Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 71 of 144
Found at i:21550344 original size:30 final size:26
Alignment explanation
Indices: 21550284--21550347 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 26
21550274 AATAAATAAT
*
21550284 CAAAATATTATAATTTTTTTATTTAT
1 CAAAATATTATAATTTTTTTATTTAC
21550310 CAAAATATTATAATTATTTTTATTATTTAC
1 CAAAATATTAT-A--ATTTTT-TTATTTAC
21550340 CAAAATAT
1 CAAAATAT
21550348 ATCAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 11 0.33
27 1 0.03
29 6 0.18
30 15 0.45
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
CAAAATATTATAATTTTTTTATTTAC
Found at i:21550456 original size:27 final size:27
Alignment explanation
Indices: 21550426--21550491 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
21550416 AGGCCAATGG
21550426 CATTGGCGGCACCAAAGGTGCCAAAAC
1 CATTGGCGGCACCAAAGGTGCCAAAAC
* **
21550453 CATTGGCGGCACCAATGGTGCCAAAGG
1 CATTGGCGGCACCAAAGGTGCCAAAAC
21550480 CATTGGCGGCAC
1 CATTGGCGGCAC
21550492 TACTCGTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.29, G:0.30, T:0.14
Consensus pattern (27 bp):
CATTGGCGGCACCAAAGGTGCCAAAAC
Found at i:21550590 original size:11 final size:11
Alignment explanation
Indices: 21550574--21550613 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
21550564 GGTGCTGTGG
*
21550574 AAAAGAAGATA
1 AAAAGAAGAGA
21550585 AAAAG-AGAGA
1 AAAAGAAGAGA
*
21550595 AAGAGAAGAGA
1 AAAAGAAGAGA
21550606 AAAAGAAG
1 AAAAGAAG
21550614 GTATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:21550602 original size:21 final size:20
Alignment explanation
Indices: 21550573--21550611 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
21550563 AGGTGCTGTG
*
21550573 GAAAAGAAGATAAAAAGAGA
1 GAAAAGAAGAGAAAAAGAGA
21550593 GAAAGAGAAGAGAAAAAGA
1 GAAA-AGAAGAGAAAAAGA
21550612 AGGTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (20 bp):
GAAAAGAAGAGAAAAAGAGA
Found at i:21550820 original size:3 final size:3
Alignment explanation
Indices: 21550812--21550840 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21550802 TTAATTATAA
21550812 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21550841 CTGTTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21553980 original size:31 final size:31
Alignment explanation
Indices: 21553911--21554152 Score: 150
Period size: 31 Copynumber: 7.9 Consensus size: 31
21553901 CCTCTTCTTC
* * *
21553911 TTCTTTTTTTTCTCTTCTCTTTTCCTT-TTCTT
1 TTCTTCTTTTTCT-TTCT-TTTTTCTTCTCCTT
*
21553943 TCCTTCTTTTTCTTTCTTTTTTCTTCTCCTT
1 TTCTTCTTTTTCTTTCTTTTTTCTTCTCCTT
* *
21553974 TTCTTCTTCTTCTTTCATTTTT-TTCT-C--
1 TTCTTCTTTTTCTTTCTTTTTTCTTCTCCTT
* * * *
21554001 TTC-TCATTTCCTTT-TCTTTCCTTCT--TT
1 TTCTTCTTTTTCTTTCTTTTTTCTTCTCCTT
*
21554028 TTCTTTCTTTTTTCTTCTCCTTTTCTTCTTCTTC-T
1 TTC-TTC-TTTTTCTT-T-CTTTT-TTCTTCTCCTT
* * *
21554063 TTCATT-TTTTTCTCTTCTCATTTCCTT-TTCTT
1 TTC-TTCTTTTTCT-TTCT-TTTTTCTTCTCCTT
*
21554095 TCCTTCTTTTTCTTTCTTTTTTCTTCTCCTT
1 TTCTTCTTTTTCTTTCTTTTTTCTTCTCCTT
* *
21554126 TTCTTCTTCTTCTTTCATTTTT-TTCTC
