Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 35 of 325
Found at i:10465661 original size:27 final size:26
Alignment explanation
Indices: 10465623--10465978 Score: 336
Period size: 27 Copynumber: 13.2 Consensus size: 26
10465613 ATTTCCAAAG
*
10465623 TACCCTCAATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* * *
10465650 TACTCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
*
10465677 TACCCTTGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* * *
10465704 CACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* * *
10465731 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
*
10465758 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
**
10465785 TACCCTTAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-GTTT
* * *
10465812 TACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* *
10465839 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
* * *
10465866 TATCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-GTTT
* *
10465893 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-GTTT
*
10465920 TACCCTTGATTTA-AAGAATTACCGTTT
1 TACCCTCGATTTACAA-AATTA-CGTTT
* *
10465947 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
10465974 TACCC
1 TACCC
10465979 CTAGGTGTTA
Statistics
Matches: 281, Mismatches: 38, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.01
27 271 0.96
28 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACGTTT
Found at i:10465681 original size:54 final size:54
Alignment explanation
Indices: 10465623--10465978 Score: 401
Period size: 54 Copynumber: 6.6 Consensus size: 54
10465613 ATTTCCAAAG
* * *
10465623 TACCCTCAATTTACAAAATTA-TCGTTTTACTCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTACAGAATTACCATTT
* * ***
10465677 TACCCTTGATTTACAAAATTA-TCGTTTCACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTACAGAATTACCATTT
* * * *
10465731 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
** * * *
10465785 TACCCTTAATTTACAAAATTACTGTTTTACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
* * * * **
10465839 TACCCTCAATTTACAAAATTACTATTTTATCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
* * * * *
10465893 TACCCTTGATTTACAGAATTACTGTTTTACCCTTGATTTAAAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
* **
10465947 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACTGTTTTACCC
10465979 CTAGGTGTTA
Statistics
Matches: 259, Mismatches: 42, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
54 258 1.00
55 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:10465681 original size:81 final size:81
Alignment explanation
Indices: 10465623--10465978 Score: 428
Period size: 81 Copynumber: 4.4 Consensus size: 81
10465613 ATTTCCAAAG
* *
10465623 TACCCTCAATTTACAAAATTA-TCGTTTTACTCTCGATTTACAGAATTACTATTTTACCCTTGAT
1 TACCCTCAATTTACAAAATTACT-GTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGAT
* *
10465687 TTACAAAATTATCGTTT
65 TTACAAAATTACCATTT
* * * * *
10465704 CACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
10465769 TACAAAATTACCATTT
66 TACAAAATTACCATTT
* * * * * *
10465785 TACCCTTAATTTACAAAATTACTGTTTTACCCTTGATTTATAAAATTACCATTTTACCCTCAATT
1 TACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
*
10465850 TACAAAATTACTATTT
66 TACAAAATTACCATTT
* * * * * * *
10465866 TATCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTTGATT
1 TACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
*
10465931 TA-AAGAATTACCGTTT
66 TACAA-AATTACCATTT
* * **
10465947 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCAATTTACAAAATTACTGTTTTACCC
10465979 CTAGGTGTTA
Statistics
Matches: 238, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
80 2 0.01
81 235 0.99
82 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (81 bp):
TACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
TACAAAATTACCATTT
Found at i:10466291 original size:71 final size:67
Alignment explanation
Indices: 10466153--10466294 Score: 167
Period size: 71 Copynumber: 2.1 Consensus size: 67
10466143 GAGGAAGAGT
* * * * * *
10466153 TCTGGTAGCCTCGCTGCAATCTGATGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGATGGCCTCGCCACATATATATATTCTGGTGACCTAGCCACAA
10466218 TA
66 TA
* * *
10466220 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACACACATATATATATTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCGCTGCAATCTGATGGCCTCG---C-CACATATATATATTCTGGTGACCTAGCC
10466285 ACAATA
62 ACAATA
10466291 TCTG
1 TCTG
10466295 TATCTGGTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
67 29 0.47
70 1 0.02
71 32 0.52
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGATGGCCTCGCCACATATATATATTCTGGTGACCTAGCCACAA
TA
Found at i:10466474 original size:31 final size:31
Alignment explanation
Indices: 10466439--10466548 Score: 118
Period size: 31 Copynumber: 3.5 Consensus size: 31
10466429 TTGCACTCAC
*
10466439 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * **
10466470 ATTCTGATTCTAATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
10466501 ATTCTGATTCTGATTCTGATT--CTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTG
10466532 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
10466549 CATTTTAATT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
29 1 0.02
30 2 0.03
31 61 0.94
32 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:10466478 original size:6 final size:6
Alignment explanation
Indices: 10466439--10466548 Score: 82
Period size: 6 Copynumber: 17.8 Consensus size: 6
10466429 TTGCACTCAC
* * *
10466439 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
10466488 -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
10466538 ATTCTG ATTCT
1 ATTCTG ATTCT
10466549 CATTTTAATT
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 4 0.05
6 66 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:10466508 original size:37 final size:37
Alignment explanation
Indices: 10466461--10466560 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
10466451 ATTCTGTTAC
*
10466461 CTGATACTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* * *
10466498 TTGATTCTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* *
10466535 CTGATTCTGATTCTCATTTTAATTCT
1 CTGATTCTGATTCTGATTCTAATTCT
10466561 AGTTCTGATA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
Found at i:10467924 original size:24 final size:24
Alignment explanation
Indices: 10467892--10468000 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
10467882 TACTCATTTG
*
10467892 CACACATAGTGCCATGT-TTCCTCA
1 CACACATAGTGCCATGTAAT-CTCA
* *
10467916 CACACATAGTGCTATATAATCTCA
1 CACACATAGTGCCATGTAATCTCA
* * **
10467940 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCCATGTA-ATCTCA
** * *
10467965 CACACATAGTGCCACATAACCTCG
1 CACACATAGTGCCATGTAATCTCA
10467989 CACACATAGTGC
1 CACACATAGTGC
10468001 TGAAATTTCT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
24 49 0.72
25 19 0.28
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (24 bp):
CACACATAGTGCCATGTAATCTCA
Found at i:10483086 original size:27 final size:26
Alignment explanation
Indices: 10483038--10483118 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
10483028 GCGAGGCTGC
*
10483038 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
10483065 CAGATATTGTGCCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
10483091 CATATATATATGTGGCGAAGCCACCAGA
1 C--AGATAT-TGTGACGAAGCCACCAGA
10483119 TTGCAGCGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.05
27 21 0.49
28 5 0.12
29 15 0.35
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:10483156 original size:69 final size:67
Alignment explanation
Indices: 10483065--10483204 Score: 190
Period size: 67 Copynumber: 2.1 Consensus size: 67
10483055 TCACCAGATA
* * * *
10483065 CAGATATTGTGCCTAGGCCACCAGAACATATATATATGTGGCGAAGCCACCAGATTGCAGCGAAG
1 CAGATATTGTGACGAAGCCACCAGAAC--AGATATATGTGGCGAAGCCACCAGATTGCAGCGAAG
*
10483130 TTGC
64 CTGC
* * *
10483134 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAAGCT
10483199 GC
66 GC
10483201 CAGA
1 CAGA
10483205 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 40 0.63
69 23 0.37
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAAGCT
GC
Found at i:10483182 original size:27 final size:26
Alignment explanation
Indices: 10483134--10483185 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
10483124 GCGAAGTTGC
*
10483134 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
10483160 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
10483186 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:10483866 original size:27 final size:27
Alignment explanation
Indices: 10483836--10483980 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
10483826 AGGGCAAAAT
* * * *
10483836 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
10483863 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
10483890 GGTAATTCTATCCTACAGGGGT-TTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
10483916 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
10483943 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
10483970 AATAATTCTAC
1 GGTAATTCTAC
10483981 AACTTATCCA
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
