Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 271 of 325
Found at i:84108766 original size:33 final size:31
Alignment explanation
Indices: 84108688--84108766 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
84108678 TTTGGCCTTT
*
84108688 AAGCGCCGCTAAAACTATTAGCGGCGTTTAA
1 AAGCGCTGCTAAAACTATTAGCGGCGTTTAA
* * *
84108719 AAGCGCTACTAAAACTATTAGCGGTGTTTTCAC
1 AAGCGCTGCTAAAACTATTAGCGGCG-TTT-AA
*
84108752 AAGCGCTGCAAAAAC
1 AAGCGCTGCTAAAAC
84108767 GCCGCTATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
31 23 0.57
32 3 0.08
33 14 0.35
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (31 bp):
AAGCGCTGCTAAAACTATTAGCGGCGTTTAA
Found at i:84108843 original size:43 final size:43
Alignment explanation
Indices: 84108795--84108997 Score: 221
Period size: 43 Copynumber: 4.7 Consensus size: 43
84108785 GCAAAATTTT
84108795 GCGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTA
1 GCGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTA
* **
84108838 GCGGCGCTTCTCCCGA-AAACGCCGCTAAAGACCATGACCTTTA
1 GCGGCGCTTTTTTC-ACAAACGCCGCTAAAGACCATGACCTTTA
* * * *
84108881 GCTGCGCTTTTTTCACAAATGCCACTAAACACCATGACCTTTA
1 GCGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTA
* * * * * *
84108924 GCGACACTTTTTTTTACAAACGCCGCTACAGAACA-AACCTTTA
1 GCGGCGC-TTTTTTCACAAACGCCGCTAAAGACCATGACCTTTA
** * *
84108967 ATGGCGCTTTTCTCACAAATGCCGCTAAAGA
1 GCGGCGCTTTTTTCACAAACGCCGCTAAAGA
84108998 ATGTAACCTT
Statistics
Matches: 129, Mismatches: 28, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
42 21 0.16
43 86 0.67
44 22 0.17
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (43 bp):
GCGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTA
Found at i:84109655 original size:24 final size:24
Alignment explanation
Indices: 84109627--84109673 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
84109617 CTTCAACACC
84109627 TGCCTCTTCCTATGTTTCCCTTAT
1 TGCCTCTTCCTATGTTTCCCTTAT
*
84109651 TGCCTCTTCCTATGTTTCTCTTA
1 TGCCTCTTCCTATGTTTCCCTTA
84109674 CTAAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.32, G:0.09, T:0.51
Consensus pattern (24 bp):
TGCCTCTTCCTATGTTTCCCTTAT
Found at i:84112769 original size:17 final size:18
Alignment explanation
Indices: 84112736--84112769 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84112726 TATCTCTTAA
84112736 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
84112754 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
84112770 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:84113005 original size:27 final size:26
Alignment explanation
Indices: 84112974--84113029 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
84112964 TTTTCCAACA
84112974 ATAAACCCTA-AACCTAAACCCCAAACT
1 ATAAA-CCTATAACCTAAACCCCAAA-T
* *
84113001 ATAAACCTATATCCTAAACCCTAAAT
1 ATAAACCTATAACCTAAACCCCAAAT
84113027 ATA
1 ATA
84113030 TATATTACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.21
Consensus pattern (26 bp):
ATAAACCTATAACCTAAACCCCAAAT
Found at i:84113025 original size:20 final size:20
Alignment explanation
Indices: 84112975--84113025 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
84112965 TTTCCAACAA
84112975 TAAACCCTAAACCTAAACCC
1 TAAACCCTAAACCTAAACCC
* ** * *
84112995 CAAACTATAAACCTATATCC
1 TAAACCCTAAACCTAAACCC
84113015 TAAACCCTAAA
1 TAAACCCTAAA
84113026 TATATATATT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAACCTAAACCC
Found at i:84113210 original size:14 final size:13
Alignment explanation
Indices: 84113193--84113230 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
84113183 GTAAAACAAA
84113193 AAACCACAAACTCT
1 AAACCA-AAACTCT
84113207 AAACCATAAACTCT
1 AAACCA-AAACTCT
84113221 AAACCAAAAC
1 AAACCAAAAC
84113231 AATAAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (13 bp):
AAACCAAAACTCT
Found at i:84114026 original size:41 final size:40
Alignment explanation
Indices: 84113968--84114059 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 40
84113958 CCTCGATCTA
** * * *
84113968 TAGCGGCGTTTTTCCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGACCAAAAACACCGCTATTGCTCAGTTTT
84114008 TAGCGGCGTTTGGACCAAAAACACCGCTATTGCTCAGTTTT
1 TAGCGGCGTTT-GACCAAAAACACCGCTATTGCTCAGTTTT
* *
84114049 TTGCGGAGTTT
1 TAGCGGCGTTT
84114060 TATTGCAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 11 0.25
41 33 0.75
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (40 bp):
TAGCGGCGTTTGACCAAAAACACCGCTATTGCTCAGTTTT
Found at i:84117260 original size:50 final size:49
Alignment explanation
Indices: 84117148--84117277 Score: 197
Period size: 50 Copynumber: 2.6 Consensus size: 49
84117138 CTGGTACGCA
* ** *
84117148 TAGTAGCCTGCACATAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
* *
84117197 TAATAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
84117247 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
84117278 TCACAGTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 31 0.42
50 42 0.58
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:84121139 original size:93 final size:93
Alignment explanation
Indices: 84121031--84121338 Score: 490
Period size: 93 Copynumber: 3.3 Consensus size: 93
84121021 CGCCCATAAG
* ** * *
84121031 CGAACTCGGACTCAACTCAACGAACTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
84121096 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
84121124 CGAACTCAGACTCAACTCAACTAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTTA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
84121189 ATGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
** *
84121217 CGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
84121282 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
84121310 CGAACTCAGACTCAACTCAACGAGTTCGG
1 CGAACTCAGACTCAACTCAACGAGTTCGG
84121339 TTGCCCAAAT
Statistics
Matches: 195, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 195 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:84121150 original size:47 final size:46
Alignment explanation
Indices: 84121078--84121343 Score: 227
Period size: 47 Copynumber: 5.7 Consensus size: 46
84121068 ATCCATAAGT
*
84121078 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
* * * * * * * *
84121125 GAACTCAGACTCAACTCAACTAGTTCGGACG-TTCGCATCCA-TAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
* *
84121171 GAACTC-GAACTCAACTTAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAG-ACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
** * * * * * * *
84121218 GAACTTGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA-TAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
*
84121264 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCAC
*
84121311 GAACTCAGACTCAACTCAACGAGTTCGGTTGCC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCC
84121344 CAAATATCCT
Statistics
Matches: 166, Mismatches: 41, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
45 5 0.03
46 62 0.37
47 94 0.57
48 5 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (46 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCAC
Found at i:84121196 original size:46 final size:46
Alignment explanation
Indices: 84121024--84121289 Score: 200
Period size: 46 Copynumber: 5.7 Consensus size: 46
84121014 TGTAACCCGC
* * ** * *
84121024 CCATAAGCGAACTCGGACTCAACTCAACGAACTCGGGCATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
84121070 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
84121116 ACATTTCA-CGAACTCAGACTCAACTCAACTAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * * *
84121163 CCATAAGTGAACTC-GAACTCAACTTAATGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAG-ACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * **
84121209 ACATTTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
84121256 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC
84121290 AGATGCCTAG
Statistics
Matches: 165, Mismatches: 43, Indels: 24
0.71 0.19 0.10
Matches are distributed among these distances:
45 5 0.03
46 92 0.56
47 63 0.38
48 5 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:84122780 original size:294 final size:294
Alignment explanation
Indices: 84122322--84122907 Score: 1064
Period size: 294 Copynumber: 2.0 Consensus size: 294
84122312 ATCCATGTCC
* *
84122322 AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCCTACTTAATATTTCA
1 AATTTTTATCCATAAACCTAAAAATTGGTCAAATTGCTATTTAAGACCTCCTAATTAATATTTCA
84122387 AAGCAATTTCATACTAGAAACTTCAAGAATGCAAGCTTTGTAACTTATTCAATTTAGTCCCTAAC
66 AAGCAATTTCATACTAGAAACTTCAAGAATGCAAGCTTTGTAACTTATTCAATTTAGTCCCTAAC
*
84122452 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGAAATCATAT
131 TTCAAATTAAACACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGAAATCATAT
*
84122517 CATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTCAAATTTGTGGTCCCGAAACCACTA
196 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAAATTTGTGGTCCCGAAACCACTA
84122582 TTCCGATTAGGCCCTAATTCGGGATATCACATGG
261 TTCCGATTAGGCCCTAATTCGGGATATCACATGG
* *
84122616 AATTTTTGTCCATAAACTTAAAAATTGGTCAAATTGCTATTTAAGACCTCCTAATTAATATTTCA
1 AATTTTTATCCATAAACCTAAAAATTGGTCAAATTGCTATTTAAGACCTCCTAATTAATATTTCA
* * *
84122681 AAGCAATTTCATACTATAAACTTCTAGAATGCAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
66 AAGCAATTTCATACTAGAAACTTCAAGAATGCAAGCTTTGTAACTTATTCAATTTAGTCCCTAAC
*
