Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 86 of 150
Found at i:27034427 original size:50 final size:50
Alignment explanation
Indices: 27034347--27034479 Score: 160
Period size: 50 Copynumber: 2.7 Consensus size: 50
27034337 CAATGTCATA
* ** ** *
27034347 TCCCAGATATGGTCTTAC-ATGGGAGTTCTCATATCGGTGCCCGTGCCATG
1 TCCCAGACATGGTCTTACGA-GGGACCTCTCATATCGGTGCCAATACCATG
** *
27034397 TCTTAGACATGGTCTTACGAGGGACCTCTCATCTCGGTGCCAATACCATG
1 TCCCAGACATGGTCTTACGAGGGACCTCTCATATCGGTGCCAATACCATG
*
27034447 TCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 TCCCAGACATGGTCTTACGAGGGACCTCTCATA
27034480 ACCTCAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
50 68 0.99
51 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.29
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACGAGGGACCTCTCATATCGGTGCCAATACCATG
Found at i:27035801 original size:10 final size:10
Alignment explanation
Indices: 27035786--27035825 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
27035776 AACCTACAAA
27035786 TTTTTTTTTC
1 TTTTTTTTTC
27035796 TTTTTTTTTC
1 TTTTTTTTTC
*
27035806 CTTTTTTTTC
1 TTTTTTTTTC
27035816 GTATTTTTTT
1 -T-TTTTTTT
27035826 GTAATTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 19 0.73
12 7 0.27
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:27038531 original size:56 final size:50
Alignment explanation
Indices: 27038445--27038735 Score: 277
Period size: 50 Copynumber: 5.7 Consensus size: 50
27038435 GGGAATAATA
*
27038445 TCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC---GAG---ATGAGAGC
* * * *
27038501 TCCCATTTAAGACTATGTCTGGGACATGGCATTAGCATCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGC
* * * *
27038551 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGC
* * * *
27038601 TCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGC
* * * *
27038651 TCCCATGTAAGACCATATCTGGGATATGGCATTGACAGTAC-AGA--A-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGATGAGAGC
* * *
27038699 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
27038736 TTGTATTATC
Statistics
Matches: 201, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
48 3 0.01
49 32 0.16
50 124 0.62
51 3 0.01
52 1 0.00
53 3 0.01
56 35 0.17
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGC
Found at i:27045166 original size:51 final size:51
Alignment explanation
Indices: 27045046--27045233 Score: 227
Period size: 51 Copynumber: 3.7 Consensus size: 51
27045036 TATCATTCCA
* * *
27045046 TACACATAGTAGCCTTCACATAGTACTACACACGTGATC-AAACTTTCCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
* * *
27045096 TTCACGTAGTAGCTTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
* * ** * *
27045147 TACACATAGTAGCCTGCACATAGTATTACACATGTGACCATTATCTAT-CGA
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCT-TCCGG
* *
27045198 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTG
27045234 TTTATAGGAA
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 34 0.29
51 82 0.70
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
Found at i:27049023 original size:50 final size:50
Alignment explanation
Indices: 27048925--27049161 Score: 285
Period size: 50 Copynumber: 4.6 Consensus size: 50
27048915 ATGAGATCCT
*
27048925 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGCTGAGATTATGAGAGGTCTC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-C-GAG---ATGAGAGGTCCC
* *
27048981 ATTTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
*
27049031 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
** * * * **
27049081 CCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
* * * *
27049131 ATGTAAGAGCATATCTAGGATATGGCATTGG
1 ATGTAAGACCATGTCTGGGACATGGCATTGG
27049162 TAGTACAGAA
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 124 0.77
53 3 0.02
54 1 0.01
55 1 0.01
56 31 0.19
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
Found at i:27049443 original size:16 final size:16
Alignment explanation
Indices: 27049417--27049458 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
27049407 TTATTTTAGT
*
27049417 AAGCAAGTAAGTAAAC
1 AAGCGAGTAAGTAAAC
* *
27049433 AAGTGAGTAAGTAAAT
1 AAGCGAGTAAGTAAAC
27049449 AAGCGAGTAA
1 AAGCGAGTAA
27049459 AGATTCTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.24, T:0.17
Consensus pattern (16 bp):
AAGCGAGTAAGTAAAC
Found at i:27058162 original size:19 final size:19
Alignment explanation
Indices: 27058138--27058176 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
27058128 AATAAATTAC
* *
27058138 TCATCTTAGTTAATTGAGT
1 TCATCTTAGGTAATTAAGT
27058157 TCATCTTAGGTAATTAAGT
1 TCATCTTAGGTAATTAAGT
27058176 T
1 T
27058177 GTTGGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (19 bp):
TCATCTTAGGTAATTAAGT
Found at i:27058434 original size:20 final size:20
Alignment explanation
Indices: 27058409--27058446 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27058399 AGCTGTTATG
27058409 AAGTTGAATTAAAGGCCAAC
1 AAGTTGAATTAAAGGCCAAC
27058429 AAGTTGAATTAAAGGCCA
1 AAGTTGAATTAAAGGCCA
27058447 GTAGATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGTTGAATTAAAGGCCAAC
Found at i:27061010 original size:32 final size:32
Alignment explanation
Indices: 27060969--27061032 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
27060959 AGTATGTTTC
27060969 TTGGATTATTATGTAATTGTCACAAGATTACT
1 TTGGATTATTATGTAATTGTCACAAGATTACT
27061001 TTGGATTATTATGTAATTGTCACAAGATTACT
1 TTGGATTATTATGTAATTGTCACAAGATTACT
27061033 CATAGTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TTGGATTATTATGTAATTGTCACAAGATTACT
Found at i:27061043 original size:35 final size:32
Alignment explanation
Indices: 27060971--27061050 Score: 115
Period size: 32 Copynumber: 2.4 Consensus size: 32
27060961 TATGTTTCTT
*
27060971 GGATTATTATGTAATTGTCACAAGATTACTTT
1 GGATTATTATGTAATTGTCACAAGATTACTTA
27061003 GGATTATTATGTAATTGTCACAAGATTACTCATA
1 GGATTATTATGTAATTGTCACAAGATTACT--TA
*
27061037 GTGATTAATATGTA
1 G-GATTATTATGTA
27061051 TATGATCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
32 30 0.70
34 2 0.05
35 11 0.26
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (32 bp):
GGATTATTATGTAATTGTCACAAGATTACTTA
Found at i:27063508 original size:30 final size:30
Alignment explanation
Indices: 27063464--27063523 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
27063454 TACCAGTATA
* **
27063464 GTGTGAGCCTTAGCCCATTACAGTAACAGT
1 GTGTGAGCCCTAGCCCAACACAGTAACAGT
*
27063494 GTGTGGGCCCTAGCCCAACACAGTAACAGT
1 GTGTGAGCCCTAGCCCAACACAGTAACAGT
27063524 ACAATGCAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.22
Consensus pattern (30 bp):
GTGTGAGCCCTAGCCCAACACAGTAACAGT
Found at i:27063653 original size:26 final size:26
Alignment explanation
Indices: 27063624--27063744 Score: 134
Period size: 26 Copynumber: 4.7 Consensus size: 26
27063614 CCAACACACC
*
27063624 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
*
27063650 AATAACGCAGCAAAGCTGCCAGTAAC
1 AATAACGCAGCAAAGCTGCCAGTAAT
* * *
27063676 AGTAACGCAACAAAGCTGCTAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
* * ** *
27063702 AGTAACGCAGTAAAGCTATCGGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
* *
27063728 AGTAACGCAACAAAGCT
1 AATAACGCAGCAAAGCT
27063745 ACCGGTAACA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.17
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAT
Found at i:27063717 original size:52 final size:52
Alignment explanation
Indices: 27063629--27063744 Score: 160
Period size: 52 Copynumber: 2.2 Consensus size: 52
27063619 ACACCAATAT
* *
27063629 CGCAGCAAAGCTGCCAGTAATAATAACGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAATAATAACGCAGCAAAGCTACCAGTAACAGTAA
* * * * * *
27063681 CGCAACAAAGCTGCTAGTAATAGTAACGCAGTAAAGCTATCGGTAATAGTAA
1 CGCAACAAAGCTGCCAGTAATAATAACGCAGCAAAGCTACCAGTAACAGTAA
27063733 CGCAACAAAGCT
1 CGCAACAAAGCT
27063745 ACCGGTAACA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (52 bp):
CGCAACAAAGCTGCCAGTAATAATAACGCAGCAAAGCTACCAGTAACAGTAA
Found at i:27063961 original size:27 final size:27
Alignment explanation
Indices: 27063928--27064337 Score: 454
Period size: 27 Copynumber: 15.2 Consensus size: 27
27063918 GGCATAACAA
* * *
27063928 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
27063955 TCATTTTACCCTTCTG-GGGTATTTCGA
1 TCATTTTACCCTT-TGAGGGTATTTCGG
*
27063982 TCATTTTACCCTTTG-GGAGTATTTTGG
1 TCATTTTACCCTTTGAGG-GTATTTCGG
* *
27064009 TCATTTTACTCTTTGAGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* **
27064036 TCATTTTA-CCTTTCAGGGGTATTTTAG
1 TCATTTTACCCTTTGA-GGGTATTTCGG
* *
27064063 TCATTTTACCC-TTCAGGGGTATTTCGA
1 TCATTTTACCCTTTGA-GGGTATTTCGG
*
27064090 TCATTTTACCTTTTGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* *
27064117 TCATTTTACCTTTTGAGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
27064144 TTATTTTACCCTTTGAGGTTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* *
27064171 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* *
