Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 109 of 356
Found at i:34486698 original size:11 final size:11
Alignment explanation
Indices: 34486644--34486716 Score: 59
Period size: 11 Copynumber: 7.2 Consensus size: 11
34486634 GTGCATTTCA
34486644 TACATATCATG
1 TACATATCATG
* *
34486655 TGCATTTCA--
1 TACATATCATG
34486664 TACATATCATG
1 TACATATCATG
* *
34486675 TGCATTTCA--
1 TACATATCATG
34486684 TACATATCATG
1 TACATATCATG
*
34486695 TACATATCATA
1 TACATATCATG
34486706 T-CA-ATCATG
1 TACATATCATG
34486715 TA
1 TA
34486717 TATCATATCC
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
9 20 0.43
10 2 0.04
11 25 0.53
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.38
Consensus pattern (11 bp):
TACATATCATG
Found at i:34486716 original size:20 final size:20
Alignment explanation
Indices: 34486629--34486715 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
34486619 TTATGAATAC
34486629 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
34486649 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
34486669 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
34486689 ATCATGTACATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
34486709 ATCATGT
1 ATCATGT
34486716 ATATCATATC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:34486721 original size:9 final size:10
Alignment explanation
Indices: 34486646--34486722 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 10
34486636 GCATTTCATA
34486646 CATATCATGT
1 CATATCATGT
* *
34486656 GCATTTCAT-A
1 -CATATCATGT
34486666 CATATCATGT
1 CATATCATGT
* *
34486676 GCATTTCAT-A
1 -CATATCATGT
34486686 CATATCATGT
1 CATATCATGT
*
34486696 ACATATCATAT
1 -CATATCATGT
34486707 CA-ATCATGT
1 CATATCATGT
34486716 -ATATCAT
1 CATATCAT
34486723 ATCCCACGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
8 1 0.02
9 25 0.49
10 2 0.04
11 23 0.45
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (10 bp):
CATATCATGT
Found at i:34487536 original size:19 final size:19
Alignment explanation
Indices: 34487497--34487532 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34487487 GTAAATCTAC
34487497 AAATCAAGGGTAATTTTGT
1 AAATCAAGGGTAATTTTGT
*
34487516 AAATCAGGGGT-ATTTTG
1 AAATCAAGGGTAATTTTG
34487533 GTAATTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (19 bp):
AAATCAAGGGTAATTTTGT
Found at i:34487670 original size:27 final size:27
Alignment explanation
Indices: 34487505--34487864 Score: 156
Period size: 27 Copynumber: 13.3 Consensus size: 27
34487495 ACAAATCAAG
* *
34487505 GGTAATTTTGTAAATC-AGGGGTATTTT
1 GGTAATTTTATAAATCGA-GGGTAATTT
* * *
34487532 GGTAATTTTACAAATTGAAGGT-ATTT
1 GGTAATTTTATAAATCGAGGGTAATTT
* * * ***
34487558 CAGTAATTTCA-CAATCGAGGGTAAAAC
1 -GGTAATTTTATAAATCGAGGGTAATTT
* * **
34487585 GGTAATTTTGTAAATCAAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAATTT
* * * * ***
34487612 AGTAATTCTGTAAATCAAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAATTT
* * *
34487639 AGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTATAAATCGAGGGTAATTT
*
34487666 GGTAATTTT-TACAAGTTGAGGGT-ATTT
1 GGTAATTTTATA-AA-TCGAGGGTAATTT
* * * * *
34487693 CAGTAATTTTACAAATTAGGGGGTATTTT
1 -GGTAATTTTATAAA-TCGAGGGTAATTT
* * * * *
34487722 AGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTATAAATCGAGGGTAATTT
* * ***
34487749 AGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAATTT
* * **
34487776 GATAATTTTATAAATTGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAATTT
* *
34487803 GGTAATTCTATAAATCGAGGGTAGA-AT
1 GGTAATTTTATAAATCGAGGGTA-ATTT
* * * *
34487830 GGTAATTCTGTAAATCAAGGGTACTTT
1 GGTAATTTTATAAATCGAGGGTAATTT
34487857 GGTAATTT
1 GGTAATTT
34487865 GGTAAACTAA
Statistics
Matches: 259, Mismatches: 63, Indels: 22
0.75 0.18 0.06
Matches are distributed among these distances:
26 20 0.08
27 196 0.76
28 39 0.15
29 4 0.02
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTTTATAAATCGAGGGTAATTT
Found at i:34487688 original size:28 final size:27
Alignment explanation
Indices: 34487655--34487757 Score: 102
Period size: 28 Copynumber: 3.7 Consensus size: 27
34487645 TCTATAAATC
* *
34487655 GAGGGTACTTTGGTAATTTTTACAAGTT-
1 GAGGGTA-TTTAGTAA-TTTTACAAATTA
34487683 GAGGGTATTTCAGTAATTTTACAAATTA
1 GAGGGTATTT-AGTAATTTTACAAATTA
* **
34487711 GGGGGTATTTTAGTAATTTTACAAACCA
1 GAGGGTA-TTTAGTAATTTTACAAATTA
34487739 -AGGGTATTTTAGTAATTTT
1 GAGGGTA-TTTAGTAATTTT
34487758 GTAAATCGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
27 31 0.47
28 32 0.48
29 3 0.05
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GAGGGTATTTAGTAATTTTACAAATTA
Found at i:34487761 original size:137 final size:133
Alignment explanation
Indices: 34487506--34487798 Score: 327
Period size: 137 Copynumber: 2.2 Consensus size: 133
34487496 CAAATCAAGG
* *
34487506 GTAATTTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCAC
1 GTAATTTTATAAATCGA-GGGTACTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCAC
* * ** *
34487570 AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTA
65 AATAGAGGGTAAAACAGTAATTTTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTA
34487635 AAAC
130 AAAC
* * * *
34487639 AGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTA
1 -GTAATTTTATAAATCGAGGGTACTTTGGTAA-TTTTACAAATTGAAGGTATTTCAGTAATTTCA
* **** *** * *
34487704 CAAATTAGGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGG
64 C-AA-TAGAGGGTAAAACAGTAATTTTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGG
34487769 GTAAAAC
127 GTAAAAC
*
34487776 GATAATTTTATAAATTGAGGGTA
1 G-TAATTTTATAAATCGAGGGTA
34487799 AAATGGTAAT
Statistics
Matches: 131, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
134 26 0.20
135 31 0.24
136 3 0.02
137 71 0.54
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (133 bp):
GTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCACA
ATAGAGGGTAAAACAGTAATTTTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAA
AAC
Found at i:34487853 original size:191 final size:190
Alignment explanation
Indices: 34487522--34487864 Score: 492
Period size: 191 Copynumber: 1.8 Consensus size: 190
34487512 TTGTAAATCA
* ** *
34487522 GGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCACAATCGAGGGTAAAACGG
1 GGGGTATTTTAGTAATTTTACAAATCCAAGGTATTTCAGTAATTTCACAATCGAGGGTAAAACGA
* *
34487587 TAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
66 TAATTTTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAA
*
34487652 ATCGAGGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTAG
131 ATCAAGGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTAG
* *
34487712 GGGGTATTTTAGTAATTTTACAAA-CCAAGGGTATTTTAGTAATTTTGTA-AATCGAGGGTAAAA
1 GGGGTATTTTAGTAATTTTACAAATCCAA-GGTATTTCAGTAA-TTT-CACAATCGAGGGTAAAA
** * * * ** *
34487775 CGATAATTTTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAATGGTAATTCTG
63 CGATAATTTTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTA
34487840 TAAATCAAGGGTACTTTGGTAATTT
128 TAAATCAAGGGTACTTTGGTAATTT
34487865 GGTAAACTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
189 2 0.02
190 35 0.26
191 95 0.71
192 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (190 bp):
GGGGTATTTTAGTAATTTTACAAATCCAAGGTATTTCAGTAATTTCACAATCGAGGGTAAAACGA
TAATTTTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAA
ATCAAGGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTAG
Found at i:34490440 original size:40 final size:40
Alignment explanation
Indices: 34490380--34490590 Score: 320
Period size: 40 Copynumber: 5.3 Consensus size: 40
34490370 CCTTTGGGGT
* *
34490380 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGAC
*
34490419 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
*
34490459 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
34490499 TTGGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
34490539 TTGGCCCGGTTATAGTAACTCGCACGAATGCCTTCGGG-C
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
34490578 TTAGCCCGGTTAT
1 TTAGCCCGGTTAT
34490591 CAATCCGAAT
Statistics
Matches: 161, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 18 0.11
40 143 0.89
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:34496769 original size:33 final size:33
Alignment explanation
Indices: 34496732--34496825 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
34496722 TGCGGGGGTG
*
34496732 GTATTAGTCGGGAATGGAGATTGTGGAACAGCC
1 GTATTAGTCGGGAATGGAGGTTGTGGAACAGCC
34496765 GTATTAGTCGGGAATGGAGGTTGTGGAACAGCC
1 GTATTAGTCGGGAATGGAGGTTGTGGAACAGCC
34496798 GTATTAGTCGGGAATGGAGGTTGTGGAA
1 GTATTAGTCGGGAATGGAGGTTGTGGAA
34496826 AAGCTTGCCT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.26, C:0.10, G:0.39, T:0.26
Consensus pattern (33 bp):
GTATTAGTCGGGAATGGAGGTTGTGGAACAGCC
Found at i:34498517 original size:40 final size:40
Alignment explanation
Indices: 34498446--34498665 Score: 277
Period size: 40 Copynumber: 5.6 Consensus size: 40
34498436 AAACCAAGTA
** * *
34498446 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
34498485 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
34498525 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
34498565 CC-TCGGGCCTTGGCTCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* **
34498604 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCATGAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
34498644 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
34498666 CAATCCGAAT
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 59 0.37
40 101 0.63
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:34498646 original size:79 final size:79
Alignment explanation
Indices: 34498446--34498665 Score: 268
Period size: 79 Copynumber: 2.8 Consensus size: 79
34498436 AAACCAAGTA
** * * * *
34498446 CCTTCGGGGTTTAGCCGGA-TATAGCT-ACTCGCTCAAATGCCTTCAGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGCACAATTGCCTTC-GGGCTTAGCCCGGTTATA
*
34498509 GTAACTCGCACAATTG
64 GTAACTCGCACAAATG
* *
34498525 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTGCC-TCGGGCCTTGGCTCGGTTATAG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGTTATAG
34498589 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* * *
34498604 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCATGAA-TGCCTTCGGGCTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCA-CAATTGCCTTCGGGCTTAGCCCGGTTAT
34498666 CAATCCGAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 95 0.78
80 25 0.20
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTGCCTTCGGGCTTAGCCCGGTTATAGT
AACTCGCACAAATG
