Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 3 of 290
Found at i:701434 original size:60 final size:60
Alignment explanation
Indices: 701369--701555 Score: 188
Period size: 60 Copynumber: 3.2 Consensus size: 60
701359 GATTTTTTCT
* * * *
701369 CAATTAGGTACTTGAACTTGGTTTTAAGGGTCAATTTGGTAACAAAAGTTTATTTTGGTT
1 CAATTAGGTACTTGAACTTGGCTTTAAGGTTCAATTTGGTACCAAAAGTTTATTTTGGTC
* * * * ** *
701429 CAATTAGGTAATT-AAGCTTAGCTTCAAGGTTCAAATCAGTACCTAAGAG--T-TTTT--TC
1 CAATTAGGTACTTGAA-CTTGGCTTTAAGGTTCAATTTGGTACC-AAAAGTTTATTTTGGTC
* * *
701485 CAATTAGGCACTTGAACTTGACTTTAAGGTTCAATTTGGTACCCAAAGTTTATTTTGGTC
1 CAATTAGGTACTTGAACTTGGCTTTAAGGTTCAATTTGGTACCAAAAGTTTATTTTGGTC
701545 CAATTAGGTAC
1 CAATTAGGTAC
701556 CTAAAACTTG
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
55 3 0.03
56 33 0.34
57 3 0.03
58 8 0.08
59 3 0.03
60 43 0.44
61 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (60 bp):
CAATTAGGTACTTGAACTTGGCTTTAAGGTTCAATTTGGTACCAAAAGTTTATTTTGGTC
Found at i:701527 original size:56 final size:56
Alignment explanation
Indices: 701338--701535 Score: 145
Period size: 56 Copynumber: 3.5 Consensus size: 56
701328 ACTTAGGTTC
* **
701338 AAGGTTCAAATCGGCACCTAAGA-TTTTTTCTCAATTAGGTACTTGAACTTGGTTTT
1 AAGGTTCAAATCGGTACCTAAGAGTTTTTTC-CAATTAGGTACTTGAACTTGACTTT
* * * * * * * *
701394 AAGGGTCAATTTGGTAAC-AAAAGTTTATTTTGGTTCAATTAGGTAATT-AAGCTT-AGCTTC
1 AAGGTTCAAATCGGTACCTAAGAG--T-TTTT--TCCAATTAGGTACTTGAA-CTTGA-CTTT
* *
701454 AAGGTTCAAATCAGTACCTAAGAGTTTTTTCCAATTAGGCACTTGAACTTGACTTT
1 AAGGTTCAAATCGGTACCTAAGAGTTTTTTCCAATTAGGTACTTGAACTTGACTTT
* * *
701510 AAGGTTCAATTTGGTACCCAA-AGTTT
1 AAGGTTCAAATCGGTACCTAAGAGTTT
701536 ATTTTGGTCC
Statistics
Matches: 106, Mismatches: 25, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
55 8 0.08
56 48 0.45
57 3 0.03
58 5 0.05
59 7 0.07
60 30 0.28
61 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (56 bp):
AAGGTTCAAATCGGTACCTAAGAGTTTTTTCCAATTAGGTACTTGAACTTGACTTT
Found at i:701533 original size:116 final size:116
Alignment explanation
Indices: 701329--701554 Score: 346
Period size: 116 Copynumber: 1.9 Consensus size: 116
701319 GGTACATGAA
* * * **
701329 CTTAGGTTCAAGGTTCAAATCGGCACCTAAGATTTTTTCTCAATTAGGTACTTGAACTTGGTTTT
1 CTTAGCTTCAAGGTTCAAATCAGCACCTAAGATTTTTTCTCAATTAGGCACTTGAACTTGACTTT
*
701394 AAGGGTCAATTTGGTAACAAAAGTTTATTTTGGTTCAATTAGGTAATTAAG
66 AAGGGTCAATTTGGTAACAAAAGTTTATTTTGGTCCAATTAGGTAATTAAG
*
701445 CTTAGCTTCAAGGTTCAAATCAGTACCTAAGAGTTTTTTC-CAATTAGGCACTTGAACTTGACTT
1 CTTAGCTTCAAGGTTCAAATCAGCACCTAAGA-TTTTTTCTCAATTAGGCACTTGAACTTGACTT
* * *
701509 TAAGGTTCAATTTGGTACCCAAAGTTTATTTTGGTCCAATTAGGTA
65 TAAGGGTCAATTTGGTAACAAAAGTTTATTTTGGTCCAATTAGGTA
701555 CCTAAAACTT
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 92 0.93
117 7 0.07
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (116 bp):
CTTAGCTTCAAGGTTCAAATCAGCACCTAAGATTTTTTCTCAATTAGGCACTTGAACTTGACTTT
AAGGGTCAATTTGGTAACAAAAGTTTATTTTGGTCCAATTAGGTAATTAAG
Found at i:709291 original size:8 final size:8
Alignment explanation
Indices: 709278--709306 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
709268 CTAAAAATAT
709278 TTTTTTTC
1 TTTTTTTC
709286 TTTTTTTC
1 TTTTTTTC
709294 TTTTTTT-
1 TTTTTTTC
709301 TTTTTT
1 TTTTTT
709307 GTTTAGTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTTC
Found at i:710544 original size:3 final size:3
Alignment explanation
Indices: 710536--710580 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
710526 TTCATGGCCT
* * *
710536 ATG ATG ATG ATG ACG ATG ATG ATG ATG TTG ATG ATG TTG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
710581 TTAGTAACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.36
Consensus pattern (3 bp):
ATG
Found at i:710981 original size:33 final size:33
Alignment explanation
Indices: 710931--710996 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
710921 TTTTTTTAAA
*
710931 AAATTATAAGTTAGTATTTGATACACTAATAAT
1 AAATTATAAGTTAGTATTTAATACACTAATAAT
* * *
710964 AAATTATTAA-TTCGTATTTAATATATTAATAAT
1 AAATTA-TAAGTTAGTATTTAATACACTAATAAT
710997 TTTAATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.89
34 3 0.11
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (33 bp):
AAATTATAAGTTAGTATTTAATACACTAATAAT
Found at i:720190 original size:19 final size:17
Alignment explanation
Indices: 720156--720205 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
720146 TATTTATTAT
720156 ATATTATAAATATAAAA
1 ATATTATAAATATAAAA
*
720173 ATATTTTAAATAATTAAAA
1 ATATTATAAAT-A-TAAAA
720192 ATGA-TATAAA-ATAA
1 AT-ATTATAAATATAA
720206 GTCAGGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 1 0.04
19 12 0.43
20 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATTATAAATATAAAA
Found at i:721014 original size:21 final size:23
Alignment explanation
Indices: 720988--721032 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
720978 ATTTTTATAA
720988 TTTTTAAAAATAAA-T-TAATTT
1 TTTTTAAAAATAAACTATAATTT
*
721009 TTTTTAAAATTAAACTATAATTT
1 TTTTTAAAAATAAACTATAATTT
721032 T
1 T
721033 ACCATACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 1 0.05
23 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTTAAAAATAAACTATAATTT
Found at i:721017 original size:20 final size:23
Alignment explanation
Indices: 720988--721032 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 23
720978 ATTTTTATAA
720988 TTTTTAAAAA-TAAA-T-TAATT
1 TTTTTAAAAATTAAACTATAATT
*
721008 TTTTTTAAAATTAAACTATAATT
1 TTTTTAAAAATTAAACTATAATT
721031 TT
1 TT
721033 ACCATACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 1 0.05
23 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTTAAAAATTAAACTATAATT
Found at i:722542 original size:95 final size:95
Alignment explanation
Indices: 722416--722629 Score: 306
Period size: 95 Copynumber: 2.3 Consensus size: 95
722406 ATAAATCTCA
* *
722416 AAAT-TATACATAAACTTTAATTTTATGTGTAATTTTATATATGAATTTTAATTTAGTGCAATTA
1 AAATATATACATAAACTTTAATTTAATATGTAATTTTATATATGAATTTTAATTTAGTGCAATTA
*
722480 TATATACACATAAAACTTTTATTGTTGA-C
66 TATATACACATAAAACTTTTATTGTAGATC
* * * *
722509 TAAATATATAAATAAACTTTGATTTAATATGTAATTTTATATATGAATTTTGATTTAGTGTAATT
1 -AAATATATACATAAACTTTAATTTAATATGTAATTTTATATATGAATTTTAATTTAGTGCAATT
* *
722574 ATATATACACGTAAAATTTTTATTGTAGATC
65 ATATATACACATAAAACTTTTATTGTAGATC
*
722605 AAATATATACATAAAACTTCAATTT
1 AAATATATACAT-AAACTTTAATTT
722630 TCATTTAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
94 4 0.04
95 90 0.86
96 11 0.10
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (95 bp):
AAATATATACATAAACTTTAATTTAATATGTAATTTTATATATGAATTTTAATTTAGTGCAATTA
TATATACACATAAAACTTTTATTGTAGATC
Found at i:729539 original size:22 final size:23
Alignment explanation
Indices: 729491--729547 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
729481 AACCCCCTCT
729491 AATACAATC-ACTTCTCTCCCCAA
1 AATACAATCGA-TTCTCTCCCCAA
*
729514 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCCCAA
*
729536 AATACCATCGAT
1 AATACAATCGAT
729548 CCCCCCTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 17 0.55
23 13 0.42
24 1 0.03
ACGTcount: A:0.37, C:0.32, G:0.04, T:0.28
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCCCAA
Found at i:729555 original size:22 final size:22
Alignment explanation
Indices: 729511--729555 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
729501 CTTCTCTCCC
* **
729511 CAAAATACAATCGATTCTTCCT
1 CAAAATACAATCGATCCCCCCT
*
729533 CAAAATACCATCGATCCCCCCT
1 CAAAATACAATCGATCCCCCCT
729555 C
1 C
729556 CTTACAGTCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.38, G:0.04, T:0.24
Consensus pattern (22 bp):
CAAAATACAATCGATCCCCCCT
Found at i:740926 original size:126 final size:129
Alignment explanation
Indices: 740782--741031 Score: 371
Period size: 133 Copynumber: 1.9 Consensus size: 129
740772 AAAGATTTTA
740782 ATAATAGTTAAACTGAGAATTAAACCCTAAACCC-TA-AAACTAAGTAGTAAGCATCAAACAAGA
1 ATAATAGTTAAACTGAGAATTAAACCCTAAACCCATATAAACTAAGTAGTAAGCATCAAACAAGA
* *
740845 GT-AAAATAACGCAATAAAAACAATCATAATAATATTATAGTTAAAAATTAACCAGTGAATTGG
66 GTAAAAATAACGAAATAAAAACAATCATAATAATAATATAGTTAAAAATTAACCAGTGAATTGG
* * * *
740908 ATAATAGTTAAGCTGAGAATTAAACCCTAAACCCTAATACTTAAATTAAGTAGTAGGCGTCAAAC
1 ATAATAGTTAAACTGAGAATTAAACCCTAAACCC--ATA--TAAACTAAGTAGTAAGCATCAAAC
* *
740973 AAGAGTAAAAATAACGAAATAACAACAATCATAATCATAATATAGTTAAAAATTAACCA
62 AAGAGTAAAAATAACGAAATAAAAACAATCATAATAATAATATAGTTAAAAATTAACCA
741032 ATCAGTTCAA
Statistics
Matches: 109, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
126 33 0.30
129 2 0.02
132 26 0.24
133 48 0.44
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (129 bp):
ATAATAGTTAAACTGAGAATTAAACCCTAAACCCATATAAACTAAGTAGTAAGCATCAAACAAGA
GTAAAAATAACGAAATAAAAACAATCATAATAATAATATAGTTAAAAATTAACCAGTGAATTGG
Found at i:741020 original size:133 final size:126
Alignment explanation
Indices: 740731--741032 Score: 379
Period size: 126 Copynumber: 2.3 Consensus size: 126
740721 AAAACAAAAC
* * * * * * *
740731 AATAACAACAGTCACAATCATAATAAAGCTAAACATTAACCAAAGATTTTAATAATAGTTAAACT
1 AATAACAACAATCATAATCATAATATAGTTAAAAATTAACCAAAGAATTGAATAATAGTTAAACT
*
740796 GAGAATTAAACCCTAAACCCTAAAACTAAGTAGTAAGCATCAAACAAGAGTAAAATAACGC
66 GAGAATTAAACCCTAAACCCTAAAACTAAGTAGTAAGCATCAAACAAGAGTAAAATAACGA
* * * ** * *
740857 AATAAAAACAATCATAATAATATTATAGTTAAAAATTAACCAGTGAATTGGATAATAGTTAAGCT
1 AATAACAACAATCATAATCATAATATAGTTAAAAATTAACCAAAGAATTGAATAATAGTTAAACT
* * *
740922 GAGAATTAAACCCTAAACCCTAATACTTAAATTAAGTAGTAGGCGTCAAACAAGAGTAAAAATAA