1 TTCTTCTTTTTCTTTCTTTTTTCTTCTC
21554153 TTCTCATTTC
Statistics
Matches: 165, Mismatches: 27, Indels: 38
0.72 0.12 0.17
Matches are distributed among these distances:
25 3 0.02
26 12 0.07
27 6 0.04
29 3 0.02
30 28 0.17
31 60 0.36
32 27 0.16
33 13 0.08
34 7 0.04
35 6 0.04
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (31 bp):
TTCTTCTTTTTCTTTCTTTTTTCTTCTCCTT
Found at i:21554011 original size:76 final size:76
Alignment explanation
Indices: 21553903--21554189 Score: 549
Period size: 76 Copynumber: 3.8 Consensus size: 76
21553893 CTTCCTTCCC
* *
21553903 TCTTCTTC-TTCTTTTTTTTCTCTTCTCTTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCT
1 TCTTCTTCTTTCATTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCT
21553967 TCTCCTTTTCT
66 TCTCCTTTTCT
21553978 TCTTCTTCTTTCATTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCT
1 TCTTCTTCTTTCATTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCT
21554043 TCTCCTTTTCT
66 TCTCCTTTTCT
21554054 TCTTCTTCTTTCATTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCT
1 TCTTCTTCTTTCATTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCT
21554119 TCTCCTTTTCT
66 TCTCCTTTTCT
21554130 TCTTCTTCTTTCATTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTCTTTTTCTTTCTTT
1 TCTTCTTCTTTCATTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTCTTTTTCTTTCTTT
21554190 CCTCTCCTTT
Statistics
Matches: 209, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
75 8 0.04
76 201 0.96
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (76 bp):
TCTTCTTCTTTCATTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCT
TCTCCTTTTCT
Found at i:21554162 original size:21 final size:20
Alignment explanation
Indices: 21553902--21554182 Score: 110
Period size: 21 Copynumber: 14.6 Consensus size: 20
21553892 CCTTCCTTCC
*
21553902 CTCTTCT-TCTTCTTTTTTTT
1 CTCTTCTCT-TTCATTTTTTT
*
21553922 CTCTTCTCTTTTCCTTTTCTTT
1 CTCTTCTC-TTTCATTTT-TTT
*
21553944 C-CTTCTTTTTC-TTTCTTTT
1 CTCTTCTCTTTCATTT-TTTT
* *
21553963 TTCTTCTC---C--TTTTCT
1 CTCTTCTCTTTCATTTTTTT
21553978 -TCTTCTTCTTTCATTTTTTT
1 CTCTTC-TCTTTCATTTTTTT
*
21553998 CTCTTCTCATTTCCTTTTCTTT
1 CTCTTCTC-TTTCATTTT-TTT
*
21554020 C-CTTCTTTTTC-TTTCTTTT
1 CTCTTCTCTTTCATTT-TTTT
* *
21554039 TTCTTCTC---C--TTTTCT
1 CTCTTCTCTTTCATTTTTTT
21554054 -TCTTCTTCTTTCATTTTTTT
1 CTCTTC-TCTTTCATTTTTTT
*
21554074 CTCTTCTCATTTCCTTTTCTTT
1 CTCTTCTC-TTTCATTTT-TTT
*
21554096 C-CTTCTTTTTC-TTTCTTTT
1 CTCTTCTCTTTCATTT-TTTT
* *
21554115 TTCTTCTC---C--TTTTCT
1 CTCTTCTCTTTCATTTTTTT
21554130 -TCTTCTTCTTTCATTTTTTT
1 CTCTTC-TCTTTCATTTTTTT
*
21554150 CTCTTCTCATTTCCTTTTCTTT
1 CTCTTCTC-TTTCATTTT-TTT
*
21554172 C-CTTCTTTTTC
1 CTCTTCTCTTTC
21554183 TTTCTTTCCT
Statistics
Matches: 205, Mismatches: 20, Indels: 72
0.69 0.07 0.24
Matches are distributed among these distances:
14 15 0.07
15 15 0.07
16 6 0.03
17 3 0.01
18 3 0.01
19 18 0.09
20 62 0.30
21 66 0.32
22 17 0.08
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (20 bp):
