Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 259 of 345
Found at i:88094768 original size:75 final size:74
Alignment explanation
Indices: 88094421--88094759 Score: 466
Period size: 72 Copynumber: 4.5 Consensus size: 74
88094411 AGTGTGTAAT
*
88094421 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
*
88094486 CAGCATGTGAAC
66 CAGC--GTG-TC
* *
88094498 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTAAAAACAGAAATTGAAAATAC
88094563 CTCAGCGTGTC
64 CTCAGCGTGTC
* ** * * * *
88094574 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
88094637 CAGCGTGTC
66 CAGCGTGTC
** * *
88094646 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAAACAGAAATTGAAAATACC
88094711 TCAGCGTGTC
65 TCAGCGTGTC
*
88094721 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
88094760 GAAAAACAAA
Statistics
Matches: 240, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
72 68 0.28
74 4 0.02
75 66 0.28
76 33 0.14
77 36 0.15
79 33 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:88094925 original size:68 final size:70
Alignment explanation
Indices: 88094777--88094949 Score: 201
Period size: 68 Copynumber: 2.5 Consensus size: 70
88094767 AAAAATTAAA
* * * * * * **
88094777 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAAATAAAAATACCTCAACGTG
88094841 CCCCG
66 CCCCG
*
88094846 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAA-AAAAAAT-TAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAAATAAAAATACCTCAACGTG
* **
88094909 TCTTG
66 CCCCG
88094914 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
88094950 CCTTGGAAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
67 1 0.01
68 49 0.54
69 31 0.34
70 9 0.10
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAAATAAAAATACCTCAACGTG
CCCCG
Found at i:88105448 original size:21 final size:20
Alignment explanation
Indices: 88105422--88105493 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
88105412 CATATATGTT
88105422 TAATAATGATGAAAATAATAA
1 TAATAAT-ATGAAAATAATAA
88105443 TAATAATAGTGAAAATAAATAA
1 TAATAATA-TGAAAAT-AATAA
*
88105465 T-ATAATAAT-AAATATAATAG
1 TAATAAT-ATGAAA-ATAATAA
*
88105485 TAACAATAT
1 TAATAATAT
88105494 TAGTAATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
20 11 0.25
21 26 0.59
22 7 0.16
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATAATATGAAAATAATAA
Found at i:88105465 original size:16 final size:15
Alignment explanation
Indices: 88105436--88105478 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
88105426 AATGATGAAA
88105436 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
88105450 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
88105466 ATAATAATAAATA
1 ATAATAATAAATA
88105479 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:88106651 original size:16 final size:16
Alignment explanation
Indices: 88106630--88106661 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88106620 TTTTGTGTAA
*
88106630 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
88106646 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
88106662 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:88107624 original size:12 final size:12
Alignment explanation
Indices: 88107609--88107639 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
88107599 TTCTCTTTTA
88107609 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
88107621 TTTTTCTTTCTC
1 TTTTTCTTTCCC
88107633 TTTTTCT
1 TTTTTCT
88107640 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:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:88107740 original size:16 final size:16
Alignment explanation
Indices: 88107719--88107749 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88107709 TTTATTATTT
88107719 TATTAACATAATATAA
1 TATTAACATAATATAA
*
88107735 TATTAATATAATATA
1 TATTAACATAATATA
88107750 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:88109594 original size:45 final size:45
Alignment explanation
Indices: 88109530--88109620 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
88109520 TCAAATGGAG
*
88109530 AATACCACAAAATACACTTACCCAGTAAAAACAAATATTTCACTA
1 AATACCACAAAATACACTTACCCAGTAAAAACAAATACTTCACTA
*
88109575 AATACCACAGAATACACTTACCCAGTAAAAACAAATACTTCACTA
1 AATACCACAAAATACACTTACCCAGTAAAAACAAATACTTCACTA
88109620 A
1 A
88109621 CTTAATCATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.21
Consensus pattern (45 bp):
AATACCACAAAATACACTTACCCAGTAAAAACAAATACTTCACTA
Found at i:88112904 original size:31 final size:31
Alignment explanation
Indices: 88112866--88113008 Score: 209
Period size: 31 Copynumber: 4.6 Consensus size: 31
88112856 ACAAATGACA
*
88112866 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
88112897 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* *
88112928 AGTGAAAAGTGGAAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CTGCTACCTGATC
*
88112959 AGTGAAAAGTGGTAGC-TCTGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCTG-CTACCTGATC
*
88112990 AGTGAATAGTGGTAGCTTC
1 AGTGAAAAGTGGTAGCTTC
88113009 GGCCACAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.04
31 95 0.94
32 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
Found at i:88113184 original size:42 final size:43
Alignment explanation
Indices: 88113133--88113247 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
88113123 TATGTGATTC
*
88113133 GTGTAAGACCATAGCTAAGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTAAGCTATGGCATCGATTATATGAAGAT
** *
88113175 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTAAGCTATGGCATCGATTATATGAAGAT
*
88113217 GTGTAAGACCATAGTTGAA-CTATGGCATCGA
1 GTGTAAGACCATAGCT-AAGCTATGGCATCGA
88113248 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTAAGCTATGGCATCGATTATATGAAGAT
Found at i:88115086 original size:188 final size:187
Alignment explanation
Indices: 88114757--88115136 Score: 519
Period size: 188 Copynumber: 2.0 Consensus size: 187
88114747 ATTAGATACT
** * * * * *
88114757 TTAAGCTCTTATGTCTAAAAGTACACGGCACTTCTCCCTATAATGGTATTGTCTCTAGATTTTTA
1 TTAAGCTCTTATGTCTAAAAACACACGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTTA
* * *
88114822 GCATAAACACTACCGCTACAAGCTTTAAGTCTTGAGTTGGATAATTCTTTTAATGTGGCTTGAGC
66 GCACAAACACTACCACTACAAGCTTTAAGTCTTGAGTTGGATAATTCTTTTAATGCGGCTTGAGC
* * * * * * *
88114887 TAGCGAGATGCATAGGGCACAACCTTTTTTCTTTGTATAAGCATACATCCTAGCCCA
131 TAGCGAGATGCATACGCCACAAACTTTTCTCTTTGCATAAGCACACATCCTAACCCA
* *
88114944 TTAAGCTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGTTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTAT-GTCTAAAAACACACGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
* * *
88115009 AGCACCAACATTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAA-TCATTTTAATGCGGCTTGA
65 AGCACAAACACTACCACTACAAGCTTTAAGTCTTGAGTTGGATAATTC-TTTTAATGCGGCTTGA
* *
88115073 TCTAGTGAGATGCATACGCCACAAACTTTTCTCTTTGCATAAGCACACATCCTAACCCA
129 GCTAGCGAGATGCATACGCCACAAACTTTTCTCTTTGCATAAGCACACATCCTAACCCA
88115132 TTAAG
1 TTAAG
88115137 GGATATGTCA
Statistics
Matches: 167, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
187 14 0.08
188 153 0.92
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (187 bp):
TTAAGCTCTTATGTCTAAAAACACACGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTTA
GCACAAACACTACCACTACAAGCTTTAAGTCTTGAGTTGGATAATTCTTTTAATGCGGCTTGAGC
TAGCGAGATGCATACGCCACAAACTTTTCTCTTTGCATAAGCACACATCCTAACCCA
Found at i:88116453 original size:135 final size:135
Alignment explanation
Indices: 88116211--88116486 Score: 507
Period size: 135 Copynumber: 2.0 Consensus size: 135
88116201 GTTTATTAGT
*
88116211 TAAAGTCTCCCCTATTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCC
1 TAAAGCCTCCCCTATTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCC
88116276 CTGTACAGGGCTTCAATACTTATGCCATTTGTTTCTAATGAAACTAGACTCAAAAAGGAATCTGT
66 CTGTACAGGGCTTCAATACTTATGCCATTTGTTTCTAATGAAACTAGACTCAAAAAGGAATCTGT
88116341 ACATA
131 ACATA
* *
88116346 TAAAGCCTCCCCTGTTTCAGGGTTTGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCC
1 TAAAGCCTCCCCTATTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCC
* *
88116411 CTGTACAGGGCTTCAATACTTATGCCATTTGTTTCTAATGAAACTGGACTCAAAAAGGAATCTTT
66 CTGTACAGGGCTTCAATACTTATGCCATTTGTTTCTAATGAAACTAGACTCAAAAAGGAATCTGT
88116476 ACATA
131 ACATA
88116481 TAAAGC
1 TAAAGC
88116487 ATGACTTCTA
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (135 bp):
TAAAGCCTCCCCTATTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCC
CTGTACAGGGCTTCAATACTTATGCCATTTGTTTCTAATGAAACTAGACTCAAAAAGGAATCTGT
ACATA
Found at i:88117638 original size:40 final size:40
Alignment explanation
Indices: 88117584--88117741 Score: 262
Period size: 40 Copynumber: 4.0 Consensus size: 40
88117574 CGGATGTAAC
* *
88117584 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
88117624 AACCCGCACGAATGCCTTCGGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
88117664 AACCCGCATGAATGCCTTCGGGACTTAACCCGATTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
88117704 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
88117742 TTTTTTTCCA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:88124961 original size:26 final size:26
