Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 21 of 208
Found at i:8246607 original size:95 final size:95
Alignment explanation
Indices: 8246497--8246690 Score: 343
Period size: 95 Copynumber: 2.0 Consensus size: 95
8246487 GCAGCGAAGC
*
8246497 AGATCAAATATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
**
8246562 CTCTTTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
8246592 AGATCAAGGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
8246657 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
8246687 AGAT
1 AGAT
8246691 TGTAGATCTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:8246836 original size:95 final size:96
Alignment explanation
Indices: 8246726--8246921 Score: 313
Period size: 97 Copynumber: 2.0 Consensus size: 96
8246716 GCAGCGAAGC
* *
8246726 AGATCAAATATGGCAGATTTTACCTCCCT-GACAACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCATCGACAACAGTGGAGTACATTGAAGCCGATAACTCTA
* *
8246790 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 TCTCCCTGTATTTGACAGTGGAATAGATTAA
* * *
8246821 AGATCAAGGATGGCAGATTTTACCTCCATGCGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCCAT-CGACAACAGTGGAGTACATTGAAGCCGATAACTCT
8246886 ATCTCCCTGTATTTGACAGTGGAATAGATTAA
65 ATCTCCCTGTATTTGACAGTGGAATAGATTAA
8246918 AGAT
1 AGAT
8246922 TGCAGATCTT
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 26 0.28
97 66 0.72
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (96 bp):
AGATCAAAGATGGCAGATTTTACCTCCATCGACAACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGACAGTGGAATAGATTAA
Found at i:8247055 original size:88 final size:90
Alignment explanation
Indices: 8246937--8247121 Score: 223
Period size: 95 Copynumber: 2.0 Consensus size: 90
8246927 ATCTTGCCTT
8246937 CCTGTATTTGGCAGCGAAGCAGATC--AAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGT
1 CCTGTATTTGGCAGCGAAGCAGATCAAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGT
8247000 ACATTGAAGCCGATAACTCTATCTC
66 ACATTGAAGCCGATAACTCTATCTC
* * * **
8247025 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGATTACAG
1 CCTGTATTTGGCAG-CGAAGCAGA-T-CA-A--AAAGATGGCAGATTTTACCTCCCTGACCACAG
* **
8247089 TGGAGTACATTGAAGCTGATAGTTCTATCTC
60 TGGAGTACATTGAAGCCGATAACTCTATCTC
8247120 CC
1 CC
8247122 GGGGCAAGAA
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
88 17 0.21
89 4 0.05
95 60 0.74
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (90 bp):
CCTGTATTTGGCAGCGAAGCAGATCAAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGT
ACATTGAAGCCGATAACTCTATCTC
Found at i:8247183 original size:44 final size:45
Alignment explanation
Indices: 8247129--8247642 Score: 453
Period size: 44 Copynumber: 11.7 Consensus size: 45
8247119 CCCGGGGCAA
* * *
8247129 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * * *
8247173 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
8247217 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * *
8247261 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * * *
8247305 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
8247349 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * *
8247393 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
8247437 GAAGTGGATCGACGA-AGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * *
8247480 GAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
8247524 GAAGTGGATCCAAGAT-GCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * *
8247567 GAAGTAGATCGAAGATAACATG-TCCTGTCTCCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCA-GATCTTGTCTTCCTATATTGGTAGT
* * * * *
8247611 GGAGTGGATCGAAGAAAGCAAATATTGTCTTC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTC
8247643 ATGTACTAGC
Statistics
Matches: 366, Mismatches: 90, Indels: 28
0.76 0.19 0.06
Matches are distributed among these distances:
42 2 0.01
43 110 0.30
44 207 0.57
45 47 0.13
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
Found at i:8247366 original size:132 final size:132
Alignment explanation
Indices: 8247129--8247511 Score: 669
Period size: 132 Copynumber: 2.9 Consensus size: 132
8247119 CCCGGGGCAA
8247129 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
8247194 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
8247259 GT
131 GT
8247261 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
8247326 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
8247391 GT
131 GT
*
8247393 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGAAGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
*** * * * * * *
8247458 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCTGATCCTGTCTTC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTC
8247512 CTATATTGAT
Statistics
Matches: 241, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
131 29 0.12
132 212 0.88
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:8247477 original size:87 final size:87
Alignment explanation
Indices: 8247129--8247647 Score: 569
Period size: 87 Copynumber: 5.9 Consensus size: 87
8247119 CCCGGGGCAA
* * *
8247129 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
*** * *
8247194 TCTTGTCTTCCCATATTGGTGGC
66 TCTTGTCTTCATGTATTGG-CGT
* * * * * * * * *
8247217 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCT
1 GAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGA-AGCA
* * * * *
8247281 GATCCTATCTTCCTATATTGGTAG-
64 GATCTTGTCTTCATGTATTGG-CGT
* * * * * * * * *
8247305 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
1 GAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCA
8247369 GATCTTGTCTTCATGTATTGGCGT
64 GATCTTGTCTTCATGTATTGGCGT
* *
8247393 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGAAGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
8247458 TCTTGTCTTCATGTATTGGCGT
66 TCTTGTCTTCATGTATTGGCGT
* * *
8247480 GAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
8247545 TCTTGTCTTCATGTATTGGCGT
66 TCTTGTCTTCATGTATTGGCGT
* * *
8247567 GAAGTAGATCGAAGATAACATG-TCCTGTCTCCCTATATTGGTAGGGAGTGGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGC-TGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAG-AAGCA
* *
8247631 AATATTGTCTTCATGTA
64 GATCTTGTCTTCATGTA
8247648 CTAGCAGTAG
Statistics
Matches: 367, Mismatches: 56, Indels: 16
0.84 0.13 0.04
Matches are distributed among these distances:
87 184 0.50
88 138 0.38
89 45 0.12
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (87 bp):
GAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGA
TCTTGTCTTCATGTATTGGCGT
Found at i:8248730 original size:8 final size:8
Alignment explanation
Indices: 8248717--8248757 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
8248707 AGGAGAGGAC
8248717 TTTTTTGT
1 TTTTTTGT
8248725 TTTTTTGT
1 TTTTTTGT
8248733 TTTTTT-T
1 TTTTTTGT
8248740 TTTGTTT-T
1 TTT-TTTGT
*
8248748 TTTGTTGT
1 TTTTTTGT
8248756 TT
1 TT
8248758 ATAAAAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTGT
Found at i:8248740 original size:11 final size:11
Alignment explanation
Indices: 8248724--8248757 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
8248714 GACTTTTTTG
8248724 TTTTTTTGTTTT
1 TTTTTTTG-TTT
8248736 TTTTTTTGTTT
1 TTTTTTTGTTT
*
8248747 TTTTGTTGTTT
1 TTTTTTTGTTT
8248758 ATAAAAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:8248741 original size:12 final size:12
Alignment explanation
Indices: 8248719--8248750 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
8248709 GAGAGGACTT
8248719 TTTTGTTTTTTTG
1 TTTT-TTTTTTTG
8248732 TTTTTTTTTTTG
1 TTTTTTTTTTTG
8248744 TTTTTTT
1 TTTTTTT
8248751 GTTGTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:8249765 original size:15 final size:15
Alignment explanation
Indices: 8249745--8249778 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8249735 TTTATTTTTG
* *
8249745 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
8249760 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
8249775 TTAT
1 TTAT
8249779 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:8256663 original size:3 final size:3
Alignment explanation
Indices: 8256655--8256702 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
8256645 GTTTTACAGG
8256655 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8256703 CTAAATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:8266696 original size:43 final size:43
