Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 34 of 290
Found at i:11488200 original size:40 final size:40
Alignment explanation
Indices: 11488030--11488206 Score: 155
Period size: 40 Copynumber: 4.5 Consensus size: 40
11488020 AATGATGTCC
* * * * * *
11488030 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAATCA
* * * * *
11488070 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCAATTGTGCGAGTTACTAAATCA
* *
11488110 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCA
*
11488149 GGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CA
1 GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AATCA
* *
11488189 TGGCTATGTCCCGAAGGC
1 GGGCTAAGTCCCGAAGGC
11488207 GTTTGAACGA
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.30
40 71 0.61
41 10 0.09
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCA
Found at i:11490587 original size:34 final size:34
Alignment explanation
Indices: 11490549--11490616 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
11490539 CATTGAACAA
11490549 AGATAAGCCCTAATTCCAAAAATAACAAAAATTG
1 AGATAAGCCCTAATTCCAAAAATAACAAAAATTG
*
11490583 AGATAGGCCCTAATTCCAAAAATAACAAAAATTG
1 AGATAAGCCCTAATTCCAAAAATAACAAAAATTG
11490617 CTAAGTAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (34 bp):
AGATAAGCCCTAATTCCAAAAATAACAAAAATTG
Found at i:11492081 original size:34 final size:32
Alignment explanation
Indices: 11492030--11492102 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
11492020 GATAATTGTT
11492030 TTTATTTGTTTCCTTTTTAATT-TTATTTTATG
1 TTTATTTGTTTCCTTTTTAATTATT-TTTTATG
* * *
11492062 TTTATGTTTTTTCCATTTTTAGTTATTTTTTATT
1 TTTAT-TTGTTTCC-TTTTTAATTATTTTTTATG
11492096 TTTATTT
1 TTTATTT
11492103 TCTTGTACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 5 0.14
33 9 0.26
34 19 0.54
35 2 0.06
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (32 bp):
TTTATTTGTTTCCTTTTTAATTATTTTTTATG
Found at i:11492318 original size:30 final size:30
Alignment explanation
Indices: 11492284--11492343 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
11492274 AATTTCATCC
*
11492284 AATATTCAGGGCAGTTTCAGTTTTCTCCTT
1 AATATTCAAGGCAGTTTCAGTTTTCTCCTT
11492314 AATATTCAAGGCAGTTTCAGTTTTCTCCTT
1 AATATTCAAGGCAGTTTCAGTTTTCTCCTT
11492344 CTCTTATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (30 bp):
AATATTCAAGGCAGTTTCAGTTTTCTCCTT
Found at i:11492740 original size:15 final size:15
Alignment explanation
Indices: 11492720--11492749 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11492710 GAGATTTTGA
11492720 GCCTTTAGAGCATAC
1 GCCTTTAGAGCATAC
*
11492735 GCCTTTTGAGCATAC
1 GCCTTTAGAGCATAC
11492750 ATTTTTCTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (15 bp):
GCCTTTAGAGCATAC
Found at i:11494060 original size:30 final size:30
Alignment explanation
Indices: 11493975--11494060 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 30
11493965 GGTCATTTTA
* *
11493975 ACACGGGCTGGTCACATGCCCGTGTGATCC
1 ACACGGGCTGGCCACATGCCCATGTGATCC
* * ** *
11494005 ACATGGGTTGGCCACACACCTATGTGATCC
1 ACACGGGCTGGCCACATGCCCATGTGATCC
* *
11494035 TCACGGGCTGGCCAGATGCCCATGTG
1 ACACGGGCTGGCCACATGCCCATGTG
11494061 CCAGCCCTTG
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (30 bp):
ACACGGGCTGGCCACATGCCCATGTGATCC
Found at i:11499026 original size:6 final size:6
Alignment explanation
Indices: 11499008--11499064 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
11498998 AAGAAACATT
* *
11499008 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
11499057 ATCAGA AT
1 ATCAGA AT
11499065 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 3 0.07
6 34 0.81
7 4 0.10
8 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:11499261 original size:27 final size:27
Alignment explanation
Indices: 11499207--11499271 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
11499197 AGTAAGTTAA
* *
11499207 GGCAAAGCCTCCAGAACAGATATTTGT
1 GGCAAAGCCACCAGAACAGATATATGT
*
11499234 GGCATAGCCACCAGAATCAGATA-ATGT
1 GGCAAAGCCACCAGAA-CAGATATATGT
*
11499261 GTCAAAGCCAC
1 GGCAAAGCCAC
11499272 TTAACAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 26 0.81
28 6 0.19
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (27 bp):
GGCAAAGCCACCAGAACAGATATATGT
Found at i:11499435 original size:27 final size:27
Alignment explanation
Indices: 11499395--11499446 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
11499385 GTCGTCAAAA
*
11499395 AAATATGTTAGGCAC-ATAGCCATAGGT
1 AAATACGTTAGGCACGA-AGCCATAGGT
*
11499422 AAATACGTTTGGCACGAAGCCATAG
1 AAATACGTTAGGCACGAAGCCATAG
11499447 TCAAGATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (27 bp):
AAATACGTTAGGCACGAAGCCATAGGT
Found at i:11499894 original size:27 final size:27
Alignment explanation
Indices: 11499836--11500652 Score: 812
Period size: 27 Copynumber: 30.3 Consensus size: 27
11499826 GGGACAAAAT
* * * *
11499836 GGTAATTTTACCCCATAAGGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
*
11499863 GGTAATTCTACCCTACAGGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11499890 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11499917 GGTAATTCTACCCTACAGGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
11499944 AGTAATTCTACCCTACAGGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
11499971 AGTATTTCTACCCTACAAGGGTATATA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
11499998 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
11500025 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500052 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *** ****
11500079 GATAATTTTGCCCTGTTCTA-CCCTACAGG
1 GGTAATTCTACCC--TAC-AGGGGTATTTC
***
11500108 GGT-ATT-T-TGGTA-A----T-TTTGC
1 GGTAATTCTACCCTACAGGGGTATTT-C
** *
11500127 CCT-GTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
11500153 GATAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500180 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
11500207 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500234 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500261 GGTAATTTTACCCTATAGGCTATAGGGGTATTTC
1 GGTAATTCTACCC--TA--C---AGGGGTATTTC
* *
11500295 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
11500322 GGTATTTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500349 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
11500376 GATAGTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500403 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
11500430 GGTAATTCTACCATACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
11500457 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500484 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500511 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
11500538 GATAATTCTACCCTATAGGGGTAATCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
11500565 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
11500592 GATAATTCTACCCTATAGGGGTAATCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
11500619 GGTAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
11500646 GGTAATT
1 GGTAATT
11500653 TTGTAAATCG
Statistics
Matches: 654, Mismatches: 115, Indels: 42
0.81 0.14 0.05
Matches are distributed among these distances:
19 4 0.01
20 1 0.00
21 2 0.00
22 2 0.00
24 1 0.00
26 5 0.01
27 602 0.92
28 3 0.00
29 8 0.01
30 2 0.00
32 2 0.00
34 22 0.03
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:11500107 original size:37 final size:37
Alignment explanation
Indices: 11500057--11500159 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
11500047 ATTCCGATAA
11500057 TTCTACCCTACAGGGGTATTTCGATAATTTTGCCCTG
1 TTCTACCCTACAGGGGTATTTCGATAATTTTGCCCTG
* *
11500094 TTCTACCCTACAGGGGTATTTTGGTAATTTTGCCCTG
1 TTCTACCCTACAGGGGTATTTCGATAATTTTGCCCTG
11500131 TTCTACCCTACAGGGGTATTTCGATAATT
1 TTCTACCCTACAGGGGTATTTCGATAATT
11500160 CTACTCTACA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (37 bp):
TTCTACCCTACAGGGGTATTTCGATAATTTTGCCCTG
Found at i:11500722 original size:27 final size:26
Alignment explanation
Indices: 11500692--11500977 Score: 198
Period size: 27 Copynumber: 10.6 Consensus size: 26
11500682 GTAAATCAAT
* *
11500692 GGTACTTTGATAATTTTACAAGTCGAG
1 GGTATTTTGATAATTTTACAA-ACGAG
** **
11500719 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTTGATAATTTTACA-AACGAG
* *
11500746 GGTATTTT-AGTAATTTCACAAACCAG
1 GGTATTTTGA-TAATTTTACAAACGAG
* *
11500772 GGATATTTTGGTAATTTTACAAACTAGG
1 GG-TATTTTGATAATTTTACAAACGA-G
*
11500800 GGTATTTTGATAATTTTACAAACAAGG
1 GGTATTTTGATAATTTTACAAACGA-G
* *
11500827 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGATAATTTTACAAACGA-G
* ** * *
11500854 GGTATTTTGGTAATTTTGTAAACCAAT
1 GGTATTTTGATAATTTTACAAA-CGAG
* * *
11500881 GGTGTTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGATAATTTTACAAACGA-G
* * * *
11500908 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGATAATTTTACAAA-CGAG
* *
11500935 GGTATTTT-AGTGATTTTACAAACCAAG
1 GGTATTTTGA-TAATTTTACAAA-CGAG
*
11500962 GGTATTTTGGTAATTT
1 GGTATTTTGATAATTT
11500978 GGTAAACTAA
Statistics
Matches: 216, Mismatches: 33, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
26 8 0.04
27 201 0.93
28 7 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
GGTATTTTGATAATTTTACAAACGAG
Found at i:11500787 original size:81 final size:81
Alignment explanation
Indices: 11500697--11500968 Score: 235
Period size: 81 Copynumber: 3.4 Consensus size: 81
11500687 TCAATGGTAC
* * ** *
11500697 TTTGATAATTTTACAAGTCGA-GGGTATTTCAATAATTTTACAGGTCGA-GGGTATTTTAGTAAT
1 TTTGGTAATTTTACAA-ACGAGGGGTATTTCAATAATTTTACA-AACAAGGGGTATTTTAGTAAT
11500760 TTCACAAACCAGGGATAT
64 TTCACAAACCAGGGATAT
* ** *
11500778 TTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACAAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACGAGGGGTATTTCAATAATTTTACAAACAAGGGGTATTTTAGTAATTT
* *
11500843 TACAAACCAGGGGTAT
66 CACAAACCAGGGATAT
** * ** * *** * * *
11500859 TTTGGTAATTTTGTAAACCAATGGTGTTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTT
1 TTTGGTAATTTTACAAACGAGGGGTATTTCAATAATTTTACAAACAAGGGGTATTTTAGTAATTT
* *
11500924 TATAAACCAAGGG-TAT
66 CACAAACC-AGGGATAT
* * * *
11500940 TTTAGTGATTTTACAAACCAAGGGTATTT
1 TTTGGTAATTTTACAAACGAGGGGTATTT
11500969 TGGTAATTTG
Statistics
Matches: 161, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.02
81 153 0.95
82 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
TTTGGTAATTTTACAAACGAGGGGTATTTCAATAATTTTACAAACAAGGGGTATTTTAGTAATTT
CACAAACCAGGGATAT
Found at i:11500984 original size:27 final size:27
Alignment explanation
Indices: 11500744--11500977 Score: 292
Period size: 27 Copynumber: 8.7 Consensus size: 27
11500734 TTACAGGTCG
* *
11500744 AGGGTATTTTAGTAATTTCACAAACC-
1 AGGGTATTTTGGTAATTTTACAAACCA
*
11500770 AGGGATATTTTGGTAATTTTACAAACTA
1 AGGG-TATTTTGGTAATTTTACAAACCA
* *
11500798 GGGGTATTTTGATAATTTTACAAA-CA
1 AGGGTATTTTGGTAATTTTACAAACCA
11500824 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTTGGTAATTTTACAAACCA
* **
11500852 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
11500879 ATGGTGTTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
11500906 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
11500933 AGGGTATTTTAGTGATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