Alignment explanation
Indices: 88124926--88124989 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
88124916 TTCCGACCCA
*
88124926 CAGCTCGTGTGCGCAGACCCATTTCG
1 CAGCTCGTGTGAGCAGACCCATTTCG
* * * *
88124952 CAGCTTGTGTGAGCATACCTATTTCA
1 CAGCTCGTGTGAGCAGACCCATTTCG
*
88124978 CAACTCGTGTGA
1 CAGCTCGTGTGA
88124990 ACAACTATGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.28
Consensus pattern (26 bp):
CAGCTCGTGTGAGCAGACCCATTTCG
Found at i:88133142 original size:31 final size:31
Alignment explanation
Indices: 88133107--88133169 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
88133097 TAAATACTTG
*
88133107 AGTCCAAATTTAATATTTTTAAAATAAATTT
1 AGTCCAAATCTAATATTTTTAAAATAAATTT
*
88133138 AGTCCAAATCTAATATTTTTAAAATAAGTTT
1 AGTCCAAATCTAATATTTTTAAAATAAATTT
88133169 A
1 A
88133170 ACTTGATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (31 bp):
AGTCCAAATCTAATATTTTTAAAATAAATTT
Found at i:88133184 original size:30 final size:31
Alignment explanation
Indices: 88133110--88133188 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
88133100 ATACTTGAGT
*
88133110 CCAAATTTAATATTTTTAAAATAAATTTAGT
1 CCAAATTTAATATTTTTAAAATAAATTTAGA
* *
88133141 CCAAATCTAATATTTTTAAAATAAGTTTA-A
1 CCAAATTTAATATTTTTAAAATAAATTTAGA
***
88133171 CTTGATTTAATATTTTTA
1 CCAAATTTAATATTTTTA
88133189 CTCATTCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 14 0.34
31 27 0.66
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (31 bp):
CCAAATTTAATATTTTTAAAATAAATTTAGA
Found at i:88143262 original size:40 final size:39
Alignment explanation
Indices: 88143218--88143308 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 39
88143208 GTAGTCAGGG
* * * *
88143218 GCACCAAAGTGCGAATAGGGGCATAGACGTGCAAATAGGA
1 GCACCGAAGTGCGAACAGGAGCACAGACGTGCAAATA-GA
* *
88143258 GCACCGAAGCGCGAACAGGATCACAGACGTGCAAATAGA
1 GCACCGAAGTGCGAACAGGAGCACAGACGTGCAAATAGA
88143297 GACACCGAAGTG
1 G-CACCGAAGTG
88143309 TATATAGGGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.37, C:0.22, G:0.31, T:0.10
Consensus pattern (39 bp):
GCACCGAAGTGCGAACAGGAGCACAGACGTGCAAATAGA
Found at i:88143385 original size:20 final size:20
Alignment explanation
Indices: 88143360--88143402 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
88143350 CAAATAGAGA
88143360 CACCAAAGTGT-ATACAAGGG
1 CACCAAAGTGTGA-ACAAGGG
88143380 CACCAAAGTGTGAACAAGGG
1 CACCAAAGTGTGAACAAGGG
88143400 CAC
1 CAC
88143403 AATTGTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (20 bp):
CACCAAAGTGTGAACAAGGG
Found at i:88143946 original size:30 final size:31
Alignment explanation
Indices: 88143912--88143971 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
88143902 ACCTTTTCAG
88143912 TTTCCTCCCAA-AACTTTTACTC-CCTCCCAC
1 TTTCC-CCCAATAACTTTTACTCTCCTCCCAC
*
88143942 TTTCCCCCAATAACTTTTGCTCTCCTCCCA
1 TTTCCCCCAATAACTTTTACTCTCCTCCCA
88143972 TCCCACCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 15 0.56
31 7 0.26
ACGTcount: A:0.18, C:0.45, G:0.02, T:0.35
Consensus pattern (31 bp):
TTTCCCCCAATAACTTTTACTCTCCTCCCAC
Found at i:88145868 original size:2 final size:2
Alignment explanation
Indices: 88145861--88145896 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
88145851 CCAAACATTC
88145861 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
88145897 TATATCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:88147937 original size:56 final size:56
Alignment explanation
Indices: 88147877--88148086 Score: 339
Period size: 56 Copynumber: 3.8 Consensus size: 56
88147867 TCCTTAACAG
* *
88147877 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAATGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
* *
88147933 GGTCTTACTTGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
**
88147989 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCTGACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
* * *
88148045 GGTCTTTCTCGCACACATATATCAGAATCACATGTCGATGCC
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCC
88148087 TCATATACAT
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 142 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
Found at i:88155610 original size:18 final size:19
Alignment explanation
Indices: 88155587--88155636 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
88155577 ATGTCGTTCG
88155587 TTTTCAAAACATTAATC-A
1 TTTTCAAAACATTAATCAA
** * *
88155605 TTTTCAATTCAATATTCAA
1 TTTTCAAAACATTAATCAA
88155624 TTTTCAAAACATT
1 TTTTCAAAACATT
88155637 TTTCATTACA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTCAAAACATTAATCAA
Found at i:88157296 original size:24 final size:26
Alignment explanation
Indices: 88157243--88157297 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
88157233 GAACACCAGA
* *
88157243 AAGACGAAGAAAGAAAGAAAAGGAAG
1 AAGACGAAGAAAAAAAGAAAAGAAAG
*
88157269 -AGACG-AGAAAAAAAG-AGAGAAAG
1 AAGACGAAGAAAAAAAGAAAAGAAAG
88157292 AAGACG
1 AAGACG
88157298 TAAGGGAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (26 bp):
AAGACGAAGAAAAAAAGAAAAGAAAG
Found at i:88158250 original size:12 final size:12
Alignment explanation
Indices: 88158227--88158261 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
88158217 TTGAGGCAGT
*
88158227 TATAAATAGTGC
1 TATAAGTAGTGC
*
88158239 TATGAGTAGTGC
1 TATAAGTAGTGC
88158251 TATAAGTAGTG
1 TATAAGTAGTG
88158262 TCCATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (12 bp):
TATAAGTAGTGC
Found at i:88159255 original size:24 final size:24
Alignment explanation
Indices: 88159209--88159258 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
88159199 GTTTTTTTTG
88159209 TAATTTTATTAAATTTGAAATATT
1 TAATTTTATTAAATTTGAAATATT
* *
88159233 TAATTTT-TTAAAGTTTTATATATT
1 TAATTTTATTAAA-TTTGAAATATT
88159257 TA
1 TA
88159259 CCTGAACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TAATTTTATTAAATTTGAAATATT
Found at i:88162989 original size:35 final size:35
Alignment explanation
Indices: 88162941--88163013 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
88162931 CATCTATGTA
*
88162941 TGTATCTGAGATGGGCTTAGGCCCGAATCTGCATC
1 TGTATCTGAGATGGGCTTAGGCCCGAATATGCATC
* *
88162976 TGTATCTGTGATGGGCTTAGGCCCGAATATGTATC
1 TGTATCTGAGATGGGCTTAGGCCCGAATATGCATC
88163011 TGT
1 TGT
88163014 CTGATTATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (35 bp):
TGTATCTGAGATGGGCTTAGGCCCGAATATGCATC
Found at i:88164623 original size:44 final size:44
Alignment explanation
Indices: 88164560--88164649 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
88164550 AGTCAAGTTT
88164560 TATATTTAGTTTTATCTCATTATGTTAAGTACTTGGTGTATAAG
1 TATATTTAGTTTTATCTCATTATGTTAAGTACTTGGTGTATAAG
88164604 TATATTTAGTTTTATCTCATTATGTTAAGTACTTGGTGTATAAG
1 TATATTTAGTTTTATCTCATTATGTTAAGTACTTGGTGTATAAG
88164648 TA
1 TA
88164650 ACTGAAGCCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.50
Consensus pattern (44 bp):
TATATTTAGTTTTATCTCATTATGTTAAGTACTTGGTGTATAAG
Found at i:88169690 original size:14 final size:16
Alignment explanation
Indices: 88169665--88169699 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
88169655 ATTAAACTAG
88169665 TTTAATTAACTTAA-C
1 TTTAATTAACTTAAGC
88169680 TTTAATT-ACTTAAGC
1 TTTAATTAACTTAAGC
88169695 TTTAA
1 TTTAA
88169700 CTACCAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (16 bp):
TTTAATTAACTTAAGC
Found at i:88177531 original size:24 final size:24
Alignment explanation
Indices: 88177504--88177551 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
88177494 AATATTATGT
*
88177504 TTATATTTATATTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
*
88177528 TTATATTAATATTAAGTAAAATAA
1 TTATATTAATATTAAATAAAATAA
88177552 AAATTCCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:88180773 original size:48 final size:48
Alignment explanation
Indices: 88180709--88180903 Score: 164
Period size: 48 Copynumber: 4.1 Consensus size: 48
88180699 ATACTCAGGA
* * * *
88180709 ATCTCACACACTAAGTGCCAACATCATGGCCCGAAGCCAACTCAATAT
1 ATCTCGCACACAAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAT
* * * *
88180757 ATCTCGCACACAAAGTGCTAATATCATGGCCTGTAGCCAAATCAGTGA-
1 ATCTCGCACACAAAGTGCCAATATCATGGCCCGAAGCCAAATCAAT-AT
* * * * * *
88180805 AGCTCGCACCCGAAGTGTCGATATCATGGCCCAAAGCCAAATCAA-AGT
1 ATCTCGCACACAAAGTGCCAATATCATGGCCCGAAGCCAAATCAATA-T
* * * *
88180853 AACTCGCAC-CTGAAA-TGCCGATATCATGGCCTGAAGCCAAATCAATGT
1 ATCTCGCACAC--AAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAT
88180901 ATC
1 ATC
88180904 ACCTAATGAC
Statistics
Matches: 116, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 111 0.96
49 3 0.03
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (48 bp):
ATCTCGCACACAAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAT
Found at i:88191437 original size:60 final size:60
Alignment explanation
Indices: 88191337--88191475 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
88191327 AACTGTGTTA
* * *
88191337 ATATGGGCAAGGCCCAATATATCTCGACTTGTAACAGGGCTACGGCCCAGATTGATATTC
1 ATATGGGCTAGGCCCAATATATCTCGAATTGTAACAGGGCTACGGCCCAGATTAATATTC
* * * * *
88191397 ATATGGGCTAGGCCCAGTATA-CTCTGATATTGTAA-GGGGCTATGGCCTAGATTAATATTG
1 ATATGGGCTAGGCCCAATATATCTC-GA-ATTGTAACAGGGCTACGGCCCAGATTAATATTC