66 GAGAATTAAACCCTAAACCC---TA---AAACTAAGTAGTAAGCATCAAACAAGAGT-AAAATAA
740987 CGA
124 CGA
740990 AATAACAACAATCATAATCATAATATAGTTAAAAATTAACCAA
1 AATAACAACAATCATAATCATAATATAGTTAAAAATTAACCAA
741033 TCAGTTCAAT
Statistics
Matches: 147, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
126 71 0.48
129 2 0.01
132 26 0.18
133 48 0.33
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.24
Consensus pattern (126 bp):
AATAACAACAATCATAATCATAATATAGTTAAAAATTAACCAAAGAATTGAATAATAGTTAAACT
GAGAATTAAACCCTAAACCCTAAAACTAAGTAGTAAGCATCAAACAAGAGTAAAATAACGA
Found at i:741073 original size:133 final size:131
Alignment explanation
Indices: 740731--741083 Score: 326
Period size: 133 Copynumber: 2.7 Consensus size: 131
740721 AAAACAAAAC
* * * * * * * ** * *
740731 AATAACAACAGTCACAATCATAATAAAGCTAAACATTAACCAAAGATTTTAATAATAGTTAAACT
1 AATAAAAACAATCATAATAATAATATAGTTAAAAATTAACCAATCAATTCAATAATAGTTAAACT
* * *
740796 GAGAATTAAACCCTAAACCCT---A---AAACTAAGTAGTAAGCATCAAACAAGAGTAAAATAAC
66 AAGAATTAAA-CCGAAACCCTAACACTTAAATTAAGTAGTAAGCATCAAACAAGAGTAAAATAAC
*
740855 GC
130 GA
* * * ** *
740857 AATAAAAACAATCATAATAATATTATAGTTAAAAATTAACCAGTGAATTGGATAATAGTTAAGCT
1 AATAAAAACAATCATAATAATAATATAGTTAAAAATTAACCAATCAATTCAATAATAGTTAAACT
* * * * *
740922 GAGAATTAAACCCTAAACCCTAATACTTAAATTAAGTAGTAGGCGTCAAACAAGAGTAAAAATAA
66 AAGAATTAAA-CCGAAACCCTAACACTTAAATTAAGTAGTAAGCATCAAACAAGAGT-AAAATAA
740987 CGA
129 CGA
* * * *
740990 AATAACAACAATCATAATCATAATATAGTTAAAAATTAACCAATCAGTTCAATCGA-AGTTAAAA
1 AATAAAAACAATCATAATAATAATATAGTTAAAAATTAACCAATCAATTCAAT-AATAGTT--AA
741054 ACTAAGAATTAAA-CGAAACCCTAACACTTA
63 ACTAAGAATTAAACCGAAACCCTAACACTTA
741084 TGAAAAAAAT
Statistics
Matches: 186, Mismatches: 31, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
126 72 0.39
129 1 0.01
132 26 0.14
133 73 0.39
134 1 0.01
135 13 0.07
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (131 bp):
AATAAAAACAATCATAATAATAATATAGTTAAAAATTAACCAATCAATTCAATAATAGTTAAACT
AAGAATTAAACCGAAACCCTAACACTTAAATTAAGTAGTAAGCATCAAACAAGAGTAAAATAACG
A
Found at i:741904 original size:5 final size:5
Alignment explanation
Indices: 741896--741925 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
741886 TGAGGGTAGG
741896 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
741926 CATTGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:755172 original size:51 final size:51
Alignment explanation
Indices: 755096--755197 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
755086 GTAAAAAAGA
755096 AGGTAGAATATTGAGTTGCTGCTGCATGAGATATGTAGTGATAATTTGATC
1 AGGTAGAATATTGAGTTGCTGCTGCATGAGATATGTAGTGATAATTTGATC
755147 AGGTAGAATATTGAGTTGCTGCTGCATGAGATATGTAGTGATAATTTGATC
1 AGGTAGAATATTGAGTTGCTGCTGCATGAGATATGTAGTGATAATTTGATC
755198 TTCATATTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (51 bp):
AGGTAGAATATTGAGTTGCTGCTGCATGAGATATGTAGTGATAATTTGATC
Found at i:756986 original size:24 final size:25
Alignment explanation
Indices: 756959--757031 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 25
756949 CTCAAAATTG
*
756959 AATTAAATTTTATTTTTAATA-AAT
1 AATTAAATTTTATTTTTAATATAAA
756983 AATT-AATTTTAATTTTTTATTATATAAA
1 AATTAAATTTT-A-TTTTTA--ATATAAA
757011 AATTAAATATTTTATTTTTAA
1 AATT-AA-ATTTTATTTTTAA
757032 AATAGTGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
23 6 0.15
24 5 0.12
25 6 0.15
27 4 0.10
28 6 0.15
29 6 0.15
30 2 0.05
31 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
AATTAAATTTTATTTTTAATATAAA
Found at i:756986 original size:29 final size:27
Alignment explanation
Indices: 756952--757031 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 27
756942 CTGGTTACTC
756952 AAAATTGAATTAAATTTTATTTTTAATA
1 AAAATT-AATTAAATTTTATTTTTAATA
* *
756980 AATAATTAATTTTAATTTT-TTATTATATA
1 AA-AATTAA-TTAAATTTTATTTTTA-ATA
*
757009 AAAATTAA--ATATTTTATTTTTAA
1 AAAATTAATTAAATTTTATTTTTAA
757032 AATAGTGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
25 6 0.14
26 5 0.12
28 15 0.35
29 17 0.40
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
AAAATTAATTAAATTTTATTTTTAATA
Found at i:759054 original size:17 final size:17
Alignment explanation
Indices: 759028--759067 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
759018 CTTACTCCTT
* *
759028 TAAAAATAATAAAATTA
1 TAAAATTAATAAAATGA
*
759045 TAAAATTAATATAATGA
1 TAAAATTAATAAAATGA
759062 TAAAAT
1 TAAAAT
759068 AGTCTTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATTAATAAAATGA
Found at i:759600 original size:14 final size:14
Alignment explanation
Indices: 759583--759609 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
759573 ATGTTAAAAT
759583 TTGTAATTTAATTC
1 TTGTAATTTAATTC
759597 TTGTAATTTAATT
1 TTGTAATTTAATT
759610 TGACATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (14 bp):
TTGTAATTTAATTC
Found at i:762349 original size:18 final size:18
Alignment explanation
Indices: 762326--762362 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
762316 GTGTGAGTAT
762326 TATGTAGTAATACTAAGC
1 TATGTAGTAATACTAAGC
762344 TATGTAGTAATACTAAGC
1 TATGTAGTAATACTAAGC
762362 T
1 T
762363 GAGATGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (18 bp):
TATGTAGTAATACTAAGC
Found at i:763541 original size:24 final size:25
Alignment explanation
Indices: 763499--763549 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
763489 ACGATAGATC
* * *
763499 AAAATAAAATTTTAGATATTAAATT
1 AAAATAAAATTATAAATATCAAATT
763524 AAAA-AAAATTATAAATATCAAATT
1 AAAATAAAATTATAAATATCAAATT
763548 AA
1 AA
763550 GAGAATGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATAAAATTATAAATATCAAATT
Found at i:763860 original size:3 final size:3
Alignment explanation
Indices: 763852--763889 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
763842 AGGTGTTTCT
763852 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
763890 CTTTAATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:763964 original size:21 final size:22
Alignment explanation
Indices: 763921--763965 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
763911 AAAATAAGAT
763921 AATACAAAGATTAATACTTACA
1 AATACAAAGATTAATACTTACA
763943 AATACAAA-ATCTAATA-TTACA
1 AATACAAAGAT-TAATACTTACA
763964 AA
1 AA
763966 CAGTGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (22 bp):
AATACAAAGATTAATACTTACA
Found at i:772810 original size:85 final size:85
Alignment explanation
Indices: 772616--773043 Score: 429
Period size: 85 Copynumber: 5.0 Consensus size: 85
772606 CACAAAAACA
*
772616 ATATATATGCAATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATA-TTC---CACTCCTATA
1 ATATATATG-AATTTCCAAAAGAACATTTTAGGTTTCAATAAATCGTATTTCGTTC-CTCCTATA
*
772677 CAAACCGGAGTAGACTATCCCCT
64 CAAACCGGAGAAGACTAT-CCCT
* * * *
772700 AGATATA-GAATTTCCAAAAGAACATTTTATGTTTCAATAGATTGTATTTCGTTCCTCCTATACA
1 ATATATATGAATTTCCAAAAGAACATTTTAGGTTTCAATAAATCGTATTTCGTTCCTCCTATACA
*
772764 AACCAGAGAAGACTATCCCT
66 AACCGGAGAAGACTATCCCT
* * *
772784 ATATATATG-ATTTCCAAAAAGAACATTTTAGGTTCCAATAAATCATATTTCGTTCCTCCCATAC
1 ATATATATGAATTTCC-AAAAGAACATTTTAGGTTTCAATAAATCGTATTTCGTTCCTCCTATAC
* *
772848 AAACTGGAGTAGACTATCCCT
65 AAACCGGAGAAGACTATCCCT
* * * * * * * * **
772869 ATATATGT-AATTCCCAAAAGAACAGTTTAGGTTCCAATAAATCGTACTCCTTTCCTCCTAAATG
1 ATATATATGAATTTCCAAAAGAACATTTTAGGTTTCAATAAATCGTATTTCGTTCCTCCTATACA
*
772933 AACCGGAGAAGACCATCCCTAT
66 AACCGGAGAAGACTATCCC--T
* * *
772955 ATATATATGTATATAATTTCAAAAAAGAACATTTTAAGTTTCAATAAATCGTATTTTGTTCCTCC
1 ATATATATG-----AATTTC-CAAAAGAACATTTTAGGTTTCAATAAATCGTATTTCGTTCCTCC
* ***
773020 TATACGAACAACAGAAGACTATCC
60 TATACAAACCGGAGAAGACTATCC
773044 TAATCGAATA
Statistics
Matches: 281, Mismatches: 47, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
82 34 0.12
83 4 0.01
84 78 0.28
85 97 0.35
86 9 0.03
92 5 0.02
93 54 0.19
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (85 bp):
ATATATATGAATTTCCAAAAGAACATTTTAGGTTTCAATAAATCGTATTTCGTTCCTCCTATACA
AACCGGAGAAGACTATCCCT
Found at i:772953 original size:169 final size:172
Alignment explanation
Indices: 772616--773024 Score: 476
Period size: 169 Copynumber: 2.4 Consensus size: 172
772606 CACAAAAACA
772616 ATATATATGCAATTTCC-AAAAGAACATTTTAGGTTTCAATAAATCATA-TTC---CACTCCTAT
1 ATATATATG-AATTTCCAAAAAGAACATTTTAGGTTTCAATAAATCATATTTCGTTC-CTCCTAT
* * * * *
772676 ACAAACCGGAGTAGACTATCCCCTAGATATAGAATTTCCAAAAGAACATTTTATGTTTCAATAGA
64 ACAAACCGGAGTAGACTATCCCCTAGATATAGAATTCCCAAAAGAACAGTTTAGGTTCCAATAAA
* * * * *
772741 TTGTATTTCGTTCCTCCTATACAAACCAGAGAAGACTATCCC-T
129 TCGTACTCCGTTCCTCCTAAACAAACCAGAGAAGACCATCCCAT
* *
772784 ATATATATG-ATTTCCAAAAAGAACATTTTAGGTTCCAATAAATCATATTTCGTTCCTCCCATAC
1 ATATATATGAATTTCCAAAAAGAACATTTTAGGTTTCAATAAATCATATTTCGTTCCTCCTATAC
* *
772848 AAACTGGAGTAGACTAT-CCCTATATAT-GTAATTCCCAAAAGAACAGTTTAGGTTCCAATAAAT
66 AAACCGGAGTAGACTATCCCCTAGATATAG-AATTCCCAAAAGAACAGTTTAGGTTCCAATAAAT
* ** *
772911 CGTACTCCTTTCCTCCTAAATGAACCGGAGAAGACCATCCCTAT
130 CGTACTCCGTTCCTCCTAAACAAACCAGAGAAGACCATCCC-AT
* * * *
772955 ATATATATGTATATAATTTCAAAAAAGAACATTTTAAGTTTCAATAAATCGTATTTTGTTCCTCC
1 ATATATATG-----AATTTCCAAAAAGAACATTTTAGGTTTCAATAAATCATATTTCGTTCCTCC
773020 TATAC
61 TATAC
773025 GAACAACAGA
Statistics
Matches: 203, Mismatches: 24, Indels: 19
0.83 0.10 0.08
Matches are distributed among these distances:
166 6 0.03
167 30 0.15
168 13 0.06
169 70 0.34
170 24 0.12
171 11 0.05
177 49 0.24
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (172 bp):
ATATATATGAATTTCCAAAAAGAACATTTTAGGTTTCAATAAATCATATTTCGTTCCTCCTATAC
