Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 37 of 345
Found at i:11125284 original size:28 final size:27
Alignment explanation
Indices: 11125194--11125495 Score: 203
Period size: 28 Copynumber: 10.7 Consensus size: 27
11125184 ACCGTGTGTC
** * *
11125194 CCCTATTTTCCAAATCTTACAGTTTTT
1 CCCTATTTTTTAAATTTTATAGTTTTT
* *
11125221 CCCTATTTTTTGAATTTTATAGTTTTACC
1 CCCTATTTTTTAAATTTTATAGTTTT--T
* *
11125250 CCCTATTTTTTAAATTTTTTAATTTTT
1 CCCTATTTTTTAAATTTTATAGTTTTT
* * *
11125277 CCCTTATTTCTTCAAATTTTACAATTTTGT
1 CCC-TATTT-TTTAAATTTTATAGTTTT-T
* * * *
11125307 CCCTATTTTTCCAAATCTTACAGTTTTA
1 CCCTATTTTT-TAAATTTTATAGTTTTT
* * * *
11125335 CCCT-TATTTTCATATTTTACAATTTTAT
1 CCCTAT-TTTTTAAATTTTATAGTTTT-T
** *
11125363 CCACTATTTTTTTAGGTATTATAGTTTTT
1 CC-CTA-TTTTTTAAATTTTATAGTTTTT
* *
11125392 CCTCTATTTTCTAGATTTTATAGTTTTGT
1 CC-CTATTTTTTAAATTTTATAGTTTT-T
*
11125421 CCCTATTTTTTAGATTTTATAGTTTTT
1 CCCTATTTTTTAAATTTTATAGTTTTT
* * * *
11125448 CCCTTATTTTTTAGATTTTACAATTTTC
1 CCC-TATTTTTTAAATTTTATAGTTTTT
11125476 CCCTA-TTTTTAAGATTTTAT
1 CCCTATTTTTTAA-ATTTTAT
11125496 CATTTTGCCC
Statistics
Matches: 225, Mismatches: 36, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.03
27 50 0.22
28 82 0.36
29 68 0.30
30 18 0.08
31 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.05, T:0.56
Consensus pattern (27 bp):
CCCTATTTTTTAAATTTTATAGTTTTT
Found at i:11125293 original size:29 final size:28
Alignment explanation
Indices: 11125194--11125530 Score: 172
Period size: 28 Copynumber: 12.0 Consensus size: 28
11125184 ACCGTGTGTC
* * *
11125194 CCCTATTTTCCAAATCTTACAGTTTT-T
1 CCCTATTTTTCAAATTTTACAATTTTGT
** * * **
11125221 CCCTATTTTTTGAATTTTATAGTTTTACC
1 CCCTATTTTTCAAATTTTACAATTTT-GT
* **
11125250 CCCTATTTTTTAAATTTTTTAATTTT-T
1 CCCTATTTTTCAAATTTTACAATTTTGT
11125277 CCCTTATTTCTTCAAATTTTACAATTTTGT
1 CCC-TATTT-TTCAAATTTTACAATTTTGT
* * *
11125307 CCCTATTTTTCCAAATCTTACAGTTTT-A
1 CCCTATTTTT-CAAATTTTACAATTTTGT
* *
11125335 CCCT-TATTTTCATATTTTACAATTTTAT
1 CCCTAT-TTTTCAAATTTTACAATTTTGT
* ** * * *
11125363 CCACTATTTTTTTAGGTATTATAGTTTT-T
1 CC-CTA-TTTTTCAAATTTTACAATTTTGT
* * *
11125392 CCTCTA-TTTTCTAGATTTTATAGTTTTGT
1 CC-CTATTTTTC-AAATTTTACAATTTTGT
* * * *
11125421 CCCTATTTTTTAGATTTTATAGTTTT-T
1 CCCTATTTTTCAAATTTTACAATTTTGT
* * *
11125448 CCCTTATTTTTTAGATTTTACAATTTT-C
1 CCC-TATTTTTCAAATTTTACAATTTTGT
*
11125476 CCCTATTTTT-AAGATTTTATC-ATTTTGC
1 CCCTATTTTTCAA-ATTTTA-CAATTTTGT
* *
11125504 CCCTAATTTTCAAAATTTACAATTTTG
1 CCCTATTTTTCAAATTTTACAATTTTG
11125531 ACCCAAAATT
Statistics
Matches: 253, Mismatches: 37, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
26 1 0.00
27 65 0.26
28 94 0.37
29 74 0.29
30 18 0.07
31 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (28 bp):
CCCTATTTTTCAAATTTTACAATTTTGT
Found at i:11125361 original size:114 final size:110
Alignment explanation
Indices: 11125194--11125530 Score: 315
Period size: 114 Copynumber: 3.0 Consensus size: 110
11125184 ACCGTGTGTC
* * * *
11125194 CCCTA-TTTTCCAAATCTTACAGTTTTTCCCTATTTTTTGAATTTTATAGTTTTACCCCCTATTT
1 CCCTATTTTTCCAAATCTTACAGTTTTTCCCT-TATTTTCAATTTTACAATTTTA-CCCCTATTT
*
11125258 TTTAAATTTTTTAATTTTTCCCTTATTTCTTCAAATTTTACAATTTTGT
64 TTTAAATTTTATAATTTTTCCCTTA-TT-TTCAAATTTTACAATTTTGT
* *
11125307 CCCTATTTTTCCAAATCTTACAGTTTTACCCTTATTTTCATATTTTACAATTTTATCCACTATTT
1 CCCTATTTTTCCAAATCTTACAGTTTTTCCCTTATTTTCA-ATTTTACAATTTTA-CCCCTA-TT
** * * * * *
11125372 TTTTAGGTATTATAGTTTTT-CCTCTATTTTCTAGATTTTATAGTTTTGT
63 TTTTAAATTTTATAATTTTTCCCT-TATTTTC-AAATTTTACAATTTTGT
* * * * *
11125421 CCCTATTTTT-TAGATTTTATAGTTTTTCCCTTATTTTTTAGATTTTACAATTTT-CCCCTA-TT
1 CCCTATTTTTCCAAATCTTACAGTTTTTCCCTTA-TTTTCA-ATTTTACAATTTTACCCCTATTT
* * * *
11125483 TTTAAGATTTTATCATTTTGCCCCTAATTTTCAAAATTTACAATTTTG
64 TTTAA-ATTTTATAATTTT-TCCCTTATTTTCAAATTTTACAATTTTG
11125531 ACCCAAAATT
Statistics
Matches: 181, Mismatches: 34, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
110 6 0.03
111 21 0.12
112 11 0.06
113 35 0.19
114 89 0.49
115 19 0.10
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (110 bp):
CCCTATTTTTCCAAATCTTACAGTTTTTCCCTTATTTTCAATTTTACAATTTTACCCCTATTTTT
TAAATTTTATAATTTTTCCCTTATTTTCAAATTTTACAATTTTGT
Found at i:11126176 original size:86 final size:86
Alignment explanation
Indices: 11126031--11126237 Score: 326
Period size: 86 Copynumber: 2.4 Consensus size: 86
11126021 TTTAATCTGT
* * * *
11126031 AAATAGTATGGTTCGATTATGAACCAAGTGTTAGTTTGTTTAATCTGCAAACATGTTGTGTACTC
1 AAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTGTTTAATCTGCAAACATGTTGTGCACTC
11126096 ACAACAAGTGGCAGTAACTGC
66 ACAACAAGTGGCAGTAACTGC
* * *
11126117 AAATAGTGTGGTTTGATAATGAACCAAGTGGTAGTTTGTTTAATCTGTAAATATGTTGTGCACTC
1 AAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTGTTTAATCTGCAAACATGTTGTGCACTC
*
11126182 ACAACAAGTGGCAGTAACTGT
66 ACAACAAGTGGCAGTAACTGC
*
11126203 AAATA-TGTGGTTCGATCATGAACCAAGTGGTAGTT
1 AAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTT
11126238 AATTTGCAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 28 0.25
86 83 0.75
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (86 bp):
AAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTGTTTAATCTGCAAACATGTTGTGCACTC
ACAACAAGTGGCAGTAACTGC
Found at i:11126271 original size:80 final size:82
Alignment explanation
Indices: 11126027--11126286 Score: 301
Period size: 86 Copynumber: 3.1 Consensus size: 82
11126017 CTAGTTTAAT
* * * * *
11126027 CTGTAAATAGTATGGTTCGATTATGAACCAAGTGTTAGTTTGTTTAATCTGCAAACATGTTGTGT
1 CTGTAAATAGTGTGGTTCGATAATGAACCAAGTG---G-TAGTTTAATCTGCAAATATGTTGTGC
11126092 ACTCACAACAAGTGGCAGTAA
62 ACTCACAACAAGTGGCAGTAA
* * *
11126113 CTGCAAATAGTGTGGTTTGATAATGAACCAAGTGGTAGTTTGTTTAATCTGTAAATATGTTGTGC
1 CTGTAAATAGTGTGGTTCGATAATGAACCAAGTGGTA----GTTTAATCTGCAAATATGTTGTGC
11126178 ACTCACAACAAGTGGCAGTAA
62 ACTCACAACAAGTGGCAGTAA
* * *
11126199 CTGTAAATA-TGTGGTTCGATCATGAACCAAGTGGTAG-TTAATTTGCAAATATATTGTGCAC-C
1 CTGTAAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTAATCTGCAAATATGTTGTGCACTC
* *
11126261 TACAACAAGTGACAGTTA
66 -ACAACAAGTGGCAGTAA
11126279 CTGTAAAT
1 CTGTAAAT
11126287 CTGCGGTGGT
Statistics
Matches: 153, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
79 1 0.01
80 44 0.29
81 1 0.01
82 1 0.01
83 1 0.01
85 25 0.16
86 80 0.52
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (82 bp):
CTGTAAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTAATCTGCAAATATGTTGTGCACTC
ACAACAAGTGGCAGTAA
Found at i:11128801 original size:17 final size:19
Alignment explanation
Indices: 11128753--11128819 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 19
11128743 TTTGCATTTT
11128753 TTTCTTTTTTCTCTTCTTTC
1 TTTCTTTTTT-TCTTCTTTC
* *
11128773 AAATCCTTTTTTTC-TCTTTC
1 --TTTCTTTTTTTCTTCTTTC
*
11128793 TTT-TTTTTTTCTTTTTTC
1 TTTCTTTTTTTCTTCTTTC
11128811 TTTCTTTTT
1 TTTCTTTTT
11128820 ATATACATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 8 0.21
18 9 0.24
19 5 0.13
20 6 0.16
21 2 0.05
22 8 0.21
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTCTTTTTTTCTTCTTTC
Found at i:11128803 original size:11 final size:11
Alignment explanation
Indices: 11128781--11128819 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
11128771 TCAAATCCTT
11128781 TTTTTCTCTTTC
1 TTTTT-TCTTTC
*
11128793 TTTTTTTTTTC
1 TTTTTTCTTTC
11128804 TTTTTTCTTTC
1 TTTTTTCTTTC
11128815 TTTTT
1 TTTTT
11128820 ATATACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:11129900 original size:2 final size:2
Alignment explanation
Indices: 11129895--11129925 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
11129885 ATACTTTTTT
11129895 TA TA TA TCA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
11129926 CACATTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11130077 original size:21 final size:22
Alignment explanation
Indices: 11130053--11130107 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
11130043 CTCATATATC
*
11130053 ATTATATTATTTATTAT-ACCT
1 ATTATTTTATTTATTATCACCT
** *
11130074 ATTATTTTCGTTATTATCACTT
1 ATTATTTTATTTATTATCACCT
11130096 ATTATTTTATTT
1 ATTATTTTATTT
11130108 TATTTTATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTATTTTATTTATTATCACCT
Found at i:11130101 original size:22 final size:21
Alignment explanation
Indices: 11130063--11130103 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
11130053 ATTATATTAT
11130063 TTATTATACCTATTATTTTCG
1 TTATTATACCTATTATTTTCG
*
11130084 TTATTATCACTTATTATTTT
1 TTATTAT-ACCTATTATTTT
11130104 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTATACCTATTATTTTCG
Found at i:11134064 original size:43 final size:43
Alignment explanation
Indices: 11134012--11134141 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
11134002 AAACCACTAT
* * *
11134012 AGAACATGACCTTTAGCGACGCTTCTACCACAAATGTCGCTAA
1 AGAATATGACCTTTAGCGACGCTTCTACCACAAACGCCGCTAA
* * * * *
11134055 AGAATATGACCTTTAGTGGCGCTTCTCCCACAAACGCCGTTAT
1 AGAATATGACCTTTAGCGACGCTTCTACCACAAACGCCGCTAA
* * ** *
11134098 AGAATGTGACCTTTAGC-AGCGCTTTTAATAAAAACGCCGCTAA
1 AGAATATGACCTTTAGCGA-CGCTTCTACCACAAACGCCGCTAA
11134141 A
1 A
11134142 TGTCGTGTTC
Statistics
Matches: 68, Mismatches: 18, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
AGAATATGACCTTTAGCGACGCTTCTACCACAAACGCCGCTAA
Found at i:11134281 original size:25 final size:25
Alignment explanation
Indices: 11134247--11134312 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
11134237 CTTCCTGTAA
*
11134247 CAACCAAAAACAACAAATACAACTC
1 CAACCAAAAACAACAAATACAAATC
*
11134272 CAACCAAAAACAGCAAATACAAATC
1 CAACCAAAAACAACAAATACAAATC
11134297 CAACCAAAAACAACAA