84122746 TTCAAATTAAACACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
131 TTCAAATTAAACACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGAAATCATAT
*
84122811 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTGTGGTCCCGAAACCACTA
196 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAAATTTGTGGTCCCGAAACCACTA
*
84122876 TTCTGATTAGGCCCTAATTCGGGATATCACAT
261 TTCCGATTAGGCCCTAATTCGGGATATCACAT
84122908 CTACATTCTT
Statistics
Matches: 280, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
294 280 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (294 bp):
AATTTTTATCCATAAACCTAAAAATTGGTCAAATTGCTATTTAAGACCTCCTAATTAATATTTCA
AAGCAATTTCATACTAGAAACTTCAAGAATGCAAGCTTTGTAACTTATTCAATTTAGTCCCTAAC
TTCAAATTAAACACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGAAATCATAT
CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAAATTTGTGGTCCCGAAACCACTA
TTCCGATTAGGCCCTAATTCGGGATATCACATGG
Found at i:84123194 original size:51 final size:51
Alignment explanation
Indices: 84123134--84123286 Score: 243
Period size: 51 Copynumber: 3.0 Consensus size: 51
84123124 CTACGTGTAG
* * *
84123134 CAGCAACATTATCTAGTCCATCTGATGTTGCAAAGTCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
** *
84123185 CAGCAACATTATCCACTTTATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
*
84123236 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
84123287 TACCAGCAAC
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 92 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.30
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:84123451 original size:33 final size:32
Alignment explanation
Indices: 84123395--84123533 Score: 100
Period size: 33 Copynumber: 4.2 Consensus size: 32
84123385 GTAGCAGACA
* * *
84123395 CACCCTCCCCATCAGCTTGTACCTCTCCTACAT
1 CACCCTCCTCATCAGATTCTACCTCT-CTACAT
* * *
84123428 CACCCTCCTCACCAGATTCTACCTTTTCTAGAT
1 CACCCTCCTCATCAGATTCTACC-TCTCTACAT
* * * *
84123461 CACCTTCATCATCAGATTCTACCCCTTTATCAT
1 CACCCTCCTCATCAGATTCTACCTCTCTA-CAT
* * * *
84123494 CACCCTCCCCATCA-ACTTCCACCCCTTCAACAT
1 CACCCTCCTCATCAGA-TTCTACCTC-TCTACAT
84123527 CACCCTC
1 CACCCTC
84123534 TCCAGTAGTC
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
32 4 0.05
33 75 0.90
34 4 0.05
ACGTcount: A:0.22, C:0.46, G:0.04, T:0.29
Consensus pattern (32 bp):
CACCCTCCTCATCAGATTCTACCTCTCTACAT
Found at i:84124544 original size:18 final size:16
Alignment explanation
Indices: 84124501--84124536 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
84124491 GAATGCTATC
* *
84124501 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
84124517 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
84124533 GATT
1 GATT
84124537 GTTAGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:84126102 original size:30 final size:31
Alignment explanation
Indices: 84126047--84126105 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
84126037 CACCCTTAAA
* * *
84126047 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGCCCCTCAAATTTTTC
84126078 ATATTTACACT-TTAGCCCCTCAAATTTT
1 ATATTTACACTATTAGCCCCTCAAATTTT
84126106 AAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCCTCAAATTTTTC
Found at i:84126113 original size:30 final size:31
Alignment explanation
Indices: 84126046--84126115 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
84126036 CCACCCTTAA
* * *
84126046 AATATTTGCACTATTAGTCCTTCAAATTTTT
1 AATATTTACACTATTAGCCCCTCAAATTTTT
*
84126077 CATATTTACACT-TTAGCCCCTCAAA-TTTT
1 AATATTTACACTATTAGCCCCTCAAATTTTT
84126106 AAGTATTTAC
1 AA-TATTTAC
84126116 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (31 bp):
AATATTTACACTATTAGCCCCTCAAATTTTT
Found at i:84126572 original size:30 final size:27
Alignment explanation
Indices: 84126531--84126590 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 27
84126521 ACCTCTTTAC
*
84126531 TTTTCCCCAAAATTTTTACTCCCTCCCCA
1 TTTTCCCCAAAACTTTTACT-CC-CCCCA
84126560 TTTTCCTCCAAAACTTTTACTCCCCCCA
1 TTTTCC-CCAAAACTTTTACTCCCCCCA
84126588 TTT
1 TTT
84126591 ATTTCTCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 8 0.28
29 8 0.28
30 13 0.45
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTTCCCCAAAACTTTTACTCCCCCCA
Found at i:84128162 original size:15 final size:15
Alignment explanation
Indices: 84128142--84128192 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
84128132 TAAGGTGAAA
84128142 GTAAAAATTTTTGGG
1 GTAAAAATTTTTGGG
* ***
84128157 GTAAAAA--TATAAA
1 GTAAAAATTTTTGGG
84128170 GTAAAAATTTTTGGG
1 GTAAAAATTTTTGGG
84128185 GTAAAAAT
1 GTAAAAAT
84128193 ATAAAATATT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
13 9 0.35
15 17 0.65
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
GTAAAAATTTTTGGG
Found at i:84128172 original size:28 final size:28
Alignment explanation
Indices: 84128139--84128197 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
84128129 TTTTAAGGTG
84128139 AAAGTAAAAATTTTTGGGGTAAAAATAT
1 AAAGTAAAAATTTTTGGGGTAAAAATAT
84128167 AAAGTAAAAATTTTTGGGGTAAAAATAT
1 AAAGTAAAAATTTTTGGGGTAAAAATAT
84128195 AAA
1 AAA
84128198 ATATTATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (28 bp):
AAAGTAAAAATTTTTGGGGTAAAAATAT
Found at i:84136213 original size:12 final size:14
Alignment explanation
Indices: 84136192--84136236 Score: 67
Period size: 15 Copynumber: 3.3 Consensus size: 14
84136182 AAATAACTCA
84136192 AAATAATAATA-AT
1 AAATAATAATATAT
84136205 AAA-AATAATATAT
1 AAATAATAATATAT
84136218 GAAATAATAATATAT
1 -AAATAATAATATAT
84136233 AAAT
1 AAAT
84136237 GAAATTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.24
13 5 0.17
14 7 0.24
15 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:84136240 original size:19 final size:18
Alignment explanation
Indices: 84136191--84136241 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
84136181 GAAATAACTC
84136191 AAAATAAT-AAT--AATA
1 AAAATAATAAATGAAATA
*
84136206 AAAATAATATATGAAATA
1 AAAATAATAAATGAAATA
*
84136224 ATAATATATAAATGAAAT
1 AAAATA-ATAAATGAAAT
84136242 TTCAAAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 8 0.28
16 2 0.07
18 9 0.31
19 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAAATAATAAATGAAATA
Found at i:84136469 original size:16 final size:16
Alignment explanation
Indices: 84136421--84136472 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
84136411 CCTTAGAAGA
*
84136421 AATATATATACACAA-
1 AATATATATACATAAT
*
84136436 AATA-ATATAAAATCAAT
1 AATATATAT-ACAT-AAT
84136453 AATATATATACATAAT
1 AATATATATACATAAT
84136469 AATA
1 AATA
84136473 AAAAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.13
15 6 0.20
16 9 0.30
17 7 0.23
18 4 0.13
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATATATACATAAT
Found at i:84136479 original size:23 final size:20
Alignment explanation
Indices: 84136442--84136493 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
84136432 ACAAAATAAT
* *
84136442 ATAAAATCAATAATATATATAC
1 ATAAAAT-AA-AAAATATTTAC
84136464 ATAATAATAAAAAATATTTAC
1 ATAA-AATAAAAAATATTTAC
84136485 ATAAAATAA
1 ATAAAATAA
84136494 TAGGAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 6 0.22
23 3 0.11
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAATAAAAAATATTTAC
Found at i:84144798 original size:20 final size:20
Alignment explanation
Indices: 84144782--84144819 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84144772 CCTTAAATTT
*
84144782 GAACGCTAAACCCTAAACTC
1 GAACACTAAACCCTAAACTC
*
84144802 GAACACTAAACCCCAAAC
1 GAACACTAAACCCTAAAC
84144820 CCTTAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.37, G:0.08, T:0.11
Consensus pattern (20 bp):
GAACACTAAACCCTAAACTC
Found at i:84153911 original size:33 final size:33
Alignment explanation
Indices: 84153874--84154048 Score: 120
Period size: 33 Copynumber: 5.2 Consensus size: 33
84153864 ATAATCCAGT
84153874 TATGGTCTCATCATCAGAATGCCATAGCCCAAC
1 TATGGTCTCATCATCAGAATGCCATAGCCCAAC
* * * * *
84153907 TATGGTCTTACATGTAT-ACATTGCCATGGTCCAAC
1 TATGGTC-T-CAT-CATCAGAATGCCATAGCCCAAC
* * * * * * **
84153942 CATGGTCTTA-CGTCTATAGTGCCATAACCCAGT
1 TATGGTCTCATCATC-AGAATGCCATAGCCCAAC
* * *
84153975 TATGGTCTAATCATCAAAATGTCATAGCCCAAC
1 TATGGTCTCATCATCAGAATGCCATAGCCCAAC
* * **
84154008 TATGGTCTCATCATCAGAATGTCATAACGTAAC
1 TATGGTCTCATCATCAGAATGCCATAGCCCAAC
84154041 TATGGTCT
1 TATGGTCT
84154049 TACATATATA
Statistics
Matches: 106, Mismatches: 30, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
31 1 0.01
33 75 0.71
34 5 0.05
35 23 0.22
36 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (33 bp):
TATGGTCTCATCATCAGAATGCCATAGCCCAAC
Found at i:84153941 original size:35 final size:35
Alignment explanation
Indices: 84153805--84153952 Score: 108
Period size: 33 Copynumber: 4.3 Consensus size: 35
84153795 CCATAAACAG
* * *
84153805 CTATGGTCTTACATGTATACACTGTCATGGTCCAA
1 CTATGGTCTTACATGTATACAATGCCATAGTCCAA
* * * * * *
84153840 CCATGGTCTTAC--GTCTATAGTGCCATAATCCAG
1 CTATGGTCTTACATGTATACAATGCCATAGTCCAA
* * * *
84153873 TTATGGTC-T-CAT-CATCAGAATGCCATAGCCCAA
1 CTATGGTCTTACATGTAT-ACAATGCCATAGTCCAA
* *
84153906 CTATGGTCTTACATGTATACATTGCCATGGTCCAA
1 CTATGGTCTTACATGTATACAATGCCATAGTCCAA
*
84153941 CCATGGTCTTAC
1 CTATGGTCTTAC
84153953 GTCTATAGTG
Statistics
Matches: 83, Mismatches: 24, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
31 1 0.01
32 2 0.02
33 39 0.47
34 1 0.01
35 38 0.46