88191457 ATATGGGCTAAGGCCCAAT
1 ATATGGGCT-AGGCCCAAT
88191476 TAACTCTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.04
60 50 0.75
61 14 0.21
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGAATTGTAACAGGGCTACGGCCCAGATTAATATTC
Found at i:88193458 original size:19 final size:20
Alignment explanation
Indices: 88193422--88193461 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
88193412 AGGGAATTTT
88193422 TATTTTATTTAATATTAATA
1 TATTTTATTTAATATTAATA
88193442 TATTTATATTT-AT-TTAATA
1 TATTT-TATTTAATATTAATA
88193461 T
1 T
88193462 TAACATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATTTAATATTAATA
Found at i:88193617 original size:51 final size:51
Alignment explanation
Indices: 88193541--88193644 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
88193531 TATTTCTTTG
* * * * *
88193541 AATTTTTTAGAATTAAGATTAAATTGAGATGATTTGTAAATGTTGAAAGTT
1 AATTTTTTAAAATTAAGACTAAATTGAGATAATATGTAAAAGTTGAAAGTT
* * *
88193592 AATTTTTTAAAATTATGACTAAATTGATATAATATGTAAAAGTTGAATGTT
1 AATTTTTTAAAATTAAGACTAAATTGAGATAATATGTAAAAGTTGAAAGTT
88193643 AA
1 AA
88193645 ATTTGTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.42
Consensus pattern (51 bp):
AATTTTTTAAAATTAAGACTAAATTGAGATAATATGTAAAAGTTGAAAGTT
Found at i:88195640 original size:18 final size:18
Alignment explanation
Indices: 88195617--88195656 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
88195607 TATTTAAACA
*
88195617 AACAAAAGATCGAAACCC
1 AACAAAAGATCAAAACCC
88195635 AACAAAAGATCAAAACCC
1 AACAAAAGATCAAAACCC
88195653 AACA
1 AACA
88195657 CATTAGGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.28, G:0.07, T:0.05
Consensus pattern (18 bp):
AACAAAAGATCAAAACCC
Found at i:88196752 original size:14 final size:15
Alignment explanation
Indices: 88196730--88196759 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
88196720 TAATACGATG
88196730 ATAGCAATAATAATA
1 ATAGCAATAATAATA
88196745 ATAG-AATAATAATA
1 ATAGCAATAATAATA
88196759 A
1 A
88196760 AGTAGAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (15 bp):
ATAGCAATAATAATA
Found at i:88196845 original size:3 final size:3
Alignment explanation
Indices: 88196826--88196894 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
88196816 AATGATGGAA
* * *
88196826 AAT AAT GAT AA- AAT AAT AAT AAT AA- ACT AAGG AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* *
88196870 ACT AAC AAT AAT -AT AAAT AAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT AAT A
88196895 CAAACCATTA
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
2 5 0.10
3 42 0.82
4 4 0.08
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:88196863 original size:18 final size:17
Alignment explanation
Indices: 88196840--88196886 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
88196830 ATGATAAAAT
*
88196840 AATAATAATAAACTAAGG
1 AATAATAATAAACTAA-C
88196858 AATAATAATAATACTAAC
1 AATAATAATAA-ACTAAC
88196876 AATAAT-ATAAA
1 AATAATAATAAA
88196887 TAATAATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 1 0.04
17 4 0.15
18 17 0.63
19 5 0.19
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (17 bp):
AATAATAATAAACTAAC
Found at i:88196911 original size:24 final size:24
Alignment explanation
Indices: 88196861--88196912 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
88196851 ACTAAGGAAT
* * *
88196861 AATAATAATACTAACAATAATATA
1 AATAATAATACAAACAATAAGAGA
* *
88196885 AATAATAATACAAACCATTAGAGA
1 AATAATAATACAAACAATAAGAGA
88196909 AATA
1 AATA
88196913 GCAATAACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.25
Consensus pattern (24 bp):
AATAATAATACAAACAATAAGAGA
Found at i:88197929 original size:12 final size:12
Alignment explanation
Indices: 88197912--88197943 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
88197902 TACTGTTTTG
88197912 CTTTGCTTTCTT
1 CTTTGCTTTCTT
88197924 CTTTGCTTTCTT
1 CTTTGCTTTCTT
88197936 CTTTGCTT
1 CTTTGCTT
88197944 CTGTTTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.25, G:0.09, T:0.66
Consensus pattern (12 bp):
CTTTGCTTTCTT
Found at i:88198350 original size:3 final size:3
Alignment explanation
Indices: 88198342--88198374 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
88198332 TTTGAATTTC
*
88198342 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
88198375 GTTGTTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:88198850 original size:23 final size:23
Alignment explanation
Indices: 88198816--88198869 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
88198806 ATTTTAAAAA
88198816 TAAAAC-TTATTTAAGTACAAAT
1 TAAAACATTATTTAAGTACAAAT
**
88198838 TAAAACATTATTTTGGTACAAAT
1 TAAAACATTATTTAAGTACAAAT
88198861 TAAAA-ATTA
1 TAAAACATTA
88198870 AGCATCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (23 bp):
TAAAACATTATTTAAGTACAAAT
Found at i:88204516 original size:15 final size:15
Alignment explanation
Indices: 88204496--88204525 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88204486 CTCTCGACAC
88204496 CATTACCCGGGAATT
1 CATTACCCGGGAATT
*
88204511 CATTACCTGGGAATT
1 CATTACCCGGGAATT
88204526 GAGTCTACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (15 bp):
CATTACCCGGGAATT
Found at i:88216871 original size:21 final size:21
Alignment explanation
Indices: 88216847--88216897 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
88216837 AACTGAGGTG
88216847 AATCCAAAGCCTAAAAGCAAC
1 AATCCAAAGCCTAAAAGCAAC
88216868 AATCCAAAGCCTAAAAGCAAC
1 AATCCAAAGCCTAAAAGCAAC
88216889 AATCCAAAG
1 AATCCAAAG
88216898 GCCAATTACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.53, C:0.27, G:0.10, T:0.10
Consensus pattern (21 bp):
AATCCAAAGCCTAAAAGCAAC
Found at i:88217648 original size:20 final size:21
Alignment explanation
Indices: 88217603--88217648 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
88217593 AACCCCTGAT
88217603 CTTAAACACATAAATAGAGCA
1 CTTAAACACATAAATAGAGCA
* *
88217624 CTTAACCACATATATAGAG-A
1 CTTAAACACATAAATAGAGCA
88217644 CTTAA
1 CTTAA
88217649 TTATTAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.24
Consensus pattern (21 bp):
CTTAAACACATAAATAGAGCA
Found at i:88219513 original size:20 final size:20
Alignment explanation
Indices: 88219490--88219530 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
88219480 TAATAATGAG
88219490 AATACCAATTTTATAATAAT
1 AATACCAATTTTATAATAAT
*
88219510 AATATCAATTTTATAATAAT
1 AATACCAATTTTATAATAAT
88219530 A
1 A
88219531 TCGATAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AATACCAATTTTATAATAAT
Found at i:88223746 original size:46 final size:44
Alignment explanation
Indices: 88223657--88223873 Score: 152
Period size: 46 Copynumber: 4.7 Consensus size: 44
88223647 GCATATCTAT
* *
88223657 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTCG-AG
* *
88223703 GCCGATGCATATCCCAGACATGTCTTACACTAACTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAAC--ACATCTCGAG
* * * * *
88223749 GCCGATGCATGTCCCAGACATGTCTTACGCTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTA--ACACATCTCGAG
* * ** * * *
88223795 GTCGATACCATGT-CCAGACATGGTCTTACACTGGCTC-TCACAATGTG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAACACATCTC---GAG
*
88223842 GCTGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
88223874 GCTCACAATA
Statistics
Matches: 138, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 15 0.11
45 16 0.12
46 79 0.57
47 26 0.19
48 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACACATCTCGAG
Found at i:88226664 original size:18 final size:18
Alignment explanation
Indices: 88226641--88226682 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
88226631 TTCTCGAGTG
*
88226641 ATAGTCAATTATCAGCTC
1 ATAGTCAATTATCAACTC
**
88226659 ATAGTCTTTTATCAACTC
1 ATAGTCAATTATCAACTC
88226677 -TAGTCA
1 ATAGTCA
88226683 CCTTCGTTGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (18 bp):
ATAGTCAATTATCAACTC
Found at i:88236915 original size:130 final size:132
Alignment explanation
Indices: 88236435--88236918 Score: 389
Period size: 130 Copynumber: 3.7 Consensus size: 132
88236425 AGGAAATACG
** * * * * * * * *
88236435 AGTGAAATTCCGAAGGAATCTTCGATTGTTTTGAA-CAAATGAAAAAGTGCAACCCAGCACGATA
1 AGTGAAATTTTGAAGGGATATTCGATTATTTT-AAGCAAACGAGAAATTGCAACCCAACACGTTA
* * * * * **
88236499 GGGCTCGATT-CTCAAATCGCCAAACATCGAACATGGCCTTCGTTTTGAAAGG-TTTTTAATAA-
65 GGGCACGATTCCACAAATTGCCAAATATCGCACATCACCTTCGTTTT-AAAGGATTTTTAA-AAG
88236561 ACATGA
128 ACAT-A
*** * * * * ** * *
88236567 A-TGAAAACCTAAAGGAATATTCAATTCTTTTGAA-CAAACGAGAAATCACAACCCAGCACGATA
1 AGTGAAATTTTGAAGGGATATTCGATTATTTT-AAGCAAACGAGAAATTGCAACCCAACACGTTA
* * *** * * * *
88236630 GGGCATGATTCC-CGAATTATTAAACA-C-CAGTATTACCTTCGTTTTAAAGGATTTTTAGAAGA
65 GGGCACGATTCCACAAATTGCCAAATATCGCA-CATCACCTTCGTTTTAAAGGATTTTTAAAAGA
* *
88236692 CCTG
129 CATA
* *
88236696 AGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAATCGAGAAATTGCAACCCAACACGTTAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAG
*
88236761 GGCACGATTCCACAAATTGCCAAATATCGCACATCACCTTCG-TTTAAGGGA-TTTTAAAAGACA
66 GGCACGATTCCACAAATTGCCAAATATCGCACATCACCTTCGTTTTAAAGGATTTTTAAAAGACA
88236824 TA
131 TA
* * * *