1 CAACCAAAAACAACAA
11134313 TCTAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.62, C:0.30, G:0.02, T:0.06
Consensus pattern (25 bp):
CAACCAAAAACAACAAATACAAATC
Found at i:11135829 original size:14 final size:14
Alignment explanation
Indices: 11135740--11135846 Score: 65
Period size: 14 Copynumber: 7.6 Consensus size: 14
11135730 AGTGTCTGCA
*
11135740 GTTTAGGGTTTTATG
1 GTTTAGGG-TTTAAG
*
11135755 GTTTAAGGCTTT--G
1 GTTT-AGGGTTTAAG
**
11135768 GATTTAGGGTTTGTG
1 G-TTTAGGGTTTAAG
* *
11135783 GTTGAGGGTTGAAG
1 GTTTAGGGTTTAAG
* **
11135797 GTTTAGAGTTTACT
1 GTTTAGGGTTTAAG
*
11135811 ATTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
**
11135825 GTTTAGATTTTAAG
1 GTTTAGGGTTTAAG
11135839 GTTTAGGG
1 GTTTAGGG
11135847 ATAAACATAT
Statistics
Matches: 68, Mismatches: 20, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
13 8 0.12
14 48 0.71
15 9 0.13
16 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:11135843 original size:28 final size:28
Alignment explanation
Indices: 11135782--11135846 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
11135772 TAGGGTTTGT
* *
11135782 GGTTGAGGGTTGAAGGTTTAGAGTTTAC
1 GGTTTAGGGTTGAAGGTTTAGAGTTTAA
** * *
11135810 TATTTAGGGTTTAAGGTTTAGATTTTAA
1 GGTTTAGGGTTGAAGGTTTAGAGTTTAA
11135838 GGTTTAGGG
1 GGTTTAGGG
11135847 ATAAACATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.42
Consensus pattern (28 bp):
GGTTTAGGGTTGAAGGTTTAGAGTTTAA
Found at i:11139558 original size:41 final size:42
Alignment explanation
Indices: 11139498--11139663 Score: 173
Period size: 41 Copynumber: 4.1 Consensus size: 42
11139488 ATTCGCGGCG
11139498 TTTGGA-TAAAAACGCCACTATAGCTCAACCTTTT-GCTGCA
1 TTTGGACTAAAAACGCCACTATAGCTCAACCTTTTAGCTGCA
* ** * * *
11139538 TTTGGACTAAAAACGTCACTATTA--TTTAGCTTTTAGCAGCG
1 TTTGGACTAAAAACGCCACTA-TAGCTCAACCTTTTAGCTGCA
* *
11139579 TTTGGACTAAAAACGCCACTATTGCTCAA-TTTTTAGCTGCA
1 TTTGGACTAAAAACGCCACTATAGCTCAACCTTTTAGCTGCA
* * * *
11139620 GTTGGACCAAAAACGCCACTATTGCTCAA-CTTTTTGCTGCA
1 TTTGGACTAAAAACGCCACTATAGCTCAACCTTTTAGCTGCA
11139661 TTT
1 TTT
11139664 TCCTACTAGC
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
40 14 0.14
41 85 0.83
42 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (42 bp):
TTTGGACTAAAAACGCCACTATAGCTCAACCTTTTAGCTGCA
Found at i:11139653 original size:82 final size:81
Alignment explanation
Indices: 11139495--11139653 Score: 212
Period size: 82 Copynumber: 2.0 Consensus size: 81
11139485 TATATTCGCG
* * *
11139495 GCGTTTGGATAAAAACGCCACTATAGCTCAACCTTTTGCTGCATTTGGACTAAAAACGTCACTAT
1 GCGTTTGGATAAAAACGCCACTATAGCTCAACCTTTTGCTGCAGTTGGACCAAAAACGCCACTAT
* * *
11139560 TATTTAGCTTTTAGCA
66 TACTCAACTTTTAGCA
* *
11139576 GCGTTTGGACTAAAAACGCCACTATTGCTCAA-TTTTTAGCTGCAGTTGGACCAAAAACGCCACT
1 GCGTTTGGA-TAAAAACGCCACTATAGCTCAACCTTTT-GCTGCAGTTGGACCAAAAACGCCACT
*
11139640 ATTGCTCAACTTTT
64 ATTACTCAACTTTT
11139654 TGCTGCATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 13 0.19
82 54 0.81
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (81 bp):
GCGTTTGGATAAAAACGCCACTATAGCTCAACCTTTTGCTGCAGTTGGACCAAAAACGCCACTAT
TACTCAACTTTTAGCA
Found at i:11140037 original size:17 final size:17
Alignment explanation
Indices: 11140005--11140051 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
11139995 AAACAATATT
*
11140005 TTAAAATGAT-AAAATC
1 TTAAAATAATAAAAATC
11140021 TTAAAATAATAAAAATC
1 TTAAAATAATAAAAATC
* *
11140038 GTAAAATAACAAAA
1 TTAAAATAATAAAA
11140052 TCACCGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (17 bp):
TTAAAATAATAAAAATC
Found at i:11142287 original size:84 final size:84
Alignment explanation
Indices: 11142146--11142484 Score: 574
Period size: 84 Copynumber: 4.0 Consensus size: 84
11142136 TACACAAACA
11142146 TTCAAATTATTTAACGAGAAGGGATTGTATGAAATTGA-AATCCCTATCACATAGTTAATCACAT
1 TTCAAATTATTTAACGAGAAGGGATTGTATGAAATT-ATAATCCCTATCACATAGTTAATCACAT
11142210 TTGTGAAATTAAAATAACTT
65 TTGTGAAATTAAAATAACTT
*
11142230 TTCAAATTATTTAACGAGAAGGGATTGTATGAAATTGTAA-CCCTTATCACATAGTTAATCACAT
1 TTCAAATTATTTAACGAGAAGGGATTGTATGAAATTATAATCCC-TATCACATAGTTAATCACAT
*
11142294 TTGTGAAATTACAATAACTT
65 TTGTGAAATTAAAATAACTT
* *
11142314 TTAAAATTATTTAACGAGAAGGGATTGTATGAAATTATAATCCCTATCACATAGTTAATTACATT
1 TTCAAATTATTTAACGAGAAGGGATTGTATGAAATTATAATCCCTATCACATAGTTAATCACATT
11142379 TGTGAAATTAAAATAACTT
66 TGTGAAATTAAAATAACTT
* * *
11142398 TTAAAATTATTTAACGAGAAGGGATTGTATGAAACTATAATCCATATCACATAGTTAATCACATT
1 TTCAAATTATTTAACGAGAAGGGATTGTATGAAATTATAATCCCTATCACATAGTTAATCACATT
*
11142463 TGTGAAATTAAAATAAATT
66 TGTGAAATTAAAATAACTT
11142482 TTC
1 TTC
11142485 TTATATTAAA
Statistics
Matches: 241, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
83 3 0.01
84 235 0.98
85 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (84 bp):
TTCAAATTATTTAACGAGAAGGGATTGTATGAAATTATAATCCCTATCACATAGTTAATCACATT
TGTGAAATTAAAATAACTT
Found at i:11143070 original size:3 final size:3
Alignment explanation
Indices: 11143062--11143088 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11143052 ATCATAATTT
11143062 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
11143089 ATATTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11144856 original size:21 final size:21
Alignment explanation
Indices: 11144811--11144857 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
11144801 TAAATTTATT
*
11144811 AAATATTAAAAAATATAATAT
1 AAATATTAAAAAATATAATAA
11144832 AAATATTTAAAAAA-ATTAA-AA
1 AAATA-TTAAAAAATA-TAATAA
11144853 AAATA
1 AAATA
11144858 ATATGGGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATATTAAAAAATATAATAA
Found at i:11145456 original size:21 final size:21
Alignment explanation
Indices: 11145423--11145462 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11145413 TTGAAATGAA
*
11145423 TAATTAAAATTAATTAAAATT
1 TAATTAAAATTAAATAAAATT
* *
11145444 TAATTATATTTAAATAAAA
1 TAATTAAAATTAAATAAAA
11145463 CTATTATTAA
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:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATTAAAATTAAATAAAATT
Found at i:11148240 original size:20 final size:20
Alignment explanation
Indices: 11148202--11148240 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11148192 CATAAAGACT
*
11148202 AAAAATGACTAAATTAAAAC
1 AAAAATGACTAAATCAAAAC
11148222 AAAAA-GACTAAATCCAAAA
1 AAAAATGACTAAAT-CAAAA
11148241 ATTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.67, C:0.13, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAAATGACTAAATCAAAAC
Found at i:11149971 original size:13 final size:13
Alignment explanation
Indices: 11149949--11150044 Score: 72
Period size: 15 Copynumber: 7.1 Consensus size: 13
11149939 TGTCACTTTC
11149949 TTTT-CTTTTTTT
1 TTTTACTTTTTTT
11149961 TTTTACTTTTTATT
1 TTTTACTTTTT-TT
*
11149975 TTTGTCCTTTTTTT
1 TTT-TACTTTTTTT
* *
11149989 TTTAAC-TTTTGT
1 TTTTACTTTTTTT
11150001 TTTTATCTTTATTTT
1 TTTTA-CTTT-TTTT
*
11150016 ATTTA-TTTATTTT
1 TTTTACTTT-TTTT
11150029 ATTTTACTTATTTTT
1 -TTTTACTT-TTTTT
11150044 T
1 T
11150045 ATTATTAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
12 13 0.19
13 16 0.24
14 17 0.25
15 20 0.30
16 1 0.01
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTACTTTTTTT
Found at i:11150015 original size:27 final size:27
Alignment explanation
Indices: 11149952--11150020 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
11149942 CACTTTCTTT
* *
11149952 TCTTTTTTTTTTTACTTTTTATTTTTG
1 TCTTTTTTTTTTAACTTTTTATTTTTA
*
11149979 TCCTTTTTTTTTTAAC-TTTTGTTTTTA
1 T-CTTTTTTTTTTAACTTTTTATTTTTA
11150006 TCTTTATTTTATTTA
1 TCTTT-TTTT-TTTA
11150021 TTTATTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.11
27 15 0.42
28 17 0.47
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.77
Consensus pattern (27 bp):
TCTTTTTTTTTTAACTTTTTATTTTTA
Found at i:11150015 original size:28 final size:28
Alignment explanation
Indices: 11149952--11150020 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
11149942 CACTTTCTTT
*
11149952 TCTTTTTTTTTTT-ACTTTTTATTTTTG
1 TCTTTTTTTTTTTAACTTTTTATTTTTA
* *
11149979 TCCTTTTTTTTTTAAC-TTTTGTTTTTA
1 TCTTTTTTTTTTTAACTTTTTATTTTTA
*
11150006 TCTTTATTTTATTTA
1 TCTTT-TTTTTTTTA
11150021 TTTATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.77
Consensus pattern (28 bp):
TCTTTTTTTTTTTAACTTTTTATTTTTA
Found at i:11150031 original size:18 final size:19
Alignment explanation
Indices: 11150002--11150041 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
11149992 AACTTTTGTT
*
11150002 TTTATCTTTATTTTATTTA
1 TTTATCTTTATTTTACTTA
11150021 TTTAT-TTTATTTTACTTA
1 TTTATCTTTATTTTACTTA
11150039 TTT
1 TTT
11150042 TTTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATCTTTATTTTACTTA
Found at i:11150050 original size:24 final size:24
Alignment explanation
Indices: 11150001--11150047 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
11149991 TAACTTTTGT
11150001 TTTTATCTTTATTTTATTTATTTA
1 TTTTATCTTTATTTTATTTATTTA
*
11150025 TTTTAT-TTTA-CTTATTT-TTTA
1 TTTTATCTTTATTTTATTTATTTA
11150046 TT
1 TT
11150048 ATTAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 4 0.18
24 6 0.27
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTATCTTTATTTTATTTATTTA
Found at i:11150078 original size:23 final size:23
Alignment explanation
Indices: 11150052--11150105 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
11150042 TTTATTATTA
*
11150052 ATTTTAAAAAAATTAAAATGTAT
1 ATTTTAAAAAAATTAAAATATAT
* * ** *
11150075 ATTTGAAATATTTTATAATATAT
1 ATTTTAAAAAAATTAAAATATAT
11150098 ATTTTAAA
1 ATTTTAAA
11150106 TTTTAAATAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
ATTTTAAAAAAATTAAAATATAT