36 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (35 bp):
CTATGGTCTTACATGTATACAATGCCATAGTCCAA
Found at i:84153953 original size:101 final size:101
Alignment explanation
Indices: 84153704--84154015 Score: 416
Period size: 101 Copynumber: 3.1 Consensus size: 101
84153694 TGTCATAGTT
* * ** ** * *
84153704 CAACTATGGTCTTACATG--TGCATTGCCATGGCCCTGCCATATTCTTACGTTTATAGTGTCATA
1 CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
** **
84153767 ACCCAGTTATGGTCTTC-TCATCATCATGCCATA-AA
66 ACCCAGTTATGGTC-TCATCATCAAAATGCCATAGCC
* * *
84153802 CAGCTATGGTCTTACATGTATACACTGTCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
1 CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
* *
84153867 ATCCAGTTATGGTCTCATCATCAGAATGCCATAGCC
66 ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC
84153903 CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
1 CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
* *
84153968 ACCCAGTTATGGTCTAATCATCAAAATGTCATAGCC
66 ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC
84154004 CAACTATGGTCT
1 CAACTATGGTCT
84154016 CATCATCAGA
Statistics
Matches: 187, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
98 17 0.09
99 2 0.01
100 62 0.33
101 106 0.57
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (101 bp):
CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC
Found at i:84154067 original size:101 final size:100
Alignment explanation
Indices: 84153763--84154059 Score: 271
Period size: 101 Copynumber: 3.0 Consensus size: 100
84153753 TTTATAGTGT
** ** ** * * *
84153763 CATAACCCAGTTATGGTCTTCTCATCATCATGCCATA-AACAGCTATGGTCTTACATGTATACAC
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
* * * * *
84153827 TGTCATGGTCCAACCATGGTCTTACGTCTATAGTGC
66 TGCCATCGT-CAACCATGGTCTTACATATATACTGC
* * * * *
84153863 CATAATCCAGTTATGGTCTCATCATCAGAATGCCATAGCCCAACTATGGTCTTACATGTATACAT
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
* * * *
84153928 TGCCATGGTCCAACCATGGTCTTACGTCTATAGTGC
66 TGCCATCGT-CAACCATGGTCTTACATATATACTGC
* *
84153964 CATAACCCAGTTATGGTCTAATCATCAAAATGTCATAGCCCAACTATGGTC-T-CAT-CATCAGA
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCAT-ACA
* *
84154026 ATGTCATAACGT-AACTATGGTCTTACATATATAC
65 ATGCCAT--CGTCAACCATGGTCTTACATATATAC
84154060 ACTGCCATGG
Statistics
Matches: 170, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
98 2 0.01
99 28 0.16
100 33 0.19
101 107 0.63
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (100 bp):
CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
TGCCATCGTCAACCATGGTCTTACATATATACTGC
Found at i:84154366 original size:6 final size:6
Alignment explanation
Indices: 84154355--84154382 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
84154345 TCAATTCATT
84154355 ATTTTC ATTTTC ATTTTC ATTTTC ATTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTT
84154383 ACACAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTC
Found at i:84158853 original size:27 final size:27
Alignment explanation
Indices: 84158823--84158880 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
84158813 GTTCGAAAGT
84158823 CTAACTAAATTTACAAGTCGTTTTATA
1 CTAACTAAATTTACAAGTCGTTTTATA
84158850 CTAACTAAATTTACAAGTCGTTTTATA
1 CTAACTAAATTTACAAGTCGTTTTATA
84158877 CTAA
1 CTAA
84158881 AAATAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
CTAACTAAATTTACAAGTCGTTTTATA
Found at i:84159914 original size:27 final size:28
Alignment explanation
Indices: 84159871--84159932 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
84159861 AGTCCCAGCT
**
84159871 GACTACC-CTGTGCTTAGTGTCTTGGTG
1 GACTACCTCTGTGCTTAGTGTCTCAGTG
*
84159898 GACTACCTC-GTGTTTAGTGTCTCAGTG
1 GACTACCTCTGTGCTTAGTGTCTCAGTG
84159925 GACTACCT
1 GACTACCT
84159933 ATGATGTCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (28 bp):
GACTACCTCTGTGCTTAGTGTCTCAGTG
Found at i:84160129 original size:45 final size:45
Alignment explanation
Indices: 84160062--84160198 Score: 188
Period size: 45 Copynumber: 3.1 Consensus size: 45
84160052 TATGGCGTAC
* *
84160062 TTTTAT-ATGAT-ATCATAGCATCTTTTAGCTATGGTCTTACTCAT
1 TTTTATCATGATGA-CATAACATCTTTCAGCTATGGTCTTACTCAT
* * *
84160106 TTTTATCATGATGACATAACATCTTTCAACTATGGTCTTTCTCAC
1 TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTACTCAT
* *
84160151 TTTTATCATGATGCCATAACATATTTCAGCTATGGTCTTACTCAT
1 TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTACTCAT
84160196 TTT
1 TTT
84160199 CGGTTTATAG
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
44 6 0.07
45 74 0.91
46 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (45 bp):
TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTACTCAT
Found at i:84162285 original size:2 final size:2
Alignment explanation
Indices: 84162278--84162305 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
84162268 ATTAAAAATA
84162278 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
84162306 GCACACCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84173101 original size:22 final size:22
Alignment explanation
Indices: 84173073--84173125 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
84173063 AGATGAAATC
*
84173073 TAATTTTTGTATATTTAGAA-TT
1 TAATTTTTGTAT-TTTAAAATTT
*
84173095 TAATTTTTTTATTTTAAAATTTT
1 TAATTTTTGTATTTTAAAA-TTT
84173118 TAATTTTT
1 TAATTTTT
84173126 TACTTTCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 11 0.41
23 10 0.37
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (22 bp):
TAATTTTTGTATTTTAAAATTT
Found at i:84175911 original size:85 final size:83
Alignment explanation
Indices: 84175797--84175951 Score: 240
Period size: 85 Copynumber: 1.8 Consensus size: 83
84175787 TAGGGCTTAA
84175797 GGTTTATGGTTTTAAATAAATTAAATAAATTAAGGTT-TAGGGTTTAAAAATAAATTAAAATAGG
1 GGTTTATGGTTTTAAATAAATTAAATAAATTAAGGTTCTAGGGTTT-AAAATAAATTAAAATAGG
84175861 GCTTTAATTAAATTGATTGG
65 G-TTTAATTAAATTGATTGG
* * * *
84175881 GGTTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGG
1 GGTTTATGG-TTTTAAATAAATTAAATAAATTAAGGTTCTAGGGTTTAAAATAAATTAAAATAGG
84175946 GTTTAA
65 GTTTAA
84175952 GGTTTAAGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
84 14 0.22
85 43 0.66
86 8 0.12
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.41
Consensus pattern (83 bp):
GGTTTATGGTTTTAAATAAATTAAATAAATTAAGGTTCTAGGGTTTAAAATAAATTAAAATAGGG
TTTAATTAAATTGATTGG
Found at i:84175918 original size:34 final size:31
Alignment explanation
Indices: 84175880--84175991 Score: 97
Period size: 35 Copynumber: 3.4 Consensus size: 31
84175870 AAATTGATTG
84175880 GGGTTTATGGTTTTTAAATAAATTAAGTAAATTA
1 GGGTTTA-GG-TTTTAAATAAATTAA-TAAATTA
84175914 GGGTTCTAGGGTTTTAAATAAA-T--TAAATTA
1 GGGTT-TA-GGTTTTAAATAAATTAATAAATTA
84175944 GGGTTTAAGG-TTTAAGATTAAATTTAATTAAATTA
1 GGGTTT-AGGTTTTAA-A-TAAA-TTAA-TAAATTA
*
84175979 GGGTTTAGTTTTT
1 GGGTTTAGGTTTT
84175992 TTTCAATGAC
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
28 5 0.08
29 4 0.06
30 17 0.26
32 1 0.02
33 1 0.02
34 18 0.27
35 20 0.30
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.45
Consensus pattern (31 bp):
GGGTTTAGGTTTTAAATAAATTAATAAATTA
Found at i:84175966 original size:30 final size:30
Alignment explanation
Indices: 84175898--84175973 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
84175888 GGTTTTTAAA
* * *
84175898 TAAATTAAGTAAATTAGGGTTCTAGGGTTT
1 TAAATAAATTAAATTAGGGTTCTAAGGTTT
84175928 TAAATAAATTAAATTAGGGTT-TAAGG-TT
1 TAAATAAATTAAATTAGGGTTCTAAGGTTT
*
84175956 TAAGATTAAATTTAATTA
1 TAA-A-TAAATTAAATTA
84175974 AATTAGGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.12
29 5 0.12
30 30 0.75
ACGTcount: A:0.41, C:0.01, G:0.17, T:0.41
Consensus pattern (30 bp):
TAAATAAATTAAATTAGGGTTCTAAGGTTT
Found at i:84176449 original size:127 final size:126
Alignment explanation
Indices: 84176041--84176523 Score: 591
Period size: 126 Copynumber: 3.8 Consensus size: 126
84176031 CTATTTTTAC
* * * *
84176041 CCTGAAAAAATAATTTTGAGAAGATGTTTCTAAAGAAATAGTGTCAAAAATGTTTC-AGACAGGA
1 CCTGAAAAAATAAATTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAG-CAGGA
* * * *
84176105 TGCACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACGC-TCTTTTCTATAATAGTT
65 TGCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTTTTTTTCTAT-GTAGTT
* * * *
84176167 CCTGAAAAAATAATTTTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAGCAAGAT
1 CCTGAAAAAATAAATTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGAT
* * * * * * * *
84176232 GTATTGTTAGAAAAATT-CCGAAAAAAAGCTACCACGTGGACGCTCTTTTTCTAAAGTAGTT
66 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTTTTTTTCT-ATGTAGTT
* * *
84176293 CGTGAAAAAATAAATTTGAGAAGAAGTTTCTGAATAAATAGTGTCAAAAATGCTTCAAGCAGGAT
1 CCTGAAAAAATAAATTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGAT
* *
84176358 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACACTTTTTTTCTACTGTATTT
66 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTTTTTTTCTA-TGTAGTT
* * **
84176420 CTTGAAAAAATAAAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACT-CTTCAAATAGGA
1 CCTGAAAAAATAAATTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAA-TGCTTCAAGCAGGA
* * *
84176484 TGCAATGTCAGCAAAATTTCTG-AAAAAAGCT-CCACGTGGA
65 TGCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGA
84176524 TGTTCTATTT
Statistics
Matches: 307, Mismatches: 44, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
125 32 0.10
126 160 0.52