AAACCGGAGTAGACTATCCCCTAGATATAGAATTCCCAAAAGAACAGTTTAGGTTCCAATAAATC
GTACTCCGTTCCTCCTAAACAAACCAGAGAAGACCATCCCAT
Found at i:774129 original size:15 final size:17
Alignment explanation
Indices: 774109--774141 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
774099 TGATATTATA
774109 ATAATTT-T-TTATTTG
1 ATAATTTATGTTATTTG
774124 ATAATTTATGTTATTTG
1 ATAATTTATGTTATTTG
774141 A
1 A
774142 ACGAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
ATAATTTATGTTATTTG
Found at i:775469 original size:44 final size:45
Alignment explanation
Indices: 775405--775525 Score: 172
Period size: 44 Copynumber: 2.7 Consensus size: 45
775395 ACCAAAAACA
* *
775405 AGTAAGACCATAGCTGAAAGACGTTATGGCATCCCAATTTTAACG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACAATTCTAACG
* * * *
775450 AGTAA-ATCATAGTTGAAAGACGTTATGGCATCACGATTCTAGCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACAATTCTAACG
*
775494 AGTAAGACCATAGCTGAAAGACGCTATGGCAT
1 AGTAAGACCATAGCTGAAAGACGTTATGGCAT
775526 TATGAATCAG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
44 38 0.58
45 28 0.42
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGTTATGGCATCACAATTCTAACG
Found at i:775545 original size:45 final size:45
Alignment explanation
Indices: 775405--775575 Score: 152
Period size: 45 Copynumber: 3.8 Consensus size: 45
775395 ACCAAAAACA
* * * * *
775405 AGTAAGACCATAGCTGAAAGACGTTATGGCATC-CCAATTTTAACG
1 AGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAA-TCTAGCG
* * *
775450 AGTAA-ATCATAGTTGAAAGACGTTATGGCATCACGATTCTAGCG
1 AGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCTAGCG
* * *
775494 AGTAAGACCATAGCTGAAAGACGCTATGGCATTATGAATC-AGACG
1 AGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCTAG-CG
** * *
775539 -GATAAGACCACGGTTGAAAGACACTATGGCAACACGA
1 AG-TAAGACCATAGTTGAAAGACGCTATGGCATCACGA
775576 TATAAAATGA
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
44 38 0.37
45 65 0.63
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCTAGCG
Found at i:775605 original size:46 final size:45
Alignment explanation
Indices: 775540--775653 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 45
775530 AATCAGACGG
* * *
775540 ATAAGACCACGGTTGAAAGACACTATGGCAACACGATAT-AAAATGA
1 ATAAGACCATGGTTGAAAGACACTATGACAACAAG-T-TGAAAATGA
* * * **
775586 ATAAGATCATGGTTGAAAGACACTCTGACATCAAGTTGGGAATGA
1 ATAAGACCATGGTTGAAAGACACTATGACAACAAGTTGAAAATGA
775631 ATAAGACCATGGTTGAAAGACAC
1 ATAAGACCATGGTTGAAAGACAC
775654 CATAACATTC
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 28 0.48
46 29 0.50
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (45 bp):
ATAAGACCATGGTTGAAAGACACTATGACAACAAGTTGAAAATGA
Found at i:778823 original size:46 final size:46
Alignment explanation
Indices: 778773--778948 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
778763 TGGTTGAGCA
778773 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
778819 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
778864 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
778912 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
778949 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.59
47 29 0.27
48 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:778929 original size:93 final size:93
Alignment explanation
Indices: 778770--778940 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
778760 GGATGGTTGA
* ***
778770 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACACCCGAACTCGTTGAGT
778835 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
778863 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACACCCGAACTCGTTGAGT
778928 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
778941 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:786316 original size:12 final size:12
Alignment explanation
Indices: 786299--786323 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
786289 TTACAATTGA
786299 AAAATATTTTTT
1 AAAATATTTTTT
786311 AAAATATTTTTT
1 AAAATATTTTTT
786323 A
1 A
786324 TACAGTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAAATATTTTTT
Found at i:789805 original size:16 final size:17
Alignment explanation
Indices: 789784--789818 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
789774 TAGTCTTCCA
789784 TTTTAAAAA-ATAATTT
1 TTTTAAAAAGATAATTT
*
789800 TTTTAAAAAGTTAATTT
1 TTTTAAAAAGATAATTT
789817 TT
1 TT
789819 AAAAGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTTAAAAAGATAATTT
Found at i:801385 original size:20 final size:20
Alignment explanation
Indices: 801360--801419 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
801350 AAACTTCAAA
801360 AGTAAAATATTATTCTAGAT
1 AGTAAAATATTATTCTAGAT
* *
801380 AGTAAAA-A--CTTC-A-AA
1 AGTAAAATATTATTCTAGAT
801395 AGTAAAATATTATTCTAGAT
1 AGTAAAATATTATTCTAGAT
801415 AGTAA
1 AGTAA
801420 TTGGAATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 8 0.26
16 2 0.06
17 3 0.10
18 3 0.10
19 2 0.06
20 13 0.42
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAAATATTATTCTAGAT
Found at i:801387 original size:35 final size:35
Alignment explanation
Indices: 801348--801419 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
801338 TCAAGATAAG
801348 AAAAACTTCAAAAGTAAAATATTATTCTAGATAGT
1 AAAAACTTCAAAAGTAAAATATTATTCTAGATAGT
801383 AAAAACTTCAAAAGTAAAATATTATTCTAGATAGT
1 AAAAACTTCAAAAGTAAAATATTATTCTAGATAGT
801418 AA
1 AA
801420 TTGGAATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (35 bp):
AAAAACTTCAAAAGTAAAATATTATTCTAGATAGT
Found at i:805174 original size:10 final size:11
Alignment explanation
Indices: 805148--805177 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
805138 TTAAATGTCA
805148 TATAAATTTTT
1 TATAAATTTTT
805159 TATAAATTTTT
1 TATAAATTTTT
805170 T-TAAATTT
1 TATAAATTT
805178 AAATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATAAATTTTT
Found at i:818795 original size:20 final size:20
Alignment explanation
Indices: 818770--818822 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
818760 TGTGGTTCAA
*
818770 CATTCGAGCTCAAGTTAGCT
1 CATTCGAGCTCAAGTCAGCT
*
818790 CATTCGTGCTCAAGTCAGCT
1 CATTCGAGCTCAAGTCAGCT
*
818810 CATTCAAGCTCAA
1 CATTCGAGCTCAA
818823 TTTAACTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
CATTCGAGCTCAAGTCAGCT
Found at i:819204 original size:45 final size:45
Alignment explanation
Indices: 819154--819347 Score: 289
Period size: 45 Copynumber: 4.3 Consensus size: 45
819144 GAACGGCATG
*
819154 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
819199 AAATTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
819244 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
819289 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
819334 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
819348 CCATGGCCGA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:819995 original size:20 final size:18
Alignment explanation
Indices: 819969--820019 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
819959 TATGGTTTTG
819969 TAAAAAAAAAAAGAGAAAT
1 TAAAAAAAAAAAGAG-AAT
***
819988 TCAAAAAAAAATTCAGAAT
1 T-AAAAAAAAAAAGAGAAT
820007 TAAAAAAAAAAAG
1 TAAAAAAAAAAAG
820020 TGATTGAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 9 0.36
19 5 0.20
20 11 0.44
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.14
Consensus pattern (18 bp):
TAAAAAAAAAAAGAGAAT
Found at i:822330 original size:20 final size:20
Alignment explanation
Indices: 822305--822357 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
822295 TGTGGTTCAA
*
822305 CATTCGAGCTCAAGTTAGCT
1 CATTCGAGCTCAAGTCAGCT
*
822325 CATTCGTGCTCAAGTCAGCT
1 CATTCGAGCTCAAGTCAGCT
*
822345 CATTCAAGCTCAA
1 CATTCGAGCTCAA
822358 TTTAACTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
CATTCGAGCTCAAGTCAGCT
Found at i:822740 original size:45 final size:45
Alignment explanation
Indices: 822690--822883 Score: 289
Period size: 45 Copynumber: 4.3 Consensus size: 45
822680 GAACGGCATG
*
822690 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
822735 AAATTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
822780 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
822825 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
822870 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
822884 CCATGGCCGA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:831906 original size:3 final size:3
Alignment explanation
Indices: 831863--831894 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
831853 AATAAAATGC
*
831863 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
831895 ACTCAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:833530 original size:131 final size:132
Alignment explanation
Indices: 833389--833783 Score: 498
Period size: 131 Copynumber: 3.0 Consensus size: 132
833379 GATAGGATAG
*
833389 TGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
1 TGTCTGCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
833454 TAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
66 TAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
833519 CC
131 CC
* ** *** * *
833521 TG-GTGCGATCTGCTCTACTGTAA-CTTCAGGGAGATAAGATC-CTTTATTTTAATCCGCTCCAC
1 TGTCTGCGATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCAC
* ** * * * *
833583 TGTAACTTCAGGGAGATAAGATCCT-TTA-T-TTTAATCCGCTCCACTGTAA-CTTCAGGGAGAT
64 TGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTAGTCTGTTCCACTGTAATC-TCAGGGAAAT
* **
833644 AGGATAG
127 AAGA-CC