27064198 TCATTTTACCC-TTCAGGGGTATTTCGA
1 TCATTTTACCCTTTGA-GGGTATTTCGG
* ** *
27064225 TCATTTTACCATTCAAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* **
27064252 TTATTTTACCCTTTGAGGGTATTTCAA
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
27064279 TCATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
27064306 TCATTTTACCC-TTCAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
27064332 TCATTT
1 TCATTT
27064338 AGGCCCATTA
Statistics
Matches: 329, Mismatches: 46, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
26 30 0.09
27 288 0.88
28 11 0.03
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.46
Consensus pattern (27 bp):
TCATTTTACCCTTTGAGGGTATTTCGG
Found at i:27064119 original size:108 final size:108
Alignment explanation
Indices: 27063930--27064337 Score: 526
Period size: 108 Copynumber: 3.8 Consensus size: 108
27063920 CATAACAATC
* * **
27063930 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTTCTG-GGGTATTTCGATCATTTTACCCT
1 ATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCTGAGGGTATTTCGATCATTTTACCCT
** * *
27063994 TTGGGAGTATTTTGGTCATTTTACTC-TTTGAGGGTATTTCGATC
66 TCAGG-GTATTTCGGTCATTTTAC-CATTTGAGGGTATTTCGATT
* * *
27064038 ATTTTA-CCTTTCAGGGGTATTTTAGTCATTTTACCCTTCAG-GGGTATTTCGATCATTTTACCT
1 ATTTTACCCTTTGA-GGGTATTTCAGTCATTTTACCCTTCTGAGGGTATTTCGATCATTTTACC-
* * *
27064101 TTTGAGGGTATTTCGGTCATTTTACCTTTTGAGGGTATTTCGATT
64 CTTCAGGGTATTTCGGTCATTTTACCATTTGAGGGTATTTCGATT
*
27064146 ATTTTACCCTTTGAGGTTATTTCAGTCATTTTACCCTTC-GAGGGTATTTCGATCATTTTACCCT
1 ATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCTGAGGGTATTTCGATCATTTTACCCT
* **
27064210 TCAGGGGTATTTCGATCATTTTACCATTCAAGGGTATTTC-AGTT
66 TCA-GGGTATTTCGGTCATTTTACCATTTGAGGGTATTTCGA-TT
*
27064254 ATTTTACCCTTTGAGGGTATTTCAATCATTTTACCCTT-TGAGGGTATTTC-AGTCATTTTACCC
1 ATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCTGAGGGTATTTCGA-TCATTTTACCC
27064317 TTCAGGGTATTTCGGTCATTT
65 TTCAGGGTATTTCGGTCATTT
27064338 AGGCCCATTA
Statistics
Matches: 269, Mismatches: 22, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
107 27 0.10
108 232 0.86
109 10 0.04
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.46
Consensus pattern (108 bp):
ATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCTGAGGGTATTTCGATCATTTTACCCT
TCAGGGTATTTCGGTCATTTTACCATTTGAGGGTATTTCGATT
Found at i:27066489 original size:19 final size:19
Alignment explanation
Indices: 27066462--27066554 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
27066452 AATAAATTAC
* *
27066462 TCATATTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
*
27066481 TCATCTTAGTTACTTAAGT
1 TCATCTTAGTTAATTAAGT
* * * *
27066500 T-A-CTGGAATAAATT-A-C
1 TCATCT-TAGTTAATTAAGT
*
27066516 TCATCTTAGTCAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
27066535 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
27066554 T
1 T
27066555 GCTTAAATCA
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
16 1 0.02
17 10 0.18
18 9 0.16
19 35 0.64
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:27066776 original size:20 final size:20
Alignment explanation
Indices: 27066751--27066788 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27066741 AGCTGTTATG
27066751 AAGTTGAATTAAAGGCCAAC
1 AAGTTGAATTAAAGGCCAAC
27066771 AAGTTGAATTAAAGGCCA
1 AAGTTGAATTAAAGGCCA
27066789 GCAGCTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGTTGAATTAAAGGCCAAC
Found at i:27069342 original size:18 final size:18
Alignment explanation
Indices: 27069321--27069361 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
27069311 ATTCTTTGTT
*
27069321 TTTTCTTTTTCACTTTTC
1 TTTTCTTTTTCACTTATC
*
27069339 TTTTCTTTTTCTCTTATC
1 TTTTCTTTTTCACTTATC
27069357 TTTTC
1 TTTTC
27069362 ATACGACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCTTTTTCACTTATC
Found at i:27073837 original size:14 final size:13
Alignment explanation
Indices: 27073814--27073841 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27073804 GAAGAAAAGG
27073814 AGTTTCAAAAAAA
1 AGTTTCAAAAAAA
27073827 AGTTTCAAAAAAA
1 AGTTTCAAAAAAA
27073840 AG
1 AG
27073842 AAAAAAAAAG
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:0.11, T:0.21
Consensus pattern (13 bp):
AGTTTCAAAAAAA
Found at i:27074719 original size:15 final size:16
Alignment explanation
Indices: 27074699--27074733 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27074689 AAGAGAAGAA
27074699 AAAAAGA-AATGTGAG
1 AAAAAGAGAATGTGAG
*
27074714 AAAAAGAGGATGTGAG
1 AAAAAGAGAATGTGAG
27074730 AAAA
1 AAAA
27074734 GAAGTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (16 bp):
AAAAAGAGAATGTGAG
Found at i:27082793 original size:21 final size:21
Alignment explanation
Indices: 27082769--27082808 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27082759 TATTATTAAG
*
27082769 TTTAAAGTGTCTTAATGGTTA
1 TTTAAAGTGTCCTAATGGTTA
**
27082790 TTTATTGTGTCCTAATGGT
1 TTTAAAGTGTCCTAATGGT
27082809 ACACCAATGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (21 bp):
TTTAAAGTGTCCTAATGGTTA
Found at i:27086055 original size:15 final size:16
Alignment explanation
Indices: 27086035--27086065 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27086025 GATGAAGAAA
27086035 AAGAGAA-AAAGGAAG
1 AAGAGAATAAAGGAAG
27086050 AAGAGAATAAAGGAAG
1 AAGAGAATAAAGGAAG
27086066 TGAAATATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (16 bp):
AAGAGAATAAAGGAAG
Found at i:27091676 original size:3 final size:3
Alignment explanation
Indices: 27091668--27091710 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
27091658 CGTGTTATGA
**
27091668 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27091711 GAAGAGAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:27093213 original size:27 final size:27
Alignment explanation
Indices: 27093201--27093280 Score: 133
Period size: 27 Copynumber: 3.0 Consensus size: 27
27093191 CACTTCACCT
27093201 TATGGGGGTATTTCGATCATTTTACCC
1 TATGGGGGTATTTCGATCATTTTACCC
*
27093228 TATCGGGGTATTTCGATCATTTTACCC
1 TATGGGGGTATTTCGATCATTTTACCC
* *
27093255 TATGGGGGTATTTTGGTCATTTTACC
1 TATGGGGGTATTTCGATCATTTTACC
27093281 TATTTTAGGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.42
Consensus pattern (27 bp):
TATGGGGGTATTTCGATCATTTTACCC
Found at i:27104247 original size:19 final size:19
Alignment explanation
Indices: 27104220--27104258 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27104210 TTATTCCAGC
27104220 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
27104239 AACTCAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
27104258 A
1 A
27104259 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:27109006 original size:41 final size:42
Alignment explanation
Indices: 27108907--27109040 Score: 123
Period size: 41 Copynumber: 3.2 Consensus size: 42
27108897 TATGTTATCA
* * * *
27108907 TGTAAGACCTCGTCTAGGACGTTGGCATCGACTTGTGTTACG
1 TGTAAGACATTGTCTGGGACATTGGCATCGACTTGTGTTACG
* **
27108949 TGTAAGACCA-TATCTGGGACATTGGCATCGTA-TT-TGTTTTG
1 TGTAAGA-CATTGTCTGGGACATTGGCATCG-ACTTGTGTTACG
* *
27108990 TGTAAGACATTGTCTGGGACAGTGGCATCGA-TATGTGATTACA
1 TGTAAGACATTGTCTGGGACATTGGCATCGACT-TGTG-TTACG
27109033 TGTAAGAC
1 TGTAAGAC
27109041 CACGTTCGGG
Statistics
Matches: 74, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
40 4 0.05
41 31 0.42
42 27 0.36
43 12 0.16
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACATTGTCTGGGACATTGGCATCGACTTGTGTTACG
Found at i:27111018 original size:40 final size:40
Alignment explanation
Indices: 27110973--27111083 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
27110963 TGTTACAAGG
* * * * *
27110973 GGTACCGTAGTACAAATAGGGGCACGTATGTTCAATTAGA
1 GGTACCGAAGTACAAACAGGGACACGTATGTACAAATAGA
*
27111013 TGTACCGAAGTACAAACAGGGACACGTATGTACAAATAGA
1 GGTACCGAAGTACAAACAGGGACACGTATGTACAAATAGA
* * *
27111053 GGTACCAAAGTACAAACAAGGACATGTATGT
1 GGTACCGAAGTACAAACAGGGACACGTATGT
27111084 GCCATCATTC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (40 bp):
GGTACCGAAGTACAAACAGGGACACGTATGTACAAATAGA
Found at i:27112521 original size:27 final size:27
Alignment explanation
Indices: 27112491--27112551 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
27112481 GACTAGATAT
*
27112491 ATTTTTTAGAATTTTAGGAAATTTTTA-
1 ATTTTTTAGAATTTTAGG-AATATTTAC
*
27112518 ATTTTTTAGAATTTTATGAATATTTAC
1 ATTTTTTAGAATTTTAGGAATATTTAC
27112545 ATTTTTT
1 ATTTTTT
27112552 CAAAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (27 bp):
ATTTTTTAGAATTTTAGGAATATTTAC
Found at i:27113164 original size:16 final size:15
Alignment explanation
Indices: 27113140--27113174 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
27113130 AAATATTATA
27113140 AAATTTAAAATAAAT
1 AAATTTAAAATAAAT
*
27113155 AAATTATAAAATTAAT
1 AAATT-TAAAATAAAT
27113171 AAAT
1 AAAT
27113175 ACAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTTAAAATAAAT
Found at i:27113183 original size:23 final size:21
Alignment explanation
