTG
804182 TTTTTTTTTG
1 TTTTTTTTTG
804192 TTTTTTT
1 TTTTTTT
804199 GAAAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
9 14 0.38
10 14 0.38
11 9 0.24
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:804161 original size:17 final size:18
Alignment explanation
Indices: 804141--804187 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
804131 GAAATTTTGG
*
804141 TTTTTTTTTTTG-GTTTT
1 TTTTTTTTTTTGCCTTTT
*
804158 TTTTTGTTTTTGCCTTTT
1 TTTTTTTTTTTGCCTTTT
804176 TTTGTTTTTTTT
1 TTT-TTTTTTTT
804188 TTTGTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.44
18 7 0.28
19 7 0.28
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTGCCTTTT
Found at i:806162 original size:19 final size:20
Alignment explanation
Indices: 806123--806162 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
806113 AAGTTCATTG
*
806123 TTTTCAGGTTATTTTTCAAT
1 TTTTCAGGTTAGTTTTCAAT
*
806143 TTTTCAGTTTAGTTTT-AAT
1 TTTTCAGGTTAGTTTTCAAT
806162 T
1 T
806163 AATTCTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.62
Consensus pattern (20 bp):
TTTTCAGGTTAGTTTTCAAT
Found at i:806271 original size:17 final size:17
Alignment explanation
Indices: 806240--806273 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
806230 TAAAAAAGGC
*
806240 ACAAAAAAGAGAAAAAA
1 ACAAAAAAAAGAAAAAA
*
806257 ACAAAAAAAATAAAAAA
1 ACAAAAAAAAGAAAAAA
806274 TAAAGAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.06, G:0.06, T:0.03
Consensus pattern (17 bp):
ACAAAAAAAAGAAAAAA
Found at i:808638 original size:20 final size:20
Alignment explanation
Indices: 808613--808876 Score: 105
Period size: 20 Copynumber: 11.7 Consensus size: 20
808603 TAAATGAAAT
*
808613 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * *
808633 GCATGAAATGATACCATAAATTAAAT
1 GCATGAAAGGAT-GC----ATT-AAG
*
808659 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
808679 TCATGAAAGGATGCAATAAATGAAAT
1 GCATGAAAGGATGC-AT---T--AAG
808705 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
808725 GCATGAAAGGATGTCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
808751 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * * *
808771 GTATAAAAGGGTGCCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
808797 GCATGAAAGGATGCACTAAG
1 GCATGAAAGGATGCATTAAG
* *
808817 GCATGAAATGATGTCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
808843 GCATGAAAGGATACATTAAG
1 GCATGAAAGGATGCATTAAG
*
808863 GTATGAAAGGATGC
1 GCATGAAAGGATGC
808877 CATAAATGAA
Statistics
Matches: 186, Mismatches: 28, Indels: 60
0.68 0.10 0.22
Matches are distributed among these distances:
20 81 0.44
21 14 0.08
22 4 0.02
24 4 0.02
25 14 0.08
26 69 0.37
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:808659 original size:46 final size:46
Alignment explanation
Indices: 808602--808981 Score: 544
Period size: 46 Copynumber: 8.2 Consensus size: 46
808592 AAACGAATCA
* * *
808602 ATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAATGATACC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* * * *
808648 ATAAATTAAATGCATGAAATGATGCATTAAGTCATGAAAGGATGCA
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
*
808694 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* * *
808740 ATAAATGAAATGCATGAAAGGATGCATTAAGGTATAAAAGGGTGCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* * *
808786 ATAAATGAAATGCATGAAAGGATGCACTAAGGCATGAAATGATGTC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* *
808832 ATAAATGAAATGCATGAAAGGATACATTAAGGTATGAAAGGATGCC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
** * *
808878 ATAAATGAAATGCATGAAAGGATGTGTTAAGGCATTAAAGGATGAC
1 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* * *
808924 ATAAATGAAATGCATGAAATGATGCATTAAAGGAATGAAAAGATGCC
1 ATAAATGAAATGCATGAAAGGATGCATT-AAGGCATGAAAGGATGCC
808971 ATAAATGAAAT
1 ATAAATGAAAT
808982 TAATGAATAT
Statistics
Matches: 295, Mismatches: 38, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
46 270 0.92
47 25 0.08
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (46 bp):
ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
Found at i:808756 original size:26 final size:25
Alignment explanation
Indices: 808647--808981 Score: 152
Period size: 26 Copynumber: 14.5 Consensus size: 25
808637 GAAATGATAC
* *
808647 CATAAATTAAATGCATGAAATGATG
1 CATAAATGAAATGCATGAAAGGATG
*
808672 CAT---T-AAGT-CATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
808692 CAATAAATGAAATGCATGAAAGGATG
1 C-ATAAATGAAATGCATGAAAGGATG
*
808718 CAT---T--AAGGCATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
808738 TCATAAATGAAATGCATGAAAGGATG
1 -CATAAATGAAATGCATGAAAGGATG
* * * *
808764 CAT---T--AAGGTATAAAAGGGTG
1 CATAAATGAAATGCATGAAAGGATG
808784 CCATAAATGAAATGCATGAAAGGATG
1 -CATAAATGAAATGCATGAAAGGATG
808810 CACTAAGGCATGAAATG-AT-----G-T-
1 CA-TAA---ATGAAATGCATGAAAGGATG
*
808831 CATAAATGAAATGCATGAAAGGATA
1 CATAAATGAAATGCATGAAAGGATG
* *
808856 CAT---T--AAGGTATGAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
808876 CCATAAATGAAATGCATGAAAGGATG
1 -CATAAATGAAATGCATGAAAGGATG
* * * *
808902 --T--GT-TAAGGCATTAAAGGATG
1 CATAAATGAAATGCATGAAAGGATG
*
808922 ACATAAATGAAATGCATGAAATGATG
1 -CATAAATGAAATGCATGAAAGGATG
*
808948 CATTAAA-GGAATG-A--AAA-GATG
1 CA-TAAATGAAATGCATGAAAGGATG
808969 CCATAAATGAAAT
1 -CATAAATGAAAT
808982 TAATGAATAT
Statistics
Matches: 236, Mismatches: 29, Indels: 93
0.66 0.08 0.26
Matches are distributed among these distances:
17 8 0.03
18 2 0.01
20 69 0.29
21 25 0.11
22 14 0.06
23 4 0.02
24 6 0.03
25 24 0.10
26 74 0.31
28 2 0.01
29 8 0.03
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (25 bp):
CATAAATGAAATGCATGAAAGGATG
Found at i:817455 original size:12 final size:12
Alignment explanation
Indices: 817440--817534 Score: 73
Period size: 12 Copynumber: 7.9 Consensus size: 12
817430 AAATGAGTTT
817440 ATAAACGAGCTC
1 ATAAACGAGCTC
* *
817452 ATAAACAAGCTT
1 ATAAACGAGCTC
*
817464 ATAAACGAGCTT
1 ATAAACGAGCTC
* * *
817476 ACAAACTACCTC
1 ATAAACGAGCTC
*
817488 GTAAACGAGCTC
1 ATAAACGAGCTC
* * *
817500 ATAAATGAGTTT
1 ATAAACGAGCTC
* *
817512 AGAAACGAGTTC
1 ATAAACGAGCTC
*
817524 ATAAACAAGCT
1 ATAAACGAGCT
817535 TGTTCATGAA
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 62 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (12 bp):
ATAAACGAGCTC
Found at i:817465 original size:24 final size:24
Alignment explanation
Indices: 817438--817535 Score: 97