Found at i:11150106 original size:23 final size:20
Alignment explanation
Indices: 11150084--11150275 Score: 75
Period size: 20 Copynumber: 9.6 Consensus size: 20
11150074 TATTTGAAAT
11150084 ATTTTATAATATATATTTTAA
1 ATTTTA-AATATATATTTTAA
11150105 ATTTTAAATATATA--TT--
1 ATTTTAAATATATATTTTAA
* *
11150121 -TTTGAAAT-TATTTTTTAAA
1 ATTTTAAATATATATTTT-AA
11150140 ATTTTAAATAT-TATTTTTGAA
1 ATTTTAAATATATA-TTTT-AA
** *
11150161 ATACTAAATATATATTTTTA
1 ATTTTAAATATATATTTTAA
** *
11150181 ATAATATAA-A-ATATTTAAA
1 ATTTTA-AATATATATTTTAA
* *
11150200 TATTTTAAAGATATGACATTTCAA
1 -ATTTT-AA-ATAT-ATATTTTAA
*
11150224 A-TTT-ATTAT-TAGTTTTATAA
1 ATTTTAAATATATA--TTT-TAA
*
11150244 TATTTTAAATGTATATTTTAA
1 -ATTTTAAATATATATTTTAA
11150265 ATTTTAAATAT
1 ATTTTAAATAT
11150276 TTTTAATTTG
Statistics
Matches: 127, Mismatches: 21, Indels: 47
0.65 0.11 0.24
Matches are distributed among these distances:
14 3 0.02
15 7 0.06
16 2 0.02
17 1 0.01
18 2 0.02
19 13 0.10
20 40 0.31
21 34 0.27
22 12 0.09
23 4 0.03
24 9 0.07
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTTAAATATATATTTTAA
Found at i:11150121 original size:34 final size:35
Alignment explanation
Indices: 11150095--11150162 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
11150085 TTTTATAATA
11150095 TATATTTT-AAATTTTAAATATATATTTTTGAAAT
1 TATATTTTAAAATTTTAAATATATATTTTTGAAAT
*
11150129 TATTTTTTAAAATTTTAAATAT-TATTTTTGAAAT
1 TATATTTTAAAATTTTAAATATATATTTTTGAAAT
11150163 ACTAAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
TATATTTTAAAATTTTAAATATATATTTTTGAAAT
Found at i:11150156 original size:21 final size:21
Alignment explanation
Indices: 11150127--11150195 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
11150117 TATTTTTGAA
*
11150127 ATTATTTTTTAAAATTTTAAAT
1 ATTA-TTTTTAAAATATTAAAT
* *
11150149 ATTATTTTTGAAATACTAAAT
1 ATTATTTTTAAAATATTAAAT
*
11150170 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTAA-AATATTAAAT
11150193 ATT
1 ATT
11150196 TAAATATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 16 0.41
22 13 0.33
23 10 0.26
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:11150178 original size:34 final size:35
Alignment explanation
Indices: 11150103--11150188 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 35
11150093 TATATATTTT
* ***
11150103 AAATTTTAAATATATATTTTTGAAATTATTTTTTA
1 AAATTTTAAATATATATTTTTGAAATTACTAAATA
11150138 AAATTTTAAATAT-TATTTTTGAAA-TACTAAATA
1 AAATTTTAAATATATATTTTTGAAATTACTAAATA
* *
11150171 TATATTTTTAATAATATA
1 -AAATTTTAAAT-ATATA
11150189 AAATATTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
33 5 0.12
34 20 0.48
35 15 0.36
36 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (35 bp):
AAATTTTAAATATATATTTTTGAAATTACTAAATA
Found at i:11150275 original size:16 final size:16
Alignment explanation
Indices: 11150236--11150284 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
11150226 TTATTATTAG
11150236 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
11150253 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
*
11150266 TTTTAAATATTTTTAA
1 TTTTAAATATTTTAAA
11150282 TTT
1 TTT
11150285 GTTTTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:11150624 original size:20 final size:21
Alignment explanation
Indices: 11150559--11150632 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 21
11150549 TTATACTATT
*
11150559 AAAAATATATATTTAACATTTA
1 AAAAATA-ATATTTAAAATTTA
*
11150581 AAAAATAATATTCAAAATTTTA
1 AAAAATAATATTTAAAA-TTTA
*
11150603 AAAAATAAT-TTTAAAATCTAA
1 AAAAATAATATTTAAAAT-TTA
11150624 AAAAATAAT
1 AAAAATAAT
11150633 TTAAAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 1 0.02
21 25 0.54
22 20 0.43
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATAATATTTAAAATTTA
Found at i:11150635 original size:20 final size:19
Alignment explanation
Indices: 11150556--11150638 Score: 76
Period size: 20 Copynumber: 4.1 Consensus size: 19
11150546 ATTTTATACT
* *
11150556 ATTAAAAATATATATTTAAC
1 ATTAAAAAAATA-ATTTAAA
*
11150576 ATTTAAAAAATAATATTCAAA
1 ATTAAAAAAATAAT-TT-AAA
*
11150597 ATTTTAAAAAATAATTTTAAA
1 A-TTAAAAAAATAA-TTTAAA
11150618 ATCTAAAAAAATAATTTAAA
1 AT-TAAAAAAATAATTTAAA
11150638 A
1 A
11150639 AATATATATT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.04
20 20 0.37
21 17 0.31
22 14 0.26
23 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTAAAAAAATAATTTAAA
Found at i:11150641 original size:22 final size:21
Alignment explanation
Indices: 11150580--11150639 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
11150570 TTTAACATTT
* * *
11150580 AAAAAATAATATTCAAAATTTT
1 AAAAAATAAT-TTAAAAATCTA
*
11150602 AAAAAATAATTTTAAAATCTA
1 AAAAAATAATTTAAAAATCTA
11150623 AAAAAATAATTTAAAAA
1 AAAAAATAATTTAAAAA
11150640 ATATATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 24 0.71
22 10 0.29
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAATAATTTAAAAATCTA
Found at i:11150655 original size:22 final size:24
Alignment explanation
Indices: 11150630--11150679 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
11150620 CTAAAAAAAT
11150630 AATTT-AAAAAATATATATT-TAA
1 AATTTAAAAAAATATATATTATAA
11150652 AATTTTAAAAAAATATATATTATAA
1 AA-TTTAAAAAAATATATATTATAA
11150677 AAT
1 AAT
11150680 ATTTCAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.08
23 3 0.12
24 15 0.60
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTAAAAAAATATATATTATAA
Found at i:11150662 original size:23 final size:23
Alignment explanation
Indices: 11150632--11150710 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 23
11150622 AAAAAAATAA
11150632 TTTAAAAAATATATATTTAAAAT
1 TTTAAAAAATATATATTTAAAAT
11150655 TTTAAAAAAATATATATTATAAAAT
1 TTT-AAAAAATATATATT-TAAAAT
* *
11150680 ATTT--CAAATATACATTTCAAAAT
1 -TTTAAAAAATATATATTT-AAAAT
*
11150703 TTTTAAAA
1 TTTAAAAA
11150711 TTAATAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.09
23 18 0.38
24 16 0.34
25 6 0.13
26 3 0.06
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAAAAAATATATATTTAAAAT
Found at i:11150738 original size:14 final size:14
Alignment explanation
Indices: 11150706--11150761 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
11150696 TCAAAATTTT
*
11150706 TAAAATTAATAATAA
1 TAAAATAAATAA-AA
*
11150721 -AAAATAAGTAAAA
1 TAAAATAAATAAAA
11150734 TAAAATAAATAAAA
1 TAAAATAAATAAAA
11150748 TAAAGATAAA-AAAA
1 TAAA-ATAAATAAAA
11150762 GGGACGAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.06
14 29 0.81
15 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (14 bp):
TAAAATAAATAAAA
Found at i:11151068 original size:28 final size:29
Alignment explanation
Indices: 11151037--11151109 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
11151027 TATAAATTTC
*
11151037 AAGTTATTTTTATATTTAAATAAAAA-AT
1 AAGTTATTTTTATAATTAAATAAAAATAT
* * * *
11151065 AAGTCATTTTGATAATTAATTAAAAATTTT
1 AAGTTATTTTTATAATTAAATAAAAA-TAT
*
11151095 AAATTATTTTTATAA
1 AAGTTATTTTTATAA
11151110 AAAAGCCATG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 22 0.63
30 13 0.37
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (29 bp):
AAGTTATTTTTATAATTAAATAAAAATAT
Found at i:11151340 original size:18 final size:18
Alignment explanation
Indices: 11151300--11151342 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
11151290 ATGGAAGTAT
11151300 TTATAATTAAATTTTAAA
1 TTATAATTAAATTTTAAA
*
11151318 -GATAATTCAAA-TTTAAA
1 TTATAATT-AAATTTTAAA
11151335 TTATAATT
1 TTATAATT
11151343 TTAATAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTATAATTAAATTTTAAA
Found at i:11151404 original size:23 final size:23
Alignment explanation
Indices: 11151374--11151421 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11151364 AAAGTAAAAG
11151374 ATAATTAATGTTAAATATATTTT
1 ATAATTAATGTTAAATATATTTT
11151397 ATAATTAATGTTAAATATATTTT
1 ATAATTAATGTTAAATATATTTT
11151420 AT
1 AT
11151422 CTCAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
ATAATTAATGTTAAATATATTTT
Found at i:11151654 original size:2 final size:2
Alignment explanation
Indices: 11151644--11151675 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
11151634 ATTATGAAAG
11151644 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A
11151676 AGCAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11153663 original size:6 final size:6
Alignment explanation
Indices: 11153654--11153678 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11153644 TAATATTAGA
11153654 AGTTGT AGTTGT AGTTGT AGTTGT A
1 AGTTGT AGTTGT AGTTGT AGTTGT A
11153679 ATAGTAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (6 bp):
AGTTGT
Found at i:11154526 original size:2 final size:2
Alignment explanation
Indices: 11154519--11154574 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
11154509 TATATTTTGA
*
11154519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA 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
*
11154561 AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT
11154575 CTTACAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:11157695 original size:18 final size:18
Alignment explanation
Indices: 11157672--11157718 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
11157662 TACAAGTTTT
11157672 TAGTCTTACTTATACATG
1 TAGTCTTACTTATACATG
11157690 TAGTCTTACTTATACATG
1 TAGTCTTACTTATACATG
11157708 TAGTCTTACTT
1 TAGTCTTACTT
11157719 TTGCTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (18 bp):
TAGTCTTACTTATACATG
Found at i:11162533 original size:12 final size:12
Alignment explanation
Indices: 11162518--11162548 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11162508 TTCTCTTTTA