*
833651 TGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
1 TGTCTGCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
* *
833716 TGACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGGAATAAGA
66 TAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
833781 CC
131 CC
833783 T
1 T
833784 TTTATAATGA
Statistics
Matches: 211, Mismatches: 40, Indels: 24
0.77 0.15 0.09
Matches are distributed among these distances:
128 1 0.00
129 29 0.14
130 7 0.03
131 137 0.65
132 8 0.04
133 28 0.13
134 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
TGTCTGCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
TAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
CC
Found at i:833665 original size:218 final size:218
Alignment explanation
Indices: 833268--833693 Score: 597
Period size: 218 Copynumber: 2.0 Consensus size: 218
833258 TGTTGTGTTC
* *
833268 AGTCTATTCCACTGCATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGA
1 AGTCTATTCCACTGAATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGA
* * *
833333 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGA
66 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCAA
* * *
833398 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
131 TCCGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCACTGTAACCTCAG
833463 GGAGATAAGATCTGAAATTCTTT
196 GGAGATAAGATCTGAAATTCTTT
* * * *
833486 AGTCTGTTCCACTGTAATC-TCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAG
1 AGTCTATTCCACTG-AATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAG
* * * * *
833550 GGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTT
65 AGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATACTGT-CTTC
* * * * * *
833615 AATCCGCTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCGCTGTAATCT
129 AATCCGCTCCACTGTAATC-TCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCACTGTAACCT
833678 CAGGGAGATAAGATCT
193 CAGGGAGATAAGATCT
833694 CTGGCTTCAA
Statistics
Matches: 182, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
218 149 0.82
219 33 0.18
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (218 bp):
AGTCTATTCCACTGAATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGA
GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCAA
TCCGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCACTGTAACCTCAG
GGAGATAAGATCTGAAATTCTTT
Found at i:833737 original size:44 final size:44
Alignment explanation
Indices: 833320--833737 Score: 314
Period size: 44 Copynumber: 9.6 Consensus size: 44
833310 ATCTACTCTG
* *** * *
833320 CTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCA
* * ** * * *
833364 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
833407 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
* * * * *
833451 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTAGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCA
* * * * *
833497 CTGTAATCTCAGGGAAATAAGA-C-CTGG-TGCGATCTGCTCTA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
* *** * *
833538 CTGTAACTTCAGGGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCA
* *** * *
833582 CTGTAACTTCAGGGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCA
* * ** * * *
833626 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
833669 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
833713 CTGTGACCTCAGGGAGATAAGATCT
1 CTGTAACCTCAGGGAGATAAGATCT
833738 GAAATTCTTT
Statistics
Matches: 299, Mismatches: 64, Indels: 22
0.78 0.17 0.06
Matches are distributed among these distances:
41 28 0.09
42 2 0.01
43 63 0.21
44 172 0.58
45 1 0.00
46 32 0.11
47 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
Found at i:925939 original size:103 final size:102
Alignment explanation
Indices: 925802--926134 Score: 565
Period size: 103 Copynumber: 3.3 Consensus size: 102
925792 ATTTGTGATT
925802 GTTCATGGTGGTGCT-AGTGCG-TATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTG
1 GTTCATGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTG
925865 CTGATTCCCCCGAGGGTTGCTAAGTGCTGATTCCCCG
66 CTGATTCCCCCGAGGGTTGCTAAGTGCTGATTCCCCG
925902 GTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGT
1 GTTCA-TGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGT
925967 GCTGATTCCCCCGA-GGTTGCTAAGTGCTGATTCCCC-
65 GCTGATTCCCCCGAGGGTTGCTAAGTGCTGATTCCCCG
926003 GTTCA-GGTGGTGCTAAGTGCGATAT-CACCATATCTTTGAAA--TGAAAGGGGGTTGCTATGTG
1 GTTCATGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTG
926064 CTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCG
66 CTGATTCCCCCGA-GGGTTGCTAAGTGCTGATTCCCCG
* *
926102 ATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 GTTCA-TGGTGGTGCTAAGTGCGATATCCACCA
926135 ATAACGGTTA
Statistics
Matches: 222, Mismatches: 2, Indels: 16
0.93 0.01 0.07
Matches are distributed among these distances:
96 33 0.15
98 38 0.17
99 24 0.11
100 5 0.02
101 34 0.15
102 33 0.15
103 55 0.25
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (102 bp):
GTTCATGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTG
CTGATTCCCCCGAGGGTTGCTAAGTGCTGATTCCCCG
Found at i:930402 original size:39 final size:39
Alignment explanation
Indices: 930313--930489 Score: 257
Period size: 39 Copynumber: 4.5 Consensus size: 39
930303 ACAAAGCATG
* * *
930313 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
** *
930353 CAAGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
930392 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
930431 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
930470 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
930490 TATCTCACAC
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 19 0.15
39 101 0.81
40 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:938408 original size:12 final size:12
Alignment explanation
Indices: 938368--938456 Score: 63
Period size: 12 Copynumber: 7.2 Consensus size: 12
938358 AGTATATTCT
*
938368 CCACCACCACCA
1 CCACCTCCACCA
938380 CCACCTCCATCC-
1 CCACCTCCA-CCA
938392 CCACCTCCACCA
1 CCACCTCCACCA
* * *
938404 TCACCCCCGCCA
1 CCACCTCCACCA
* *
938416 CCTACTTATCCATCA
1 CC-AC--CTCCACCA
938431 CCACCTCCACCA
1 CCACCTCCACCA
* *
938443 TCTCCTCCACCA
1 CCACCTCCACCA
938455 CC
1 CC
938457 TTCACCAGTA
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
11 2 0.03
12 44 0.76
13 4 0.07
14 2 0.03
15 6 0.10
ACGTcount: A:0.22, C:0.62, G:0.01, T:0.15
Consensus pattern (12 bp):
CCACCTCCACCA
Found at i:940831 original size:56 final size:56
Alignment explanation
Indices: 940770--940890 Score: 134
Period size: 56 Copynumber: 2.1 Consensus size: 56
940760 TTATGTCCTT
* **
940770 TTTTTTAATCATTCAACTATAAAAAAATTGTAAAATAGACACTTAATTATTAATAAA
1 TTTTTTAATCACTCAACTAT-AAAAAATTACAAAATAGACACTTAATTATTAATAAA
** * * * *
940827 TTTTTTTGTCACTCAATTATCAAAAATTACAAAATAGTCACTTAATTATTTAATTATA
1 TTTTTTAATCACTCAACTATAAAAAATTACAAAATAGACACTTAATTA-TTAA-TAAA
940885 TTTTTT
1 TTTTTT
940891 TAGCATCTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
56 24 0.45
57 20 0.38
58 9 0.17
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (56 bp):
TTTTTTAATCACTCAACTATAAAAAATTACAAAATAGACACTTAATTATTAATAAA
Found at i:950940 original size:42 final size:42
Alignment explanation
Indices: 950893--950976 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
950883 TCCCAAAAGC
950893 AATTTTCTAGTTTCTCCCCTGATTATAATTCAAATATATATG
1 AATTTTCTAGTTTCTCCCCTGATTATAATTCAAATATATATG
* *
950935 AATTTTCTAGTTTCTCGCCTGATTATAATTCGAATATATATG
1 AATTTTCTAGTTTCTCCCCTGATTATAATTCAAATATATATG
950977 TTACAGGGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (42 bp):
AATTTTCTAGTTTCTCCCCTGATTATAATTCAAATATATATG
Found at i:954497 original size:32 final size:32
Alignment explanation
Indices: 954461--954560 Score: 83
Period size: 32 Copynumber: 3.3 Consensus size: 32
954451 ATAAGTTTAG
954461 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAA
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAA
*
954493 GTACCAAA-TAGGGCAAAAAAAGT-T-TAG----A
1 GTACCAAATTA--G-AAAAAAAGTGTCAAGTTCAA
*
954521 -TACCAAATTAGAAAAAAAATG-CGAAGTTCAA
1 GTACCAAATTAGAAAAAAAGTGTC-AAGTTCAA
954552 GTACCAAAT
1 GTACCAAAT
954561 GTTGTATTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 24
0.66 0.04 0.30
Matches are distributed among these distances:
25 8 0.15
26 1 0.02
27 9 0.17
28 3 0.06
31 3 0.06
32 18 0.34
33 2 0.04
34 9 0.17
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (32 bp):
GTACCAAATTAGAAAAAAAGTGTCAAGTTCAA
Found at i:956291 original size:29 final size:29
Alignment explanation
Indices: 956257--956333 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
956247 CACGATAACG
*
956257 TAAGTGACTAAAACGTAACGTTTCAAACA
1 TAAGTGACTAAAACGTAACATTTCAAACA
*
956286 TAAGTGACTAAAACATAACATTTCAAACA
1 TAAGTGACTAAAACGTAACATTTCAAACA
956315 TAAGTGACTAGAAA-GTAAC
1 TAAGTGACTA-AAACGTAAC
956334 CTGATGGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 41 0.93
30 3 0.07
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (29 bp):
TAAGTGACTAAAACGTAACATTTCAAACA
Found at i:958184 original size:16 final size:17
Alignment explanation
Indices: 958154--958186 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
958144 TTTATCTTAA
*
958154 AATTAAAAATGGAATAG
1 AATTAAAAATAGAATAG
958171 AATTAAAAA-AGAATAG
1 AATTAAAAATAGAATAG
958187 TGGTGAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
AATTAAAAATAGAATAG
Found at i:959653 original size:20 final size:20
Alignment explanation