Alignment explanation
Indices: 8266615--8266697 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
8266605 ATTATTTTTG
**
8266615 AAATTTTTTAGTGCCGTCACTTCACATGGTGTGGCCAAAATTT
1 AAATTTTTTAGTGCCGTCACTTCACATGGTGTCACCAAAATTT
* **
8266658 AAATTTTTTAGT-CTCGTTACTTCATGTGGTGTCACCAAAA
1 AAATTTTTTAGTGC-CGTCACTTCACATGGTGTCACCAAAA
8266698 ACAGTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (43 bp):
AAATTTTTTAGTGCCGTCACTTCACATGGTGTCACCAAAATTT
Found at i:8274451 original size:28 final size:27
Alignment explanation
Indices: 8274332--8274437 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
8274322 AATTTTGAAG
*
8274332 TACATATTTTTAATTATAAAAATGCAA
1 TACAAATTTTTAATTATAAAAATGCAA
* ** * *
8274359 TGCACGTTTTTAATTATAAAATTGTAA
1 TACAAATTTTTAATTATAAAAATGCAA
*
8274386 TACAAATTTTTTAATAATAAAAATGCAA
1 TACAAA-TTTTTAATTATAAAAATGCAA
8274414 TACAAATTTTTAATTATAAAAATG
1 TACAAATTTTTAATTATAAAAATG
8274438 TAACCCATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 42 0.64
28 24 0.36
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.41
Consensus pattern (27 bp):
TACAAATTTTTAATTATAAAAATGCAA
Found at i:8285052 original size:46 final size:45
Alignment explanation
Indices: 8284980--8285307 Score: 397
Period size: 46 Copynumber: 7.6 Consensus size: 45
8284970 TACATATGAT
*
8284980 CACTTATCA-TTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
* * *
8285025 CACTTATCACTTTCTCACATGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
8285071 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
8285107 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
8285153 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
8285189 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
8285235 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
8285281 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
8285308 AGTACTCAAA
Statistics
Matches: 249, Mismatches: 13, Indels: 41
0.82 0.04 0.14
Matches are distributed among these distances:
36 57 0.23
38 5 0.02
39 1 0.00
40 5 0.02
41 2 0.01
42 5 0.02
43 1 0.00
44 5 0.02
45 9 0.04
46 159 0.64
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:8285111 original size:36 final size:36
Alignment explanation
Indices: 8285071--8285225 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
8285061 CTAAGGCTAA
8285071 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
8285107 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
8285149 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
8285189 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
8285225 C
1 C
8285226 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:8285162 original size:82 final size:82
Alignment explanation
Indices: 8285025--8285271 Score: 422
Period size: 82 Copynumber: 3.0 Consensus size: 82
8285015 CTAAGGCTAC
* * * *
8285025 CACTTATCACTTTCTCACATGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
8285090 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
*
8285107 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
8285172 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
8285189 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
8285254 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
8285271 C
1 C
8285272 TAATGCTACC
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 156 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:8285176 original size:128 final size:123
Alignment explanation
Indices: 8285071--8285307 Score: 349
Period size: 128 Copynumber: 1.9 Consensus size: 123
8285061 CTAAGGCTAA
*
8285071 CACTTATCACTTTGTCACTTGATCAGATAA-GTA-T-A-G-CACTTATCACTTTTTCACTTGATC
1 CACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
* *
8285131 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
66 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
*
8285189 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAG-GTA-CTAATG---CCACTTATCACTTTCTCACT
*
8285254 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATCAGA
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
8285308 AGTACTCAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
118 29 0.28
120 3 0.03
122 1 0.01
123 1 0.01
124 1 0.01
128 69 0.66
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (123 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
Found at i:8305354 original size:50 final size:50
Alignment explanation
Indices: 8305291--8305445 Score: 166
Period size: 50 Copynumber: 3.1 Consensus size: 50
8305281 GTCACATCGT
* ** *
8305291 GACATACTGTTTTGGCCTCGTCAAGACGATGGAGTCTCTCGTCGTGCCGA
1 GACATACTATTTTGGCCTCGTCAAGACGACAGAGTCTCTCGTCATGCCGA
* * * *
8305341 GACATACTATTTTGGCCTCGTCGAGACGACAGAGTCTCTCTTCATGTCGT
1 GACATACTATTTTGGCCTCGTCAAGACGACAGAGTCTCTCGTCATGCCGA
* * * * * * * *
8305391 GGCATACTATTTTGGCCTTGTCAAGATGACGGTGTCTTTCGTCACGCCGT
1 GACATACTATTTTGGCCTCGTCAAGACGACAGAGTCTCTCGTCATGCCGA
8305441 GACAT
1 GACAT
8305446 TATAAGTCAT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (50 bp):
GACATACTATTTTGGCCTCGTCAAGACGACAGAGTCTCTCGTCATGCCGA
Found at i:8306058 original size:3 final size:3
Alignment explanation
Indices: 8306052--8306092 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
8306042 TATGGTCTTA
* *
8306052 TAT TAT TAA TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8306093 AATAAAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:8306978 original size:5 final size:5
Alignment explanation
Indices: 8306968--8306994 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8306958 CATTCGATCA
8306968 AATCG AATCG AATCG AATCG AATCG AA
1 AATCG AATCG AATCG AATCG AATCG AA
8306995 AATTTTCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
AATCG
Found at i:8314770 original size:20 final size:21
Alignment explanation
Indices: 8314730--8314777 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
8314720 TACAATTTCT
8314730 CTTAAGAATTTTACCCAAAAC
1 CTTAAGAATTTTACCCAAAAC
*
8314751 CTTAAGATTTTTACCC-AAAC
1 CTTAAGAATTTTACCCAAAAC
8314771 CTTAAGA
1 CTTAAGA
8314778 CTCAATCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (21 bp):
CTTAAGAATTTTACCCAAAAC
Found at i:8316109 original size:69 final size:69
Alignment explanation
Indices: 8316023--8316159 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
8316013 TGTCCGAACA
8316023 ATTAATAGGGTAATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
1 ATTAATAGGGTAATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
8316088 AATC
66 AATC
*
8316092 ATTAATAGGGTGATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
1 ATTAATAGGGTAATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
8316157 AAT
66 AAT
8316160 TATATCCGAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (69 bp):
ATTAATAGGGTAATAACTATTTAAATTTCCAAATATAGTCAATTCATAAGCTTAACTTGAAGGTT
AATC
Found at i:8316871 original size:36 final size:36
Alignment explanation
Indices: 8316814--8316900 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
8316804 TTATGTGATA
*
8316814 TTTTCTATTAAA-AAT-TCATTAATAATCATTAAGG
1 TTTTATATTAAATAATATCATTAATAATCATTAAGG
8316848 TTTTATATTAAATAATATCATTAATAATCATTAAGG
1 TTTTATATTAAATAATATCATTAATAATCATTAAGG
8316884 TTTTATATTAAATAATA
1 TTTTATATTAAATAATA
8316901 AATTATATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 11 0.22
35 3 0.06
36 36 0.72
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.46
Consensus pattern (36 bp):
TTTTATATTAAATAATATCATTAATAATCATTAAGG
Found at i:8317588 original size:22 final size:24
Alignment explanation
Indices: 8317560--8317603 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8317550 TATGGCAAGA
8317560 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
8317582 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
8317604 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:8318196 original size:27 final size:26
Alignment explanation
Indices: 8318138--8318196 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
8318128 ATCTAATGCC
**
8318138 TTATTGGTGTGTTTGGGAGGATATAA
1 TTATTGGTGTGTTAAGGAGGATATAA
* *
8318164 TATATTGGTGTGTTAATGAGGATTTATA
1 T-TATTGGTGTGTTAAGGAGGATATA-A
8318192 TTATT
1 TTATT
8318197 CCGGGTGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 24 0.89
28 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (26 bp):