26 24 0.22
27 85 0.78
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:10483924 original size:53 final size:54
Alignment explanation
Indices: 10483838--10483980 Score: 198
Period size: 53 Copynumber: 2.7 Consensus size: 54
10483828 GGCAAAATGG
* * * * ** *
10483838 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGA
* *
10483892 TAATTCTATCCTACAGGGGT-TTTCGATAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGA
10483945 TAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
10483981 AACTTATCCA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 49 0.62
54 30 0.38
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGA
Found at i:10498557 original size:23 final size:23
Alignment explanation
Indices: 10498527--10498571 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10498517 GTGGCTTAAG
10498527 TTAGTATACCCTACATGTTTGGT
1 TTAGTATACCCTACATGTTTGGT
10498550 TTAGTATACCCTACATGTTTGG
1 TTAGTATACCCTACATGTTTGG
10498572 CATGGCCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (23 bp):
TTAGTATACCCTACATGTTTGGT
Found at i:10502993 original size:26 final size:26
Alignment explanation
Indices: 10502957--10503066 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
10502947 TGATACAAAT
*
10502957 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10502983 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10503009 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
10503035 TGATAATGGGTTAGGTAAATGTTTCC-
1 TGATAATAGGTTAGGTAAATG-TTCCA
10503061 TGATAA
1 TGATAA
10503067 GAATTTCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 76 0.96
27 3 0.04
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:10504730 original size:27 final size:27
Alignment explanation
Indices: 10504689--10504801 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
10504679 GAGGAAGCGT
*
10504689 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
10504716 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
10504743 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
10504771 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
10504797 TCTGG
1 TCTGG
10504802 CAGCCATACT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:10504794 original size:54 final size:54
Alignment explanation
Indices: 10504687--10504801 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
10504677 TGGAGGAAGC
*
10504687 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
10504741 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
10504795 GTTCTGG
1 GTTCTGG
10504802 CAGCCATACT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:10508807 original size:26 final size:26
Alignment explanation
Indices: 10508770--10508878 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10508760 TGATACAAAT
10508770 TGATAA-AGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10508795 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10508821 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10508847 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10508873 TGATAA
1 TGATAA
10508879 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 6 0.07
26 75 0.93
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:10510447 original size:27 final size:27
Alignment explanation
Indices: 10510406--10510517 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
10510396 GAGGAAGCGT
*
10510406 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
10510433 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
10510460 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * *
10510488 TCTGGTGACTCTG-CAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
10510513 TCTGG
1 TCTGG
10510518 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
25 5 0.07
26 8 0.11
27 50 0.67
28 12 0.16
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:10510505 original size:54 final size:53
Alignment explanation
Indices: 10510404--10510517 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 53
10510394 TGGAGGAAGC
*
10510404 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAT-TATCT
* * *
10510458 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTG-CACATTATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATTATCT
10510511 GTTCTGG
1 GTTCTGG
10510518 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 12 0.22
54 30 0.55
55 13 0.24
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (53 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATTATCT
Found at i:10514478 original size:15 final size:15
Alignment explanation
Indices: 10514446--10514491 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
10514436 AATTTAATTG
10514446 ATAAAGAAAAATAAA
1 ATAAAGAAAAATAAA
*
10514461 ATAAA-AAAATATATA
1 ATAAAGAAAA-ATAAA
*
10514476 ATAAATAAAAATAAA
1 ATAAAGAAAAATAAA
10514491 A
1 A
10514492 ATAGAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (15 bp):
ATAAAGAAAAATAAA
Found at i:10517096 original size:2 final size:2
Alignment explanation
Indices: 10517089--10517124 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10517079 AATTACACCA
10517089 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10517125 CTAACATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10518018 original size:13 final size:13
Alignment explanation
Indices: 10518000--10518025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10517990 AAACAATAAT
10518000 AATAAATTATGGA
1 AATAAATTATGGA
10518013 AATAAATTATGGA
1 AATAAATTATGGA
10518026 TTTTATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AATAAATTATGGA
Found at i:10522761 original size:22 final size:21
Alignment explanation
Indices: 10522711--10522761 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
10522701 TTAAATAATT
*
10522711 AATTATATTATTAAATATAAA
1 AATTATATTAATAAATATAAA
*
10522732 TATGTATACTTAAT-AATATTAAA
1 AAT-TATA-TTAATAAATA-TAAA
10522755 AATTATA
1 AATTATA
10522762 ATATTTGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.08
22 12 0.50
23 10 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AATTATATTAATAAATATAAA
Found at i:10524361 original size:3 final size:3
Alignment explanation
Indices: 10524353--10524390 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10524343 CTCCGCCTTT
10524353 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10524391 GGAGGATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10526463 original size:10 final size:10
Alignment explanation
Indices: 10526437--10526470 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10526427 AAATATTAAT
10526437 ATTTATAAAA
1 ATTTATAAAA
10526447 ATATTATAAAA
1 AT-TTATAAAA
*
10526458 ATTTATTAAA
1 ATTTATAAAA
10526468 ATT
1 ATT
10526471 CAGTCCAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTTATAAAA
Found at i:10531186 original size:15 final size:15
Alignment explanation
Indices: 10531166--10531222 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 15
10531156 ATTCAATATT
10531166 AATATTTTAATAATA
1 AATATTTTAATAATA
10531181 AATATTTATTATAATAATA
1 AATA--T-TT-TAATAATA
*
10531200 AATATATTAATAATA
1 AATATTTTAATAATA
10531215 AATATTTT
1 AATATTTT
10531223 GCAGTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 19 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 12 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:10531195 original size:19 final size:18
Alignment explanation
Indices: 10531171--10531221 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 18
10531161 ATATTAATAT
10531171 TTTAATAATAAATATTTA
1 TTTAATAATAAATATTTA
10531189 TTATAATAATAAATA--TA
1 TT-TAATAATAAATATTTA
10531206 -TTAATAATAAATATTT
1 TTTAATAATAAATATTT
10531222 TGCAGTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 3 0.10
18 2 0.07
19 12 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAATAATAAATATTTA
Found at i:10536394 original size:46 final size:46
Alignment explanation
Indices: 10536341--10536516 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
10536331 TGGTTGAGCA
10536341 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10536387 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
10536432 CATCTGAGCTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10536480 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10536517 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10536497 original size:93 final size:93
Alignment explanation
Indices: 10536338--10536509 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
10536328 GGGTGGTTGA
* * *
10536338 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10536403 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
10536431 GCATCTGAGCTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10536496 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
10536510 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10539321 original size:39 final size:39
Alignment explanation
Indices: 10539270--10539390 Score: 188
Period size: 39 Copynumber: 3.1 Consensus size: 39
10539260 AATTATATTA
*
10539270 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATCT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
* * *