11500960 AGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
11500978 GGTAAACTAA
Statistics
Matches: 176, Mismatches: 28, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.03
27 166 0.94
28 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:11502449 original size:24 final size:24
Alignment explanation
Indices: 11502420--11502472 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
11502410 TATCATTATT
11502420 GAAGAACACAACATATCACTGGTA
1 GAAGAACACAACATATCACTGGTA
*
11502444 GAAGAACACAACATATCACTTGTA
1 GAAGAACACAACATATCACTGGTA
11502468 GAAGA
1 GAAGA
11502473 CACTAGTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (24 bp):
GAAGAACACAACATATCACTGGTA
Found at i:11509822 original size:18 final size:17
Alignment explanation
Indices: 11509782--11509834 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
11509772 TCGAAAGACA
* *
11509782 TTATTATGAGT-TAAAG
1 TTATTATGATTGTGAAG
*
11509798 TTGTTATGATTGATGAAG
1 TTATTATGATTG-TGAAG
*
11509816 TTATTATGCTTGTGAAG
1 TTATTATGATTGTGAAG
11509833 TT
1 TT
11509835 TGAATGGTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 9 0.30
17 7 0.23
18 14 0.47
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (17 bp):
TTATTATGATTGTGAAG
Found at i:11509833 original size:17 final size:18
Alignment explanation
Indices: 11509795--11509834 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11509785 TTATGAGTTA
*
11509795 AAGTTGTTATGATTGATG
1 AAGTTATTATGATTGATG
*
11509813 AAGTTATTATGCTTG-TG
1 AAGTTATTATGATTGATG
11509830 AAGTT
1 AAGTT
11509835 TGAATGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.45
Consensus pattern (18 bp):
AAGTTATTATGATTGATG
Found at i:11523489 original size:27 final size:26
Alignment explanation
Indices: 11523458--11523635 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 26
11523448 TAAATTGTAC
11523458 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
11523485 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
11523511 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
11523539 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
*
11523567 AGCACTAAGTGTGCGATTTGA-TTTCGT
1 AGCACTAAGTGTGCGA-TTGACTAT-GT
* * *
11523594 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
11523621 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11523636 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
26 3 0.02
27 95 0.76
28 27 0.22
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:11523519 original size:54 final size:54
Alignment explanation
Indices: 11523458--11523635 Score: 184
Period size: 54 Copynumber: 3.3 Consensus size: 54
11523448 TAAATTGTAC
*
11523458 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-GACTATGTGGCACTAAGTGTGCGAAATGAATATGAT
* * ** *
11523513 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATGTGGCACTAAGTGTGCGA-AATGAATATGAT
* ** *
11523567 AGCACTAAGTGTGCGATTTGA-TTTCGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTGACTAT-GTGGCACTAAGTGTGCGAAATGAATATGAT
*
11523621 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11523636 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
54 59 0.57
55 45 0.43
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT
Found at i:11523626 original size:82 final size:81
Alignment explanation
Indices: 11523455--11523635 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
11523445 GATTAAATTG
* *
11523455 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
11523520 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
11523536 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTG-ATTTCG-TGGCAC
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATAT-GAT-GCAC
* **
11523599 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
11523618 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
11523636 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:11525986 original size:8 final size:8
Alignment explanation
Indices: 11525975--11526003 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11525965 TGAAGTGATC
11525975 AAGTGGTT
1 AAGTGGTT
11525983 AAGTGGTT
1 AAGTGGTT
11525991 AAGTGGTT
1 AAGTGGTT
11525999 AAGTG
1 AAGTG
11526004 CTTCTATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (8 bp):
AAGTGGTT
Found at i:11528641 original size:69 final size:70
Alignment explanation
Indices: 11528560--11528752 Score: 230
Period size: 71 Copynumber: 2.8 Consensus size: 70
11528550 AATTGATAAG
* * * * *
11528560 TTGTTATATTAAAAATGTCTTCATTTACGTTCGA-TTTAAATGCTTAATGTGTTGCTGTAAAGTG
1 TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGG
11528624 CTAAT
66 CTAAT
* ** *
11528629 TTGTTATCTTAAAAAAATGTGTTCACTCGCGTT-AATTTTAGATGCTTAATGTGCTGCTGTAAAG
1 TTGTTATCTT--AAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAG
*
11528693 GGCTGAT
64 GGCTAAT
* * *
11528700 TTGTTGTCTTGAAAATGTGTTCATTTACG-TCCATTTTAAATGCTTAATGTGCT
1 TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCT
11528753 TTCTAGAAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
68 1 0.01
69 44 0.43
70 1 0.01
71 57 0.55
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (70 bp):
TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGG
CTAAT
Found at i:11537565 original size:7 final size:7
Alignment explanation
Indices: 11537553--11537581 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
11537543 TGCCCCCGTC
11537553 ACCCTCT
1 ACCCTCT
11537560 ACCCTCT
1 ACCCTCT
11537567 ACCCTCT
1 ACCCTCT
11537574 ACCCTCT
1 ACCCTCT
11537581 A
1 A
11537582 AACCTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.55, G:0.00, T:0.28
Consensus pattern (7 bp):
ACCCTCT
Found at i:11539493 original size:27 final size:26
Alignment explanation
Indices: 11539423--11539486 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
11539413 TACATCAATA
*
11539423 AGGGGTATATCAGTC-TTTTACCTCAT
1 AGGGGTATAAC-GTCATTTTACCTCAT
* * *
11539449 AGGGTTATAATGTCATTTTACCTCTT
1 AGGGGTATAACGTCATTTTACCTCAT
11539475 AGGGGTATAACG
1 AGGGGTATAACG
11539487 ATTATTTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (26 bp):
AGGGGTATAACGTCATTTTACCTCAT
Found at i:11544320 original size:46 final size:46
Alignment explanation
Indices: 11544247--11544503 Score: 215
Period size: 46 Copynumber: 5.5 Consensus size: 46
11544237 GTGTCAATGC
* *
11544247 CATGTCCCTGACATGATCTTACTCTGACTATCATCTCGTAGCTGACG
1 CATGTCCCAGACATG-TCTTACACTGACTATCATCTCGTAGCTGACG
* * *
11544294 CATGTTCCAGACATGTCTTACACTGACTATCATCTCATAGCCGACG
1 CATGTCCCAGACATGTCTTACACTGACTATCATCTCGTAGCTGACG
* * *
11544340 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCG-AGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGTAGCT-GACG
* * * *
11544386 CATGTCCCAGACATGTCTTACA-TTAGC-ACTCGTCTC-AATGCCGATAC-
1 CATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGTA-GCTG--ACG
* * * *
11544433 CATGTCCCAGACATGGTCTTACACTGACTTTCATGAT-GT-GTCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCGTAG-CTGACG
11544480 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
11544504 AGCTCACATA
Statistics
Matches: 171, Mismatches: 23, Indels: 33
0.75 0.10 0.15
Matches are distributed among these distances:
45 4 0.02
46 104 0.61
47 44 0.26
48 16 0.09
49 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGTAGCTGACG
Found at i:11544524 original size:94 final size:91
Alignment explanation
Indices: 11544246--11544505 Score: 241
Period size: 92 Copynumber: 2.8 Consensus size: 91
11544236 GGTGTCAATG
* * * * *
11544246 CCATGTCCCTGACATGATCTTACTCTGAC-TATCATCTCGTAGCT-GACGCATGTTCCAGACATG
1 CCATGTCCCAGACATG-TCTTACACTGACTTA-CA-CTCG-AGGTCGATGCATGTCCCAGACATG
11544309 TCTTACACT-GACTATC-ATCTC-ATAGCCG--A
62 TCTTACACTAGAC--TCGA-CTCAAT-GCCGATA
*
11544338 CGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTCGATGCATGTCCCAGACATGTC
1 C-CATGTCCCAGACATGTCTTACACTGACTTACA-CTCGAGGTCGATGCATGTCCCAGACATGTC
* *
11544403 TTACATTAGCACTCGTCTCAATGCCGATA
64 TTACACTAG-ACTCGACTCAATGCCGATA
*
11544432 CCATGTCCCAGACATGGTCTTACACTGACTTTCA-T-GATGTGTCCGATGCATGTCCCAGACATG
1 CCATGTCCCAGACAT-GTCTTACACTGACTTACACTCGA-G-GT-CGATGCATGTCCCAGACATG
11544495 TCTTACACTAG
62 TCTTACACTAG
11544506 CTCACATAAG
Statistics
Matches: 144, Mismatches: 11, Indels: 24
0.80 0.06 0.13
Matches are distributed among these distances:
91 5 0.03
92 54 0.38
93 35 0.24
94 50 0.35
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (91 bp):
CCATGTCCCAGACATGTCTTACACTGACTTACACTCGAGGTCGATGCATGTCCCAGACATGTCTT
ACACTAGACTCGACTCAATGCCGATA
Found at i:11549211 original size:55 final size:55
Alignment explanation
Indices: 11549099--11549211 Score: 122
Period size: 55 Copynumber: 2.1 Consensus size: 55
11549089 CGTGGGCAAC
* * * *
11549099 ACTGACTTTTGAACACGGCTATGACACATGCCCATGCTGCCTGTCCATGTTCAAT
1 ACTGACTTTGGAACACGGCTATGACACACGCCCATGCTGCCTATCCATGTCCAAT
* * * *
11549154 ACTGACTTTGGGACACGGCTATGAGACACG-CC-TGTTTGACCTATCCATGTCCTAT
1 ACTGACTTTGGAACACGGCTATGACACACGCCCATG-CTG-CCTATCCATGTCCAAT
11549209 ACT
1 ACT
11549212 AACTCAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 2 0.04
54 4 0.08
55 42 0.88
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (55 bp):
ACTGACTTTGGAACACGGCTATGACACACGCCCATGCTGCCTATCCATGTCCAAT
Found at i:11549897 original size:26 final size:26
Alignment explanation
Indices: 11549861--11549910 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
11549851 GCTTAGTAAG
11549861 TCCATATGAAAATAATAAGCATTAAT
1 TCCATATGAAAATAATAAGCATTAAT
11549887 TCCATATGAAAATAATAAGCATTA
1 TCCATATGAAAATAATAAGCATTA
11549911 TAATAGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (26 bp):
TCCATATGAAAATAATAAGCATTAAT
Found at i:11552634 original size:46 final size:45
Alignment explanation
Indices: 11552440--11552709 Score: 131
Period size: 46 Copynumber: 5.8 Consensus size: 45
11552430 CATAGCATAT
* * * *
11552440 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATC
1 AATGTCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTC-TCTCTC
* * * ** * *
11552488 AA-GTCGATGCCATGTCCCAGGCATGGTCTTACACT-GACACAGTTTG
1 AATGTCGATG-CATGTCCTAGACAT-GTCTTACACTAG-CTCTCTCTC
* * * *
11552534 TA-GCCGATGCATGT-TTCAGAGATGTCTTACACTAGCT-TACATCTC
1 AATGTCGATGCATGTCCT-AGACATGTCTTACACTAGCTCT-C-TCTC
* * * *
11552579 GAGGCCGATGCATATCCTAGACATGTCTTACACTAGCTCTCGTCTC
1 AATGTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTC-TCTC
* * * *
11552625 AATGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-TAT-
1 AATGTCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCTCTC
* *
11552670 AATGTGGCCGATGTATGTCCTAGACATGTCTTACATTAGC
1 AATGT---CGATGCATGTCCTAGACATGTCTTACACTAGC
11552710 ACACAAATGA
Statistics
Matches: 173, Mismatches: 36, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
44 11 0.06
45 18 0.10
46 65 0.38
47 57 0.33
48 22 0.13
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (45 bp):
AATGTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCTCTC
Found at i:11559659 original size:46 final size:46
Alignment explanation
Indices: 11559459--11559772 Score: 221
Period size: 46 Copynumber: 6.7 Consensus size: 46
11559449 GTATAATGCT
* * * *
11559459 GATGCTATGTCCCAGACATGGTCTTACACTGGTTCATC-TATC-AAGTC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCTC-TCATATCGAGGCC
* * * * *
11559506 GATGCCATGTCCCAAACATGATCTCACGCTAACTCTCACATATCTG-TGCC