TTATTGGTGTGTTAAGGAGGATATAA
Found at i:8351232 original size:40 final size:40
Alignment explanation
Indices: 8351177--8351256 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
8351167 GAAAAAAATC
*
8351177 TTTTTTTTTCTTTCCAATAATTTACTCAAATAAATGAATG
1 TTTTTTTTTCTTTCCAATAATTTACTCAAACAAATGAATG
8351217 TTTTTTTTTCTTTCCAATAATTTACTCAAACAAATGAATG
1 TTTTTTTTTCTTTCCAATAATTTACTCAAACAAATGAATG
8351257 GTTCAACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (40 bp):
TTTTTTTTTCTTTCCAATAATTTACTCAAACAAATGAATG
Found at i:8355009 original size:3 final size:3
Alignment explanation
Indices: 8355001--8355041 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8354991 GGTTGTTTCT
8355001 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
8355042 TTTTGCTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8357556 original size:17 final size:17
Alignment explanation
Indices: 8357534--8357568 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8357524 TCCCACTCCA
8357534 TTATGAATGTTTAATTT
1 TTATGAATGTTTAATTT
8357551 TTATGAATGTTTAATTT
1 TTATGAATGTTTAATTT
8357568 T
1 T
8357569 GAAAATGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (17 bp):
TTATGAATGTTTAATTT
Found at i:8357643 original size:14 final size:13
Alignment explanation
Indices: 8357624--8357667 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
8357614 TTTAAAAATA
8357624 TTTAAAATAATTC
1 TTTAAAATAATTC
* *
8357637 TTTTAAA-AA-TA
1 TTTAAAATAATTC
8357648 TTTAAAATAATTC
1 TTTAAAATAATTC
8357661 TTTAAAA
1 TTTAAAA
8357668 AAATATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.28
12 4 0.16
13 14 0.56
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAAAATAATTC
Found at i:8357646 original size:24 final size:24
Alignment explanation
Indices: 8357614--8357683 Score: 113
Period size: 24 Copynumber: 2.8 Consensus size: 24
8357604 TCTCACTCAA
8357614 TTTAAAAATATTTAAAATAATTCT
1 TTTAAAAATATTTAAAATAATTCT
8357638 TTTAAAAATATTTAAAATAATTCT
1 TTTAAAAATATTTAAAATAATTCT
*
8357662 TTAAAAAAATATTTAAACATAA
1 TT-TAAAAATATTTAAA-ATAA
8357684 AATATATGAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 26 0.60
25 13 0.30
26 4 0.09
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAAAATATTTAAAATAATTCT
Found at i:8357678 original size:12 final size:12
Alignment explanation
Indices: 8357617--8357678 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
8357607 CACTCAATTT
8357617 AAAAATATTTAA
1 AAAAATATTTAA
* **
8357629 AATAAT-TCTTTT
1 AAAAATAT-TTAA
8357641 AAAAATATTTAA
1 AAAAATATTTAA
* *
8357653 AATAATTCTTTAA
1 AA-AAATATTTAA
8357666 AAAAATATTTAA
1 AAAAATATTTAA
8357678 A
1 A
8357679 CATAAAATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
11 1 0.03
12 25 0.68
13 11 0.30
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAATATTTAA
Found at i:8369215 original size:4 final size:4
Alignment explanation
Indices: 8369200--8369243 Score: 54
Period size: 4 Copynumber: 10.5 Consensus size: 4
8369190 AAAACGAAAC
8369200 AGAA AGGAA AGAA AGAA AGAAA AGAAA AGAA A-AA AGAA AGAA AG
1 AGAA A-GAA AGAA AGAA AG-AA AG-AA AGAA AGAA AGAA AGAA AG
8369244 GAGAAAGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.08
4 21 0.57
5 13 0.35
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:8369222 original size:29 final size:26
Alignment explanation
Indices: 8369170--8369243 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 26
8369160 GTAAATGAAT
* * *
8369170 AAAGAAAGAAACAAACAAACAAAACGA
1 AAAGAAAGAAAGAAAGAAAGAAAA-GA
8369197 AACAGAAAGGAAAGAAAGAAAGAAAAGA
1 AA-AGAAA-GAAAGAAAGAAAGAAAAGA
8369225 AAAGAAA-AAAGAAAGAAAG
1 AAAGAAAGAAAGAAAGAAAG
8369244 GAGAAAGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 12 0.29
27 7 0.17
28 9 0.21
29 14 0.33
ACGTcount: A:0.74, C:0.07, G:0.19, T:0.00
Consensus pattern (26 bp):
AAAGAAAGAAAGAAAGAAAGAAAAGA
Found at i:8369226 original size:17 final size:16
Alignment explanation
Indices: 8369200--8369242 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
8369190 AAAACGAAAC
*
8369200 AGAAAGGAAAGAAAGAA
1 AGAAAGAAAAGAAA-AA
8369217 AGAAAAGAAAAGAAAAA
1 AG-AAAGAAAAGAAAAA
8369234 AGAAAGAAA
1 AGAAAGAAA
8369243 GGAGAAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 6 0.25
18 11 0.46
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAAGAAAAA
Found at i:8369234 original size:12 final size:11
Alignment explanation
Indices: 8369200--8369242 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 11
8369190 AAAACGAAAC
8369200 AGAAAGGAAAGAA
1 AGAAA-GAAA-AA
*
8369213 AGAAAGAAAAG
1 AGAAAGAAAAA
8369224 A-AAAGAAAAA
1 AGAAAGAAAAA
8369234 AGAAAGAAA
1 AGAAAGAAA
8369243 GGAGAAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
12 4 0.15
13 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:8369243 original size:33 final size:32
Alignment explanation
Indices: 8369170--8369251 Score: 78
Period size: 33 Copynumber: 2.5 Consensus size: 32
8369160 GTAAATGAAT
* * * *
8369170 AAAGAAAGAAACAAACAAACAAAACGAAACAG
1 AAAGAAAGAAAGAAAGAAACAAAAAGAAAAAG
8369202 AAAGGAAAGAAAGAAAGAAA-AGAAAAGAAAAAAG
1 AAA-GAAAGAAAGAAAGAAACA-AAAAG-AAAAAG
*
8369236 AAAGAAAG-GAGAAAGA
1 AAAGAAAGAAAGAAAGA
8369252 TAAGGCTAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
32 11 0.26
33 23 0.55
34 8 0.19
ACGTcount: A:0.73, C:0.06, G:0.21, T:0.00
Consensus pattern (32 bp):
AAAGAAAGAAAGAAAGAAACAAAAAGAAAAAG
Found at i:8369248 original size:11 final size:11
Alignment explanation
Indices: 8369213--8369251 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8369203 AAGGAAAGAA
8369213 AGAAAGAAAAG
1 AGAAAGAAAAG
*
8369224 A-AAAGAAAAA
1 AGAAAGAAAAG
*
8369234 AGAAAGAAAGG
1 AGAAAGAAAAG
8369245 AGAAAGA
1 AGAAAGA
8369252 TAAGGCTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAG
Found at i:8370216 original size:41 final size:40
Alignment explanation
Indices: 8370166--8370261 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 40
8370156 CGGTTTAACT
* *
8370166 GATGAGACATTGGGTGTCAATTTACTT-TTTCGGATTTATTC
1 GATGAGACATTGGGTGTCAATTTA-TTACTTC-GAATTATTC
** *
8370207 GATGAGACATTCAGTGTCAATTTATTACTTCGAATTATTT
1 GATGAGACATTGGGTGTCAATTTATTACTTCGAATTATTC
*
8370247 GATGAGGCATTGGGT
1 GATGAGACATTGGGT
8370262 ACCAAACTGG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 21 0.46
41 25 0.54
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (40 bp):
GATGAGACATTGGGTGTCAATTTATTACTTCGAATTATTC
Found at i:8377046 original size:40 final size:40
Alignment explanation
Indices: 8377000--8377079 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
8376990 CTATTTCAAA
* *
8377000 TTCACTTTTGATTCAAT-CACAATTCA-ATTCAATTTCACTT
1 TTCACTTTTCAATCAATACACAATTCAGA-T-AATTTCACTT
8377040 TTCACTTTTCAATCAATACACAATTCAGATAATTTCACTT
1 TTCACTTTTCAATCAATACACAATTCAGATAATTTCACTT
8377080 CGATTCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 25 0.69
41 10 0.28
42 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.42
Consensus pattern (40 bp):
TTCACTTTTCAATCAATACACAATTCAGATAATTTCACTT
Found at i:8377843 original size:12 final size:12
Alignment explanation
Indices: 8377828--8377858 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8377818 TTCTCTTTTA
8377828 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
8377840 TTTTTCTTTCGC
1 TTTTTCTTTCCC
8377852 TTTTTCT
1 TTTTTCT
8377859 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:8378445 original size:3 final size:3
Alignment explanation
Indices: 8378393--8378430 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
8378383 TTACTTTATT
* *
8378393 TAA TAA TAA TAA TAA TAA TAT TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8378431 TAAGACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:8381379 original size:42 final size:43
Alignment explanation
Indices: 8381298--8381379 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
8381288 AATACATACG
***
8381298 GTGGAGAGTTTCCTACATCAAAGGGTCATATATGTATAACCTT
1 GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAACCTT
* *
8381341 GTGGAGAGTTTCCTACATC-AAGGGTCATTTCCCAATAAC
1 GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAAC
8381380 ATAAGCAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 15 0.44
43 19 0.56
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (43 bp):
GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAACCTT
Found at i:8395112 original size:20 final size:20
Alignment explanation
Indices: 8395087--8395126 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8395077 AGCCTATGTG
8395087 AAAGTTTCTGATACTAATAT
1 AAAGTTTCTGATACTAATAT
8395107 AAAGTTTCTGATACTAATAT
1 AAAGTTTCTGATACTAATAT
8395127 GCCCATTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAGTTTCTGATACTAATAT
Found at i:8398234 original size:21 final size:21
Alignment explanation
Indices: 8398208--8398248 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8398198 AATATGATTT
8398208 TAATATTTTATG-ATTATAATG
1 TAATATTTTA-GCATTATAATG
8398229 TAATATTTTAGCATTATAAT
1 TAATATTTTAGCATTATAAT
8398249 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
TAATATTTTAGCATTATAATG
Found at i:8398283 original size:12 final size:12
Alignment explanation
Indices: 8398266--8398291 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8398256 AAATTAAAAA
8398266 GAAGAAGAAGAC
1 GAAGAAGAAGAC
8398278 GAAGAAGAAGAC
1 GAAGAAGAAGAC
8398290 GA
1 GA
8398292 GGAGGATTGG
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:0.58, C:0.08, G:0.35, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAGAC
Found at i:8404455 original size:27 final size:27
Alignment explanation
Indices: 8404402--8404455 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
8404392 TTTGGATAAT
**
8404402 AATATATATCTTATCTTTTCTGATTAA
1 AATATATATCTTATCTTTTAGGATTAA
*
8404429 AATATATAT-TATATCTTTTAGGTTTAA
1 AATATATATCT-TATCTTTTAGGATTAA
8404456 CATGAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (27 bp):
AATATATATCTTATCTTTTAGGATTAA
Found at i:8409177 original size:18 final size:18
Alignment explanation
Indices: 8409121--8409177 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
8409111 ATTAAGAAAC
8409121 TAAAAATTAGACTATAAA
1 TAAAAATTAGACTATAAA
* * *
8409139 TATATATT-GAC-A-AAT
1 TAAAAATTAGACTATAAA
8409154 TAAAAATTAGACTATAAA
1 TAAAAATTAGACTATAAA
8409172 TAAAAA
1 TAAAAA
8409178 CTTGTAACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 8 0.27
16 4 0.13
17 4 0.13
18 14 0.47
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
TAAAAATTAGACTATAAA
Found at i:8409683 original size:16 final size:17
Alignment explanation
Indices: 8409657--8409703 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
8409647 TTCATGGTAT
8409657 ATTTT-TAATTTA-AAA
1 ATTTTATAATTTATAAA
*
8409672 TTTTTATAATTTATAAA
1 ATTTTATAATTTATAAA
*
8409689 ATTTTA-AATTAATAA
1 ATTTTATAATTTATAA
8409704 CGATAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTATAATTTATAAA
Found at i:8410480 original size:19 final size:19
Alignment explanation
Indices: 8410448--8410513 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 19
8410438 TTAATTTTAA
8410448 TTTTTCAATATTATTTAATAT
1 TTTTTC-AT-TTATTTAATAT
*
8410469 TTTTTCATTTATGTAAT-T
1 TTTTTCATTTATTTAATAT
* *
8410487 TTAATTCATTTTTATTTTATAT
1 TT-TTTCA--TTTATTTAATAT
8410509 TTTTT
1 TTTTT
8410514 TATAACAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 3 0.08
19 12 0.33
20 2 0.06
21 16 0.44
22 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTCATTTATTTAATAT
Found at i:8412568 original size:92 final size:92
Alignment explanation
Indices: 8412416--8412603 Score: 331
Period size: 92 Copynumber: 2.0 Consensus size: 92
8412406 ACATTGATTT
* * *
8412416 TTTTAAATATATTTGTACGAAGTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTA
1 TTTTAAAAATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTA
8412481 ATATTTTAATAGTAATTTATTTTTACA
66 ATATTTTAATAGTAATTTATTTTTACA
*
8412508 TTTTAAAAATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAATTTATTTTTA
1 TTTTAAAAATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTA
*
8412573 ATATTTTAATAGTAATTTATTTTTATA
66 ATATTTTAATAGTAATTTATTTTTACA
8412600 TTTT
1 TTTT
8412604 TAATAAAATA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (92 bp):
TTTTAAAAATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTA
ATATTTTAATAGTAATTTATTTTTACA
Found at i:8412569 original size:48 final size:47
Alignment explanation
Indices: 8412420--8412569 Score: 116
Period size: 48 Copynumber: 3.2 Consensus size: 47
8412410 TGATTTTTTT
*
8412420 AAATATATTTGTACGAAGTATTTTTATATTGTTTCATTTAATAAAATA
1 AAATATATTTGTAC-AAATATTTTTATATTGTTTCATTTAATAAAATA
* * ** * **
8412468 AAAGT-TATTT-T--TAATATTTTAATAGTAATTT-ATTT-TTACATTTTA
1 AAA-TATATTTGTACAAATATTTTTATA-TTGTTTCATTTAATA-A-AATA
8412513 AAA-ATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATA
1 AAATATATTTGTACAAA-TATTTTTATATTGTTTCATTTAATAAAATA
*
8412560 AAATTTATTT
1 AAATATATTT
8412570 TTAATATTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 24
0.65 0.14 0.21
Matches are distributed among these distances:
43 2 0.03
44 20 0.27
45 10 0.14
47 12 0.16
48 27 0.36
49 3 0.04
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (47 bp):
AAATATATTTGTACAAATATTTTTATATTGTTTCATTTAATAAAATA
Found at i:8412589 original size:25 final size:25
Alignment explanation
Indices: 8412561--8412608 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
8412551 AATAAAATAA
8412561 AATTTATTTTTA-ATATTTTAATAGT
1 AATTTATTTTTATAT-TTTTAATAGT
8412586 AATTTATTTTTATATTTTTAATA
1 AATTTATTTTTATATTTTTAATA
8412609 AAATAGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTTATTTTTATATTTTTAATAGT
Found at i:8415873 original size:127 final size:128
Alignment explanation
Indices: 8415645--8415921 Score: 294
Period size: 127 Copynumber: 2.2 Consensus size: 128
8415635 TAAGGCTAAA
* * *
8415645 CAGGAAATACTGT-AGAAAAATAGCGTCCACGTGGGAGATCTTTTTCATCAATTTTACTGACAGT
1 CAGGAACTACTGTAAAAAAAAGAGCGTCCACGTGGGAGA-CTTTTTCATCAATTTTACTGACAGT
* *
8415709 CCATCCTGCTTGAAGCATTTTTGAGACCATTTATTCAAAACTGTCTTCTCAAAATTATT-ATTT
65 CCATCCTGCTTGAAGCATTTTTGACACCATTTATTCAAAACCGTCTTCTCAAAATTATTCATTT
* * *
8415772 CAGGAACTACTGTAAAAAAAAGAGTGTCCATGTGGGAG-CTTTTTCCAGT-AATTTTGCTGACAG
1 CAGGAACTACTGTAAAAAAAAGAGCGTCCACGTGGGAGACTTTTT-CA-TCAATTTTACTGACAG
* * ** * ** * *
8415835 TGCATCCTGCTTTAAGTGTTTTTTACATTATCTT-TTCAAAACCGTCTTTTCAAAATTATTCTTT
64 TCCATCCTGCTTGAAGCATTTTTGACACCAT-TTATTCAAAACCGTCTTCTCAAAATTATTCATT
8415899 T
128 T
** *
8415900 CATAAACCACTGTAGAAAAAAA
1 CAGGAACTACTGTA-AAAAAAA
8415922 AGTTTTTATA
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
126 6 0.05
127 74 0.60
128 37 0.30
129 7 0.06
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (128 bp):
CAGGAACTACTGTAAAAAAAAGAGCGTCCACGTGGGAGACTTTTTCATCAATTTTACTGACAGTC
CATCCTGCTTGAAGCATTTTTGACACCATTTATTCAAAACCGTCTTCTCAAAATTATTCATTT
Found at i:8416029 original size:34 final size:32
Alignment explanation
Indices: 8415983--8416076 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 32
8415973 TTAAATAAAA
8415983 CTAACCCATAATTTAATTAATTTTCTTAAAAACC
1 CTAACCC-TAATTTAATTAATTTT-TTAAAAACC
*
8416017 CTAATCCCTAATTTAATTAATTTATTTAAAATCTC
1 CTAA-CCCTAATTTAATTAATTT-TTTAAAAAC-C
** *
8416052 AAAAACCTAATTTAATTAATTTTTT
1 CTAACCCTAATTTAATTAATTTTTT
8416077 TTAAAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.06
34 43 0.81
35 7 0.13
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (32 bp):
CTAACCCTAATTTAATTAATTTTTTAAAAACC
Found at i:8421387 original size:46 final size:45
Alignment explanation
Indices: 8421362--8421813 Score: 465
Period size: 46 Copynumber: 9.4 Consensus size: 45
8421352 GATCAAGTGA
* * *
8421362 CAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
* * * *
8421407 CAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
8421453 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
* * *
8421499 CAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
* * * *
8421551 CAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
8421597 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
*
8421643 CAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
* *
8421695 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
* *
8421747 CAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
*
8421793 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
8421814 GCTACACTTA
Statistics
Matches: 369, Mismatches: 21, Indels: 33
0.87 0.05 0.08
Matches are distributed among these distances:
44 2 0.01
45 5 0.01
46 226 0.61
52 136 0.37
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
Found at i:8421517 original size:98 final size:95