10539309 GCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
* *
10539348 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
10539387 CCAG
1 CCAG
10539391 TGTCTTGCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
Found at i:10544374 original size:8 final size:8
Alignment explanation
Indices: 10544361--10544388 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
10544351 AAAATCTATA
10544361 AAACAGAG
1 AAACAGAG
10544369 AAACAGAG
1 AAACAGAG
10544377 AAACAGAG
1 AAACAGAG
10544385 AAAC
1 AAAC
10544389 GGAGTAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.14, G:0.21, T:0.00
Consensus pattern (8 bp):
AAACAGAG
Found at i:10545266 original size:47 final size:47
Alignment explanation
Indices: 10545203--10545506 Score: 389
Period size: 47 Copynumber: 6.4 Consensus size: 47
10545193 CCCTTCGGGA
* * *
10545203 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
10545250 CTTATCACATAAATACACTTTCTCATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
10545297 CTTATCTCATATATGCA-TGTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
10545344 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
10545391 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
10545438 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
10545487 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
10545507 GTACATCAAT
Statistics
Matches: 231, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.00
47 189 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:10551690 original size:22 final size:22
Alignment explanation
Indices: 10551647--10551686 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
10551637 TAGATGTGTA
10551647 TTTATAGTATTTTTAATAAATT
1 TTTATAGTATTTTTAATAAATT
10551669 TTTATA-T-TTTTTAATAAA
1 TTTATAGTATTTTTAATAAA
10551687 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 1 0.06
22 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
TTTATAGTATTTTTAATAAATT
Found at i:10552093 original size:21 final size:21
Alignment explanation
Indices: 10552069--10552109 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10552059 ATTTAATAAC
10552069 TAAAATATTATAATAAAAAAT
1 TAAAATATTATAATAAAAAAT
10552090 TAAAATATTATAATAAAAAA
1 TAAAATATTATAATAAAAAA
10552110 AACTTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATATTATAATAAAAAAT
Found at i:10552629 original size:55 final size:56
Alignment explanation
Indices: 10552545--10552656 Score: 217
Period size: 55 Copynumber: 2.0 Consensus size: 56
10552535 AACAAACATG
10552545 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAAT-ACTCAACTT
1 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
10552600 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
1 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
10552656 A
1 A
10552657 CAAAAGTTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 46 0.82
56 10 0.18
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
Found at i:10563371 original size:40 final size:39
Alignment explanation
Indices: 10563327--10563429 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 39
10563317 AGTGACCATA
* *
10563327 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
* *
10563367 TCCGGGCTAAGCCCGAAGGTATTGGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
* * *
10563405 AACCGGGCTATATCCCGAAGGCATT
1 -TCCGGACTA-AGCCCGAAGGCATT
10563430 TGAACGAGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.04
39 30 0.56
40 22 0.41
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
Found at i:10563395 original size:39 final size:40
Alignment explanation
Indices: 10563340--10563429 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 40
10563330 GGACTAAGAT
* *
10563340 CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTA-AGC
1 CCGAAGGCATTGGTGCGAGTTACTATA-ACCGGGCTATAGC
* *
10563379 CCGAAGGTATTGGTGCGAGTTACTATAACCGGGCTATATC
1 CCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTATAGC
10563419 CCGAAGGCATT
1 CCGAAGGCATT
10563430 TGAACGAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
39 31 0.70
40 13 0.30
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTATAGC
Found at i:10563438 original size:40 final size:39
Alignment explanation
Indices: 10563288--10563431 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 39
10563278 CGAATGATGT
* * *
10563288 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAATA
* * *
10563327 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATA
* *
10563368 CCGGGCTAAGCCCGAAGGTATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT-A
*
10563407 CCGGGCTATATCCCGAAGGCATTTG
1 CCGGGCTA-AGCCCGAAGGCATTTG
10563432 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.35
40 44 0.52
41 9 0.11
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:10571568 original size:79 final size:81
Alignment explanation
Indices: 10571432--10571614 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
10571422 TCGAATGATG
* *
10571432 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
10571496 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
10571511 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
10571573 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
10571591 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
10571615 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:10571630 original size:40 final size:40
Alignment explanation
Indices: 10571433--10571616 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
10571423 CGAATGATGT
* * * *
10571433 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
10571473 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
10571513 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
10571551 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
10571592 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
10571617 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:10571638 original size:79 final size:79
Alignment explanation
Indices: 10571485--10571649 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
10571475 GGACTAAGAT
* **
10571485 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
10571550 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
10571564 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
10571627 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
10571643 CCGAAGG
1 CCGAAGG
10571650 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:10579310 original size:38 final size:38
Alignment explanation
Indices: 10579259--10579336 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
10579249 CTCTAAAAAA
10579259 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
1 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
*
10579297 GTTCTACATGGGTAGACACACGGGCATGTGTCTAGGCC
1 GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
10579335 GT
1 GT
10579337 GTGTGACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (38 bp):
GTTCTACACGGGTAGACACACGGGCATGTGTCTAGGCC
Found at i:10598361 original size:39 final size:40
Alignment explanation
Indices: 10598318--10598451 Score: 132
Period size: 39 Copynumber: 3.5 Consensus size: 40
10598308 ACCATCTCGA
* * * *
10598318 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGCGGGACCTTAAGCCCGAACATAATTCCAGCACAT
* *
10598357 AGCCTGC-GGACCTTAAGTCCGAATATAATTCCAGCACAT
1 AGCCTGCGGGACCTTAAGCCCGAACATAATTCCAGCACAT
* * * *
10598396 AGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGGACCTTAAGCCCGAACATAATTCCAGCACAT
* *
10598435 AACCTGC-GGACCCTAAG
1 AGCCTGCGGGACCTTAAG
10598452 TCTGGATATA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 3 0.04
39 82 0.96
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
AGCCTGCGGGACCTTAAGCCCGAACATAATTCCAGCACAT
Found at i:10598452 original size:39 final size:39
Alignment explanation
Indices: 10598336--10598461 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
10598326 GGACTTTAGC
* * * *
10598336 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
10598375 CCGAATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
10598414 CCGGATATAATTCCAGCACATAACCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
10598453 CTGGATATA
1 CCGGATATA
10598462 CATCACTGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:10604066 original size:28 final size:27
Alignment explanation
Indices: 10604023--10604127 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
10604013 GAAATCAGTG
10604023 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
10604050 TTAATCTGGGCCATAGCCCTTACAGTATCAGAGTA
1 TTAATCTGGGCC-TAG-CC---CA-TATCA-A-TA
*
10604085 -T-AT-TGGGCCTAGCCCATATCAGTA
1 TTAATCTGGGCCTAGCCCATATCAATA
*
10604109 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
10604128 TATTACAAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 23
0.71 0.03 0.26
Matches are distributed among these distances:
24 2 0.03
26 7 0.11
27 12 0.19
28 16 0.25
29 2 0.03
30 2 0.03
31 3 0.05
32 8 0.13
33 7 0.11
34 2 0.03
35 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:10604115 original size:59 final size:59
Alignment explanation
Indices: 10604028--10604163 Score: 170
Period size: 59 Copynumber: 2.3 Consensus size: 59