88236826 AGTGAAATTTTGAAGTGATATTCGATTATTTTGAGCAAAC-ACGAAATTGCAACCTAGCACGTTA
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGA-GAAATTGCAACCCAACACGTTA
* *
88236890 GGGCACGATTCCTCGAATTGCCAAATATC
65 GGGCACGATTCCACAAATTGCCAAATATC
88236919 AAATCTGGCC
Statistics
Matches: 283, Mismatches: 59, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
129 12 0.04
130 173 0.61
131 84 0.30
132 12 0.04
133 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (132 bp):
AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAG
GGCACGATTCCACAAATTGCCAAATATCGCACATCACCTTCGTTTTAAAGGATTTTTAAAAGACA
TA
Found at i:88237840 original size:21 final size:20
Alignment explanation
Indices: 88237810--88237849 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
88237800 GATTTAAAAG
*
88237810 ATATATTATAAGAATTATGTA
1 ATATAATATAAGAA-TATGTA
88237831 ATATAATATAAGAATATGT
1 ATATAATATAAGAATATGT
88237850 TTAAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
ATATAATATAAGAATATGTA
Found at i:88239077 original size:26 final size:26
Alignment explanation
Indices: 88239048--88239099 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
88239038 GAGATCGAAG
88239048 GGATTCAGGTGAGCGATTTTTTCTTT
1 GGATTCAGGTGAGCGATTTTTTCTTT
*
88239074 GGATTCAGGTGAGCGGTTTTTTCTTT
1 GGATTCAGGTGAGCGATTTTTTCTTT
88239100 CTTTTTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.12, G:0.29, T:0.46
Consensus pattern (26 bp):
GGATTCAGGTGAGCGATTTTTTCTTT
Found at i:88241222 original size:3 final size:3
Alignment explanation
Indices: 88241214--88241258 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
88241204 AAAGTACATA
88241214 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA- AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
88241258 A
1 A
88241259 GTGAGAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:88241281 original size:11 final size:11
Alignment explanation
Indices: 88241265--88241290 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
88241255 AATAGTGAGA
88241265 AAAATGAAAAT
1 AAAATGAAAAT
88241276 AAAATGAAAAT
1 AAAATGAAAAT
88241287 AAAA
1 AAAA
88241291 AAGAAGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
AAAATGAAAAT
Found at i:88243998 original size:27 final size:25
Alignment explanation
Indices: 88243952--88244001 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
88243942 TTTCTTGATT
*
88243952 TTTATATTTTTTTGTCAATTTGGTC
1 TTTATATTTTTTTGTAAATTTGGTC
*
88243977 TTTATTTTTTTTTAGTTAAATTTGG
1 TTTATATTTTTTT-G-TAAATTTGG
88244002 CACTCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 1 0.05
27 8 0.38
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.66
Consensus pattern (25 bp):
TTTATATTTTTTTGTAAATTTGGTC
Found at i:88244173 original size:18 final size:19
Alignment explanation
Indices: 88244150--88244185 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
88244140 TTTTTGTATG
88244150 AAATTTT-ATAATTTTTTT
1 AAATTTTGATAATTTTTTT
88244168 AAATTTTGATAATTTTTT
1 AAATTTTGATAATTTTTT
88244186 ATAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
AAATTTTGATAATTTTTTT
Found at i:88245042 original size:20 final size:20
Alignment explanation
Indices: 88244994--88245042 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
88244984 TAAAGCTACA
*
88244994 AATAATAAAAAATATGTTTT
1 AATAAAAAAAAATATGTTTT
88245014 AA-AAGAAAAAAATTAT-TTTT
1 AATAA-AAAAAAA-TATGTTTT
88245034 AATAAAAAA
1 AATAAAAAA
88245043 TAGAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.08
20 18 0.72
21 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AATAAAAAAAAATATGTTTT
Found at i:88246418 original size:32 final size:31
Alignment explanation
Indices: 88246382--88246441 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
88246372 TACAGCCTAA
88246382 TGACTTAAATAAAAAAATTTTGAATAGTTGAG
1 TGACTTAAAT-AAAAAATTTTGAATAGTTGAG
* **
88246414 TGACTTAAATGAAACCTTTTGAATAGTT
1 TGACTTAAATAAAAAATTTTGAATAGTT
88246442 CAATGACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAAATTTTGAATAGTTGAG
Found at i:88251339 original size:28 final size:28
Alignment explanation
Indices: 88251273--88251339 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
88251263 TATAGCATGT
* *
88251273 TTGT-TTTTATTTTAAAAATAGGAATTTT
1 TTGTATTTT-TTTTAAAAATAGGAAATTA
*
88251301 TTGTATTTTTTTTAAACATAGGAAATTA
1 TTGTATTTTTTTTAAAAATAGGAAATTA
*
88251329 TT-TATTATTTT
1 TTGTATTTTTTT
88251340 ATTAGTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.24
28 22 0.65
29 4 0.12
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (28 bp):
TTGTATTTTTTTTAAAAATAGGAAATTA
Found at i:88253648 original size:44 final size:41
Alignment explanation
Indices: 88253600--88253708 Score: 98
Period size: 44 Copynumber: 2.6 Consensus size: 41
88253590 AGTATTATAT
88253600 ATTATGATTTTAGTAAATTCATATAAGAATAAGAATT-TTATTAA
1 ATTAT-ATTTTAGTAAATT-ATAT-AGAATAAGAATTATT-TTAA
* ** *
88253644 ATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAA
1 A-T-TATATT-TTAGTAAATTATATAGAATAAGAATTATTTTAA
88253688 ATTATATTTTAGT--ATTATATA
1 ATTATATTTTAGTAAATTATATA
88253709 TTATGATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.13
41 4 0.07
42 6 0.11
43 1 0.02
44 15 0.27
45 10 0.18
46 12 0.22
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (41 bp):
ATTATATTTTAGTAAATTATATAGAATAAGAATTATTTTAA
Found at i:88253687 original size:26 final size:28
Alignment explanation
Indices: 88253633--88253930 Score: 107
Period size: 27 Copynumber: 10.4 Consensus size: 28
88253623 TAAGAATAAG
* * *
88253633 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
88253661 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* * *
88253687 AATTATATTTTAGTATTATATATTATGATTT
1 AATTATA-TTTA--ATAATATATTATTATTA
* * *
88253718 TATTAGTAAATTCATATAAGA-A-TATTTATTAA
1 AATTA-T--ATTTA-ATAATATATTA-TTATT-A
* * *
88253750 CAATTTTATTAAATTATATATT-TTATTA
1 -AATTATATTTAATAATATATTATTATTA
* * *
88253778 AATTATATTTTATAACA-ATTA-TGTTA
1 AATTATATTTAATAATATATTATTATTA
* * * *
88253804 AATTATATTTTAGTGTTATATATTATGATTT
1 AATTATA-TTTA--ATAATATATTATTATTA
* * *
88253835 TATTAGTAAATTCATATAAGA-A-TATTTATTAA
1 AATTA-T--ATTTA-ATAATATATTA-TTATT-A
* * *
88253867 CAATTTTATTAAATTATATATT-TTATTA
1 -AATTATATTTAATAATATATTATTATTA
88253895 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
88253921 AATTATATTT
1 AATTATATTT
88253931 TAGTATCATA
Statistics
Matches: 197, Mismatches: 45, Indels: 58
0.66 0.15 0.19
Matches are distributed among these distances:
26 40 0.20
27 41 0.21
28 16 0.08
29 26 0.13
30 23 0.12
31 24 0.12
32 13 0.07
33 12 0.06
34 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:88253790 original size:15 final size:17
Alignment explanation
Indices: 88253752--88253785 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88253742 TTTATTAACA
88253752 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
88253769 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
88253786 TTTATAACAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:88253799 original size:16 final size:15
Alignment explanation
Indices: 88253752--88253799 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
88253742 TTTATTAACA
*
88253752 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
88253769 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
88253784 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
88253800 GTTAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:88253805 original size:117 final size:117
Alignment explanation
Indices: 88253550--88254039 Score: 786
Period size: 117 Copynumber: 4.3 Consensus size: 117
88253540 AAGTAGATTA
88253550 TAAATTATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATTATATATTATGA--TT-TT
1 TAAATTATATTTAATAATAATTATGTTAAATTATA-TTT-TAGTATTATATATTATGATTTTATT
*
88253611 AGTAAATTCATATAAG---A---A-TAAGAATTTTATTAAATTATATATTATTAT
64 AGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT-TTAT
*
88253659 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
88253724 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* * *
88253776 TAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTGTTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
88253841 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* *
88253893 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATCATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
*
88253958 TAAATTCATATAAGAATATTTATTAAAAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* *
88254010 TAAATTATATTTTATAACAATTATGTTAAA
1 TAAATTATATTTAATAATAATTATGTTAAA
88254040 ATATGATTAA
Statistics
Matches: 356, Mismatches: 14, Indels: 14
0.93 0.04 0.04
Matches are distributed among these distances:
108 18 0.05
109 27 0.08
110 12 0.03
111 18 0.05
114 1 0.00
117 256 0.72
118 24 0.07
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (117 bp):
TAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
Found at i:88253889 original size:17 final size:17
Alignment explanation
Indices: 88253869--88253902 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88253859 TTTATTAACA
88253869 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
88253886 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