127 114 0.37
128 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (126 bp):
CCTGAAAAAATAAATTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGAT
GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTTTTTTTCTATGTAGTT
Found at i:84176521 original size:252 final size:252
Alignment explanation
Indices: 84176043--84176545 Score: 690
Period size: 252 Copynumber: 2.0 Consensus size: 252
84176033 ATTTTTACCC
* * *
84176043 TGAAAAAATAATTTTGAGAAGATGTTTCTAAAGAAATAGTGTCAAAAATGTTTCAGACAGGATGC
1 TGAAAAAATAAATTTGAGAAGAAGTTTCTAAAGAAATAGTGTCAAAAATGCTTCAGACAGGATGC
*
84176108 ACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACGCTCTTTTCTATAATAGTTCCTGAA
66 ACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACACTCTTTTCTATAATAGTTCCTGAA
** * * *
84176173 AAAATAATTTTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGTATTG
131 AAAATAAAATTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAACAAGATGCAATG
* *
84176238 TTAGAAAAATTCCGAAAAAAAGCTACCACGTGGACGCTCTTTTTCTAAAGTAGTTCG
196 TCAGAAAAATTCCGAAAAAAAGCTACCACGTGGACGCTCTATTTCTAAAGTAGTTCG
* *
84176295 TGAAAAAATAAATTTGAGAAGAAGTTTCTGAATAAATAGTGTCAAAAATGCTTCA-AGCAGGATG
1 TGAAAAAATAAATTTGAGAAGAAGTTTCTAAAGAAATAGTGTCAAAAATGCTTCAGA-CAGGATG
* * * * * *
84176359 CACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACACTTTTTTTCTACT-GTATTTCTT
65 CACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACAC-TCTTTTCTA-TAATAGTTCCT
* * * *
84176423 GAAAAAATAAAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACTCTTCAAATAGGATGCA
128 GAAAAAATAAAATTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAACAAGATGCA
* * * * *
84176488 ATGTCAGCAAAATTTCTG-AAAAAAGCT-CCACGTGGATGTTCTATTTCTACAGTAGTTC
193 ATGTCAG-AAAAATTCCGAAAAAAAGCTACCACGTGGACGCTCTATTTCTAAAGTAGTTC
84176546 ATAATTGGTC
Statistics
Matches: 219, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
251 1 0.00
252 124 0.57
253 85 0.39
254 9 0.04
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (252 bp):
TGAAAAAATAAATTTGAGAAGAAGTTTCTAAAGAAATAGTGTCAAAAATGCTTCAGACAGGATGC
ACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACACTCTTTTCTATAATAGTTCCTGAA
AAAATAAAATTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAACAAGATGCAATG
TCAGAAAAATTCCGAAAAAAAGCTACCACGTGGACGCTCTATTTCTAAAGTAGTTCG
Found at i:84177805 original size:23 final size:23
Alignment explanation
Indices: 84177779--84177824 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
84177769 TTATGAGAGA
84177779 TAAAAAAGTACAAAGGTCCACAT
1 TAAAAAAGTACAAAGGTCCACAT
84177802 TAAAAAAGTACAAAGGTCCACAT
1 TAAAAAAGTACAAAGGTCCACAT
84177825 ACATGTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.17
Consensus pattern (23 bp):
TAAAAAAGTACAAAGGTCCACAT
Found at i:84180335 original size:42 final size:42
Alignment explanation
Indices: 84180269--84180432 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
84180259 CTTCGTTTTC
** *
84180269 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
84180312 T-GATGTCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
84180353 TCGATGCCATAGCCCAGGTATGGTCTTACACATAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
84180402 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
84180433 GAATCACATA
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.02
42 60 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:84180424 original size:91 final size:94
Alignment explanation
Indices: 84180304--84180521 Score: 245
Period size: 95 Copynumber: 2.4 Consensus size: 94
84180294 TTACACATCT
* *
84180304 TCACATAAT-GATGTCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT-C-GATGCCATA
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATATACTGATGCCATA
* *
84180364 GCCCAGGTATGGTCTTACACA-TAATCACATA
64 GCCCAGATATGGTCTTACACAGT-AGCACATA
* *
84180395 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATAT-ACTGATGCCATAG
* *
84180460 CCCAGATATGGTCTTATACAGTAGCATATA
65 CCCAGATATGGTCTTACACAGTAGCACATA
* * *
84180490 TCAC--ACCGATGCCATATCCCAGATATGGTCTT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTT
84180522 GTACGGAAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
90 2 0.02
91 36 0.33
92 7 0.06
93 25 0.23
94 1 0.01
95 37 0.34
96 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (94 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATATACTGATGCCATAGC
CCAGATATGGTCTTACACAGTAGCACATA
Found at i:84180506 original size:47 final size:47
Alignment explanation
Indices: 84180354--84180521 Score: 196
Period size: 47 Copynumber: 3.6 Consensus size: 47
84180344 ATTCATATAT
* *
84180354 CGATGCCATAGCCCAGGTATGGTCTTACACA-TAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACAGT-ATCACATATCAC--AC
* * *
84180403 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACAGTATCACATATCACAC
* * * * *
84180449 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACACAGTATCACATATCACAC
*
84180496 CGATGCCATATCCCAGATATGGTCTT
1 CGATGCCATAGCCCAGATATGGTCTT
84180522 GTACGGAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
46 27 0.26
47 37 0.36
48 11 0.11
49 29 0.28
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (47 bp):
CGATGCCATAGCCCAGATATGGTCTTACACAGTATCACATATCACAC
Found at i:84180579 original size:31 final size:31
Alignment explanation
Indices: 84180544--84180661 Score: 184
Period size: 31 Copynumber: 3.8 Consensus size: 31
84180534 CTTGTTACTT
*
84180544 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
84180575 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
84180606 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
84180637 GTAGCCAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
84180662 TGTCATTTGT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
30 2 0.03
31 76 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:84181025 original size:2 final size:2
Alignment explanation
Indices: 84181018--84181042 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84181008 CACGAGTCAT
84181018 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
84181043 TTTCCTCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84183100 original size:21 final size:22
Alignment explanation
Indices: 84183071--84183112 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
84183061 TTGCTCTGGC
84183071 GGGGATTGTGGTTGCTTCGGTA
1 GGGGATTGTGGTTGCTTCGGTA
*
84183093 GGGG-TTGTGGTTTCTTCGGT
1 GGGGATTGTGGTTGCTTCGGT
84183113 TGTAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.05, C:0.10, G:0.45, T:0.40
Consensus pattern (22 bp):
GGGGATTGTGGTTGCTTCGGTA
Found at i:84183372 original size:18 final size:18
Alignment explanation
Indices: 84183336--84183373 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
84183326 AGAAAAGGAA
* *
84183336 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTACGAT
84183354 ACATATAAGGGCTACGAT
1 ACATATAAGGGCTACGAT
84183372 AC
1 AC
84183374 TCATCTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTACGAT
Found at i:84185014 original size:54 final size:51
Alignment explanation
Indices: 84184909--84185017 Score: 175
Period size: 54 Copynumber: 2.1 Consensus size: 51
84184899 TATAAAATAC
84184909 AAATTAATTAAAATTACATAAATAAAAATATTAAATAATATTCAAATTTTA
1 AAATTAATTAAAATTACATAAATAAAAATATTAAATAATATTCAAATTTTA
84184960 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCCAAA-TTTA
1 AAATTAATTAAAATTACATAAAT---AAAAATATTAAATAATATT-CAAATTTTA
84185014 AAAT
1 AAAT
84185018 AAATCGTTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
51 23 0.43
54 27 0.50
55 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.35
Consensus pattern (51 bp):
AAATTAATTAAAATTACATAAATAAAAATATTAAATAATATTCAAATTTTA
Found at i:84188058 original size:19 final size:19
Alignment explanation
Indices: 84188023--84188067 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
84188013 GTTGGTGGCC
84188023 TTTAATTT-TATAAATTTTG
1 TTTAATTTATATAAA-TTTG
*
84188042 TTTAATTTATAT-TATTTG
1 TTTAATTTATATAAATTTG
84188060 TTT-ATTTA
1 TTTAATTTA
84188068 AAATAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 9 0.38
20 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTAATTTATATAAATTTG
Found at i:84190530 original size:5 final size:5
Alignment explanation
Indices: 84190520--84190551 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
84190510 AACCCTGTGA
84190520 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
84190552 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:84190545 original size:9 final size:9
Alignment explanation
Indices: 84190521--84190551 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
84190511 ACCCTGTGAA
84190521 AAATAAAAT
1 AAATAAAAT
84190530 AAAATAAAAT
1 -AAATAAAAT
84190540 AAATAAAAT
1 AAATAAAAT
84190549 AAA
1 AAA
84190552 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:84195816 original size:22 final size:22
Alignment explanation
Indices: 84195774--84195816 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
84195764 AAAAATATTA
*
84195774 ATTTGAGTAAAATTGTAATTTG
1 ATTTGAGTAAAATTATAATTTG
84195796 ATTTGA-TAAAATTATATATTT
1 ATTTGAGTAAAATTATA-ATTT
84195817 ATCAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (22 bp):
ATTTGAGTAAAATTATAATTTG
Found at i:84198786 original size:36 final size:36
Alignment explanation
Indices: 84198746--84198819 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
84198736 ATCGCAAGTA