Period size: 24 Copynumber: 4.1 Consensus size: 24
817428 ATAAATGAGT
817438 TTATAAACGAGCTCATAAACAAGC
1 TTATAAACGAGCTCATAAACAAGC
* * * *
817462 TTATAAACGAGCTTACAAACTACC
1 TTATAAACGAGCTCATAAACAAGC
** ** *
817486 TCGTAAACGAGCTCATAAATGAGT
1 TTATAAACGAGCTCATAAACAAGC
* *
817510 TTAGAAACGAGTTCATAAACAAGC
1 TTATAAACGAGCTCATAAACAAGC
817534 TT
1 TT
817536 GTTCATGAAC
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.24
Consensus pattern (24 bp):
TTATAAACGAGCTCATAAACAAGC
Found at i:817529 original size:36 final size:36
Alignment explanation
Indices: 817428--817534 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
817418 GAATGGGTCG
* *
817428 ATAAATGAGTTTATAAACGAGCTCATAAACAAGCTT
1 ATAAATGAGTTTACAAACGAGCTCATAAACAAGCTC
* * * * * *
817464 ATAAACGAGCTTACAAACTACCTCGTAAACGAGCTC
1 ATAAATGAGTTTACAAACGAGCTCATAAACAAGCTC
* *
817500 ATAAATGAGTTTAGAAACGAGTTCATAAACAAGCT
1 ATAAATGAGTTTACAAACGAGCTCATAAACAAGCT
817535 TGTTCATGAA
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (36 bp):
ATAAATGAGTTTACAAACGAGCTCATAAACAAGCTC
Found at i:817552 original size:34 final size:34
Alignment explanation
Indices: 817514--817587 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
817504 ATGAGTTTAG
* *
817514 AAACGAGTTCATAAACAAGCTTGTTCATGAACGT
1 AAACGAGCTCATAAACAAGCTTGTTCATGAACAT
* *
817548 AAACGAGCTCATAAACAAGTTTGTTCGTGAACAT
1 AAACGAGCTCATAAACAAGCTTGTTCATGAACAT
817582 AAACGA
1 AAACGA
817588 ACCGAACACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (34 bp):
AAACGAGCTCATAAACAAGCTTGTTCATGAACAT
Found at i:828282 original size:32 final size:32
Alignment explanation
Indices: 828232--828299 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
828222 ACAGACAAAA
* * *
828232 TTCAGGTCGGATCTTACCGGATACGGATTGAC
1 TTCAAGTCAGATCTTACCGGATACGAATTGAC
*
828264 TTCAAGTCAGATCTTACCGGGTACGAATTGAC
1 TTCAAGTCAGATCTTACCGGATACGAATTGAC
828296 TTCA
1 TTCA
828300 GGTCGGGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (32 bp):
TTCAAGTCAGATCTTACCGGATACGAATTGAC
Found at i:829176 original size:33 final size:29
Alignment explanation
Indices: 829105--829172 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
829095 ATGATGAATG
829105 TACATACATATGAATATAAGTTTAATATA
1 TACATACATATGAATATAAGTTTAATATA
829134 TACATACATATGAATATAAGTTTAATATA
1 TACATACATATGAATATAAGTTTAATATA
829163 TACATACATA
1 TACATACATA
829173 CATAAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (29 bp):
TACATACATATGAATATAAGTTTAATATA
Found at i:829184 original size:33 final size:32
Alignment explanation
Indices: 829105--829182 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 32
829095 ATGATGAATG
829105 TACATACATATGAATATAAGTTTAATATATACA
1 TACATACATA-GAATATAAGTTTAATATATACA
829138 TACAT--AT-GAATATAAGTTTAATATATACA
1 TACATACATAGAATATAAGTTTAATATATACA
829167 TACATACATA-AATATA
1 TACATACATAGAATATA
829183 TATATATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
29 27 0.64
31 10 0.24
33 5 0.12
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (32 bp):
TACATACATAGAATATAAGTTTAATATATACA
Found at i:829398 original size:12 final size:14
Alignment explanation
Indices: 829382--829435 Score: 80
Period size: 12 Copynumber: 4.1 Consensus size: 14
829372 AACTTTACAA
829382 ATATA-AAGTATA-
1 ATATATAAGTATAT
829394 ATATATAAGTATAT
1 ATATATAAGTATAT
829408 ATATAT-A-TATAT
1 ATATATAAGTATAT
829420 ATATATAAGTATAT
1 ATATATAAGTATAT
829434 AT
1 AT
829436 GTATGATGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
12 16 0.42
13 9 0.24
14 13 0.34
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.43
Consensus pattern (14 bp):
ATATATAAGTATAT
Found at i:829408 original size:2 final size:2
Alignment explanation
Indices: 829390--829474 Score: 59
Period size: 2 Copynumber: 42.5 Consensus size: 2
829380 AAATATAAAG
829390 TA TA -A TA TA TA -A GTA TA TA TA TA TA TA TA TA TA TA TA -A GTA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * * * *
829431 TA TA TG TA TGA TG TA TG TA CA CA AA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
829474 T
1 T
829475 CATTAAACAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
1 3 0.05
2 59 0.89
3 4 0.06
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (2 bp):
TA
Found at i:830625 original size:2 final size:2
Alignment explanation
Indices: 830618--830662 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
830608 CACTCATGTG
830618 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
830660 AT A
1 AT A
830663 CTATTTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:830791 original size:23 final size:23
Alignment explanation
Indices: 830743--830791 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
830733 ACATATTTCA
*
830743 AAATTTTAAGTTAAATTATATTT
1 AAATTTTAAGTTAAATTATATAT
830766 AAATTATTAA-TTAAA-TATTATAT
1 AAATT-TTAAGTTAAATTA-TATAT
830789 AAA
1 AAA
830792 AAGTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 2 0.09
23 17 0.74
24 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATTTTAAGTTAAATTATATAT
Found at i:830870 original size:16 final size:17
Alignment explanation
Indices: 830849--830881 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
830839 TAAATTATAC
830849 TTTAATAAATA-AATTA
1 TTTAATAAATATAATTA
*
830865 TTTAATGAATATAATTA
1 TTTAATAAATATAATTA
830882 AGTTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTAATAAATATAATTA
Found at i:831087 original size:79 final size:79
Alignment explanation
Indices: 830932--831087 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 79
830922 TCATTAATTT
*
830932 AATTATCATAACTAACAATTTGTTATAACTTTTAAAGAGTAATCATATTAATTATCATAGTTTAT
1 AATTATCATAACTAACAAATTGTTATAACTTTTAAAGAGTAATCATATTAATTATCATAGTTTAT
*
830997 TTAATTGTCAAAGA
66 TTAAATGTCAAAGA
* * * *
831011 AATTATCATAATTAATAAATTGTTTTAACTTTTAAA-ATGTAATCATATTAATTATCGTAGTTTA
1 AATTATCATAACTAACAAATTGTTATAACTTTTAAAGA-GTAATCATATTAATTATCATAGTTTA
831075 TTATAAAT-TCAAA
65 TT-TAAATGTCAAA
831088 ATCTTACAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 64 0.93
80 4 0.06
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (79 bp):
AATTATCATAACTAACAAATTGTTATAACTTTTAAAGAGTAATCATATTAATTATCATAGTTTAT
TTAAATGTCAAAGA
Found at i:831707 original size:55 final size:55
Alignment explanation
Indices: 831623--831729 Score: 205
Period size: 55 Copynumber: 1.9 Consensus size: 55
831613 ACACTTAACT
831623 AAAGAAATAACCCAGAACCTAACTTCAAAGATAAAAATCTATCAAGCACGGGACA