CTCTTCTCTTTCATTTTTTT
Found at i:21554229 original size:21 final size:21
Alignment explanation
Indices: 21553937--21554229 Score: 62
Period size: 17 Copynumber: 14.8 Consensus size: 21
21553927 CTCTTTTCCT
* *
21553937 TTTCTTTCCTTCTTTTTCTTTC
1 TTTCTTTCTTTC-TTTCCTTTC
21553959 TTT-TTTC-TTC--TCCTTT-
1 TTTCTTTCTTTCTTTCCTTTC
*
21553975 TCTTC-TTC-TTCTTTCATTT-
1 T-TTCTTTCTTTCTTTCCTTTC
*
21553994 TTT-TCTCTTCTCATTTCCTTTTC
1 TTTCTTTCTT-TC-TTTCC-TTTC
*
21554017 TTTCCTTC-TT-TTT-CTTTC
1 TTTCTTTCTTTCTTTCCTTTC
21554035 TTT-TTTC-TTC--TCCTTT-
1 TTTCTTTCTTTCTTTCCTTTC
*
21554051 TCTTC-TTC-TTCTTTCATTT-
1 T-TTCTTTCTTTCTTTCCTTTC
*
21554070 TTT-TCTCTTCTCATTTCCTTTTC
1 TTTCTTTCTT-TC-TTTCC-TTTC
*
21554093 TTTCCTTC-TT-TTT-CTTTC
1 TTTCTTTCTTTCTTTCCTTTC
21554111 TTT-TTTC-TTC--TCCTTT-
1 TTTCTTTCTTTCTTTCCTTTC
*
21554127 TCTTC-TTC-TTCTTTCATTT-
1 T-TTCTTTCTTTCTTTCCTTTC
*
21554146 TTT-TCTCTTCTCATTTCCTTTTC
1 TTTCTTTCTT-TC-TTTCC-TTTC
*
21554169 TTTCCTTCTTTTTCTTT-CTTTCC
1 TTT-CTT-TCTTTCTTTCCTTT-C
* * *
21554192 TCTCCTTTC-TTCCTTCCTTCC
1 T-TTCTTTCTTTCTTTCCTTTC
21554213 TTTCTTTCTTTCTTTCC
1 TTTCTTTCTTTCTTTCC
21554230 CTCTCCTTCC
Statistics
Matches: 204, Mismatches: 24, Indels: 87
0.65 0.08 0.28
Matches are distributed among these distances:
16 5 0.02
17 47 0.23
18 26 0.13
19 23 0.11
20 21 0.10
21 30 0.15
22 21 0.10
23 17 0.08
24 8 0.04
25 3 0.01
26 3 0.01
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTCTTTCTTTCTTTCCTTTC
Found at i:21554316 original size:27 final size:27
Alignment explanation
Indices: 21554266--21554317 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
21554256 CCTATTATGG
* ***
21554266 CATTGGTGCTGCCAATGGGTTTGGCAC
1 CATTGGTGCCGCCAATGCCATTGGCAC
21554293 CATTGGTGCCGCCAATGCCATTGGC
1 CATTGGTGCCGCCAATGCCATTGGC
21554318 CTGATCAGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGCCATTGGCAC
Found at i:21554726 original size:10 final size:11
Alignment explanation
Indices: 21554711--21554743 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
21554701 ATATAGTGAT
21554711 TTTTATTTTA-
1 TTTTATTTTAG
21554721 TTTTATTTTAG
1 TTTTATTTTAG
*
21554732 TTATATTTTAG
1 TTTTATTTTAG
21554743 T
1 T
21554744 CATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (11 bp):
TTTTATTTTAG
Found at i:21556852 original size:31 final size:30
Alignment explanation
Indices: 21556816--21556887 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
21556806 GATTAAATAA
* *
21556816 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGCATACAATTGAACC
* * * *
21556846 ACAATTAGAGTTTCATGCATATAATTGCACC
1 A-AATTAAAGTTTCAAGCATACAATTGAACC
21556877 AAATTAAAGTT
1 AAATTAAAGTT
21556888 CATCTATACA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGCATACAATTGAACC
Found at i:21560711 original size:18 final size:17
Alignment explanation
Indices: 21560685--21560753 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
21560675 GCAATAAGAA
*
21560685 AACGTTTTGAAATTGAAT
1 AACGATTTGAAA-TGAAT
21560703 AACGATTTGTAAATGAAT
1 AACGATTTG-AAATGAAT