Indices: 959627--959667 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
959617 TACTCTTAGC
* *
959627 TTTTTTTTTTAGAATTTTAAA
1 TTTTTTATTTA-AATGTTAAA
959648 TTTTTTATTTAAATGTTAAA
1 TTTTTTATTTAAATGTTAAA
959668 AAAAAAGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTTTATTTAAATGTTAAA
Found at i:964773 original size:6 final size:6
Alignment explanation
Indices: 964762--964794 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
964752 CTTGTTTATT
964762 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
964795 GTGAAGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:976897 original size:31 final size:31
Alignment explanation
Indices: 976843--976927 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
976833 TTTGGATCAA
* * *
976843 GACTAAAATTTAAAAATTTAAAAAGTATAGG
1 GACTAAAATTGAAAAATTCAAAAAATATAGG
** *
976874 GACTAAAATTGACCAATTCAAAAAATATAGA
1 GACTAAAATTGAAAAATTCAAAAAATATAGG
* *
976905 GATTAAATTTGATAAAATT-AAAA
1 GACTAAAATTGA-AAAATTCAAAA
976928 TTTAAGGGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
31 39 0.91
32 4 0.09
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (31 bp):
GACTAAAATTGAAAAATTCAAAAAATATAGG
Found at i:984344 original size:15 final size:14
Alignment explanation
Indices: 984301--984344 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
984291 TCTTCGTAAA
984301 TTTAAAATTTAATT
1 TTTAAAATTTAATT
* * *
984315 TTTATACTTTTATT
1 TTTAAAATTTAATT
984329 TTTAAGAATTTAATT
1 TTTAA-AATTTAATT
984344 T
1 T
984345 CTATATTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (14 bp):
TTTAAAATTTAATT
Found at i:985729 original size:10 final size:9
Alignment explanation
Indices: 985703--985740 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
985693 TTGAATTTAA
985703 TTTTATAAT
1 TTTTATAAT
985712 TTTTATAAT
1 TTTTATAAT
985721 TTTTAATAAT
1 TTTT-ATAAT
*
985731 TTTTTTAAT
1 TTTTATAAT
985740 T
1 T
985741 AAAATTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:985731 original size:19 final size:18
Alignment explanation
Indices: 985703--985740 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
985693 TTGAATTTAA
985703 TTTTATAATTTTTATAAT
1 TTTTATAATTTTTATAAT
*
985721 TTTTAATAATTTTTTTAAT
1 TTTT-ATAATTTTTATAAT
985740 T
1 T
985741 AAAATTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATAATTTTTATAAT
Found at i:994034 original size:26 final size:26
Alignment explanation
Indices: 993998--994051 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
993988 CTATCTATCA
993998 AACTTGAAATCCCATTTAAAATTAGC
1 AACTTGAAATCCCATTTAAAATTAGC
994024 AACTTGAAATCCCATTTAAAATTAGC
1 AACTTGAAATCCCATTTAAAATTAGC
994050 AA
1 AA
994052 GAGTTTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (26 bp):
AACTTGAAATCCCATTTAAAATTAGC
Found at i:996278 original size:27 final size:27
Alignment explanation
Indices: 996247--996301 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
996237 TGTAATTGGG
996247 TAGGGTTATTGGAGTAAAAAAAAATGT
1 TAGGGTTATTGGAGTAAAAAAAAATGT
996274 TAGGGTTATTGGAGTAAAAAAAAATGT
1 TAGGGTTATTGGAGTAAAAAAAAATGT
996301 T
1 T
996302 TTCTTGATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (27 bp):
TAGGGTTATTGGAGTAAAAAAAAATGT
Found at i:997449 original size:45 final size:45
Alignment explanation
Indices: 997398--997487 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
997388 TATCATAGCC
*
997398 TTTCTCCTCAGTTTCCACAAACCTGTAAATATGTATGCAATTAAA
1 TTTCTCCTCAGTTTCCACAAACCCGTAAATATGTATGCAATTAAA
*
997443 TTTCTCCTCAGTTTCCACAAACCCGTAAATATGTATGTAATTAAA
1 TTTCTCCTCAGTTTCCACAAACCCGTAAATATGTATGCAATTAAA
997488 GGGATGAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (45 bp):
TTTCTCCTCAGTTTCCACAAACCCGTAAATATGTATGCAATTAAA
Found at i:1010686 original size:26 final size:27
Alignment explanation
Indices: 1010643--1010693 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
1010633 ATTGTAGTTA
*
1010643 AATTTTAAAATATGAAAA-AGAAATTG
1 AATTTTAAAATATAAAAATAGAAATTG
1010669 AATTTTCAAAA-ATAAAAATAGAAAT
1 AATTTT-AAAATATAAAAATAGAAAT
1010694 AGAGAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTTTAAAATATAAAAATAGAAATTG
Found at i:1020870 original size:130 final size:131
Alignment explanation
Indices: 1020633--1020897 Score: 478
Period size: 130 Copynumber: 2.0 Consensus size: 131
1020623 AAATGGTAGG
1020633 CAAGTTGTTTAAAGTTGAATGGGATAATTGCAATTTTAGTCCCTAATTTTTTAGGCAATTTGCAA
1 CAAGTTGTTTAAAGTTGAATGGGATAATTGCAA---TAGTCCCTAATTTTTTAGGCAATTTGCAA
1020698 GTTAGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTACACTATCCCAACCAAT
63 GTTAGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTACACTATCCCAACCAAT
1020763 CTTT
128 CTTT
* *
1020767 CAAGTTGTTTAAAGTTGAATGGGATAATTGCAA-GGTCCCTAATTTTTTAGGCCATTTGCAAGTT
1 CAAGTTGTTTAAAGTTGAATGGGATAATTGCAATAGTCCCTAATTTTTTAGGCAATTTGCAAGTT
1020831 AGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTACACTATCCCAACCAATCTT
66 AGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTACACTATCCCAACCAATCTT
1020896 T
131 T
1020897 C
1 C
1020898 TCTCTTAGTT
Statistics
Matches: 129, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
130 96 0.74
134 33 0.26
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (131 bp):
CAAGTTGTTTAAAGTTGAATGGGATAATTGCAATAGTCCCTAATTTTTTAGGCAATTTGCAAGTT
AGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTACACTATCCCAACCAATCTT
T
Found at i:1023555 original size:21 final size:21
Alignment explanation
Indices: 1023529--1023569 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1023519 AGACGAGCAA
* *
1023529 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1023550 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1023570 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1027188 original size:13 final size:13
Alignment explanation
Indices: 1027156--1027180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1027146 TGTATAGAAT
1027156 AATAAATAAATAA
1 AATAAATAAATAA
1027169 AATAAATAAATA
1 AATAAATAAATA
1027181 TACAAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAAATAAATAA
Found at i:1027492 original size:3 final size:3
Alignment explanation
Indices: 1027486--1027556 Score: 56
Period size: 3 Copynumber: 24.0 Consensus size: 3
1027476 CAGTAGCAGT
** * * *
1027486 ATA ATA ATA ATA ATA ATA ATA ATA ACC GTA GTA GTA ATA A-A AGT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* *
1027530 ATA ATA GTA ATG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1027557 TAAAAATATA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
2 3 0.05
3 52 0.95
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:1027510 original size:35 final size:37
Alignment explanation
Indices: 1027466--1027548 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 37
1027456 TAATAGTACC
*
1027466 ATAATAATAACAGTAGCAGT-ATAATA-ATAATAATA
1 ATAATAATAACAGTAGCAGTAATAAAAGATAATAATA
* * *
1027501 ATAATAATAACCGTAGTAGTAATAAAAGTATAATAGTA
1 ATAATAATAACAGTAGCAGTAATAAAAG-ATAATAATA
*
1027539 ATGATAATAA
1 ATAATAATAA
1027549 TAATAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
35 18 0.45
36 5 0.12
38 17 0.43
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (37 bp):
ATAATAATAACAGTAGCAGTAATAAAAGATAATAATA
Found at i:1027592 original size:36 final size:37
Alignment explanation
Indices: 1027532--1027602 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
1027522 ATAAAAGTAT
*
1027532 AATAGTAATGATAATAATAATAATATAAAAATATAGC
1 AATAGTAATAATAATAATAATAATATAAAAATATAGC
* * **
1027569 AATAGTAA-AATAATGATATTAATATGTAAATATA
1 AATAGTAATAATAATAATAATAATATAAAAATATA
1027603 AATAAAGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 21 0.72
37 8 0.28
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.32
Consensus pattern (37 bp):
AATAGTAATAATAATAATAATAATATAAAAATATAGC
Found at i:1027732 original size:17 final size:17
Alignment explanation
Indices: 1027712--1027749 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1027702 TATAGATGAA
* *
1027712 AATATAATAATAGTAAT
1 AATACAATAATAATAAT
1027729 AATACAATAATAATAAT
1 AATACAATAATAATAAT
1027746 AATA
1 AATA
1027750 ATGGTGTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AATACAATAATAATAAT
Found at i:1031995 original size:15 final size:14
Alignment explanation
Indices: 1031977--1032015 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
1031967 AAAAATGAAT
1031977 AAATTAAATTATATA
1 AAATTAAATTATA-A
*
1031992 AAATTAAAATATAA
1 AAATTAAATTATAA
1032006 AAATTAAATT
1 AAATTAAATT
1032016 TAGTAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATTAAATTATAA
Found at i:1032023 original size:15 final size:14
Alignment explanation
Indices: 1031977--1032023 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
1031967 AAAAATGAAT
1031977 AAATTAAATTATATA
1 AAATTAAATT-TATA
*
1031992 AAATTAAA-ATATAA
1 AAATTAAATTTAT-A
1032006 AAATTAAATTTAGTA
1 AAATTAAATTTA-TA
1032021 AAA
1 AAA
1032024 GGACAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 9 0.33
15 14 0.52
16 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
AAATTAAATTTATA
Found at i:1046293 original size:18 final size:19
Alignment explanation
Indices: 1046264--1046310 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
1046254 GAACAACTTT
*
1046264 TAAAAGTAAAAATTAAAAA
1 TAAAAGTAAAAATGAAAAA
1046283 TAAAA-TAAAAATGAAAAA
1 TAAAAGTAAAAATGAAAAA
*
1046301 -AAATGTAAAA
1 TAAAAGTAAAA
1046311 GCTTTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 17 0.68
19 5 0.20
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
TAAAAGTAAAAATGAAAAA