84198746 AATGCATCGCCCATCCAAACTCACCCTAATTCATTT
1 AATGCATCGCCCATCCAAACTCACCCTAATTCATTT
84198782 AATGCATCGCCCATCCAAACTCACCCTAATTCATTT
1 AATGCATCGCCCATCCAAACTCACCCTAATTCATTT
84198818 AA
1 AA
84198820 CTCTGTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.27
Consensus pattern (36 bp):
AATGCATCGCCCATCCAAACTCACCCTAATTCATTT
Found at i:84199986 original size:27 final size:27
Alignment explanation
Indices: 84199955--84200041 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
84199945 AATAAATTTT
84199955 TTAATTAAATCAACCCATTCATAACAA
1 TTAATTAAATCAACCCATTCATAACAA
* * * *
84199982 TTAATTTAAT--ACTCAATAATAA-AA
1 TTAATTAAATCAACCCATTCATAACAA
* *
84200006 TTTTTAATTGAATCAACCCATTCATACCAA
1 ---TTAATTAAATCAACCCATTCATAACAA
84200036 TTAATT
1 TTAATT
84200042 TAATACTCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
24 2 0.04
25 9 0.20
27 24 0.53
29 8 0.18
30 2 0.04
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (27 bp):
TTAATTAAATCAACCCATTCATAACAA
Found at i:84200022 original size:54 final size:54
Alignment explanation
Indices: 84199945--84200051 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
84199935 TTATTGATTC
*
84199945 AATAAATTTTTTAATTAAATCAACCCATTCATAACAATTAATTTAATACTCAAT
1 AATAAAATTTTTAATTAAATCAACCCATTCATAACAATTAATTTAATACTCAAT
* *
84199999 AATAAAATTTTTAATTGAATCAACCCATTCATACCAATTAATTTAATACTCAA
1 AATAAAATTTTTAATTAAATCAACCCATTCATAACAATTAATTTAATACTCAA
84200052 CGTATTCTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.37
Consensus pattern (54 bp):
AATAAAATTTTTAATTAAATCAACCCATTCATAACAATTAATTTAATACTCAAT
Found at i:84200739 original size:2 final size:2
Alignment explanation
Indices: 84200734--84200786 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
84200724 CTCTCTCTCT
* *
84200734 CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA CA CA CA CA GA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
84200776 CA CA CG CA CA C
1 CA CA CA CA CA C
84200787 TTGTTTTAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.45, C:0.49, G:0.06, T:0.00
Consensus pattern (2 bp):
CA
Found at i:84205019 original size:31 final size:29
Alignment explanation
Indices: 84204984--84205048 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
84204974 TGATCACTTC
*
84204984 GTAACAAAATAATAATATAAGTGACTAAAAT
1 GTAAC-AAATAA-AACATAAGTGACTAAAAT
** *
84205015 GTAACATTTTAAACATAAGTGACTAAAAT
1 GTAACAAATAAAACATAAGTGACTAAAAT
84205044 GTAAC
1 GTAAC
84205049 CTGAGACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 22 0.73
30 3 0.10
31 5 0.17
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (29 bp):
GTAACAAATAAAACATAAGTGACTAAAAT
Found at i:84205124 original size:15 final size:15
Alignment explanation
Indices: 84205104--84205133 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
84205094 ATAATAACCC
84205104 ATATAAACATTTAGT
1 ATATAAACATTTAGT
84205119 ATATAAACATTTAGT
1 ATATAAACATTTAGT
84205134 GTAGGTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
ATATAAACATTTAGT
Found at i:84213465 original size:21 final size:21
Alignment explanation
Indices: 84213439--84213479 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
84213429 TCCAGCAACC
*
84213439 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
84213460 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
84213480 CCGTCCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:84223462 original size:17 final size:18
Alignment explanation
Indices: 84223444--84223477 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
84223434 GAGCTCAAAT
84223444 TTTATTT-TTTAA-AAAA
1 TTTATTTATTTAATAAAA
84223460 TTTATTTATTTAATAAAA
1 TTTATTTATTTAATAAAA
84223478 GATATACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATTTATTTAATAAAA
Found at i:84224809 original size:19 final size:16
Alignment explanation
Indices: 84224773--84224805 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
84224763 TATGTGTTCA
84224773 ATTTAAGCCTTTTACT
1 ATTTAAGCCTTTTACT
84224789 ATTTAAGCCTTTTACT
1 ATTTAAGCCTTTTACT
84224805 A
1 A
84224806 CTATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTTAAGCCTTTTACT
Found at i:84231989 original size:21 final size:21
Alignment explanation
Indices: 84231963--84232004 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
84231953 ATCTCTGTCC
84231963 CATGACCAGATTGGAATAGGG
1 CATGACCAGATTGGAATAGGG
84231984 CATGACCAGATTGGAATAGGG
1 CATGACCAGATTGGAATAGGG
84232005 GAAGACTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (21 bp):
CATGACCAGATTGGAATAGGG
Found at i:84241328 original size:91 final size:91
Alignment explanation
Indices: 84241197--84241389 Score: 210
Period size: 91 Copynumber: 2.1 Consensus size: 91
84241187 AAAAGGGTTA
* * ** * *
84241197 TGTAACATTTGGTACATGTACTTTTATAAAATATTTAATGT-GATATATGTAATTTGAAAAC-GT
1 TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTAG-TATATATAATTT-AAAACTAT
*
84241260 TAAATGTGGTACATGAACTATGAATTTG
64 TAAATGTGGTACATGAACTATCAATTTG
* * * * * * *
84241288 TTTATTATTTGGTACTTGTACTTTTAAAAAATCTCAAATGTAGTATTTATACTTTAAAACTATTC
1 TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTAGTATATATAATTTAAAACTATTA
* *
84241353 AATGTGGTACCTGAATTATCAATTTG
66 AATGTGGTACATGAACTATCAATTTG
84241379 TGTATCATTTG
1 TGTATCATTTG
84241390 ATACCTATAC
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
90 5 0.06
91 76 0.93
92 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.44
Consensus pattern (91 bp):
TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTAGTATATATAATTTAAAACTATTA
AATGTGGTACATGAACTATCAATTTG
Found at i:84241473 original size:62 final size:62
Alignment explanation
Indices: 84241352--84241471 Score: 143
Period size: 62 Copynumber: 1.9 Consensus size: 62
84241342 TAAAACTATT
* * * * * *
84241352 CAATGTGGTACCTGAATTATCAATTTGTGTATCATTTGATACCTATACTTTCGTAAAATGTC
1 CAATGTGGTACCTAAACTATCAATCTGTGTATCATTTGACACCTAGACTTTAGTAAAATGTC
* *
84241414 CAATGTGGTACTTAAACTATCAATCTGTGTATTATTATGACACCTAGA-TTATAGTAAA
1 CAATGTGGTACCTAAACTATCAATCTGTGTATCATT-TGACACCTAGACTT-TAGTAAA
84241472 TGCTAAATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
62 33 0.69
63 15 0.31
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (62 bp):
CAATGTGGTACCTAAACTATCAATCTGTGTATCATTTGACACCTAGACTTTAGTAAAATGTC
Found at i:84242294 original size:41 final size:40
Alignment explanation
Indices: 84242210--84242307 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 40
84242200 ACCAGTTTGG
* * * * *
84242210 CACCCAGTGCCTCATTGTATAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAATAATCCGAAGTAATAAATTAA
*
84242250 CACCCAGTGTCTCATCGAATAAATCCGAAGTAGTAAATTAA
1 CACCCAGTGTCTCATCGAAT-AATCCGAAGTAATAAATTAA
* *
84242291 CACCTAATGTCTCATCG
1 CACCCAGTGTCTCATCG
84242308 GTTAAACCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 17 0.35
41 32 0.65
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (40 bp):
CACCCAGTGTCTCATCGAATAATCCGAAGTAATAAATTAA
Found at i:84242342 original size:37 final size:40
Alignment explanation
Indices: 84242210--84242342 Score: 112
Period size: 41 Copynumber: 3.4 Consensus size: 40
84242200 ACCAGTTTGG
* * * * *
84242210 CACCCAGTGCCTCATTGTAT-AATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAATAAATCCGAAG-AGTAAATTGA
*
84242250 CACCCAGTGTCTCATCGAATAAATCCGAAGTAGTAAATTAA
1 CACCCAGTGTCTCATCGAATAAATCCGAAG-AGTAAATTGA
* * ** *
84242291 CACCTAATGTCTCATCGGTTAAA-CC-AA-AGTAAATTGG
1 CACCCAGTGTCTCATCGAATAAATCCGAAGAGTAAATTGA
*
84242328 CACCCAGTGCCTCAT
1 CACCCAGTGTCTCAT
84242343 TGACTCGAAG
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
37 20 0.26
39 2 0.03
40 19 0.25
41 36 0.47
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
CACCCAGTGTCTCATCGAATAAATCCGAAGAGTAAATTGA
Found at i:84248617 original size:30 final size:30
Alignment explanation
Indices: 84248578--84248634 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
84248568 TTTTATAAAT
84248578 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
84248608 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
84248635 AACAAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:84248844 original size:13 final size:13
Alignment explanation
Indices: 84248815--84248868 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
84248805 ATAACCAAAC
*
84248815 TTTTTAAAAGT-AA
1 TTTTTAAAA-TCAT
84248828 TTTTTAAAATCAT
1 TTTTTAAAATCAT
*
84248841 TTTTCTAAAA-CAC
1 TTTT-TAAAATCAT
84248854 TTTTTAAAATCAT
1 TTTTTAAAATCAT
84248867 TT
1 TT
84248869 CTCAAAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
12 6 0.17
13 24 0.69
14 5 0.14
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (13 bp):
TTTTTAAAATCAT
Found at i:84248857 original size:26 final size:26
Alignment explanation
Indices: 84248828--84248877 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
84248818 TTAAAAGTAA
* *
84248828 TTTTTAAAATCATTTTTCTAAAACAC
1 TTTTTAAAATCATTTCTCAAAAACAC
84248854 TTTTTAAAATCATTTCTCAAAAAC
1 TTTTTAAAATCATTTCTCAAAAAC
84248878 TTGCTAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTTTAAAATCATTTCTCAAAAACAC
Found at i:84248885 original size:24 final size:26
Alignment explanation
Indices: 84248832--84248885 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
84248822 AAGTAATTTT
* **
84248832 TAAAATCATTTTTCTAAAACACTTTT
1 TAAAATCATTTCTCTAAAACACTTGC
84248858 TAAAATCATTTCTC-AAAA-ACTTGC
1 TAAAATCATTTCTCTAAAACACTTGC
84248882 TAAA
1 TAAA