Indices: 27113130--27113183 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
27113120 AAACATTTAA
*
27113130 AAATATTATAAAATTTAAAAT
1 AAATATTATAAAATTAAAAAT
27113151 AAATAAATTATAAAATTAATAAAT
1 AAAT--ATTATAAAATTAA-AAAT
27113175 ACAATATTA
1 A-AATATTA
27113184 AGTTTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
23 16 0.57
24 5 0.18
25 3 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATATTATAAAATTAAAAAT
Found at i:27118139 original size:17 final size:16
Alignment explanation
Indices: 27118117--27118163 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
27118107 TTTTTCAGCT
27118117 TTCTTTTCTTGCTCACA
1 TTCTTTT-TTGCTCACA
*
27118134 TTCTTTTTCGCTCACA
1 TTCTTTTTTGCTCACA
*
27118150 ATCTCTTTTTGCTC
1 TTCT-TTTTTGCTC
27118164 TCTTTCATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.11, C:0.30, G:0.06, T:0.53
Consensus pattern (16 bp):
TTCTTTTTTGCTCACA
Found at i:27118148 original size:16 final size:16
Alignment explanation
Indices: 27118125--27118163 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
27118115 CTTTCTTTTC
27118125 TTGCTCAC-ATTCTTT
1 TTGCTCACAATTCTTT
27118140 TTCGCTCACAATCTCTTT
1 TT-GCTCACAAT-TCTTT
27118158 TTGCTC
1 TTGCTC
27118164 TCTTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.10
16 6 0.29
17 6 0.29
18 7 0.33
ACGTcount: A:0.13, C:0.31, G:0.08, T:0.49
Consensus pattern (16 bp):
TTGCTCACAATTCTTT
Found at i:27118214 original size:18 final size:18
Alignment explanation
Indices: 27118175--27118217 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27118165 CTTTCATTCT
*
27118175 CTTTTTCTTTTTCAATTT
1 CTTTTTCTTTTTCAATTG
*
27118193 CTTTTTCTTTTTGACA-TG
1 CTTTTTCTTTTTCA-ATTG
27118211 CTTTTTC
1 CTTTTTC
27118218 GATTTCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.09, C:0.19, G:0.05, T:0.67
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTG
Found at i:27120547 original size:52 final size:51
Alignment explanation
Indices: 27120481--27120612 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
27120471 ATGAATAAAT
* * *
27120481 GAGTTACTTAATGCATGACTTAATTTAATGATGCAGACTTAAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTT-AACTAACATGA
* *
27120533 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
* *
27120583 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
27120613 CAGAACACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 32 0.46
51 15 0.21
52 23 0.33
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:27123779 original size:50 final size:50
Alignment explanation
Indices: 27123724--27123847 Score: 167
Period size: 50 Copynumber: 2.5 Consensus size: 50
27123714 TATTGAGGTT
* *
27123724 ATGAGAGGTCCCACGTAAGACCATGTCCGGGACATGGCGTTGGCACCAAA
1 ATGAGAGGTCCCACGTAAGACCATGTCCGGGACATGGCATGGGCACCAAA
* * *
27123774 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCACGTAAGACCATGTCCGGGACATGGCATGGGCACCAAA
** * *
27123824 ATGAGAACTTCCATGTAAGACCAT
1 ATGAGAGGTCCCACGTAAGACCAT
27123848 ATCTGGGATA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCCGGGACATGGCATGGGCACCAAA
Found at i:27126663 original size:21 final size:21
Alignment explanation
Indices: 27126638--27126677 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27126628 TGGGAAATTA
27126638 ATTTAAATG-TTTTGAATTATT
1 ATTTAAATGATTTT-AATTATT
*
27126659 ATTTAATTGATTTTAATTA
1 ATTTAAATGATTTTAATTA
27126678 AATAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTTAAATGATTTTAATTATT
Found at i:27128411 original size:119 final size:119
Alignment explanation
Indices: 27128199--27128681 Score: 732
Period size: 119 Copynumber: 4.1 Consensus size: 119
27128189 CCATTTGTGA
* ** *
27128199 TGCCTCCGGTAGGGCAGGTACATTGCTAACCGGACTGGCAGATCATGACATGTAGATATGTGTAA
1 TGCCTCCGGTAGGGTAGGTACATTGCTAACCGGACTGGCAGATCACAACATGCAGATATGTGTAA
** *
27128264 GACCATGTGGTAGAGACCCATGGGATCATATGATAATGAAAATATTCATGGTGT
66 GACCATGTGGTAGAGACCCATGACATCATATGACAATGAAAATATTCATGGTGT
* * *
27128318 TGCCTCCGGTAGGGTAGGTACATTGCTAACCGGACTGGCAAATCACGACATGCAGATATTTGTAA
1 TGCCTCCGGTAGGGTAGGTACATTGCTAACCGGACTGGCAGATCACAACATGCAGATATGTGTAA
* * *
27128383 GACCATGTGGTAGAGACCGATGGCATCATATGATAATGAAAATATTCATGGTGT
66 GACCATGTGGTAGAGACCCATGACATCATATGACAATGAAAATATTCATGGTGT
* * * * * *
27128437 TGCCTCTGGTAAGGTAGGTACATTGCTAACAGGACTGTCAGGTCATAACATGCAGATATGTGTAA
1 TGCCTCCGGTAGGGTAGGTACATTGCTAACCGGACTGGCAGATCACAACATGCAGATATGTGTAA
* *
27128502 GACCACGTGGTAGAGACCCATGACATCATATGACAATGAAAATGTTCATGGTGT
66 GACCATGTGGTAGAGACCCATGACATCATATGACAATGAAAATATTCATGGTGT
* * *
27128556 TGCCTCTGATAGGGTAGGTACATTGCTAACCGGACTGGCAGATCACAACATACAGATATGTGTAA
1 TGCCTCCGGTAGGGTAGGTACATTGCTAACCGGACTGGCAGATCACAACATGCAGATATGTGTAA
* *
27128621 AACCATGTGGTAGAGACCTATGACATCATATGACAATGAAAATATTCATGGTGT
66 GACCATGTGGTAGAGACCCATGACATCATATGACAATGAAAATATTCATGGTGT
27128675 TGCCTCC
1 TGCCTCC
27128682 AGTAAGATGT
Statistics
Matches: 331, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 331 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (119 bp):
TGCCTCCGGTAGGGTAGGTACATTGCTAACCGGACTGGCAGATCACAACATGCAGATATGTGTAA
GACCATGTGGTAGAGACCCATGACATCATATGACAATGAAAATATTCATGGTGT
Found at i:27131597 original size:18 final size:19
Alignment explanation
Indices: 27131576--27131617 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
27131566 AGTGTATGAG
*
27131576 AGAAATTGAGGTTGAA-AA
1 AGAAATTGAGATTGAAGAA
27131594 AGAAATTGAGATTGAAGAA
1 AGAAATTGAGATTGAAGAA
27131613 AGAAA
1 AGAAA
27131618 AGAAAATGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (19 bp):
AGAAATTGAGATTGAAGAA
Found at i:27141965 original size:16 final size:16
Alignment explanation
Indices: 27141941--27141977 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
27141931 AATAAACAGT
27141941 TAAATAAATT-GGAAA
1 TAAATAAATTGGGAAA
27141956 TAAATGAAATTGGGAAA
1 TAAAT-AAATTGGGAAA
27141973 TAAAT
1 TAAAT
27141978 TTTGATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 5 0.25
17 10 0.50
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.27
Consensus pattern (16 bp):
TAAATAAATTGGGAAA
Found at i:27145685 original size:20 final size:20
Alignment explanation
Indices: 27145656--27145709 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
27145646 TACAGGTTTT
*
27145656 CACTTCGGTGCCTCTATTTG
1 CACTTCGGTGCCTCTATCTG
* *
27145676 CACTTTGGTGCCTCTGTCTG
1 CACTTCGGTGCCTCTATCTG
27145696 CACTTCGGTGCCTC
1 CACTTCGGTGCCTC
27145710 CATTATGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.07, C:0.33, G:0.22, T:0.37
Consensus pattern (20 bp):
CACTTCGGTGCCTCTATCTG
Found at i:27147661 original size:19 final size:19
Alignment explanation
Indices: 27147632--27147670 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
27147622 AATGTTGGGA
27147632 AATGGAAATGAAATG-TGG
1 AATGGAAATGAAATGATGG
27147650 AATGGAACATGAAATGATGG
1 AATGGAA-ATGAAATGATGG
27147670 A
1 A
27147671 TTGAACTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 8 0.42
20 4 0.21
ACGTcount: A:0.46, C:0.03, G:0.31, T:0.21
Consensus pattern (19 bp):
AATGGAAATGAAATGATGG
Found at i:27147676 original size:19 final size:20
Alignment explanation
Indices: 27147639--27147682 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
27147629 GGAAATGGAA
27147639 ATGAAATGTGGAATGGAAC-
1 ATGAAATGTGGAATGGAACT
*
27147658 ATGAAATGATGG-ATTGAACT
1 ATGAAATG-TGGAATGGAACT
27147678 ATGAA
1 ATGAA
27147683 TATTAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (20 bp):
ATGAAATGTGGAATGGAACT
Found at i:27150098 original size:50 final size:50
Alignment explanation
Indices: 27149995--27150235 Score: 275
Period size: 50 Copynumber: 4.7 Consensus size: 50
27149985 GGGAATAAGA
* *
27149995 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGATG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
27150051 TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
27150101 TCCCATGTAACACCATGTCTGGGACATGGCTTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*** * * * **
27150151 TCCCCCATAAGACCATGTCTGGGATATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
27150201 TCCCATGTAAGACCATATCTGGGATATAGCATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
27150236 TAGTACAGAA
Statistics
Matches: 162, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 123 0.76
53 3 0.02
55 1 0.01
56 35 0.22
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:27157249 original size:50 final size:50
Alignment explanation
Indices: 27157132--27157374 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 50
27157122 GGGAATAAGA
* * * *
27157132 TCCCATGTAAGACCATGCCTGAGACATGGCATTGGCATCATTGAGATTATGAGATG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* * *
27157188 TCTCATATAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
27157238 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
27157288 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * *
27157338 TCTCATGTAACACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27157375 GTACAAAAAA
Statistics
Matches: 162, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 124 0.77