Alignment explanation
Indices: 8421303--8421813 Score: 614
Period size: 98 Copynumber: 5.3 Consensus size: 95
8421293 TTTGAGTACT
* ** *
8421303 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
* *
8421365 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
64 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
8421401 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGACAA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAA
*
8421463 AGTGATAAGTGATAGCTTCAGCTACACTTA
66 AGTGATAAGTGATAGCTTCGGCTACACTTA
*
8421493 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGA
* * *
8421558 TAAAGTGATAAGTTATAGCTTCGGCTATACTTA
63 CAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
8421591 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
8421653 GTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
64 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
8421689 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGA
**
8421754 CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
63 CAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
8421787 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
8421814 GCTACACTTA
Statistics
Matches: 370, Mismatches: 25, Indels: 42
0.85 0.06 0.10
Matches are distributed among these distances:
92 96 0.26
95 1 0.00
96 1 0.00
98 229 0.62
104 43 0.12
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (95 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAA
AGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:8421563 original size:144 final size:144
Alignment explanation
Indices: 8421303--8421802 Score: 865
Period size: 144 Copynumber: 3.4 Consensus size: 144
8421293 TTTGAGTACT
* * *
8421303 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
8421368 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGC
8421433 TTCGGCTATACTTA
131 TTCGGCTATACTTA
8421447 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
8421512 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGC
8421577 TTCGGCTATACTTA
131 TTCGGCTATACTTA
8421591 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
8421656 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T--AAAGTGATAAGT
*
8421721 GATAGCTTCGGCTATACTTA
125 TATAGCTTCGGCTATACTTA
* * *
8421741 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
8421803 AGTGATAAGT
Statistics
Matches: 341, Mismatches: 9, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
144 249 0.73
147 1 0.00
148 1 0.00
150 90 0.26
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGC
TTCGGCTATACTTA
Found at i:8421821 original size:37 final size:37
Alignment explanation
Indices: 8421777--8421886 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
8421767 GATAGCTTTA
8421777 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
8421814 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
8421851 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
8421887 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:8422918 original size:21 final size:21
Alignment explanation
Indices: 8422894--8422934 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8422884 AGACGAGTAA
* *
8422894 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8422915 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8422935 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:8436733 original size:15 final size:16
Alignment explanation
Indices: 8436703--8436736 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
8436693 TCAATCTCTC
8436703 TTTCTCTTCCCATTTTT
1 TTTCTCTT-CCATTTTT
8436720 TTTCTCTT-CATTTTT
1 TTTCTCTTCCATTTTT
8436735 TT
1 TT
8436737 CTTTAGCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCTCTTCCATTTTT
Found at i:8441216 original size:20 final size:20
Alignment explanation
Indices: 8441174--8441216 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8441164 ATACCCTCAA
*
8441174 AATAATATTAGTTACTTTAT
1 AATAATATTAGATACTTTAT
*
8441194 AATAATATTGGAT-CTTTAGT
1 AATAATATTAGATACTTTA-T
8441214 AAT
1 AAT
8441217 TTCGCAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (20 bp):
AATAATATTAGATACTTTAT
Found at i:8446823 original size:24 final size:26
Alignment explanation
Indices: 8446765--8446844 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 26
8446755 GAACTTCCCA
* * *
8446765 TTATATGGCTATCCG-GTGCTACCCG
1 TTATATGGCTCTACGTGAGCTACCCG
*
8446790 TTA-ATTGCTCTACG-GAGCTACCCG
1 TTATATGGCTCTACGTGAGCTACCCG
** *
8446814 TTATA-GGCTCTTTGTGAGCTTCCCG
1 TTATATGGCTCTACGTGAGCTACCCG
8446839 TTATAT
1 TTATAT
8446845 TTCCCGGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
24 26 0.59
25 18 0.41
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
TTATATGGCTCTACGTGAGCTACCCG
Found at i:8452410 original size:37 final size:37
Alignment explanation
Indices: 8452366--8452494 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
8452356 CACTTGTCCC
*
8452366 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
8452403 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
*
8452440 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
8452477 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
8452495 TAAAGCTATC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Found at i:8452511 original size:46 final size:46
Alignment explanation
Indices: 8452458--8452726 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
8452448 TAAGTGTAGC
* **
8452458 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
8452504 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
8452550 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
8452602 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
8452648 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
8452700 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
8452727 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:8452577 original size:52 final size:52
Alignment explanation
Indices: 8452501--8452720 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
8452491 TAGCTAAAGC
* *
8452501 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
8452554 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
8452606 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
8452652 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
8452704 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
8452721 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:8452623 original size:98 final size:98
Alignment explanation
Indices: 8452458--8452726 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
8452448 TAAGTGTAGC
* * *
8452458 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
8452523 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
8452557 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
8452622 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
8452655 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
8452720 GATCAGA
66 GATCAGA
8452727 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:8455905 original size:49 final size:50
Alignment explanation
Indices: 8455850--8456053 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
8455840 TTCGTTTTCT
*
8455850 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
8455899 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
8455948 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
8456006 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
8456054 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:8456020 original size:58 final size:59
Alignment explanation
Indices: 8455934--8456052 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
8455924 TACACGAAAT
8455934 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
8455992 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
8456051 CA
1 CA
8456053 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:8456033 original size:28 final size:28
Alignment explanation
Indices: 8455943--8456033 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
8455933 TCACATATCA
8455943 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
8455971 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
8456001 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
8456029 CTTAC
1 CTTAC