11162518 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
11162530 TTTTTCTTTCTC
1 TTTTTCTTTCCC
11162542 TTTTTCT
1 TTTTTCT
11162549 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:11162794 original size:8 final size:8
Alignment explanation
Indices: 11162781--11162806 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11162771 CAAAAATCTC
11162781 ATAATTTA
1 ATAATTTA
11162789 ATAATTTA
1 ATAATTTA
11162797 ATAATTTA
1 ATAATTTA
11162805 AT
1 AT
11162807 TAACAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATAATTTA
Found at i:11162943 original size:15 final size:14
Alignment explanation
Indices: 11162925--11162955 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
11162915 TTAATTTATT
11162925 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
11162940 TAATAATAATCTAA
1 TAATAATAATCTAA
11162954 TA
1 TA
11162956 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:11162966 original size:21 final size:20
Alignment explanation
Indices: 11162942--11163010 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
11162932 AATGCTAATA
11162942 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
11162963 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
11162982 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
11163003 ATAATAAT
1 ATAATAAT
11163011 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:11170068 original size:12 final size:12
Alignment explanation
Indices: 11170053--11170083 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11170043 TTCTCTTTTA
11170053 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
11170065 TTTTTCTTTCTC
1 TTTTTCTTTCCC
11170077 TTTTTCT
1 TTTTTCT
11170084 CCTCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:11170479 original size:15 final size:14
Alignment explanation
Indices: 11170461--11170491 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
11170451 TTAATTTATT
11170461 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
11170476 TAATAATAATCTAA
1 TAATAATAATCTAA
11170490 TA
1 TA
11170492 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:11170502 original size:21 final size:20
Alignment explanation
Indices: 11170478--11170546 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
11170468 AATGCTAATA
11170478 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
11170499 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
11170518 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
11170539 ATAATAAT
1 ATAATAAT
11170547 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:11171411 original size:35 final size:35
Alignment explanation
Indices: 11171369--11171466 Score: 133
Period size: 35 Copynumber: 2.8 Consensus size: 35
11171359 TAACATACAC
* *
11171369 AGGGTTCGCATAATATATAGGCTCATATAGTACTT
1 AGGGTTCGCATAATATATAGGCTCACATAGTACCT
* *
11171404 AGGGTTCGCATTATATATAGGCTCGCATAGTACCT
1 AGGGTTCGCATAATATATAGGCTCACATAGTACCT
* * *
11171439 AGGGTTCACATAACATTTAGGCTCACAT
1 AGGGTTCGCATAATATATAGGCTCACAT
11171467 GTAGCATATA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (35 bp):
AGGGTTCGCATAATATATAGGCTCACATAGTACCT
Found at i:11174480 original size:19 final size:19
Alignment explanation
Indices: 11174456--11174494 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11174446 CTTGTAAATT
**
11174456 TAAAATTATTTAAAAAGTA
1 TAAAATTATAAAAAAAGTA
11174475 TAAAATTATAAAAAAAGTA
1 TAAAATTATAAAAAAAGTA
11174494 T
1 T
11174495 TTTAAAATTT
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:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAATTATAAAAAAAGTA
Found at i:11174980 original size:21 final size:21
Alignment explanation
Indices: 11174954--11174995 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11174944 AACCCTATAT
*
11174954 CCTTAAA-TTCAATATCTTAAA
1 CCTTAAACTT-AAAATCTTAAA
11174975 CCTTAAACTTAAAATCTTAAA
1 CCTTAAACTTAAAATCTTAAA
11174996 TTCGAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (21 bp):
CCTTAAACTTAAAATCTTAAA
Found at i:11178859 original size:2 final size:2
Alignment explanation
Indices: 11178852--11178877 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11178842 AAATTTTATC
11178852 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
11178878 GTGTGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11183644 original size:27 final size:27
Alignment explanation
Indices: 11183612--11183677 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
11183602 TAGTTGAACT
11183612 ATGGCAAAGTGATAAAGTATGCCAAAC
1 ATGGCAAAGTGATAAAGTATGCCAAAC
* *
11183639 ATGGCAAAGTGATAAAGTGTGCCAAAT
1 ATGGCAAAGTGATAAAGTATGCCAAAC
11183666 ATGGCAAAGTGA
1 ATGGCAAAGTGA
11183678 AATGTGACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTATGCCAAAC
Found at i:11186856 original size:16 final size:18
Alignment explanation
Indices: 11186829--11186861 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11186819 GTGTGACAAG
11186829 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
11186846 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
11186862 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:11189480 original size:30 final size:30
Alignment explanation
Indices: 11189429--11189510 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
11189419 GTATAAAACG
* * * *
11189429 ATTTAAAAACAAATTATATATATATATAAA
1 ATTTTAAAATAAATGATATATAAATATAAA
*
11189459 ATTTTAAAATAAATGATATATAAATATGAA
1 ATTTTAAAATAAATGATATATAAATATAAA
* *
11189489 AGTGTAAAATAAAT-AT-TATAAA
1 ATTTTAAAATAAATGATATATAAA
11189511 AACTATTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 6 0.13
29 2 0.04
30 37 0.82
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (30 bp):
ATTTTAAAATAAATGATATATAAATATAAA
Found at i:11192860 original size:9 final size:9
Alignment explanation
Indices: 11192846--11192877 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
11192836 TGTATGAAAA
11192846 TATATTTGC
1 TATATTTGC
11192855 TATATTTGC
1 TATATTTGC
11192864 TATATTTGC
1 TATATTTGC
11192873 TATAT
1 TATAT
11192878 CCCTCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (9 bp):
TATATTTGC
Found at i:11194482 original size:265 final size:265
Alignment explanation
Indices: 11194009--11195339 Score: 2563
Period size: 265 Copynumber: 5.0 Consensus size: 265
11193999 AGTGGACCAA
11194009 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
1 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
*
11194074 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGATAGCGTCTACACATATTAGGAGTACCTGAT
66 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
*
11194139 CCTTTCTTCTTTTTTATAGGATCTCTCTATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
131 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
11194204 CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
196 CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
11194269 ATACC
261 ATACC
11194274 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
1 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
*
11194339 CTCATGAACCTTTTCCTGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
66 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
11194404 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
131 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
*
11194469 CTTTTATCATTCTCAGTTGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
196 CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
11194534 ATACC
261 ATACC
*
11194539 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTACTCCGTAGACACT
1 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
11194604 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
66 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
11194669 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
131 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
*
11194734 CTTTTATCATTCTGAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
196 CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
11194799 ATACC
261 ATACC
* *
11194804 AAAGATCCCAATCTCATGATCTGTTTGGCTATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
1 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
11194869 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
66 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
*
11194934 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCATGACATAGTCACTAGCCAGCCTTCTTAATGTT
131 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
*
11194999 CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCATGACTCTTCACATATCGCAAAATATCCTG
196 CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
11195064 ATACC
261 ATACC
11195069 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
1 AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
11195134 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
66 CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
*
11195199 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAATCACTAGCCAGCCTTCTTAATGTT
131 CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
11195264 CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
196 CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
11195329 ATACC
261 ATACC
11195334 AAAGAT
1 AAAGAT
11195340 GATCATCTTT
Statistics
Matches: 1047, Mismatches: 19, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
265 1047 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (265 bp):
AAAGATCCGAATCTCATGATCTGTTTGGCCATGGTGAAACCATTAGCATGTGCTCCGTAGACACT
CTCATGAACCTTTTCCAGGATTTACTTAGCCTCGACAGCGTCTACACATATTAGGAGTACCTGAT
CCTTTCTTCTTTTTTATAGGATCTCTCCATCCACGACATAGTCACTAGCCAGCCTTCTTAATGTT