53 4 0.02
55 1 0.01
56 33 0.20
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:27157640 original size:12 final size:12
Alignment explanation
Indices: 27157623--27157661 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27157613 ATGAGTTATT
27157623 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
27157635 TAAGTAACCAAG
1 TAAGTAAGCAAG
* *
27157647 TAAGTGAGTAAG
1 TAAGTAAGCAAG
27157659 TAA
1 TAA
27157662 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:27163653 original size:16 final size:17
Alignment explanation
Indices: 27163632--27163665 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27163622 GGTCAAGCAA
27163632 ATCAAA-ACAAGATTTG
1 ATCAAATACAAGATTTG
*
27163648 ATCAAATACAAGTTTTG
1 ATCAAATACAAGATTTG
27163665 A
1 A
27163666 GGACGAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
ATCAAATACAAGATTTG
Found at i:27164917 original size:8 final size:8
Alignment explanation
Indices: 27164906--27164943 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
27164896 TCGAAAAAGT
27164906 GAAAAATA
1 GAAAAATA
27164914 GAAAAATA
1 GAAAAATA
*
27164922 TGAAAAAAA
1 -GAAAAATA
27164931 GAAAAA-A
1 GAAAAATA
27164938 GAAAAA
1 GAAAAA
27164944 ATGTTTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (8 bp):
GAAAAATA
Found at i:27169478 original size:44 final size:44
Alignment explanation
Indices: 27169407--27169959 Score: 268
Period size: 44 Copynumber: 12.3 Consensus size: 44
27169397 ACCTGATGCG
* * *
27169407 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATTCTTTATCTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCTTTATCTTA
* * *
27169451 ATTTGCTCCACTGTAATCTCAGGGAGATAGGATTAC--TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTTTATCTT-A
* *
27169495 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGGTGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTCT---TT--ATCT--T--A
* * ** * *
27169549 ATCTACTCTACTGTAA-CTTCAAAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCTTTATCTTA
* * *
27169593 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC--TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTTTATCTT-A
* *
27169637 ATCTACTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTCT---TT--ATCT--T--A
* * * * * *
27169691 ATCTACTCTACTGTAA-CTTTAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCTTTATCTTA
* *
27169735 ATCCGCTCCACTGTAATCTCAGGGAGATAAGATTAC--TAACTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTTTATC-TTA
** * * *
27169779 ATCTGCTCTGCTGTAATCTCAAGGAGATAAGATGC--GATC-T-
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCTTTATCTTA
* *
27169819 A-CT-CT--ACTGTAA-CTTCAGAGAGATAAGATCCTTTATCTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCTTTATCTTA
** * *
27169859 ATCCACTCCACTGTAATCTCAGGGAGATAGGATTAC--TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTTTATCTT-A
* * * **
27169903 GTCTGCT-CGCTGTAATCTCAGGGAGATAAGATT-TCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCTTTATCTT-A
27169946 ATCTGCTCCACTGT
1 ATCTGCTCCACTGT
27169960 TGCTTAGGGA
Statistics
Matches: 389, Mismatches: 72, Indels: 96
0.70 0.13 0.17
Matches are distributed among these distances:
35 1 0.00
36 20 0.05
38 5 0.01
39 3 0.01
40 2 0.01
41 2 0.01
42 2 0.01
43 56 0.14
44 202 0.52
45 12 0.03
46 2 0.01
48 6 0.02
49 2 0.01
50 4 0.01
51 6 0.02
53 10 0.03
54 54 0.14
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCTTTATCTTA
Found at i:27169578 original size:142 final size:142
Alignment explanation
Indices: 27169399--27169811 Score: 700
Period size: 142 Copynumber: 2.9 Consensus size: 142
27169389 GAGATAAGAC
* * **
27169399 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATCTTAATTTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
27169464 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
27169529 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
27169541 CTGGTGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
27169606 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
27169671 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
27169683 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * * * *
27169748 TAATCTCAGGGAGATAAGATTACTAACTTTAATCTGCTCTGCTGTAATCTCAAGGAGATAAGAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
27169812 GCGATCTACT
Statistics
Matches: 253, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 253 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:27169839 original size:124 final size:123
Alignment explanation
Indices: 27169685--27169934 Score: 419
Period size: 124 Copynumber: 2.0 Consensus size: 123
27169675 GCTTCAATCT
* * *
27169685 GATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTA
1 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCACTCCACTGTA
*
27169750 ATCTCAGGGAGATAAGATTACTAACTTTAATCTGCTCTGCTGTAATCTCAAGGAGATAA
66 ATCTCAGGGAGATAAGATTACTAACTTCAATCTGCTC-GCTGTAATCTCAAGGAGATAA
27169809 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCACTCCACTGTA
1 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCACTCCACTGTA
* * * *
27169874 ATCTCAGGGAGATAGGATTACTAGCTTCAGTCTGCTCGCTGTAATCTCAGGGAGATAA
66 ATCTCAGGGAGATAAGATTACTAACTTCAATCTGCTCGCTGTAATCTCAAGGAGATAA
27169932 GAT
1 GAT
27169935 TTCTGGCTTC
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
123 23 0.19
124 95 0.81
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (123 bp):
GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCACTCCACTGTA
ATCTCAGGGAGATAAGATTACTAACTTCAATCTGCTCGCTGTAATCTCAAGGAGATAA
Found at i:27169918 original size:43 final size:43
Alignment explanation
Indices: 27169869--27169953 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
27169859 ATCCACTCCA
* *
27169869 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAGTCTGCTCG
1 CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCG
* *
27169912 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTC
1 CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTC
27169954 CACTGTTGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (43 bp):
CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCG
Found at i:27169969 original size:43 final size:42
Alignment explanation
Indices: 27169867--27169977 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
27169857 TAATCCACTC
* *
27169867 CACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAGTCTGCT
1 CACTGT-ATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCT
* * *
27169910 CGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCT
1 CACTGT-ATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCT
* *
27169953 CCACTGT-TGCTTAGGGAGACAAGAT
1 -CACTGTAT-CTCAGGGAGATAAGAT
27169978 CTGTAATTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 52 0.90
44 5 0.09
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (42 bp):
CACTGTATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCT
Found at i:27182510 original size:14 final size:13
Alignment explanation
Indices: 27182456--27182510 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 13
27182446 TAATAAGCCT
27182456 AAAAATAATATTA
1 AAAAATAATATTA
* *
27182469 AACCAATAAAATTA
1 AA-AAATAATATTA
*
27182483 AAAAATAAT-GTA
1 AAAAATAATATTA
27182495 AAAAATAATATATA
1 AAAAATAATAT-TA
27182509 AA
1 AA
27182511 TATAGTATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
12 11 0.33
13 7 0.21
14 15 0.45
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (13 bp):
AAAAATAATATTA
Found at i:27185111 original size:4 final size:4
Alignment explanation
Indices: 27185102--27185128 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
27185092 CATCTTATTA
27185102 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
27185129 ATTATATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:27185915 original size:18 final size:18
Alignment explanation
Indices: 27185844--27185909 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
27185834 ATAATGTAGA
* *
27185844 TGAAAAAATAATTATATT
1 TGAAATAATTATTATATT
* **
27185862 TGAAATATTTAACATA-T
1 TGAAATAATTATTATATT
**
27185879 AAAAATAATTATTATATT
1 TGAAATAATTATTATATT
27185897 TGAAATAATTATT
1 TGAAATAATTATT
27185910 TCATTTTATA
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
17 12 0.34
18 23 0.66
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (18 bp):
TGAAATAATTATTATATT
Found at i:27187748 original size:32 final size:32
Alignment explanation
Indices: 27187709--27187774 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
27187699 AAATAAAATA
27187709 ATCCCTTTCAAAAAAAAAAAAACTTGTCAATC
1 ATCCCTTTCAAAAAAAAAAAAACTTGTCAATC
27187741 ATCCCTTTCAAAAAAAAAAAAACTTGTCAATC
1 ATCCCTTTCAAAAAAAAAAAAACTTGTCAATC
27187773 AT
1 AT
27187775 GTTTCATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (32 bp):
ATCCCTTTCAAAAAAAAAAAAACTTGTCAATC
Found at i:27190758 original size:21 final size:21
Alignment explanation
Indices: 27190717--27190759 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27190707 ACACTTGATG