84248886 GTAGCCTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.32
25 4 0.16
26 13 0.52
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAAATCATTTCTCTAAAACACTTGC
Found at i:84254102 original size:29 final size:29
Alignment explanation
Indices: 84253951--84254081 Score: 226
Period size: 29 Copynumber: 4.5 Consensus size: 29
84253941 GTGACGAGAT
84253951 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
84253980 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
84254009 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
84254038 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
84254067 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
84254082 GAGCTCGAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:84254110 original size:58 final size:58
Alignment explanation
Indices: 84253951--84254081 Score: 262
Period size: 58 Copynumber: 2.3 Consensus size: 58
84253941 GTGACGAGAT
84253951 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
84254009 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
84254067 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
84254082 GAGCTCGAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (58 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
Found at i:84254128 original size:87 final size:87
Alignment explanation
Indices: 84253951--84254138 Score: 209
Period size: 87 Copynumber: 2.2 Consensus size: 87
84253941 GTGACGAGAT
* * *
84253951 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
84254016 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * * *
84254038 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
84254102 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
84254125 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
84254139 TGAAATCGAG
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
86 3 0.04
87 79 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:84262522 original size:29 final size:29
Alignment explanation
Indices: 84262488--84262619 Score: 97
Period size: 29 Copynumber: 4.6 Consensus size: 29
84262478 TACTCGATTT
* * *
84262488 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
84262517 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
84262546 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
84262575 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
84262604 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
84262620 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:84262580 original size:58 final size:59
Alignment explanation
Indices: 84262487--84262619 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 59
84262477 ATACTCGATT
* * * *
84262487 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
* * * * * *
84262545 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACATAGTGCCATACACTTCCAGCA
84262604 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
84262620 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 4 0.06
58 58 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
Found at i:84266088 original size:39 final size:39
Alignment explanation
Indices: 84265970--84266152 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
84265960 TCGTTCAAAC
* * ** * **
84265970 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * **
84266010 GCCTTCGGGACTTAACCCGGATATCACAATTTTCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
84266050 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
84266089 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
84266128 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
84266153 CTCGAACATT
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 87 0.70
40 37 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:84272117 original size:39 final size:39
Alignment explanation
Indices: 84272070--84272252 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
84272060 AATGTTCGAG
84272070 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
84272109 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
84272148 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
84272187 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
84272227 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
84272253 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:84273528 original size:24 final size:24
Alignment explanation
Indices: 84273501--84273546 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
84273491 TATTTTTAAT
*
84273501 TTAA-AATTTAACAAGTAATTTATA
1 TTAATAATTTAAAAAGT-ATTTATA
*
84273525 TTAATTATTTAAAAAGTATTTA
1 TTAATAATTTAAAAAGTATTTA
84273547 ACTTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
TTAATAATTTAAAAAGTATTTATA
Found at i:84279748 original size:20 final size:20
Alignment explanation
Indices: 84279725--84279763 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
84279715 ATTATCAAAA
*
84279725 ATATAAAATTATGAAAATTG
1 ATATAAAATTATAAAAATTG
*
84279745 ATATAAATTTATAAAAATT
1 ATATAAAATTATAAAAATT
84279764 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATAAAATTATAAAAATTG
Found at i:84279771 original size:10 final size:9
Alignment explanation
Indices: 84279711--84279770 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
84279701 AAATCAGGAA
84279711 AAAAATTAT
1 AAAAATTAT
84279720 CAAAAA-TAT
1 -AAAAATTAT
84279729 -AAAATTAT
1 AAAAATTAT
*
84279737 GAAAATTGAT
1 AAAAATT-AT
*
84279747 ATAAATTTAT
1 A-AAAATTAT
84279757 AAAAATTAT
1 AAAAATTAT
84279766 AAAAA
1 AAAAA
84279771 AAATTTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 21 0.49
10 10 0.23
11 5 0.12
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:84279799 original size:22 final size:22
Alignment explanation
Indices: 84279749--84279791 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
84279739 AAATTGATAT
*
84279749 AAATTTATAAAAATTATAAAAA
1 AAATTTATAAAAAGTATAAAAA
84279771 AAATTTAT-AAAAGTA-AAAAA
1 AAATTTATAAAAAGTATAAAAA
84279791 A
1 A
84279792 TATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATTTATAAAAAGTATAAAAA
Found at i:84287087 original size:3 final size:3
Alignment explanation
Indices: 84287079--84287119 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
84287069 TTTATAAAAC
84287079 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
84287120 AATTGCATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:84292002 original size:24 final size:25
Alignment explanation
Indices: 84291975--84292032 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 25
84291965 ATTTAAATTT
84291975 TAAGTTT-ATTCTTGATGTATTTGC
1 TAAGTTTAATTCTTGATGTATTTGC
84291999 TAAGTTTTTAATTCTTGATGTATTTGC
1 TAAG--TTTAATTCTTGATGTATTTGC
84292026 TAAGTTT
1 TAAGTTT
84292033 TTTTAAGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.13
25 3 0.10
26 3 0.10
27 21 0.68
ACGTcount: A:0.22, C:0.07, G:0.16, T:0.55
Consensus pattern (25 bp):
TAAGTTTAATTCTTGATGTATTTGC
Found at i:84292015 original size:27 final size:27
Alignment explanation
Indices: 84291982--84292034 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
84291972 TTTTAAGTTT
84291982 ATTCTTGATGTATTTGCTAAGTTTTTA
1 ATTCTTGATGTATTTGCTAAGTTTTTA
84292009 ATTCTTGATGTATTTGCTAAGTTTTT
1 ATTCTTGATGTATTTGCTAAGTTTTT
84292035 TTAAGCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.57
Consensus pattern (27 bp):
ATTCTTGATGTATTTGCTAAGTTTTTA
Found at i:84292809 original size:6 final size:6
Alignment explanation
Indices: 84292778--84292803 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
84292768 AGTATTAATT
84292778 AAGAAA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA
84292804 ACAAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:84293333 original size:40 final size:40
Alignment explanation
Indices: 84293286--84293927 Score: 872
Period size: 40 Copynumber: 16.1 Consensus size: 40
84293276 CATATTTTGA
*
84293286 TTGGATCAGCTCTTATGAGCTTCTGTTTAGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * **
84293326 TTAGATCAACTCTTATGAGCTTTTGTTTGGCGTGTTTTAG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* *
84293366 TTGGATAAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCAG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* *
84293406 TTGGATTAGCTCTTATGAGCTTCTGTTTGGCATGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * *
84293446 TTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTGCTTCGA
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* *
84293486 TTGGATCAACTCTTATGAGCTTCTATTTGGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * *
84293526 TTGGCTCAGCTCTTATGAGCCTCTGTTTGGCATGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * *
84293566 TTGGATAAACTCTTATGAGCCTCTGTTTGGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
*
84293606 TTGGATCAGCTCTTATGAGCCTCTGTTTGGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
*
84293646 TTGGATCAGCTCTTATGAGCTTCTATTTGGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * *
84293686 TTGGATCAGATCTTATGAGCTTATGTTTGGTGTGTTTCGA
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * *
84293726 TTGGATCAACTCTTATGATCTTCTGTTTGGCGTGCTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * * *
84293766 TTGGATCAACTCTTATGATCTTCTGTTTGACATGTTTCTG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * **
84293806 TTGGATCAACTCTTATGAGCCTCTGTTTGGCGTGTTTCTA