8456034 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:8457364 original size:37 final size:37
Alignment explanation
Indices: 8457320--8457448 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
8457310 CACTTGTCCC
*
8457320 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
8457357 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
*
8457394 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
8457431 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
8457449 TAAAGCTATC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Found at i:8457465 original size:46 final size:46
Alignment explanation
Indices: 8457412--8457680 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
8457402 TAAGTGTAGC
* **
8457412 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
8457458 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
8457504 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
8457556 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
8457602 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
8457654 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
8457681 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:8457531 original size:52 final size:52
Alignment explanation
Indices: 8457455--8457674 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
8457445 TAGCTAAAGC
* *
8457455 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
8457508 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
8457560 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
8457606 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
8457658 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
8457675 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:8457577 original size:98 final size:98
Alignment explanation
Indices: 8457412--8457680 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
8457402 TAAGTGTAGC
* * *
8457412 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
8457477 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
8457511 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
8457576 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
8457609 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
8457674 GATCAGA
66 GATCAGA
8457681 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:8466486 original size:6 final size:6
Alignment explanation
Indices: 8466475--8466503 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8466465 CATTTAAAAG
8466475 TGGTGA TGGTGA TGGTGA TGGTGA TGGTG
1 TGGTGA TGGTGA TGGTGA TGGTGA TGGTG
8466504 GATATGGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (6 bp):
TGGTGA
Found at i:8470468 original size:31 final size:31
Alignment explanation
Indices: 8470433--8470502 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
8470423 AAGTTAATTT
* *
8470433 TTAAATTTAATTATTGTTTTTATATTAAGAC
1 TTAAATTTAATAATTATTTTTATATTAAGAC
* *
8470464 TTAAATTTAATAATTATTTTTATTTTGAGAC
1 TTAAATTTAATAATTATTTTTATATTAAGAC
*
8470495 TTGAATTT
1 TTAAATTT
8470503 TAAAATCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (31 bp):
TTAAATTTAATAATTATTTTTATATTAAGAC
Found at i:8487342 original size:9 final size:9
Alignment explanation
Indices: 8487328--8487366 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
8487318 TTTAGAAGGA
8487328 AATTAATTT
1 AATTAATTT
8487337 AATTAATTTT
1 AATTAA-TTT
8487347 AATATTAATTT
1 -A-ATTAATTT
8487358 AATTAATTT
1 AATTAATTT
8487367 CAATATTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 14 0.52
10 4 0.15
11 4 0.15
12 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTAATTT
Found at i:8487353 original size:21 final size:21
Alignment explanation
Indices: 8487329--8487373 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
8487319 TTAGAAGGAA
*
8487329 ATTAATTTAATTAATTTTAAT
1 ATTAATTTAATTAATTTCAAT
8487350 ATTAATTTAATTAATTTCAAT
1 ATTAATTTAATTAATTTCAAT
8487371 ATT
1 ATT
8487374 GAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAATTTAATTAATTTCAAT
Found at i:8488039 original size:21 final size:22
Alignment explanation
Indices: 8488014--8488064 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
8488004 CCAATGAGTA
*
8488014 ATTTTATATGTATATTGTAACT
1 ATTTTATATGAATATTGTAACT
* *
8488036 -TTTTGTATGAATATTGTAATT
1 ATTTTATATGAATATTGTAACT
8488057 ATTTTATA
1 ATTTTATA
8488065 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (22 bp):
ATTTTATATGAATATTGTAACT
Found at i:8488126 original size:27 final size:27
Alignment explanation
Indices: 8488096--8488148 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
8488086 TTGGATTAGT
* *
8488096 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTATATGAATATTGTAATATTGTA
8488123 ATTTTATATGAATATTGTAATATTGT
1 ATTTTATATGAATATTGTAATATTGT
8488149 TTGTATGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (27 bp):
ATTTTATATGAATATTGTAATATTGTA
Found at i:8488349 original size:15 final size:16
Alignment explanation
Indices: 8488314--8488349 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
8488304 AACATAAAAG
8488314 TTTATATAATGTAACT
1 TTTATATAATGTAACT
*
8488330 TTTATATTATGTAA-T
1 TTTATATAATGTAACT
8488345 TTTAT
1 TTTAT
8488350 TTGATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTATATAATGTAACT
Found at i:8488683 original size:29 final size:29
Alignment explanation
Indices: 8488643--8488709 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
8488633 GATAGGCAAT
8488643 TTTC-GTAAATAATTTTTTTGAC-ACCCTA
1 TTTCAGTAAATAATTTTTTT-ACTACCCTA
* *
8488671 TTTCAGTACATAATTTTTTTTCTACCCTA
1 TTTCAGTAAATAATTTTTTTACTACCCTA
*
8488700 TTTGAGTAAA
1 TTTCAGTAAA
8488710 AAACCCTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.48
Consensus pattern (29 bp):
TTTCAGTAAATAATTTTTTTACTACCCTA
Found at i:8504748 original size:22 final size:21
Alignment explanation
Indices: 8504719--8504774 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 21
8504709 TGCACTAATG
8504719 AACAGAGAGCACTGAAGTGCT
1 AACAGAGAGCACTGAAGTGCT
*
8504740 ATACAGAGAGCACTGATGTGCT
1 A-ACAGAGAGCACTGAAGTGCT
8504762 AATCAGAGAGCAC
1 AA-CAGAGAGCAC
8504775 CAACGTGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.16
Consensus pattern (21 bp):
AACAGAGAGCACTGAAGTGCT
Found at i:8504782 original size:22 final size:22
Alignment explanation
Indices: 8504720--8504797 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 22
8504710 GCACTAATGA
*
8504720 ACAGAGAGCACTGAAGTGCT-AT
1 ACAGAGAGCAC-CAAGTGCTAAT
* *
8504742 ACAGAGAGCACTGATGTGCTAAT
1 ACAGAGAGCAC-CAAGTGCTAAT
8504765 -CAGAGAGCACCAACGTGCTAAT
1 ACAGAGAGCACCAA-GTGCTAAT
8504787 AATCAGAGAGC
1 -A-CAGAGAGC
8504798 GCGCTAAAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
21 1 0.02
22 37 0.77
23 2 0.04
25 8 0.17
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.17
Consensus pattern (22 bp):
ACAGAGAGCACCAAGTGCTAAT
Found at i:8506822 original size:15 final size:16
Alignment explanation
Indices: 8506802--8506836 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
8506792 TATTCTAGAA
*
8506802 AAAAAAATAT-AAATT
1 AAAAAAATATGAAAAT
8506817 AAAAAAATATGAAAAT
1 AAAAAAATATGAAAAT
8506833 AAAA
1 AAAA
8506837 TTTACAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAAAAATATGAAAAT
Found at i:8508436 original size:15 final size:15
Alignment explanation
Indices: 8508398--8508428 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8508388 TTAAAATAAA
*
8508398 TTAAATAATGTTAAG
1 TTAAAAAATGTTAAG
8508413 TTAAAAAATGTTAAG
1 TTAAAAAATGTTAAG
8508428 T
1 T
8508429 ACAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (15 bp):
TTAAAAAATGTTAAG
Found at i:8513814 original size:23 final size:24
Alignment explanation
Indices: 8513788--8513837 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
8513778 TGGAATTTGA
* *
8513788 TGAAAC-GTATAAGTTAAATTGTT
1 TGAAACTGTAAAAGTTAAATTGCT
8513811 TG-AACTGTAAAAGTTAAATTGCT
1 TGAAACTGTAAAAGTTAAATTGCT
8513834 TGAA
1 TGAA
8513838 CAGGTTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 19 0.83
24 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (24 bp):
TGAAACTGTAAAAGTTAAATTGCT
Found at i:8517194 original size:17 final size:16
Alignment explanation
Indices: 8517157--8517198 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
8517147 CCTTTATGTA
*
8517157 ATTTTATTTTTTTAAT