Found at i:34501692 original size:27 final size:27
Alignment explanation
Indices: 34501623--34501705 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
34501613 GTCGTTAAGA
* * *
34501623 CCTCGATTTGTAAAATTACCAAAATAT
1 CCTCAATTTGTAAAATTATCAAAATAC
* *
34501650 CCT-AGTATGTAAAATTATCAAAATAC
1 CCTCAATTTGTAAAATTATCAAAATAC
* *
34501676 CCTCAATTTGTATAATTATCGAAATAC
1 CCTCAATTTGTAAAATTATCAAAATAC
34501703 CCT
1 CCT
34501706 TATAGGGTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
26 21 0.46
27 25 0.54
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (27 bp):
CCTCAATTTGTAAAATTATCAAAATAC
Found at i:34501725 original size:27 final size:27
Alignment explanation
Indices: 34501695--34501761 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
34501685 GTATAATTAT
34501695 CGAAATACCCTT-ATAGGGTAAAATCAC
1 CGAAATACCCTTGA-AGGGTAAAATCAC
* *
34501722 CGAAATACCCTTGAAGTGTAAAATTAC
1 CGAAATACCCTTGAAGGGTAAAATCAC
34501749 CGAAATACCCTTG
1 CGAAATACCCTTG
34501762 TGTAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (27 bp):
CGAAATACCCTTGAAGGGTAAAATCAC
Found at i:34502316 original size:32 final size:32
Alignment explanation
Indices: 34502273--34502344 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
34502263 ATATTTACCC
* *
34502273 ATGGCTGTGTGCTGATCATATTA-CAGCTACTG
1 ATGGCTGTGTGCCGATCAAATTACCA-CTACTG
*
34502305 ATGGCTTTGTGCCGATCAAATTACCACTACTG
1 ATGGCTGTGTGCCGATCAAATTACCACTACTG
*
34502337 ATAGCTGT
1 ATGGCTGT
34502345 AAGCCATGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 32 0.94
33 2 0.06
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (32 bp):
ATGGCTGTGTGCCGATCAAATTACCACTACTG
Found at i:34505611 original size:28 final size:28
Alignment explanation
Indices: 34505580--34505679 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
34505570 AGTATCGGGG
*
34505580 ATGGTACTTAGTGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* *
34505608 ATGGCACTTAGTGTGCGAAGTA-A-CGAGG
1 ATGGCACTTAGTGTGCG-A-TACATCCAGA
*
34505636 ATGGCACTTAGTGTGCGAAACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
*
34505664 ACGGCACTTAGTGTGC
1 ATGGCACTTAGTGTGC
34505680 AAGGTATCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 2 0.03
28 54 0.89
29 2 0.03
30 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGATACATCCAGA
Found at i:34505639 original size:56 final size:56
Alignment explanation
Indices: 34505553--34505679 Score: 182
Period size: 56 Copynumber: 2.3 Consensus size: 56
34505543 TAATTATATG
** * * * * *
34505553 TGGCACTTAACGTACGAAGTATCGGGGATGGTACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
34505609 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
*
34505665 CGGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
34505680 AAGGTATCGG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
Found at i:34505704 original size:56 final size:56
Alignment explanation
Indices: 34505567--34505714 Score: 176
Period size: 56 Copynumber: 2.6 Consensus size: 56
34505557 ACTTAACGTA
* * ** *
34505567 CGAAGTATCGGGGATGGTACTTAGTGTGCGATACATCCAGAATGGCACTTAGTGTG
1 CGAAGTAACGAGGATGACACTTAGTGTGCGATACATCCAGAACGGCACTTAGTGTG
* *
34505623 CGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAACGGCACTTAGTGTG
1 CGAAGTAACGAGGATGACACTTAGTGTGCGATACATCCAGAACGGCACTTAGTGTG
*
34505679 C-AAGGTATCG-GGTATGACA-TCTAGTGTGCGATACAT
1 CGAA-GTAACGAGG-ATGACACT-TAGTGTGCGATACAT
34505715 TGAGTATTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
55 5 0.06
56 76 0.94
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (56 bp):
CGAAGTAACGAGGATGACACTTAGTGTGCGATACATCCAGAACGGCACTTAGTGTG
Found at i:34505818 original size:32 final size:32
Alignment explanation
Indices: 34505772--34505848 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
34505762 TACGAGATGA
* *
34505772 TACAGGTATCTACGGAAATTGGTACAATATGG
1 TACAGGTATGTACGGAAATTGGTACAATATAG
34505804 TACAGGTATGTACGGAAATTGGTACAATATAG
1 TACAGGTATGTACGGAAATTGGTACAATATAG
*
34505836 TACATGTATGTAC
1 TACAGGTATGTAC
34505849 AAAAATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (32 bp):
TACAGGTATGTACGGAAATTGGTACAATATAG
Found at i:34511832 original size:28 final size:28
Alignment explanation
Indices: 34511790--34511946 Score: 117
Period size: 28 Copynumber: 5.6 Consensus size: 28
34511780 TAATTATATG
** *
34511790 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
* * * *
34511818 TGGTACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGCGA-AGTATCGAGGA
34511846 TGGCACTTAGTGTGCGAAGTAAT-GAGGA
1 TGGCACTTAGTGTGCGAAGT-ATCGAGGA
** * *
34511874 TGGCACTTAGTGTGCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
*
34511902 CGGCACTTAGTGTGC-AAGGTATCG-GGTA
1 TGGCACTTAGTGTGCGAA-GTATCGAGG-A
*
34511930 TGACA-TCTAGTGTGCGA
1 TGGCACT-TAGTGTGCGA
34511947 TACATTGAGT
Statistics
Matches: 99, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
27 7 0.07
28 88 0.89
29 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGA
Found at i:34511876 original size:56 final size:56
Alignment explanation
Indices: 34511790--34511951 Score: 188
Period size: 56 Copynumber: 2.9 Consensus size: 56
34511780 TAATTATATG
** * * *
34511790 TGGCACTTAACGTGCGAAGTATCGGGGATGGTACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
34511846 TGGCACTTAGTGTGCGAAGTAAT-GAGGATGGCACTTAGTGTGCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGT-ATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
* * *
34511902 CGGCACTTAGTGTGC-AAGGTATCG-GGTATGACA-TCTAGTGTGCGATACAT
1 TGGCACTTAGTGTGCGAA-GTATCGAGG-ATGGCACT-TAGTGTGCGAAACAT
34511952 TGAGTATTCA
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
55 7 0.08
56 84 0.90
57 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
Found at i:34512068 original size:32 final size:32
Alignment explanation
Indices: 34511994--34512085 Score: 121
Period size: 32 Copynumber: 2.9 Consensus size: 32
34511984 TGAGTATGAG
* * * * *
34511994 ATTGGTACGAGATGATACAGGTATCTACGGAA
1 ATTGGTACAATATGGTACACGTATGTACGGAA
34512026 ATTGGTACAATATGGTACACGTATGTACGGAA
1 ATTGGTACAATATGGTACACGTATGTACGGAA
* *
34512058 ATTGGTACAATATAGTACATGTATGTAC
1 ATTGGTACAATATGGTACACGTATGTAC
34512086 AAAATTCAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (32 bp):
ATTGGTACAATATGGTACACGTATGTACGGAA
Found at i:34513639 original size:45 final size:45
Alignment explanation
Indices: 34513566--34513652 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
34513556 TATCTAATCT
* * * * *
34513566 GAACTTATTGAGTTGTGTTTTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGGTCTAAATTCATGATATATGTGACATCC
*
34513611 GAACTCATTGAGTTGTGGTCTAAATTCATGATTTATGTGACA
1 GAACTCATTGAGTTGTGGTCTAAATTCATGATATATGTGACA
34513653 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGTCTAAATTCATGATATATGTGACATCC
Found at i:34519697 original size:14 final size:14
Alignment explanation
Indices: 34519680--34519731 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
34519670 AATTTAGTCA
34519680 TTTTTATTTTTGTT
1 TTTTTATTTTTGTT
* *
34519694 TTTTTA-ATTTGAT
1 TTTTTATTTTTGTT
34519707 TTTTTATTTTTGTT
1 TTTTTATTTTTGTT
*
34519721 TGTTTGATTTT
1 T-TTTTATTTT
34519732 GATAGGTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 11 0.35
14 12 0.39
15 8 0.26
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.79
Consensus pattern (14 bp):
TTTTTATTTTTGTT
Found at i:34520198 original size:51 final size:51
Alignment explanation
Indices: 34520139--34520243 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
34520129 TTTTGACACT
*
34520139 TTCAAGATCAATGACGTTACTAATGATACTATACACTTACGGTTGTTCCCA
1 TTCAAGATCAATGACGTTACTAATGATACTATACACTTACGATTGTTCCCA
* *
34520190 TTCAAGATCAATGGCGTTACTGATGATACTATACACTTACGATTGTTCCCA
1 TTCAAGATCAATGACGTTACTAATGATACTATACACTTACGATTGTTCCCA
34520241 TTC
1 TTC
34520244 TCATTGAGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (51 bp):
TTCAAGATCAATGACGTTACTAATGATACTATACACTTACGATTGTTCCCA
Found at i:34521870 original size:36 final size:36
Alignment explanation
Indices: 34521823--34521896 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
34521813 TAGGTGGCCT
*
34521823 ATTTGACTAAGAATTGAATAAAATATAGAAAAGATG
1 ATTTGAATAAGAATTGAATAAAATATAGAAAAGATG
*
34521859 ATTTGAATAAGAATTGAATAAAATATAGAAAAGTTG
1 ATTTGAATAAGAATTGAATAAAATATAGAAAAGATG
34521895 AT
1 AT
34521897 ATCACACCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.53, C:0.01, G:0.16, T:0.30
Consensus pattern (36 bp):
ATTTGAATAAGAATTGAATAAAATATAGAAAAGATG
Found at i:34530526 original size:47 final size:46
Alignment explanation
Indices: 34530473--34530602 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 46
34530463 GTTTGAGTGA
* *
34530473 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCAAAGGG-GAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTC--AGGGAAAGT
*
34530520 TACCTTGATTTGGCTA-GAGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACG-GGCCATGGTATAGGTACTCAGGGA-AAGT
34530567 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
34530603 TATTGATAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
45 3 0.04
46 1 0.01
47 71 0.93
48 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (46 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGGGAAAGT
Found at i:34536719 original size:7 final size:7
Alignment explanation
Indices: 34536706--34536774 Score: 59
Period size: 7 Copynumber: 9.1 Consensus size: 7
34536696 TCTTTTTGGC
34536706 TTTATTT
1 TTTATTT
*
34536713 CTTATTT
1 TTTATTT
34536720 TTTA-TT
1 TTTATTT
34536726 TTTATTT
1 TTTATTT
34536733 TTTATTAGT
1 TTTATT--T
34536742 TTTATTTT
1 TTTA-TTT
34536750 TATTATTT
1 T-TTATTT
*
34536758 TTAAATATT
1 TT-TAT-TT
34536767 TTTATTT
1 TTTATTT
34536774 T
1 T
34536775 GTTTTAATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
6 6 0.12
7 21 0.41
8 10 0.20
9 12 0.24
10 2 0.04
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTATTT
Found at i:34536732 original size:13 final size:14
Alignment explanation
Indices: 34536706--34536738 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
34536696 TCTTTTTGGC
34536706 TTTATTTCTTATTT
1 TTTATTTCTTATTT
34536720 TTTATTT-TTATTT
1 TTTATTTCTTATTT
34536733 TTTATT
1 TTTATT
34536739 AGTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTATTTCTTATTT
Found at i:34536749 original size:15 final size:16
Alignment explanation
Indices: 34536714--34536760 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
34536704 GCTTTATTTC
34536714 TTATTTTTTA-T--TT
1 TTATTTTTTATTAGTT
34536727 TTATTTTTTATTAGTT
1 TTATTTTTTATTAGTT
*
34536743 TTA-TTTTTATTATTT
1 TTATTTTTTATTAGTT