88253903 TTAATAATAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:88254006 original size:17 final size:17
Alignment explanation
Indices: 88253986--88254019 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88253976 TTTATTAAAA
88253986 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
88254003 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
88254020 TTTATAACAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:88254033 original size:16 final size:15
Alignment explanation
Indices: 88253986--88254033 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
88253976 TTTATTAAAA
*
88253986 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
88254003 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
88254018 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
88254034 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:88254211 original size:39 final size:41
Alignment explanation
Indices: 88254167--88254271 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 41
88254157 TTGCTTATGT
* * *
88254167 TATTACACCTCTATTCCATTCAACCAAATACAAGAA-TACC
1 TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
88254207 -ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTACC
1 TATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTACC
88254252 TATTACGCCTCTATTCCATT
1 TATTACGCCTCTATTCCATT
88254272 ACGCCTCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
39 13 0.24
40 1 0.02
41 4 0.07
44 18 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (41 bp):
TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
Found at i:88254246 original size:44 final size:46
Alignment explanation
Indices: 88254183--88254273 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
88254173 ACCTCTATTC
* *
88254183 CATTCAACCAAATACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
88254227 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
88254273 C
1 C
88254274 GCCTCTATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.42
45 4 0.09
46 21 0.49
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.27
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:88254274 original size:16 final size:16
Alignment explanation
Indices: 88254253--88254289 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
88254243 AGAATTACCT
88254253 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
88254269 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
88254285 ATTAC
1 ATTAC
88254290 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:88271057 original size:47 final size:47
Alignment explanation
Indices: 88270974--88271151 Score: 216
Period size: 47 Copynumber: 3.8 Consensus size: 47
88270964 CAGCCCAGCC
* *
88270974 ATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGAT
1 ATGGTCTTACACAGAAACACATATCACACTGATGCCATATCCCAGAT
*
88271020 ATGGTCTTACACAGAAACACATATCACACTGACGCCATATCCCAGAT
1 ATGGTCTTACACAGAAACACATATCACACTGATGCCATATCCCAGAT
* * * * * * *
88271067 ATGGTCTTATACAGAAGCTCATATTACACCGATGCCATAACCCAGCT
1 ATGGTCTTACACAGAAACACATATCACACTGATGCCATATCCCAGAT
* * *
88271114 ATGGTCTTATACGGAAATCACATATCACA-TGTTGCCAT
1 ATGGTCTTACACAGAAA-CACATATCACACTGATGCCAT
88271152 GGTCCAACCA
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
46 12 0.11
47 92 0.81
48 9 0.08
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (47 bp):
ATGGTCTTACACAGAAACACATATCACACTGATGCCATATCCCAGAT
Found at i:88283548 original size:49 final size:49
Alignment explanation
Indices: 88283495--88283669 Score: 260
Period size: 49 Copynumber: 3.5 Consensus size: 49
88283485 CTGGTACGCA
*
88283495 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * * *
88283544 TAGTAACCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
88283595 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
88283644 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
88283670 CGTGACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 65 0.60
50 6 0.06
51 38 0.35
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:88283605 original size:51 final size:49
Alignment explanation
Indices: 88283482--88283676 Score: 255
Period size: 49 Copynumber: 3.9 Consensus size: 49
88283472 TAGCCAAAGC
* * *
88283482 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
** * * *
88283531 TATCCGGTACATGTAGTAACCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
88283582 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
88283631 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
88283677 TCACAATAGA
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 79 0.64
50 6 0.05
51 38 0.31
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:88283623 original size:100 final size:100
Alignment explanation
Indices: 88283482--88283674 Score: 359
Period size: 100 Copynumber: 1.9 Consensus size: 100
88283472 TAGCCAAAGC
* *
88283482 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
88283547 TAACCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAACCTGCACTTAGTACTACACACGTGATCGAAGT
88283582 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
*
88283647 TAGCCTGCACTTAGTACTACACACGTGA
66 TAACCTGCACTTAGTACTACACACGTGA
88283675 CCTCACAATA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
TAACCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:88283839 original size:5 final size:5
Alignment explanation
Indices: 88283824--88283858 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
88283814 ATTTCATATG
* *
88283824 AAAAC AAAAT ATAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
88283859 CGATAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:88284876 original size:19 final size:18
Alignment explanation
Indices: 88284854--88284913 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 18
88284844 ATAAAAATAA
88284854 TAAATTTTAGAAAATTTAT
1 TAAATTTTA-AAAATTTAT
88284873 TAAATTTTAATAAAAATTTA-
1 TAAA-TTT--TAAAAATTTAT
*
88284893 -AAAATTTAAAAATTTAT
1 TAAATTTTAAAAATTTAT
88284910 TAAA
1 TAAA
88284914 ATATTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
16 10 0.29
18 5 0.14
19 7 0.20
20 3 0.09
21 8 0.23
22 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TAAATTTTAAAAATTTAT
Found at i:88284896 original size:8 final size:8
Alignment explanation
Indices: 88284883--88284908 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
88284873 TAAATTTTAA
88284883 TAAAAATT
1 TAAAAATT
88284891 TAAAAATT
1 TAAAAATT
88284899 TAAAAATT
1 TAAAAATT
88284907 TA
1 TA
88284909 TTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAAAATT
Found at i:88284914 original size:19 final size:19
Alignment explanation
Indices: 88284859--88284919 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
88284849 AATAATAAAT
*
88284859 TTTAGAAAATTTATT-AAAT
1 TTTA-AAAATTTATTAAAAA
**
88284878 TTTAATAAAAAT-TTAAAAA
1 TTTAA-AAATTTATTAAAAA
88284897 TTTAAAAATTTATTAAAATA
1 TTTAAAAATTTATTAAAA-A
88284917 TTT
1 TTT
88284920 TTTATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 7 0.21
19 22 0.67
20 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TTTAAAAATTTATTAAAAA
Found at i:88285225 original size:19 final size:18
Alignment explanation
Indices: 88285203--88285272 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
88285193 ATTCTATATA
88285203 TTTTATAATTTTTTACGAT
1 TTTTAT-ATTTTTTACGAT
*** *
88285222 TTTTATAAAAATTTACCAT
1 TTTTAT-ATTTTTTACGAT
88285241 TTTTATATTTTTTACGAT
1 TTTTATATTTTTTACGAT
88285259 TTTTATATTTTTTA
1 TTTTATATTTTTTA
88285273 ATTAAAACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 22 0.51
19 21 0.49
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTATATTTTTTACGAT
Found at i:88286905 original size:27 final size:30
Alignment explanation
Indices: 88286838--88286900 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
88286828 AAATTATAAA
*
88286838 TTTTT-AAGAGGTTAAAATATAATATTTTT
1 TTTTTGAAAAGGTTAAAATATAATATTTTT
88286867 TTTTTGAAAAGGTT-AAATA-AAT-TTTTT
1 TTTTTGAAAAGGTTAAAATATAATATTTTT
88286894 ATTTTTG
1 -TTTTTG
88286901 GAAGGATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 5 0.16
28 9 0.29
29 10 0.32
30 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (30 bp):
TTTTTGAAAAGGTTAAAATATAATATTTTT
Found at i:88287620 original size:19 final size:18
Alignment explanation
Indices: 88287596--88287631 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
88287586 AAAATTTTTG
88287596 CTAAAAAAAATGGAAAAAC
1 CTAAAAAAAA-GGAAAAAC
88287615 CTAAAAAAAAGGAAAAA
1 CTAAAAAAAAGGAAAAA
88287632 GAGAAACGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.72, C:0.08, G:0.11, T:0.08
Consensus pattern (18 bp):
CTAAAAAAAAGGAAAAAC
Found at i:88289251 original size:7 final size:7
Alignment explanation
Indices: 88289234--88289272 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
88289224 ATTGAACTGA
88289234 TTTTA-T
1 TTTTATT
88289240 TTTTATT
1 TTTTATT
88289247 TTTTATT
1 TTTTATT
*
88289254 TTTTACT
1 TTTTATT
88289261 TTTTACTT
1 TTTTA-TT
88289269 TTTT
1 TTTT
88289273 GAAGTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 19 0.66
8 5 0.17
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:88291629 original size:16 final size:16