1 ATTTTATATTTTTAAT
8517173 ATTTTATATTTTTAAGT
1 ATTTTATATTTTTAA-T
*
8517190 CTTTTATAT
1 ATTTTATAT
8517199 AATAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTTTATATTTTTAAT
Found at i:8529652 original size:18 final size:16
Alignment explanation
Indices: 8529615--8529665 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
8529605 AAATTATAAA
8529615 AAATTAATATAAAAAC
1 AAATTAATATAAAAAC
*
8529631 AAATTAATTTAACAATAC
1 AAATTAATATAA-AA-AC
*
8529649 AAA-TAAAATAAATAAC
1 AAATTAATATAAA-AAC
8529665 A
1 A
8529666 TGTAAGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 15 0.52
17 9 0.31
18 5 0.17
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATTAATATAAAAAC
Found at i:8541764 original size:18 final size:18
Alignment explanation
Indices: 8541726--8541761 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8541716 TTATTATTTT
*
8541726 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
8541744 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
8541762 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:8546840 original size:25 final size:25
Alignment explanation
Indices: 8546788--8546892 Score: 101
Period size: 25 Copynumber: 4.3 Consensus size: 25
8546778 CACTAATGAA
* *
8546788 CAGAGAGCATTAAAGTGCT--ATA-
1 CAGAGAGCACTAACGTGCTAAATAT
* *
8546810 CAGAGAGCACTGACATGCTAAATAT
1 CAGAGAGCACTAACGTGCTAAATAT
* *
8546835 CAGAGAACACCAACGTGCT-AATAGT
1 CAGAGAGCACTAACGTGCTAAATA-T
* *
8546860 CAGAGAGCACTAACGTGTTAAAAAT
1 CAGAGAGCACTAACGTGCTAAATAT
8546885 CAGAGAGC
1 CAGAGAGC
8546893 GCGCTAAAGT
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
22 15 0.23
24 7 0.11
25 41 0.62
26 3 0.05
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAAATAT
Found at i:8548012 original size:5 final size:5
Alignment explanation
Indices: 8547996--8548042 Score: 85
Period size: 5 Copynumber: 9.2 Consensus size: 5
8547986 TTTGTTTTAT
8547996 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
8548043 CAACTTACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 36 0.88
6 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:8551389 original size:30 final size:31
Alignment explanation
Indices: 8551355--8551422 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
8551345 TTGCCCAAGA
** * * *
8551355 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTAAAGGACTAATAGT
8551385 GTAAATACAAAAAATTTAAAGGACTAATAGT
1 GTAAATACAAAAAATTTAAAGGACTAATAGT
8551416 GTAAATA
1 GTAAATA
8551423 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (31 bp):
GTAAATACAAAAAATTTAAAGGACTAATAGT
Found at i:8551827 original size:27 final size:27
Alignment explanation
Indices: 8551789--8551844 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
8551779 AAGAGAGGAG
8551789 AAGAAAGAAAGTTTTGCTTTCTTTACA
1 AAGAAAGAAAGTTTTGCTTTCTTTACA
8551816 AAGAAAGAAAGTTTTGCTTTCTTTACA
1 AAGAAAGAAAGTTTTGCTTTCTTTACA
8551843 AA
1 AA
8551845 TTGGTCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (27 bp):
AAGAAAGAAAGTTTTGCTTTCTTTACA
Found at i:8556423 original size:2 final size:2
Alignment explanation
Indices: 8556416--8556441 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8556406 TTTCAGGTTA
8556416 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
8556442 TAATTCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8558830 original size:19 final size:18
Alignment explanation
Indices: 8558782--8558821 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
8558772 GTAAATTTTA
8558782 TTAT-ATAATTTAATAAT
1 TTATAATAATTTAATAAT
8558799 TTATAATAATTTAATAAAT
1 TTATAATAATTTAAT-AAT
8558818 TTAT
1 TTAT
8558822 TTTTATTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAATAATTTAATAAT
Found at i:8559508 original size:19 final size:19
Alignment explanation
Indices: 8559475--8559531 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
8559465 CCTAATTCTA
8559475 AAAAATAT-ATAAATATTTT
1 AAAAATATAAT-AATATTTT
*
8559494 AAAAATATAATAATAAATTT
1 AAAAATATAATAAT-ATTTT
*
8559514 AAATTATATAATAATATT
1 AAA-AATATAATAATATT
8559532 AATATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 11 0.34
20 11 0.34
21 10 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATATAATAATATTTT
Found at i:8559513 original size:21 final size:20
Alignment explanation
Indices: 8559491--8559529 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8559481 ATATAAATAT
8559491 TTTAAAAATATAATAATAAA
1 TTTAAAAATATAATAATAAA
*
8559511 TTTAAATTATATAATAATA
1 TTTAAA-AATATAATAATA
8559530 TTAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAAAAATATAATAATAAA
Found at i:8559533 original size:18 final size:20
Alignment explanation
Indices: 8559502--8559547 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
8559492 TTAAAAATAT
8559502 AATAATAA-ATTTAA-ATTA
1 AATAATAATATTTAATATTA
*
8559520 TATAATAATA-TTAATATTA
1 AATAATAATATTTAATATTA
8559539 AATAA-AATA
1 AATAATAATA
8559548 AAATCCCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAATAATATTTAATATTA
Found at i:8562722 original size:38 final size:38
Alignment explanation
Indices: 8562680--8562752 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
8562670 CAGTCACCAA
*
8562680 CGTTATTGAAAAGTGACAAATCAATCACTCATTAATAT
1 CGTTATCGAAAAGTGACAAATCAATCACTCATTAATAT
* *
8562718 CGTTATCGAAAAGTTACAAATCAGTCACTCATTAA
1 CGTTATCGAAAAGTGACAAATCAATCACTCATTAA
8562753 CATTTTCAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (38 bp):
CGTTATCGAAAAGTGACAAATCAATCACTCATTAATAT
Found at i:8562895 original size:25 final size:25
Alignment explanation
Indices: 8562867--8562918 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
8562857 TTTTTTCGTC
8562867 TTTCCTTTTCCT-TTGTTTTAATAAA
1 TTTCCTTTT-CTATTGTTTTAATAAA
8562892 TTTCCTTTTCTATTGTTTTAATAAA
1 TTTCCTTTTCTATTGTTTTAATAAA
8562917 TT
1 TT
8562919 GCCTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTCCTTTTCTATTGTTTTAATAAA
Found at i:8565050 original size:27 final size:25
Alignment explanation
Indices: 8565034--8565141 Score: 82
Period size: 24 Copynumber: 4.5 Consensus size: 25
8565024 GCATTCTCTC
*
8565034 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATCT
* *
8565059 GAGCCATGTAACGGGAAGCTTATC-
1 GAGCCATATAACGGGAAGCTCATCT
* * * **
8565083 CAGGC-TATAACAGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATCT
* *
8565107 GAGCCATA-ATCAGGAAGCTCATAC-
1 GAGCCATATAACGGGAAGCTCAT-CT
8565131 GAGCCA-ATAAC
1 GAGCCATATAAC
8565142 AGGTAGGTCT
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
23 15 0.23
24 27 0.42
25 23 0.35
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATCT
Found at i:8565124 original size:24 final size:23
Alignment explanation
Indices: 8565089--8565197 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 23
8565079 TATCCAGGCT
8565089 ATAA-CAGGAAGCTCATAAGAGCC
1 ATAATCAGGAAGCTC-TAAGAGCC
*
8565112 ATAATCAGGAAGCTCATACGAGCC
1 ATAATCAGGAAGCTC-TAAGAGCC
* * *
8565136 AATAA-CAGGTAGGTCTGAAAAGCC
1 -ATAATCAGGAAGCTCT-AAGAGCC
*
8565160 ATTAATCAGGAAGCTCTAGATAGCC
1 A-TAATCAGGAAGCTCTA-AGAGCC
*
8565185 ATATATCGGGAAG
1 ATA-ATCAGGAAG
8565198 TTCAAGCGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
23 6 0.09
24 37 0.53
25 27 0.39
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (23 bp):
ATAATCAGGAAGCTCTAAGAGCC
Found at i:8568577 original size:41 final size:41
Alignment explanation
Indices: 8568532--8568719 Score: 162
Period size: 42 Copynumber: 4.5 Consensus size: 41
8568522 TGATTCAGTA
* *
8568532 CACCGGTACTT-AGCCTACTAGAAATATAGTCTGAAATGTTT
1 CACCGGTA-TTAAGCCTACTAGAAGTAAAGTCTGAAATGTTT
* * * * *
8568573 CACCGGCATTAACCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGTATTAAGCCTACTAGAAGTAAAGTCTGA-AATGTTT
* * * *
8568615 TACCGGTATTAAGCCCACTAGATGTAAAGTCTGAAATTATTT
1 CACCGGTATTAAGCCTACTAGAAGTAAAGTCTGAAA-TGTTT
* * * *
8568657 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGTATTAAGCCTACTAGAAGTAAAGTCTGA-AATGTTT
* * * *
8568699 CACTGGCAATAAGCCTGCTAG
1 CACCGGTATTAAGCCTACTAG
8568720 GCACTAAGCC
Statistics
Matches: 119, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
40 2 0.02
41 26 0.22
42 90 0.76
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (41 bp):
CACCGGTATTAAGCCTACTAGAAGTAAAGTCTGAAATGTTT
Found at i:8568626 original size:42 final size:42
Alignment explanation
Indices: 8568559--8568719 Score: 200