34536758 TTA
1 TTA
34536761 AATATTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 10 0.33
14 1 0.03
15 14 0.47
16 5 0.17
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTATTTTTTATTAGTT
Found at i:34555491 original size:29 final size:27
Alignment explanation
Indices: 34555416--34555497 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
34555406 ATGAAGCTGC
* *
34555416 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
34555443 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
*
34555469 CAGATATATATGTGGCGAAGCCACTAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
34555498 TGCAGTGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.09
27 21 0.48
28 4 0.09
29 15 0.34
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:34555575 original size:67 final size:68
Alignment explanation
Indices: 34555443--34555582 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 68
34555433 TCACCAGATA
* * * *
34555443 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACTAGATTGCAGTGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGA-ATATATGTGGCGAAGCCACTAGATTGCAGCGAGG
34555508 CTGC
65 CTGC
*
34555512 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATGTGGCG-AGACCACTAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAG-CCACTAGATTGCAGCGAGG
34555575 CTGC
65 CTGC
34555579 CAGA
1 CAGA
34555583 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
66 2 0.03
67 38 0.58
69 25 0.38
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.20
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACTAGATTGCAGCGAGGC
TGC
Found at i:34557222 original size:13 final size:13
Alignment explanation
Indices: 34557204--34557241 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
34557194 TAATTTATAT
34557204 GTGTGAAAATTTG
1 GTGTGAAAATTTG
34557217 GTGTGAAAATTTG
1 GTGTGAAAATTTG
34557230 GTGTGAAAATTT
1 GTGTGAAAATTT
34557242 TATCGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (13 bp):
GTGTGAAAATTTG
Found at i:34558415 original size:44 final size:43
Alignment explanation
Indices: 34558353--34558436 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 43
34558343 GATTCTGATA
*
34558353 TGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
1 TGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATT
*
34558396 TGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 TGTGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCG
34558437 TATATGAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 8 0.21
44 30 0.79
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (43 bp):
TGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATT
Found at i:34565472 original size:43 final size:42
Alignment explanation
Indices: 34565357--34565479 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
34565347 ACCACATGTC
* * * **
34565357 GATGCCACTGTCCTAGACAGGGTCTTACACAAAATCAAATAA
1 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAA
*
34565399 TGATGCCAATGTCCCAGACATGGTCTTACATGCAATCATAATACA
1 -GATGCCAATGTCCCAGACATGGTCTTACATGAAATCA-AATA-A
*
34565444 -ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
34565480 CATCTCAGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
43 66 0.93
44 4 0.06
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAA
Found at i:34568854 original size:48 final size:48
Alignment explanation
Indices: 34568782--34568911 Score: 156
Period size: 48 Copynumber: 2.7 Consensus size: 48
34568772 TAGGGGATTC
* * *
34568782 ATTGATTTAGCTTCGGGCCATGATATCGA-TACTTCAAGTGCGAGTTACT
1 ATTGATTTGGCTTCGGGCCATGATAT-GAGCACTTCAAGTGCGAGATA-T
* **
34568831 -TTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGATAT
1 ATTGATTTGGCTTCGGGCCATGATATGAGCACTTCAAGTGCGAGATAT
* *
34568878 ATTGAGTTGGCTTCAGGCCATGATATGAGCACTT
1 ATTGATTTGGCTTCGGGCCATGATATGAGCACTT
34568912 AGTGTGTGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.03
48 68 0.97
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (48 bp):
ATTGATTTGGCTTCGGGCCATGATATGAGCACTTCAAGTGCGAGATAT
Found at i:34605567 original size:44 final size:42
Alignment explanation
Indices: 34605484--34605602 Score: 112
Period size: 44 Copynumber: 2.8 Consensus size: 42
34605474 TAGGATTCCG
* * * * *
34605484 ATATGAGATTCGTGTAAGACCACGTTTGAGACGTTGGCATCGAT
1 ATATGAG-TTCGTGTAAGACCATGTCTGGGACATCGGCATCG-T
* * * *
34605528 TTGTGATTTACGTGTAAGACCATGTCTGGGACATCGGCATTGT
1 ATATGAGTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGT
* *
34605571 ATATGAGTTCATGTAAGACCCTGTCTGGGACA
1 ATATGAGTTCGTGTAAGACCATGTCTGGGACA
34605603 GTGGCATGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 21 0.35
43 9 0.15
44 30 0.50
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
ATATGAGTTCGTGTAAGACCATGTCTGGGACATCGGCATCGT
Found at i:34605633 original size:37 final size:37
Alignment explanation
Indices: 34605529--34605638 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 37
34605519 GGCATCGATT
*
34605529 TGTGATTTACGTGTAAGACCATGTCTGGGACATCGGCA
1 TGTGA-TTACATGTAAGACCATGTCTGGGACATCGGCA
*
34605567 T-TGTATATGAGTTCATGTAAGACCCTGTCTGGGACAGT-GGCA
1 TGTG-AT-T-A---CATGTAAGACCATGTCTGGGACA-TCGGCA
34605609 TGTGATTACATGTAAGACCATGTCTGGGAC
1 TGTGATTACATGTAAGACCATGTCTGGGAC
34605639 GTTGGTGATG
Statistics
Matches: 61, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
37 24 0.39
38 3 0.05
39 1 0.02
40 1 0.02
41 1 0.02
42 28 0.46
43 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (37 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATCGGCA
Found at i:34613815 original size:47 final size:49
Alignment explanation
Indices: 34613737--34613869 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 49
34613727 TGTAACCCGC
*
34613737 CCATAAGCGAACTCGGACTCAACTCAGCGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
34613787 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
34613830 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
34613870 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 29 0.41
47 29 0.41
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:34613885 original size:46 final size:44
Alignment explanation
Indices: 34613745--34613885 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 44
34613735 GCCCATAAGC
* *
34613745 GAACTCGGACTCAACTCAGCGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
34613792 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
34613838 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
34613884 GA
1 GA
34613886 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 30 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:34614322 original size:30 final size:30
Alignment explanation
Indices: 34614288--34614347 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34614278 ATTTAATACG
34614288 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
34614318 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
34614348 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:34618046 original size:20 final size:20
Alignment explanation
Indices: 34618023--34618060 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34618013 CACATCCAAA
* *
34618023 TACAAAATTTTTAAAATCTT
1 TACAAAATATTGAAAATCTT
34618043 TACAAAATATTGAAAATC
1 TACAAAATATTGAAAATC
34618061 GCGAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (20 bp):
TACAAAATATTGAAAATCTT
Found at i:34630736 original size:39 final size:40
Alignment explanation
Indices: 34630634--34630838 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
34630624 TCGAATGATG
* * *
34630634 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
34630675 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
34630714 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
34630754 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
34630794 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
34630834 TCCGG
1 TCCGG
34630839 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
39 37 0.26
40 80 0.56
41 25 0.17
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:34630771 original size:79 final size:81
Alignment explanation
Indices: 34630634--34630817 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
34630624 TCGAATGATG
* * *
34630634 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
34630699 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
34630714 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
34630776 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
34630794 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34630818 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 51 0.56
80 28 0.31
81 11 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:34630841 original size:79 final size:78
Alignment explanation
Indices: 34630635--34630852 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
34630625 CGAATGATGT
* * *
34630635 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
34630699 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
34630716 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
34630779 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
34630795 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
34630853 TACGTGATTC
Statistics
Matches: 117, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
78 3 0.03
79 59 0.50
80 45 0.38
81 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:34642211 original size:40 final size:40
Alignment explanation
Indices: 34642156--34642423 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
34642146 AGCATTTGAA
34642156 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34642196 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
34642236 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34642276 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
34642316 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34642356 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
34642396 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
34642424 AGGTGTTTGC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:34649494 original size:40 final size:40
Alignment explanation
Indices: 34649439--34649706 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
34649429 AGCATTTGAA
34649439 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34649479 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
34649519 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34649559 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