1 GATG-CATGTCCCAGACATG-TCTTACACTAGCTCT--CATATC-GAGGCC
* * * * * *
11559556 GATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATGTTGTA-TCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATCG-AGGCC
*
11559602 AATGCATGTCCCAGACATGTCTTACACTAGCT-TCCATATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATATCGAGGCC
* * * *
11559648 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCGAGGCC
* * *
11559694 GATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-ATCGAGGCC
*
11559742 AATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
11559773 ACACAAATGA
Statistics
Matches: 211, Mismatches: 38, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
44 10 0.05
45 16 0.08
46 72 0.34
47 54 0.26
48 25 0.12
49 5 0.02
50 28 0.13
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCGAGGCC
Found at i:11560624 original size:29 final size:28
Alignment explanation
Indices: 11560536--11560661 Score: 94
Period size: 29 Copynumber: 4.4 Consensus size: 28
11560526 GGTTACCGTC
* *
11560536 CCTTTTCATATTCAATAGTCAAAACC-AT
1 CCTTTTCATAATCAATAG-CCAAACCTAT
* * * *
11560564 CGCTTTTCATTAATCGATGGTCATCACC-AT
1 C-CTTTTCA-TAATCAATAGCCA-AACCTAT
*
11560594 CCATTTTCATAATCAATAGCTAAACCTAT
1 CC-TTTTCATAATCAATAGCCAAACCTAT
* * *
11560623 CCTTTTCATATTCAATAGCCGAAGCTAT
1 CCTTTTCATAATCAATAGCCAAACCTAT
11560651 CCCTTTTCATA
1 -CCTTTTCATA
11560662 TTCGATGGTT
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
28 26 0.34
29 32 0.42
30 19 0.25
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (28 bp):
CCTTTTCATAATCAATAGCCAAACCTAT
Found at i:11562668 original size:47 final size:47
Alignment explanation
Indices: 11562600--11562771 Score: 221
Period size: 47 Copynumber: 3.7 Consensus size: 47
11562590 TGTGTGAGCT
11562600 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAAAGCC
* * *
11562646 AGTGTAAGACCATGTCTGGGACATGGCATCGG---TATTGA-GACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATT-ATGA--A-AGCC
11562694 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAAAGCC
11562740 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGG
11562772 TATTGAGACG
Statistics
Matches: 108, Mismatches: 6, Indels: 22
0.79 0.04 0.16
Matches are distributed among these distances:
45 5 0.05
46 28 0.26
47 44 0.41
48 26 0.24
49 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAAAGCC
Found at i:11562745 original size:46 final size:45
Alignment explanation
Indices: 11562596--11562910 Score: 239
Period size: 46 Copynumber: 6.7 Consensus size: 45
11562586 CACTTGTGTG
11562596 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAA
* *
11562642 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--TATTGA-GACGA
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA--A
*
11562689 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAA
* *
11562736 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--TATTGA-GACGA
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA--A
* * *** *
11562783 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGGGATGTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAA
* * * ** * *
11562830 AGCTAGTGTAAGATATGTCTGAGACATGCGTCGG-CTGTGAGATGAT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCAT--TATGAA
*
11562876 AGTTAGTGTAAGATCATGTCTGGGACATGGCATCG
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
11562911 ACACCTTACC
Statistics
Matches: 216, Mismatches: 29, Indels: 46
0.74 0.10 0.16
Matches are distributed among these distances:
44 1 0.00
45 11 0.05
46 84 0.39
47 71 0.33
48 43 0.20
49 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAA
Found at i:11562758 original size:94 final size:94
Alignment explanation
Indices: 11562597--11562910 Score: 447
Period size: 94 Copynumber: 3.3 Consensus size: 94
11562587 ACTTGTGTGA
11562597 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATGTC
11562662 TGGGACATGGCATCGGTATTGAGACGAGT
66 TGGGACATGGCATCGGTATTGAGACGAGT
11562691 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATGTC
11562756 TGGGACATGGCATCGGTATTGAGACGAGT
66 TGGGACATGGCATCGGTATTGAGACGAGT
* * *** * * *
11562785 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGGGATGTAAGCTAGTGTAAGA-TATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATGTC
* * * *
11562849 TGAGACAT-GCGTCGGCT-GTGAGATGA-T
66 TGGGACATGGCATCGG-TATTGAGACGAGT
*
11562876 AGTTAGTGTAAGATCATGTCTGGGACATGGCATCG
1 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
11562911 ACACCTTACC
Statistics
Matches: 202, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
91 1 0.00
92 24 0.12
93 26 0.13
94 151 0.75
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGTATTGAGACGAGT
Found at i:11571883 original size:26 final size:26
Alignment explanation
Indices: 11571853--11571912 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
11571843 AAAGCGCCTG
11571853 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* ** * *
11571879 AGAGCCTTTAATCGGGAAGCTTACGA
1 AGAGCCATTAATCAAGAAGCTCACAA
11571905 AGAGCCAT
1 AGAGCCAT
11571913 ATATCGAGAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:11572985 original size:16 final size:13
Alignment explanation
Indices: 11572951--11572978 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11572941 TTTTATTTTA
11572951 TTATTTATCATCT
1 TTATTTATCATCT
11572964 TTATTTATCATCT
1 TTATTTATCATCT
11572977 TT
1 TT
11572979 TCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:11575007 original size:40 final size:41
Alignment explanation
Indices: 11574963--11575039 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
11574953 TCGCAACTGC
*
11574963 TTGACCTTTTACGGCATTTTT-TAATAAATGCCACTAATGA
1 TTGACCTTTTACGGCATTTTTATAATAAACGCCACTAATGA
* ** *
11575003 TTGACCTTTTGCGGTGTTTTTATCATAAACGCCACTA
1 TTGACCTTTTACGGCATTTTTATAATAAACGCCACTA
11575040 TAGCTCTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 18 0.58
41 13 0.42
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (41 bp):
TTGACCTTTTACGGCATTTTTATAATAAACGCCACTAATGA
Found at i:11586989 original size:70 final size:70
Alignment explanation
Indices: 11586848--11587436 Score: 513
Period size: 70 Copynumber: 8.4 Consensus size: 70
11586838 TTAGCACGAA
* * * * * ** *
11586848 CTCAAGCTCCTAGCTTTGATTTTAAGGTTCATAGGTTCAACA-TGCAGCCTCCAAAATAGTTAGC
1 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCTCCAAAATAGTTAGC
*
11586912 ATGAG
66 GTGAG
* * * * *
11586917 CTCAAGCTTCCAACTGTGATCTTAAGGCTCGCAGGTTGAACACCACAACCTCCAAAATAGTTAGT
1 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCTCCAAAATAGTTAGC
*
11586982 GTTAG
66 GTGAG
* ** * * * * * *
11586987 CTCAAGCTCCTAGTTGTGATTTTATGGCGCACAGGTTCAACATCGTAGCCTCCAAAATAGTTAGC
1 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCTCCAAAATAGTTAGC
*
11587052 GCGAG
66 GTGAG
* ** ** *
11587057 CTCAAGCACCCAGA-TGTGATCTTAAGGCTCATAGGTTCAACATTGTAGCCTCTC-AAATAGTTA
1 CTCAAGCTCCCA-ACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCTC-CAAAATAGTTA
*
11587120 GCATGAG
64 GCGTGAG
* * *** *
11587127 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGTATGTTCAACTTTGCAG-CTAACAAAATAGTTAG
1 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCT-CCAAAATAGTTAG
*
11587191 CATGAG
65 CGTGAG
* * * * * * * * * *
11587197 TTCAAACTCCCAACTGTGATCTTAAGGCTTGCAGGTTTAACAGCACAGCCTTCTAAACAGTTAGT
1 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCTCCAAAATAGTTAGC
*
11587262 GTAAG
66 GTGAG
** ** * * *
11587267 CTCAAGCTCCCAGTTGTGATCTTAAGGCTTACAAGTTCAACACTGCAGCCTCCAAAATAGTTAAC
1 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCTCCAAAATAGTTAGC
*
11587332 GCGAG
66 GTGAG
* * * * ** *
11587337 GTCAAACTCCCAGCTGTGATCTTAAGGCTCGCAAGTTCAACACCATAGCCTCCTAAATAGTTAGC
1 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCTCCAAAATAGTTAGC
11587402 -TAGAG
66 GT-GAG
*
11587407 CTCAAACTCCCAACTGTGATCTTAAGGCTC
1 CTCAAGCTCCCAACTGTGATCTTAAGGCTC
11587437 ACAAGCTCAA
Statistics
Matches: 419, Mismatches: 93, Indels: 15
0.80 0.18 0.03
Matches are distributed among these distances:
69 37 0.09
70 379 0.90
71 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (70 bp):
CTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCGCAGCCTCCAAAATAGTTAGC
GTGAG
Found at i:11587093 original size:140 final size:140
Alignment explanation
Indices: 11586848--11587439 Score: 586
Period size: 140 Copynumber: 4.2 Consensus size: 140
11586838 TTAGCACGAA
* * * *
11586848 CTCAAGCTCCTAGCTT-TGATTTTAAGGTTCATAGGTTCAACAT-GCAGCCTCCAAAATAGTTAG
1 CTCAAGCTCCCAG-TTGTGATCTTAAGGCTCACAGGTTCAACATCGCAGCCTCCAAAATAGTTAG
* * * * * *
11586911 CATGAGCTCAAGCTTCCAACTGTGATCTTAAGGCTCGCAGGTTGAACACCACAACCTCCAAAATA
65 CACGAGCTCAAACTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCACAGCCTCCTAAATA
*
11586976 GTTAGTGTTAG
130 GTTAGTGTAAG
* * * * *
11586987 CTCAAGCTCCTAGTTGTGATTTTATGGCGCACAGGTTCAACATCGTAGCCTCCAAAATAGTTAGC
1 CTCAAGCTCCCAGTTGTGATCTTAAGGCTCACAGGTTCAACATCGCAGCCTCCAAAATAGTTAGC
* * * ** ****
11587052 GCGAGCTCAAGCACCCAGA-TGTGATCTTAAGGCTCATAGGTTCAACATTGTAGCCT-CTCAAAT
66 ACGAGCTCAAACTCCCA-ACTGTGATCTTAAGGCTCGCAGGTTCAACACCACAGCCTCCT-AAAT
** *
11587115 AGTTAGCATGAG
129 AGTTAGTGTAAG
** ** * * * *
11587127 CTCAAGCTCCCAACTGTGATCTTAAGGCTCGTATGTTCAACTTTGCAG-CTAACAAAATAGTTAG
1 CTCAAGCTCCCAGTTGTGATCTTAAGGCTCACAGGTTCAACATCGCAGCCT-CCAAAATAGTTAG
* * * * * * *
11587191 CATGAGTTCAAACTCCCAACTGTGATCTTAAGGCTTGCAGGTTTAACAGCACAGCCTTCTAAACA
65 CACGAGCTCAAACTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCACAGCCTCCTAAATA
11587256 GTTAGTGTAAG
130 GTTAGTGTAAG
* * *
11587267 CTCAAGCTCCCAGTTGTGATCTTAAGGCTTACAAGTTCAACA-CTGCAGCCTCCAAAATAGTTAA
1 CTCAAGCTCCCAGTTGTGATCTTAAGGCTCACAGGTTCAACATC-GCAGCCTCCAAAATAGTTAG
* * * * *
11587331 CGCGAGGTCAAACTCCCAGCTGTGATCTTAAGGCTCGCAAGTTCAACACCATAGCCTCCTAAATA
65 CACGAGCTCAAACTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCACAGCCTCCTAAATA
*
11587396 GTTAG-CTAGAG
130 GTTAGTGTA-AG
* **
11587407 CTCAAACTCCCAACTGTGATCTTAAGGCTCACA
1 CTCAAGCTCCCAGTTGTGATCTTAAGGCTCACA
11587440 AGCTCAAAAA
Statistics
Matches: 366, Mismatches: 77, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
138 2 0.01
139 42 0.11
140 317 0.87
141 5 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (140 bp):
CTCAAGCTCCCAGTTGTGATCTTAAGGCTCACAGGTTCAACATCGCAGCCTCCAAAATAGTTAGC
ACGAGCTCAAACTCCCAACTGTGATCTTAAGGCTCGCAGGTTCAACACCACAGCCTCCTAAATAG
TTAGTGTAAG
Found at i:11587187 original size:210 final size:209
Alignment explanation
Indices: 11586826--11587439 Score: 631
Period size: 210 Copynumber: 2.9 Consensus size: 209
11586816 TTTATATGAT
* * * * * * * *
11586826 CCTCCAAAGCAGTTAGCACGAACTCAAGCTCCTAGCTTTGATTTTAAGGTTCATAGGTTCAACAT
1 CCTCCAAAACAGTTAGCGCGAGCTCAAGCTCCCAGATGTGATCTTAAGGCTCATAGGTTCAACAT
* * *
11586891 GCAGCCTCCAAAATAGTTAGCATGAGCTCAAGCTTCCAACTGTGATCTTAAGGCTCGCAGGTTGA
66 GCAGCCTCCAAAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTTCA
* ** * * * ** * *
11586956 ACACCACAACCTCCAAAATAGTTAGTGTTAGCTCAAGCTCCTAGTTGTGATTTTATGGCGCACAG
131 ACACCACAACCTACAAAATAGTTAGCATGAGCTCAAACTCCCAACTGTGATCTTAAGGCGCACAG
* **
11587021 GTTCAACATCGTAG
196 GTTCAACAGCACAG
* *
11587035 CCTCCAAAATAGTTAGCGCGAGCTCAAGCACCCAGATGTGATCTTAAGGCTCATAGGTTCAACAT
1 CCTCCAAAACAGTTAGCGCGAGCTCAAGCTCCCAGATGTGATCTTAAGGCTCATAGGTTCAACA-
* * *
11587100 TGTAGCCTCTC-AAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGTATGTT
65 TGCAGCCTC-CAAAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTT
**** * * ***
11587164 CAACTTTGC-AGCTAACAAAATAGTTAGCATGAGTTCAAACTCCCAACTGTGATCTTAAGGCTTG
129 CAACACCACAACCT-ACAAAATAGTTAGCATGAGCTCAAACTCCCAACTGTGATCTTAAGGCGCA
*
11587228 CAGGTTTAACAGCACAG
193 CAGGTTCAACAGCACAG
* * * ** * * * *
11587245 CCTTCTAAACAGTTAGTGTAAGCTCAAGCTCCCAGTTGTGATCTTAAGGCTTACAAGTTCAACAC
1 CCTCCAAAACAGTTAGCGCGAGCTCAAGCTCCCAGATGTGATCTTAAGGCTCATAGGTTCAACA-
* ** * * *
11587310 TGCAGCCTCCAAAATAGTTAACGCGAGGTCAAACTCCCAGCTGTGATCTTAAGGCTCGCAAGTTC
65 TGCAGCCTCCAAAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTTC
* * * * *
11587375 AACACCATAGCCTCCTAAATAGTTAGC-TAGAGCTCAAACTCCCAACTGTGATCTTAAGGCTCAC
130 AACACCACAACCTACAAAATAGTTAGCAT-GAGCTCAAACTCCCAACTGTGATCTTAAGGCGCAC
11587439 A
194 A
11587440 AGCTCAAAAA
Statistics
Matches: 328, Mismatches: 71, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
209 59 0.18
210 266 0.81
211 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (209 bp):
CCTCCAAAACAGTTAGCGCGAGCTCAAGCTCCCAGATGTGATCTTAAGGCTCATAGGTTCAACAT
GCAGCCTCCAAAATAGTTAGCATGAGCTCAAGCTCCCAACTGTGATCTTAAGGCTCGCAAGTTCA
ACACCACAACCTACAAAATAGTTAGCATGAGCTCAAACTCCCAACTGTGATCTTAAGGCGCACAG
GTTCAACAGCACAG
Found at i:11591019 original size:39 final size:39
Alignment explanation
Indices: 11590976--11591349 Score: 448
Period size: 39 Copynumber: 9.6 Consensus size: 39
11590966 CATATTCACT
* * *
11590976 TTTAAGCATATATCACATTACACATGTAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
11591015 TTTAAACA-ATGTCACAATACTCATATAATCACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
11591053 TTTAAGCATA-ATTTACAGTCCTCATATAATCACATAACA
1 TTTAAGCATATA-TCACAATACTCATATAATCACATAACA
* * * *
11591092 TTTAAGCATATATCATAGTGCTCATATAATCATATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * **
11591131 TTTAATCATATA-CTATAATACTCATATAATCACATAATG
1 TTTAAGCATATATC-ACAATACTCATATAATCACATAACA
* * **
11591170 TTTAAGCATATGTCACAATACTCATATAGTCACATAATG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
11591209 TTTAAGAATATATCACAAAACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * **
11591248 TTTAAGCATATATCACAATACTCATATAATAACAAAATG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
11591287 TTTAAGCTTATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
11591326 TTAAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
11591350 AAGACATATT
Statistics
Matches: 285, Mismatches: 45, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
38 33 0.12
39 250 0.88
40 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:11591126 original size:8 final size:8
Alignment explanation
Indices: 11591074--11591168 Score: 63
Period size: 8 Copynumber: 12.1 Consensus size: 8
11591064 TTTACAGTCC
11591074 TCATATAA
1 TCATATAA
*
11591082 TCACATAA
1 TCATATAA
*
11591090 -CATTTAA
1 TCATATAA
*
11591097 GCATAT-A
1 TCATATAA
**
11591104 TCATAGTGC
1 TCATA-TAA
11591113 TCATATAA
1 TCATATAA
11591121 TCATATAA
1 TCATATAA
*
11591129 -CATTTAA
1 TCATATAA
*
11591136 TCATATAC
1 TCATATAA
*
11591144 T-ATAATAC
1 TCAT-ATAA
11591152 TCATATAA
1 TCATATAA
*
11591160 TCACATAA
1 TCATATAA
11591168 T
1 T
11591169 GTTTAAGCAT
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
7 18 0.26
8 43 0.63
9 7 0.10
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (8 bp):
TCATATAA
Found at i:11601485 original size:47 final size:47
Alignment explanation
Indices: 11601416--11601770 Score: 304
Period size: 47 Copynumber: 7.6 Consensus size: 47
11601406 TATAATGCCA
* * *
11601416 ATGCCATGTCCCAGACCTGGTCTTACACCGGCTCTCATGCTAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGCTAAGCCG
* * * * *
11601463 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTAACGTTAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGCTAAGCCG
* * * *
11601510 ATGCAATTTCCCAGACATGGTCTTACACTGACTCTCATG-TATCCATGACG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGCTA---A-GCCG
* *
11601560 ATGCCATGTCCCAGACATGGTCTT-CTACTGACACATCATG-T-AGCCG
1 ATGCCATGTCCCAGACATGGTCTTAC-ACTGGCTC-TCATGCTAAGCCG
*
11601606 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATGCT--AAGCCG
* * *
11601652 ATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGT-CTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGCT-AA-GCCG
** ** *
11601698 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGCT-AAGCCG
11601746 ATG-CATGTCCCAGACAT-GTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
11601771 GTAGCACACA
Statistics
Matches: 260, Mismatches: 31, Indels: 35
0.80 0.10 0.11
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 10 0.04
45 16 0.06
46 60 0.23
47 105 0.40
48 23 0.09
49 3 0.01
50 32 0.12
51 6 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGCTAAGCCG
Found at i:11611883 original size:28 final size:28
Alignment explanation
Indices: 11611859--11611974 Score: 103
Period size: 28 Copynumber: 4.2 Consensus size: 28
11611849 ATCGCCATAG
11611859 AGGCTGATCTTTTCATACTTTGCCACAA
1 AGGCTGATCTTTTCATACTTTGCCACAA
** *
11611887 AGGCTTTTCTTTTCTTACTTTGCCACAA
1 AGGCTGATCTTTTCATACTTTGCCACAA
* * ** *
11611915 AGG-TTATTATTTTCATACTTCACCACAG
1 AGGCTGA-TCTTTTCATACTTTGCCACAA
* *
11611943 AGGCT-TTCATTTCATGA-TTTGCCACAA
1 AGGCTGATCTTTTCAT-ACTTTGCCACAA
11611970 AGGCT
1 AGGCT
11611975 TCATTTCCTA
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
27 21 0.30
28 48 0.69
29 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (28 bp):
AGGCTGATCTTTTCATACTTTGCCACAA
Found at i:11611933 original size:56 final size:55
Alignment explanation
Indices: 11611868--11611972 Score: 140
Period size: 56 Copynumber: 1.9 Consensus size: 55
11611858 GAGGCTGATC
** * *
11611868 TTTTCATACTTTGCCACAAAGGCTTTTCTTTTC-TTACTTTGCCACAAAGGTTATTA
1 TTTTCATACTTCACCACAAAGGC-TTTCATTTCATGA-TTTGCCACAAAGGTTATTA
*
11611924 TTTTCATACTTCACCACAGAGGCTTTCATTTCATGATTTGCCACAAAGG
1 TTTTCATACTTCACCACAAAGGCTTTCATTTCATGATTTGCCACAAAGG
11611973 CTTCATTTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
55 21 0.49
56 22 0.51
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (55 bp):
TTTTCATACTTCACCACAAAGGCTTTCATTTCATGATTTGCCACAAAGGTTATTA
Found at i:11617344 original size:79 final size:81
Alignment explanation
Indices: 11617176--11617360 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
11617166 GCTACTCGTT
* *
11617176 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
11617240 AATTTAGTAACTCGCAC
65 AATATAGTAACTAGCAC
* **
11617257 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * *
11617319 GATATGGTCACTTAGCA-
65 AATATAGTAAC-TAGCAC
11617336 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
11617361 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCAC
Found at i:11617360 original size:40 final size:40
Alignment explanation
Indices: 11617157--11617360 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
11617147 CGGAATTTAA
** *
11617157 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11617197 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
11617237 CCGAATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
11617276 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
11617316 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
11617356 CCGGA
1 CCGGA
11617361 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:11620500 original size:28 final size:28
Alignment explanation
Indices: 11620460--11620522 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
11620450 GTCATTATCA
11620460 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
11620488 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
11620516 ACCCCAT
1 ACCCCAT
11620523 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:11625828 original size:28 final size:28
Alignment explanation
Indices: 11625788--11625850 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
11625778 GTCATTATCA
11625788 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
11625816 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
*
11625844 ACTCCAT
1 ACCCCAT
11625851 TACTATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:11626487 original size:30 final size:30
Alignment explanation
Indices: 11626412--11626502 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
11626402 TTAAATCATC
* * *
11626412 AAAATCAAAATTGGGTGATAAAATTTAATTAA
1 AAAATCAAAGTTTGGTGATAAAATTCAA-T-A
11626444 ACAAATC-AAGTTTGGTGATAAAATTCAATA
1 A-AAATCAAAGTTTGGTGATAAAATTCAATA
* * **
11626474 AAATTCAAAGTTTGATGGCAAAATTCAAT
1 AAAATCAAAGTTTGGTGATAAAATTCAAT
11626503 TATATAACAG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 4 0.08
30 21 0.42
31 1 0.02
32 19 0.38
33 5 0.10
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (30 bp):
AAAATCAAAGTTTGGTGATAAAATTCAATA
Found at i:11628444 original size:6 final size:6
Alignment explanation
Indices: 11628433--11628462 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
11628423 ATTTTATTTT
11628433 AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA
11628463 TTTAAATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:11628517 original size:35 final size:35
Alignment explanation
Indices: 11628478--11628547 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
11628468 ATAGTAAAAA
11628478 AAATTCCAAATACGTCTTTAACGCATAAGATGTAC
1 AAATTCCAAATACGTCTTTAACGCATAAGATGTAC
*
11628513 AAATTCCAAATCCGTCTTTAACGCATAAGATGTAC
1 AAATTCCAAATACGTCTTTAACGCATAAGATGTAC
11628548 CGTTATGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (35 bp):
AAATTCCAAATACGTCTTTAACGCATAAGATGTAC
Found at i:11634381 original size:39 final size:39
Alignment explanation
Indices: 11634324--11634414 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
11634314 TGAGACTTTA
* * *
11634324 AGCCCGGATATAATACCAGCACGAATGCTTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
11634363 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
11634402 AGCCCGGATATAA
1 AGCCCGGATATAA
11634415 TTCTCCATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:11638116 original size:11 final size:11
Alignment explanation
Indices: 11638100--11638124 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11638090 TCATTTCAAA
11638100 TTCCATTCTAT
1 TTCCATTCTAT
11638111 TTCCATTCTAT
1 TTCCATTCTAT
11638122 TTC
1 TTC
11638125 GTTCACTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (11 bp):
TTCCATTCTAT
Found at i:11640921 original size:39 final size:39
Alignment explanation
Indices: 11640849--11641066 Score: 292
Period size: 39 Copynumber: 5.5 Consensus size: 39
11640839 ACAAAGCATG
*
11640849 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* * *
11640890 CGGGGCTTAGCCTGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* **
11640929 CGGGGCTTAGCCCGGATATAACACCCTCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
11640968 CGAGACTTAGCCCAGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
11641007 CGGAACTTAGCCCGAATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
11641046 CAGGACTTAGCCCGAATATAA
1 CGGGACTTAGCCCGGATATAA
11641067 TTCTCCATTA
Statistics
Matches: 157, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 150 0.96
40 2 0.01
41 5 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:11647957 original size:26 final size:26
Alignment explanation