**
27190717 AAGATAAGAAGCAAACTTACA
1 AAGATAAGAAGCAAAAATACA
27190738 AAGATCAAGAA-CAAAAATACA
1 AAGAT-AAGAAGCAAAAATACA
27190759 A
1 A
27190760 TCATTTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.63, C:0.14, G:0.12, T:0.12
Consensus pattern (21 bp):
AAGATAAGAAGCAAAAATACA
Found at i:27192379 original size:35 final size:36
Alignment explanation
Indices: 27192333--27192401 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
27192323 TTTCAATCAT
27192333 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
27192368 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
27192402 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:27194403 original size:36 final size:36
Alignment explanation
Indices: 27194347--27194427 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
27194337 TATTTAACAT
*
27194347 ATTATTTAT-AAAAAATATACATTAATAGAAATTTG
1 ATTATTTATAAAAAAATATACATTAACAGAAATTTG
27194382 ATTATTTATAAAAAAATATACATTAACAGAAATTTG
1 ATTATTTATAAAAAAATATACATTAACAGAAATTTG
*
27194418 ATTATATATA
1 ATTATTTATA
27194428 TGAGTTAGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 9 0.21
36 34 0.79
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.40
Consensus pattern (36 bp):
ATTATTTATAAAAAAATATACATTAACAGAAATTTG
Found at i:27195318 original size:28 final size:28
Alignment explanation
Indices: 27195278--27195334 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
27195268 TCTCTAGCAT
* *
27195278 CAAATAGTAACAGATCATTAAGTGCTAA
1 CAAATACTAACAGATCAATAAGTGCTAA
27195306 CAAATACTAACAGATCAATAAGTGCTAA
1 CAAATACTAACAGATCAATAAGTGCTAA
27195334 C
1 C
27195335 CAGAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (28 bp):
CAAATACTAACAGATCAATAAGTGCTAA
Found at i:27196098 original size:24 final size:24
Alignment explanation
Indices: 27196069--27196116 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27196059 AAGGTGAAGG
27196069 TGAGCATGGCTACTACAAAGGCAC
1 TGAGCATGGCTACTACAAAGGCAC
27196093 TGAGCATGGCTACTACAAAGGCAC
1 TGAGCATGGCTACTACAAAGGCAC
27196117 ACATACCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (24 bp):
TGAGCATGGCTACTACAAAGGCAC
Found at i:27200298 original size:5 final size:5
Alignment explanation
Indices: 27200288--27200313 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27200278 TGAGCATTCG
27200288 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
27200314 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:27201189 original size:9 final size:9
Alignment explanation
Indices: 27201175--27201211 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27201165 TATAGTTTGA
27201175 TATTCGAAT
1 TATTCGAAT
27201184 TATTCGAAT
1 TATTCGAAT
*
27201193 TATTCGAGT
1 TATTCGAAT
27201202 TATTCGAAT
1 TATTCGAAT
27201211 T
1 T
27201212 CGAAAAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27201403 original size:15 final size:15
Alignment explanation
Indices: 27201379--27201430 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
27201369 CAATAATAGC
27201379 AATAATAGTAATAAT
1 AATAATAGTAATAAT
*
27201394 AATGAA-AGTAGTAAT
1 AAT-AATAGTAATAAT
*
27201409 AATAATATTAATAAT
1 AATAATAGTAATAAT
*
27201424 AAAAATA
1 AATAATA
27201431 AATAAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.06
15 27 0.87
16 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (15 bp):
AATAATAGTAATAAT
Found at i:27202300 original size:15 final size:15
Alignment explanation
Indices: 27202280--27202309 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27202270 TTCGGGCTAG
*
27202280 TGGTATTGGGCTGAA
1 TGGTATTGGACTGAA
27202295 TGGTATTGGACTGAA
1 TGGTATTGGACTGAA
27202310 GTCTGTATTG
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:0.23, C:0.07, G:0.37, T:0.33
Consensus pattern (15 bp):
TGGTATTGGACTGAA
Found at i:27203102 original size:26 final size:26
Alignment explanation
Indices: 27203072--27203126 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
27203062 CCTCAAAAAA
*
27203072 TTCAGACAACCCTAAAAACCAAGGAC
1 TTCAGACAACCCCAAAAACCAAGGAC
*
27203098 TTCAGACAACCCCAAAAACCAATGAC
1 TTCAGACAACCCCAAAAACCAAGGAC
27203124 TTC
1 TTC
27203127 TTTTGGTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.33, G:0.09, T:0.15
Consensus pattern (26 bp):
TTCAGACAACCCCAAAAACCAAGGAC
Found at i:27205506 original size:24 final size:25
Alignment explanation
Indices: 27205479--27205560 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
27205469 ACTTTAGCGC
27205479 GCTCTCTGATTATTAACA-ATTGGT
1 GCTCTCTGATTATTAACACATTGGT
* * * *
27205503 GCTCTCTGACTACTAGCACGTTGGT
1 GCTCTCTGATTATTAACACATTGGT
* * **
27205528 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTGATTATTAACACATTGGT
27205553 GCTCTCTG
1 GCTCTCTG
27205561 TTTAGCACAT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 15 0.31
25 34 0.69
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTATTAACACATTGGT
Found at i:27205531 original size:25 final size:25
Alignment explanation
Indices: 27205498--27205560 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
27205488 TTATTAACAA
27205498 TTGGTGCTCTCTGACTACTAGCACG
1 TTGGTGCTCTCTGACTACTAGCACG
* *
27205523 TTGGTGCTCTCTGATTATTAGCACG
1 TTGGTGCTCTCTGACTACTAGCACG
**
27205548 TCAGTGCTCTCTG
1 TTGGTGCTCTCTG
27205561 TTTAGCACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (25 bp):
TTGGTGCTCTCTGACTACTAGCACG
Found at i:27205568 original size:22 final size:22
Alignment explanation
Indices: 27205516--27205606 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
27205506 CTCTGACTAC
**
27205516 TAGCACGTTGGTGCTCTCTGATTAT
1 TAGCACGTCAGTGCTCTCTG--T-T
27205541 TAGCACGTCAGTGCTCTCTGTT
1 TAGCACGTCAGTGCTCTCTGTT
* * *
27205563 TAGCACATCTGTGCTCTCTGTA
1 TAGCACGTCAGTGCTCTCTGTT
* *
27205585 TAGCACTTTAGTGCTCTCTGTT
1 TAGCACGTCAGTGCTCTCTGTT
27205607 CATTAGTGCA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
22 38 0.67
23 1 0.02
25 18 0.32
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (22 bp):
TAGCACGTCAGTGCTCTCTGTT
Found at i:27206055 original size:2 final size:2
Alignment explanation
Indices: 27206041--27206081 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
27206031 ATTTAGTTAT
*
27206041 TA TA TA T- TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27206082 ATGAATTAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27209123 original size:49 final size:50
Alignment explanation
Indices: 27208967--27209212 Score: 219
Period size: 49 Copynumber: 4.8 Consensus size: 50
27208957 ATTTGGGTAA
* * *
27208967 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TATG
* ** * *
27209023 AGAGGTCCCATGTAAGACCGTGTCTGGGACATGGTGTTGACACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
** *
27209073 AGAGGTCCCCCGTAAGACCATGT-TGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
** * * *
27209122 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATATG
* ** * *
27209171 AAACATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27209213 TGTTATTGTC
Statistics
Matches: 157, Mismatches: 31, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 78 0.50
50 39 0.25
51 2 0.01
55 1 0.01
56 36 0.23
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
Found at i:27210582 original size:25 final size:27
Alignment explanation
Indices: 27210548--27210611 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
27210538 TTAGCTCTTA
* *
27210548 TGAGCTTCCCGATT-A-TGGGTTTTTG
1 TGAGCTTCCCGATTAATTGGCTCTTTG
27210573 TGAGCTTCCCG-TTAATTGGCTCTTTG
1 TGAGCTTCCCGATTAATTGGCTCTTTG
*
27210599 TGAGCTTCTCGAT
1 TGAGCTTCCCGAT
27210612 GTGGCTCGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.06
25 12 0.36
26 18 0.55
27 1 0.03
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.42
Consensus pattern (27 bp):
TGAGCTTCCCGATTAATTGGCTCTTTG
Found at i:27217673 original size:30 final size:30
Alignment explanation
Indices: 27217616--27217677 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
27217606 GCTTTTTGAA
** *
27217616 AATATTTACAAAAAGAGGTATATAATTTTT
1 AATATTTACAAAAAGAGCAACATAATTTTT
27217646 AATATTTACAAAAAGAGCAACCA-AATTTTT
1 AATATTTACAAAAAGAGCAA-CATAATTTTT
27217676 AA
1 AA
27217678 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGCAACATAATTTTT
Found at i:27221011 original size:23 final size:23
Alignment explanation
Indices: 27220985--27221129 Score: 184
Period size: 23 Copynumber: 6.3 Consensus size: 23
27220975 ATAAGTGCCA
27220985 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27221008 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * *
27221031 CACTGAAATGCAGCAGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
27221054 CACTAAAATGCAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27221077 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27221100 CACTGA-ATTGTACCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
27221123 CACTGAT
1 CACTGAT
27221130 CAATAACACA
Statistics
Matches: 107, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
22 1 0.01