1 AAAGAAATAACCCAGAACCTAACTTCAAAGATAAAAATCTATCAAGCACGGGACA
*
831678 AAAGAAATAACCCAGAACCTAACTTCAAAGATAAAAATCTATCAAGGACGGG
1 AAAGAAATAACCCAGAACCTAACTTCAAAGATAAAAATCTATCAAGCACGGG
831730 TACAGCATCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.15
Consensus pattern (55 bp):
AAAGAAATAACCCAGAACCTAACTTCAAAGATAAAAATCTATCAAGCACGGGACA
Found at i:832852 original size:2 final size:2
Alignment explanation
Indices: 832845--832888 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
832835 AACATTTTGA
832845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
832888 A
1 A
832889 GTTTTTGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:832975 original size:36 final size:37
Alignment explanation
Indices: 832873--832991 Score: 195
Period size: 37 Copynumber: 3.2 Consensus size: 37
832863 ATATATATAT
* *
832873 ATATATATGATATATAGTTTTTGAAAACATTTTGGAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
*
832910 ATATATATAATATATAGTTTTTGGAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
*
832947 ATATATATAATATATAG-TTTTGAAAACATTTTGAAT
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
832983 ATATATATA
1 ATATATATA
832992 GTTTTAAAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 26 0.34
37 51 0.66
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
Found at i:833007 original size:29 final size:29
Alignment explanation
Indices: 832951--833020 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
832941 TTGAAAATAT
*
832951 ATATAATATATAGTTTTGAAAACATTTTGA
1 ATAT-ATATATAGTTTTGAAAACATTTTAA
**
832981 ATATATATATAGTTTT-AAAATGTTTTTAA
1 ATATATATATAGTTTTGAAAA-CATTTTAA
*
833010 AAATATATATA
1 ATATATATATA
833021 ATATATAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.11
29 27 0.77
30 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (29 bp):
ATATATATATAGTTTTGAAAACATTTTAA
Found at i:833016 original size:100 final size:102
Alignment explanation
Indices: 832807--833031 Score: 259
Period size: 100 Copynumber: 2.2 Consensus size: 102
832797 AAAAAATTTC
* * *
832807 AAAATATATATAATATATAGTTTTTGAAAACATTTTGAATATATATATATATATATATATATATA
1 AAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATATATATATATAAACATA
832872 TATATATATGATATATAGTTTTTGAAAACATTTTGG-
66 TATATATATGATATATAGTTTTTGAAAACATTTTGGA
* *
832908 -AAATATATATAATATATAGTTTTTGGAAACATTTTGAAAATATATATAATATATAGTTTTGAAA
1 AAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATAT-ATATATA--TAT--AA
* ** *
832972 ACAT-TTTGA-ATAT-ATATATAG-TTTT-AAAATGTTTT-TA
61 ACATATAT-ATATATGATATATAGTTTTTGAAAACATTTTGGA
833009 AAAATATATATAATATATAGTTT
1 AAAATATATATAATATATAGTTT
833032 GATGTATAGG
Statistics
Matches: 107, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
100 45 0.42
101 15 0.14
102 26 0.24
103 10 0.09
104 6 0.06
105 5 0.05
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (102 bp):
AAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATATATATATATAAACATA
TATATATATGATATATAGTTTTTGAAAACATTTTGGA
Found at i:834818 original size:46 final size:44
Alignment explanation
Indices: 834768--834947 Score: 155
Period size: 45 Copynumber: 4.0 Consensus size: 44
834758 ATCCATACTT
* * *
834768 ATAATGCACCATTATGTATTTTCATTTACGACATTCTTTCATGCCA
1 ATAATGCACCA-TATGCA-TTTCATTTATGGCATTCTTTCATGCCA
* * **
834814 ATAATGCACCCATATGCATTTCAATTATGGCA-TCATTTCGTGCTG
1 ATAATGCA-CCATATGCATTTCATTTATGGCATTC-TTTCATGCCA
* *
834859 ATAATGCACCCCTATGCATTTCATTTATGGCATTCTTTCATGCCT
1 ATAATGCA-CCATATGCATTTCATTTATGGCATTCTTTCATGCCA
* * * * * * *
834904 TTTATACGCTATTATACATTTCATTTATGGCATCCTTTCATGCC
1 ATAATGCACCA-TATGCATTTCATTTATGGCATTCTTTCATGCC
834948 TTTTATACAC
Statistics
Matches: 110, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
44 3 0.03
45 89 0.81
46 15 0.14
47 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (44 bp):
ATAATGCACCATATGCATTTCATTTATGGCATTCTTTCATGCCA
Found at i:834924 original size:45 final size:45
Alignment explanation
Indices: 834875--835010 Score: 211
Period size: 45 Copynumber: 3.0 Consensus size: 45
834865 CACCCCTATG
*
834875 CATTTCATTTATGGCATTCTTTCATGCCTTTTATACGCTATTATA
1 CATTTCATTTATGGCATTCTTTCATGCCTTTTATACACTATTATA
*
834920 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGGCATTCTTTCATGCCTTTTATACACTATTATA
* * *
834965 CATTTCATTTATGGTATAT-TTTCACGTCTTTTATACACTATTATA
1 CATTTCATTTATGGCAT-TCTTTCATGCCTTTTATACACTATTATA
835010 C
1 C
835011 TACGTTATGC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 84 1.00
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (45 bp):
CATTTCATTTATGGCATTCTTTCATGCCTTTTATACACTATTATA
Found at i:835138 original size:81 final size:81
Alignment explanation
Indices: 835041--835676 Score: 959
Period size: 81 Copynumber: 7.9 Consensus size: 81
835031 ATCTAGTCTA
* * * * * *
835041 TTACTCAAAGGCATTTAACATTTCATCTAGCTGGTATGATTGACACCTTTTTGTCAAATGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
* *
835106 CTATG-TCATTAATATT
66 CTAGGCT-ATTAATCTT
* * * *
835122 TTACTCAAAAGTATTTAACCTTTCATCTAACCGGCATAATTGTCACCTTTCTGTCAATTGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
835187 CTAGGCTATTAATCTT
66 CTAGGCTATTAATCTT
* *
835203 TTACTCAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGACACCTTTCTATCAAATGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
835268 CTAGGCTATTAATCTT
66 CTAGGCTATTAATCTT
* * * *
835284 TTACTCAAAGGTATTTAACCTTTCATCTAACTAGAATAATTGACACCTTTCAGCCAAATGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
**
835349 CTAAACTATTAATCTT
66 CTAGGCTATTAATCTT
*
835365 TTACTCATAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
*
835430 CTAGGCTATTAATGTT
66 CTAGGCTATTAATCTT
* * *
835446 TTACTTAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACACATTTCTGTCAAATGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
*
835511 CTAGGCTATTAATCGT
66 CTAGGCTATTAATCTT
** *
835527 TTACTCAAAGGTATTTAACCTTTCATCTAACTAACATAATTGACACCTTTCTGTCAAATGCACAG
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
* *
835592 CTAGGATATTAATCAT
66 CTAGGCTATTAATCTT
* *
835608 TTACTCAAAGGTAGTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAG
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
835673 CTAG
66 CTAG
835677 ACCTCAAAGG
Statistics
Matches: 503, Mismatches: 51, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
81 502 1.00
82 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (81 bp):
TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