CTTTTATCATTCTCAGTCGCTTGGTCTGGGTATTCACGACTCTTCACATATCGCAAAATATCCTG
ATACC
Found at i:11201303 original size:19 final size:20
Alignment explanation
Indices: 11201279--11201322 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
11201269 GGGTCTTTTC
* *
11201279 ATGAAATTTAATGCATATG-
1 ATGAAATGTAATGCAAATGA
11201298 ATGAAATGTAATGCAAATGA
1 ATGAAATGTAATGCAAATGA
11201318 ATGAA
1 ATGAA
11201323 TGCAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGAAATGTAATGCAAATGA
Found at i:11210848 original size:19 final size:19
Alignment explanation
Indices: 11210824--11210861 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11210814 GAAATGAATA
*
11210824 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
11210843 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
11210862 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:11211132 original size:2 final size:2
Alignment explanation
Indices: 11211125--11211169 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
11211115 AAGTAGCTAA
11211125 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
11211167 AT A
1 AT A
11211170 CATAAGCAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11211767 original size:2 final size:2
Alignment explanation
Indices: 11211760--11211797 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11211750 TTAAATTATG
11211760 TA TA TA 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
11211798 AAATAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11211828 original size:19 final size:20
Alignment explanation
Indices: 11211795--11211834 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
11211785 ATATATATAT
11211795 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
11211814 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
11211834 A
1 A
11211835 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:11212448 original size:44 final size:44
Alignment explanation
Indices: 11212390--11212979 Score: 750
Period size: 44 Copynumber: 13.8 Consensus size: 44
11212380 TCCCGTCTAA
*
11212390 TACAGAGATGCCAAAT-TCGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCT-GTTATCTTCGATCTGCTCTCCGCCGC
* * * *
11212434 TACAGAGACGCCAAATCTGTTATCTTTGATCTACTATCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * * *
11212478 TACAGAGACGCCAAATCTATTATCTTTGATCTGCTATTCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
11212522 TACAGAGACGCCAAATTTATTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
11212566 TACAAAGACGCCAAATCTGTTATCTTCGAT-TGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
11212609 TACAGA-ACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * * * *
11212652 TACAAAGATGCCAAATC----ATCTTCGATCTGCTCTTCACTGT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
11212692 TACAGAGATGCCAAATCTGTTATCTTCGATCT-CTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
11212735 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
11212779 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* **
11212823 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
11212867 TACAGAGACGCCAAATCTG-----TT--ATCT-CTCT--GCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
11212901 TATAGAAATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
11212945 T-CTAGAGATGCCAAATCTATTATCTTCGATCTGCT
1 TAC-AGAGACGCCAAATCTGTTATCTTCGATCTGCT
11212980 AATCTGTTAT
Statistics
Matches: 484, Mismatches: 43, Indels: 38
0.86 0.08 0.07
Matches are distributed among these distances:
34 20 0.04
36 4 0.01
37 4 0.01
39 4 0.01
40 35 0.07
41 4 0.01
42 27 0.06
43 74 0.15
44 311 0.64
45 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:11212894 original size:34 final size:34
Alignment explanation
Indices: 11212856--11212925 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
11212846 CTTCGATCTG
*
11212856 CTCTCTACCGCTACAGAGACGCCAAATCTGTTAT
1 CTCTCTACCGCTACAGAAACGCCAAATCTGTTAT
* * *
11212890 CTCTCTGCCGCTATAGAAATGCCAAATCTGTTAT
1 CTCTCTACCGCTACAGAAACGCCAAATCTGTTAT
11212924 CT
1 CT
11212926 TCGATCTGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (34 bp):
CTCTCTACCGCTACAGAAACGCCAAATCTGTTAT
Found at i:11212989 original size:22 final size:22
Alignment explanation
Indices: 11212958--11213001 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11212948 AGAGATGCCA
11212958 AATCTATTATCTTCGATCTGCT
1 AATCTATTATCTTCGATCTGCT
*
11212980 AATCTGTTATCTTCGATCTGCT
1 AATCTATTATCTTCGATCTGCT
11213002 CTCCGCCGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.45
Consensus pattern (22 bp):
AATCTATTATCTTCGATCTGCT
Found at i:11213020 original size:66 final size:66
Alignment explanation
Indices: 11212914--11213045 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
11212904 AGAAATGCCA
11212914 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTCTAGAGATGCCAAATCTATTATCTTCGATCTGC
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTCTAGAGATGCCAAATCTATTATCTTCGATCTGC
11212979 T
66 T
*
11212980 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTAC-AGAGATGCCAAATCTGTTATCTTCGATCTG
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCT-CTAGAGATGCCAAATCTATTATCTTCGATCTG
11213044 CT
65 CT
11213046 CTTCGCCGCT
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
66 63 0.98
67 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.36
Consensus pattern (66 bp):
AATCTGTTATCTTCGATCTGCTCTCCGCCGCTCTAGAGATGCCAAATCTATTATCTTCGATCTGC
T
Found at i:11213043 original size:44 final size:44
Alignment explanation
Indices: 11212980--11213247 Score: 428
Period size: 44 Copynumber: 6.1 Consensus size: 44
11212970 TCGATCTGCT
*
11212980 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* *
11213024 AATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGACA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* *
11213068 AATCTGTTATCTTCGACCTGCTCTTCGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
**
11213112 AATCTGTTATCTTCGATCTGCTCTCCGTTGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
11213156 AATCTGTTATCTTTGATTTGCTCTCCGCCGCTACAGAGACGCTA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* *
11213200 AATCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
11213244 AATC
1 AATC
11213248 ATCTTGGATT
Statistics
Matches: 205, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 205 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
Found at i:11213083 original size:110 final size:110
Alignment explanation
Indices: 11212890--11213089 Score: 312
Period size: 110 Copynumber: 1.8 Consensus size: 110
11212880 AATCTGTTAT
* * *
11212890 CTCTCTGCCGCTATAGAAATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTCTAGAGATG
1 CTCTCCGCCGCTACAGAAATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTCTAGAGACG
* *
11212955 CCAAATCTATTATCTTCGATCTGCTAATCTGTTATCTTCGATCTG
66 ACAAATCTATTATCTTCGACCTGCTAATCTGTTATCTTCGATCTG
* *
11213000 CTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGCTAC-AGAGAC
1 CTCTCCGCCGCTACAGAAATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT-CTAGAGAC
*
11213064 GACAAATCTGTTATCTTCGACCTGCT
65 GACAAATCTATTATCTTCGACCTGCT
11213090 CTTCGCCGCT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
110 80 0.99
111 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.33
Consensus pattern (110 bp):
CTCTCCGCCGCTACAGAAATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTCTAGAGACG
ACAAATCTATTATCTTCGACCTGCTAATCTGTTATCTTCGATCTG
Found at i:11213230 original size:132 final size:132
Alignment explanation
Indices: 11212390--11213247 Score: 727
Period size: 132 Copynumber: 6.5 Consensus size: 132
11212380 TCCCGTCTAA
* * * * *
11212390 TACAGAGATGCCAAAT-TCGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGT
1 TACAGAGACGACAAATCT-GTTATCTTCGACCTACTCTTCGCCGCTACAGAGACGCCAAATCTGT
* * * * * * * * *
11212454 TATCTTTGATCTACTATCCACCGCTACAGAGACGCCAAATCTATTATCTTTGATCTGCTATTCAC
65 TATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGC
11212519 CGC
130 CGC
* * * * * * *
11212522 TACAGAGACGCCAAATTTATTATCTTCGATCTGCTCTCCGCCGCTACAAAGACGCCAAATCTGTT
1 TACAGAGACGACAAATCTGTTATCTTCGACCTACTCTTCGCCGCTACAGAGACGCCAAATCTGTT
11212587 ATCTTCGAT-TGCTCTCCGCCGCTACAGA-ACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
11212650 GC
131 GC
* * * * * * * * *
11212652 TACAAAGATGCCAAATC----ATCTTCGATCTGCTCTTCACTGTTACAGAGATGCCAAATCTGTT
1 TACAGAGACGACAAATCTGTTATCTTCGACCTACTCTTCGCCGCTACAGAGACGCCAAATCTGTT
*
11212713 ATCTTCGATCT-CTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
11212777 GC
131 GC
* * * * * * *
11212779 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATCTGCT
1 TACAGAGACGACAAATCTGTTATCTTCGACCTACTCTTCGCCGCTACAGAGACGCCAAATCTGTT
**
11212844 ATCTTCGATCTGCTCTCTACCGCTACAGAGACGCCAAATCTG-----TT--ATCT-CTCT--GCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
11212899 GC
131 GC
* * * * * * * * *
11212901 TATAGAAATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT-CTAGAGATGCCAAATCTAT
1 TACAGAGACGACAAATCTGTTATCTTCGACCTACTCTTCGCCGCTAC-AGAGACGCCAAATCTGT
* *** * ***
11212965 TATCTTCGATCTGCTAATCTGTTATCTTCGATCTGCT-CTCCGCCGCTACAGAGATGC-CAAATC
65 TATCTTCGATCTGC---TC-----TC--CG--CCGCTACAGAGACGC--CA-A-AT-CTGTTATC
*
11213028 TGTTATCTTCGATCTGCTCTTCGCCGC
113 -------TTCGATCTGCTCTCCGCCGC
*
11213055 TACAGAGACGACAAATCTGTTATCTTCGACCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGACAAATCTGTTATCTTCGACCTACTCTTCGCCGCTACAGAGACGCCAAATCTGTT
** * *
11213120 ATCTTCGATCTGCTCTCCGTTGCTACAGAGACGCCAAATCTGTTATCTTTGATTTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
11213185 GC
131 GC
*
11213187 TACAGAGACG-CTAAATCTGTTATCTTCGATCTACTC-TCTGCCGCTACAGAGACGCCAAATC