Found at i:1048877 original size:20 final size:21
Alignment explanation
Indices: 1048831--1048883 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
1048821 TACTAATTAA
1048831 AAATATTTAATAATTATATTT
1 AAATATTTAATAATTATATTT
1048852 AAATATTTAA-AA-TATAGTTT
1 AAATATTTAATAATTATA-TTT
*
1048872 ATATATTCTAAT
1 AAATATT-TAAT
1048884 TAAATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATTTAATAATTATATTT
Found at i:1048938 original size:30 final size:30
Alignment explanation
Indices: 1048898--1048954 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
1048888 TTTTATAAAT
1048898 AATTAATA-TTTAT-TACTTAAAAATATTTTA
1 AATTAATATTTTATATA-TT-AAAATATTTTA
*
1048928 AATTTATATTTTATATATTAAAATATT
1 AATTAATATTTTATATATTAAAATATT
1048955 AACAAGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.62
31 7 0.29
32 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
AATTAATATTTTATATATTAAAATATTTTA
Found at i:1052632 original size:11 final size:12
Alignment explanation
Indices: 1052616--1052644 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1052606 ATTCTTCAGT
1052616 TTTTTTG-TTTG
1 TTTTTTGTTTTG
1052627 TTTTTTGTTTTG
1 TTTTTTGTTTTG
1052639 TTTTTT
1 TTTTTT
1052645 AAGTGGCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTGTTTTG
Found at i:1058965 original size:63 final size:63
Alignment explanation
Indices: 1058861--1058994 Score: 252
Period size: 63 Copynumber: 2.1 Consensus size: 63
1058851 TTCAGGTCAT
*
1058861 GATTA-GTAGCTTTAGTCGATTCTTAGCTTCACAAATCTAATTGAATACATATATTGTTGCGG
1 GATTAGGTAGCTCTAGTCGATTCTTAGCTTCACAAATCTAATTGAATACATATATTGTTGCGG
1058923 GATTAGGTAGCTCTAGTCGATTCTTAGCTTCACAAATCTAATTGAATACATATATTGTTGCGG
1 GATTAGGTAGCTCTAGTCGATTCTTAGCTTCACAAATCTAATTGAATACATATATTGTTGCGG
1058986 GATTAGGTA
1 GATTAGGTA
1058995 TTGTATGGAG
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 5 0.07
63 65 0.93
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.37
Consensus pattern (63 bp):
GATTAGGTAGCTCTAGTCGATTCTTAGCTTCACAAATCTAATTGAATACATATATTGTTGCGG
Found at i:1061173 original size:16 final size:15
Alignment explanation
Indices: 1061147--1061176 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1061137 AATTTGAAAA
1061147 TCAAAACCTCAAGAC
1 TCAAAACCTCAAGAC
1061162 TCAAAGACCTCAAGA
1 TCAAA-ACCTCAAGA
1061177 TATCAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.30, G:0.10, T:0.13
Consensus pattern (15 bp):
TCAAAACCTCAAGAC
Found at i:1067780 original size:19 final size:20
Alignment explanation
Indices: 1067756--1067806 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1067746 ATATATTTAA
1067756 AATTTAAATTTAAAAT-ATT
1 AATTTAAATTTAAAATAATT
*
1067775 AATTT-AATTTAATATAATT
1 AATTTAAATTTAAAATAATT
* *
1067794 AATATAATTTTAA
1 AATTTAAATTTAA
1067807 TTTTTTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 9 0.33
19 12 0.44
20 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTAAATTTAAAATAATT
Found at i:1075431 original size:14 final size:14
Alignment explanation
Indices: 1075412--1075438 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1075402 AGTGATAAGT
1075412 GACAAGCGACAAGC
1 GACAAGCGACAAGC
1075426 GACAAGCGACAAG
1 GACAAGCGACAAG
1075439 TGATAAGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.26, G:0.30, T:0.00
Consensus pattern (14 bp):
GACAAGCGACAAGC
Found at i:1075508 original size:51 final size:51
Alignment explanation
Indices: 1075426--1075539 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
1075416 AGCGACAAGC
* * * *
1075426 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCATT
1 GACAAGTGATAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGT
*
1075477 GACAAGTGATAAGTGATAAGTAGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGT
1075528 GACAAGTGATAA
1 GACAAGTGATAA
1075540 ATGTGATCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:1079047 original size:48 final size:48
Alignment explanation
Indices: 1078994--1079090 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
1078984 CAAACTTAAA
1078994 TTTTTCGCAAACTTATTTTCGAGTATAACAATTTTGTTTGAACCATTT
1 TTTTTCGCAAACTTATTTTCGAGTATAACAATTTTGTTTGAACCATTT
*
1079042 TTTTTCGCAAACTTATTTTCGAGTATAACAGTTTTGTTTGAACCATTT
1 TTTTTCGCAAACTTATTTTCGAGTATAACAATTTTGTTTGAACCATTT
1079090 T
1 T
1079091 ATATTTTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.48
Consensus pattern (48 bp):
TTTTTCGCAAACTTATTTTCGAGTATAACAATTTTGTTTGAACCATTT
Found at i:1082403 original size:26 final size:26
Alignment explanation
Indices: 1082373--1082429 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
1082363 GGGATTTGAT
1082373 TACTTAA-TCTGACTCAAGACTTTTCC
1 TACTTAACT-TGACTCAAGACTTTTCC
*
1082399 TACTTCACTTGACTCAAGACTTTTCC
1 TACTTAACTTGACTCAAGACTTTTCC
1082425 TACTT
1 TACTT
1082430 CACTAGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.07, T:0.40
Consensus pattern (26 bp):
TACTTAACTTGACTCAAGACTTTTCC
Found at i:1082430 original size:26 final size:26
Alignment explanation
Indices: 1082382--1082433 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1082372 TTACTTAATC
1082382 TGACTCAAGACTTTTCCTACTTCACT
1 TGACTCAAGACTTTTCCTACTTCACT
1082408 TGACTCAAGACTTTTCCTACTTCACT
1 TGACTCAAGACTTTTCCTACTTCACT
1082434 AGAATAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (26 bp):
TGACTCAAGACTTTTCCTACTTCACT
Found at i:1085457 original size:19 final size:19
Alignment explanation
Indices: 1085435--1085489 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
1085425 GTTGCTATTT
*
1085435 TATTGTTACTTTTTTTTTA
1 TATTGTTACTTTTTTTTAA
*
1085454 TATTGTATAACTTTTGTTTAA
1 TATTGT-T-ACTTTTTTTTAA
*
1085475 TTTTGTTACTATTTT
1 TATTGTTACT-TTTT
1085490 AAAGGTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 9 0.31
20 5 0.17
21 15 0.52
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.67
Consensus pattern (19 bp):
TATTGTTACTTTTTTTTAA
Found at i:1085797 original size:20 final size:20
Alignment explanation
Indices: 1085759--1085818 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
1085749 TATATTTGAA
1085759 ATAAAAAT-TTAATATATTTTT
1 ATAAAAATATTAA-A-ATTTTT
* *
1085780 GTAAAAATATTGAAATTTTT
1 ATAAAAATATTAAAATTTTT
*
1085800 ATAAATATATTAAAATTTT
1 ATAAAAATATTAAAATTTT
1085819 AAATATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 22 0.67
21 8 0.24
22 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (20 bp):
ATAAAAATATTAAAATTTTT
Found at i:1089627 original size:21 final size:21
Alignment explanation
Indices: 1089603--1089643 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1089593 TTATAGTAAG
1089603 TAAATTTTGACAATAATTAGT
1 TAAATTTTGACAATAATTAGT
1089624 TAAATTTTGACAATAATTAG
1 TAAATTTTGACAATAATTAG
1089644 ATCAAGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (21 bp):
TAAATTTTGACAATAATTAGT
Found at i:1089928 original size:69 final size:69
Alignment explanation
Indices: 1089842--1089979 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
1089832 TTTGAGTACC
1089842 ACCCATGTAAATAATTTGTAAGTTTTATCCATATTTTAGTTTAGTTTAAATCTTACCATGTGTAA
1 ACCCATGTAAATAATTTGTAAGTTTTATCCATATTTTAGTTTAGTTTAAATCTTACCATGTGTAA
1089907 GTTT
66 GTTT
* *
1089911 ACCCATGTAAATAATTTGTAAGTTTTATCCATATTTTAGTTTAGTTTAAATCTTACTATGTGTAG
1 ACCCATGTAAATAATTTGTAAGTTTTATCCATATTTTAGTTTAGTTTAAATCTTACCATGTGTAA
1089976 GTTT
66 GTTT
1089980 TATCTAGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (69 bp):
ACCCATGTAAATAATTTGTAAGTTTTATCCATATTTTAGTTTAGTTTAAATCTTACCATGTGTAA
GTTT
Found at i:1094113 original size:2 final size:2
Alignment explanation
Indices: 1094071--1094099 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1094061 GCAAGCGCAC
1094071 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 A
1094100 AAAGGAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1096978 original size:19 final size:19
Alignment explanation
Indices: 1096956--1096994 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1096946 TTTTAAATAG
* *
1096956 ATACACATGTATTAATAAT
1 ATACACATATATAAATAAT
1096975 ATACACATATATAAATAAT
1 ATACACATATATAAATAAT
1096994 A
1 A
1096995 AATAAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (19 bp):
ATACACATATATAAATAAT
Found at i:1097863 original size:15 final size:15
Alignment explanation
Indices: 1097840--1097889 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
1097830 TTTATCAAAT
1097840 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* *
1097855 TTATTTTGATTGAAT
1 TTATATTGATTGAAA
1097870 TTATATTGATTGAAA
1 TTATATTGATTGAAA
1097885 TTATA
1 TTATA
1097890 ATATATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:1100862 original size:21 final size:21
Alignment explanation
Indices: 1100822--1100862 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1100812 ATCTGCTCAA
* *
1100822 ACTCCACCTGTTTTGAAGTAC
1 ACTCCACCTGCTGTGAAGTAC
*
1100843 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGAAGTA
1100863 TCGCTCGTCT
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:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGAAGTAC
Found at i:1105685 original size:18 final size:18
Alignment explanation
Indices: 1105662--1105711 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
1105652 CATTCTTCTC
1105662 CCCTTTCCCCTTTTCCTT
1 CCCTTTCCCCTTTTCCTT
*
1105680 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTTTCCTT
*
1105698 CCCTTTCCCGTTTT
1 CCCTTTCCCCTTTT
1105712 GAAGCCTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.00, C:0.50, G:0.02, T:0.48
Consensus pattern (18 bp):
CCCTTTCCCCTTTTCCTT