Indices: 11647921--11647972 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
11647911 ATCAAACGAA
*
11647921 GCATGCACTAAGTTATATTTCATGCT
1 GCATGCACTAAGCTATATTTCATGCT
11647947 GCATGCACTAAGCTATATTTCATGCT
1 GCATGCACTAAGCTATATTTCATGCT
11647973 TACATTCAAA
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:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (26 bp):
GCATGCACTAAGCTATATTTCATGCT
Found at i:11649849 original size:15 final size:15
Alignment explanation
Indices: 11649831--11649861 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11649821 TTGTGGCAGA
11649831 TCAACTCCATCACAC
1 TCAACTCCATCACAC
11649846 TCAACTCCATCACAC
1 TCAACTCCATCACAC
11649861 T
1 T
11649862 TAAATCTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (15 bp):
TCAACTCCATCACAC
Found at i:11650379 original size:21 final size:23
Alignment explanation
Indices: 11650355--11650398 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
11650345 GATCTTTTCA
11650355 TCTCTC-CA-CCTTATTTCTCCT
1 TCTCTCGCATCCTTATTTCTCCT
11650376 TCTCTCGCATTCCTTATTTCTCC
1 TCTCTCGCA-TCCTTATTTCTCC
11650399 AACTATATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
24 12 0.60
ACGTcount: A:0.09, C:0.41, G:0.02, T:0.48
Consensus pattern (23 bp):
TCTCTCGCATCCTTATTTCTCCT
Found at i:11651769 original size:44 final size:44
Alignment explanation
Indices: 11651705--11651820 Score: 196
Period size: 44 Copynumber: 2.6 Consensus size: 44
11651695 CATGGCATAG
*
11651705 GATTTCGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
1 GATTTCGATATATGTGTGCGAGTAAGACCATGGCAACGATATGT
* *
11651749 TATTTCGATATATGTGTGCGAGTAAGACCATGTCAACGATATGT
1 GATTTCGATATATGTGTGCGAGTAAGACCATGGCAACGATATGT
*
11651793 GATTTCGATATATGTGTACGAGTAAGAC
1 GATTTCGATATATGTGTGCGAGTAAGAC
11651821 ACTATCTGGG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (44 bp):
GATTTCGATATATGTGTGCGAGTAAGACCATGGCAACGATATGT
Found at i:11656180 original size:30 final size:30
Alignment explanation
Indices: 11656146--11656206 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11656136 TCCTTAACTC
11656146 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
11656176 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
11656206 A
1 A
11656207 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:11659191 original size:12 final size:12
Alignment explanation
Indices: 11659174--11659207 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11659164 GTAGGTGTAG
11659174 TTGGAAAATTTT
1 TTGGAAAATTTT
**
11659186 TTGGAATTTTTT
1 TTGGAAAATTTT
11659198 TTGGAAAATT
1 TTGGAAAATT
11659208 AGATTAAAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (12 bp):
TTGGAAAATTTT
Found at i:11660190 original size:14 final size:14
Alignment explanation
Indices: 11660173--11660206 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
11660163 AAGAAAATGT
11660173 TTATTTGTAGTGTA
1 TTATTTGTAGTGTA
11660187 TTATTTGTAGTGTA
1 TTATTTGTAGTGTA
11660201 TTATTT
1 TTATTT
11660207 ATCTTATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.62
Consensus pattern (14 bp):
TTATTTGTAGTGTA
Found at i:11661018 original size:161 final size:159
Alignment explanation
Indices: 11660750--11661057 Score: 402
Period size: 161 Copynumber: 1.9 Consensus size: 159
11660740 TGGCATACCA
* * * ** *
11660750 TCCTTTTTTGGCTTCTAGTTCTTGTACTCGTACCAGACTGTGGGAAAAAAATCACAACCCCAGAT
1 TCCTTTTTTGGATTCTAGTTCTTGTACTCGTACCAAACTGAGCAAAAAAAATCACAACCCCAAAT
*
11660815 TAGATTTAAATATTTCAAAACTTGACAGTATAAAAGTGTTTACAATATACCTATGATCCAGTTCT
66 TAGATTTAAATATTTCAAAACTTGACAGTATAAAAATGTTTACAATATACCTATGATCCAGTTCT
* *
11660880 GTTAGGTTGAATGCATGGTCTTCTATTGT
131 GTTAGCTTGAAGGCATGGTCTTCTATTGT
* *
11660909 TCCTTTTTTGGATTCTAGTTCTTGTACTCGTGCCAAATTGAGACAATAAAAAATCACAACCCCAA
1 TCCTTTTTTGGATTCTAGTTCTTGTACTCGTACCAAACTGAG-CAA-AAAAAATCACAACCCCAA
*** * * * * *
11660974 ATTAGATTTAAATATTTTGGAACTTGATAGTGA-AAAAATGTTTACGATTTACTTGTGATCCAGT
64 ATTAGATTTAAATATTTCAAAACTTGACAGT-ATAAAAATGTTTACAATATACCTATGATCCAGT
*
11661038 TGTGTTAGCTTGAAGGCATG
128 TCTGTTAGCTTGAAGGCATG
11661058 ATCATTTGTT
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
159 37 0.29
160 1 0.01
161 87 0.69
162 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (159 bp):
TCCTTTTTTGGATTCTAGTTCTTGTACTCGTACCAAACTGAGCAAAAAAAATCACAACCCCAAAT
TAGATTTAAATATTTCAAAACTTGACAGTATAAAAATGTTTACAATATACCTATGATCCAGTTCT
GTTAGCTTGAAGGCATGGTCTTCTATTGT
Found at i:11662003 original size:31 final size:31
Alignment explanation
Indices: 11661965--11662025 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
11661955 ATTTACAAAA
11661965 CATCAGTAATAAATTCGTGCAAAATAAATAG
1 CATCAGTAATAAATTCGTGCAAAATAAATAG
* *
11661996 CATCAGTAATTAATTGGTGCAAAATAAATA
1 CATCAGTAATAAATTCGTGCAAAATAAATA
11662026 TTATTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (31 bp):
CATCAGTAATAAATTCGTGCAAAATAAATAG
Found at i:11662940 original size:85 final size:85
Alignment explanation
Indices: 11662797--11662975 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
11662787 GGCCGGCCAT
11662797 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
11662862 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
11662882 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
11662947 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
11662967 GGGCATGGG
1 GAGCATGGG
11662976 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:11665265 original size:49 final size:47
Alignment explanation
Indices: 11665186--11665518 Score: 549
Period size: 47 Copynumber: 7.0 Consensus size: 47
11665176 TATTTGAATA
11665186 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
11665233 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGACGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
11665282 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCAGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
11665329 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCAGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
11665376 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
11665423 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGACGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
11665472 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGACGATGTGA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGA
11665519 CAGGGCCGAG
Statistics
Matches: 275, Mismatches: 7, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
47 148 0.54
49 127 0.46
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:11665327 original size:22 final size:22
Alignment explanation
Indices: 11665299--11665374 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
11665289 AAGTGTATAT
11665299 ATGTGATAAGGCCGAATGGCAG
1 ATGTGATAAGGCCGAATGGCAG
* * ** *
11665321 ATGTGATGAATG-TGAAAGTGTATAT
1 ATGTGAT-AAGGCCG-AA-TG-GCAG
11665346 ATGTGATAAGGCCGAATGGCAG
1 ATGTGATAAGGCCGAATGGCAG
11665368 ATGTGAT
1 ATGTGAT
11665375 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.41
23 7 0.18
24 7 0.18
25 9 0.23
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCAG
Found at i:11668152 original size:9 final size:9
Alignment explanation
Indices: 11668138--11668172 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
11668128 GTAATTGAGT
11668138 CTTCAACTC
1 CTTCAACTC
11668147 CTTCAACTC
1 CTTCAACTC
11668156 CTTCAACTC
1 CTTCAACTC
11668165 CTTCAACT
1 CTTCAACT
11668173 TCGTTGGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (9 bp):
CTTCAACTC
Found at i:11671914 original size:142 final size:142
Alignment explanation
Indices: 11671742--11672670 Score: 1787
Period size: 142 Copynumber: 6.6 Consensus size: 142
11671732 AGGTTGACGA
11671742 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
11671807 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
66 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
11671872 CAATGCCGATGC
131 CAATGCCGATGC
11671884 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
11671949 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
66 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
11672014 CAATGCCGATGC
131 CAATGCCGATGC
11672026 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
11672091 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
66 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
11672156 CAATGCCGATGC
131 CAATGCCGATGC
11672168 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
11672233 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
66 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
11672298 CAATGCCGATGC
131 CAATGCCGATGC
11672310 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
11672375 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
66 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
11672440 CAATGCCGATGC
131 CAATGCCGATGC
11672452 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
11672517 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
66 GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
11672582 CAATGCCGATGC
131 CAATGCCGATGC
** *
11672594 CATGTCCCAGACATGGTCTTACACTAGCTCT--CATAATATG-GCCGATG-CATGTCCCAGATAT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGCAT-ATCCGTGCCGATGCCATTTCCCAGATAT
11672655 -GTCTTACACTGGCACA
65 GGTCTTACACTGGCACA
11672671 CAAATAACCC
Statistics
Matches: 783, Mismatches: 3, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
138 16 0.02
139 13 0.02
140 10 0.01
141 3 0.00
142 741 0.95
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (142 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAGATATG
GTCTTACACTGGCACATCTACTAGCCGATTAATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
CAATGCCGATGC
Found at i:11673895 original size:43 final size:43
Alignment explanation
Indices: 11673848--11673985 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 43
11673838 TCCCGGACGT
* * *
11673848 GGTCTCACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAA
* * * *
11673891 GGTCTTACACG-AAATCAGATA-CGATGTCAATGTCCCAGACAA
1 GGTCTTACATGTAATTCA-ATATCGATGCCTATGTCCCAGACAA
* * * * *
11673933 GGTTTTACATGTAAATCTCAA-ATTGAAGCCTGTGTCCCAGACAC
1 GGTCTTACATGT-AAT-TCAATATCGATGCCTATGTCCCAGACAA
11673977 GGTCTTACA
1 GGTCTTACA
11673986 CGATATTTCA
Statistics
Matches: 73, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
42 31 0.42
43 13 0.18
44 26 0.36
45 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAA
Found at i:11675936 original size:30 final size:30
Alignment explanation
Indices: 11675902--11675964 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11675892 AATCAAAGGT
**
11675902 AGATACTGTTCCCACGTACCTTCAAACTCG
1 AGATACTGTTCCCACACACCTTCAAACTCG
*
11675932 AGATATTGTTCCCACACACCTTCAAACTCG
1 AGATACTGTTCCCACACACCTTCAAACTCG
11675962 AGA
1 AGA
11675965 ATGCAACATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (30 bp):
AGATACTGTTCCCACACACCTTCAAACTCG
Found at i:11681305 original size:42 final size:43
Alignment explanation
Indices: 11681257--11681364 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 43
11681247 TCGATGCCTC
*
11681257 TGTCCCAGACAGGGTCTTACACG-AAA-TCAAATACG-ATACC-G
1 TGTCCCAGACATGGTCTTACACGTAAACTCAAAT-CGAAT-CCTG
11681298 ATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGAATCCTG
1 -TGTCCCAGACATGGTCTTACACGTAAA-CTCAAATCGAATCCTG