* * *
21560721 AATGTTTTGGAAACGAAT
1 AACGATTT-GAAATGAAT
21560739 GACACGATTTGAAAT
1 -A-ACGATTTGAAAT
21560754 TAACATAAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 26 0.65
19 9 0.22
20 5 0.12
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (17 bp):
AACGATTTGAAATGAAT
Found at i:21561742 original size:20 final size:20
Alignment explanation
Indices: 21561700--21561743 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
21561690 TTTTTTTTAA
* **
21561700 TTTTTAATTTTAAAGTACTT
1 TTTTTAATTTTAAAATAAAT
*
21561720 TTTTTATTTTTAAAATAAAT
1 TTTTTAATTTTAAAATAAAT
21561740 TTTT
1 TTTT
21561744 GGTGTTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTAATTTTAAAATAAAT
Found at i:21563348 original size:20 final size:20
Alignment explanation
Indices: 21563298--21563349 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
21563288 TTTGGTTAAA
21563298 AATTACCCG--AATTACTCG
1 AATTACCCGAAAATTACTCG
**
21563316 AATTACCAAAAAATTAC-CTG
1 AATTACCCGAAAATTACTC-G
21563336 AATTACCCGAAAAT
1 AATTACCCGAAAAT
21563350 AAATTGGGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.26
19 1 0.04
20 19 0.70
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (20 bp):
AATTACCCGAAAATTACTCG
Found at i:21564246 original size:18 final size:19
Alignment explanation
Indices: 21564213--21564248 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21564203 ATTACCCTGC
21564213 AAAATTCGGTTAAACCGAA
1 AAAATTCGGTTAAACCGAA
21564232 AAAATTCGGTT-AACCGA
1 AAAATTCGGTTAAACCGA
21564249 CCGCTTAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (19 bp):
AAAATTCGGTTAAACCGAA
Found at i:21567141 original size:16 final size:17
Alignment explanation
Indices: 21567120--21567152 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21567110 ATTTGATAAA
21567120 AATAAATAATA-ATTTT
1 AATAAATAATATATTTT
*
21567136 AATAAATTATATATTTT
1 AATAAATAATATATTTT
21567153 TAATTTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATAAATAATATATTTT
Found at i:21567933 original size:20 final size:19
Alignment explanation
Indices: 21567881--21567933 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
21567871 TCTTTATAAA
*
21567881 TATTTTG-ACTTTTAAAAT
1 TATTTTGAATTTTTAAAAT
* *
21567899 TAATTTAAATCTTTTAAAAAT
1 TATTTTGAAT-TTTT-AAAAT
21567920 TATTTTGAATTTTT
1 TATTTTGAATTTTT
21567934 TTATTTTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 8 0.30
21 13 0.48
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
TATTTTGAATTTTTAAAAT
Found at i:21567939 original size:15 final size:15
Alignment explanation
Indices: 21567919--21567949 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21567909 CTTTTAAAAA
21567919 TTATTTTGAATTTTT
1 TTATTTTGAATTTTT
*
21567934 TTATTTTGTATTTTT
1 TTATTTTGAATTTTT
21567949 T
1 T
21567950 GTTAAGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (15 bp):
TTATTTTGAATTTTT
Found at i:21568505 original size:9 final size:9
Alignment explanation
Indices: 21568454--21568656 Score: 65
Period size: 9 Copynumber: 21.2 Consensus size: 9