Alignment explanation
Indices: 88291610--88291640 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88291600 ATTATTTTAA
88291610 ATTTTAATTAGATAAT
1 ATTTTAATTAGATAAT
*
88291626 ATTTTATTTAGATAA
1 ATTTTAATTAGATAA
88291641 ATGAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATTTTAATTAGATAAT
Found at i:88306420 original size:40 final size:40
Alignment explanation
Indices: 88306365--88306631 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
88306355 AACATTGGAT
88306365 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
88306405 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
88306445 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
88306485 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
88306525 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
88306565 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
88306605 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
88306632 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:88311418 original size:19 final size:20
Alignment explanation
Indices: 88311394--88311431 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88311384 TTTGTTATTA
88311394 TTTTTG-TGTTTGGGTTTTT
1 TTTTTGTTGTTTGGGTTTTT
*
88311413 TTTTTGTTTTTTGGGTTTT
1 TTTTTGTTGTTTGGGTTTT
88311432 CATGGGCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (20 bp):
TTTTTGTTGTTTGGGTTTTT
Found at i:88312734 original size:5 final size:5
Alignment explanation
Indices: 88312724--88312755 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
88312714 TGAAAACACT
88312724 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AA
88312756 GAGAGTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:88314061 original size:46 final size:46
Alignment explanation
Indices: 88313932--88314190 Score: 206
Period size: 46 Copynumber: 5.5 Consensus size: 46
88313922 AGGTCGACAC
* * * *
88313932 CATGTCCCA-ATCATGGTCTTACACTAGCTCTCGCATATCCATGCCGATG
1 CATGTCCCAGA-CAT-GTCTTACACTGGCTCT--CATCTCTAGGCCGATG
** * *
88313981 TCATGTCCCTTACATGGTCTTACACT-G-ACACATCTCGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTC-TAGGCCGATG
* *
88314027 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCTAGGCCGATG
* * * * * *
88314073 CATGTCCCAGACATGTCTTACACTAGCTCTCATTTCAATGTCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTAGGCCGATG
* *
88314119 TCATGTCACAGACATGGTCTTACACTGGCTCTCATAATCT-GGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCTAGGCCGATG
*
88314167 CATGTCCTAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
88314191 AGCACACAAA
Statistics
Matches: 172, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.06
45 14 0.08
46 71 0.41
47 27 0.16
48 24 0.14
49 3 0.02
50 22 0.13
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTAGGCCGATG
Found at i:88314168 original size:140 final size:140
Alignment explanation
Indices: 88313932--88314190 Score: 337
Period size: 140 Copynumber: 1.8 Consensus size: 140
88313922 AGGTCGACAC
* * * **
88313932 CATGTCCCAATCATGGTCTTACACTAGCTCTCGCATATCCATGCCGATGTCATGTCCCTTACATG
1 CATGTCCCAATCATGGTCTTACACTAGCTCTC-CATATCAATGCCAATGTCATGTCACAGACATG
*
88313997 GTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCT
65 GTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCT
88314062 CGAGGCCGATA
130 CGAGGCCGATA
* *
88314073 CATGTCCCAGA-CAT-GTCTTACACTAGCTCT-CATTTCAATGTCAATGTCATGTCACAGACATG
1 CATGTCCCA-ATCATGGTCTTACACTAGCTCTCCATATCAATGCCAATGTCATGTCACAGACATG
* * * *
88314135 GTCTTACACTGGCTCTCATAATC-TGGCCGATGCATGTCCTAGACATGTCTTACACT
65 GTCTTACACT-G-ACACAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
88314191 AGCACACAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 35 0.34
139 1 0.01
140 51 0.50
141 14 0.14
142 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (140 bp):
CATGTCCCAATCATGGTCTTACACTAGCTCTCCATATCAATGCCAATGTCATGTCACAGACATGG
TCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC
GAGGCCGATA
Found at i:88320566 original size:47 final size:47
Alignment explanation
Indices: 88320494--88320860 Score: 256
Period size: 47 Copynumber: 7.8 Consensus size: 47
88320484 GGTAGAATGC
* *
88320494 CGATGTCATGTCCCAGACATCGTCTTACACTGGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
88320541 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
* ** * * *
88320588 CGATGCCATGTCCCAGACATGGTCTTATACTAACT-ATCGAAATTAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA-GT
* * * * *
88320637 CAACGCCATGTCCTAGACATGGTCTTACACTAGCTC-TCGCAT-ATCCGTT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCA--AG-T
* * ** * * * *
88320686 CCGATGTCATATCCCTTACATGGTCTTACACTGACACAT-C-TCGTAGC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AAGT
* * *
88320733 CGATG-CATGTTCCAGACAT-GTCTTACACTGGCTTACAT-C-TCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATC-AAGT
*
88320779 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-T-CATTTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCA--TCAA-GT
* * *
88320825 CGATGTCATGTCACAGACATGGTCTTACATTGGCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
88320861 TCATAATCTG
Statistics
Matches: 256, Mismatches: 45, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.01
44 13 0.05
45 12 0.05
46 55 0.21
47 91 0.36
48 22 0.09
49 34 0.13
50 26 0.10
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
Found at i:88320771 original size:46 final size:46
Alignment explanation
Indices: 88320492--88320901 Score: 216
Period size: 47 Copynumber: 8.7 Consensus size: 46
88320482 GGGGTAGAAT
*
88320492 GCCGATGTCATGTCCCAGACATCGTCTTACACTGG--CTCATC-CATCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTC-T-AG
* *
88320539 GTCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATC-CATCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTC-T-AG
* * ** * **
88320586 GTCGATGCCATGTCCCAGACATGGTCTTATACTAACTATCGAAAT-TAAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATCTCT-AG
* * * * * *
88320635 GCCAACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGCATATC-CG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCTCTAG
* * ** * *
88320684 TTCCGATGTCATATCCCTTACATGGTCTTACACT-G-ACACATCTCGTA-
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTC-TAG
* *
88320731 GCCGATGCATGTTCCAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCTAG
* * * *
88320777 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATTTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTAG
* * * *
88320823 GTCGATGTCATGTCACAGACATGGTCTTACATTGGCTCTCATAATCT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCTAG
*
88320871 GCCGATGCATGTCCCAGACATTTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
88320902 AGCACACAAA
Statistics
Matches: 289, Mismatches: 56, Indels: 37
0.76 0.15 0.10
Matches are distributed among these distances:
44 10 0.03
45 12 0.04
46 70 0.24
47 103 0.36
48 24 0.08
49 40 0.14
50 29 0.10
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTAG
Found at i:88320850 original size:94 final size:95
Alignment explanation
Indices: 88320492--88320904 Score: 295
Period size: 94 Copynumber: 4.4 Consensus size: 95
88320482 GGGGTAGAAT
* * *
88320492 GCCGATGTCATGTCCCAGACATCGTCTTACACTGGCTCATCCA--TCAA-GTCGATGCCATGTCC
1 GCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATTTCAATGCCGATGCCATGT-C
* *
88320554 CAGACATGGTCTTACACTGG--CTCATCCATCAA
63 CAGACATGGTCTTACACTGGCTCTCAT-AATCAG
* * * * * * * * *
88320586 GTCGATGCCATGTCCCAGACATGGTCTTATACTAACTATCGAAATT-AAGGCCAACGCCATGTCC
1 GCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATTTCAATGCCGATGCCATGTCC
* *
88320650 TAGACATGGTCTTACACTAGCTCTCGCAT-ATCCG
64 -AGACATGGTCTTACACTGGCTCT--CATAATCAG
* * ** * * * *
88320684 TTCCGATGTCATATCCCTTACATGGTCTTACACT-G-ACACATCTC-GTAGCCGATG-CATGTTC
1 -GCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATTTCAAT-GCCGATGCCATG-TC
*
88320745 CAGACAT-GTCTTACACTGGCT-TACAT-CTCGAG
63 CAGACATGGTCTTACACTGGCTCT-CATAATC-AG
* *
88320777 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATTTCAATGTCGATGTCATGTCACA
1 GCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATTTCAATGCCGATGCCATGTC-CA
* *
88320840 GACATGGTCTTACATTGGCTCTCATAATCTG
65 GACATGGTCTTACACTGGCTCTCATAATCAG
*
88320871 GCCGATG-CATGTCCCAGACAT-TTCTTACACTAGC
1 GCCGATGTCATGTCCCAGACATGGTCTTACACTAGC
88320905 ACACAAATAA
Statistics
Matches: 249, Mismatches: 47, Indels: 46
0.73 0.14 0.13
Matches are distributed among these distances:
90 10 0.04
91 12 0.05
92 26 0.10
93 15 0.06
94 95 0.38
95 19 0.08
96 37 0.15
97 1 0.00
98 5 0.02
99 26 0.10
100 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (95 bp):
GCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATTTCAATGCCGATGCCATGTCCAG
ACATGGTCTTACACTGGCTCTCATAATCAG
Found at i:88330353 original size:23 final size:24
Alignment explanation
Indices: 88330321--88330385 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 24
88330311 TATCAAAATT
88330321 TCATAATCAATCTCATTTTCT-TTC
1 TCAT-ATCAATCTCATTTTCTATTC
*
88330345 TCATATCAATTTCA-TTTCTATTC
1 TCATATCAATCTCATTTTCTATTC
* *
88330368 TCATTTCCACTCTCATTT
1 TCATAT-CAATCTCATTT