CTAGGCTATTAATCTT
Found at i:835722 original size:68 final size:68
Alignment explanation
Indices: 835611--835807 Score: 279
Period size: 68 Copynumber: 2.9 Consensus size: 68
835601 TAATCATTTA
* * *
835611 CTCAAAGGTAGTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
835676 GAC
66 GAC
* * *
835679 CTCAAAGGCACTTAGCCTTTCATATATCTGGCATAATTAACACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
*
835744 GGC
66 GAC
** * *
835747 C-CTAAAGGCACTTAGTATTTCATCTAACTGGCATAATTGGCACCTTTCTCTCAAATGCACA
1 CTC-AAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACA
835808 ACTAAACCAT
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
67 1 0.01
68 113 0.99
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
GAC
Found at i:836065 original size:57 final size:57
Alignment explanation
Indices: 836001--836182 Score: 204
Period size: 57 Copynumber: 3.2 Consensus size: 57
835991 AATTTCTTTG
* * ** * *
836001 TTTTTGCACATAAAGTTCTTATTCGAAAATTCATAAACAAATTATGAATTTCTTAAA
1 TTTTTGCACACAAAGTGCCCATTCGGAAATTCATAAACAAATTATGAATTTCTTAAC
* * * * *
836058 TTTTTGCACCCGAAGTGCGCATAT-GGAAATTGATAAACAAAATATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCAT-TCGGAAATTCATAAACAAATTATGAATTTCTTAAC
* * * *
836115 TTTTTTCACACAAAGTGCCCATACGGAAATTCAAAAACAAATTATGATTTTCTTAAC
1 TTTTTGCACACAAAGTGCCCATTCGGAAATTCATAAACAAATTATGAATTTCTTAAC
*
836172 TTTTTGTACAC
1 TTTTTGCACAC
836183 TCGGTGCCAT
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
57 101 0.99
58 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (57 bp):
TTTTTGCACACAAAGTGCCCATTCGGAAATTCATAAACAAATTATGAATTTCTTAAC
Found at i:838639 original size:2 final size:2
Alignment explanation
Indices: 838632--838670 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
838622 CCATAAAAGT
838632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
838671 TTCTGACATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:840497 original size:45 final size:46
Alignment explanation
Indices: 840413--840546 Score: 150
Period size: 45 Copynumber: 2.9 Consensus size: 46
840403 ATTCCTACTT
*
840413 ATAATGCA-CCATTATGTATTTTCATTTA-GGACATTCTTTCATGCCA-
1 ATAATGCACCCA-TATGTA-TTTCATTTATGG-CATCCTTTCATGCCAG
* * *
840459 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCGTG-CAG
1 ATAATGCACCCATATGTATTTCATTTATGGCATCCTTTCATGCCAG
* * *
840504 ATAATTCACCCCTTTGTATTTCATTTATGGCATCCTTTCATGC
1 ATAATGCACCCATATGTATTTCATTTATGGCATCCTTTCATGC
840547 GTTTTATATG
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
44 2 0.03
45 54 0.73
46 15 0.20
47 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (46 bp):
ATAATGCACCCATATGTATTTCATTTATGGCATCCTTTCATGCCAG
Found at i:840570 original size:45 final size:45
Alignment explanation
Indices: 840521--840655 Score: 216
Period size: 45 Copynumber: 3.0 Consensus size: 45
840511 ACCCCTTTGT
* **
840521 ATTTCATTTATGGCATCCTTTCATGCGTTTTATATGCTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
*
840566 ATTTCAATTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
* *
840611 ATTTCATTAATGGTATCCTTTCATGCCTTTTATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
840656 TACTTTATGC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
Found at i:840783 original size:81 final size:81
Alignment explanation
Indices: 840686--841159 Score: 644
Period size: 81 Copynumber: 5.9 Consensus size: 81
840676 TTCTAGTCTA
* * * *
840686 TTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTTTGTCAAATGCACAT
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
840751 CTAGGCTATTAATCTT
66 CTAGGCTATTAATCTT
*** ** * *
840767 TTACTCAAAGGTATTTAACCTTTCATCTAACTCATATAATTGACATATTTTTATCAAATGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
*
840832 CTAGGTTATTAATCTT
66 CTAGGCTATTAATCTT
* * * *
840848 TTACTCAAAAGTATTTAACCTTTCATCTAACCGGTATAATT-ATCACCTTTCTGTCAAATTCACA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGA-CACCTTTCTGTCAAATGCACA
* *
840912 GCTAGGCTATTAATATT
65 ACTAGGCTATTAATCTT
* * *
840929 TTACTCAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGACACATTTCTATCAAATGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
840994 CTAGGCTATTAATCTT
66 CTAGGCTATTAATCTT
** * *
841010 TTACTCAAAGGTATTTAACCTTTCATCTAACTAACATAATTAACACCTTTCTGTCAACTGCACAA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
*
841075 CTAGTCTATTAATCTT
66 CTAGGCTATTAATCTT
* * * * * *
841091 TTACTCAAAGGTATTTAACATTTCATCTAGCTTGCATAAGTGACACCTTTCAGTCAAATGCACAG
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
841156 CTAG
66 CTAG
841160 ACCTCAAAAG
Statistics
Matches: 343, Mismatches: 48, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
80 1 0.00
81 341 0.99
82 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (81 bp):
TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
CTAGGCTATTAATCTT
Found at i:841240 original size:67 final size:68
Alignment explanation
Indices: 841109--841297 Score: 236
Period size: 67 Copynumber: 2.8 Consensus size: 68
841099 AGGTATTTAA
* * * * * * *
841109 CATTTCATCTAGCTTGCATAAGTGACACCTTTCAGTCAAATGCACAGCTAGACCTCAAAAGCACT
1 CATTTCATCTAACTGGCATAATTAACACATTTCTGTCAAATGCACAGCTAGGCCTCAAAAGCACT
841174 TAG
66 TAG
* * * * * *
841177 CCTTTCATCTAATTGGCATAATTAACACATTT-TTTTAAATGCACGGCTAGGCCTCAAAGGCACT
1 CATTTCATCTAACTGGCATAATTAACACATTTCTGTCAAATGCACAGCTAGGCCTCAAAAGCACT
841241 TAG
66 TAG
* *
841244 CATTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCC
1 CATTTCATCTAACTGGCATAATTAACACATTTCTGTCAAATGCACAGCTAGGCC
841298 ATTAATATTT
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
67 57 0.57
68 43 0.43
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
CATTTCATCTAACTGGCATAATTAACACATTTCTGTCAAATGCACAGCTAGGCCTCAAAAGCACT
TAG
Found at i:841569 original size:58 final size:58
Alignment explanation
Indices: 841503--841660 Score: 203
Period size: 57 Copynumber: 2.8 Consensus size: 58
841493 TAAAGTTCTT
* * *
841503 ATACGGAAATTCATAAACAAATTATGAATTTTTTTAACTTTTTTCACTCGAAGTGCAC
1 ATACGGAAATTCATAAACAAATTATGAATTTTTTTAACTTTTTGCACACAAAGTGCAC
* * *
841561 ATATGGAAATTCGTAAACAAATTATG-ATTTTTTTAACTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACAAATTATGAATTTTTTTAACTTTTTGCACACAAAGTGCAC
** * * *
841618 ATACATAAATTTATGAACAAATTATGAA-TTTCTTAACTTTTTG
1 ATACGGAAATTCATAAACAAATTATGAATTTTTTTAACTTTTTG
841661 TACGCTCAGT
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
57 61 0.71
58 25 0.29
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (58 bp):