10604018 CAGTGTTAAC
*
10604028 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-TTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAG--TCGAGA-TATAT
* *
10604088 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAAGTCGAGATATAT
*
10604148 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
10604164 TAACATAGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
59 31 0.46
60 28 0.41
61 7 0.10
62 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAGTCGAGATATAT
Found at i:10606480 original size:12 final size:12
Alignment explanation
Indices: 10606465--10606489 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10606455 ACAGCAAATA
10606465 ATAAAAATTTTC
1 ATAAAAATTTTC
10606477 ATAAAAATTTTC
1 ATAAAAATTTTC
10606489 A
1 A
10606490 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:10617739 original size:12 final size:12
Alignment explanation
Indices: 10617722--10617830 Score: 59
Period size: 12 Copynumber: 9.1 Consensus size: 12
10617712 TTTTTCCTTG
10617722 TATATTATTTAT
1 TATATTATTTAT
10617734 TATATTA-TTA-
1 TATATTATTTAT
*
10617744 TAAATTA-TT-T
1 TATATTATTTAT
*
10617754 TATATTATGTTACC
1 TATATTAT-TTA-T
*
10617768 TATATTTTATTAT
1 TATATTAT-TTAT
10617781 ATATATTATTT-T
1 -TATATTATTTAT
*
10617793 ATATATTACTTAT
1 -TATATTATTTAT
* *
10617806 CATATTGTTTA-
1 TATATTATTTAT
*
10617817 TATTATTATATAT
1 TA-TATTATTTAT
10617830 T
1 T
10617831 TCGTTTATAA
Statistics
Matches: 74, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
10 14 0.19
11 4 0.05
12 35 0.47
13 4 0.05
14 17 0.23
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:10617811 original size:21 final size:18
Alignment explanation
Indices: 10617722--10617831 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 18
10617712 TTTTTCCTTG
10617722 TATATTATTTATTATATTAT
1 TATA-TATTT-TTATATTAT
*
10617742 TATAAATTATTTTATATTAT
1 TATATA-T-TTTTATATTAT
*
10617762 GT-TACCTATATTT-TATTAT
1 -TATA--TATTTTTATATTAT
10617781 ATATATTATTTTATATATTACT
1 -TATA-TATTTT-TATATTA-T
10617803 TATCATATTGTTTATATTAT
1 TAT-ATATT-TTTATATTAT
10617823 TATATATTT
1 TATATATTT
10617832 CGTTTATAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
18 1 0.01
19 18 0.25
20 26 0.36
21 23 0.32
22 5 0.07
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATATTTTTATATTAT
Found at i:10617836 original size:21 final size:21
Alignment explanation
Indices: 10617794--10617839 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10617784 TATTATTTTA
10617794 TATATTACTTATCATATTGTT
1 TATATTACTTATCATATTGTT
10617815 TATATTA-TTAT-ATATTTCGTT
1 TATATTACTTATCATA-TT-GTT
10617836 TATA
1 TATA
10617840 AATTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (21 bp):
TATATTACTTATCATATTGTT
Found at i:10618114 original size:16 final size:17
Alignment explanation
Indices: 10618095--10618131 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10618085 TCTAAACATC
*
10618095 TTTATTTTTA-TTTTAT
1 TTTATTTTGATTTTTAT
10618111 TTTA-TTTGATTTTTAT
1 TTTATTTTGATTTTTAT
10618127 TTTAT
1 TTTAT
10618132 ATGTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTTGATTTTTAT
Found at i:10621914 original size:32 final size:32
Alignment explanation
Indices: 10621873--10621933 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
10621863 AAAGAGAGTA
*
10621873 AGAGAAAGAAAACCTGGAAGCAACACATCCTT
1 AGAGAAAGAAAACCTGGAAGAAACACATCCTT
10621905 AGAGAAAGAAAACCTGGAAGAAACACATC
1 AGAGAAAGAAAACCTGGAAGAAACACATC
10621934 TTTACGGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (32 bp):
AGAGAAAGAAAACCTGGAAGAAACACATCCTT
Found at i:10630303 original size:220 final size:220
Alignment explanation
Indices: 10629916--10630484 Score: 836
Period size: 220 Copynumber: 2.6 Consensus size: 220
10629906 TAGGCTAAAG
* * * * *
10629916 CATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGTATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * *
10629981 TTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTTGACGGAGAGTAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAG
* *
10630046 ACATAACAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTTGCATCCTT
131 ACATAACAGATCTAACCTTCAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATCCTT
10630111 GCATTTACAAGGAGCAGATCGAAGA
196 GCATTTACAAGGAGCAGATCGAAGA
10630136 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* *
10630201 TTGTCAGAGAACAAATTGAAGAAACATATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAG
** * * ** **
10630266 ACATAGTAGATTTAACCTTCGGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATTTTT
131 ACATAACAGATCTAACCTTCAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATCCTT
* *
10630331 GCGTTTACAAGGAGCATATCGAAGA
196 GCATTTACAAGGAGCAGATCGAAGA
* *
10630356 CGTAGCAGATTTGGCTTTCACGTGTTTACACTGAAGC-GAATCTAAGATGATTTGGCATCTCTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAG-ATCTAAGATGATTTGGCATCTCTGT
* * ** * *
10630420 ATTGTCAG-GAAACAAATCGAAGAAGCAAATTTGGCGTCTTTATGTTCGACGGAGAGCAGATCGA
65 ATTGTCAGAG-AACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGA
10630484 A
129 A
10630485 ATATCAACAT
Statistics
Matches: 316, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
219 2 0.01
220 314 0.99
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAG
ACATAACAGATCTAACCTTCAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATCCTT
GCATTTACAAGGAGCAGATCGAAGA
Found at i:10632164 original size:12 final size:12
Alignment explanation
Indices: 10632147--10632230 Score: 52
Period size: 12 Copynumber: 7.0 Consensus size: 12
10632137 TTTTTCTTTG
10632147 TATATTATTTAT
1 TATATTATTTAT
10632159 TATATTA-TTA-
1 TATATTATTTAT
*
10632169 TAAATTA-TTA-
1 TATATTATTTAT
*
10632179 TATATTATGTTACC
1 TATATTAT-TTA-T
*
10632193 TATATTTTATTAT
1 TATATTAT-TTAT
10632206 ATATATTATTT-T
1 -TATATTATTTAT
*
10632218 ATATATTACTTAT
1 -TATATTATTTAT
10632231 CATTTGTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
10 15 0.25
11 3 0.05
12 21 0.36
13 3 0.05
14 17 0.29
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:10632210 original size:14 final size:14
Alignment explanation
Indices: 10632177--10632223 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10632167 TATAAATTAT
*
10632177 TATATATTATGTTA
1 TATATATTATTTTA
**
10632191 CCTATATT-TTATTA
1 TATATATTATT-TTA
10632205 TATATATTATTTTA
1 TATATATTATTTTA
10632219 TATAT
1 TATAT
10632224 TACTTATCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 23 0.88
15 2 0.08
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (14 bp):
TATATATTATTTTA
Found at i:10632222 original size:26 final size:28
Alignment explanation
Indices: 10632172--10632224 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
10632162 ATTATTATAA
10632172 ATTATTATATATTATGTTACCTATATTTT
1 ATTATTATATATTATGTTA-CTATATTTT
*
10632201 ATTA-TATATATTATTTTA-TATATT
1 ATTATTATATATTATGTTACTATATT
10632225 ACTTATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
28 13 0.57
29 4 0.17
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTATTATATATTATGTTACTATATTTT
Found at i:10632375 original size:26 final size:27
Alignment explanation
Indices: 10632310--10632381 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
10632300 TCTTATATAC
* *
10632310 TTTTATTTTATTATAAAATATATATTA
1 TTTTATTTTATTATTAAATACATATTA
** * *
10632337 TTTTA-TTGCTTATTAATTACATA-TG
1 TTTTATTTTATTATTAAATACATATTA
10632362 TTTTATTTTATTATTAAATA
1 TTTTATTTTATTATTAAATA
10632382 AATTTGTGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
25 6 0.17
26 24 0.69
27 5 0.14
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (27 bp):
TTTTATTTTATTATTAAATACATATTA
Found at i:10632559 original size:22 final size:22
Alignment explanation
Indices: 10632517--10632561 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10632507 TCTAAACATC
* *
10632517 TTTATTTTTATTTTATTTAATT
1 TTTATTTTTATGTTATATAATT
10632539 TTTATTTTATATGTT-TATAATT
1 TTTATTTT-TATGTTATATAATT
10632561 T
1 T
10632562 GCTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTATTTTTATGTTATATAATT
Found at i:10639633 original size:14 final size:14
Alignment explanation
Indices: 10639595--10639637 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
10639585 CAAAATATAC
10639595 AATATAATTAAA-T
1 AATATAATTAAATT
10639608 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
10639623 AA-ATAATTTAATT
1 AATATAATTAAATT
10639636 AA
1 AA
10639638 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:10644328 original size:30 final size:29
Alignment explanation
Indices: 10644281--10644344 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
10644271 ACTTATTTTA
*
10644281 TTGTTAATTTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTTTATTATTTTAAAAACAT
10644310 TTGTTAATTTTGTTATTATTTTAAAAACAT
1 TTGTTAATTTT-TTATTATTTTAAAAACAT
10644340 TTGTT
1 TTGTT
10644345 TGTTAAGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 11 0.33
30 22 0.67
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (29 bp):
TTGTTAATTTTTTATTATTTTAAAAACAT
Found at i:10644355 original size:30 final size:30
Alignment explanation
Indices: 10644292--10644356 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
10644282 TGTTAATTTT
* **
10644292 TTATTATTTTAAAGACATTTGTTAATTTTG