23 106 0.99
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27221121 original size:69 final size:69
Alignment explanation
Indices: 27220996--27221126 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
27220986 ACTGATATGT
* *
27220996 AGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGCAGCAGTAGCTACCACTAAA
1 AGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGCACCAGAAGCTACCACTAAA
27221061 ATGC
66 ATGC
* * *
27221065 AGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAATTGTACCCGAAGCTACCACT
1 AGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGCACCAGAAGCTACCACT
27221127 GATCAATAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (69 bp):
AGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGCACCAGAAGCTACCACTAAA
ATGC
Found at i:27221365 original size:18 final size:17
Alignment explanation
Indices: 27221339--27221377 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27221329 ATTTTCCTTC
27221339 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
27221356 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
27221374 CACA
1 CACA
27221378 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:27221531 original size:20 final size:21
Alignment explanation
Indices: 27221498--27221536 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
27221488 TTCTTCTTTC
*
27221498 TTAATCTATATTAA-AACAAT
1 TTAATATATATTAACAACAAT
*
27221518 TTAATATATTTTAACAACA
1 TTAATATATATTAACAACA
27221537 TTCCGTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAATATATATTAACAACAAT
Found at i:27228391 original size:23 final size:23
Alignment explanation
Indices: 27228348--27228441 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
27228338 ATAAGTGCCA
* *
27228348 CACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
27228371 CATTGAAATGTAGCTGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
27228394 CACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
27228417 CACTGAATTGTACCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
27228440 CA
1 CA
27228442 TTGATCAATA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:27228415 original size:46 final size:46
Alignment explanation
Indices: 27228348--27228446 Score: 153
Period size: 46 Copynumber: 2.2 Consensus size: 46
27228338 ATAAGTGCCA
* * *
27228348 CACTGATATGTAGCCGTAGCTACCATTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGTAGCTACCACTGAAATGTACCCGAAGCTAC
*
27228394 CACTGATATGTAGCCGTAGCTACCACTGAATTGTACCCGAAGCTAC
1 CACTGATATGTAGCCGTAGCTACCACTGAAATGTACCCGAAGCTAC
*
27228440 CATTGAT
1 CACTGAT
27228447 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (46 bp):
CACTGATATGTAGCCGTAGCTACCACTGAAATGTACCCGAAGCTAC
Found at i:27228698 original size:18 final size:17
Alignment explanation
Indices: 27228672--27228710 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27228662 ATTTTCCTTC
27228672 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
27228689 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
27228707 CACA
1 CACA
27228711 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:27236026 original size:17 final size:17
Alignment explanation
Indices: 27236004--27236038 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27235994 AAGGAGAGCA
27236004 CCATTAGCAGAATCGTC
1 CCATTAGCAGAATCGTC
27236021 CCATTAGCAGAATCGTC
1 CCATTAGCAGAATCGTC
27236038 C
1 C
27236039 ACAACCATCC
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:0.31, G:0.17, T:0.23
Consensus pattern (17 bp):
CCATTAGCAGAATCGTC
Found at i:27241967 original size:20 final size:20
Alignment explanation
Indices: 27241953--27241992 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27241943 TATTTATTTT
27241953 CTTACCATTCCATTTACTTA
1 CTTACCATTCCATTTACTTA
* *
27241973 CTTTCCATTTCATTTACTTA
1 CTTACCATTCCATTTACTTA
27241993 GCATAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.50
Consensus pattern (20 bp):
CTTACCATTCCATTTACTTA
Found at i:27245109 original size:2 final size:2
Alignment explanation
Indices: 27245102--27245135 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27245092 AAATTCATTG
27245102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27245136 GCATATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27248580 original size:20 final size:20
Alignment explanation
Indices: 27248547--27248586 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27248537 AATAAATATA
** *
27248547 TATAAAAATTGAAAAGAGTT
1 TATAAAAAAGGAAAAAAGTT
27248567 TATAAAAAAGGAAAAAAGTT
1 TATAAAAAAGGAAAAAAGTT
27248587 AAATATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (20 bp):
TATAAAAAAGGAAAAAAGTT
Found at i:27253976 original size:15 final size:15
Alignment explanation
Indices: 27253956--27253985 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27253946 ATTAACCGAA
27253956 TATAATAATTATAAT
1 TATAATAATTATAAT
*
27253971 TATAATGATTATAAT
1 TATAATAATTATAAT
27253986 AATGTTTGAC
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATAATAATTATAAT
Found at i:27257782 original size:30 final size:30
Alignment explanation
Indices: 27257713--27257786 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
27257703 TTCCCATAAT
*
27257713 AGAACAGCCACAAAGGCTCACATGTAACAG
1 AGAACAGCCACAAAGGCTCACATATAACAG
** * *
27257743 A-TTCAGCCACAAGGGCTCACATATAATAG
1 AGAACAGCCACAAAGGCTCACATATAACAG
27257772 AGAACAGCCACAAAG
1 AGAACAGCCACAAAG
27257787 AGTTCTACAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 24 0.69
30 11 0.31
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.12
Consensus pattern (30 bp):
AGAACAGCCACAAAGGCTCACATATAACAG
Found at i:27263686 original size:12 final size:13
Alignment explanation
Indices: 27263669--27263715 Score: 55
Period size: 12 Copynumber: 3.7 Consensus size: 13
27263659 AATGTGATTT
27263669 AAAATAT-TATAA
1 AAAATATATATAA
27263681 AAAATATATATATA
1 AAAATATATATA-A
27263695 AATAAT-TATATAA
1 AA-AATATATATAA
27263708 AAAA-ATAT
1 AAAATATAT
27263716 CATCAGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 12 0.39
13 7 0.23
14 9 0.29
15 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATATATATAA
Found at i:27263704 original size:16 final size:15
Alignment explanation
Indices: 27263672--27263715 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
27263662 GTGATTTAAA
27263672 ATAT-TATAAAAAAT
1 ATATATATAAAAAAT
*
27263686 ATATATATAAATAAT
1 ATATATATAAAAAAT
27263701 -TATATA-AAAAAAT
1 ATATATATAAAAAAT
27263714 AT
1 AT
27263716 CATCAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 6 0.23
14 11 0.42
15 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATATATAAAAAAT
Found at i:27264222 original size:10 final size:9
Alignment explanation
Indices: 27264203--27264271 Score: 79
Period size: 9 Copynumber: 7.4 Consensus size: 9
27264193 CAATAATTAT
27264203 TAATTTTTA
1 TAATTTTTA
27264212 TAATTTATTA
1 TAATTT-TTA
27264222 TAATTTTTAA
1 TAATTTTT-A
27264232 TAA-TTTTA
1 TAATTTTTA
27264240 TAATTTTTA
1 TAATTTTTA
*
27264249 CT-ATTCTTAA
1 -TAATT-TTTA
27264259 TAATTTTTA
1 TAATTTTTA
27264268 TAAT
1 TAAT
27264272 ATTATGTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
8 4 0.08
9 28 0.54
10 20 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:27264229 original size:20 final size:18
Alignment explanation
Indices: 27264187--27264276 Score: 80
Period size: 18 Copynumber: 4.9 Consensus size: 18
27264177 TTTGTATGTT
*
27264187 ATTTTTCAATAATTAT-TA
1 ATTTTT-AATAATTTTATA
27264205 ATTTTT-ATAATTTATTATA
1 ATTTTTAATAA-TT-TTATA
27264224 ATTTTTAATAATTTTATA
1 ATTTTTAATAATTTTATA
*
27264242 ATTTTTACT-ATTCTTAATA
1 ATTTTTAATAATT-TT-ATA
*
27264261 ATTTTT-ATAATATTAT
1 ATTTTTAATAATTTTAT
27264277 GTCAATGATG
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
16 4 0.07
17 7 0.11
18 25 0.41
19 21 0.34
20 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTAATAATTTTATA
Found at i:27264458 original size:21 final size:21
Alignment explanation
Indices: 27264432--27264476 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
27264422 TCATGTATAA
*
27264432 TTTTTAC-CATTTTAAATATTT
1 TTTTTACAAATTTT-AATATTT
27264453 TTTTTACAAATTTTAATATTT
1 TTTTTACAAATTTTAATATTT
27264474 TTT
1 TTT
27264477 ATAATATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTACAAATTTTAATATTT
Found at i:27266404 original size:16 final size:19
Alignment explanation
Indices: 27266383--27266423 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
27266373 TGAAAAGTAA
27266383 TTTTTAGA-AA-ATAA-AT
1 TTTTTAGATAATATAATAT
27266399 TTTTTAGATAATATAATAT
1 TTTTTAGATAATATAATAT
27266418 TTTTTA
1 TTTTTA
27266424 ATGTTTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 4 0.18
19 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTTAGATAATATAATAT
Found at i:27266859 original size:23 final size:22
Alignment explanation
Indices: 27266832--27266876 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
27266822 TTATTTAAAC
27266832 AAATACTCATATTTATATAATTA
1 AAATACTCATATTTATA-AATTA