88330386 CAGTCTCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.15
23 17 0.50
24 10 0.29
25 2 0.06
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (24 bp):
TCATATCAATCTCATTTTCTATTC
Found at i:88330373 original size:12 final size:12
Alignment explanation
Indices: 88330331--88330403 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
88330321 TCATAATCAA
88330331 TCTCATTTTCT-T
1 TCTCA-TTTCTAT
* *
88330343 TCTCATATCAAT
1 TCTCATTTCTAT
88330355 T-TCATTTCTAT
1 TCTCATTTCTAT
* *
88330366 TCTCATTTCCAC
1 TCTCATTTCTAT
*
88330378 TCTCATTTC-AG
1 TCTCATTTCTAT
88330389 TCTCATTTCATAT
1 TCTCATTTC-TAT
88330402 TC
1 TC
88330404 AAATCATATA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
11 22 0.45
12 24 0.49
13 3 0.06
ACGTcount: A:0.19, C:0.27, G:0.01, T:0.52
Consensus pattern (12 bp):
TCTCATTTCTAT
Found at i:88333178 original size:11 final size:11
Alignment explanation
Indices: 88333162--88333207 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
88333152 CCATTTTCTA
88333162 AATAAAATAAT
1 AATAAAATAAT
88333173 AAT-AAATATAT
1 AATAAAATA-AT
*
88333184 AAGTAAAATATT
1 AA-TAAAATAAT
88333196 AATAAAATAAT
1 AATAAAATAAT
88333207 A
1 A
88333208 TTTAACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 5 0.17
11 16 0.53
12 4 0.13
13 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:88334778 original size:76 final size:76
Alignment explanation
Indices: 88334680--88334934 Score: 341
Period size: 76 Copynumber: 3.4 Consensus size: 76
88334670 TAGACAAATC
* * * * * *
88334680 GACAAATATAATGATATTCCCAGCACTAGTCAGATAAACTGACGAAAGTTTGTGCCCAGTGCTAG
1 GACAAATATAATGGTGTGCCCAACACTAGTCAAATAAACTGACGAAAGTTTGTGCCCAGCGCTAG
88334745 TTGGATAAACT
66 TTGGATAAACT
* * * *
88334756 GACAAATATTATGGTGTGCCCAGCACAAGTCAAATAAACTGACGAAAGTTTGTGCCCAGCGCTAA
1 GACAAATATAATGGTGTGCCCAACACTAGTCAAATAAACTGACGAAAGTTTGTGCCCAGCGCTAG
***
88334821 TCAAATAAA-T
66 TTGGATAAACT
*
88334831 CGACAAATATAATGGTGTGCCCAACACTAGTCAAATAAACTGATGAAAGTTTGTGCCCAGCGCTA
1 -GACAAATATAATGGTGTGCCCAACACTAGTCAAATAAACTGACGAAAGTTTGTGCCCAGCGCTA
*
88334896 GTTGGATAAACC
65 GTTGGATAAACT
* *
88334908 GAAAAATATAATGGTGGGCCCAACACT
1 GACAAATATAATGGTGTGCCCAACACT
88334935 TGTAACAACC
Statistics
Matches: 155, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
75 1 0.01
76 154 0.99
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (76 bp):
GACAAATATAATGGTGTGCCCAACACTAGTCAAATAAACTGACGAAAGTTTGTGCCCAGCGCTAG
TTGGATAAACT
Found at i:88334793 original size:40 final size:40
Alignment explanation
Indices: 88334749--88334873 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
88334739 TGCTAGTTGG
88334749 ATAAACTGACAAATATTATGGTGTGCCCAGCACAAGTCAA
1 ATAAACTGACAAATATTATGGTGTGCCCAGCACAAGTCAA
* * *
88334789 ATAAACTGACGAA-AGT-T--TGTGCCCAGCGCTAA-TCAA
1 ATAAACTGACAAATATTATGGTGTGCCCAGCAC-AAGTCAA
* * *
88334825 ATAAA-TCGACAAATATAATGGTGTGCCCAACACTAGTCAA
1 ATAAACT-GACAAATATTATGGTGTGCCCAGCACAAGTCAA
88334865 ATAAACTGA
1 ATAAACTGA
88334874 TGAAAGTTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
35 1 0.01
36 25 0.37
37 3 0.04
38 2 0.03
39 3 0.04
40 33 0.49
41 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (40 bp):
ATAAACTGACAAATATTATGGTGTGCCCAGCACAAGTCAA
Found at i:88334906 original size:36 final size:36
Alignment explanation
Indices: 88334698--88334897 Score: 161
Period size: 36 Copynumber: 5.3 Consensus size: 36
88334688 TAATGATATT
*
88334698 CCCAGCACTAGTCAGATAAACTGACGAAAGTTTGTG
1 CCCAGCACTAGTCAAATAAACTGACGAAAGTTTGTG
** *** * *
88334734 CCCAGTGCTAGTTGGATAAACTGACAAATATTATGGTGTG
1 CCCAGCACTAGTCAAATAAACTGACGAA-AGT-T--TGTG
*
88334774 CCCAGCACAAGTCAAATAAACTGACGAAAGTTTGTG
1 CCCAGCACTAGTCAAATAAACTGACGAAAGTTTGTG
* * *
88334810 CCCAGCGCTAATCAAATAAA-TCGAC-AAATATAATGGTGTG
1 CCCAGCACTAGTCAAATAAACT-GACGAAA-GT--T--TGTG
* *
88334850 CCCAACACTAGTCAAATAAACTGATGAAAGTTTGTG
1 CCCAGCACTAGTCAAATAAACTGACGAAAGTTTGTG
*
88334886 CCCAGCGCTAGT
1 CCCAGCACTAGT
88334898 TGGATAAACC
Statistics
Matches: 127, Mismatches: 25, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
35 4 0.03
36 62 0.49
37 2 0.02
38 4 0.03
39 2 0.02
40 49 0.39
41 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (36 bp):
CCCAGCACTAGTCAAATAAACTGACGAAAGTTTGTG
Found at i:88339390 original size:42 final size:42
Alignment explanation
Indices: 88339311--88339391 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
88339301 TGAGTTTCAA
* * **
88339311 TTTAACCCTATTGGGTTTCCGTTTAGCTCTTTTGAGCTTTAG
1 TTTAACCCTATTGGGTTTCCGTTCAACTCTTACGAGCTTTAG
*
88339353 TTTAACCCT-TATGGGTTTTCGTTCAACTCTTACGAGCTT
1 TTTAACCCTAT-TGGGTTTCCGTTCAACTCTTACGAGCTT
88339392 CTGTTCAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTAACCCTATTGGGTTTCCGTTCAACTCTTACGAGCTTTAG
Found at i:88346526 original size:22 final size:21
Alignment explanation
Indices: 88346501--88346542 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
88346491 AAATTTATTA
88346501 AAAAATCATAAAAAATATAAAC
1 AAAAATCATAAAAAAT-TAAAC
* *
88346523 AAAAGTTATAAAAAATTAAA
1 AAAAATCATAAAAAATTAAA
88346543 ATTATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAATCATAAAAAATTAAAC
Found at i:88347539 original size:28 final size:28
Alignment explanation
Indices: 88347508--88347579 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
88347498 TAAAAGAAGT
*
88347508 AAAAATTATAAAAAAAAATTAATAATAC
1 AAAAATTATAAAAAAAAATAAATAATAC
** **
88347536 AAAAA-TATTAAAAATGAATAAATTTTAC
1 AAAAATTA-TAAAAAAAAATAAATAATAC
88347564 AAAATATTATAAAAAA
1 AAAA-ATTATAAAAAA
88347580 GCATAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 2 0.06
28 24 0.69
29 7 0.20
30 2 0.06
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (28 bp):
AAAAATTATAAAAAAAAATAAATAATAC
Found at i:88353273 original size:19 final size:18
Alignment explanation
Indices: 88353232--88353300 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
88353222 AATGGTAAAT
* * *
88353232 ATTTTTAAAAATTGTATC
1 ATTTTTAAAATTTCTATA
*
88353250 TTTTTTAAAATTTCATATA
1 ATTTTTAAAATTTC-TATA
*
88353269 ATTTTTAAAATTTTCTATT
1 ATTTTTAAAA-TTTCTATA
*
88353288 ATTTTTAATATTT
1 ATTTTTAAAATTT
88353301 TTTGCACTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
18 14 0.33
19 24 0.57
20 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (18 bp):
ATTTTTAAAATTTCTATA
Found at i:88353334 original size:21 final size:19
Alignment explanation
Indices: 88353308--88353378 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 19
88353298 TTTTTTGCAC
88353308 TTTTCTATATTTTTATAATAA
1 TTTTCTATATTTTTA-AA-AA
88353329 TTTTCTATA-TTTTAAAAA
1 TTTTCTATATTTTTAAAAA
* *
88353347 -TTTCCATATTTTTAACAA
1 TTTTCTATATTTTTAAAAA
88353365 TTTT-T-TATTTTTAA
1 TTTTCTATATTTTTAA
88353379 TTCATATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
17 16 0.36
18 10 0.22
19 5 0.11
20 5 0.11
21 9 0.20
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTCTATATTTTTAAAAA
Found at i:88353359 original size:18 final size:18
Alignment explanation
Indices: 88353309--88353367 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
88353299 TTTTTGCACT
*
88353309 TTTCTATATTTTTATAATAA
1 TTTCCATATTTTTA-AA-AA
*
88353329 TTTTC-TATATTTTAAAAA
1 TTTCCATAT-TTTTAAAAA
*
88353347 TTTCCATATTTTTAACAA
1 TTTCCATATTTTTAAAAA
88353365 TTT
1 TTT
88353368 TTTATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 17 0.52
19 8 0.24
20 8 0.24
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCCATATTTTTAAAAA
Found at i:88353376 original size:18 final size:17
Alignment explanation
Indices: 88353315--88353376 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
88353305 CACTTTTCTA
88353315 TATTTTTATAATAATTTTC
1 TATTTTT-TAA-AATTTTC
* *
88353334 TATATTTTAAAAATTTC
1 TATTTTTTAAAATTTTC
* *
88353351 CATATTTTTAACAATTTTT
1 TAT-TTTTTAA-AATTTTC
88353370 TATTTTT
1 TATTTTT
88353377 AATTCATATA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 8 0.24
18 13 0.38
19 13 0.38
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTTTTAAAATTTTC
Found at i:88353513 original size:30 final size:29
Alignment explanation
Indices: 88353447--88353514 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
88353437 AGACATTTAT
*
88353447 AATATTTTTTATATATTTTTTGCATTTTT
1 AATATTTTTTATATATTTTTTGCATTTTG
* *
88353476 ATTTATTTTTTATA-ATTTTTTTGTGATTTTG
1 A-ATATTTTTTATATA-TTTTTTG-CATTTTG
88353507 AATATTTT
1 AATATTTT
88353515 AGTTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 2 0.06
30 24 0.75
31 6 0.19
ACGTcount: A:0.24, C:0.01, G:0.06, T:0.69
Consensus pattern (29 bp):
AATATTTTTTATATATTTTTTGCATTTTG
Found at i:88353542 original size:38 final size:35
Alignment explanation
Indices: 88353477--88353552 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 35
88353467 TGCATTTTTA
*
88353477 TTTATTTTTTATAATTTTTTTGTGATTTTGAATAT
1 TTTATTTTTTATAATTTTTTTGTGATTTTCAATAT
*
88353512 TTTAGTTTTTTAATAATTTCTTTTAG-GATTTTCAGTAT
1 TTTA-TTTTTT-ATAATTT-TTTT-GTGATTTTCAATAT
88353550 TTT
1 TTT
88353553 TTTAACAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 4 0.11
36 6 0.17
37 7 0.20
38 17 0.49
39 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.66
Consensus pattern (35 bp):
TTTATTTTTTATAATTTTTTTGTGATTTTCAATAT