1 TTATTATTTTAAAAACATTTGTTAATTAAG
**
10644322 TTATTATTTTAAAAACATTTGTTTGTTAAG
1 TTATTATTTTAAAAACATTTGTTAATTAAG
10644352 TTATT
1 TTATT
10644357 TAAGTATACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (30 bp):
TTATTATTTTAAAAACATTTGTTAATTAAG
Found at i:10645620 original size:14 final size:16
Alignment explanation
Indices: 10645601--10645637 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
10645591 TTTCTTTTCG
10645601 TGGTTTT-ATGTTAT-
1 TGGTTTTAATGTTATA
*
10645615 TGGTTTTAATGTTTTA
1 TGGTTTTAATGTTATA
10645631 TGGTTTT
1 TGGTTTT
10645638 GCTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 6 0.30
16 7 0.35
ACGTcount: A:0.14, C:0.00, G:0.22, T:0.65
Consensus pattern (16 bp):
TGGTTTTAATGTTATA
Found at i:10645643 original size:22 final size:22
Alignment explanation
Indices: 10645603--10645644 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10645593 TCTTTTCGTG
*
10645603 GTTTTATGTTATTGGTTTTAAT
1 GTTTTATGTTATTGCTTTTAAT
10645625 GTTTTATGGTT-TTGCTTTTA
1 GTTTTAT-GTTATTGCTTTTA
10645645 TTTGTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.14, C:0.02, G:0.19, T:0.64
Consensus pattern (22 bp):
GTTTTATGTTATTGCTTTTAAT
Found at i:10657434 original size:47 final size:48
Alignment explanation
Indices: 10657317--10657499 Score: 196
Period size: 47 Copynumber: 3.9 Consensus size: 48
10657307 CGGCCACATT
* * *
10657317 ATGAGAGCCAGTGTAAGACCATGTCTGGGACCTAGTATCGAC-ATTGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTA-TGAG
** ** * *
10657365 ACAAGGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAG
* *
10657411 ATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAG
* *
10657458 AT-ATGAGCCAGTGTAAGACCGTGTCTAGGACATAGCATCGAC
1 ATGAT-AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGAC
10657500 ACTTTACCCA
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
46 24 0.21
47 67 0.59
48 22 0.19
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
ATGATAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAG
Found at i:10657437 original size:94 final size:93
Alignment explanation
Indices: 10657276--10657497 Score: 266
Period size: 94 Copynumber: 2.4 Consensus size: 93
10657266 GGTTATTATT
* *
10657276 GGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 GGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGT
* *
10657341 CTGGGACCTAGTATCGACATTGAGACAAG
66 CTGGGACATAGCATCGAC-TTGAGACAAG
* * * *
10657370 GGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATAGTCAGTGTAAGACCATG
1 GGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATGATGAGAGCCAGTGTAAGACCATG
* * *
10657434 TCTGGGACATGGCATCGACTTGAGATATG
65 TCTGGGACATAGCATCGACTTGAGACAAG
* * * *
10657463 AGCCAGTGTAAGACCGTGTCTAGGACATAGCATCG
1 GGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
10657498 ACACTTTACC
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
93 19 0.17
94 84 0.76
95 7 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
GGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGT
CTGGGACATAGCATCGACTTGAGACAAG
Found at i:10658934 original size:31 final size:31
Alignment explanation
Indices: 10658899--10658960 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
10658889 ATCAAGACTG
*
10658899 AAGATCTCCCATCAATTTCCCTTTAGAAGTT
1 AAGATCTCCCATCAATTTCCCTTCAGAAGTT
*
10658930 AAGATCTCCCCTCAATTTCCCTTCAGAAGTT
1 AAGATCTCCCATCAATTTCCCTTCAGAAGTT
10658961 TTAGGTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (31 bp):
AAGATCTCCCATCAATTTCCCTTCAGAAGTT
Found at i:10678833 original size:16 final size:15
Alignment explanation
Indices: 10678808--10678837 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10678798 TAATAATAAG
10678808 TAAAAAGTAAGGAAC
1 TAAAAAGTAAGGAAC
10678823 TAAATAAGTAAGGAA
1 TAAA-AAGTAAGGAA
10678838 TTATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.03, G:0.20, T:0.17
Consensus pattern (15 bp):
TAAAAAGTAAGGAAC
Found at i:10685612 original size:6 final size:6
Alignment explanation
Indices: 10685576--10685632 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
10685566 ATAACTCTTC
* **
10685576 AAAAAT AAATAAG AGAAAAT -AAAAT TTAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAA-AAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
10685625 -AAAAT AAA
1 AAAAAT AAA
10685633 TGGACTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
5 10 0.24
6 25 0.60
7 5 0.12
8 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:10691680 original size:16 final size:17
Alignment explanation
Indices: 10691656--10691689 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10691646 TAATAACAAG
*
10691656 ATTCGTCTTAGGT-TTT
1 ATTCCTCTTAGGTATTT
10691672 ATTCCTCTTAGGTATTT
1 ATTCCTCTTAGGTATTT
10691689 A
1 A
10691690 GGGGTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (17 bp):
ATTCCTCTTAGGTATTT
Found at i:10701263 original size:46 final size:45
Alignment explanation
Indices: 10701210--10701377 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 45
10701200 ATTGTTGGCT
*
10701210 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCC
* * *
10701256 AGTGTAAGACTATGTCTGGGACCTAGCATCGG--CATTGAGACGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATT---ATGAGAGCC
* **
10701304 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACAT-A-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-A-TTATGAGAGCC
10701350 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
10701378 AACTACGAGA
Statistics
Matches: 101, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
45 4 0.04
46 47 0.47
47 24 0.24
48 24 0.24
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCC
Found at i:10701387 original size:46 final size:45
Alignment explanation
Indices: 10701207--10701473 Score: 209
Period size: 47 Copynumber: 5.7 Consensus size: 45
10701197 GTTATTGTTG
* * * *
10701207 GCTAGTGTAAGACATGTCTGGGACATGCATTGGC-C-ACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGA-CAT--GA
* * * *
10701253 GCCAGTGTAAGACTATGTCTGGGACCTAGCATCGGCATTGAGACGA-GA
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGAC-TCGAGAC-ATGA
* * *
10701301 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGACATGA
* * *
10701347 GCCAGTGTAAGACATGTCTGGGACATGCATCAACTACGAGATGAT-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGA-CATGA
* * * *
10701393 GTTAATGTAAGATCATGTCTGGGACATGGCATCGACTTGAGATATGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGACATGA
*
10701440 GCTAGTGTAAGACCATGTTTGGGACATGACATCG
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCG
10701474 GCACCTTACC
Statistics
Matches: 180, Mismatches: 27, Indels: 27
0.77 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 71 0.39
47 74 0.41
48 29 0.16
51 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGACATGA
Found at i:10707576 original size:9 final size:8
Alignment explanation
Indices: 10707550--10707575 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10707540 GCAAACGTTA
10707550 TTCTTTTT
1 TTCTTTTT
10707558 TTCTTTTT
1 TTCTTTTT
10707566 TTCTTTTT
1 TTCTTTTT
10707574 TT
1 TT
10707576 TAGCTCTTTT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTCTTTTT
Found at i:10708123 original size:15 final size:16
Alignment explanation
Indices: 10708093--10708125 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10708083 ATGTGTATCT
10708093 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
*
10708109 TTTTTTAATAT-TTTA
1 TTTTTTAAAATATTTA
10708124 TT
1 TT
10708126 ATAGTCCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:10722803 original size:26 final size:26
Alignment explanation
Indices: 10722758--10722831 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
10722748 TTTTCTCACC
*
10722758 CAATTTTA-CCTTAATCAAATTTTGA
1 CAATTTTACCCTTAATAAAATTTTGA
*
10722783 CAATTTTACCCTTAGTAAAATTTTGA
1 CAATTTTACCCTTAATAAAATTTTGA
** *
10722809 TGATTTTACCCCTAATAAAATTT
1 CAATTTTACCCTTAATAAAATTT
10722832 CGAGAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 8 0.19
26 34 0.81
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.43
Consensus pattern (26 bp):
CAATTTTACCCTTAATAAAATTTTGA
Found at i:10724391 original size:26 final size:26
Alignment explanation
Indices: 10724355--10724406 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
10724345 GTGTGGAGTA
*
10724355 TTCTGTAACAGAGTATTCGGTGAAGC
1 TTCTGTAACAGAGTATTCGATGAAGC
10724381 TTCTGTAACAGAGTATTCGATGAAGC
1 TTCTGTAACAGAGTATTCGATGAAGC
10724407 CCGTGTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (26 bp):
TTCTGTAACAGAGTATTCGATGAAGC
Found at i:10724436 original size:38 final size:38
Alignment explanation
Indices: 10724394--10724467 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
10724384 TGTAACAGAG
* * *
10724394 TATTCGATGAAGCCCGTGTGGAGTATTTTGTAATGACA
1 TATTCGATGAAGCCCATGTGGAGTATTCTATAATGACA
* * *
10724432 TATTCGGTGAAGCTCATGTGGCGTATTCTATAATGA
1 TATTCGATGAAGCCCATGTGGAGTATTCTATAATGA
10724468 TATTGTAACG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (38 bp):
TATTCGATGAAGCCCATGTGGAGTATTCTATAATGACA
Found at i:10725369 original size:180 final size:180
Alignment explanation
Indices: 10725024--10725389 Score: 554
Period size: 180 Copynumber: 2.0 Consensus size: 180