34649599 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34649639 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
34649679 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
34649707 AGGTGTTTGC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:34653768 original size:27 final size:27
Alignment explanation
Indices: 34653738--34653911 Score: 179
Period size: 27 Copynumber: 6.4 Consensus size: 27
34653728 ATATTGAGTC
* *
34653738 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34653765 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
34653792 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34653820 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34653847 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
34653874 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
34653901 CGCACACTTAG
1 CGCACACTTAG
34653912 AGCTGTACAA
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34653877 original size:82 final size:81
Alignment explanation
Indices: 34653759--34653911 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 81
34653749 TGCTATATAA
* *
34653759 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34653824 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34653841 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34653905 CACTTAG
65 CACTTAG
34653912 AGCTGTACAA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 13 0.20
82 51 0.80
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34653898 original size:54 final size:54
Alignment explanation
Indices: 34653738--34653911 Score: 199
Period size: 54 Copynumber: 3.2 Consensus size: 54
34653728 ATATTGAGTC
* * * *
34653738 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
34653792 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
34653847 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
34653901 CGCACACTTAG
1 CGCACACTTAG
34653912 AGCTGTACAA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 54 0.53
55 45 0.45
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:34661681 original size:27 final size:27
Alignment explanation
Indices: 34661651--34661828 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34661641 ATATTGAGTC
* * * *
34661651 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34661678 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34661705 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34661733 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34661760 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34661787 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34661814 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34661829 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34661790 original size:82 final size:81
Alignment explanation
Indices: 34661672--34661827 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34661662 TGCTATATAA
* *
34661672 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34661737 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34661754 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34661818 CACTTAGTGC
65 CACTTAGTGC
34661828 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34669181 original size:39 final size:39
Alignment explanation
Indices: 34669086--34669347 Score: 302
Period size: 39 Copynumber: 6.6 Consensus size: 39
34669076 TTGAATGATG
*
34669086 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGA-TAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
34669124 ATCCGGACTAAGATCCGAAGGCATTTGCGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
34669165 TCTGGGCTAAGCCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
34669204 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34669243 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
34669282 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
34669321 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
34669348 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
39 128 0.65
40 56 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34677207 original size:39 final size:40
Alignment explanation
Indices: 34677112--34677332 Score: 244
Period size: 39 Copynumber: 5.6 Consensus size: 40
34677102 TTGAATGATG
* *
34677112 TCCGGGCTAAGTCCTGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
34677150 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
34677191 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34677230 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34677269 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
34677308 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
34677333 CGAACGAGGA
Statistics
Matches: 159, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 92 0.58
40 55 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34677256 original size:78 final size:80
Alignment explanation
Indices: 34677112--34677332 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 80
34677102 TTGAATGATG
* * * * * *
34677112 TCCGGGCTAAGTCCTGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
34677174 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
34677191 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
34677252 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* * *
34677269 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATT
34677333 CGAACGAGGA
Statistics
Matches: 122, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
78 45 0.37
79 56 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:34677366 original size:79 final size:78
Alignment explanation
Indices: 34677185--34677367 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 78
34677175 TGTGCGAGAT
* * * *
34677185 ACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGC
1 ACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGC
* ** *
34677250 ATTTGTGCGAGTT
66 ATTCGAACGAGTG
*
34677263 ACTAAATCCGGGTTAAGTCTCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGA
1 ACTAAATCCGGGTTAAGTC-CGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGA
34677326 AGGCATTCGAACGAG-G
62 AGGCATTCGAACGAGTG
* *
34677342 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTT-AAGTCCGAAGG
34677368 TACGTGATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
78 19 0.22
79 41 0.47
80 28 0.32
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
ACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGC
ATTCGAACGAGTG
Found at i:34680310 original size:17 final size:17
Alignment explanation
Indices: 34680288--34680332 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
34680278 ATTAATTGTT
*
34680288 TTGTGATGGATCAAGTG
1 TTGTGAAGGATCAAGTG
34680305 TTGTGAAGGATCAAGTG
1 TTGTGAAGGATCAAGTG
*
34680322 TTGGGAAGGAT
1 TTGTGAAGGAT
34680333 ACGTGGTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.38, T:0.31
Consensus pattern (17 bp):
TTGTGAAGGATCAAGTG
Found at i:34681235 original size:22 final size:22
Alignment explanation
Indices: 34681191--34681235 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
34681181 TCCCCACATG
*
34681191 GAGTGTAGGGCTGGATGGAGTA
1 GAGTGTAGGGATGGATGGAGTA
*
34681213 GAGTGTAGAGGATGGTTGG-GTA
1 GAGTGTAG-GGATGGATGGAGTA
34681235 G
1 G
34681236 GATCTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.24
Consensus pattern (22 bp):
GAGTGTAGGGATGGATGGAGTA
Found at i:34698043 original size:31 final size:31
Alignment explanation
Indices: 34698008--34698069 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
34697998 TTGGATACCT
34698008 GATGCTCATACAATATGGCCTAGAAAACTGA
1 GATGCTCATACAATATGGCCTAGAAAACTGA
34698039 GATGCTCATACAATATGGCCTAGAAAACTGA
1 GATGCTCATACAATATGGCCTAGAAAACTGA
34698070 CTTCTCGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (31 bp):
GATGCTCATACAATATGGCCTAGAAAACTGA
Found at i:34704553 original size:39 final size:40
Alignment explanation
Indices: 34704455--34704683 Score: 199
Period size: 39 Copynumber: 5.8 Consensus size: 40
34704445 TTGAATGATG
34704455 TCCGGGCTAAGTCCCGAAGGC-TTGTGCTA--AG-TGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATT-TG-TACGAGAT-ACTAAT
* *
34704493 ATCCGGACTAAGAT-CCAAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGATACTAAT
*
34704534 TCCGGGTTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAT
* * ** * *
34704573 TCTGGGCTAAG-CCCGAAGGCATTTCTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAT
* *
34704612 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGA-TACTAAT
* * *
34704651 AACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAG
34704684 GAGCTATATC
Statistics
Matches: 156, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
38 2 0.01
39 87 0.56
40 63 0.40
41 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAT
Found at i:34704659 original size:79 final size:80
Alignment explanation
Indices: 34704455--34704676 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 80
34704445 TTGAATGATG
* * * * * * *
34704455 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCAAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAGACCCGAAGGCATT
* *
34704518 TGTACGAGATACTAAT
65 TCTACGAGATACTAAA
* *
34704534 TCCGGGTTAAG-CCCGAAGGCATTTGTACGAGA-TACTA-ATTCTGGGCTAAG-CCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGACCCGAAGGCAT
** *
34704595 TTCTGTGAGTTACTAAA
64 TTCTACGAGATACTAAA
* * *
34704612 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
34704677 GAACGAGGAG
Statistics
Matches: 117, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
78 43 0.37
79 53 0.45
80 20 0.17
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
CTACGAGATACTAAA
Found at i:34709581 original size:37 final size:37
Alignment explanation
Indices: 34709522--34709631 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
34709512 TAGCTCCGAT
* *
34709522 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGAAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
* *
34709559 AAATCTCCACACGTAGTCATCGGGTCTTACACGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
34709596 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
34709632 TATATTTCCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
Found at i:34709829 original size:48 final size:48
Alignment explanation
Indices: 34709775--34709875 Score: 193
Period size: 48 Copynumber: 2.1 Consensus size: 48
34709765 ACACATCGCC
34709775 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
34709823 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
34709871 TACAT
1 TACAT