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* *
84293846 TTGGATCAGCTCTTATGAGCTTTTGTTTAGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * *
84293886 TTGGATTAGCTCTTATGAGCTTCTATCTGGTGTG-TTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
84293925 TTG
1 TTG
84293928 ATCTGACGAT
Statistics
Matches: 532, Mismatches: 70, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
39 8 0.02
40 524 0.98
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.43
Consensus pattern (40 bp):
TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
Found at i:84294254 original size:20 final size:20
Alignment explanation
Indices: 84294208--84294257 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
84294198 TACTATGCAA
*
84294208 ATGAAAAGATATAATTTCTT
1 ATGAAATGATATAATTTCTT
*
84294228 ATGAAATGATGTAATTTCTT
1 ATGAAATGATATAATTTCTT
84294248 ATGAAATGAT
1 ATGAAATGAT
84294258 TTATCATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGAAATGATATAATTTCTT
Found at i:84297323 original size:2 final size:2
Alignment explanation
Indices: 84297316--84297355 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
84297306 ATATCATATT
84297316 CA CA 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 CA CA
84297356 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:84298108 original size:21 final size:20
Alignment explanation
Indices: 84298084--84298122 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
84298074 TTAATTTTCC
*
84298084 CTTTTCTTCTTTCCGTTCTTT
1 CTTTTCTTCCTTCC-TTCTTT
*
84298105 CTTTTTTTCCTTCCTTCT
1 CTTTTCTTCCTTCCTTCT
84298123 CTGTTTCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (20 bp):
CTTTTCTTCCTTCCTTCTTT
Found at i:84298166 original size:14 final size:15
Alignment explanation
Indices: 84298149--84298181 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
84298139 ATTCTGTTTC
84298149 TTTCCTTTCCTTT-T
1 TTTCCTTTCCTTTAT
*
84298163 TTTCCTTTCTTTTAT
1 TTTCCTTTCCTTTAT
84298178 TTTC
1 TTTC
84298182 ATTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCCTTTCCTTTAT
Found at i:84298375 original size:18 final size:19
Alignment explanation
Indices: 84298352--84298387 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
84298342 AATTATTTGA
84298352 TTAATAAATATCT-TTTAC
1 TTAATAAATATCTATTTAC
*
84298370 TTAATAATTATCTATTTA
1 TTAATAAATATCTATTTA
84298388 ATAACTAAAT
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:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATAAATATCTATTTAC
Found at i:84300948 original size:2 final size:2
Alignment explanation
Indices: 84300941--84300969 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
84300931 CATGGGACCT
84300941 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
84300970 TTAGATTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:84309320 original size:21 final size:21
Alignment explanation
Indices: 84309295--84309337 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
84309285 AAGAATGATT
84309295 TTTAACTCTTTTCTTAA-TTAA
1 TTTAA-TCTTTTCTTAACTTAA
* *
84309316 TTTAATGTTTTGTTAACTTAA
1 TTTAATCTTTTCTTAACTTAA
84309337 T
1 T
84309338 CCAAAACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTAATCTTTTCTTAACTTAA
Found at i:84313495 original size:24 final size:23
Alignment explanation
Indices: 84313468--84313594 Score: 87
Period size: 24 Copynumber: 5.1 Consensus size: 23
84313458 AAGAAAAATG
84313468 AAATAAATAATATAAAACAATTT
1 AAATAAATAATATAAAACAATTT
* *
84313491 GAAATAAATAATA-AGATA-ATTTT
1 -AAATAAATAATATA-AAACAATTT
*
84313514 AAATAAATAATATATATCAAAAAAGGTTT
1 AAATAAAT-A-ATATA--AAACAA--TTT
* *
84313543 AAATAGATACTATAAAAAGCAATTT
1 AAATAAATAATAT-AAAA-CAATTT
*
84313568 AAAGTAAATAATATAAAATAATTT
1 AAA-TAAATAATATAAAACAATTT
84313592 AAA
1 AAA
84313595 ATCATTAATA
Statistics
Matches: 81, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
22 8 0.10
23 6 0.07
24 25 0.31
25 11 0.14
26 13 0.16
27 6 0.07
28 2 0.02
29 10 0.12
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (23 bp):
AAATAAATAATATAAAACAATTT
Found at i:84313511 original size:22 final size:22
Alignment explanation
Indices: 84313466--84313525 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
84313456 CGAAGAAAAA
84313466 TGAAATAAATAATATAAAACAATT
1 TGAAATAAAT-A-ATAAAACAATT
* *
84313490 TGAAATAAATAATAAGATAATT
1 TGAAATAAATAATAAAACAATT
*
84313512 TTAAATAAATAATA
1 TGAAATAAATAATA
84313526 TATATCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 22 0.67
23 1 0.03
24 10 0.30
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (22 bp):
TGAAATAAATAATAAAACAATT
Found at i:84313715 original size:29 final size:28
Alignment explanation
Indices: 84313682--84313736 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
84313672 ATATAAAAAG
* *
84313682 TTTAAAATAAATAATATGTGAAAAATAAA
1 TTTAAAATAAAGAATATAT-AAAAATAAA
*
84313711 TTTAAAATAGAGAATATATAAAAATA
1 TTTAAAATAAAGAATATATAAAAATA
84313737 TATATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (28 bp):
TTTAAAATAAAGAATATATAAAAATAAA
Found at i:84313915 original size:21 final size:18
Alignment explanation
Indices: 84313884--84313922 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
84313874 TAAAATAGAT
84313884 AATATATAAAATAGTTTAA
1 AATATATAAAATA-TTTAA
84313903 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
84313923 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:84330828 original size:16 final size:16
Alignment explanation
Indices: 84330798--84330839 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
84330788 TTATTTATTA
84330798 AATTAA-TTT-TAATT
1 AATTAATTTTCTAATT
84330812 AATTAATTTTCTAATT
1 AATTAATTTTCTAATT
*
84330828 AAATAATTTTCT
1 AATTAATTTTCT
84330840 TAATCGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 3 0.12
16 16 0.64
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTAATTTTCTAATT
Found at i:84331767 original size:20 final size:20
Alignment explanation
Indices: 84331742--84331791 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
84331732 GTAGCTCTTG
*
84331742 TGTTGAGCCGCAGTAGCTTA
1 TGTTGAGCCACAGTAGCTTA
*
84331762 TGTTGAGCCATAGTAGCTTA
1 TGTTGAGCCACAGTAGCTTA
*
84331782 TGTTAAGCCA
1 TGTTGAGCCA
84331792 TAGCCTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
TGTTGAGCCACAGTAGCTTA
Found at i:84331792 original size:20 final size:20
Alignment explanation
Indices: 84331753--84331794 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
84331743 GTTGAGCCGC
*
84331753 AGTAGCTTATGTTGAGCCAT
1 AGTAGCTTATGTTAAGCCAT
84331773 AGTAGCTTATGTTAAGCCAT
1 AGTAGCTTATGTTAAGCCAT
84331793 AG
1 AG
84331795 CCTGAATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (20 bp):
AGTAGCTTATGTTAAGCCAT
Found at i:84337846 original size:26 final size:27
Alignment explanation
Indices: 84337801--84337851 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
84337791 TTTCCCTTTG
*
84337801 GGTTAGATATAATTTGATTAGTATTTA
1 GGTTAGATATAATTTGATTAATATTTA
*
84337828 GGTTAGATGT-ATTTGATTAATATT
1 GGTTAGATATAATTTGATTAATATT
84337852 AATTAGGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (27 bp):
GGTTAGATATAATTTGATTAATATTTA
Found at i:84338561 original size:72 final size:71
Alignment explanation
Indices: 84338439--84338696 Score: 293
Period size: 72 Copynumber: 3.6 Consensus size: 71
84338429 ATCCAAGCCC
* * * * *
84338439 AAACTTTTCAACCAAGTGAGGACCTCTCTTATAGACATAGCCTCTACCAGCCGTGGTTCCATTAA
1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCCTCTGCCAGCCGTGGTTCCATTAA
84338504 TGGGAAG
66 TGGG-AG
* * * * *
84338511 AAACCTTTCAGCTAGGTGCGGGCCTCTCTAATAGACATAGCTTCTGCCAGCCGTGGTTCCGTTAA
1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCCTCTGCCAGCCGTGGTTCCATTAA
*
84338576 CGGGGAG
66 -TGGGAG
* * * * * ***
84338583 AAACCTTTCATCCAGGTGAGGGCCTAT-TTGATAGACATAGCCACCGCAAATTGTGGTTCCATTA
1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTT-ATAGACATAGCCTCTGCCAGCCGTGGTTCCATTA
84338647 ATGAGGAG
65 ATG-GGAG
*
84338655 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCC
1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCC
84338697 ACCACCGATC
Statistics
Matches: 154, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
71 2 0.01
72 147 0.95
73 5 0.03
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (71 bp):
AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCCTCTGCCAGCCGTGGTTCCATTAA
TGGGAG
Found at i:84338718 original size:72 final size:72
Alignment explanation
Indices: 84338439--84338730 Score: 275
Period size: 72 Copynumber: 4.1 Consensus size: 72
84338429 ATCCAAGCCC
* * * * *
84338439 AAACTTTTCAACCAAGTGAGGACCTCTCTTATAGACATAGCCTCTACCAGCCGTGGTTCCATTAA
1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAGCCGTGGTTCCATTAA
*
84338504 TG-GGAAG
66 CGAGG-AG
* * * * ** ** *
84338511 AAACCTTTCAGCTAGGTGCGGGCCTCTCTAATAGACATAGCTTCTGCCAGCCGTGGTTCCGTTAA
1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAGCCGTGGTTCCATTAA
*
84338576 CGGGGAG
66 CGAGGAG
* * * * * ***
84338583 AAACCTTTCATCCAGGTGAGGGCCTAT-TTGATAGACATAGCCACCGCAAATTGTGGTTCCATTA
1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTT-ATAGACATAGCCACCACCAGCCGTGGTTCCATTA
*
84338647 ATGAGGAG
65 ACGAGGAG
* * *
84338655 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACC-GATCGTGATTTCATTA
1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAG-CCGTGGTTCCATTA
*
84338719 ACGAGGAT
65 ACGAGGAG
84338727 AAAC