10725014 TAGCTGGAGC
*
10725024 TACGGAACTCCAAATTAAGATCTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
* * *
10725089 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAATTTACCCCTATTTC
66 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAATATACCCATATTTC
*
10725154 ACTATTCAACAATTCCGACCTCTCTTCAGTAAAAATTATTTATCTCATGG
131 ACTATTCAACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
* * * * *
10725204 TACGGGACTCTAAATTAAGAACTGTTAATTTTCCCAAAAACTAGACTCATATATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
* *
10725269 AAAATTTTTAGAATTTTTGGTTTATCCAATTAGTACAATTTATTCATTAAATATACCCATGTTTC
66 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAATATACCCATATTTC
* * * * * *
10725334 ACT-GTCTGATAGTTCCGATCTTTCTTCACTAAAAATTATTTATCTCATGG
131 ACTATTC-AACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
10725384 TACGGA
1 TACGGA
10725390 TCTCAGATGC
Statistics
Matches: 166, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
179 2 0.01
180 164 0.99
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (180 bp):
TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAATATACCCATATTTC
ACTATTCAACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
Found at i:10726033 original size:50 final size:50
Alignment explanation
Indices: 10725968--10726412 Score: 394
Period size: 50 Copynumber: 8.8 Consensus size: 50
10725958 ACCGAAGCTC
* * * *
10725968 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * *
10726018 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * ** *
10726068 TCTGATACACGTAGTAGTCTGCATTTAGTACTACACACGTGATCAAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * *
10726120 -C-GAGTACGCGTAGTAGCCTACACTTAGTACTACACATGCGACCTATCAA
1 TCTG-GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
** * * * * *
10726169 TCCAGTATATGTAGTAGCCTGCACTTAGTACTACACATGTAACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * * *
10726219 TCTGATACACATAGTAGCCCGCACTTAGTACTACACATGTGATCTAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-ATCAA
* * * * * ** *
10726270 TCGGGTACGCATAGTAGCCTGTACTTAGCACTACACATGCAACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
*
10726320 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA--AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * *
10726368 ACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TCTG--GT--ACACGTAGTAGCCTGCACTTAGTACTACACATGTG
10726413 TTCTCACAAC
Statistics
Matches: 317, Mismatches: 68, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
48 5 0.02
49 3 0.01
50 201 0.63
51 74 0.23
52 34 0.11
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:10726247 original size:151 final size:151
Alignment explanation
Indices: 10725972--10726408 Score: 588
Period size: 151 Copynumber: 2.9 Consensus size: 151
10725962 AAGCTCTCTG
*
10725972 GTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
* * * * *
10726037 TGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGTCTGCATTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
*
10726102 ACACGTGATC-AAAGTTAACGA
131 ACACGTGATCTAAA-CTAACGA
* * ** *
10726123 GTACGCGTAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAGTATATGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
* * *
10726188 TGCACTTAGTACTACACATGTAACCTAACCATCTGATACACATAGTAGCCCGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
* * *
10726253 ACATGTGATCTAAACTATCGG
131 ACACGTGATCTAAACTAACGA
* * * * *
10726274 GTACGCATAGTAGCCTGTACTTAGCACTACACATGCAACCTAACAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
** * * *
10726339 TGCACTTAGTACTACACACGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACT
66 TGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACATAGTAGCCTGCACTTAGTACT
10726404 ACACA
129 ACACA
10726409 TGTGTTCTCA
Statistics
Matches: 247, Mismatches: 36, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
151 208 0.84
152 3 0.01
153 36 0.15
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (151 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
ACACGTGATCTAAACTAACGA
Found at i:10726285 original size:101 final size:101
Alignment explanation
Indices: 10725968--10726411 Score: 410
Period size: 101 Copynumber: 4.4 Consensus size: 101
10725958 ACCGAAGCTC
* * ** * * *
10725968 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACGTAGT
* * *
10726033 AGCCTGCACTTAGTACTACACACGTGA-CTTATCCA
66 AGCCTGCACTTAGTACTACACACGTGACCTAAACTA
* * * * * * * * * *
10726068 TCTGATACACGTAGTAGTCTGCATTTAGTACTACACACGTGATCAAAGTTAA-C-GAGTACGCGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAA--CAATCTGA-TACACGT
* * * * *
10726131 AGTAGCCTACACTTAGTACTACACATGCGACCT-ATCAA
63 AGTAGCCTGCACTTAGTACTACACACGTGACCTAAACTA
** * ** * *
10726169 TCCAGTATATGTAGTAGCCTGCACTTAGTACTACACATGTAACCTAACCATCTGATACACATAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACGTAGT
* * *
10726234 AGCCCGCACTTAGTACTACACATGTGATCTAAACTA
66 AGCCTGCACTTAGTACTACACACGTGACCTAAACTA
* * * * * *
10726270 TCGGGTACGCATAGTAGCCTGTACTTAGCACTACACATGCAACCTAACAATCTGGTACACGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACGTAGT
*
10726335 AGCCTGCACTTAGTACTACACACGTGACCTAAAACTG
66 AGCCTGCACTTAGTACTACACACGTGACCT-AAACTA
*** *
10726372 TCTTAAACACATAGTAGCCTGCACATAGTACTACACATGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGT
10726412 GTTCTCACAA
Statistics
Matches: 273, Mismatches: 63, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
99 1 0.00
100 74 0.27
101 158 0.58
102 40 0.15
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (101 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACGTAGT
AGCCTGCACTTAGTACTACACACGTGACCTAAACTA
Found at i:10727695 original size:38 final size:37
Alignment explanation
Indices: 10727643--10727743 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 37
10727633 TATTACAGAT
* *
10727643 ATATTTAGTGAAGCCAGTGTGGCGTATCCTATAATGCC
1 ATATTTGGTGAAGCCA-TGTGGCATATCCTATAATGCC
* * * * *
10727681 GTATTTGGTGAAGCCCATATGGTATATTCTATAATGGC
1 ATATTTGGTGAAG-CCATGTGGCATATCCTATAATGCC
*
10727719 ATATTCGGTGAAGCCAATGTGGCAT
1 ATATTTGGTGAAGCC-ATGTGGCAT
10727744 GCTATGTAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
37 2 0.04
38 45 0.90
39 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (37 bp):
ATATTTGGTGAAGCCATGTGGCATATCCTATAATGCC
Found at i:10728498 original size:50 final size:50
Alignment explanation
Indices: 10728425--10728530 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
10728415 AGATTTGCCG
*
10728425 AAAGTAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
1 AAAGGAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
10728475 AAAGGAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
1 AAAGGAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
10728525 AAAGGA
1 AAAGGA
10728531 TATAAGATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.39
Consensus pattern (50 bp):
AAAGGAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGT
Found at i:10729324 original size:30 final size:32
Alignment explanation
Indices: 10729269--10729331 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
10729259 ATTGCAGCAG
* * *
10729269 TTCCTACTTTTCCCTTTTATTTTCTCTGGTTC
1 TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
10729301 TTCCTAC-TTT-CCTTTCATCTTCTCTGATTC
1 TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
10729331 T
1 T
10729332 AAAATTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 18 0.64
31 3 0.11
32 7 0.25
ACGTcount: A:0.08, C:0.30, G:0.05, T:0.57
Consensus pattern (32 bp):
TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
Found at i:10729847 original size:11 final size:12
Alignment explanation
Indices: 10729830--10729861 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
10729820 AATAAGCGAA
10729830 AAAAAGAAAGAG
1 AAAAAGAAAGAG
10729842 -AAAAGAAA-AG
1 AAAAAGAAAGAG
10729852 AAAAAGAAAG
1 AAAAAGAAAG
10729862 CATAATGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 2 0.11
11 16 0.89
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:10742929 original size:28 final size:27
Alignment explanation
Indices: 10742890--10742947 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
10742880 TCAGCTTGAA
*
10742890 TAATTATTACATGAT-TTTAATGTGTTT
1 TAATTATTACAT-ATCTTTAATATGTTT
10742917 TAATCTATTACATATCTTTAATATGTTT
1 TAAT-TATTACATATCTTTAATATGTTT
10742945 TAA
1 TAA
10742948 CCGAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TAATTATTACATATCTTTAATATGTTT
Found at i:10743125 original size:46 final size:46
Alignment explanation
Indices: 10743073--10743208 Score: 182
Period size: 46 Copynumber: 3.0 Consensus size: 46
10743063 GCATGGGATA
* *
10743073 GCATTAAAGGAGCTGCTGAAGCATTAAGGCAAAGCATGCATGGACG
1 GCATTAAATGAGCTGCTGAAGCATTAAAGCAAAGCATGCATGGACG
* * *
10743119 GCATTAAATGATCTGCTGAAGCATTAAAGCAAAACATGCATGGATG
1 GCATTAAATGAGCTGCTGAAGCATTAAAGCAAAGCATGCATGGACG
* * * * *
10743165 ACATTAAATGAGTTGCTGAAGCGTTAAAGAAAAGCATGCTTGGA
1 GCATTAAATGAGCTGCTGAAGCATTAAAGCAAAGCATGCATGGA
10743209 TCAGCAATAA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.22
Consensus pattern (46 bp):
GCATTAAATGAGCTGCTGAAGCATTAAAGCAAAGCATGCATGGACG
Found at i:10747331 original size:19 final size:20
Alignment explanation