ATACGGAAATTCATAAACAAATTATGAATTTTTTTAACTTTTTGCACACAAAGTGCAC
Found at i:842046 original size:19 final size:19
Alignment explanation
Indices: 842019--842058 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
842009 ATATCGATAC
842019 TACTATACTATGGTACTGA
1 TACTATACTATGGTACTGA
* *
842038 TACTCTACTATGGTATTGA
1 TACTATACTATGGTACTGA
842057 TA
1 TA
842059 GAATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
TACTATACTATGGTACTGA
Found at i:842141 original size:25 final size:20
Alignment explanation
Indices: 842083--842153 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
842073 TATTTCGAAT
842083 GGTATCGATACCTTCCCTTC
1 GGTATCGATACCTTCCCTTC
842103 GGTATCGATACCTTCCCTTC
1 GGTATCGATACCTTCCCTTC
*
842123 GGTATCGATACCTCCCCTTC
1 GGTATCGATACCTTCCCTTC
842143 GGTATCGATAC
1 GGTATCGATAC
842154 TGATTGCAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.32
Consensus pattern (20 bp):
GGTATCGATACCTTCCCTTC
Found at i:842942 original size:3 final size:3
Alignment explanation
Indices: 842936--842965 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
842926 TTATCAGGTG
842936 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
842966 CTAAACATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:847419 original size:99 final size:99
Alignment explanation
Indices: 847309--847493 Score: 289
Period size: 99 Copynumber: 1.9 Consensus size: 99
847299 ATATTATACG
* * * *
847309 TATACAATAAAGCTTGAGGAGTCCCTCTAGAGCAATTGGTTAATCGCCTCAGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGCAGTCCCTCTAGAGCAATTGGTTAAACACCCCAGCTTTATGGATAAG
*
847374 ATTCGGCTAGCCTGATAAAGGTGATTATAATATA
66 ATTCAGCTAGCCTGATAAAGGTGATTATAATATA
* * * *
847408 TATACAATAAAGCTTGCGCTGTCCCTTTAGAGCAATTGGTTAAACACCCCAGTTTTATGGATAAG
1 TATACAATAAAGCTTGAGCAGTCCCTCTAGAGCAATTGGTTAAACACCCCAGCTTTATGGATAAG
847473 ATTCAGCTAGCCTGATAAAGG
66 ATTCAGCTAGCCTGATAAAGG
847494 AAAATTACAA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (99 bp):
TATACAATAAAGCTTGAGCAGTCCCTCTAGAGCAATTGGTTAAACACCCCAGCTTTATGGATAAG
ATTCAGCTAGCCTGATAAAGGTGATTATAATATA
Found at i:868146 original size:21 final size:21
Alignment explanation
Indices: 868121--868180 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
868111 CATCAAGGTC
868121 TTTGTCGAGGCCATGAAATCT
1 TTTGTCGAGGCCATGAAATCT
* *
868142 TTTGTTGAGTCCATGAAATCT
1 TTTGTCGAGGCCATGAAATCT
868163 TTTGTCGAGGCCAT-AAAT
1 TTTGTCGAGGCCATGAAAT
868181 TCCTACAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (21 bp):
TTTGTCGAGGCCATGAAATCT
Found at i:882326 original size:2 final size:2
Alignment explanation
Indices: 882319--882363 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
882309 AGTGTAAAGA
882319 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
882361 AT A
1 AT A
882364 ACAATGTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:882472 original size:30 final size:29
Alignment explanation
Indices: 882438--882497 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
882428 AAATAAAAAT
882438 AAATAA-ATAAAAGTTTAAAGGATCAAATTG
1 AAATAACATAAAA-TTT-AAGGATCAAATTG
* *
882468 AAATAACTTAAAATTTATGGATCAAATTG
1 AAATAACATAAAATTTAAGGATCAAATTG
882497 A
1 A
882498 TGCTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
30 9 0.33
31 5 0.19
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (29 bp):
AAATAACATAAAATTTAAGGATCAAATTG
Found at i:885012 original size:61 final size:61
Alignment explanation
Indices: 884888--885017 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 61
884878 AGGACACTAG
* * * *
884888 GTGCAGGTGGTGGGCACAAGCCTATGTGTCATATCTGGATCAACACTAGAGTGTAAACCTA
1 GTGCAGGTGATGGGCACAAGCCTATATGTCATATCCGGATCAACACTAGAGCGTAAACCTA
* * ** * *
884949 GTGTAGGTGATGGGCAC-AGCCTTATATGTCATATCCGGATTAGGACTAGAGCGTAAGCTTA
1 GTGCAGGTGATGGGCACAAGCC-TATATGTCATATCCGGATCAACACTAGAGCGTAAACCTA
885010 GTGCAGGT
1 GTGCAGGT
885018 TTAGCACTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 4 0.07
61 53 0.93
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (61 bp):
GTGCAGGTGATGGGCACAAGCCTATATGTCATATCCGGATCAACACTAGAGCGTAAACCTA
Found at i:896750 original size:18 final size:17
Alignment explanation
Indices: 896726--896792 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
896716 AATAAAATAG
896726 AAATAAAAATAAAAATT
1 AAATAAAAATAAAAATT
*
896743 AAAGTAAAGATAAAAA-T
1 AAA-TAAAAATAAAAATT
* *
896760 AAATATAAATATAAATAT
1 AAATAAAAATAAAAAT-T
*
896778 AAA-AATAATAAAAAT
1 AAATAAAAATAAAAAT
896793 AATAATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
16 9 0.22
17 16 0.40
18 15 0.38
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AAATAAAAATAAAAATT
Found at i:896794 original size:6 final size:6
Alignment explanation
Indices: 896714--896785 Score: 74
Period size: 6 Copynumber: 12.2 Consensus size: 6
896704 TAAGGCCTGT
* * * *
896714 AAAAT- AAAATA GAAATA AAAATA AAAATT AAAGTA AAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
896761 AATATA AATATA AATATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
896786 TAAAAATAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
5 5 0.09
6 51 0.91
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:896794 original size:33 final size:33
Alignment explanation
Indices: 896752--896824 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
896742 TAAAGTAAAG
896752 ATAAAAATAA-ATATAAATATAA-ATATAAAAATA
1 ATAAAAATAATA-ATAAATATAATA-ATAAAAATA
* * *
896785 ATAAAAATAATAATAATTATTATAATAATAATA
1 ATAAAAATAATAATAAATATAATAATAAAAATA
896818 ATAAAAA
1 ATAAAAA
896825 CCCAGACAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (33 bp):
ATAAAAATAATAATAAATATAATAATAAAAATA
Found at i:896796 original size:3 final size:3
Alignment explanation
Indices: 896776--896821 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
896766 AAATATAAAT
* * * *
896776 ATA AAA ATA ATA AAA ATA ATA ATA ATT ATT ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
896822 AAACCCAGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:896796 original size:12 final size:11
Alignment explanation
Indices: 896713--896800 Score: 74
Period size: 12 Copynumber: 7.7 Consensus size: 11
896703 GTAAGGCCTG
896713 TAAAAT-AAAA
1 TAAAATAAAAA
896723 TAGAAATAAAAA
1 TA-AAATAAAAA
* *
896735 TAAAAATTAAAG
1 T-AAAATAAAAA
896747 TAAAGATAAAAA
1 TAAA-ATAAAAA
*
896759 TAAATATAAATA
1 TAAA-ATAAAAA
896771 TAAATATAAAAA
1 TAAA-ATAAAAA
896783 T--AATAAAAA
1 TAAAATAAAAA