Period size: 42 Copynumber: 3.9 Consensus size: 42
8568549 CTAGAAATAT
*
8568559 AGTCTGA-AATGTTTCACCGGCATTAACCCTGCTAGACGTAA
1 AGTCTGATATTGTTTCACCGGCATTAACCCTGCTAGACGTAA
* * * *
8568600 AGTCTGATATTGTTTTACCGGTATTAAGCCC-ACTAGATGTAA
1 AGTCTGATATTGTTTCACCGGCATTAA-CCCTGCTAGACGTAA
* * *
8568642 AGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAA
1 AGTCTGATATTGTTTCACCGGCATTAACCCTGCTAGACGTAA
* * *
8568684 AGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAG
1 AGTCTGATATTGTTTCACCGGCATTAACCCTGCTAG
8568720 GCACTAAGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
41 9 0.09
42 89 0.88
43 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (42 bp):
AGTCTGATATTGTTTCACCGGCATTAACCCTGCTAGACGTAA
Found at i:8568677 original size:84 final size:83
Alignment explanation
Indices: 8568533--8568698 Score: 253
Period size: 84 Copynumber: 2.0 Consensus size: 83
8568523 GATTCAGTAC
* * *
8568533 ACCGGTACTTAGCCTACTAGAAATATAGTCTGAAATGTTTCACCGGCATTAACCCTGCTAGACGT
1 ACCGGTACTTAGCCCACTAGAAATAAAGTCTGAAATATTTCACCGGCATTAACCCTGCTAGACGT
8568598 AAAGTCTGATATTGTTTT
66 AAAGTCTGATATTGTTTT
** *
8568616 ACCGGTA-TTAAGCCCACTAGATGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGAC
1 ACCGGTACTT-AGCCCACTAGAAATAAAGTCTGAAA-TATTTCACCGGCATTAACCCTGCTAGAC
8568680 GTAAAGTCTGATATTGTTT
64 GTAAAGTCTGATATTGTTT
8568699 CACTGGCAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
82 2 0.03
83 28 0.37
84 45 0.60
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (83 bp):
ACCGGTACTTAGCCCACTAGAAATAAAGTCTGAAATATTTCACCGGCATTAACCCTGCTAGACGT
AAAGTCTGATATTGTTTT
Found at i:8572977 original size:20 final size:20
Alignment explanation
Indices: 8572952--8573005 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
8572942 ATTTGAAGAA
*
8572952 CAATATTGTCCATTCATATT
1 CAATATTGTTCATTCATATT
8572972 CAATATTGTTCATTCATATT
1 CAATATTGTTCATTCATATT
8572992 CAATATTGTTCATT
1 CAATATTGTTCATT
8573006 TGAACAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.48
Consensus pattern (20 bp):
CAATATTGTTCATTCATATT
Found at i:8574096 original size:6 final size:6
Alignment explanation
Indices: 8574076--8574114 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
8574066 ACCCTAGCTT
*
8574076 TTTCTC CTT-TC TTTCTC TTTCTC TTTCTC TTT-TC TTTCT
1 TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCT
8574115 TTCCTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCTC
Found at i:8574098 original size:17 final size:17
Alignment explanation
Indices: 8574076--8574114 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8574066 ACCCTAGCTT
8574076 TTTCTCCTTTCT-TTCTC
1 TTTCT-CTTTCTCTTCTC
*
8574093 TTTCTCTTTCTCTTTTC
1 TTTCTCTTTCTCTTCTC
8574110 TTTCT
1 TTTCT
8574115 TTCCTTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTCTTTCTCTTCTC
Found at i:8574153 original size:6 final size:6
Alignment explanation
Indices: 8574142--8574180 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
8574132 TTTCAATTTA
*
8574142 TTTCTT TTTCTT TTTCTT TTTCTA TTTCTT TTTCATT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TT
8574181 ATTTCTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:8574169 original size:18 final size:17
Alignment explanation
Indices: 8574141--8574189 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
8574131 GTTTCAATTT
*
8574141 ATTTCTTTTTCTTTTTC
1 ATTTCTATTTCTTTTTC
*
8574158 TTTTTCTATTTCTTTTTC
1 -ATTTCTATTTCTTTTTC
8574176 ATTT-TATTTCTTTT
1 ATTTCTATTTCTTTT
8574190 GTTTTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 10 0.36
17 3 0.11
18 15 0.54
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTCTATTTCTTTTTC
Found at i:8574219 original size:13 final size:13
Alignment explanation
Indices: 8574201--8574228 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8574191 TTTTAATTAT
8574201 TATAACAATATAA
1 TATAACAATATAA
8574214 TATAACAATATAA
1 TATAACAATATAA
8574227 TA
1 TA
8574229 ATATTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
TATAACAATATAA
Found at i:8577818 original size:5 final size:5
Alignment explanation
Indices: 8577799--8577887 Score: 54
Period size: 6 Copynumber: 16.4 Consensus size: 5
8577789 ATTATATTAT
* *
8577799 AAAGA TAAAGTA AAAGAA AAAGA AATAGA AAAGA AGGAGA GAAAGA AACGA
1 AAAGA -AAAG-A AAAG-A AAAGA AA-AGA AAAGA A-AAGA -AAAGA AAAGA
* * *
8577850 AACAGA AAAGG AAAG- AAAGG AAAGAA AAAAA AAAGA AA
1 AA-AGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA AA
8577888 GAAGGAGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.06
5 30 0.45
6 31 0.46
7 2 0.03
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:8577820 original size:12 final size:11
Alignment explanation
Indices: 8577799--8577887 Score: 54
Period size: 11 Copynumber: 7.6 Consensus size: 11
8577789 ATTATATTAT
*
8577799 AAAGATAAAGTA
1 AAAGAAAAAG-A
8577811 AAAGAAAAAGA
1 AAAGAAAAAGA
8577822 AATAG-AAAAGA
1 AA-AGAAAAAGA
* *
8577833 AGGAGAGAAAGA
1 A-AAGAAAAAGA
* *
8577845 AACGAAACAGA
1 AAAGAAAAAGA
*
8577856 AAAGGAAAGAAAGG
1 AAA-G-AA-AAAGA
*
8577870 AAAGAAAAAAA
1 AAAGAAAAAGA
8577881 AAAGAAA
1 AAAGAAA
8577888 GAAGGAGAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
11 30 0.51
12 20 0.34
13 3 0.05
14 6 0.10
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:8577857 original size:34 final size:35
Alignment explanation
Indices: 8577805--8577876 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
8577795 TTATAAAGAT
*
8577805 AAAGTAAAAGAAAAAGAAATAGAAAAG-AAGGAGAG
1 AAAGTAAAAGAAAAAGAAA-AGAAAAGAAAGGAAAG
* * *
8577840 AAAG-AAACGAAACAGAAAAGGAAAGAAAGGAAAG
1 AAAGTAAAAGAAAAAGAAAAGAAAAGAAAGGAAAG
8577874 AAA
1 AAA
8577877 AAAAAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 6 0.19
34 22 0.69
35 4 0.12
ACGTcount: A:0.69, C:0.03, G:0.25, T:0.03
Consensus pattern (35 bp):
AAAGTAAAAGAAAAAGAAAAGAAAAGAAAGGAAAG
Found at i:8578245 original size:20 final size:20
Alignment explanation
Indices: 8578220--8578263 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
8578210 GTGAAATTTG
8578220 TATGAAAATATAAGATTGAC
1 TATGAAAATATAAGATTGAC
8578240 TATG--AATATAAGATTGAC
1 TATGAAAATATAAGATTGAC
*
8578258 TGTGAA
1 TATGAA
8578264 GAAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 17 0.81
20 4 0.19
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (20 bp):
TATGAAAATATAAGATTGAC
Found at i:8578249 original size:18 final size:18
Alignment explanation
Indices: 8578226--8578263 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8578216 TTTGTATGAA
8578226 AATATAAGATTGACTATG
1 AATATAAGATTGACTATG
*
8578244 AATATAAGATTGACTGTG
1 AATATAAGATTGACTATG
8578262 AA
1 AA
8578264 GAAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (18 bp):
AATATAAGATTGACTATG
Found at i:8579662 original size:11 final size:11
Alignment explanation
Indices: 8579646--8579672 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8579636 ACGGGCAGAG
8579646 ATAATTTTACT
1 ATAATTTTACT
8579657 ATAATTTTACT
1 ATAATTTTACT
8579668 ATAAT
1 ATAAT
8579673 GGCAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAATTTTACT
Found at i:8584185 original size:2 final size:2
Alignment explanation
Indices: 8584178--8584226 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
8584168 TCATTTCAGG
8584178 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8584220 TC TC TC T
1 TC TC TC T
8584227 TAAGATATTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8594260 original size:21 final size:22
Alignment explanation
Indices: 8594235--8594290 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
8594225 AAATCTTTAA
8594235 TTTAAAAAATTGT-TAGAAATT
1 TTTAAAAAATTGTATAGAAATT
*
8594256 TTTAAAAAATTTGTATTGAAATT
1 TTTAAAAAA-TTGTATAGAAATT
*
8594279 TATTAATAAATT
1 T-TTAAAAAATT
8594291 TAGGAAGAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 9 0.30
22 4 0.13
23 10 0.33
24 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTAAAAAATTGTATAGAAATT
Found at i:8594924 original size:26 final size:25
Alignment explanation
Indices: 8594879--8594927 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
8594869 ATGCTTTATC
*
8594879 ATTTTAAATTTTTATATTTTTTAAA
1 ATTTTAAATTTTAATATTTTTTAAA
*
8594904 ATTTTGAAATTTTAATTTTTTTTA
1 ATTTT-AAATTTTAATATTTTTTA
8594928 CCAACATCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTAAATTTTAATATTTTTTAAA
Done.