Indices: 10747302--10747344 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
10747292 ATTGCTGCAA
*
10747302 CAAACAACACCTTCAAGTAG
1 CAAACAACACCTTCAAGCAG
10747322 CAAA-AACACCTTCAAGCAG
1 CAAACAACACCTTCAAGCAG
10747341 CAAA
1 CAAA
10747345 GAGAGTGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.49, C:0.30, G:0.09, T:0.12
Consensus pattern (20 bp):
CAAACAACACCTTCAAGCAG
Found at i:10757017 original size:6 final size:6
Alignment explanation
Indices: 10757006--10757043 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
10756996 CTGTTAAGTC
10757006 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
10757044 CTACTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:10766810 original size:25 final size:25
Alignment explanation
Indices: 10766763--10766810 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10766753 GTCTAAAAGT
*
10766763 TGTTATATAATATAAATATGTGTAC
1 TGTTATATAATATAAATAGGTGTAC
*
10766788 TGTTATATACAT-TATATAGGTGT
1 TGTTATATA-ATATAAATAGGTGT
10766811 TTATGGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (25 bp):
TGTTATATAATATAAATAGGTGTAC
Found at i:10767400 original size:15 final size:15
Alignment explanation
Indices: 10767380--10767413 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10767370 TCACTGAATT
10767380 GAACTGA-TGATATGC
1 GAACTGATTGA-ATGC
10767395 GAACTGATTGAATGC
1 GAACTGATTGAATGC
10767410 GAAC
1 GAAC
10767414 CACCTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (15 bp):
GAACTGATTGAATGC
Found at i:10769882 original size:31 final size:31
Alignment explanation
Indices: 10769847--10769905 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
10769837 TATAATTTCT
* * *
10769847 TTATTGAATTATTTAAAAATTTTTATTTAAA
1 TTATTGAACTATTCAAAAAATTTTATTTAAA
10769878 TTATTGAACTATTCAAAAAATTTTATTT
1 TTATTGAACTATTCAAAAAATTTTATTT
10769906 GTCATTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (31 bp):
TTATTGAACTATTCAAAAAATTTTATTTAAA
Found at i:10773194 original size:17 final size:16
Alignment explanation
Indices: 10773174--10773216 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10773164 TATAATTTAA
10773174 TAATTTAATAAATTTTT
1 TAATTTAATAAA-TTTT
*
10773191 TAATATAA-AAATTTT
1 TAATTTAATAAATTTT
*
10773206 TATTTTAATAA
1 TAATTTAATAA
10773217 TTTCTTACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATTTAATAAATTTT
Found at i:10773367 original size:22 final size:23
Alignment explanation
Indices: 10773315--10773361 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
10773305 TCTTTTAAAA
10773315 AAATATTTTATAGTATAAAATAT
1 AAATATTTTATAGTATAAAATAT
*
10773338 AAATATTTTA-ATTATATAAATAT
1 AAATATTTTATAGTATA-AAATAT
10773361 A
1 A
10773362 TTATTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATATTTTATAGTATAAAATAT
Found at i:10775114 original size:3 final size:3
Alignment explanation
Indices: 10775106--10775134 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10775096 CAATATTTTT
10775106 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
10775135 TTTGTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:10777750 original size:38 final size:38
Alignment explanation
Indices: 10777699--10777772 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
10777689 AAGTATTACT
* *
10777699 ATAAATATAATAAATGTTTTATTATATTAAAAATAAAA
1 ATAAAAATAATAAATATTTTATTATATTAAAAATAAAA
* *
10777737 ATAAAAATAATAAATATTTTATTGTATTAAATATAA
1 ATAAAAATAATAAATATTTTATTATATTAAAAATAA
10777773 TTTTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (38 bp):
ATAAAAATAATAAATATTTTATTATATTAAAAATAAAA
Found at i:10780622 original size:17 final size:17
Alignment explanation
Indices: 10780569--10780703 Score: 171
Period size: 17 Copynumber: 7.6 Consensus size: 17
10780559 AATCATATCT
*
10780569 TCTAAGATTGTATATCATG
1 TCTAAGATTG--TATCATA
*
10780588 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
10780606 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
10780623 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
10780641 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
10780658 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
* *
10780675 TCTAAGATTCCATATCACA
1 TCTAAGATT--GTATCATA
10780694 TCTAAGATTG
1 TCTAAGATTG
10780704 CATATCATTG
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
17 48 0.46
18 31 0.30
19 25 0.24
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:10780627 original size:35 final size:35
Alignment explanation
Indices: 10780569--10780711 Score: 198
Period size: 35 Copynumber: 4.0 Consensus size: 35
10780559 AATCATATCT
*
10780569 TCTAAGATTGTATATCATGTCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
10780606 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
10780641 TCTAAGATTGTATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
10780675 TCTAAGATTCCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATT--GTATCATATCTAAGATTGCA-ATCAT
10780712 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
34 15 0.15
35 51 0.53
36 16 0.16
37 10 0.10
38 5 0.05
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:10780666 original size:52 final size:54
Alignment explanation
Indices: 10780569--10780711 Score: 218
Period size: 52 Copynumber: 2.7 Consensus size: 54
10780559 AATCATATCT
* *
10780569 TCTAAGATTGTATATCATGTCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
10780623 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
* *
10780675 TCTAAGATTCCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
10780712 TGAAGATTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
52 34 0.43
53 30 0.38
54 11 0.14
55 5 0.06
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:10780718 original size:36 final size:36
Alignment explanation
Indices: 10780562--10780723 Score: 187
Period size: 35 Copynumber: 4.6 Consensus size: 36
10780552 ATTACAAAAT
*
10780562 CATATC-T-TCTAAGATTGTATATCATGTCTAAGATTG
1 CATATCATATCTAAGA-T-TATATCATATCTAAGATTG
*
10780598 CA-ATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTATATCATATCTAAGATTG
*
10780633 CA-ATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTATATCATATCTAAGATTG
*
10780668 --TATCATATCTAAGATTCCATATCACATCTAAGATTG
1 CATATCATATCTAAGATT--ATATCATATCTAAGATTG
*
10780704 CATATCAT-T-GAAGATTATAT
1 CATATCATATCTAAGATTATAT
10780724 TTCCATATGA
Statistics
Matches: 114, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
34 19 0.17
35 55 0.48
36 26 0.23
37 8 0.07
38 6 0.05
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (36 bp):
CATATCATATCTAAGATTATATCATATCTAAGATTG
Found at i:10781570 original size:207 final size:207
Alignment explanation
Indices: 10781102--10782229 Score: 1954
Period size: 207 Copynumber: 5.5 Consensus size: 207
10781092 AAATCTGCTT
*
10781102 CTTCAATTTGTTC-CTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAACA
1 CTTCAATTTGTTCTC-TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
* * * * *
10781166 CGCGAAAGCCAAATCAGCTATGCCTTCGATTTGCTCCTTGTAAGCACAATGATACCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * ** * *
10781231 TGGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
10781295 TGGAGACGCCAAA
195 TGGAGACGCCAAA
*
10781308 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
10781373 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
10781438 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
10781503 GGAGACGCCAAA
196 GGAGACGCCAAA
*
10781515 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTCGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
10781580 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
10781645 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
10781710 GGAGATGCCAAA
196 GGAGACGCCAAA
* *
10781722 CTTTAATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
10781787 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
10781852 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCTTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
10781917 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * *
10781929 CTTCGATTTGTTCTCTGAAAATAAAGAGATGCCATATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
10781994 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
10782059 AGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
10782124 GGAGACGGCAAA
196 GGAGACGCCAAA
*
10782136 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
10782201 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
10782230 CTGCTCTCCG
Statistics
Matches: 879, Mismatches: 41, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
206 126 0.14
207 753 0.86
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (207 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:10782511 original size:87 final size:84
Alignment explanation
Indices: 10782363--10782562 Score: 278
Period size: 87 Copynumber: 2.3 Consensus size: 84
10782353 CTTTAACTTG
*
10782363 TTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAA
10782428 GATCTGCAATTTT-GACCTA
66 GATCTGCAATTTTAG-CCTA
* * * *
10782447 TTACCCTACTGCTTAGGGGATTAAGGTG-AGTCGTCGTTGATCTATTCCACTACTGCTTAGGGAG
1 TTACCCTACTGCTTAGGGGGTTAAGGCGCA-TC-T--TCGATCTACTCCACTACTGCTTAGGGAG
* *