896792 TAATAATAA
1 TAA-AATAA
896801 TTATTATAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
9 8 0.12
10 3 0.05
11 7 0.11
12 45 0.70
13 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:897879 original size:58 final size:59
Alignment explanation
Indices: 897788--897942 Score: 224
Period size: 59 Copynumber: 2.6 Consensus size: 59
897778 TGAGTAATCA
* *
897788 TCAAGAAACCTCTGAAAATCATG-CATAGCTTCTTTAAAA-TTCATTTTAAAACATCATG
1 TCAAGAAACCTCTGAAAATCA-GACATAGTTTCTTTAAAATTTCATTTAAAAACATCATG
* *
897846 TCAAGAAACCTCTAAAAATCAGACCTAGTTTCTTTAAAATTTCATTTAAAAACATCATG
1 TCAAGAAACCTCTGAAAATCAGACATAGTTTCTTTAAAATTTCATTTAAAAACATCATG
* * *
897905 TCAAGAAACCTTTGAAAATCATACTTAGTTTCTTTAAA
1 TCAAGAAACCTCTGAAAATCAGACATAGTTTCTTTAAA
897943 GATATCATAT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
57 1 0.01
58 34 0.39
59 52 0.60
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.34
Consensus pattern (59 bp):
TCAAGAAACCTCTGAAAATCAGACATAGTTTCTTTAAAATTTCATTTAAAAACATCATG
Found at i:904858 original size:22 final size:22
Alignment explanation
Indices: 904833--904909 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
904823 CCCTCACATA
* *
904833 GGTATTGATACCCCCATGTAAT
1 GGTATCGATACCCCCATGCAAT
904855 GGTATCGATACCCCCATGCAAT
1 GGTATCGATACCCCCATGCAAT
904877 GGTATCGATA--CCCAT-CAGAT
1 GGTATCGATACCCCCATGCA-AT
*
904897 GGTACCGATACCC
1 GGTATCGATACCC
904910 TAATGCATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
19 2 0.04
20 16 0.33
22 31 0.63
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (22 bp):
GGTATCGATACCCCCATGCAAT
Found at i:904898 original size:20 final size:20
Alignment explanation
Indices: 904845--904909 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 20
904835 TATTGATACC
*
904845 CCCATGTAATGGTATCGATA
1 CCCATGCAATGGTATCGATA
904865 CCCCCATGCAATGGTATCGATA
1 --CCCATGCAATGGTATCGATA
*
904887 CCCAT-CAGATGGTACCGATA
1 CCCATGCA-ATGGTATCGATA
904907 CCC
1 CCC
904910 TAATGCATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.05
20 19 0.47
22 19 0.47
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (20 bp):
CCCATGCAATGGTATCGATA
Found at i:910695 original size:23 final size:22
Alignment explanation
Indices: 910638--910743 Score: 101
Period size: 23 Copynumber: 4.8 Consensus size: 22
910628 ATTTTTGTGC
*
910638 ATAGAGTATCGATACCCCTTAGA
1 ATAG-GTATCGATACCCCTTTGA
*
910661 CT-GGTATCGATACTCCCTTTGA
1 ATAGGTATCGATAC-CCCTTTGA
* *
910683 ATAGGTATAGATACCCC-TTCA
1 ATAGGTATCGATACCCCTTTGA
*
910704 ATAGGTATCAATACCATCC-TTGA
1 ATAGGTATCGATACC--CCTTTGA
*
910727 ATGGGTATCGATACCCC
1 ATAGGTATCGATACCCC
910744 CTGATGGTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
21 28 0.41
22 12 0.17
23 29 0.42
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (22 bp):
ATAGGTATCGATACCCCTTTGA
Found at i:910711 original size:44 final size:43
Alignment explanation
Indices: 910638--910743 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 43
910628 ATTTTTGTGC
*
910638 ATAGAGTATCGATACCCCTTAGACTGGTATCGATACTC-CCTTTGA
1 ATAG-GTATCGATACCCCTTAGACTGGTATCAATAC-CACC-TTGA
*
910683 ATAGGTATAGATACCCCTTCA-A-TAGGTATCAATACCATCCTTGA
1 ATAGGTATCGATACCCCTT-AGACT-GGTATCAATACCA-CCTTGA
*
910727 ATGGGTATCGATACCCC
1 ATAGGTATCGATACCCC
910744 CTGATGGTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
43 2 0.04
44 44 0.83
45 7 0.13
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (43 bp):
ATAGGTATCGATACCCCTTAGACTGGTATCAATACCACCTTGA
Found at i:913531 original size:22 final size:22
Alignment explanation
Indices: 913506--913560 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
913496 CCCCCACATA
913506 GGTATCGATACCCCCATGCA-AT
1 GGTATCGATACCCCCAT-CAGAT
913528 GGTATCGATA--CCCATCAGAT
1 GGTATCGATACCCCCATCAGAT
*
913548 GGTACCGATACCC
1 GGTATCGATACCC
913561 AAAGGCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 2 0.07
20 16 0.55
22 11 0.38
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (22 bp):
GGTATCGATACCCCCATCAGAT
Found at i:913633 original size:21 final size:21
Alignment explanation
Indices: 913607--913656 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
913597 CTACATGTAT
913607 CGATACCCTATGAAGGGGTAC
1 CGATACCCTATGAAGGGGTAC
913628 CGATACCCTATGAAGGGGTAC
1 CGATACCCTATGAAGGGGTAC
913649 CGATACCC
1 CGATACCC
913657 CCCACGCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (21 bp):
CGATACCCTATGAAGGGGTAC
Found at i:916833 original size:6 final size:6
Alignment explanation
Indices: 916811--916891 Score: 80
Period size: 6 Copynumber: 14.2 Consensus size: 6
916801 TAAGACCTGT
** * *
916811 AAAAT- AAAATA GTAATA AAAATA AAAATA AAGATA AAGATA AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
916857 GAAATA AAAATG AAAAT- AAAAT- AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
916892 TTATAATAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
5 19 0.30
6 45 0.70
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:916833 original size:17 final size:16
Alignment explanation
Indices: 916810--916891 Score: 85
Period size: 17 Copynumber: 4.9 Consensus size: 16
916800 GTAAGACCTG
*
916810 TAAAAT-AAAATAGTAA
1 TAAAATAAAAATA-AAA
916826 TAAAAATAAAAATAAAGA
1 T-AAAATAAAAATAAA-A
*
916844 TAAAGATAAAAATGAAA
1 TAAA-ATAAAAATAAAA
*
916861 TAAAAATGAAAATAAAA
1 T-AAAATAAAAATAAAA
916878 TAAAATAAAAATAA
1 TAAAATAAAAATAA
916892 TTATAATAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
16 13 0.23
17 22 0.39
18 21 0.38
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:916865 original size:11 final size:11
Alignment explanation
Indices: 916810--916891 Score: 87
Period size: 11 Copynumber: 7.3 Consensus size: 11
916800 GTAAGACCTG
916810 TAAAAT-AAAA
1 TAAAATAAAAA
*
916820 TAGTAATAAAAA
1 TA-AAATAAAAA
*
916832 TAAAAATAAAGA
1 T-AAAATAAAAA
916844 TAAAGATAAAAA
1 TAAA-ATAAAAA
*
916856 TGAAATAAAAA
1 TAAAATAAAAA
916867 TGAAAAT-AAAA
1 T-AAAATAAAAA
916878 TAAAATAAAAA
1 TAAAATAAAAA
916889 TAA
1 TAA
916892 TTATAATAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
10 7 0.12
11 26 0.43
12 26 0.43
13 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:922630 original size:23 final size:23
Alignment explanation
Indices: 922581--922631 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
922571 AAAGTATCTT
* ** *
922581 TTAAAATATAATATTTAATTTTT
1 TTAAAATAAAATATTTAAAATTA
922604 TTAAAATAAAATATTTAAAATTA
1 TTAAAATAAAATATTTAAAATTA
922627 TTAAA
1 TTAAA