21568444 TGGTATTACG
21568454 ATAATTTTT
1 ATAATTTTT
*
21568463 GTAATTTTT
1 ATAATTTTT
* *
21568472 TTACGAATTTT
1 ATA--ATTTTT
21568483 AT-ATTTTT
1 ATAATTTTT
21568491 AT-ATTTTT
1 ATAATTTTT
21568499 ATAATTTTCT
1 ATAATTTT-T
*
21568509 -TACGA-CTTT
1 ATA--ATTTTT
*
21568518 ATAAAATTTT
1 AT-AATTTTT
21568528 ATAAATTTTTTT
1 AT-AA--TTTTT
* *
21568540 CTATATTTCT
1 ATA-ATTTTT
21568550 AT-ATATTTT
1 ATAAT-TTTT
21568559 ATAATTTTT
1 ATAATTTTT
* *
21568568 ATGATTATT
1 ATAATTTTT
*
21568577 ATAAAATTTT
1 AT-AATTTTT
*
21568587 ACAATTTTTT
1 ATAA-TTTTT
*
21568597 ATGATTTTT
1 ATAATTTTT
*
21568606 AATAAATTTT
1 -ATAATTTTT
*
21568616 ATATTTATTT
1 ATAATT-TTT
*
21568626 ATTAAATTTT
1 A-TAATTTTT
*
21568636 ATAAATTTT
1 ATAATTTTT
*
21568645 ATTGATTTTT
1 A-TAATTTTT
21568655 AT
1 AT
21568657 TTTTATCATT
Statistics
Matches: 145, Mismatches: 29, Indels: 40
0.68 0.14 0.19
Matches are distributed among these distances:
8 17 0.12
9 58 0.40
10 52 0.36
11 12 0.08
12 6 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:21568545 original size:59 final size:58
Alignment explanation
Indices: 21568482--21568596 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 58
21568472 TTACGAATTT
*
21568482 TATATTTTTATAT-TTTTATAATTTTCTTACGACT-TTATAAAATTTTATAAATTTTTTTC
1 TATATTTCTATATATTTTATAA-TTT-TTACGACTATTATAAAATTTTA-AAATTTTTTTC
* * *
21568541 TATATTTCTATATATTTTATAATTTTTATGATTATTATAAAATTTTACAATTTTTT
1 TATATTTCTATATATTTTATAATTTTTACGACTATTATAAAATTTTAAAATTTTTT
21568597 ATGATTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 14 0.28
59 28 0.56
60 8 0.16
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (58 bp):
TATATTTCTATATATTTTATAATTTTTACGACTATTATAAAATTTTAAAATTTTTTTC
Found at i:21568614 original size:49 final size:49
Alignment explanation
Indices: 21568555--21568655 Score: 120
Period size: 49 Copynumber: 2.1 Consensus size: 49
21568545 TTTCTATATA
* *
21568555 TTTT-ATAATTTTTATGA-TTA-TTATAAAATTTTAC-AATTTTTTATGAT
1 TTTTAATAAATTTTAT-ATTTATTTATAAAATTTTACAAATTTTAT-TGAT
* *
21568602 TTTTAATAAATTTTATATTTATTTATTAAATTTTATAAATTTTATTGAT
1 TTTTAATAAATTTTATATTTATTTATAAAATTTTACAAATTTTATTGAT
21568651 TTTTA
1 TTTTA
21568656 TTTTTATCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 5 0.11
48 13 0.28
49 21 0.46
50 7 0.15
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (49 bp):
TTTTAATAAATTTTATATTTATTTATAAAATTTTACAAATTTTATTGAT
Found at i:21568626 original size:29 final size:27
Alignment explanation
Indices: 21568535--21568646 Score: 100
Period size: 29 Copynumber: 4.0 Consensus size: 27
21568525 TTTATAAATT
* *
21568535 TTTTTCTAT-ATTTCTATATATTTTATA
1 TTTTT-TATGATTTTTATAAATTTTATA
* * *
21568562 ATTTTTATGATTATTATAAAATTTTACAA
1 TTTTTTATGATTTTTAT-AAATTTTA-TA
21568591 TTTTTTATGATTTTTAATAAATTTTATA
1 TTTTTTATGATTTTT-ATAAATTTTATA
* *
21568619 TTTATTTATTAAATTTTATAAATTTTAT
1 TTT-TTTA-TGATTTTTATAAATTTTAT
21568647 TGATTTTTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.04
27 10 0.14
28 11 0.16
29 37 0.54