* *
27266855 AAATATTCATATTTTTAAATTA
1 AAATACTCATATTTATAAATTA
27266877 GGTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATACTCATATTTATAAATTA
Found at i:27268601 original size:16 final size:16
Alignment explanation
Indices: 27268582--27268641 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
27268572 TGAAATATTA
27268582 AATAATTTATTAAAAT
1 AATAATTTATTAAAAT
*
27268598 AATAATTTA-T--ATT
1 AATAATTTATTAAAAT
* *
27268611 AGTAATTTGTTAAAAT
1 AATAATTTATTAAAAT
27268627 AATAAATTATATTAA
1 AAT-AATT-TATTAA
27268642 TAATTTATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
13 9 0.27
14 1 0.03
15 1 0.03
16 13 0.39
17 4 0.12
18 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AATAATTTATTAAAAT
Found at i:27268626 original size:29 final size:29
Alignment explanation
Indices: 27268576--27268651 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
27268566 ATAAATTGAA
*
27268576 ATATTAAATAATTTATTAAAATAATAATTT
1 ATATT-AATAATTTATTAAAATAATAAATT
* *
27268606 ATATTAGTAATTTGTTAAAATAATAAATT
1 ATATTAATAATTTATTAAAATAATAAATT
27268635 ATATTAATAATTTATTA
1 ATATTAATAATTTATTA
27268652 TATGGTTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 36 0.88
30 5 0.12
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
ATATTAATAATTTATTAAAATAATAAATT
Found at i:27268651 original size:16 final size:16
Alignment explanation
Indices: 27268576--27268654 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
27268566 ATAAATTGAA
27268576 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
* *
27268593 AAAATAATAA--T-TT
1 ATATTAATAATTTATT
* *
27268606 ATATTAGTAATTTGTT
1 ATATTAATAATTTATT
**
27268622 A-A--AATAATAAATT
1 ATATTAATAATTTATT
27268635 ATATTAATAATTTATT
1 ATATTAATAATTTATT
27268651 ATAT
1 ATAT
27268655 GGTTAGATAT
Statistics
Matches: 45, Mismatches: 11, Indels: 13
0.65 0.16 0.19
Matches are distributed among these distances:
13 17 0.38
14 2 0.04
15 2 0.04
16 21 0.47
17 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:27275346 original size:20 final size:19
Alignment explanation
Indices: 27275317--27275393 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 19
27275307 AGCTAATAAC
27275317 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
* *
27275336 AAGCTCGAATGAGCTGACTT
1 GAGCTC-AATGAGCTGAATT
*
27275356 GAGCTCGAATGAGCTGACTT
1 GAGCTC-AATGAGCTGAATT
27275376 GAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
27275394 CCACATGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 7 0.13
20 45 0.87
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:27275350 original size:10 final size:10
Alignment explanation
Indices: 27275317--27275370 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
27275307 AGCTAATAAC
27275317 GAGCTC-AAT
1 GAGCTCGAAT
27275326 GAGCT-GAATT
1 GAGCTCGAA-T
*
27275336 AAGCTCGAAT
1 GAGCTCGAAT
*
27275346 GAGCT-GACTT
1 GAGCTCGA-AT
27275356 GAGCTCGAAT
1 GAGCTCGAAT
27275366 GAGCT
1 GAGCT
27275371 GACTTGAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
9 9 0.25
10 22 0.61
11 5 0.14
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (10 bp):
GAGCTCGAAT
Found at i:27279150 original size:51 final size:50
Alignment explanation
Indices: 27279070--27279267 Score: 220
Period size: 51 Copynumber: 3.9 Consensus size: 50
27279060 TGCCTATAAA
* *
27279070 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATA-GATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-AGGAT-ATGGT
* * * *
27279121 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAGGATATGGT
* * * * *
27279172 CACGTGTGTAGTACTATGTACAGGCTACTACGTGAACCGAA-AAGTTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGGA-TATGGT
* * *
27279222 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGGATA
27279268 ATAATTACAC
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
50 46 0.37
51 74 0.60
52 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGGATATGGT
Found at i:27280855 original size:19 final size:19
Alignment explanation
Indices: 27280831--27280870 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27280821 ATTAATTTTG
27280831 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
27280850 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
27280869 AT
1 AT
27280871 ATGGTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:27281332 original size:29 final size:29
Alignment explanation
Indices: 27281300--27281397 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 29
27281290 TTTTAATAGT
27281300 TTAATATTAAATTATATTTAATAATTATC
1 TTAATATTAAATTATATTTAATAATTATC
* *
27281329 TTAATAGTATTTATTAATTTAATATTAAAGTGATTATC
1 TT-A-A-TA-TTA--AA-TT-ATATTTAA-TAATTATC
*
27281367 TTAATATTAAATT-TAATTTAATATTTATC
1 TTAATATTAAATTAT-ATTTAATAATTATC
27281396 TT
1 TT
27281398 GTAGATAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 20
0.68 0.06 0.25
Matches are distributed among these distances:
29 11 0.20
30 6 0.11
31 3 0.06
32 4 0.07
33 3 0.06
34 3 0.06
35 4 0.07
36 3 0.06
37 8 0.15
38 9 0.17
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (29 bp):
TTAATATTAAATTATATTTAATAATTATC
Found at i:27281333 original size:37 final size:37
Alignment explanation
Indices: 27281282--27281393 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 37
27281272 ATTCCAAAAA
* *
27281282 TAATATTATTTTAATAGTTTAATATTAAATT-ATATT
1 TAATATTATCTTAATAGTTTAATATTAATTTAATATT
27281318 TAATAATTATCTTAATAGTATT--TATTAATTTAATATT
1 TAAT-ATTATCTTAATAGT-TTAATATTAATTTAATATT
* *
27281355 AAAGTGATTATCTTAATA-TTAAAT-TTAATTTAATATT
1 TAA-T-ATTATCTTAATAGTTTAATATTAATTTAATATT
27281392 TA
1 TA
27281394 TCTTGTAGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
36 13 0.20
37 35 0.55
38 16 0.25
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATATT
Found at i:27284216 original size:42 final size:42
Alignment explanation
Indices: 27284166--27284260 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
27284156 TACGAATGGA
* * *
27284166 ACTAAGTGTACGAAACTAAAATGACGACGTTGAATAACGGGC
1 ACTAAGTGTACGAAACAAAAATGACGACGTCGAATAAAGGGC
** * *
27284208 ACTAAGTGTGTGAAACAAAAATGGCGATGTCGAATAAAGGGC
1 ACTAAGTGTACGAAACAAAAATGACGACGTCGAATAAAGGGC
27284250 ACTAAGTGTAC
1 ACTAAGTGTAC
27284261 AATACCAAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (42 bp):
ACTAAGTGTACGAAACAAAAATGACGACGTCGAATAAAGGGC
Found at i:27284726 original size:50 final size:48
Alignment explanation
Indices: 27284667--27284895 Score: 209
Period size: 50 Copynumber: 4.7 Consensus size: 48
27284657 GGCAGTGAGT
* * *
27284667 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATCGAGAA
1 GTGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCAC-G-TAGAGAA
*
27284717 GTGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCACGGGTAGAGGA
1 GTGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCAC--GTAGAGAA
* * * * *
27284767 GAGTTAGTGTAAGACCATGTCTGGGACGTGGCATC-G-AC-TTGAGATGA
1 GTGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCACGTAGAGA--A
* *
27284814 GTGTTAGTGTAAGACCATATCTGGGACATGGCATCGGCACCGATATGTG-A
1 GTGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCA-CG-TA-GAGAA
* * *
27284864 -TCCCA-TGTAAGACCATATCTGGGATATGGCAT
1 GTGCTAGTGTAAGACCATATCTGGGACATGGCAT
27284896 TGACATCCTA
Statistics
Matches: 150, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
45 4 0.03
47 33 0.22
48 29 0.19
49 4 0.03
50 76 0.51
51 1 0.01
52 1 0.01
53 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCACGTAGAGAA
Found at i:27284847 original size:97 final size:99
Alignment explanation
Indices: 27284671--27284853 Score: 284
Period size: 97 Copynumber: 1.9 Consensus size: 99
27284661 GTGAGTGTGC
27284671 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATCGAGAAGTGCTAGTGTAAGACCATA
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGA-CGAGAAGTGCTAGTGTAAGACCATA
27284736 TCTGGGACATGGCATCGGCACGGGTAGAGGAGAGT
65 TCTGGGACATGGCATCGGCACGGGTAGAGGAGAGT
* * *
27284771 TAGTGTAAGACCATGTCTGGGACGTGGCATC-G-ACTTGA-GATG-AGTGTTAGTGTAAGACCAT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-AGACGA-GAAGTGCTAGTGTAAGACCAT
27284832 ATCTGGGACATGGCATCGGCAC
64 ATCTGGGACATGGCATCGGCAC
27284854 CGATATGTGA
Statistics
Matches: 78, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
97 42 0.54
98 3 0.04
99 3 0.04
100 30 0.38
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.22
Consensus pattern (99 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGACGAGAAGTGCTAGTGTAAGACCATAT
CTGGGACATGGCATCGGCACGGGTAGAGGAGAGT
Found at i:27292221 original size:37 final size:39
Alignment explanation
Indices: 27292174--27292280 Score: 104
Period size: 37 Copynumber: 2.9 Consensus size: 39
27292164 TAAAAATAAT
* *
27292174 ATTATTTTAATAGTTTAATATTAAATTTAAT-TT-A-TT
1 ATTATCTTAATAGTTTAATATTAAATTTAATATTAAGTG
*
27292210 ACTTATCTTAATAGTATT-GTATT-AATTTAATATTAAAGTG
1 A-TTATCTTAATAGT-TTAATATTAAATTTAATATT-AAGTG
27292250 ATTATCTTAATA--TTAA-ATTAAATTTAATATT
1 ATTATCTTAATAGTTTAATATTAAATTTAATATT
27292281 TATTTTGTAG