922632 TATACAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAAATAAAATATTTAAAATTA
Found at i:925018 original size:51 final size:51
Alignment explanation
Indices: 924921--925024 Score: 115
Period size: 51 Copynumber: 2.0 Consensus size: 51
924911 ATGAACGCGA
* * * *
924921 GGCCCATGCATTGTGTCTTACGCTGATCTGGCGCTACGTGGTGTAAGGCGC
1 GGCCCATGCATCGCGCCTTACGCTGATCTGGCGCTACGTGGTGTAAGACGC
*
924972 GGCCCATGCATCGCGCCTTATGCTGA-CATGGCGAC-ACGCTGG-GTAAGACGC
1 GGCCCATGCATCGCGCCTTACGCTGATC-TGGCG-CTACG-TGGTGTAAGACGC
925023 GG
1 GG
925025 TGCATGGGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
50 1 0.02
51 40 0.89
52 4 0.09
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (51 bp):
GGCCCATGCATCGCGCCTTACGCTGATCTGGCGCTACGTGGTGTAAGACGC
Found at i:925338 original size:28 final size:31
Alignment explanation
Indices: 925278--925352 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 31
925268 TCTTTAAGGT
925278 ATATTTTA-TT-A-TATTTAATATTGTGTTA
1 ATATTTTATTTAATTATTTAATATTGTGTTA
*
925306 GTATTTTATTTAATTATTTAA-ATT-T-TTA
1 ATATTTTATTTAATTATTTAATATTGTGTTA
*
925334 ATATTTTATTTAATAATTT
1 ATATTTTATTTAATTATTT
925353 TTTTGTGAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 27 0.66
29 3 0.07
30 4 0.10
31 7 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (31 bp):
ATATTTTATTTAATTATTTAATATTGTGTTA
Found at i:927124 original size:27 final size:27
Alignment explanation
Indices: 927056--927113 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
927046 AGCCATATAT
927056 GATGCCGCCACCGCCTTTCCCTTACCA
1 GATGCCGCCACCGCCTTTCCCTTACCA
* * *
927083 GATGCCGCTATCGCCTTTCCCTTGCCA
1 GATGCCGCCACCGCCTTTCCCTTACCA
927110 GATG
1 GATG
927114 TTGCCGCCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.41, G:0.19, T:0.26
Consensus pattern (27 bp):
GATGCCGCCACCGCCTTTCCCTTACCA
Found at i:927428 original size:12 final size:12
Alignment explanation
Indices: 927411--927436 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
927401 ATATGCTACT
927411 GACGACGATGAC
1 GACGACGATGAC
927423 GACGACGATGAC
1 GACGACGATGAC
927435 GA
1 GA
927437 TGGTGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.35, T:0.08
Consensus pattern (12 bp):
GACGACGATGAC
Found at i:927598 original size:14 final size:14
Alignment explanation
Indices: 927579--927612 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
927569 TATTTACTTG
*
927579 TTTATTGGACTTTT
1 TTTATTGGAATTTT
*
927593 TTTATTGTAATTTT
1 TTTATTGGAATTTT
927607 TTTATT
1 TTTATT
927613 ATTTATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (14 bp):
TTTATTGGAATTTT
Found at i:930446 original size:18 final size:18
Alignment explanation
Indices: 930403--930447 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
930393 TAGTTTGATT
*
930403 AATGAACCAACATTATTC
1 AATGAACTAACATTATTC
*
930421 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
930439 AATGAACTA
1 AATGAACTA
930448 GATGCATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:931567 original size:21 final size:21
Alignment explanation
Indices: 931528--931568 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
931518 TTTTTAACTC
* **
931528 CAATTTCTTTTTCTTCTCTCT
1 CAATGTCTTTTTCAACTCTCT
931549 CAATGTCTTTTTCAACTCTC
1 CAATGTCTTTTTCAACTCTC
931569 GTTTCTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.29, G:0.02, T:0.54
Consensus pattern (21 bp):
CAATGTCTTTTTCAACTCTCT
Found at i:932452 original size:11 final size:11
Alignment explanation
Indices: 932438--932477 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
932428 TCTTTTCTTT
932438 TATTTTTTTCA
1 TATTTTTTTCA
932449 TA-TTTTTTCA
1 TATTTTTTTCA
*
932459 TATTTTTTT-T
1 TATTTTTTTCA
932469 TATTTTTTT
1 TATTTTTTT
932478 ACTAACCGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTTTCA
Found at i:934027 original size:18 final size:18
Alignment explanation
Indices: 933984--934028 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
933974 TAGTTTGATT
*
933984 AATGAACCAACATTATTC
1 AATGAACTAACATTATTC
* *
934002 CATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
934020 AATGAACTA
1 AATGAACTA
934029 GATGCATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:934111 original size:18 final size:17
Alignment explanation
Indices: 934088--934131 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
934078 ACAACTTTCC
*
934088 TAAATGAACTAGATGCTT
1 TAAATGAACTACATGC-T
934106 TAAATGCAA-TACATGCT
1 TAAATG-AACTACATGCT
934123 TAAATGAAC
1 TAAATGAAC
934132 AACACACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 2 0.09
17 7 0.30
18 12 0.52
19 2 0.09
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (17 bp):
TAAATGAACTACATGCT
Found at i:943028 original size:16 final size:18
Alignment explanation
Indices: 943009--943042 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
942999 CATGTTAATG
943009 GTAAAAAA-AAA-TAGAA
1 GTAAAAAAGAAATTAGAA
943025 GTAAAAAAGAAATTAGAA
1 GTAAAAAAGAAATTAGAA
943043 TTAGAACCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
GTAAAAAAGAAATTAGAA
Found at i:943239 original size:27 final size:28
Alignment explanation
Indices: 943177--943240 Score: 96
Period size: 26 Copynumber: 2.4 Consensus size: 28
943167 ACAATGGAAA
943177 TAAATTTAATATTTTTATATTTTAAAAC
1 TAAATTTAATATTTTTATATTTTAAAAC
* *
943205 TAAA-TTAATA-TTTTATATTTTAATAT
1 TAAATTTAATATTTTTATATTTTAAAAC
943231 TAAATTTAAT
1 TAAATTTAAT
943241 TTAACTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 18 0.55
27 11 0.33
28 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TAAATTTAATATTTTTATATTTTAAAAC
Found at i:943295 original size:14 final size:12
Alignment explanation
Indices: 943250--943300 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 12
943240 TTTAACTTTA
943250 AAATATAAGAAAT
1 AAATATAA-AAAT
943263 GAAATTATAAAAAT
1 -AAA-TATAAAAAT
943277 AAATATAAAAAT
1 AAATATAAAAAT
943289 ATTAATATAAAA
1 A--AATATAAAA
943301 TTTATAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.29
13 3 0.09
14 16 0.47
15 5 0.15
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (12 bp):
AAATATAAAAAT
Found at i:943309 original size:14 final size:14
Alignment explanation
Indices: 943268--943300 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
943258 GAAATGAAAT
943268 TATAAAAATA--AA
1 TATAAAAATATTAA
943280 TATAAAAATATTAA
1 TATAAAAATATTAA
943294 TATAAAA
1 TATAAAA
943301 TTTATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAAAAATATTAA
Found at i:943451 original size:13 final size:13
Alignment explanation
Indices: 943413--943453 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
943403 TATTTATTTT
943413 TAAAATATAAAAA
1 TAAAATATAAAAA
*
943426 TGAAAT-TATAAAA
1 TAAAATATA-AAAA
943439 TAAAATATAAAAA
1 TAAAATATAAAAA
943452 TA
1 TA
943454 TTAAATCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
TAAAATATAAAAA
Found at i:945918 original size:24 final size:25
Alignment explanation
Indices: 945885--945933 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
945875 TTCAGCAAAG
*
945885 AAATTGAAGCACTC-AAAAGAAGAA
1 AAATTCAAGCACTCAAAAAGAAGAA
945909 AAATTCAAGCACTCAAAAAGAAGAA
1 AAATTCAAGCACTCAAAAAGAAGAA
945934 GAAAGAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.12
Consensus pattern (25 bp):
AAATTCAAGCACTCAAAAAGAAGAA
Found at i:945951 original size:14 final size:15
Alignment explanation
Indices: 945924--945957 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
945914 CAAGCACTCA
945924 AAAAGAAGAAGAAAG
1 AAAAGAAGAAGAAAG
945939 AAAAGAA-AAGAAAG
1 AAAAGAAGAAGAAAG
945953 AAAAG
1 AAAAG
945958 TTGAAGCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAGAAAG
Found at i:949252 original size:163 final size:163
Alignment explanation
Indices: 948976--949303 Score: 620
Period size: 163 Copynumber: 2.0 Consensus size: 163
948966 TTCTTGTGAC
* *
948976 TTTATTGACTTATTAAGTAATTCATTACTTGTGGCGTCAACCCCTTTCCCTTTGATACTTGTGGT
1 TTTATCGACTTATCAAGTAATTCATTACTTGTGGCGTCAACCCCTTTCCCTTTGATACTTGTGGT
*
949041 TTCTATCTCCATATAGATAGTGGGTCTAAGTCCTTGTTACCACCCCTTAAAAAAGCAATATAAAG
66 TTCTATCTCCATATAGATAGTGGGTCCAAGTCCTTGTTACCACCCCTTAAAAAAGCAATATAAAG
*
949106 TCTGGGTCTTTGTTATTTAACATTTGTTCTTCT
131 TCTGGGTCTTTGTTATTTAACATTGGTTCTTCT
949139 TTTATCGACTTATCAAGTAATTCATTACTTGTGGCGTCAACCCCTTTCCCTTTGATACTTGTGGT
1 TTTATCGACTTATCAAGTAATTCATTACTTGTGGCGTCAACCCCTTTCCCTTTGATACTTGTGGT
949204 TTCTATCTCCATATAGATAGTGGGTCCAAGTCCTTGTTACCACCCCTTAAAAAAGCAATATAAAG
66 TTCTATCTCCATATAGATAGTGGGTCCAAGTCCTTGTTACCACCCCTTAAAAAAGCAATATAAAG
949269 TCTGGGTCTTTGTTATTTAACATTGGTTCTTCT
131 TCTGGGTCTTTGTTATTTAACATTGGTTCTTCT
949302 TT
1 TT
949304 GAGTCTTCTT
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 161 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (163 bp):
TTTATCGACTTATCAAGTAATTCATTACTTGTGGCGTCAACCCCTTTCCCTTTGATACTTGTGGT
TTCTATCTCCATATAGATAGTGGGTCCAAGTCCTTGTTACCACCCCTTAAAAAAGCAATATAAAG
TCTGGGTCTTTGTTATTTAACATTGGTTCTTCT
Found at i:949924 original size:21 final size:21
Alignment explanation
Indices: 949900--949989 Score: 153
Period size: 21 Copynumber: 4.3 Consensus size: 21
949890 GGTAGTATTG
*
949900 ATACCCATTAAAGGAGTACCA
1 ATACTCATTAAAGGAGTACCA
949921 ATACTCATTAAAGGAGTACCA
1 ATACTCATTAAAGGAGTACCA
*
949942 ATACTCATTAAATGAGTACCA
1 ATACTCATTAAAGGAGTACCA
*
949963 ATACTCATTAAAGGAGTACCG
1 ATACTCATTAAAGGAGTACCA
949984 ATACTC
1 ATACTC
949990 CCTGTACTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (21 bp):
ATACTCATTAAAGGAGTACCA
Found at i:953734 original size:21 final size:21
Alignment explanation
Indices: 953710--953749 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
953700 CAATGGGATT
* *
953710 AGGATTAGGAATTGGATTTTC
1 AGGAATAGGAAGTGGATTTTC
*
953731 AGGAATAGGAGGTGGATTT
1 AGGAATAGGAAGTGGATTT
953750 GGTTGACGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.35, T:0.33
Consensus pattern (21 bp):
AGGAATAGGAAGTGGATTTTC
Found at i:954486 original size:23 final size:23
Alignment explanation
Indices: 954460--954541 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
954450 TCCCCTATGG
954460 GGGGGAATCGATTCCCCTTCAAA
1 GGGGGAATCGATTCCCCTTCAAA
* *
954483 GGGGGAATCGGTTCCCCTTTAAA
1 GGGGGAATCGATTCCCCTTCAAA
* *
954506 GGGGGAATCGGTT-CCC-TC-AT
1 GGGGGAATCGATTCCCCTTCAAA
*
954526 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
954542 TCTTACCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 12 0.23
21 3 0.06
22 3 0.06
23 34 0.65
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (23 bp):
GGGGGAATCGATTCCCCTTCAAA
Found at i:954535 original size:20 final size:20
Alignment explanation
Indices: 954438--954543 Score: 61
Period size: 23 Copynumber: 4.9 Consensus size: 20
954428 AGAACCCCAG
*
954438 GGGGGTATCGATTCCC-CTAT
1 GGGGGAATCGATTCCCTC-AT
*
954458 GGGGGGGAATCGATTCCCCTTCAAA
1 --GGGGGAATCGATT-CCC-TC-AT
* * *
954483 GGGGGAATCGGTTCCCCTTTAAA
1 GGGGGAATCGATT-CCC--TCAT
*
954506 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
954526 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
954544 TTACCAAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
20 18 0.25
22 15 0.21
23 34 0.48
24 2 0.03
25 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:962967 original size:20 final size:20
Alignment explanation
Indices: 962939--962998 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
962929 AAAACCAGAA
962939 CCCTATGGGGGTATCGATTC
1 CCCTATGGGGGTATCGATTC
* * *
962959 CCCTGTGGGGGAATCGGTT-
1 CCCTATGGGGGTATCGATTC
962978 CCCTCATGGGGGTATCGATTC
1 CCCT-ATGGGGGTATCGATTC
962999 ACTCTGCACC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.28
Consensus pattern (20 bp):
CCCTATGGGGGTATCGATTC
Found at i:971448 original size:2 final size:2
Alignment explanation
Indices: 971441--971477 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
971431 TTACTATTTA
971441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
971478 ATGCATTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:971580 original size:17 final size:16
Alignment explanation
Indices: 971554--971587 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
971544 TAAGTTCTAA
971554 TTCTAATTTCTTCTTAC
1 TTCTAATTTCTT-TTAC
*
971571 TTCTATTTTCTTTTAC
1 TTCTAATTTCTTTTAC
971587 T
1 T
971588 ATTAACAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCTAATTTCTTTTAC
Found at i:972066 original size:30 final size:30
Alignment explanation
Indices: 972022--972100 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
972012 GTATTTCGGT
* * *
972022 CAATTATT-AATAGTTAGTGATTTTATTGA
1 CAATAATTAAATAGTTAGTGATTTGATTAA
*
972051 CAATAATTAAATAGTTAAGTGGTTTGATTAA
1 CAATAATTAAATAGTT-AGTGATTTGATTAA
* *
972082 CAA-AATTAAAAAATTAGTG
1 CAATAATTAAATAGTTAGTG
972101 TCAAAAGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 11 0.26
30 17 0.40
31 14 0.33
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (30 bp):
CAATAATTAAATAGTTAGTGATTTGATTAA
Done.