1 AAAC
84338731 AATGTGTGAA
Statistics
Matches: 179, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
71 1 0.01
72 174 0.97
73 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (72 bp):
AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAGCCGTGGTTCCATTAA
CGAGGAG
Found at i:84339276 original size:16 final size:16
Alignment explanation
Indices: 84339227--84339277 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
84339217 TTTAATTTTG
84339227 TAGATAATAGAGTAAATT
1 TAGATAATA-A-TAAATT
* *
84339245 TAAGAAAATTATAAATT
1 T-AGATAATAATAAATT
84339262 TAGATAATAATAAATT
1 TAGATAATAATAAATT
84339278 AAACCCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 13 0.46
17 7 0.25
18 2 0.07
19 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
TAGATAATAATAAATT
Found at i:84341755 original size:2 final size:2
Alignment explanation
Indices: 84341748--84341790 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
84341738 AGATGGTTGA
84341748 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84341790 A
1 A
84341791 ATTTGTTTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84345393 original size:21 final size:21
Alignment explanation
Indices: 84345367--84345411 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
84345357 TTTTCTCTTA
84345367 GGGTAGCTTCTT-AGTGAGTTG
1 GGGTAGCTTCTTGA-TGAGTTG
84345388 GGGTAGCTTCTTGATGAGTTG
1 GGGTAGCTTCTTGATGAGTTG
84345409 GGG
1 GGG
84345412 CAACCACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.13, C:0.09, G:0.42, T:0.36
Consensus pattern (21 bp):
GGGTAGCTTCTTGATGAGTTG
Found at i:84350888 original size:35 final size:35
Alignment explanation
Indices: 84350844--84351009 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
84350834 TCCTCATTGA
** *
84350844 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
84350879 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
84350918 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
84350953 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
84350988 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
84351010 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:84350929 original size:74 final size:73
Alignment explanation
Indices: 84350839--84351009 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
84350829 GGTTTTCCTC
** * * **
84350839 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
84350902 TCAGTATGG
65 TCAGTATGG
*
84350911 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
84350976 CTCAGTATGG
64 CTCAGTATGG
84350986 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
84351010 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:84357898 original size:35 final size:35
Alignment explanation
Indices: 84357854--84358020 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
84357844 TCCTCATTGA
** *
84357854 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* ***
84357889 AATGCCATACCTACATTTTTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
84357929 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
84357964 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
84357999 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
84358021 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 26 0.22
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:84357937 original size:75 final size:73
Alignment explanation
Indices: 84357849--84358020 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
84357839 GGTTTTCCTC
** * * ***
84357849 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTTTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
84357913 TCAGTATGG
65 TCAGTATGG
*
84357922 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
84357987 CTCAGTATGG
64 CTCAGTATGG
84357997 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
84358021 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:84359954 original size:48 final size:46
Alignment explanation
Indices: 84359883--84359973 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
84359873 AAAGACAGAT
*
84359883 AATAACCAAACACTTCAATACAAAAAAAAATCAATTTCTGTCATGTAA
1 AATAACCAAACACTTCAA-A-ACAAAAAAATCAATTTCTGTCATGTAA
* * * *
84359931 AATAAGCAAACACTTTAAAACAAACAAATCTATTTCTGTCATG
1 AATAACCAAACACTTCAAAACAAAAAAATCAATTTCTGTCATG
84359974 CACATGTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 21 0.55
47 1 0.03
48 16 0.42
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.26
Consensus pattern (46 bp):
AATAACCAAACACTTCAAAACAAAAAAATCAATTTCTGTCATGTAA
Found at i:84360003 original size:44 final size:44
Alignment explanation
Indices: 84359940--84360023 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
84359930 AAATAAGCAA
* **
84359940 ACACTTTAAAACAAACAAATCTATTTCTGTCATGCACATGTCAT
1 ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATGTCAT
* *
84359984 ACACTTTAATACAATCAAATCCATTTCTACCATGCACATG
1 ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATG
84360024 GCAAACAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (44 bp):
ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATGTCAT
Found at i:84360372 original size:199 final size:199
Alignment explanation
Indices: 84360025--84360418 Score: 499
Period size: 199 Copynumber: 2.0 Consensus size: 199
84360015 ATGCACATGG
* * *
84360025 CAAACAATAATCATATTTGAATTAGCATTTAAAAAACATGTTTCACAACTAGGAACTGATTTGTC
1 CAAACAATAATCATATTTGAATCAACATTTAAAAAACATGTTTCACAACTAGGAACTGATTTATC
* ** *
84360090 ATATTTAAATCCAAATAAGCTTGATATTGTTGGTCATAAAAATAGGAACTGATTTATCTCTTTCC
66 ATATTTAAATCCAAAGAAGCTTGATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTTTCC
* * * * * * *
84360155 TAAAGATATCTATATGCACATGGTAAACAATATCTTTATAAA-AATCCAAATCTGTCATACACTT
131 TAAAGATATATATATGCACATAGCAAACAATAACTTTA-AAAGAATCCAAACCCGCCATACACTT
84360219 TGATA
195 TGATA
* * * *
84360224 CAAATAATAATCATATTTGAATCAACATTT-AAAAA-ATGTTCTTGACAATTAGGAACTTATTTA
1 CAAACAATAATCATATTTGAATCAACATTTAAAAAACATG-T-TTCACAACTAGGAACTGATTTA
* * * *
84360287 TCATATTTGAA-CCTAAAGAAGCTTGATATTAATAGTCATAAAAATATGAATTGATTTGTCTCTT
64 TCATATTTAAATCC-AAAGAAGCTTGATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTT
* * *
84360351 TCTTAAAGCTATATGTATGCACATAGCAAACAATAACTTTAAAAGAATCCAAACCCGCCATACAC
128 TCCTAAAGATATATATATGCACATAGCAAACAATAACTTTAAAAGAATCCAAACCCGCCATACAC
84360416 TTT
193 TTT
84360419 AATAACCAAA
Statistics
Matches: 166, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
197 3 0.02
198 11 0.07
199 152 0.92
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (199 bp):
CAAACAATAATCATATTTGAATCAACATTTAAAAAACATGTTTCACAACTAGGAACTGATTTATC
ATATTTAAATCCAAAGAAGCTTGATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTTTCC
TAAAGATATATATATGCACATAGCAAACAATAACTTTAAAAGAATCCAAACCCGCCATACACTTT
GATA
Found at i:84360431 original size:34 final size:35
Alignment explanation
Indices: 84360392--84360457 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
84360382 AATAACTTTA
*
84360392 AAAG-AATCCAAACCCGCCATACACTTTAATAACC
1 AAAGAAATCAAAACCCGCCATACACTTTAATAACC
*
84360426 AAAGAAATCAAAATCCGCCATACACTTTAATA
1 AAAGAAATCAAAACCCGCCATACACTTTAATA
84360458 CAAATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.47, C:0.27, G:0.06, T:0.20
Consensus pattern (35 bp):
AAAGAAATCAAAACCCGCCATACACTTTAATAACC
Found at i:84360571 original size:25 final size:24
Alignment explanation
Indices: 84360521--84360570 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
84360511 ACAAAGAAAT
84360521 CCAAAAAACCCTAAACTCAAATCC
1 CCAAAAAACCCTAAACTCAAATCC
84360545 CCAAAAAACCCTAAACTCAAATCC
1 CCAAAAAACCCTAAACTCAAATCC
84360569 CC
1 CC
84360571 CTAAGTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (24 bp):
CCAAAAAACCCTAAACTCAAATCC
Found at i:84360851 original size:30 final size:30
Alignment explanation
Indices: 84360815--84360903 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
84360805 CCCTAAAATA
84360815 TTAATCCTAATCAATTTTCTTTTCTTCTCC
1 TTAATCCTAATCAATTTTCTTTTCTTCTCC
* ** *
84360845 TTAATCCCAATTGATCCTTTCTTTT-TTTTCC
1 TTAATCCTAATCAAT--TTTCTTTTCTTCTCC
*
84360876 TTAATCCTAATCCATCTTTTCTTTTCTT
1 TTAATCCTAAT-CA-ATTTTCTTTTCTT
84360904 TTCCCTAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
30 12 0.26
31 23 0.50
32 10 0.22
33 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.01, T:0.55
Consensus pattern (30 bp):
TTAATCCTAATCAATTTTCTTTTCTTCTCC
Found at i:84360880 original size:31 final size:32
Alignment explanation
Indices: 84360830--84360907 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 32
84360820 CCTAATCAAT
* **
84360830 TTTCTTTTCTTCTCCTTAATCCCAATTGATCC
1 TTTCTTTTCTTTTCCTTAATCCCAATCCATCC
* *
84360862 TTTCTTTT-TTTTCCTTAATCCTAATCCATCT
1 TTTCTTTTCTTTTCCTTAATCCCAATCCATCC
84360893 TTTCTTTTCTTTTCC
1 TTTCTTTTCTTTTCC
84360908 CTAAACTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.13, C:0.28, G:0.01, T:0.58
Consensus pattern (32 bp):
TTTCTTTTCTTTTCCTTAATCCCAATCCATCC
Found at i:84361511 original size:27 final size:27
Alignment explanation
Indices: 84361481--84361536 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
84361471 CTATGCTTGA
*
84361481 ATTATTTATTCACATCAAAATTTATAT
1 ATTATTTATTCACAACAAAATTTATAT
84361508 ATTATTTATTCACAACAAAATTTATAT
1 ATTATTTATTCACAACAAAATTTATAT
84361535 AT
1 AT
84361537 AGCCAAGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTATTTATTCACAACAAAATTTATAT
Done.