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
36 14 0.24
37 29 0.49
38 2 0.03
39 12 0.20
40 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (39 bp):
ATTATCTTAATAGTTTAATATTAAATTTAATATTAAGTG
Found at i:27292370 original size:59 final size:56
Alignment explanation
Indices: 27292262--27292372 Score: 150
Period size: 59 Copynumber: 1.9 Consensus size: 56
27292252 TATCTTAATA
** * *
27292262 TTAAATTAAATTTAATATTTATTTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAAATTAAATTTAATATTTATTTTCAAGATAAATATTATATTAATTTAATAAGAT
*
27292318 TTAATATTAAATTTAATCTATTATTTATCAAGATAAATATTATATTAATTTAATA
1 TTAA-ATTAAATTTAATAT-TTATTT-TCAAGATAAATATTATATTAATTTAATA
27292373 TTAAAGTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 4 0.09
57 13 0.28
58 6 0.13
59 24 0.51
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (56 bp):
TTAAATTAAATTTAATATTTATTTTCAAGATAAATATTATATTAATTTAATAAGAT
Found at i:27294738 original size:28 final size:26
Alignment explanation
Indices: 27294674--27294738 Score: 60
Period size: 28 Copynumber: 2.4 Consensus size: 26
27294664 AGTGAAAAAA
27294674 TTAATTTTT-TATATAAAAATTATTT
1 TTAATTTTTATATATAAAAATTATTT
*** *
27294699 TTAAAAAATTATCATATAAGAATTATTGT
1 TT-AATTTTTAT-ATATAAAAATTATT-T
27294728 TTAATTTTTAT
1 TTAATTTTTAT
27294739 TTACATGAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
25 2 0.07
26 4 0.14
27 1 0.03
28 19 0.66
29 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (26 bp):
TTAATTTTTATATATAAAAATTATTT
Found at i:27294907 original size:13 final size:13
Alignment explanation
Indices: 27294889--27294914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27294879 AACCGAACGG
27294889 AATTAAATTATCA
1 AATTAAATTATCA
27294902 AATTAAATTATCA
1 AATTAAATTATCA
27294915 TGATTCGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAAATTATCA
Found at i:27297624 original size:19 final size:20
Alignment explanation
Indices: 27297573--27297625 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
27297563 ATAAAATAAA
*
27297573 ATAAAAAATAA-ATATTCTC
1 ATAAAAAATAATTTATTCTC
* *
27297592 ATAATAATATAATTTATT-TT
1 ATAA-AAAATAATTTATTCTC
27297612 ATAAAAAATAATTT
1 ATAAAAAATAATTT
27297626 TTAATCGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.46
20 11 0.39
21 4 0.14
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAAATAATTTATTCTC
Found at i:27303755 original size:60 final size:60
Alignment explanation
Indices: 27303667--27303781 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
27303657 ATAGGTTGTG
* * * *
27303667 TTTTGGGCCAAATGTAGGTCAGTCTCTTGGGCATGTTAGTAGACAGAATAATGGGTAGTA
1 TTTTGGGCCAAATGCAGGCCAATCTCTTGGGCAGGTTAGTAGACAGAATAATGGGTAGTA
* * *
27303727 TTTTGGGCCAAATGCAGGCCAATTTCTTGGGCCGGTTAGTGGACAGAATAATGGG
1 TTTTGGGCCAAATGCAGGCCAATCTCTTGGGCAGGTTAGTAGACAGAATAATGGG
27303782 CCGAATAGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (60 bp):
TTTTGGGCCAAATGCAGGCCAATCTCTTGGGCAGGTTAGTAGACAGAATAATGGGTAGTA
Found at i:27303794 original size:60 final size:60
Alignment explanation
Indices: 27303670--27303794 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
27303660 GGTTGTGTTT
* * * * * * **
27303670 TGGGCCAAATGTAGGTCAGTCTCTTGGGCATGTTAGTAGACAGAATAATGGGTAGTATTT
1 TGGGCCAAATGCAGGCCAATCTCTTGGGCAGGTTAGTAGACAGAATAATGGGCAGAATAG
* * * *
27303730 TGGGCCAAATGCAGGCCAATTTCTTGGGCCGGTTAGTGGACAGAATAATGGGCCGAATAG
1 TGGGCCAAATGCAGGCCAATCTCTTGGGCAGGTTAGTAGACAGAATAATGGGCAGAATAG
27303790 TGGGC
1 TGGGC
27303795 AGGTCAATGC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (60 bp):
TGGGCCAAATGCAGGCCAATCTCTTGGGCAGGTTAGTAGACAGAATAATGGGCAGAATAG
Found at i:27307918 original size:24 final size:24
Alignment explanation
Indices: 27307897--27307943 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27307887 TTTGTTTATT
27307897 TATTTTCTCG-CTTTGATATTTAA
1 TATTTTCTCGCCTTTGATATTTAA
* *
27307920 TATTTTTTGGCCTTTGATATTTAA
1 TATTTTCTCGCCTTTGATATTTAA
27307944 AGTATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (24 bp):
TATTTTCTCGCCTTTGATATTTAA
Found at i:27308971 original size:28 final size:28
Alignment explanation
Indices: 27308940--27309033 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 28
27308930 AATTTTTTTC
27308940 AATTTTTCATC-ATTTTATATTTTTT-AAT
1 AATTTTTCA-CAATTTTA-ATTTTTTAAAT
27308968 AA-TTTTCACAAATTTTAATTTTTTAAAT
1 AATTTTTCAC-AATTTTAATTTTTTAAAT
* *
27308996 ATTTTTTTACAAATTTTAAATTTTTTAAAAT
1 AATTTTTCAC-AATTTT-AATTTTTT-AAAT
*
27309027 ATTTTTT
1 AATTTTT
27309034 ATAACATTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
26 1 0.02
27 13 0.22
28 12 0.21
29 13 0.22
30 8 0.14
31 11 0.19
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (28 bp):
AATTTTTCACAATTTTAATTTTTTAAAT
Found at i:27308973 original size:10 final size:10
Alignment explanation
Indices: 27308918--27309080 Score: 58
Period size: 10 Copynumber: 16.8 Consensus size: 10
27308908 TAAAATTATT
*
27308918 ATAATTTTAA
1 ATAATTTTTA
27308928 ATAATTTTT-
1 ATAATTTTTA
* *
27308937 TTCAATTTTTC
1 AT-AATTTTTA
*
27308948 ATCA-TTTT-
1 ATAATTTTTA
*
27308956 ATATTTTTTA
1 ATAATTTTTA
*
27308966 ATAATTTTCA
1 ATAATTTTTA
27308976 CA-AA-TTTTA
1 -ATAATTTTTA
27308985 AT--TTTTTAA
1 ATAATTTTT-A
* *
27308994 ATATTTTTTT
1 ATAATTTTTA
* *
27309004 ACAAATTTTA
1 ATAATTTTTA
*
27309014 A-ATTTTTTA
1 ATAATTTTTA
* *
27309023 AAATATTTTTT
1 ATA-ATTTTTA
**
27309034 ATAACATTTA
1 ATAATTTTTA
*
27309044 A-ATATTTTAA
1 ATA-ATTTTTA
*
27309054 AT-ATTTTTT
1 ATAATTTTTA
27309063 ATAATTTTTA
1 ATAATTTTTA
27309073 ATAATTTT
1 ATAATTTT
27309081 AAAATATTAA
Statistics
Matches: 110, Mismatches: 28, Indels: 30
0.65 0.17 0.18
Matches are distributed among these distances:
8 7 0.06
9 31 0.28
10 58 0.53
11 14 0.13
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:27309020 original size:30 final size:30
Alignment explanation
Indices: 27308951--27309088 Score: 126
Period size: 30 Copynumber: 4.7 Consensus size: 30
27308941 ATTTTTCATC
* * *
27308951 ATTTTATATTTTTT-AATA-ATTTTCACAA
1 ATTTTAAATTTTTTAAATATTTTTTTACAA
27308979 ATTTT-AATTTTTTAAATATTTTTTTACAA
1 ATTTTAAATTTTTTAAATATTTTTTTACAA
*
27309008 ATTTTAAATTTTTTAAAATATTTTTTATA-AC
1 ATTTTAAATTTTTT-AAATATTTTTT-TACAA
* *
27309039 A-TTTAAATATTTTAAATA-TTTTTTATAA
1 ATTTTAAATTTTTTAAATATTTTTTTACAA
* * *
27309067 TTTTTAATAATTTTAAAATATT
1 ATTTTAA-ATTTTTTAAATATT
27309089 AAACAACTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
27 9 0.10
28 15 0.16
29 23 0.25
30 28 0.31
31 14 0.15
32 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
ATTTTAAATTTTTTAAATATTTTTTTACAA
Found at i:27309086 original size:39 final size:40
Alignment explanation
Indices: 27309000--27309088 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 40
27308990 TTAAATATTT
* *
27309000 TTTTACAA-ATTTTAAATTTTTTAAAATATTTTTTATAAC
1 TTTTAAAATATTTTAAATTTTTTAAAATATTTTTAATAAC
* * *
27309039 ATTT-AAATATTTTAAATATTTTTTATA-ATTTTTAATAA-
1 TTTTAAAATATTTTAAAT-TTTTTAAAATATTTTTAATAAC
27309077 TTTTAAAATATT
1 TTTTAAAATATT
27309089 AAACAACTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
38 5 0.12
39 29 0.71
40 7 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (40 bp):
TTTTAAAATATTTTAAATTTTTTAAAATATTTTTAATAAC
Found at i:27311894 original size:20 final size:20
Alignment explanation
Indices: 27311869--27311916 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
27311859 CTTATATTGT
27311869 TTGCACATCAATGCCCTTGC
1 TTGCACATCAATGCCCTTGC
* * *
27311889 TTGCACTTCAATTCCCTTGT
1 TTGCACATCAATGCCCTTGC
27311909 TTGCACAT
1 TTGCACAT
27311917 TGGTGCCCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (20 bp):
TTGCACATCAATGCCCTTGC
Found at i:27313766 original size:56 final size:50
Alignment explanation
Indices: 27313694--27313873 Score: 175
Period size: 50 Copynumber: 3.5 Consensus size: 50
27313684 GGGAATGAGA
**
27313694 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTAAGAGAGG
1 TCCC-TGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGAGA-T--GAGAGG
* *
27313750 TCCCGTGTAAGACCATGTCTGGGACATGACGTTGGC-ACCGAGATGAGAGG
1 TCCC-TGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGG
* * * **
27313800 TCCACCGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGAAC
1 TCC-CTGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGG
*
27313850 TCCCATGTAAGACCATATCTGGGA
1 TCCC-TGTAAGACCATGTCTGGGA
27313874 TATGAAATTG
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
49 1 0.01
50 67 0.62
51 1 0.01
52 1 0.01
53 5 0.05
56 33 0.31
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCTGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGG
Found at i:27321687 original size:14 final size:15
Alignment explanation
Indices: 27321670--27321702 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27321660 GAAAGTTGTA
*
27321670 AAGAAAAT-TTTCTG
1 AAGAAAATATTTCAG
27321684 AAGAAAATATTTCAG
1 AAGAAAATATTTCAG
27321699 AAGA
1 AAGA
27321703 TTTCTAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (15 bp):
AAGAAAATATTTCAG
Done.