1 TACAGAGACGAC-AAATCTGTTATCTTCGACCTACTCTTC-GCCGCTACAGAGACGCCAAATC
11213248 ATCTTGGATT
Statistics
Matches: 610, Mismatches: 68, Indels: 96
0.79 0.09 0.12
Matches are distributed among these distances:
121 1 0.00
122 73 0.12
124 4 0.01
125 6 0.01
126 64 0.10
127 54 0.09
130 48 0.08
131 69 0.11
132 167 0.27
133 6 0.01
134 4 0.01
135 2 0.00
136 1 0.00
137 2 0.00
138 2 0.00
139 5 0.01
140 1 0.00
141 2 0.00
142 4 0.01
143 5 0.01
144 2 0.00
146 2 0.00
149 2 0.00
151 6 0.01
152 4 0.01
154 73 0.12
155 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (132 bp):
TACAGAGACGACAAATCTGTTATCTTCGACCTACTCTTCGCCGCTACAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
GC
Found at i:11213332 original size:88 final size:88
Alignment explanation
Indices: 11213209--11213432 Score: 362
Period size: 88 Copynumber: 2.6 Consensus size: 88
11213199 AAATCTGTTA
* * * * * * *
11213209 TCTTCGATCTACTCTCTGCC-GCTACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAAAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
11213273 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
11213296 TCTTCGATCTGCTCCCCGCCTGATACAAAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAAAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
11213361 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
11213384 TCTTCGATCTGCTCCCCGCCTGATACAGAA-ATGCCAAATCATCTTGGAT
1 TCTTCGATCTGCTCCCCGCCTGATACA-AAGATGCCAAATCATCTTGGAT
11213433 ATCTTCAGCT
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
87 17 0.13
88 109 0.85
89 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTGATACAAAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:11213373 original size:41 final size:41
Alignment explanation
Indices: 11213240--11213377 Score: 102
Period size: 41 Copynumber: 3.2 Consensus size: 41
11213230 CTACAGAGAC
*
11213240 GCCAAATCATCTTGGATTTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
* ** * ** *
11213281 GCCAAATCAGCTATGTCTTCGATCTGC-TCCCCGCCTGATACA-AAG-AT
1 GCCAAAT---C-A--TCTTGGATCTGCTTCAACG--T-AAACACGTGAAA
11213328 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
11213369 GCCAAATCA
1 GCCAAATCA
11213378 GCTATGTCTT
Statistics
Matches: 70, Mismatches: 15, Indels: 24
0.64 0.14 0.22
Matches are distributed among these distances:
39 4 0.06
40 2 0.03
41 28 0.40
42 4 0.06
43 1 0.01
44 2 0.03
45 1 0.01
46 4 0.06
47 18 0.26
48 2 0.03
49 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (41 bp):
GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
Found at i:11213420 original size:47 final size:46
Alignment explanation
Indices: 11213277--11213424 Score: 127
Period size: 47 Copynumber: 3.3 Consensus size: 46
11213267 GTAAACACGT
11213277 GAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACA
1 GAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACA
* ** *
11213323 -AAGATGCCAAAT---C-A--TCTTGGATCTGCTTCAACG--T-AAACA
1 GAA-A-GCCAAATCAGCTATGTCTTCGATCTGC-TCCCCGCCTGATACA
11213362 CGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACA
1 ---GAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACA
11213411 GAAATGCCAAATCA
1 GAAA-GCCAAATCA
11213425 TCTTGGATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 33
0.65 0.07 0.28
Matches are distributed among these distances:
39 4 0.05
40 1 0.01
41 18 0.23
42 5 0.06
43 3 0.04
44 2 0.03
45 3 0.04
46 9 0.12
47 27 0.35
48 1 0.01
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (46 bp):
GAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACA
Found at i:11213656 original size:61 final size:64
Alignment explanation
Indices: 11213542--11213664 Score: 182
Period size: 61 Copynumber: 2.0 Consensus size: 64
11213532 TCATGTATCC
*
11213542 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGAATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
11213606 ATGCTTTATGTCAAATAATTAGAATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 ATGC-TTATGCCAAATAATTAGAATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
11213665 AATGGTTATG
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 29 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 19 0.35
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGAATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:11221802 original size:30 final size:30
Alignment explanation
Indices: 11221768--11221828 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
11221758 TCCTTAACTC
11221768 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
11221798 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
11221828 A
1 A
11221829 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:11230344 original size:9 final size:9
Alignment explanation
Indices: 11230330--11230369 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
11230320 AGAGGTTAGG
*
11230330 TTTTTTTCT
1 TTTTTTTCA
11230339 TTTTTTTCA
1 TTTTTTTCA
11230348 TTTTTTT-A
1 TTTTTTTCA
11230356 TTTTTTTC-
1 TTTTTTTCA
11230364 TTTTTT
1 TTTTTT
11230370 ATTTTGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:11233159 original size:25 final size:25
Alignment explanation
Indices: 11233116--11233167 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
11233106 AATATTTAGT
11233116 TTAAACTACTTTATATAGTATTCATTC
1 TTAAACTA-TTTATATAGTATTC-TTC
*
11233143 TTAAACT-TTTATTTAGTATTCTTC
1 TTAAACTATTTATATAGTATTCTTC
11233167 T
1 T
11233168 CAAATCGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 13 0.54
27 7 0.29
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.54
Consensus pattern (25 bp):
TTAAACTATTTATATAGTATTCTTC
Found at i:11236500 original size:15 final size:15
Alignment explanation
Indices: 11236479--11236518 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11236469 TTAAGTGAGT
11236479 GATTAATTAAAGTTTA
1 GATTAATTAAA-TTTA
11236495 -ATTAATTAAATTTA
1 GATTAATTAAATTTA
*
11236509 GCTTAATTAA
1 GATTAATTAA
11236519 GGATAATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (15 bp):
GATTAATTAAATTTA
Found at i:11236693 original size:2 final size:2
Alignment explanation
Indices: 11236686--11236730 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
11236676 AAATTATTAA
*
11236686 AT AT AT AT GT 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
11236728 AT A
1 AT A
11236731 AAAGAAGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11237652 original size:2 final size:2
Alignment explanation
Indices: 11237635--11237670 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
11237625 TAAATTGAAT
*
11237635 TA TA TA T- TA TA AA 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 TA TA TA TA TA TA T
11237671 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11237675 original size:2 final size:2
Alignment explanation
Indices: 11237670--11237699 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11237660 TATATATATA
11237670 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
11237700 AATGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:11237873 original size:15 final size:15
Alignment explanation
Indices: 11237855--11237911 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
11237845 TATCTGTTTT
11237855 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
11237870 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
11237885 ATTGAATTTATATTG
1 ATTGAATTTATATTG
11237900 ATTGAA-TTATAT
1 ATTGAATTTATAT
11237912 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:11237890 original size:30 final size:28
Alignment explanation
Indices: 11237851--11237909 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
11237841 TGAATATCTG
11237851 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
11237880 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
11237909 T
1 T
11237910 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:11238321 original size:23 final size:21
Alignment explanation
Indices: 11238295--11238344 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
11238285 AGGCACTTTA
11238295 TGTGTCATATTTCAGGCACCTCG
1 TGTGTCATA--TCAGGCACCTCG
*
11238318 TGTGTCGTATCAGGCACCTCG
1 TGTGTCATATCAGGCACCTCG
11238339 TGTGTC
1 TGTGTC
11238345 GTTTTAGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.69
23 8 0.31
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCATATCAGGCACCTCG
Found at i:11238330 original size:21 final size:21
Alignment explanation
Indices: 11238306--11238369 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
11238296 GTGTCATATT
11238306 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
11238327 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
11238348 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
11238369 T
1 T
11238370 ACTGATCAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:11240901 original size:18 final size:19
Alignment explanation
Indices: 11240878--11240923 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11240868 CTCTTTTTTG
*
11240878 CATTCATCCA-TTTCTTTA
1 CATTCATCCATTTTCATTA
*
11240896 CATTCATGCATTTTCATTA
1 CATTCATCCATTTTCATTA
11240915 CATTACATC
1 CATT-CATC
11240924 ATATGCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 11 0.48
20 3 0.13
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (19 bp):
CATTCATCCATTTTCATTA
Found at i:11249216 original size:44 final size:44
Alignment explanation
Indices: 11249036--11249533 Score: 149
Period size: 44 Copynumber: 11.5 Consensus size: 44
11249026 TATGGCAAAT
* *
11249036 CTTATCTTCCTGAAGTTGCAGTGAAACTGATCGAAGCCACTAAC
1 CTTATCTTCCTGAAGTTGCAGTGAAGCTGATTGAAGCCACTAAC
* * * *
11249080 CTTATC-TCCTTGAAGTTGCAGTGGAG-TAGGTT--A-CAAGT-A-