Found at i:1106864 original size:35 final size:34
Alignment explanation
Indices: 1106825--1106890 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
1106815 CAAACACCAG
*
1106825 AAAACATTTTCCAGTAAGTCATTTTACAGAAATAT
1 AAAACATTTTCCAG-AAATCATTTTACAGAAATAT
*
1106860 AAAACATTTTCCAGAAATCATTTTACGGAAA
1 AAAACATTTTCCAGAAATCATTTTACAGAAA
1106891 ACATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGAAATCATTTTACAGAAATAT
Found at i:1106883 original size:14 final size:14
Alignment explanation
Indices: 1106860--1106899 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1106850 ACAGAAATAT
*
1106860 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
1106874 AAATCATTTTACGG
1 AAAACATTTTACAG
1106888 AAAACATTTTAC
1 AAAACATTTTAC
1106900 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:1116203 original size:21 final size:21
Alignment explanation
Indices: 1116177--1116232 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1116167 TTATTGGTTT
*
1116177 CTTGCATATTAAGTCAAATTA
1 CTTGCAGATTAAGTCAAATTA
* *
1116198 CTTGCAGATTAGGTCAGATTA
1 CTTGCAGATTAAGTCAAATTA
*
1116219 CTTGTAGATTAAGT
1 CTTGCAGATTAAGT
1116233 AAAGCCACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (21 bp):
CTTGCAGATTAAGTCAAATTA
Found at i:1117625 original size:15 final size:17
Alignment explanation
Indices: 1117605--1117639 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1117595 TTAAAACTTT
1117605 AAATTT-AAA-TAATTC
1 AAATTTAAAATTAATTC
1117620 AAATTTAAAATTAATTC
1 AAATTTAAAATTAATTC
1117637 AAA
1 AAA
1117640 CTCATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 3 0.17
17 9 0.50
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTTAAAATTAATTC
Found at i:1117628 original size:21 final size:22
Alignment explanation
Indices: 1117593--1117633 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1117583 AAACTTGAAG
*
1117593 AATTAAAACTTTAAATTTAAAT
1 AATTAAAACTTTAAAATTAAAT
*
1117615 AATTCAAA-TTTAAAATTAA
1 AATTAAAACTTTAAAATTAA
1117634 TTCAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAAAACTTTAAAATTAAAT
Found at i:1132350 original size:21 final size:21
Alignment explanation
Indices: 1132324--1132369 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1132314 AGCGGTGGCG
* *
1132324 GTGAGATTTGTTACTGTAGCA
1 GTGAGATTGGATACTGTAGCA
*
1132345 GTGAGATTGGATACTGTAGCG
1 GTGAGATTGGATACTGTAGCA
1132366 GTGA
1 GTGA
1132370 AATTAGAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.35, T:0.33
Consensus pattern (21 bp):
GTGAGATTGGATACTGTAGCA
Found at i:1133663 original size:21 final size:21
Alignment explanation
Indices: 1133637--1133689 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1133627 AGCGGTGGCG
*
1133637 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
1133658 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
1133679 GTGAGATTAGA
1 GTGAGATTAGA
1133690 AACAGCGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:1139529 original size:21 final size:21
Alignment explanation
Indices: 1139503--1139543 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1139493 AGACGAGCAA
* *
1139503 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1139524 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1139544 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1139617 original size:9 final size:9
Alignment explanation
Indices: 1139605--1139629 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1139595 TGGAGGAATT
1139605 AGAGGTTGA
1 AGAGGTTGA
1139614 AGAGGTTGA
1 AGAGGTTGA
1139623 AGAGGTT
1 AGAGGTT
1139630 CTGACCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (9 bp):
AGAGGTTGA
Found at i:1142100 original size:19 final size:20
Alignment explanation
Indices: 1142073--1142113 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1142063 GTTTGAAAAA
**
1142073 AATTATTAAATTCGAAAATT
1 AATTATTAAATTAAAAAATT
1142093 AATT-TTAAATTAAAAAATT
1 AATTATTAAATTAAAAAATT
1142112 AA
1 AA
1142114 GTCGGCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AATTATTAAATTAAAAAATT
Found at i:1145770 original size:16 final size:17
Alignment explanation
Indices: 1145730--1145763 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1145720 ACAAAACTGT
1145730 GACACTTTTTCTCGTGA
1 GACACTTTTTCTCGTGA
1145747 GACACTTTTTCTCGTGA
1 GACACTTTTTCTCGTGA
1145764 ACCCTTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (17 bp):
GACACTTTTTCTCGTGA
Found at i:1150465 original size:2 final size:2
Alignment explanation
Indices: 1150458--1150484 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1150448 AGACAAAGTC
1150458 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 A
1150485 AAAGTTAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1151381 original size:22 final size:21
Alignment explanation
Indices: 1151337--1151421 Score: 64
Period size: 22 Copynumber: 3.9 Consensus size: 21
1151327 TAATTTTCTG
* **
1151337 AATTTTAAATATTATTTGATA
1 AATTTTAAAAATTATTTTTTA
1151358 AATTTTAAAAATTTATTTTTTA
1 AATTTTAAAAA-TTATTTTTTA
** *
1151380 AATAAATAAAAATATTTTTTTATA
1 AAT-TTTAAAAAT-TATTTTT-TA
1151404 ACATTTT-AAAATTATTTT
1 A-ATTTTAAAAATTATTTT
1151422 CAATATTTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
21 10 0.20
22 17 0.34
23 17 0.34
24 4 0.08
25 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (21 bp):
AATTTTAAAAATTATTTTTTA
Found at i:1164913 original size:49 final size:49
Alignment explanation
Indices: 1164834--1164930 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
1164824 TAATTGCTCA
* * * * *
1164834 GTTAACCTTGTTGGTATGCTGATCTGTCTAATAATTAGTTTATTGGTTG
1 GTTAACCTTGCTGGCATGCTGATCTATCTAATAACTAGCTTATTGGTTG
* *
1164883 GTTATCCTTGCTGGCATGCTGATCTATCTAATAACTAGCTTGTTGGTT
1 GTTAACCTTGCTGGCATGCTGATCTATCTAATAACTAGCTTATTGGTT
1164931 TATGCTTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (49 bp):
GTTAACCTTGCTGGCATGCTGATCTATCTAATAACTAGCTTATTGGTTG
Found at i:1165025 original size:51 final size:51
Alignment explanation
Indices: 1164939--1165246 Score: 339
Period size: 51 Copynumber: 6.0 Consensus size: 51
1164929 TTTATGCTTA
* *
1164939 TTAATTGTTCGGTTAACCTTGCTGGCATGTTGATCTGTCTAATAACTAGTT
1 TTAATTGTTTGGTTAACCTTGCTGGCATGCTGATCTGTCTAATAACTAGTT
* *
1164990 TTAACTGTTTGGTTAACCTTGCTAGCATGCTGATCTGTCTAATAACTAGTT
1 TTAATTGTTTGGTTAACCTTGCTGGCATGCTGATCTGTCTAATAACTAGTT
* * * ** *
1165041 TTAATTATTT-GTTTACACTTGTTGGCATGCTGGCCTGTCTAATAATTAGTT
1 TTAATTGTTTGGTTAAC-CTTGCTGGCATGCTGATCTGTCTAATAACTAGTT
** * * *
1165092 TTAATTGTTTACTTAACCTTACTGGCATGCTGACCTGTCTAATAATTAGTT
1 TTAATTGTTTGGTTAACCTTGCTGGCATGCTGATCTGTCTAATAACTAGTT
** * * * * *
1165143 TTAATTGTTTGGTTAACCTTGCCAGTATGTTGATCTGTCTAAAAATTAATT
1 TTAATTGTTTGGTTAACCTTGCTGGCATGCTGATCTGTCTAATAACTAGTT
** * * ** *
1165194 TTAATTGTTCAGTTAACCTTGTTGGCGTGCAAATCTATCTAATAACTAGTT
1 TTAATTGTTTGGTTAACCTTGCTGGCATGCTGATCTGTCTAATAACTAGTT
1165245 TT
1 TT
1165247 TATACTAGCA
Statistics
Matches: 213, Mismatches: 42, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
50 5 0.02
51 204 0.96
52 4 0.02
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (51 bp):
TTAATTGTTTGGTTAACCTTGCTGGCATGCTGATCTGTCTAATAACTAGTT
Found at i:1165235 original size:153 final size:153
Alignment explanation
Indices: 1164951--1165246 Score: 387
Period size: 153 Copynumber: 1.9 Consensus size: 153
1164941 AATTGTTCGG
* * * *
1164951 TTAACCTTGCTGGCATGTTGATCTGTCTAATAACTAGTTTTAACTGTTTGGTTAACCTTGCTAGC
1 TTAACCTTACTGGCATGCTGACCTGTCTAATAACTAGTTTTAACTGTTTGGTTAACCTTGCCAGC
* * * * *** *
1165016 ATGCTGATCTGTCTAATAACTAGTTTTAATTATTTGTTTACACTTGTTGGCATGCTGGCCTGTCT
66 ATGCTGATCTGTCTAAAAACTAATTTTAATTATTAGTTAACACTTGTTGGCATGCAAACCTATCT
*
1165081 AATAATTAGTTTTAATTGTTTAC
131 AATAACTAGTTTTAATTGTTTAC
* * *
1165104 TTAACCTTACTGGCATGCTGACCTGTCTAATAATTAGTTTTAATTGTTTGGTTAACCTTGCCAGT
1 TTAACCTTACTGGCATGCTGACCTGTCTAATAACTAGTTTTAACTGTTTGGTTAACCTTGCCAGC
* * * * *
1165169 ATGTTGATCTGTCTAAAAATTAATTTTAATTGTTCAGTTAAC-CTTGTTGGCGTGCAAATCTATC
66 ATGCTGATCTGTCTAAAAACTAATTTTAATTATT-AGTTAACACTTGTTGGCATGCAAACCTATC
1165233 TAATAACTAGTTTT
130 TAATAACTAGTTTT
1165247 TATACTAGCA
Statistics
Matches: 121, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
153 116 0.96
154 5 0.04
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (153 bp):
TTAACCTTACTGGCATGCTGACCTGTCTAATAACTAGTTTTAACTGTTTGGTTAACCTTGCCAGC
ATGCTGATCTGTCTAAAAACTAATTTTAATTATTAGTTAACACTTGTTGGCATGCAAACCTATCT
AATAACTAGTTTTAATTGTTTAC
Found at i:1165335 original size:40 final size:40
Alignment explanation
Indices: 1165284--1165606 Score: 178
Period size: 40 Copynumber: 8.2 Consensus size: 40
1165274 CGTTTGAATA
* * *
1165284 AAAAACACCGCTACAGATTGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * **
1165324 AAAAACGCCGCTATAGATCAAGCATTAGCTGCGCATTTCA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * *
1165364 AAAAACACTGTTATAGATCGACCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *** * * ** * * *
1165404 AAAAATGCCAAAAAAAATTAAGCA-CAACGCCGTCGTTTTATG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCG-C-TTTT-TG
** * **
1165446 -TTAA----GCTTTAG-T-G-GCATTAGCAACGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
1165478 AAAAACACCGCTATAGGTCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * ***
1165518 AAAATCGCCGCTATAGATCGAGCATTAGCGACGCTTTCCA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * * * *
1165558 AAAAACGCCACTATAGGTTGACCATTAGCAGCGCTGTCTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
1165598 AAAAACGCC
1 AAAAACGCC
1165607 ACAAAAAAAT
Statistics