11681343 TGTCCCAGACATGGTCTTACAC
1 TGTCCCAGACATGGTCTTACAC
11681365 AATATTTTAG
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
42 22 0.37
43 3 0.05
44 26 0.43
45 9 0.15
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGTAAACTCAAATCGAATCCTG
Found at i:11681353 original size:44 final size:43
Alignment explanation
Indices: 11681215--11681364 Score: 157
Period size: 42 Copynumber: 3.5 Consensus size: 43
11681205 CAATGCCAAC
* * * * * *
11681215 GTCCCGGATATGGTCTCACATGT-AATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCAA-ATCGATACCTGT
*
11681258 GTCCCAGACAGGGTCTTACACG-AAA-TCAAATACGATACC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATACCTG-T
11681300 GTCCCAGACATGGTCTTACACGTAAATCTCAAATCGA-ATCCTGT
1 GTCCCAGACATGGTCTTACACGTAAAT-TCAAATCGATA-CCTGT
11681344 GTCCCAGACATGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
11681365 AATATTTTAG
Statistics
Matches: 91, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
41 2 0.02
42 32 0.35
43 23 0.25
44 27 0.30
45 7 0.08
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATACCTGT
Found at i:11688822 original size:96 final size:93
Alignment explanation
Indices: 11688567--11688834 Score: 264
Period size: 96 Copynumber: 2.8 Consensus size: 93
11688557 TGTGTGTGCT
* * *
11688567 AGTGTAAGA-CATGTCTGGGACATGCATCAGCATTGAGA-CGAGAGTCAGTGTAAGA-CATGTCT
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCACT-AGATGGAGAGCCAGTGTAAGACCATGTCT
*
11688629 GGGACAT-GCATCGGCTACGAGATGTGTC
65 GGGACATGGCATCGGCTACCAGATGTGTC
* * * * *
11688657 AGTATAAGACCATGTCTAGGACATGGAATCGGCAC-AGATATGTGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCACTAG--ATG-GAGAGCCAGTGTAAGACCATG
* **
11688721 TCTGGGACATGGCGTCGGCCT-CCATTTCGATAGTC
62 TCTGGGACATGGCATCGG-CTACCAGAT-G-T-GTC
11688756 AGTGTAAGACCATGTCTGGGACATCGCATC-G-ACTAGATGGATGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCACTAGATGGA-GAGCCAGTGTAAGACCATGTC
*
11688819 TGGGATATGGCATCGG
64 TGGGACATGGCATCGG
11688835 TATTATACCC
Statistics
Matches: 145, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
90 10 0.07
91 13 0.09
92 8 0.06
94 14 0.10
95 16 0.11
96 46 0.32
97 5 0.03
98 4 0.03
99 29 0.20
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCACTAGATGGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCTACCAGATGTGTC
Found at i:11688832 original size:47 final size:47
Alignment explanation
Indices: 11688567--11688833 Score: 187
Period size: 46 Copynumber: 5.7 Consensus size: 47
11688557 TGTGTGTGCT
* * *
11688567 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATTGAGA-CGA-GAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACT-AGATGGATGAGCC
* * *
11688613 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGA--GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTA-GATGGATGAGCC
* * * *
11688657 AGTATAAGACCATGTCTAGGACATGGAATCGGCAC-AGATATGTGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTAG--ATG-GATGAGCC
* * ** * *
11688707 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCCATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACT--AGATGGATGAGCC
*
11688756 AGTGTAAGACCATGTCTGGGACATCGCATCGACTAGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGATGGATGAGCC
*
11688803 AGTGTAAGACCATGTCTGGGATATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
11688834 GTATTATACC
Statistics
Matches: 176, Mismatches: 29, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
43 3 0.02
44 15 0.09
45 14 0.08
46 38 0.22
47 34 0.19
48 5 0.03
49 33 0.19
50 31 0.18
51 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGATGGATGAGCC
Found at i:11695303 original size:14 final size:14
Alignment explanation
Indices: 11695280--11695309 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11695270 TTGAAAATAT
11695280 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
11695294 GTTGATTTGGATTG
1 GTTGAATTGGATTG
11695308 GT
1 GT
11695310 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:11696868 original size:46 final size:46
Alignment explanation
Indices: 11696801--11697848 Score: 1920
Period size: 46 Copynumber: 22.8 Consensus size: 46
11696791 TGTAACCCGC
**
11696801 CCATAAGCAAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11696847 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11696893 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11696939 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11696985 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697031 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697077 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697123 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697169 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697215 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697261 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697307 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697353 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697399 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697445 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697491 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697537 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
11697583 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
* *
11697629 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
* * * *
11697675 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
* *
11697721 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
* * * *
11697767 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
* *
11697813 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAG
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAG
11697849 ATGCCCAAAT
Statistics
Matches: 984, Mismatches: 14, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
45 4 0.00
46 977 0.99
47 3 0.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
Found at i:11702194 original size:38 final size:38
Alignment explanation
Indices: 11702147--11702247 Score: 148
Period size: 38 Copynumber: 2.7 Consensus size: 38
11702137 GCCAGTGGTG
* *
11702147 TTCAGGCTTACTGCCTAGCAGGCTTAGTGCCGGTGACA
1 TTCAAGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGACA
* **
11702185 TTCAAGCTTAGTGCCTAGCAGGCTTAGTGCTGGTGTTA
1 TTCAAGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGACA
*
11702223 TTCAAGCTTAGTGCTTAGCAGGCTT
1 TTCAAGCTTAGTGCCTAGCAGGCTT
11702248 TAAGCCATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (38 bp):
TTCAAGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGACA
Found at i:11706008 original size:13 final size:13
Alignment explanation
Indices: 11705990--11706016 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11705980 GGAGTAATAG
11705990 CACACGGGCGTGT
1 CACACGGGCGTGT
11706003 CACACGGGCGTGT
1 CACACGGGCGTGT
11706016 C
1 C
11706017 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:11708000 original size:22 final size:22
Alignment explanation
Indices: 11707975--11708032 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
11707965 TAATGAAGGT
*
11707975 GATATCATGATACCCGGAAGAG
1 GATATCATGATACCCAGAAGAG
* **
11707997 GATATCGTGATACTTAGAAGAG
1 GATATCATGATACCCAGAAGAG
*
11708019 GATATCACGATACC
1 GATATCATGATACC
11708033 ATTGAAGTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (22 bp):
GATATCATGATACCCAGAAGAG
Found at i:11708447 original size:85 final size:86
Alignment explanation
Indices: 11708298--11708466 Score: 243
Period size: 85 Copynumber: 2.0 Consensus size: 86
11708288 AGATAAAAAC
* * * **
11708298 ATTTGTAGTTACTGCCACTTGTTGTAAGTGCACAACATGGTTGCAGATTAAACAAATTGTCACTG
1 ATTTGTAGTTACTACCACTTGTTGTAAGTGCACAACATGATTGCAGATTAAACAAACTACCACTG
11708363 GG-TTTGTGGACGAGCCACAT
66 GGTTTTGTGGACGAGCCACAT
* *
11708383 ATTTGTAGTTACTACCACTTGTTGTGAGTGTACAACAT-ATTCGCAGATTAAACAAACTACCACT
1 ATTTGTAGTTACTACCACTTGTTGTAAGTGCACAACATGATT-GCAGATTAAACAAACTACCACT
*
11708447 GGGTTTTGTGGATGAGCCAC
65 GGGTTTTGTGGACGAGCCAC
11708467 CACTTGTTTG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 2 0.03
85 57 0.77
86 15 0.20
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (86 bp):
ATTTGTAGTTACTACCACTTGTTGTAAGTGCACAACATGATTGCAGATTAAACAAACTACCACTG
GGTTTTGTGGACGAGCCACAT
Found at i:11711611 original size:42 final size:42
Alignment explanation
Indices: 11711506--11711663 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
11711496 CGAAAAACTC
* * * *
11711506 ATACAATGCCAATATCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACATCCCAGACGTGGTCTTACACGAAATCAA
*
11711548 ATATCGATGCC-ACTTACCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAACAT-CCCAGAC-GTGGTCTTACACGAAATCAA
11711591 ATACGATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATA
1 ATACGATGCCAACATCCCAGACGTGGTCTTACACG-AAATCA-A
* * * *
11711635 AGT-CGATACCAACGTTCCAGATGTGGTCT
1 A-TACGATGCCAACATCCCAGACGTGGTCT
11711664 GATACGAGAA
Statistics
Matches: 98, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.31
43 41 0.42
44 25 0.26
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAACATCCCAGACGTGGTCTTACACGAAATCAA
Found at i:11719222 original size:44 final size:42
Alignment explanation
Indices: 11719078--11719236 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 42
11719068 AACTCGTACA
* * * *
11719078 ATGCCAACGTCCCAGGCATGCTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCG
*
11719121 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT-CG
*
11719163 ATGCCAACGTCCCAGACATTGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AA-TCG
*
11719207 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
11719237 AGAACACATA
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.30
43 35 0.35
44 32 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATCG
Found at i:11719230 original size:86 final size:85
Alignment explanation
Indices: 11719078--11719237 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
11719068 AACTCGTACA
* *
11719078 ATGCCAACGTCCCAGGCATGCTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGCTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
11719143 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* *
11719163 ATGCCAACGTCCCAGACATTG-TCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGAC-
1 ATGCCAACGTCCCAGACA-TGCTCTTACACGT-AATCA-AATATCAATGCC-ACTGTCCCAGACA
11719224 GTGGTCTTACACGA
62 G-GGTCTTACACGA
11719238 GAACACATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
85 27 0.41
86 35 0.53
87 4 0.06
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGCTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
CTTACACGAAATCAAATACG
Found at i:11721112 original size:26 final size:26
Alignment explanation
Indices: 11721064--11721113 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11721054 CTAATTATGA
**
11721064 TAATTAAAAAATAAAATTTTAAAAAC
1 TAATTAAAAAATAAAATCGTAAAAAC
11721090 TAATTAAAAAATAAACA-CGTAAAA
1 TAATTAAAAAATAAA-ATCGTAAAA
11721114 CATATGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (26 bp):
TAATTAAAAAATAAAATCGTAAAAAC
Found at i:11722860 original size:18 final size:18
Alignment explanation
Indices: 11722837--11722873 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11722827 TAATCTGTAA
11722837 AACATGAGATCTTGTCAT
1 AACATGAGATCTTGTCAT