Found at i:88356402 original size:18 final size:19
Alignment explanation
Indices: 88356375--88356410 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88356365 TGTTTTCACC
*
88356375 TTTTTTCTTTTTC-TTTCA
1 TTTTTGCTTTTTCATTTCA
88356393 TTTTTGCTTTTTCATTTC
1 TTTTTGCTTTTTCATTTC
88356411 CAGCAAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTGCTTTTTCATTTCA
Found at i:88359085 original size:28 final size:29
Alignment explanation
Indices: 88359054--88359120 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 29
88359044 TCTATTTTAT
*
88359054 TTTATTTATATAATTTCTTTT-AAATCTA
1 TTTATATATATAATTTCTTTTCAAATCTA
*
88359082 TTTA-ATATATATTTTCTTTTCAAATCTA
1 TTTATATATATAATTTCTTTTCAAATCTA
*
88359110 -TTATGTATATA
1 TTTATATATATA
88359121 GTTTGTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (29 bp):
TTTATATATATAATTTCTTTTCAAATCTA
Found at i:88359200 original size:3 final size:3
Alignment explanation
Indices: 88359186--88359220 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
88359176 CTATGGCCAA
88359186 ATT ATAT ATT ATT ATTT ATT ATT ATT ATT ATT ATT
1 ATT AT-T ATT ATT A-TT ATT ATT ATT ATT ATT ATT
88359221 TATTTTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:88359205 original size:10 final size:10
Alignment explanation
Indices: 88359186--88359224 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
88359176 CTATGGCCAA
*
88359186 ATTATATATT
1 ATTATTTATT
88359196 ATTATTTATT
1 ATTATTTATT
88359206 ATTA-TTATT
1 ATTATTTATT
88359215 ATTATTTATT
1 ATTATTTATT
88359225 TTACATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTATTTATT
Found at i:88366985 original size:15 final size:15
Alignment explanation
Indices: 88366965--88367006 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
88366955 GCTGTAAATG
88366965 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
88366980 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
88366995 GGATTTCCTTAT
1 GGATTTCCTTAT
88367007 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:88369713 original size:39 final size:39
Alignment explanation
Indices: 88369662--88369879 Score: 319
Period size: 39 Copynumber: 5.6 Consensus size: 39
88369652 GCTCTGATGA
*
88369662 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTGCGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGCGT
*
88369701 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGCGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGCGT
* *
88369740 GCTTCAGTTAGCCTTTGGGCTTCTGTTTAGCACTTGCGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGCGT
* * *
88369779 GCTTCAGTTAGCCTTCGGGCTTTCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGCGT
* * **
88369818 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGAACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGCGT
* *
88369857 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
88369880 AAATCACGAT
Statistics
Matches: 162, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 162 1.00
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGCGT
Found at i:88371392 original size:52 final size:52
Alignment explanation
Indices: 88371311--88371426 Score: 196
Period size: 52 Copynumber: 2.2 Consensus size: 52
88371301 TGGGCACAGG
* *
88371311 ACATGGGCGTGTCCCAAGCCACACGGATGTGTGTGACCACACGCCCCAATCC
1 ACATGGGCGTGTCCCAAGCCACACAGATGTGTGTGACCACAAGCCCCAATCC
* *
88371363 ACATGGGCGTGTCCCAAGCCACACAGATGTGTGTGACCACAAGCCCTAATCT
1 ACATGGGCGTGTCCCAAGCCACACAGATGTGTGTGACCACAAGCCCCAATCC
88371415 ACATGGGCGTGT
1 ACATGGGCGTGT
88371427 GACTCTCCGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.18
Consensus pattern (52 bp):
ACATGGGCGTGTCCCAAGCCACACAGATGTGTGTGACCACAAGCCCCAATCC
Found at i:88375519 original size:44 final size:44
Alignment explanation
Indices: 88375428--88375544 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
88375418 GGTTACAAAC
** * * *
88375428 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTGATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGGCTAAAGTGAGAAGT
*
88375472 CTTATCTCCCTGAAGTTGCAGT-GAACAGGCTAAAGATAGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGGCTAAAG-T-GAGAAGT
*
88375516 CTTATTTCCCTGAAGTTGCAGTGGAACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACAG
88375545 ATTGAAGCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
43 9 0.14
44 45 0.71
45 9 0.14
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGGCTAAAGTGAGAAGT
Found at i:88375660 original size:44 final size:44
Alignment explanation
Indices: 88375609--88375717 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
88375599 CATAGCAAAC
* * *
88375609 CTTATCTCCTTGAAGTTGCAGTGGAACAGGTTGAA-GTGACAAGT
1 CTTATCTCCTTGAAGTTGCAGTGGAACAGGCTCAATATG-CAAGT
* * * *
88375653 TTTATCTCCCTGAAGTTGTAGTGGAGCAGGCTCAATATGCAAGT
1 CTTATCTCCTTGAAGTTGCAGTGGAACAGGCTCAATATGCAAGT
88375697 CTTATCT-CTCTGAAGTTGCAG
1 CTTATCTCCT-TGAAGTTGCAG
88375718 CAGAGCAGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.02
44 50 0.94
45 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
CTTATCTCCTTGAAGTTGCAGTGGAACAGGCTCAATATGCAAGT
Found at i:88377441 original size:28 final size:29
Alignment explanation
Indices: 88377410--88377476 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 29
88377400 TCTATGTTAT
*
88377410 TTTATTTATATAATTTCTTTT-AAATCTA
1 TTTATATATATAATTTCTTTTCAAATCTA
*
88377438 TTTA-ATATATATTTTCTTTTCAAATCTA
1 TTTATATATATAATTTCTTTTCAAATCTA
*
88377466 -TTATGTATATA
1 TTTATATATATA
88377477 GTTTTTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (29 bp):
TTTATATATATAATTTCTTTTCAAATCTA
Found at i:88377489 original size:30 final size:27
Alignment explanation
Indices: 88377416--88377491 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
88377406 TTATTTTATT
* *
88377416 TATATAATTTCTTTTAAATCTATTTAA
1 TATATATTTTCTTTCAAATCTATTTAA
*
88377443 TATATATTTTCTTTTCAAATCTATTATGTA
1 TATATATTTTC-TTTCAAATCTATT-T-AA
*
88377473 TATAGTTTTTTCTTTCAAA
1 TATA-TATTTTCTTTCAAA
88377492 ATATAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 10 0.24
28 12 0.29
29 1 0.02
30 12 0.29
31 6 0.15
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.57
Consensus pattern (27 bp):
TATATATTTTCTTTCAAATCTATTTAA
Found at i:88377560 original size:3 final size:3
Alignment explanation
Indices: 88377542--88377580 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
88377532 CTATGGCCAC
*
88377542 ATT ATAT ATC ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
88377581 TTACATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:88390125 original size:33 final size:33
Alignment explanation
Indices: 88390072--88390136 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
88390062 TAAGGGGTGT
* * * *
88390072 TACATCATTGTTCAATTTTTTTACTTGTATTGA
1 TACATCACTGCTCAAGTTTTTTACTTATATTGA
88390105 TACATCACTGCTCAAGTTTTTTACTTATATTG
1 TACATCACTGCTCAAGTTTTTTACTTATATTG
88390137 GTACTTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (33 bp):
TACATCACTGCTCAAGTTTTTTACTTATATTGA
Found at i:88390646 original size:10 final size:10
Alignment explanation
Indices: 88390608--88390688 Score: 63
Period size: 11 Copynumber: 7.6 Consensus size: 10
88390598 TTATTTAGAT
88390608 AATTACTAAAA
1 AATTA-TAAAA
*
88390619 TATTAATAAAA
1 AATT-ATAAAA
88390630 AACTTATAAAA
1 AA-TTATAAAA
*
88390641 AATTATTTAAA
1 AATTA-TAAAA
* *
88390652 AATTATTAAT
1 AATTATAAAA
*
88390662 AATTAATAAGA
1 AATT-ATAAAA
*
88390673 AATTATAAGA
1 AATTATAAAA
88390683 AATTAT
1 AATTAT
88390689 TAAATTTATT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
10 23 0.39
11 33 0.56
12 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AATTATAAAA
Found at i:88390657 original size:21 final size:21
Alignment explanation
Indices: 88390598--88390689 Score: 69
Period size: 21 Copynumber: 4.2 Consensus size: 21
88390588 TTGGACAAGG
* *
88390598 TTATTTAGATAATTACTAAAATA
1 TTATTTA-AAAATTA-TAAAAAA
* *
88390621 TTAATAAAAAACTTATAAAAAA
1 TTATTTAAAAA-TTATAAAAAA
* *
88390643 TTATTTAAAAATTATTAATAA
1 TTATTTAAAAATTATAAAAAA
* *
88390664 TTA-ATAAGAAATTATAAGAAA
1 TTATTTAA-AAATTATAAAAAA
88390685 TTATT
1 TTATT
88390690 AAATTTATTA
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
20 3 0.06
21 24 0.45
22 18 0.34
23 8 0.15
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (21 bp):
TTATTTAAAAATTATAAAAAA
Found at i:88390731 original size:10 final size:10
Alignment explanation
Indices: 88390608--88390732 Score: 73
Period size: 10 Copynumber: 12.3 Consensus size: 10
88390598 TTATTTAGAT
*
88390608 AATTACTAAA
1 AATTATTAAA
*
88390618 ATATTAATAAAA
1 A-ATT-ATTAAA
*
88390630 AACTTATAAAA
1 AA-TTATTAAA
88390641 AATTATTTAAA
1 AATTA-TTAAA
*
88390652 AATTATTAAT
1 AATTATTAAA
*
88390662 AATTAATAAGA
1 AATTATTAA-A
88390673 AATTA-TAAGA
1 AATTATTAA-A
88390683 AATTATT-AA
1 AATTATTAAA
*
88390692 ATTTATTAAA
1 AATTATTAAA
88390702 GAA-TA--ACAA
1 -AATTATTA-AA
*
88390711 AA-TATTTAA
1 AATTATTAAA
88390720 AATTATTAAA
1 AATTATTAAA
88390730 AAT
1 AAT
88390733 CACGTCTAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
8 5 0.05
9 13 0.14
10 40 0.43
11 28 0.30
12 7 0.08
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AATTATTAAA
Done.