10782511 ATAAGATCTGTAATTTTAGCCTG
62 ATAAGATCTGCAATTTTAGCCTA
10782534 TTACCCTACTGCTTAGGGGGTTAAGGCGC
1 TTACCCTACTGCTTAGGGGGTTAAGGCGC
10782563 TGAATTTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
83 1 0.01
84 28 0.28
85 1 0.01
87 70 0.69
88 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (84 bp):
TTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAA
GATCTGCAATTTTAGCCTA
Found at i:10782551 original size:43 final size:43
Alignment explanation
Indices: 10782409--10782551 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
10782399 ATCTGCTCCA
*
10782409 CTACTGCTTAGGGAGATAAGATCTGCAATTTTGACCTATTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTATTACC
* ** ** * *
10782452 CTACTGCTTAGGG-GATTAAGGTGAGTCGTCGTTGATCTATT-CC
1 CTACTGCTTAGGGAGA-TAAGATCTGTAAT-TTTGACCTATTACC
*
10782495 ACTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGA-CCTATTACC
10782539 CTACTGCTTAGGG
1 CTACTGCTTAGGG
10782552 GGTTAAGGCG
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
42 3 0.04
43 41 0.53
44 32 0.41
45 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTATTACC
Found at i:10783510 original size:7 final size:7
Alignment explanation
Indices: 10783500--10783566 Score: 80
Period size: 7 Copynumber: 8.9 Consensus size: 7
10783490 CCATTTTTAT
10783500 TTTTTTC
1 TTTTTTC
10783507 TTTTTTC
1 TTTTTTC
10783514 TTTTTTC
1 TTTTTTC
10783521 TTTTTCTC
1 TTTTT-TC
10783529 TCTTTTTC
1 T-TTTTTC
*
10783537 TTTTCTTTT
1 -TTT-TTTC
10783546 TTTTTTC
1 TTTTTTC
10783553 TTTTTTTC
1 -TTTTTTC
10783561 TTTTTT
1 TTTTTT
10783567 GAAATAGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
7 28 0.53
8 17 0.32
9 8 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:10783510 original size:8 final size:8
Alignment explanation
Indices: 10783493--10783566 Score: 91
Period size: 8 Copynumber: 9.5 Consensus size: 8
10783483 GGCCACTCCA
*
10783493 TTTTTATT
1 TTTTTCTT
10783501 TTTTTC-T
1 TTTTTCTT
10783508 TTTTTC-T
1 TTTTTCTT
10783515 TTTTTCTT
1 TTTTTCTT
* *
10783523 TTTCTCTC
1 TTTTTCTT
10783531 TTTTTCTT
1 TTTTTCTT
10783539 TTCTTT-TT
1 TT-TTTCTT
10783547 TTTTTCTT
1 TTTTTCTT
10783555 TTTTTCTT
1 TTTTTCTT
10783563 TTTT
1 TTTT
10783567 GAAATAGAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
7 17 0.29
8 38 0.66
9 3 0.05
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTCTT
Found at i:10783565 original size:6 final size:6
Alignment explanation
Indices: 10783501--10783557 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
10783491 CATTTTTATT
*
10783501 TTTTTC TTTTTTC TTTTTTC TTTTTC --TCTC TTTTTC -TTTTC TTTTT-
1 TTTTTC -TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
10783547 TTTTTC TTTTT
1 TTTTTC TTTTT
10783558 TTCTTTTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
4 3 0.07
5 10 0.23
6 18 0.41
7 13 0.30
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:10787571 original size:53 final size:53
Alignment explanation
Indices: 10787500--10787605 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
10787490 TCATCTGTAA
10787500 TGGTAGAAGTGTCCCTCAGTACTCCCCACACTCACCTTGAATTGTTCATCTAT
1 TGGTAGAAGTGTCCCTCAGTACTCCCCACACTCACCTTGAATTGTTCATCTAT
*
10787553 TGGTAGAAGTGTCCCTCAGTACTCCCCACGCTCACCTTGAATTGTTCATCTAT
1 TGGTAGAAGTGTCCCTCAGTACTCCCCACACTCACCTTGAATTGTTCATCTAT
10787606 CTTCATGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (53 bp):
TGGTAGAAGTGTCCCTCAGTACTCCCCACACTCACCTTGAATTGTTCATCTAT
Found at i:10789406 original size:35 final size:35
Alignment explanation
Indices: 10789348--10789465 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
10789338 AATCATATCT
10789348 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
10789385 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
10789420 TCTAAGATTGTATCATATCTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
10789456 TCTAAGATTG
1 TCTAAGATTG
10789466 CATATCATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 53 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:10791980 original size:17 final size:17
Alignment explanation
Indices: 10791953--10791995 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
10791943 GGAAAAATCC
10791953 ATTTAGACTTCACTTGTT
1 ATTT-GACTTCACTTGTT
10791971 ATTTGACTTCACTTGTT
1 ATTTGACTTCACTTGTT
10791988 ATTTGACT
1 ATTTGACT
10791996 CTAAATCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (17 bp):
ATTTGACTTCACTTGTT
Found at i:10792320 original size:12 final size:13
Alignment explanation
Indices: 10792303--10792340 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
10792293 ATCTTGGAAT
10792303 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
10792315 ATTAAGAACATATA
1 ATTAAGAACA-AGA
10792329 ATTAAGAACAAG
1 ATTAAGAACAAG
10792341 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:10794695 original size:22 final size:23
Alignment explanation
Indices: 10794670--10794721 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
10794660 TATAAAACCT
10794670 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
**
10794692 AATAAAAAGTAGTCTTAAATTAA
1 AATAAAAAGTAGTCTTAAAGAAA
10794715 AATAAAA
1 AATAAAA
10794722 GTAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:10800467 original size:12 final size:13
Alignment explanation
Indices: 10800450--10800487 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
10800440 ATCCTGGAAT
10800450 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
10800462 ATTAAGAACACATA
1 ATTAAGAACA-AGA
10800476 ATTAAGAACAAG
1 ATTAAGAACAAG
10800488 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:10803030 original size:13 final size:13
Alignment explanation
Indices: 10803009--10803041 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10802999 ATAATATAAT
10803009 AAAAG-AATAAAA
1 AAAAGAAATAAAA
*
10803021 AAATGAAATAAAA
1 AAAAGAAATAAAA
10803034 AAAAGAAA
1 AAAAGAAA
10803042 GAAAGAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAGAAATAAAA
Found at i:10803090 original size:20 final size:18
Alignment explanation
Indices: 10803065--10803109 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 18
10803055 CACGATTAGT
10803065 AGGGAAAGAAAGAAAGAAAA
1 AGGGAAAGAAA-AAAG-AAA
10803085 AGGGAAAGAAAAAAGAAA
1 AGGGAAAGAAAAAAGAAA
10803103 AGGGAAA
1 AGGGAAA
10803110 ATTTGGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 10 0.40
19 4 0.16
20 11 0.44
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AGGGAAAGAAAAAAGAAA
Found at i:10805023 original size:6 final size:6
Alignment explanation
Indices: 10805014--10805039 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10805004 CCTGACTATG
10805014 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
10805040 CCTACGATGT
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:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:10810346 original size:21 final size:22
Alignment explanation
Indices: 10810320--10810364 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
10810310 TTCAATTTAC
10810320 ACAAAAAGTATCAATA-CTTTT
1 ACAAAAAGTATCAATACCTTTT
*
10810341 ACAAAAATTATCAATACCTTTT
1 ACAAAAAGTATCAATACCTTTT
10810363 AC
1 AC
10810365 CAAGTATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (22 bp):
ACAAAAAGTATCAATACCTTTT
Found at i:10811413 original size:21 final size:22
Alignment explanation
Indices: 10811384--10811425 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
10811374 GATTATGGCG
*
10811384 ATGCTATTTTA-TAAAACATTT
1 ATGCAATTTTATTAAAACATTT
10811405 ATGCAATTTTATTTAAAACAT
1 ATGCAATTTTA-TTAAAACAT
10811426 CCTACTCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (22 bp):
ATGCAATTTTATTAAAACATTT
Found at i:10811566 original size:47 final size:47
Alignment explanation
Indices: 10811512--10811671 Score: 250
Period size: 47 Copynumber: 3.4 Consensus size: 47
10811502 GTCACAATAA
10811512 TGCAGATAAACTGCCACTTAATAATATTGTGGACAATCCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAATCCACCACTTT
* * *
10811559 TGTAGATAAACTGCCACTTAATAAAATTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAATCCACCACTTT
* *
10811606 TGCAGATAAACTGCCACTTTATAATATTGTGGACAAGT-CACGACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAA-TCCACCACTTT
*
10811653 TGCAGATAAACTTCCACTT
1 TGCAGATAAACTGCCACTT
10811672 CTTCCTCTTT
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 103 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (47 bp):
TGCAGATAAACTGCCACTTAATAATATTGTGGACAATCCACCACTTT
Found at i:10811742 original size:20 final size:20
Alignment explanation
Indices: 10811717--10811756 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10811707 ATATGACCAC
**
10811717 AAAAATCACTTTTTCACTTT
1 AAAAATCAAATTTTCACTTT
10811737 AAAAATCAAATTTTCACTTT
1 AAAAATCAAATTTTCACTTT
10811757 GGCATGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAATCAAATTTTCACTTT
Found at i:10818332 original size:19 final size:19
Alignment explanation
Indices: 10818308--10818347 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10818298 TCAGAGAACG
10818308 TCTTACATATTTGAGTACA
1 TCTTACATATTTGAGTACA
10818327 TCTTACATATTTGAGTACA
1 TCTTACATATTTGAGTACA
10818346 TC
1 TC
10818348 ATAAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (19 bp):
TCTTACATATTTGAGTACA
Done.