34709876 CAATTTCCGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:34713024 original size:27 final size:27
Alignment explanation
Indices: 34712937--34713027 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 27
34712927 CTGACTGATT
*
34712937 TCGCACACATAGCGCTC-GATTAAAGAAAC
1 TCGCACACATAGTGCTCAG-TT-AAG-AAC
* **
34712966 TCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTG-CTCAGTTAAGAA-C
34712995 TCGCACAC-TAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCAGTT-AAGAAC
34713022 TCGCAC
1 TCGCAC
34713028 TCTCAGTGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
27 13 0.25
28 10 0.20
29 23 0.45
30 5 0.10
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (27 bp):
TCGCACACATAGTGCTCAGTTAAGAAC
Found at i:34713337 original size:39 final size:39
Alignment explanation
Indices: 34713249--34713583 Score: 411
Period size: 39 Copynumber: 8.7 Consensus size: 39
34713239 CCAGCATGAT
* *
34713249 TGCTCTTCGGGAACCTAG-CCG--ATAACACCAG--CGAA
1 TGCTCTTCGGG-ACTTAGCCCGATATAACACTAGCACGAA
* * *
34713284 TGCTCTTCGGGACTTAACCCGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGATATAACACTAGCACGAA
* * * *
34713323 TGCTCTTTGAGACTTAGCCCGGATATATCAC-AGCACAAA
1 TGCTCTTCGGGACTTAGCCC-GATATAACACTAGCACGAA
*
34713362 TGCTCTTC-GGACTTAGCCCGA-ATAAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGATAT-AACACTAGCACGAA
* *
34713400 TGCTCTTC-GGACTTAGCCCCGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAG-CCCGATATAACACTAGCACGAA
34713439 TGCTCTTCGGGGACTTAGCCCGATATAACACTAGCACGAA
1 TGCTCTTC-GGGACTTAGCCCGATATAACACTAGCACGAA
34713479 TGCTCTTCGGGACTTAGCCCGGATATAACAC-AGCACGAA
1 TGCTCTTCGGGACTTAGCCC-GATATAACACTAGCACGAA
* *
34713518 TGCTCTTCGGGACTTAGCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGATATAACACTAGCACGAA
34713557 TGCTCTTCGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCC-GATATA
34713584 TAACTCTCGA
Statistics
Matches: 264, Mismatches: 21, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
34 4 0.02
35 14 0.05
36 2 0.01
37 14 0.05
38 43 0.16
39 126 0.48
40 53 0.20
41 8 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
TGCTCTTCGGGACTTAGCCCGATATAACACTAGCACGAA
Found at i:34713370 original size:78 final size:78
Alignment explanation
Indices: 34713280--34713584 Score: 454
Period size: 78 Copynumber: 3.9 Consensus size: 78
34713270 ATAACACCAG
* * * * * *
34713280 CGAATGCTCTTCGGGACTTAACCCGATATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGG
1 CGAATGCTCTTCGGGACTTAGCCCGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
34713345 ATATATCACAGCA
66 ATATATCACAGCA
* *
34713358 CAAATGCTCTTC-GGACTTAGCCCGA-ATAAACACCAGCACGAATGCTCTTC-GGACTTAGCCCC
1 CGAATGCTCTTCGGGACTTAGCCCGATAT-AACACCAGCACGAATGCTCTTCGGGACTTAGCCCG
*
34713420 GATACATCACTAGCA
65 GATATATCAC-AGCA
*
34713435 CGAATGCTCTTCGGGGACTTAGCCCGATATAACACTAGCACGAATGCTCTTCGGGACTTAGCCCG
1 CGAATGCTCTTC-GGGACTTAGCCCGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCG
*
34713500 GATATAACACAGCA
65 GATATATCACAGCA
*
34713514 CGAATGCTCTTCGGGACTTAGCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 CGAATGCTCTTCGGGACTTAGCCCGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
34713579 ATATAT
66 ATATAT
34713585 AACTCTCGAT
Statistics
Matches: 204, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
76 21 0.10
77 45 0.22
78 67 0.33
79 50 0.25
80 21 0.10
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (78 bp):
CGAATGCTCTTCGGGACTTAGCCCGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
ATATATCACAGCA
Found at i:34738134 original size:11 final size:13
Alignment explanation
Indices: 34738108--34738136 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34738098 CAAACGGGCA
34738108 TGTGACACAGGTG
1 TGTGACACAGGTG
34738121 TGTGACACAGGTG
1 TGTGACACAGGTG
34738134 TGT
1 TGT
34738137 CCCTACCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.28
Consensus pattern (13 bp):
TGTGACACAGGTG
Found at i:34757672 original size:40 final size:40
Alignment explanation
Indices: 34757592--34757810 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
34757582 TTCGGATGAC
* *
34757592 ATCCGGGCTAAGTCCTGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
34757631 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
34757671 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
34757711 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
34757751 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
34757791 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
34757811 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 37 0.22
40 132 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:34766170 original size:40 final size:40
Alignment explanation
Indices: 34766090--34766308 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
34766080 TTCGGATGAC
*
34766090 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
34766129 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
34766169 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
34766209 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
34766249 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
34766289 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
34766309 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 38 0.22
40 132 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:34769453 original size:19 final size:19
Alignment explanation
Indices: 34769401--34769453 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
34769391 AAATGAGAAT
* *
34769401 CAGAATTAGAATCAAGTGA
1 CAGAATTAGAATCAGGTAA
*
34769420 CAGAATTAGTATCAGGTAA
1 CAGAATTAGAATCAGGTAA
34769439 CAGAATTAGAATCAG
1 CAGAATTAGAATCAG
34769454 AATGTGAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (19 bp):
CAGAATTAGAATCAGGTAA
Found at i:34770133 original size:27 final size:26
Alignment explanation
Indices: 34770070--34770185 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 26
34770060 AGGGGCAAAA
* * * *
34770070 TGGTAATTTTACCCCACAAGGTTATCT
1 TGGTAATTCTACCCTACAGGGGTAT-T
*
34770097 CGGTAATTCTACCCTACAGGGGTATT
1 TGGTAATTCTACCCTACAGGGGTATT
* * *
34770123 TATGTATTTCTACCCTACAAGGGTATAT
1 T-GGTAATTCTACCCTACAGGGGTAT-T
*
34770151 TGGTAATTCTACCCTACCGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTA-TT
34770178 TGGTAATT
1 TGGTAATT
34770186 TAAAAATCGA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.01
27 69 0.95
28 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (26 bp):
TGGTAATTCTACCCTACAGGGGTATT
Found at i:34770173 original size:54 final size:53
Alignment explanation
Indices: 34770075--34770177 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
34770065 CAAAATGGTA
* *
34770075 ATTTTACCCCACAAGGTTATCTCGGTAATTCTACCCTACAGGGGTATTTATGT
1 ATTTTACCCCACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTATGT
* * *
34770128 ATTTCTACCCTACAAGGGTATATTGGTAATTCTACCCTACCGGGGTATTT
1 ATTT-TACCCCACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTT
34770178 TGGTAATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTATGT
Found at i:34771154 original size:122 final size:122
Alignment explanation
Indices: 34770937--34771180 Score: 454
Period size: 122 Copynumber: 2.0 Consensus size: 122
34770927 CTCCAACACT
34770937 TCTCAGCACACTTAACCACTAAAAAAAGCCTTCATTAACGAAATTTACGTGCACAACAAAATATT
1 TCTCAGCACACTTAACCACTAAAAAAAGCCTTCATTAACGAAATTTACGTGCACAACAAAATATT
34771002 ATAAGCTGCCTTCAACCGCTCACATGCTCAAGGCCCAAAACTTCTAAGCCCAAATTC
66 ATAAGCTGCCTTCAACCGCTCACATGCTCAAGGCCCAAAACTTCTAAGCCCAAATTC
* *
34771059 TCTCAGCACACTTAACCACTAAAACAAA-CCTTTATTAACTAAATTTACGTGCACAACAAAATAT
1 TCTCAGCACACTTAACCACTAAAA-AAAGCCTTCATTAACGAAATTTACGTGCACAACAAAATAT
34771123 TATAAGCTGCCTTCAACCGCTCACATGCTCAAGGCCCAAAACTTCTAAGCCCAAATTC
65 TATAAGCTGCCTTCAACCGCTCACATGCTCAAGGCCCAAAACTTCTAAGCCCAAATTC
34771181 AGGGTGTTAC
Statistics
Matches: 119, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
122 116 0.97
123 3 0.03
ACGTcount: A:0.38, C:0.30, G:0.09, T:0.24
Consensus pattern (122 bp):
TCTCAGCACACTTAACCACTAAAAAAAGCCTTCATTAACGAAATTTACGTGCACAACAAAATATT
ATAAGCTGCCTTCAACCGCTCACATGCTCAAGGCCCAAAACTTCTAAGCCCAAATTC
Found at i:34777622 original size:34 final size:33
Alignment explanation
Indices: 34777567--34777637 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
34777557 ATGCATTTTG
*
34777567 GATACTATACTGAAATGGGCTATGACCCACACT
1 GATACTATACTGAAATGGGCTAAGACCCACACT
* * * *
34777600 GATACTATTACTGTATTTGGCTAAGGCCCACACT
1 GATACTA-TACTGAAATGGGCTAAGACCCACACT
34777634 GATA
1 GATA
34777638 TTGCAACTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (33 bp):
GATACTATACTGAAATGGGCTAAGACCCACACT
Found at i:34787345 original size:42 final size:42
Alignment explanation
Indices: 34787298--34787389 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
34787288 TGGCCTATAG
* ** *
34787298 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
* *
34787340 GCCCATTTCAATATTATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
34787382 GCCCATTT
1 GCCCATTT
34787390 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:34787563 original size:25 final size:25
Alignment explanation
Indices: 34787522--34787605 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
34787512 CTGGAGGCCT
34787522 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
** *
34787546 AGCCCTTTTCGGTAAACTAGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
34787571 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
34787597 AGCCCTTTT
1 AGCCCTTTT
34787606 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
25 31 0.61
26 10 0.20
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:34787780 original size:25 final size:25
Alignment explanation
Indices: 34787737--34787784 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34787727 ATAATTAAAC
* **
34787737 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAACAGTCATTTTTA
34787762 CCTAGGGGTAAAACAGTCATTTT
1 CCTAGGGGTAAAACAGTCATTTT
34787785 CATACTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAACAGTCATTTTTA
Found at i:34788467 original size:27 final size:27
Alignment explanation
Indices: 34788406--34788470 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
34788396 GGCATATTCA
*
34788406 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCCTACAAGGGTATTACGG
*
34788433 TCACTTTACCCTACAAGGGCT-TTACGG
1 TCATTTTACCCTACAAGGG-TATTACGG
*
34788460 TCTTTTTACCC
1 TCATTTTACCC
34788471 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAAGGGTATTACGG
Found at i:34788553 original size:27 final size:27
Alignment explanation