11722855 AACATGAGATCTTGTCAT
1 AACATGAGATCTTGTCAT
11722873 A
1 A
11722874 TATTAGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
AACATGAGATCTTGTCAT
Found at i:11725685 original size:40 final size:40
Alignment explanation
Indices: 11725632--11725728 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
11725622 CTATGTCGAT
11725632 ATCGCACACTTAGTGCCTCAAATAGCCAAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCTCAAATAGCCAAAGCTAGTTTAA
* * *
11725672 ATCGCACATTTAGTGCCTCAAGTAGCCGAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCTCAAATAGCCAAAGCTAGTTTAA
11725712 ATCGCACACTTAGTGCC
1 ATCGCACACTTAGTGCC
11725729 AACTACTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCAAATAGCCAAAGCTAGTTTAA
Found at i:11726407 original size:18 final size:18
Alignment explanation
Indices: 11726384--11726424 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
11726374 TCAAAAACTG
11726384 ATCAAAACTCATACCTTA
1 ATCAAAACTCATACCTTA
11726402 ATCAAAACTCATACCTTA
1 ATCAAAACTCATACCTTA
11726420 ATCAA
1 ATCAA
11726425 GGATACAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (18 bp):
ATCAAAACTCATACCTTA
Found at i:11727161 original size:16 final size:16
Alignment explanation
Indices: 11727140--11727175 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11727130 AATCCCTAAC
* *
11727140 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
11727156 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
11727172 AATC
1 AATC
11727176 GATAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:11728205 original size:33 final size:33
Alignment explanation
Indices: 11728168--11728231 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
11728158 GACTACTAGA
* * *
11728168 GAGGGTGATGTTGAAGGGGTGGAAGTTGATGGG
1 GAGGGTGATGGTAAAGGGGTAGAAGTTGATGGG
*
11728201 GAGGGTGATGGTAAAGGGGTAGAATTTGATG
1 GAGGGTGATGGTAAAGGGGTAGAAGTTGATG
11728232 ATGAAGGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (33 bp):
GAGGGTGATGGTAAAGGGGTAGAAGTTGATGGG
Found at i:11728241 original size:33 final size:33
Alignment explanation
Indices: 11728171--11728242 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
11728161 TACTAGAGAG
* * * * *
11728171 GGTGATGTTGAAGGGGTGGAAGTTGATGGGGAG
1 GGTGATGGTAAAGGGGTAGAAGTTGATGAGGAA
* *
11728204 GGTGATGGTAAAGGGGTAGAATTTGATGATGAA
1 GGTGATGGTAAAGGGGTAGAAGTTGATGAGGAA
11728237 GGTGAT
1 GGTGAT
11728243 CTAGAAAAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.26
Consensus pattern (33 bp):
GGTGATGGTAAAGGGGTAGAAGTTGATGAGGAA
Found at i:11728484 original size:51 final size:51
Alignment explanation
Indices: 11728415--11728567 Score: 234
Period size: 51 Copynumber: 3.0 Consensus size: 51
11728405 GTTGCTGGTA
*
11728415 ATGAATATGCTAGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* *
11728466 ATGAATATGTTGGTGATTTTGCAACATCAGATAGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * * * *
11728517 ATAAATATGCTGGTGACTTTGCAACATCAGATGGACTAGATAATTTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
11728568 CTACACGTAG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 92 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (51 bp):
ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
Found at i:11731372 original size:22 final size:21
Alignment explanation
Indices: 11731343--11731385 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
11731333 ATCATATGCT
11731343 TTTGAAAGTACATTTATCAAA
1 TTTGAAAGTACATTTATCAAA
11731364 TTTGTAAAGTACATTTATCAAA
1 TTTG-AAAGTACATTTATCAAA
11731386 ATCATATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
TTTGAAAGTACATTTATCAAA
Found at i:11739355 original size:40 final size:40
Alignment explanation
Indices: 11739261--11739357 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
11739251 CTATGTCGAT
* * *
11739261 ATCGCACACTTAGTACCTGAAATAGTCGAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAA
*
11739301 ATCACACACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAA
*
11739341 ATCGTACACTTAGTGCC
1 ATCGCACACTTAGTGCC
11739358 AACTACTTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAA
Found at i:11746539 original size:48 final size:48
Alignment explanation
Indices: 11746481--11746579 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
11746471 TCTCTAATGG
* *
11746481 TTGATTGTTACTGAATAATAAAGATCAATTGA-TCACTACTGAAAAATA
1 TTGACTGTTACTGAATAATAAAGATAAATTGATTCA-TACTGAAAAATA
* ** * *
11746529 TTGACTGTTACTGAATGATATTGATAAATTGATTGATATTGAAAAATA
1 TTGACTGTTACTGAATAATAAAGATAAATTGATTCATACTGAAAAATA
11746577 TTG
1 TTG
11746580 TCTGATAATG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 41 0.95
49 2 0.05
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.37
Consensus pattern (48 bp):
TTGACTGTTACTGAATAATAAAGATAAATTGATTCATACTGAAAAATA
Found at i:11774335 original size:120 final size:120
Alignment explanation
Indices: 11774192--11774431 Score: 444
Period size: 120 Copynumber: 2.0 Consensus size: 120
11774182 TACAATCATT
*
11774192 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATCATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
* *
11774257 TATTTTAAATTATATTTTATAGTATAATATATTATGATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
11774312 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
*
11774377 TATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
11774432 TTCTATTAAA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
Found at i:11774384 original size:26 final size:25
Alignment explanation
Indices: 11774346--11774404 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
11774336 ATTAAATTAT
*
11774346 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
11774372 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
11774398 ATATTAT
1 ATATTAT
11774405 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:11774403 original size:15 final size:15
Alignment explanation
Indices: 11774359--11774414 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
11774349 TTTTTGTTAA
*
11774359 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
11774374 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
11774385 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
11774400 ATTATATATTATAAT
1 ATTATATTTTATAAT
11774415 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:11774656 original size:21 final size:21
Alignment explanation
Indices: 11774631--11774683 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
11774621 CGTTGTTTCT
*
11774631 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
11774652 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11774673 AATCTCACCGC
1 AATCTCACCGC
11774684 CACCGTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11774882 original size:24 final size:24
Alignment explanation
Indices: 11774850--11774895 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
11774840 ATGCTGGTAA
11774850 AACTTAATGTTTGATTCAAATGTC
1 AACTTAATGTTTGATTCAAATGTC
*
11774874 AACTTAATGTTTGGTTCAAATG
1 AACTTAATGTTTGATTCAAATG
11774896 GTCGGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (24 bp):
AACTTAATGTTTGATTCAAATGTC
Found at i:11779359 original size:76 final size:76
Alignment explanation
Indices: 11779230--11779420 Score: 199
Period size: 76 Copynumber: 2.5 Consensus size: 76
11779220 GCAAACTTCA
* * * * *
11779230 GGCGAAGTTATCTAGGAAGTCCTTGTAGTGAATTCTCTAAAAAGCCTACGTGGCATATTATTCAG
1 GGCGAAGTTATCTATGAAGCCCTTGTGGCGAATTATCTAAAAAGCCTACGTGGCATATTATT-AG
*
11779295 -AAAACCTTATT
65 AAAAACCTTAGT
* * * * * * *
11779306 GGCGAAGTTATCTATGAAGCCCTTGTGGCGAATTATTTGAAAGGCTTATGTGGCGTATTATTTGA
1 GGCGAAGTTATCTATGAAGCCCTTGTGGCGAATTATCTAAAAAGCCTACGTGGCATATTATTAGA
11779371 AAAACCTTAGT
66 AAAACCTTAGT
* *
11779382 GGCGAAGTTA-CT-TGAGAAGCCCTTATGGCGAGTTATCTA
1 GGCGAAGTTATCTAT--GAAGCCCTTGTGGCGAATTATCTA
11779421 GAACGTCTGT
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
74 1 0.01
75 3 0.03
76 91 0.96
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (76 bp):
GGCGAAGTTATCTATGAAGCCCTTGTGGCGAATTATCTAAAAAGCCTACGTGGCATATTATTAGA
AAAACCTTAGT
Found at i:11779383 original size:25 final size:24
Alignment explanation
Indices: 11779294--11779396 Score: 82
Period size: 25 Copynumber: 4.1 Consensus size: 24
11779284 ATATTATTCA
*
11779294 GAAAACCTTATTGGCGAAGTTATCTAT
1 GAAAACCTTAGTGGCGAA-TTAT-T-T
**
11779321 GAAGCCCTT-GTGGCGAATTATTT
1 GAAAACCTTAGTGGCGAATTATTT
** *
11779344 GAAAGGCTTATGTGGCGTATTATTT
1 GAAAACCTTA-GTGGCGAATTATTT
*
11779369 GAAAAACCTTAGTGGCGAAGTTACTT
1 G-AAAACCTTAGTGGCGAA-TTATTT
11779395 GA
1 GA
11779397 GAAGCCCTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
23 7 0.11
24 1 0.02
25 26 0.43
26 20 0.33
27 7 0.11
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (24 bp):
GAAAACCTTAGTGGCGAATTATTT
Found at i:11782118 original size:20 final size:20
Alignment explanation
Indices: 11782095--11782132 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11782085 GTTATTAAGT
11782095 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
11782115 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
11782133 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:11797318 original size:15 final size:15
Alignment explanation
Indices: 11797298--11797354 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
11797288 GTATCTTGGG
11797298 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
11797313 TTTCTTTATTTTGGG
1 TTTCTTTATTCTGGA
11797328 TTT-TTCCTA-TCTTGGA
1 TTTCTT--TATTC-TGGA
11797344 TTTCTTTATTC
1 TTTCTTTATTC
11797355 AGTTTTCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 2 0.06
15 19 0.58
16 10 0.30
17 2 0.06
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:11799625 original size:50 final size:49
Alignment explanation
Indices: 11799504--11799690 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
11799494 TGAGGTCGCA
* * * *
11799504 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
11799555 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
11799605 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
11799654 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
11799691 TAGCTTCAGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 43 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:11800620 original size:59 final size:59
Alignment explanation
Indices: 11800555--11800697 Score: 146
Period size: 58 Copynumber: 2.4 Consensus size: 59
11800545 TAGGTTTTGA
* * * * *
11800555 ACTTTTTTTTGTCCAACTTAGGCCTTAAACTTGGCAATTGTTC-CAATATTGGGGCCTGG
1 ACTTTTTTTTGTCCAAGTTAGGCCTTAAACTTGGCAAATGTTCTC-ACATTGGGACCTCG
* * * * * *
11800614 AC-TTTTTTGGCCCAAGTTAAGCCCTGAACTTGGCAAATGTTCTCACATTGGGACTTCG
1 ACTTTTTTTTGTCCAAGTTAGGCCTTAAACTTGGCAAATGTTCTCACATTGGGACCTCG
* *
11800672 ACTTTTTTTTATCCAAGTTAGTCCTT
1 ACTTTTTTTTGTCCAAGTTAGGCCTT
11800698 GAAAACCAAA
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
58 45 0.69
59 20 0.31
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (59 bp):
ACTTTTTTTTGTCCAAGTTAGGCCTTAAACTTGGCAAATGTTCTCACATTGGGACCTCG
Found at i:11800856 original size:89 final size:88
Alignment explanation
Indices: 11800705--11800928 Score: 236
Period size: 89 Copynumber: 2.5 Consensus size: 88
11800695 CTTGAAAACC
** * * * * *
11800705 AAAAAGTTCAAGCCTTAATGTAGAAACAATTGTCAAGTTTAGGCCCCAATGTGAGAACAATTGTC