1 CTTATCTTCC-TGAAGTTGCAGTGAAGCT-GATTGAAGCCACTAAC
* * * * * *** * *
11249119 -TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGCGAAT
1 CTTATCTTCCTGAAGTTGCAGTGAAGCTGATTGAAG-CCACTAAC
*
11249163 CTTATCTTCCTGAAGTTGTAGTGAAGCTGATTGAAGCCACTAAC
1 CTTATCTTCCTGAAGTTGCAGTGAAGCTGATTGAAGCCACTAAC
* * * * * *** *
11249207 CTTATCTTCCTGAAGATGTACTGGAG-TAGGTTGAAATTAC-AATT
1 CTTATCTTCCTGAAGTTGCAGTGAAGCT-GATTGAAGCCACTAA-C
** * * **
11249251 CTTATC-TCTCTGAAAATGCAGTGGAG-TAGGTT--A--CA--AGT
1 CTTATCTTC-CTGAAGTTGCAGTGAAGCT-GATTGAAGCCACTAAC
* * * * * *** * *
11249289 CTTATCTCCCAGAAGTTGCAGTGGAGCAGACTGAAGATGGCGAAT
1 CTTATCTTCCTGAAGTTGCAGTGAAGCTGATTGAAG-CCACTAAC
*
11249334 CTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACTAAC
1 CTTATCTTCCTGAAGTTGCAGTGAAGCTGATTGAAGCCACTAAC
* * * ** *** *
11249378 CTTATCTCCCTGAAGATGCAGTGGAG-TAGGCTGAAATTAC-AATT
1 CTTATCTTCCTGAAGTTGCAGTGAAGCT-GATTGAAGCCACTAA-C
* * * * *** * *
11249422 CTTATC-TCTCTAAAGTTGCAGTGGAGCAGACTGAAGTTGGCGAAT
1 CTTATCTTC-CTGAAGTTGCAGTGAAGCTGATTGAAG-CCACTAAC
*
11249467 CTTATCTTTCTGAAGTTGCAGTGAAGCTGATTGAAGCCACTAAC
1 CTTATCTTCCTGAAGTTGCAGTGAAGCTGATTGAAGCCACTAAC
* *
11249511 CTTTTCTCCCTGAA-TATGCAGTG
1 CTTATCTTCCTGAAGT-TGCAGTG
11249534 GAGTAGGTTG
Statistics
Matches: 332, Mismatches: 91, Indels: 62
0.68 0.19 0.13
Matches are distributed among these distances:
38 46 0.14
39 4 0.01
40 4 0.01
41 3 0.01
42 2 0.01
43 15 0.05
44 162 0.49
45 93 0.28
46 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (44 bp):
CTTATCTTCCTGAAGTTGCAGTGAAGCTGATTGAAGCCACTAAC
Found at i:11249328 original size:171 final size:171
Alignment explanation
Indices: 11249096--11249447 Score: 598
Period size: 171 Copynumber: 2.1 Consensus size: 171
11249086 TCCTTGAAGT
*
11249096 TGCAGTGGAGTAGGTTACAAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGCGA
1 TGCAGTGGAGTAGGTTACAAGTATTATCTCCCAGAAGTTGCAGTGGAGCAGACTAAAGATGGCGA
** * *
11249161 ATCTTATCTTCCTGAAGTTGTAGTGAAGCTGATTGAAGCCACTAACCTTATCTTCCTGAAGATGT
66 ATCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACTAACCTTATCTCCCTGAAGATGC
*
11249226 ACTGGAGTAGGTTGAAATTACAATTCTTATCTCTCTGAAA-A
131 ACTGGAGTAGGCTGAAATTACAATTCTTATCTCTCT-AAAGA
* *
11249267 TGCAGTGGAGTAGGTTACAAGTCTTATCTCCCAGAAGTTGCAGTGGAGCAGACTGAAGATGGCGA
1 TGCAGTGGAGTAGGTTACAAGTATTATCTCCCAGAAGTTGCAGTGGAGCAGACTAAAGATGGCGA
11249332 ATCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACTAACCTTATCTCCCTGAAGATGC
66 ATCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACTAACCTTATCTCCCTGAAGATGC
* *
11249397 AGTGGAGTAGGCTGAAATTACAATTCTTATCTCTCTAAAGT
131 ACTGGAGTAGGCTGAAATTACAATTCTTATCTCTCTAAAGA
11249438 TGCAGTGGAG
1 TGCAGTGGAG
11249448 CAGACTGAAG
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
170 3 0.02
171 167 0.98
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (171 bp):
TGCAGTGGAGTAGGTTACAAGTATTATCTCCCAGAAGTTGCAGTGGAGCAGACTAAAGATGGCGA
ATCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACTAACCTTATCTCCCTGAAGATGC
ACTGGAGTAGGCTGAAATTACAATTCTTATCTCTCTAAAGA
Found at i:11249401 original size:89 final size:89
Alignment explanation
Indices: 11249119--11249412 Score: 293
Period size: 89 Copynumber: 3.4 Consensus size: 89
11249109 GTTACAAGTA
* * *
11249119 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATGGCGAATCTTATCTTCCTGAAGTTGTAG
1 TTATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATGGCGAATCTTATCTTCCTGAAGTTGCAG
11249184 TGAAGCTGATTGAAGCCACTAACC
66 TGAAGCTGATTGAAGCCACTAACC
* * * * ** ** **
11249208 TTATCTTCCTGAAGATGTACTGGAGTAGGTTGAA-ATTAC-AATTCTTATC-TCTCTGAAAATGC
1 TTATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATGGCGAA-TCTTATCTTC-CTGAAGTTGC
* * **
11249270 AGTGGAG-TAGGTT--A--CA--AGTC
64 AGTGAAGCT-GATTGAAGCCACTAACC
* * *
11249290 TTATCTCCCAGAAGTTGCAGTGGAGCAGACTGAAGATGGCGAATCTTATCTTCCTGAAGTTACAG
1 TTATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATGGCGAATCTTATCTTCCTGAAGTTGCAG
11249355 TGAAGCTGATTGAAGCCACTAACC
66 TGAAGCTGATTGAAGCCACTAACC
* *
11249379 TTATCTCCCTGAAGATGCAGTGGAGTAGGCTGAA
1 TTATCTCCCTGAAGATGCAGTGGAGCAGACTGAA
11249413 ATTACAATTC
Statistics
Matches: 154, Mismatches: 38, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
82 28 0.18
83 26 0.17
84 7 0.05
85 1 0.01
86 1 0.01
87 7 0.05
88 26 0.17
89 58 0.38
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (89 bp):
TTATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATGGCGAATCTTATCTTCCTGAAGTTGCAG
TGAAGCTGATTGAAGCCACTAACC
Found at i:11249467 original size:133 final size:132
Alignment explanation
Indices: 11249251--11249592 Score: 498
Period size: 133 Copynumber: 2.6 Consensus size: 132
11249241 AATTACAATT
* * *
11249251 CTTATCTCTCTGAAAATGCAGTGGAGTA-G-G---TTACAAGTCTTATCTC-CCAGAAGTTGCAG
1 CTTATCTCCCTGAAAATGCAGTGGAGTAGGTGAAATTACAATTCTTATCTCTCTA-AAGTTGCAG
*
11249310 TGGAGCAGACTGAAGATGGCGAATCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACT
65 TGGAGCAGACTGAAGTTGGCGAATCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACT
11249375 AAC
130 AAC
*
11249378 CTTATCTCCCTGAAGATGCAGTGGAGTAGGCTGAAATTACAATTCTTATCTCTCTAAAGTTGCAG
1 CTTATCTCCCTGAAAATGCAGTGGAGTAGG-TGAAATTACAATTCTTATCTCTCTAAAGTTGCAG
* *
11249443 TGGAGCAGACTGAAGTTGGCGAATCTTATCTTTCTGAAGTTGCAGTGAAGCTGATTGAAGCCACT
65 TGGAGCAGACTGAAGTTGGCGAATCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACT
11249508 AAC
130 AAC
* * * *
11249511 CTTTTCTCCCTGAATATGCAGTGGAGTAGGTTGAAATTACAATTCTTATCTCTCTAAAGTTACAA
1 CTTATCTCCCTGAAAATGCAGTGGAGTAGG-TGAAATTACAATTCTTATCTCTCTAAAGTTGCAG
* *
11249576 TGGAACAGATTGAAGTT
65 TGGAGCAGACTGAAGTT
11249593 ATAAATTGTA
Statistics
Matches: 194, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
127 26 0.13
128 1 0.01
130 1 0.01
133 164 0.85
134 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (132 bp):
CTTATCTCCCTGAAAATGCAGTGGAGTAGGTGAAATTACAATTCTTATCTCTCTAAAGTTGCAGT
GGAGCAGACTGAAGTTGGCGAATCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAGCCACTA
AC
Found at i:11249502 original size:45 final size:45
Alignment explanation
Indices: 11249288--11249536 Score: 177
Period size: 44 Copynumber: 5.6 Consensus size: 45
11249278 AGGTTACAAG
* * * *
11249288 TCTTATCTCCCAGAAGTTGCAGTGGAGCAGACTGAAGATGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCTGACTGAAGTTGACGAA
* * * * ** *
11249333 TCTTATCTTCCTGAAGTTACAGTGAAGCTGATTGAAG-CCACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCTGACTGAAGTTGACGAA
* * * *
11249377 CCTTATCTCCCTGAAGATGCAGTGGAG-TAGGCTGAAATT-AC-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCT-GACTGAAGTTGACGAA
* * * *
11249420 TTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGTTGGCGAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCTGACTGAAGTTGACGAA
** * * ** *
11249466 TCTTATCTTTCTGAAGTTGCAGTGAAGCTGATTGAAG-CCACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCTGACTGAAGTTGACGAA
* *
11249510 CCTTTTCTCCCTGAA-TATGCAGTGGAG
1 TCTTATCTCCCTGAAGT-TGCAGTGGAG
11249537 TAGGTTGAAA
Statistics
Matches: 156, Mismatches: 41, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
43 4 0.03
44 86 0.55
45 64 0.41
46 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCTGACTGAAGTTGACGAA
Found at i:11249666 original size:41 final size:41
Alignment explanation
Indices: 11249605--11249685 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
11249595 AAATTGTAGA
11249605 TCTTATTTCTCTGAAATTGCAGTAGAGTAGATTAAAACAAG
1 TCTTATTTCTCTGAAATTGCAGTAGAGTAGATTAAAACAAG
* * *
11249646 TCTTATTTCTCTGAAGTTGCAGTAGAGTGGGTTAAAACAA
1 TCTTATTTCTCTGAAATTGCAGTAGAGTAGATTAAAACAA
11249686 AAATCATTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (41 bp):
TCTTATTTCTCTGAAATTGCAGTAGAGTAGATTAAAACAAG
Found at i:11251425 original size:24 final size:25
Alignment explanation
Indices: 11251378--11251426 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11251368 TTTAAACTAC
*
11251378 TTTATATAGTATTCATTCTTAAATT
1 TTTATATAGTATTCATTCTCAAATT
*
11251403 TTTATTTAGTATTC-TTCTCAAATT
1 TTTATATAGTATTCATTCTCAAATT
11251427 GTTTTAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTATATAGTATTCATTCTCAAATT
Found at i:11251520 original size:3 final size:3
Alignment explanation
Indices: 11251512--11251545 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
11251502 CTATTTCACA
* *
11251512 TAT TAT TAT TAT TAT TAT TAT TAC CAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11251546 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:11251787 original size:7 final size:7
Alignment explanation
Indices: 11251775--11251806 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
11251765 AATTTCAAAG
11251775 TATTATA
1 TATTATA
11251782 TATTATA
1 TATTATA
11251789 TATTATA
1 TATTATA
11251796 TATTATA
1 TATTATA
11251803 TATT
1 TATT
11251807 GTAAGTTGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TATTATA
Found at i:11256838 original size:50 final size:50
Alignment explanation
Indices: 11256763--11256939 Score: 293
Period size: 50 Copynumber: 3.5 Consensus size: 50
11256753 CCATGGTAAC
11256763 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
11256813 AAGTGATAAGTAATAGC-TCTGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTC-GGCTACACTTATCTGATCAAGGACAAATGA
11256863 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
11256913 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
11256940 CTGATCAGTG
Statistics
Matches: 118, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
49 2 0.02
50 90 0.76
51 26 0.22
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:11256953 original size:31 final size:31
Alignment explanation
Indices: 11256915--11257058 Score: 181