Matches: 205, Mismatches: 66, Indels: 24
0.69 0.22 0.08
Matches are distributed among these distances:
32 2 0.01
33 6 0.03
34 4 0.02
35 4 0.02
36 1 0.00
37 7 0.03
38 1 0.00
39 6 0.03
40 166 0.81
41 6 0.03
42 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:1165796 original size:156 final size:155
Alignment explanation
Indices: 1165501--1165871 Score: 487
Period size: 156 Copynumber: 2.4 Consensus size: 155
1165491 TAGGTCGAGC
*
1165501 ATTAGCGGCGCTTTTTGAAAATCGCCGCTATAGATCGAGCATTAGCGACGCTTTCC-AAAAAACG
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGA-CGAGCATTAGCGACGCTTTCCAAAAAAACG
** * *
1165565 CCACTATAGGTTGACCATTAGCAGCGCTGTCTGAAAAACGCCACAAAAAAATTAAGCACAACGCC
65 CCACTATAGGTCAACCATTAGCAGCGCTGTCTGAAAAACGCCACAAAAAAATTAAACACAACGAC
*
1165630 ATCGTTTTATGTTGAGCTTTAGTGGT
130 ATCATTTTATGTTGAGCTTTAGTGGT
* * * *
1165656 ATTAGCGGCGCTTTTTGAAAAACGCCACTATAAGCCGAGCATTAGCGATGCTTTCCAAAAAAACT
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTAT-AGACGAGCATTAGCGACGCTTTCCAAAAAAACG
* * * *
1165721 CCGCTATAGGTCAACCATTAG-TGCCGCT-TTTTAGAAAACGCCACAAAAAAATTAAACACAACG
65 CCACTATAGGTCAACCATTAGCAG-CGCTGTCTGA-AAAACGCCACAAAAAAATTAAACACAACG
1165784 ACATCATTTTATGTTGAGCTTTAGTGGT
128 ACATCATTTTATGTTGAGCTTTAGTGGT
* * * * * ** *
1165812 ATTAGCAGTGATTTCTGAAAAACGCCGCTATAGATGAGCATTAGCGGGGCTTTCTAAAAA
1 ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGACGAGCATTAGCGACGCTTTCCAAAAA
1165872 CACCGCAAAT
Statistics
Matches: 188, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
155 77 0.41
156 111 0.59
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (155 bp):
ATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGACGAGCATTAGCGACGCTTTCCAAAAAAACGC
CACTATAGGTCAACCATTAGCAGCGCTGTCTGAAAAACGCCACAAAAAAATTAAACACAACGACA
TCATTTTATGTTGAGCTTTAGTGGT
Found at i:1166665 original size:276 final size:276
Alignment explanation
Indices: 1166172--1166728 Score: 925
Period size: 276 Copynumber: 2.0 Consensus size: 276
1166162 GTTGACAGGG
* *
1166172 GAATTCAGCATGATCTTCATCCTCAAGTACTTTCGAATGGGAAATATCATATGCTGCCTTCTATT
1 GAATTCAGCATGATCTTCATCCCCAAGTACTTTCGAATAGGAAATATCATATGCTGCCTTCTATT
* * * * *
1166237 TTTGCAATGTCGAAGAAAGAGAAAGAAGTGCTCTGCATAGTGTTGAAGGATATATAGGTCCTAGA
66 TTTGCAATGTCGAAGAAAGAGAAAAAAATGCTCTGCATAGTATTGAAGGATATAAAGGTCCCAGA
* * *
1166302 TGTGTATGCATCAAATATATTTCGATTTGTAAGTCTCAAAGATTAAAGACTATATTCTTTAAAAT
131 TATGTATGCATCAAATATATCTCGATTTGTAAGTCTCAAAGATTAAAGACTATATTCCTTAAAAT
*
1166367 CACATGATTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTTTACGGTGTTGTATGTCAAAA
196 CACATGATTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTTTACAGTGTTGTATGTCAAAA
1166432 AAGGTGACGTCTAATA
261 AAGGTGACGTCTAATA
* * *
1166448 GAATTCAGCGTGATCTTCATCCCCAAGTACTTTCGAATAGGAAATATCGTATGCTGCTTTCTATT
1 GAATTCAGCATGATCTTCATCCCCAAGTACTTTCGAATAGGAAATATCATATGCTGCCTTCTATT
* *
1166513 TTTGCAATGTCGAAGAAAGAGAAAAAAATGTTCTGCATGGTATTGAAGGATATAAAGGTCCCAGA
66 TTTGCAATGTCGAAGAAAGAGAAAAAAATGCTCTGCATAGTATTGAAGGATATAAAGGTCCCAGA
* * *
1166578 TATGTATGCATCAAATATATCTCGATTTGTAAGTCTTAAAGATTTAGGACTATATTCCTTAAAAT
131 TATGTATGCATCAAATATATCTCGATTTGTAAGTCTCAAAGATTAAAGACTATATTCCTTAAAAT
*
1166643 CACATGATTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTTTACAGTGTTGTATGTTAAAA
196 CACATGATTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTTTACAGTGTTGTATGTCAAAA
1166708 AAGGTGACGTCTAATA
261 AAGGTGACGTCTAATA
*
1166724 TAATT
1 GAATT
1166729 GAACTATCCA
Statistics
Matches: 260, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
276 260 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (276 bp):
GAATTCAGCATGATCTTCATCCCCAAGTACTTTCGAATAGGAAATATCATATGCTGCCTTCTATT
TTTGCAATGTCGAAGAAAGAGAAAAAAATGCTCTGCATAGTATTGAAGGATATAAAGGTCCCAGA
TATGTATGCATCAAATATATCTCGATTTGTAAGTCTCAAAGATTAAAGACTATATTCCTTAAAAT
CACATGATTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTTTACAGTGTTGTATGTCAAAA
AAGGTGACGTCTAATA
Found at i:1169529 original size:14 final size:14
Alignment explanation
Indices: 1169505--1169539 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1169495 TTAAATATTT
1169505 ATAAT-GTTTAATC
1 ATAATGGTTTAATC
*
1169518 ATAATGGTTTAATT
1 ATAATGGTTTAATC
1169532 ATAATGGT
1 ATAATGGT
1169540 ATATTCATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (14 bp):
ATAATGGTTTAATC
Found at i:1170299 original size:43 final size:43
Alignment explanation
Indices: 1170260--1170498 Score: 248
Period size: 43 Copynumber: 5.6 Consensus size: 43
1170250 TAGAAAAGTA
*
1170260 CCGCTAAAAGTCACGTTCTTTAGCGGCATTTGTATGAAAAGCG
1 CCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGCG
* * *
1170303 CCGCTATAAGTTACGTTCTTTAGCGGCGTTTTTGA-GAAAAGCG
1 CCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGT-ATGAAAAGCG
* ** * *
1170346 CCGCTAAAGGTCATTTTCTTTAACGGCGTTTGTATGAAATGCG
1 CCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGCG
* ** * *
1170389 CCGTTAAAAGTCATATTCTTTAACGGCGTTTTTGA-GAAAAGCG
1 CCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGT-ATGAAAAGCG
* * * * * *
1170432 TCGCTAAAGGTCACATTCTTTAGCAGCGTTTGTGTGAACAGCG
1 CCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGCG
* *
1170475 CCGCTAGAGGTCACGTTCTTTAGC
1 CCGCTAAAAGTCACGTTCTTTAGC
1170499 TAGGGGTGAG
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 160 0.98
44 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
CCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGCG
Found at i:1170390 original size:86 final size:85
Alignment explanation
Indices: 1170236--1170498 Score: 310
Period size: 86 Copynumber: 3.1 Consensus size: 85
1170226 TCTGCTAAAA
* * ** * * *
1170236 TTAGTGGCGTTTTTTAGAAAAGTACCGCTAAAAGTCACGTTCTTTAGCGGCATTTGTATGAAAAG
1 TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCACATTCTTTAGCGGCGTTTGTATG-AAAG
* *
1170301 CGCCGCTATAAGTTACGTTCT
65 CGCCGCTAAAAGTCACGTTCT
** *
1170322 TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATTTTCTTTAACGGCGTTTGTATGAAATG
1 TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCACATTCTTTAGCGGCGTTTGTATGAAA-G
* **
1170387 CGCCGTTAAAAGTCATATTCT
65 CGCCGCTAAAAGTCACGTTCT
* * * *
1170408 TTAACGGCGTTTTTGAGAAAAGCGTCGCTAAAGGTCACATTCTTTAGCAGCGTTTGTGTGAACAG
1 TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCACATTCTTTAGCGGCGTTTGTATGAA-AG
* *
1170473 CGCCGCTAGAGGTCACGTTCT
65 CGCCGCTAAAAGTCACGTTCT
1170494 TTAGC
1 TTAGC
1170499 TAGGGGTGAG
Statistics
Matches: 148, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
85 3 0.02
86 144 0.97
87 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (85 bp):
TTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCACATTCTTTAGCGGCGTTTGTATGAAAGC
GCCGCTAAAAGTCACGTTCT
Found at i:1170475 original size:129 final size:129
Alignment explanation
Indices: 1170264--1170496 Score: 299
Period size: 129 Copynumber: 1.8 Consensus size: 129
1170254 AAAGTACCGC
* * * * *
1170264 TAAAAGTCACGTTCTTTAGCGGCATTTGTATGAAAAGCGCCGCTATAAGTTACGTTCTTTAGCGG
1 TAAAAGTCACATTCTTTAACGGCATTTGTATGAAAAGCGCCGCTATAAGTCACATTCTTTAGCAG
* **
1170329 CGTTTTTGAGAAAAGCGCCGCTAAAGGTCATTTTCTTTAACGGCGTTTGTATGAAATGCGCCGT
66 CGTTTGTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAACGGCGTTTGTATGAAATGCGCCGT
* * * *
1170393 TAAAAGTCATATTCTTTAACGGCGTTTTTGA-GAAAAGCGTCGCTA-AAGGTCACATTCTTTAGC
1 TAAAAGTCACATTCTTTAACGGCATTTGT-ATGAAAAGCGCCGCTATAA-GTCACATTCTTTAGC
* * *
1170456 AGCGTTTGTGTGAACAGCGCCGCTAGAGGTCACGTTCTTTA
64 AGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTA
1170497 GCTAGGGGTG
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
128 2 0.02
129 84 0.97
130 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (129 bp):
TAAAAGTCACATTCTTTAACGGCATTTGTATGAAAAGCGCCGCTATAAGTCACATTCTTTAGCAG
CGTTTGTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAACGGCGTTTGTATGAAATGCGCCGT
Found at i:1171311 original size:67 final size:68
Alignment explanation
Indices: 1171202--1171342 Score: 178
Period size: 67 Copynumber: 2.1 Consensus size: 68
1171192 ATAACTAATT
* * * *
1171202 TTAATTGTTTTGGTTAATCTTGCTAACATGCTGATCTGTCTAATAATT-AGTTTGTTGGTTCATG
1 TTAATTGTTTTGGTTAATCTTGCTAACATGCTAACCTGTCTAATAATTGA-TTTATTAGTTCATG
*
1171266 CTTG
65 CTTA
** * *
1171270 TTAATTG-TTTGGTTAATCTTGCTGGCCTGCTAACCTGTCTAATAATTGATTTATTAGTTTATGC
1 TTAATTGTTTTGGTTAATCTTGCTAACATGCTAACCTGTCTAATAATTGATTTATTAGTTCATGC
1171334 TTA
66 TTA
1171337 TTAATT
1 TTAATT
1171343 TCTCGGTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
67 55 0.87
68 8 0.13
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (68 bp):
TTAATTGTTTTGGTTAATCTTGCTAACATGCTAACCTGTCTAATAATTGATTTATTAGTTCATGC
TTA
Found at i:1171374 original size:67 final size:67
Alignment explanation
Indices: 1171202--1171374 Score: 152
Period size: 67 Copynumber: 2.6 Consensus size: 67
1171192 ATAACTAATT
* * * * * * * *
1171202 TTAATTGTTTTGGTTAATCTTGCTAACATGCTGATCTGTCTAATAATTAGTTTGTTGGTTCATGC
1 TTAATTG-TTCGGTTAACCTTGCTAGCAAGCTAACCTGTCTAATAATTAGTTTATTAGTTCATGC
*
1171267 TTG
65 TTA
* * * ** *
1171270 TTAATTGTTTGGTTAATCTTGCTGGCCTGCTAACCTGTCTAATAATT-GATTTATTAGTTTATGC
1 TTAATTGTTCGGTTAACCTTGCTAGCAAGCTAACCTGTCTAATAATTAG-TTTATTAGTTCATGC
1171334 TTA
65 TTA
* *
1171337 TTAATT-TCTCGGTTAACCTTGTTAGCAAGCTAGCCTGT
1 TTAATTGT-TCGGTTAACCTTGCTAGCAAGCTAACCTGT
1171375 AGATAGTGCA
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
66 2 0.02
67 78 0.90
68 7 0.08
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.46
Consensus pattern (67 bp):
TTAATTGTTCGGTTAACCTTGCTAGCAAGCTAACCTGTCTAATAATTAGTTTATTAGTTCATGCT
TA
Done.