Indices: 34788527--34788779 Score: 147
Period size: 27 Copynumber: 9.3 Consensus size: 27
34788517 ATCTAAAAAC
*
34788527 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
34788554 CAATGGTATTTCTA-TAATTTTTTGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT-AAA-T
34788583 CAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTTC-AGTAATTTTGTAAAT
* ** **
34788610 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * ***
34788637 TGAGGGTATTT-TGATAATTTCACAAA-
1 CAAGGGTATTTCAG-TAATTTTGTAAAT
** **
34788663 CAAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCAGTAATTTTGTAAAT
* ** *
34788690 CTAGAGGTATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTCAGTAATTTTGTAAAT
*
34788718 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *** *
34788745 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
34788772 CGAGGGTA
1 CAAGGGTA
34788780 AAATGGTAAT
Statistics
Matches: 186, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.02
27 151 0.81
28 11 0.06
29 21 0.11
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:34788672 original size:54 final size:54
Alignment explanation
Indices: 34788613--34788752 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 54
34788603 TGTAAATCAG
34788613 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGATAATTTCACAAA-CAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGATAATTTCACAAACCAA
* * ***
34788666 GTGGTATTTTGGTAATTTTACAAACT-AGAGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAATTTTACAAATTGAG-GGTATTTTGATAATTTCACAAACCAA
* ** *
34788721 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
34788753 AAACAGTAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
53 3 0.04
54 64 0.88
55 6 0.08
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGATAATTTCACAAACCAA
Found at i:34788780 original size:27 final size:27
Alignment explanation
Indices: 34788731--34788887 Score: 251
Period size: 27 Copynumber: 5.8 Consensus size: 27
34788721 GGGTATTTTA
* *
34788731 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
34788758 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
34788785 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
34788812 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
34788839 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
34788866 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
34788888 CTTTGGTAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:34788787 original size:81 final size:81
Alignment explanation
Indices: 34788702--34788911 Score: 276
Period size: 81 Copynumber: 2.6 Consensus size: 81
34788692 AGAGGTATTT
* * * * * *
34788702 TGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
1 TGGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTG
*
34788767 TAAATCGAGGGTAAAA
66 TAAATCAAGGGTAAAA
* ** * *
34788783 TGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTG
1 TGGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTG
34788848 TAAATCAAGGGTAAAA
66 TAAATCAAGGGTAAAA
* * * *
34788864 CGGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGG
1 TGGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGG
34788912 ACATTTTAGT
Statistics
Matches: 109, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.32
Consensus pattern (81 bp):
TGGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTG
TAAATCAAGGGTAAAA
Found at i:34792065 original size:56 final size:56
Alignment explanation
Indices: 34791974--34792126 Score: 206
Period size: 56 Copynumber: 2.7 Consensus size: 56
34791964 TCTTACATGT
*
34791974 AATCACATATCGATGCCACTGT-CTCAGATA-G-GGTCTTACTCGCACACATAAATC-A
1 AATCACATATCGATGCCAATGTACT-A-A-ACGTGGTCTTACTCGCACACATAAATCGA
*
34792029 GAATCACATATCGATGCCAATGTACTAAACGTGGTCTTACTCGCACACATATATCGA
1 -AATCACATATCGATGCCAATGTACTAAACGTGGTCTTACTCGCACACATAAATCGA
* *
34792086 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTC
1 AATCACATATCGATGCCAATGTACTAAACGTGGTCTTACTC
34792127 AACATCAGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
54 1 0.01
55 2 0.02
56 83 0.93
57 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (56 bp):
AATCACATATCGATGCCAATGTACTAAACGTGGTCTTACTCGCACACATAAATCGA
Found at i:34792139 original size:56 final size:56
Alignment explanation
Indices: 34792005--34792145 Score: 178
Period size: 56 Copynumber: 2.5 Consensus size: 56
34791995 TCTCAGATAG
* * * *
34792005 GGTCTTACTCGCACACATAAATC-AGAATCACATATCGATGCCAATGTACTAAACGT
1 GGTCTTACTCGAACACAGATATCGA-AATCACATATCGATGCCAACGTACTAAACGT
* * *
34792061 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGAACACAGATATCGAAATCACATATCGATGCCAACGTACTAAACGT
*
34792117 GGTCTTACTC-AACATCAGATATCGGAATC
1 GGTCTTACTCGAACA-CAGATATCGAAATC
34792146 CTATGTCGTG
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
55 3 0.04
56 73 0.95
57 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGAACACAGATATCGAAATCACATATCGATGCCAACGTACTAAACGT
Found at i:34797503 original size:45 final size:45
Alignment explanation
Indices: 34797452--34797543 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
34797442 ATCAAGAATG
34797452 AACACAACATATAATTATATCTCATATACATGTATCATCCATTTC
1 AACACAACATATAATTATATCTCATATACATGTATCATCCATTTC
34797497 AACACAACATATAATTATATCTCATATACATGTATCATCCATTTC
1 AACACAACATATAATTATATCTCATATACATGTATCATCCATTTC
34797542 AA
1 AA
34797544 TTCTAAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.35
Consensus pattern (45 bp):
AACACAACATATAATTATATCTCATATACATGTATCATCCATTTC
Found at i:34801468 original size:18 final size:18
Alignment explanation
Indices: 34801445--34801509 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
34801435 CAGTCAGTAA
*
34801445 CAGTAAATAGTGCAATAT
1 CAGTAAACAGTGCAATAT
* *
34801463 CAGTAAACAATGCAACAT
1 CAGTAAACAGTGCAATAT
* *
34801481 TAGTAAACAGTGCAGTAT
1 CAGTAAACAGTGCAATAT
*
34801499 CAGCAAACAGT
1 CAGTAAACAGT
34801510 ATGCAAGTCC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
CAGTAAACAGTGCAATAT
Found at i:34801965 original size:80 final size:80
Alignment explanation
Indices: 34801832--34802124 Score: 415
Period size: 80 Copynumber: 3.7 Consensus size: 80
34801822 CAATATATAT
* * * * *
34801832 CACATAAGGGAAAAACAATCAATTTACCATATAGGGGCATTTCAGTTATTTTACCAACTAGGGTA
1 CACATAAGGGCAAAACAGTCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCA
*
34801897 AAACAGTCATTTTAC
66 AAACAGTAATTTTAC
* * * *
34801912 CACATAAGGGCAAAATAGTCAATTTTCCATGTAGGGCCATTTCGGTCATTTTACCAACTAGGGCA
1 CACATAAGGGCAAAACAGTCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCA
* *
34801977 AAACAATAAATTTAC
66 AAACAGTAATTTTAC
* * *
34801992 CACATAAGGGCAAAATAGTCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACAAGAGCA
1 CACATAAGGGCAAAACAGTCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCA
* * *
34802057 AAACGGTTATTTTAG
66 AAACAGTAATTTTAC
*
34802072 CACATAAGGGCAAAACAGTCAATTTACCATTTAGGGGCATTTCAGTCATTTTA
1 CACATAAGGGCAAAACAGTCAATTTACCATGTAGGGGCATTTCAGTCATTTTA
34802125 TCCACTAAGG
Statistics
Matches: 189, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 189 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (80 bp):
CACATAAGGGCAAAACAGTCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCA
AAACAGTAATTTTAC
Found at i:34802109 original size:27 final size:27
Alignment explanation
Indices: 34801835--34802110 Score: 141
Period size: 27 Copynumber: 10.3 Consensus size: 27
34801825 TATATATCAC
* *
34801835 ATAAGGGAAAAACAATCAATTTACCAT
1 ATAAGGGCAAAACAGTCAATTTACCAT
* *** * *
34801862 ATAGGGGCATTTCAGTTATTTTACCA-
1 ATAAGGGCAAAACAGTCAATTTACCAT
* * *
34801888 ACT-AGGGTAAAACAGTCATTTTACCAC
1 A-TAAGGGCAAAACAGTCAATTTACCAT
* *
34801915 ATAAGGGCAAAATAGTCAATTTTCCAT
1 ATAAGGGCAAAACAGTCAATTTACCAT
* *** * *
34801942 GT-AGGGCCATTTCGGTCATTTTACCA-
1 ATAAGGG-CAAAACAGTCAATTTACCAT
* * *
34801968 ACT-AGGGCAAAACAATAAATTTACCAC
1 A-TAAGGGCAAAACAGTCAATTTACCAT
*
34801995 ATAAGGGCAAAATAGTCAATTTACCAT
1 ATAAGGGCAAAACAGTCAATTTACCAT
* * *** *
34802022 GTAGGGGCATTTCAGTCATTTTACCA-
1 ATAAGGGCAAAACAGTCAATTTACCAT
* * * * * * *
34802048 ACAAGAGCAAAACGGTTATTTTAGCAC
1 ATAAGGGCAAAACAGTCAATTTACCAT
34802075 ATAAGGGCAAAACAGTCAATTTACCAT
1 ATAAGGGCAAAACAGTCAATTTACCAT
* *
34802102 TTAGGGGCA
1 ATAAGGGCA
34802111 TTTCAGTCAT
Statistics
Matches: 176, Mismatches: 65, Indels: 16
0.68 0.25 0.06
Matches are distributed among these distances:
26 52 0.30
27 124 0.70
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (27 bp):
ATAAGGGCAAAACAGTCAATTTACCAT
Found at i:34805822 original size:16 final size:16
Alignment explanation
Indices: 34805797--34805839 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
34805787 GTAGATCGGT
* **
34805797 AAAAGCCGAAATGCTG
1 AAAAGTCGAAATGCCA
34805813 AAAAGTCGAAATGCCA
1 AAAAGTCGAAATGCCA
34805829 AAAAGTCGAAA
1 AAAAGTCGAAA
34805840 ATTTGGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.21, T:0.12
Consensus pattern (16 bp):
AAAAGTCGAAATGCCA
Found at i:34814137 original size:28 final size:29
Alignment explanation
Indices: 34814118--34814223 Score: 121
Period size: 28 Copynumber: 3.8 Consensus size: 29
34814108 TATAAATTAG
*
34814118 ATTGGGCCTAATGGGCCATATGAACGTGA
1 ATTGGGCCTAATGGGCCATATGAAAGTGA
* *
34814147 ATTGGGCCTGATGGG-CATATGAACGTGA
1 ATTGGGCCTAATGGGCCATATGAAAGTGA
*
34814175 ATTGGGCCTGATGGGCCATAT-AAA-TGA
1 ATTGGGCCTAATGGGCCATATGAAAGTGA
* *
34814202 GA-TGGGCCTAGTGAGCCATATG
1 -ATTGGGCCTAATGGGCCATATG
34814224 CATGTATGTA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
27 19 0.28
28 31 0.45
29 19 0.28
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
ATTGGGCCTAATGGGCCATATGAAAGTGA
Found at i:34814153 original size:29 final size:29
Alignment explanation
Indices: 34814118--34814195 Score: 140
Period size: 28 Copynumber: 2.7 Consensus size: 29
34814108 TATAAATTAG
*
34814118 ATTGGGCCTAATGGGCCATATGAACGTGA
1 ATTGGGCCTGATGGGCCATATGAACGTGA
34814147 ATTGGGCCTGATGGG-CATATGAACGTGA
1 ATTGGGCCTGATGGGCCATATGAACGTGA
34814175 ATTGGGCCTGATGGGCCATAT
1 ATTGGGCCTGATGGGCCATAT
34814196 AAATGAGATG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 28 0.60
29 19 0.40
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
ATTGGGCCTGATGGGCCATATGAACGTGA
Found at i:34818287 original size:29 final size:29
Alignment explanation
Indices: 34818216--34818334 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 29
34818206 CACATACCTG
* * *
34818216 TATATGGCCCATTAGACCCAACT-ATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
34818244 CACATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* **