Period size: 31 Copynumber: 4.8 Consensus size: 31
11256905 ACAAATGACA
11256915 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
** *
11256946 AGTGAAAAGCAGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
11256977 AGTGAAAAGTGGTAGCTCCGGCTACCTGACC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
11257008 AGTGAAAAAT-G--G-TT-GGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
11257034 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
11257059 AAGTGACAAG
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 18 0.19
27 2 0.02
28 1 0.01
29 1 0.01
30 3 0.03
31 69 0.73
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:11257215 original size:40 final size:42
Alignment explanation
Indices: 11257171--11257282 Score: 149
Period size: 40 Copynumber: 2.7 Consensus size: 42
11257161 ATGTGATTCA
*
11257171 TGTAAGACCATAACTGGGCTATGGCATCGA-TATATG-AATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAATG
*
11257211 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAAATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATG-AAATG
* **
11257253 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
11257283 GAAAATGAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 32 0.51
42 29 0.46
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAATG
Found at i:11259949 original size:4 final size:4
Alignment explanation
Indices: 11259940--11259965 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11259930 GGTGACTGGA
11259940 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
11259966 TATTCAAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:11262690 original size:23 final size:23
Alignment explanation
Indices: 11262664--11262707 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
11262654 TGTTCAAGAG
11262664 AAAGATAAATGCTCAAGGCGAAA
1 AAAGATAAATGCTCAAGGCGAAA
11262687 AAAGATAAATGCTCAAGGCGA
1 AAAGATAAATGCTCAAGGCGA
11262708 GATAGAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.23, T:0.14
Consensus pattern (23 bp):
AAAGATAAATGCTCAAGGCGAAA
Found at i:11267593 original size:24 final size:24
Alignment explanation
Indices: 11267566--11267611 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11267556 GTTAAGATCC
* *
11267566 AAAAAAAACCAGAAATTAAAAAAT
1 AAAAAAAACCACAAAATAAAAAAT
*
11267590 AAAAAAAATCACAAAATAAAAA
1 AAAAAAAACCACAAAATAAAAA
11267612 TTCAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.78, C:0.09, G:0.02, T:0.11
Consensus pattern (24 bp):
AAAAAAAACCACAAAATAAAAAAT
Found at i:11267598 original size:17 final size:17
Alignment explanation
Indices: 11267578--11267611 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11267568 AAAAAACCAG
*
11267578 AAATTAAAAAATAAAAA
1 AAATCAAAAAATAAAAA
*
11267595 AAATCACAAAATAAAAA
1 AAATCAAAAAATAAAAA
11267612 TTCAATAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
AAATCAAAAAATAAAAA
Found at i:11271908 original size:27 final size:26
Alignment explanation
Indices: 11271872--11271982 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
11271862 AGCATCGCTG
* *
11271872 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
11271898 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
11271926 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
11271953 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
11271980 CCA
1 CCA
11271983 TGACGCTTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:11271931 original size:54 final size:54
Alignment explanation
Indices: 11271872--11271982 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
11271862 AGCATCGCTG
*
11271872 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
11271926 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
11271980 CCA
1 CCA
11271983 TGACGCTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:11273624 original size:26 final size:26
Alignment explanation
Indices: 11273587--11273669 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
11273577 ATGAAATGCC
*
11273587 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
11273613 TATCATGGAACATTTATCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
11273639 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
11273665 TATCA
1 TATCA
11273670 ATTTTTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:11280253 original size:6 final size:6
Alignment explanation
Indices: 11280171--11280240 Score: 88
Period size: 6 Copynumber: 11.5 Consensus size: 6
11280161 GGGGGATTTT
* **
11280171 TATTAA TACTAA TA-TAA TTATTTT TATTTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA -TATTAA TA-TTAA TATTAA TATTAA TATTAA
11280220 TATTAA TATTAA TATTAA TAT
1 TATTAA TATTAA TATTAA TAT
11280241 AAAAATTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
5 3 0.05
6 48 0.86
7 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (6 bp):
TATTAA
Found at i:11283609 original size:20 final size:21
Alignment explanation
Indices: 11283571--11283610 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11283561 AAGAATAATT
*
11283571 TTTTATTTTTGTTTATTAAAC
1 TTTTATTTTTATTTATTAAAC
*
11283592 TTTT-TTTTTATTTTTTAAA
1 TTTTATTTTTATTTATTAAA
11283611 GAAAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTTTTATTTATTAAAC
Found at i:11288471 original size:46 final size:46
Alignment explanation
Indices: 11288421--11288596 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
11288411 TATTTGGGCA
11288421 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
11288467 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
11288514 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
11288560 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11288597 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:11288576 original size:93 final size:93
Alignment explanation
Indices: 11288417--11288588 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11288407 TGGATATTTG
* *
11288417 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
11288482 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
11288510 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
11288575 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
11288589 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:11291559 original size:15 final size:15
Alignment explanation
Indices: 11291539--11291607 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
11291529 GTATCTTGGG
11291539 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
11291554 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
11291569 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
11291584 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
11291599 TTTCTTTAT
1 TTTCTTTAT
11291608 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:11291608 original size:30 final size:30
Alignment explanation
Indices: 11291530--11291617 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
11291520 CATAGTATCG
* * * *
11291530 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
11291560 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
11291590 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
11291618 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:11294051 original size:46 final size:46
Alignment explanation
Indices: 11294001--11294176 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
11293991 TATTTGGGCA
11294001 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
11294047 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
11294094 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
11294140 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11294177 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:11294156 original size:93 final size:93
Alignment explanation
Indices: 11293997--11294168 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11293987 TGGATATTTG
* *
11293997 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
11294062 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
11294090 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
11294155 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
11294169 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:11297143 original size:15 final size:15
Alignment explanation
Indices: 11297123--11297191 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
11297113 GTATCTTGGG
11297123 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
11297138 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
11297153 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
11297168 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
11297183 TTTCTTTAT
1 TTTCTTTAT
11297192 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:11297192 original size:30 final size:30
Alignment explanation
Indices: 11297114--11297201 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
11297104 CATAGTATCG
* * * *
11297114 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
11297144 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
11297174 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
11297202 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:11299640 original size:46 final size:46
Alignment explanation
Indices: 11299587--11299715 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
11299577 TATTTGGGCA
*
11299587 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
11299633 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
11299679 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11299716 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Done.