1 AAAAAGTTCAAGCCCCAATGTGGAAA-AGTTGCCAAGTCTAGGCCCCAATGTGAGAACAATTGCC
** *
11800770 AAGTTTAGGGCCTAATTTGGACAA
65 AAGTTTAGAACCTAACTTGGACAA
* *
11800794 AAAAAGTTCAAGCCCCAATGTGGGAAAAGTTGCCAAGTCTAGGTCCCATTGTG-GAAACAATTGC
1 AAAAAGTTCAAGCCCCAATGT-GGAAAAGTTGCCAAGTCTAGGCCCCAATGTGAG-AACAATTGC
* *
11800858 CAATTTTATAACCTAACTTGGACAA
64 CAAGTTTAGAACCTAACTTGGACAA
* *
11800883 AAAAAGGTTC-AGACCCCAATGTTGGAAAAGTTGCCAAATTTAGGCC
1 AAAAA-GTTCAAG-CCCCAATG-TGGAAAAGTTGCCAAGTCTAGGCC
11800929 TCAAATAATG
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
88 1 0.01
89 75 0.66
90 36 0.32
91 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (88 bp):
AAAAAGTTCAAGCCCCAATGTGGAAAAGTTGCCAAGTCTAGGCCCCAATGTGAGAACAATTGCCA
AGTTTAGAACCTAACTTGGACAA
Found at i:11804180 original size:43 final size:43
Alignment explanation
Indices: 11804132--11804218 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
11804122 AATAACTCAA
**
11804132 AGAGTTGAAATTTATTAATCAAGATATGTTAATAATGAATAAT
1 AGAGTTGAAATTTATTAATCAAGATATGTTAATAACAAATAAT
*
11804175 AGAGTTGAAATTTATTAATTAAGATATGTTAATAACAAATAAT
1 AGAGTTGAAATTTATTAATCAAGATATGTTAATAACAAATAAT
11804218 A
1 A
11804219 CAGAGACTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (43 bp):
AGAGTTGAAATTTATTAATCAAGATATGTTAATAACAAATAAT
Found at i:11804422 original size:20 final size:20
Alignment explanation
Indices: 11804394--11804440 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
11804384 TACGTATTAT
* * * *
11804394 CACTGTTAATGATTTGACTC
1 CACTATTAATGACTTAACCC
11804414 CACTATTAATGACTTAACCC
1 CACTATTAATGACTTAACCC
11804434 CACTATT
1 CACTATT
11804441 CATAAGACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (20 bp):
CACTATTAATGACTTAACCC
Found at i:11807790 original size:24 final size:24
Alignment explanation
Indices: 11807748--11807829 Score: 112
Period size: 24 Copynumber: 3.4 Consensus size: 24
11807738 AAGCTCTTCA
11807748 TGAGCTGATAAAC-AGTAAGCTCTAT
1 TGAGCTGA-AAACGA-TAAGCTCTAT
*
11807773 TGAGTTGAAAACGATAAGCTCTAT
1 TGAGCTGAAAACGATAAGCTCTAT
* *
11807797 TGAGCTGAAAACGGTGAGCTCTAT
1 TGAGCTGAAAACGATAAGCTCTAT
11807821 TGAGCTGAA
1 TGAGCTGAA
11807830 CAAGAACCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 44 0.85
25 8 0.15
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (24 bp):
TGAGCTGAAAACGATAAGCTCTAT
Found at i:11808375 original size:105 final size:105
Alignment explanation
Indices: 11808243--11808467 Score: 450
Period size: 105 Copynumber: 2.1 Consensus size: 105
11808233 AGCCCATTTT
11808243 ACTCAAAATCATCAAAAATCCAAAGATAAAAGATATTAACCCAAATTATATTTTCCATTTATCAA
1 ACTCAAAATCATCAAAAATCCAAAGATAAAAGATATTAACCCAAATTATATTTTCCATTTATCAA
11808308 CAACTAACTTCACAAAACTCATTGTTTCATCAATGGCATA
66 CAACTAACTTCACAAAACTCATTGTTTCATCAATGGCATA
11808348 ACTCAAAATCATCAAAAATCCAAAGATAAAAGATATTAACCCAAATTATATTTTCCATTTATCAA
1 ACTCAAAATCATCAAAAATCCAAAGATAAAAGATATTAACCCAAATTATATTTTCCATTTATCAA
11808413 CAACTAACTTCACAAAACTCATTGTTTCATCAATGGCATA
66 CAACTAACTTCACAAAACTCATTGTTTCATCAATGGCATA
11808453 ACTCAAAATCATCAA
1 ACTCAAAATCATCAA
11808468 CAAAATAAAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 120 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.29
Consensus pattern (105 bp):
ACTCAAAATCATCAAAAATCCAAAGATAAAAGATATTAACCCAAATTATATTTTCCATTTATCAA
CAACTAACTTCACAAAACTCATTGTTTCATCAATGGCATA
Found at i:11816654 original size:43 final size:41
Alignment explanation
Indices: 11816605--11816720 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 41
11816595 GGAACCATAT
*
11816605 ACAATGCCAACGTCCCAAACGTGGTCTTACATGCAATCAAAC
1 ACAATGCC-ACGTCCCAAACGTGGTCTTACATGAAATCAAAC
*
11816647 ATCAATGCCACTGTCCCAAACAG-GGTCTTACATGAAATCAAAT
1 A-CAATGCCAC-GTCCCAAAC-GTGGTCTTACATGAAATCAAAC
* * *
11816690 ACAATGCCGATGTCCCAGACATGGTCTTACA
1 ACAATGCC-ACGTCCCAAACGTGGTCTTACA
11816721 CATAAAACAG
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
42 27 0.42
43 36 0.56
44 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (41 bp):
ACAATGCCACGTCCCAAACGTGGTCTTACATGAAATCAAAC
Found at i:11816748 original size:44 final size:44
Alignment explanation
Indices: 11816693--11816809 Score: 225
Period size: 44 Copynumber: 2.7 Consensus size: 44
11816683 ATCAAATACA
*
11816693 ATGCCGATGTCCCAGACATGGTCTTACACATAAAACAGAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAAAACAGAAGTCG
11816737 ATGCCAATGTCCCAGACATGGTCTTACACATAAAACAGAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAAAACAGAAGTCG
11816781 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
11816810 GAAAACACAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAAAACAGAAGTCG
Found at i:11825485 original size:140 final size:140
Alignment explanation
Indices: 11825233--11825514 Score: 483
Period size: 140 Copynumber: 2.0 Consensus size: 140
11825223 TGCACGGGCA
*
11825233 TGGTAGGGAGGCCGTGTGGACTTGCAGTAGCTAGGGTTAGGGATTTTGAGTGAAGAAAACAATGA
1 TGGTAGGGAGGCCGTGTGGACTTGCAGCAGCTAGGGTTAGGGATTTTGAGTGAAGAAAACAATGA
* *
11825298 ATAGTGCAGGGTATTTATAGATTTTTGAGACACACGGCCATGGAACATGCTCGGGTTCCCCAATT
66 ATAGTGCAGGGTATTTATAGATTTTTGAGACACACGGCAATGGAACATGCCCGGGTTCCCCAATT
*
11825363 TTTGCTCGTG
131 TTTGCCCGTG
* * *
11825373 TGGTAGGGAGGCCGTGTGGACTTGTAGCGGCTAGGGTTAGGGATTTTGAGTGAAGAAGACAATGA
1 TGGTAGGGAGGCCGTGTGGACTTGCAGCAGCTAGGGTTAGGGATTTTGAGTGAAGAAAACAATGA
* *
11825438 ATAGTGCAGGGTATTTATAGATTTTTGATACACACGGCAATGGAACATGCCCGTGTTCCCCAATT
66 ATAGTGCAGGGTATTTATAGATTTTTGAGACACACGGCAATGGAACATGCCCGGGTTCCCCAATT
11825503 TTTGCCCGTG
131 TTTGCCCGTG
11825513 TG
1 TG
11825515 ATTCGCGATT
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 133 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (140 bp):
TGGTAGGGAGGCCGTGTGGACTTGCAGCAGCTAGGGTTAGGGATTTTGAGTGAAGAAAACAATGA
ATAGTGCAGGGTATTTATAGATTTTTGAGACACACGGCAATGGAACATGCCCGGGTTCCCCAATT
TTTGCCCGTG
Found at i:11830618 original size:70 final size:70
Alignment explanation
Indices: 11830196--11830620 Score: 428
Period size: 70 Copynumber: 6.1 Consensus size: 70
11830186 CAAACCTACG
* * * * * * **
11830196 AGCCTTAAGATCACAGCCT-GGAACCTTAACTCTCGCTGACTATTTTA-AGGCTGCAGTATTGAA
1 AGCCTTAAGATCACAG-CTGGGAGCCTTAGCTCTTGCTAACTGTTTTAGAGGTTGTGGTATTGAA
*
11830259 CTTGCA
65 CCTGCA
* * **
11830265 AGCCCTAAGATCATAGCTGGGAGCCTTAGCTCTTGCTAACTG-TTTAGAGGTTGCAGTATTGAAC
1 AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTGTTTTAGAGGTTGTGGTATTGAAC
11830329 CTGCA
66 CTGCA
** * * * *
11830334 AGACC-TAAGATCGTAGCTGGGAGCCTTAGCTCTCT-ATAACTGTTGTAGAAGTTGCGGTATTGA
1 AG-CCTTAAGATCACAGCTGGGAGCCTTAGCTCT-TGCTAACTGTTTTAGAGGTTGTGGTATTGA
*
11830397 ACCTGCG
64 ACCTGCA
* * * * *
11830404 AGCCCTAAGATCACAGTTGGGAGCTTTAGCTCTTGCTAACTATTTTAGAGGTTGTGGTATTGTAC
1 AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTGTTTTAGAGGTTGTGGTATTGAAC
* **
11830469 TTGTG
66 CTGCA
** * *
11830474 AGCCTTAAGATCACAATTGGGAGCCTTAGCTCTTGCTAACTGTTTGAGAGGCTGTGGTATTGAAC
1 AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTGTTTTAGAGGTTGTGGTATTGAAC
*
11830539 CTGTA
66 CTGCA
* * * * * *
11830544 AGCCTTAAGAGCACAGGTGAGAGCCTTAGCTCTCGCTAACGGTTTTAGAAGTTGTGGTATTGAAC
1 AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTGTTTTAGAGGTTGTGGTATTGAAC
*
11830609 CTGCG
66 CTGCA
11830614 AGCCTTA
1 AGCCTTA
11830621 GCTCTCCCTA
Statistics
Matches: 302, Mismatches: 47, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
68 6 0.02
69 90 0.30
70 206 0.68
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (70 bp):
AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTGTTTTAGAGGTTGTGGTATTGAAC
CTGCA
Found at i:11830762 original size:70 final size:70
Alignment explanation
Indices: 11830614--11830920 Score: 242
Period size: 70 Copynumber: 4.4 Consensus size: 70
11830604 TGAACCTGCG
* * * *
11830614 AGCCTTAGCTCTCCCTAACTATTTTTTCAG-GGCTGA-AGTATTAAACCTGCGAGCTTTAAGATC
1 AGCCTTAGCTCTCACTAAC--TGTTTT-AGAGGCT-ACAGTATTGAACCTGCGAGCCTTAAGATC
* *
11830677 AAAACTAGG-
62 ACAA-TTGGC
* * * * * * *
11830686 AACCTTAGCTCTCACCAACTGCTTTAGAGGCTACAGTATTGAATCTGCAAGCCTTAAGATCATAG
1 AGCCTTAGCTCTCACTAACTGTTTTAGAGGCTACAGTATTGAACCTGCGAGCCTTAAGATCACAA
*
11830751 TTGGG
66 TTGGC
* ** * * * * ** * *
11830756 AGCCTTAGATCTCTTTAGCTATTTTTGAGGCTACGGTATTGAACCTATGAGCCCTAAGATAACAA
1 AGCCTTAGCTCTCACTAACTGTTTTAGAGGCTACAGTATTGAACCTGCGAGCCTTAAGATCACAA
11830821 TTGGC
66 TTGGC
* * * *
11830826 AGCCTTAGCTCTCACTAACTGTTTTAGAGGCTAGAGTACTGAACCTGGGAGCATTAAGATCACAA
1 AGCCTTAGCTCTCACTAACTGTTTTAGAGGCTACAGTATTGAACCTGCGAGCCTTAAGATCACAA
* *
11830891 CTGGA
66 TTGGC
* * *
11830896 AGCCTAAGCTTTCTCTAACTGTTTT
1 AGCCTTAGCTCTCACTAACTGTTTT
11830921 TTGAGGGGAG
Statistics
Matches: 182, Mismatches: 50, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
69 6 0.03
70 160 0.88
72 16 0.09
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (70 bp):
AGCCTTAGCTCTCACTAACTGTTTTAGAGGCTACAGTATTGAACCTGCGAGCCTTAAGATCACAA
TTGGC
Found at i:11835849 original size:27 final size:27
Alignment explanation
Indices: 11835811--11835867 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
11835801 CTAAATGACC
*
11835811 GAAAACTCCTTGATGAGCCATATTGTA
1 GAAAACTCCTTGATGAGCCATATTGCA
*
11835838 GAAAACTCCTTGATGAGCCGTATTGCA
1 GAAAACTCCTTGATGAGCCATATTGCA
11835865 GAA
1 GAA
11835868 GTTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAAACTCCTTGATGAGCCATATTGCA
Found at i:11840874 original size:36 final size:36
Alignment explanation
Indices: 11840827--11840929 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
11840817 GACATTACAA
11840827 AAACTTTAGTTAATCGACTTCGACTAGTAATGCAGT
1 AAACTTTAGTTAATCGACTTCGACTAGTAATGCAGT
*
11840863 AAACTTTAGTTAATCGACTTCGGCTAGTAATGCAGT
1 AAACTTTAGTTAATCGACTTCGACTAGTAATGCAGT
* *
11840899 AAACTTTAGTTAATCAACTTCGATTAGTAAT
1 AAACTTTAGTTAATCGACTTCGACTAGTAAT
11840930 ACAAAAATTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (36 bp):
AAACTTTAGTTAATCGACTTCGACTAGTAATGCAGT
Found at i:11848305 original size:35 final size:35
Alignment explanation
Indices: 11848266--11848477 Score: 273
Period size: 35 Copynumber: 6.1 Consensus size: 35
11848256 CATGGAAAAA
11848266 TTATGACATGTAGGTATGGTATTATCCATACTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
*
11848301 TTATGACATGTAGATATGGTATTATCCATACTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
11848336 TTATGACATGTAGGTATGGTATTATCCATACTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
* * * *
11848371 TTATAATACGTAGGTATGGTATTATCCATACTAAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
* * * * *
11848406 CTATAATACGTAGGTATGGTATT-TCCCATACCGAG
1 TTATGACATGTAGGTATGGTATTAT-CCATACTGAG
* * * * *
11848441 TTGTGAAATATAGGTATGGTATTAACCATATTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
11848476 TT
1 TT
11848478 GTGAATCGTG
Statistics
Matches: 157, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
34 1 0.01
35 156 0.99
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.37
Consensus pattern (35 bp):
TTATGACATGTAGGTATGGTATTATCCATACTGAG
Found at i:11849995 original size:21 final size:20
Alignment explanation
Indices: 11849964--11850002 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11849954 TCTTTGAATT
11849964 AGGGCACACGCCTATGTGTA
1 AGGGCACACGCCTATGTGTA
*
11849984 AGGGCAACACGCCTGTGTG
1 AGGGC-ACACGCCTATGTG
11850003 GAATTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (20 bp):
AGGGCACACGCCTATGTGTA
Done.