34818273 TATATGGGCTTTTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
34818302 TATGTGGCCCATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
34818330 TATAT
1 TATAT
34818335 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 24 0.32
29 51 0.68
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:34818571 original size:16 final size:16
Alignment explanation
Indices: 34818546--34818588 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
34818536 GTAGCCAAAC
34818546 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
* *
34818562 TTTTGGCTTTTCGGCA
1 TTTCGGCTTTTCAGCA
34818578 TTTCGGCTTTT
1 TTTCGGCTTTT
34818589 GATGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:34819819 original size:7 final size:7
Alignment explanation
Indices: 34819807--34819839 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
34819797 TTTTCTGAGA
34819807 CCCAAAG
1 CCCAAAG
34819814 CCCAAAG
1 CCCAAAG
34819821 CCCAAAG
1 CCCAAAG
34819828 CCCAAAG
1 CCCAAAG
34819835 CCCAA
1 CCCAA
34819840 TTCATCTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.45, G:0.12, T:0.00
Consensus pattern (7 bp):
CCCAAAG
Found at i:34820445 original size:55 final size:54
Alignment explanation
Indices: 34820303--34820510 Score: 219
Period size: 55 Copynumber: 3.8 Consensus size: 54
34820293 ATCCTTTTGA
* *
34820303 AACTTACCATTGCCATGTCTTGACATGGTCTTACATG-GTATCTTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTACCTTTGCCTTATG
* * * *
34820356 AACTCACCAAAGCCATGCCTTGGCATGGTCTTACATGAG-ACCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTACCTTTGCCTTAT-G
* * *
34820410 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC-TTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTACCTTTGCCTTATG
* * *
34820463 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTCCATG-GTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGAGTA-CCTT
34820511 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 20, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
53 47 0.37
54 10 0.08
55 67 0.53
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGTACCTTTGCCTTATG
Found at i:34824538 original size:29 final size:29
Alignment explanation
Indices: 34824502--34824584 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 29
34824492 TTCACATAGA
34824502 CCATTAGGCCCAAATCACATTTATATCTC
1 CCATTAGGCCCAAATCACATTTATATCTC
* * *
34824531 CCTTTAGGCCCAAATCACATTTATGTTTC
1 CCATTAGGCCCAAATCACATTTATATCTC
34824560 CCATTAGGCCCAAATCACA-TTATAT
1 CCATTAGGCCCAAATCACATTTATAT
34824585 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 5 0.10
29 44 0.90
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (29 bp):
CCATTAGGCCCAAATCACATTTATATCTC
Found at i:34842285 original size:40 final size:40
Alignment explanation
Indices: 34842124--34842278 Score: 240
Period size: 40 Copynumber: 3.9 Consensus size: 40
34842114 TATTGGATTG
* * *
34842124 ATAACCGGGCTAAG-CCTGAAGGCATTCGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
34842163 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
34842203 ATAACCGGGCCAAGTCTCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
34842243 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGT
34842279 AGCTATATTC
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.12
40 93 0.88
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:34851180 original size:42 final size:42
Alignment explanation
Indices: 34851065--34851182 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
34851055 TGAAAAGCTC
* *
34851065 GTACAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAA
1 GTACGATGCCAACGTCCCAAACGTGGTCTTACATGAAATCAA
* * * **
34851107 ATACCGATACC-ACTGTCCCATACAAGGTCTTACATGAAATCAA
1 GTA-CGATGCCAAC-GTCCCAAACGTGGTCTTACATGAAATCAA
*
34851150 GTACGATGCCAACGTCCCAGACGTGGTCTTACA
1 GTACGATGCCAACGTCCCAAACGTGGTCTTACA
34851183 CGATAACACA
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
GTACGATGCCAACGTCCCAAACGTGGTCTTACATGAAATCAA
Found at i:34859013 original size:41 final size:42
Alignment explanation
Indices: 34858916--34859022 Score: 128
Period size: 41 Copynumber: 2.5 Consensus size: 42
34858906 AATACTCAAT
** *
34858916 ATCTCGCACACTAAGTGCCTATACATAGCTGAAGCTAATATA
1 ATCTCGCACACTAAGTGCCTATACATAGCCAAAGCTAATACA
*
34858958 ATCTCGCACGCTAAGTGCCT-TACATAGCCAAAGCT-ATCACA
1 ATCTCGCACACTAAGTGCCTATACATAGCCAAAGCTAAT-ACA
* *
34858999 GTCTCACACACTAAGTGCCATATA
1 ATCTCGCACACTAAGTGCC-TATA
34859023 TAGTCGAAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
40 2 0.04
41 31 0.56
42 20 0.36
43 2 0.04
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCTATACATAGCCAAAGCTAATACA
Found at i:34859083 original size:39 final size:40
Alignment explanation
Indices: 34859002--34859103 Score: 129
Period size: 39 Copynumber: 2.6 Consensus size: 40
34858992 TATCACAGTC
34859002 TCACACACTAAGTGCCATATATAGTCGAAGCCATTCCAAA
1 TCACACACTAAGTGCCATATATAGTCGAAGCCATTCCAAA
* **
34859042 TCACACACTAAGTGCCA-ACTATAGT-GAAG-CTTTCTTGAA
1 TCACACACTAAGTGCCATA-TATAGTCGAAGCCATTC-CAAA
*
34859081 TCATACACTAAGTGCCATATATA
1 TCACACACTAAGTGCCATATATA
34859104 TCCGAATTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
38 4 0.07
39 27 0.49
40 24 0.44
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATAGTCGAAGCCATTCCAAA
Found at i:34863988 original size:55 final size:54
Alignment explanation
Indices: 34863858--34864151 Score: 339
Period size: 55 Copynumber: 5.4 Consensus size: 54
34863848 GGATATCATT
*
34863858 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC-AAGGATACCATG
1 TAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGG-TACCATG
***
34863912 TAAGACCATG-TTTGGAACATGGCATTGATGAGTTACTATAAGGCAAAGGT-CCTATG
1 TAAGACCATGCCAAGG--CATGGCATTGATGAGTT-CTATAAGGCAAAGGTACC-ATG
* * * *
34863968 TAAGACCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAATGATACCATG
1 TAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGTACCATG
* * * *
34864021 TAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAACGCAAAGGTCCCATG
1 TAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGCAAAGGTACCATG
* *
34864076 TAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGGC-AAGGATACCATG
1 TAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGG-TACCATG
* *
34864129 TAAGACCATGTCAAGACATGGCA
1 TAAGACCATGCCAAGGCATGGCA
34864152 ATGGTAATTT
Statistics
Matches: 202, Mismatches: 28, Indels: 21
0.80 0.11 0.08
Matches are distributed among these distances:
52 4 0.02
53 77 0.38
54 15 0.07
55 78 0.39
56 22 0.11
57 6 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
TAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGTACCATG
Found at i:34864024 original size:53 final size:54
Alignment explanation
Indices: 34863849--34864151 Score: 344
Period size: 53 Copynumber: 5.6 Consensus size: 54
34863839 GTAATATAAG
* * * *
34863849 GATATCATTTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAA
***
34863903 GATACCATGTAAGACCATG-TTTGGAACATGGCATTGATGAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGG--CATGGCATTGATGAGTT-CTATAAGGCAAA
* * * *
34863959 GGT-CCTATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAT
1 GATACC-ATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAA
* * *
34864012 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAACGCAAA
1 GATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGCAAA
* * * * *
34864067 GGTCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAA
* *
34864120 GATACCATGTAAGACCATGTCAAGACATGGCA
1 GATACCATGTAAGACCATGCCAAGGCATGGCA
34864152 ATGGTAATTT
Statistics
Matches: 207, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
53 80 0.39
54 22 0.11
55 78 0.38
56 25 0.12
57 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAA
Found at i:34864181 original size:108 final size:108
Alignment explanation
Indices: 34863858--34864151 Score: 480
Period size: 108 Copynumber: 2.7 Consensus size: 108
34863848 GGATATCATT
* *
34863858 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGATACCATGTAAGACCATGT
1 TAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACCATGT
*** *
34863923 TTGGAACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCTATG
65 CAAG-ACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATG
* *
34863968 TAAGACCGTGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGATACCATGTAAGACCATGTC
1 TAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTC
*
34864033 AAGACATGGCATTGATGAGTTACTATAACGCAAAGGTCCCATG
66 AAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATG
*
34864076 TAAGACCATGCCAAGGCATGACATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTC
1 TAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTC
34864141 AAGACATGGCA
66 AAGACATGGCA
34864152 ATGGTAATTT
Statistics
Matches: 172, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
108 111 0.65
109 30 0.17
110 31 0.18
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (108 bp):
TAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTC
AAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATG
Found at i:34872025 original size:13 final size:13
Alignment explanation
Indices: 34872007--34872046 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
34871997 AACAAAGTAG
34872007 GACACGGCTGTGC
1 GACACGGCTGTGC
*
34872020 GACACGGCTATGC
1 GACACGGCTGTGC
*
34872033 GACACGACTGTGC
1 GACACGGCTGTGC
34872046 G
1 G
34872047 TACCAACACG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.35, T:0.15
Consensus pattern (13 bp):
GACACGGCTGTGC
Found at i:34879459 original size:6 final size:6
Alignment explanation
Indices: 34879432--34879477 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
34879422 TTTTGAAGAC
* *
34879432 TTTTAT TTATTAT TTATTAT TTTTAT TTTTAC TTTTAT CTTTAT TT
1 TTTTAT TT-TTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
34879478 ATCTTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 22 0.63
7 13 0.37
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:34885577 original size:47 final size:47
Alignment explanation
Indices: 34885511--34885686 Score: 151
Period size: 47 Copynumber: 3.6 Consensus size: 47
34885501 GCATTAGCAC
* *
34885511 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *** *
34885558 TAAGATAAAGATATCATGTAAGACCATGCCAAGG--CATGGCA-TTGA
1 TAAGATAAAGATACCATGTAAGACCATG-TTTGGAACATGGCATTTGG
*
34885603 TAAGTTCTATAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTCG
1 TAAG----AT---A-AA-GATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
34885659 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGATAAAGATACCATGTAAGACCATG
34885687 CCAAGGCATG
Statistics
Matches: 101, Mismatches: 15, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
45 7 0.07
46 7 0.07
47 43 0.43
48 3 0.03
49 3 0.03
52 3 0.03
53 4 0.04
54 18 0.18
55 7 0.07
56 6 0.06
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGATAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:34885634 original size:101 final size:101
Alignment explanation
Indices: 34885511--34885741 Score: 417
Period size: 101 Copynumber: 2.3 Consensus size: 101
34885501 GCATTAGCAC
*
34885511 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTCGTAAGATAAAGATATCATG
34885576 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
*
34885612 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTCGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTCGTAAGATAAAGATATCATG
34885677 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * *
34885713 TAAGGCAAGGAAATCATGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
34885742 CAATACATGG
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 125 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (101 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTCGTAAGATAAAGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:34885804 original size:53 final size:53
Alignment explanation
Indices: 34885676--34885967 Score: 270
Period size: 53 Copynumber: 5.5 Consensus size: 53
34885666 AGGATATCAT
* ***
34885676 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC-AAGGAAATCA
1 GTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGG-TCCCA
* ** * *
34885729 TGTAAGACCATGTCAATACATGGCATTGATGAGTTATTATAAGGTAAAGGTCCCA
1 -GTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGCAAAGGTCCCA
* * * *
34885784 -TAAGACCATGCCAAGGCATGGCATTGGTGAGTT-TATAAGGCAATGATACCA
1 GTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGTCCCA
* * *
34885835 TGTAAGACCGTGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCA
1 -GTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGCAAAGGTCCCA
* * * * *
34885890 TGTAAGACCATGCTAAGGCATGGCATTGGTGAGCTC-ATCAGGC-AAGGATACCA
1 -GTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGG-TCCCA
* *
34885943 TGTAAGACCATGTCAAGACATGGCA
1 -GTAAGACCATGCCAAGGCATGGCA
34885968 ATGGTAAGTT
Statistics
Matches: 196, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
51 14 0.07
52 4 0.02
53 90 0.46
54 31 0.16
55 53 0.27
56 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (53 bp):
GTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGTCCCA
Found at i:34885949 original size:108 final size:108
Alignment explanation
Indices: 34885673--34885967 Score: 450
Period size: 108 Copynumber: 2.7 Consensus size: 108
34885663 ATAAGGATAT
* * * *
34885673 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
* * *
34885738 ATGTCAATACATGGCATTGATGAGTTATTATAAGGTAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
* * *
34885782 CA--TAAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGCAATGATACCATGTAAGACCG
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
34885845 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
* * *
34885888 CATGTAAGACCATGCTAAGGCATGGCATTGGTGAGCTCATCAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
34885953 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
34885968 ATGGTAAGTT
Statistics
Matches: 168, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
106 65 0.39
107 31 0.18
108 70 0.42
109 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
Found at i:34885997 original size:108 final size:107
Alignment explanation
Indices: 34885673--34886002 Score: 414
Period size: 108 Copynumber: 3.1 Consensus size: 107
34885663 ATAAGGATAT
* * * *
34885673 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
* *
34885738 ATGTCAATACATGGCATTGATGAGTT-ATTATAAGGTAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTCA--ATAAGGAAAAGGTCC
* * *
34885782 CA--TAAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGCAATGATACCATGTAAGACCG
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
* *
34885845 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 TGTCAAGACATGGCATTGATGAGTT-CAATAAGGAAAAGGTCC
* * *
34885888 CATGTAAGACCATGCTAAGGCATGGCATTGGTGAGCTCATCAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
* * * * *
34885953 TGTCAAGACATGGCAATGGTAAGTTCAAAAAAGAAAAGGTTCC
66 TGTCAAGACATGGCATTGATGAGTTCAATAAGGAAAAGG-TCC
*
34885996 CAAGTAA
1 CATGTAA
34886003 TCCAAAGAGT
Statistics
Matches: 192, Mismatches: 24, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
106 63 0.33
107 41 0.21
108 86 0.45
109 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (107 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTCAATAAGGAAAAGGTCC
Found at i:34898989 original size:80 final size:79
Alignment explanation
Indices: 34898840--34899062 Score: 223
Period size: 80 Copynumber: 2.8 Consensus size: 79
34898830 TTGAATGCTG
* * * ** * * * * *
34898840 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
34898904 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * * *
34898920 TCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
34898985 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
34899000 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
34899063 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 35 0.30
80 79 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:34899044 original size:39 final size:40
Alignment explanation
Indices: 34898893--34899062 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
34898883 GGACTAAGAT
* * *
34898893 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
34898933 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
34898973 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
34899013 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
34899052 CCGAAGGCATT
1 CCGAAGGCATT
34899063 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 33 0.29
40 81 0.71
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:34899082 original size:79 final size:80
Alignment explanation
Indices: 34898915--34899097 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
34898905 GTGCGAGATA
* * * *
34898915 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
34898980 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
34898995 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
34899059 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
34899074 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
34899098 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 26 0.30
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:34900483 original size:23 final size:23
Alignment explanation
Indices: 34900446--34900503 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
34900436 GTGTTACAAT
34900446 TTCGGTGCA-ATTCATTCTAGCAC
1 TTCGGTGCATA-TCATTCTAGCAC
* *
34900469 TTCGGTGCATATCATTTTGGCAC
1 TTCGGTGCATATCATTCTAGCAC
* *
34900492 TGCAGTGCATAT
1 TTCGGTGCATAT
34900504 ATGCAGTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (23 bp):
TTCGGTGCATATCATTCTAGCAC
Found at i:34903788 original size:27 final size:27
Alignment explanation
Indices: 34903758--34903814 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
34903748 TCACCAAATA
34903758 CAGAAAAGAT-ATATGTGGCAAAGCCAC
1 CAGAAAAGATAAT-TGTGGCAAAGCCAC
** *
34903785 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGAAAAGATAATTGTGGCAAAGCCAC
34903812 CAG
1 CAG
34903815 GACGCTTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGAAAAGATAATTGTGGCAAAGCCAC
Found at i:34904974 original size:16 final size:16
Alignment explanation
Indices: 34904949--34904981 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34904939 CTAAAAGAAA
34904949 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
34904965 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
34904981 A
1 A
34904982 GAATTCGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:34907357 original size:56 final size:56
Alignment explanation
Indices: 34907288--34907405 Score: 191
Period size: 56 Copynumber: 2.1 Consensus size: 56
34907278 TGTAATCACC
*
34907288 TATACCAGAATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACA
1 TATATCAGAATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACA
* * **
34907344 TTTATCAGAATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACA
1 TATATCAGAATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACA
34907400 TATATC
1 TATATC
34907406 GATGCCATGG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.29
Consensus pattern (56 bp):
TATATCAGAATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGCACACA
Found at i:34908095 original size:45 final size:45
Alignment explanation
Indices: 34908045--34908135 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
34908035 AAACATACCT
*
34908045 TTCATAATTCATTATCTAACTCCACAAAGCTCAATTATTCATCAA
1 TTCATAATTCATCATCTAACTCCACAAAGCTCAATTATTCATCAA
* *
34908090 TTCATAATTCATCGTCTAACTTCACAAAGCTCAATTATTCATCAA
1 TTCATAATTCATCATCTAACTCCACAAAGCTCAATTATTCATCAA
34908135 T
1 T
34908136 GGCATAACTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (45 bp):
TTCATAATTCATCATCTAACTCCACAAAGCTCAATTATTCATCAA
Found at i:34914538 original size:25 final size:25
Alignment explanation
Indices: 34914510--34914596 Score: 149
Period size: 25 Copynumber: 3.5 Consensus size: 25
34914500 CTCTTTTAAT
*
34914510 AACTGGGGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAG-CCTTTTTCGGTA
34914535 AACTGGGGCAAAGCCTTTTTCGGTA
1 AACTGGGGCAAAGCCTTTTTCGGTA
34914560 AACTGGGGCAAAGCCTTTTTCGGTA
1 AACTGGGGCAAAGCCTTTTTCGGTA
34914585 AACTGGGGCAAA
1 AACTGGGGCAAA
34914597 ACCCTTTTAG
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
24 7 0.12
25 53 0.88
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCTTTTTCGGTA
Found at i:34914540 original size:50 final size:50
Alignment explanation
Indices: 34914497--34914596 Score: 134
Period size: 50 Copynumber: 2.0 Consensus size: 50
34914487 CTGGAGGCCT
34914497 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTT-GATAAACTGGGGCAA
1 AGCCT-TTTTCAATAAACTGGGGCAAAG-CCTTTTTCGATAAACTGGGGCAA
** *
34914546 AGCCTTTTTCGGTAAACTGGGGCAAAGCCTTTTTCGGTAAACTGGGGCAA
1 AGCCTTTTTCAATAAACTGGGGCAAAGCCTTTTTCGATAAACTGGGGCAA
34914596 A
1 A
34914597 ACCCTTTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
48 4 0.09
49 13 0.29
50 28 0.62
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (50 bp):
AGCCTTTTTCAATAAACTGGGGCAAAGCCTTTTTCGATAAACTGGGGCAA
Done.