30 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTTTATGATTTTTATAAATTTTATA
Found at i:21569456 original size:28 final size:30
Alignment explanation
Indices: 21569423--21569489 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 30
21569413 CCTATCTCAT
*
21569423 TATATATT-TG-TTTTATAATTGT-TTATAA
1 TATATATTATGATTTTATAATTGTGATAT-A
21569451 TATATATTATGTAATTTTATAATTGTGATATA
1 TATATATTATG--ATTTTATAATTGTGATATA
21569483 TATATAT
1 TATATAT
21569490 GAGATGATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 8 0.24
29 2 0.06
32 20 0.61
33 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (30 bp):
TATATATTATGATTTTATAATTGTGATATA
Found at i:21574683 original size:177 final size:176
Alignment explanation
Indices: 21574381--21574733 Score: 598
Period size: 177 Copynumber: 2.0 Consensus size: 176
21574371 ATACATAGCG
* * *
21574381 AAATTGTGACAAGCAAATATTAGTTCATTGATTGTCTAAGTTCAAACTAAAGACAAGTGACATTG
1 AAATTGTGACAAGCAAATATTAGCTCATTGATTATCAAAGTTCAAACTAAAGACAAGTGACATTG
* *
21574446 TAAGAAAGTTTACATTGCGAGAAAGACAACTTACTTCAATAGATAATCTAAATGAGTCTGTAGTC
66 TAAGAAAGTTTACATTGCGAGAAAGACAACTTACTTCAATAGATAATCTAAATAAGTCTGTAATC
*
21574511 CCGTAAAAGAATCAAAGTGAGCATTTGATTCAAATACTGAGAATGAT
131 CCATAAAA-AATCAAAGTGAGCATTTGATTCAAATACTGAGAATGAT
* *
21574558 AAATTGTGACAAGCAAATATTAGCTCATTGATTATCAAAGTTCGAACTAAAGATAAGTGACATTG
1 AAATTGTGACAAGCAAATATTAGCTCATTGATTATCAAAGTTCAAACTAAAGACAAGTGACATTG
* * *
21574623 TAAGAACGTTTGCATTGCTAGAAAGACAACTTACTTCAATAGATAATCTAAATAAGTCTGTAATC
66 TAAGAAAGTTTACATTGCGAGAAAGACAACTTACTTCAATAGATAATCTAAATAAGTCTGTAATC
21574688 CCATAAAAAATCAAAGTGAGCATTTGATTCAAATACTGAGAATGAT
131 CCATAAAAAATCAAAGTGAGCATTTGATTCAAATACTGAGAATGAT
21574734 TATTATGTCG
Statistics
Matches: 165, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
176 38 0.23
177 127 0.77
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (176 bp):
AAATTGTGACAAGCAAATATTAGCTCATTGATTATCAAAGTTCAAACTAAAGACAAGTGACATTG
TAAGAAAGTTTACATTGCGAGAAAGACAACTTACTTCAATAGATAATCTAAATAAGTCTGTAATC
CCATAAAAAATCAAAGTGAGCATTTGATTCAAATACTGAGAATGAT
Found at i:21575730 original size:19 final size:19
Alignment explanation
Indices: 21575687--21575736 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
21575677 GATTTTTGGA
* *
21575687 AAATTTAAATTTAATCAAGT
1 AAATTTAAA-TTAACCAAAT
21575707 AAATTTAAATTAACCAAAT
1 AAATTTAAATTAACCAAAT
* *
21575726 TAATTAAAATT
1 AAATTTAAATT
21575737 TATATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATTTAAATTAACCAAAT
Found at i:21581048 original size:27 final size:27
Alignment explanation
Indices: 21581010--21581076 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
21581000 CCTATCAGGT
21581010 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
* * *
21581037 AGGCGCAAATGAAGGTGCCTTATAGCG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
21581064 AGGCGCCAATGAA
1 AGGCGCCAATGAA
21581077 ATTTATGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.21, G:0.33, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:21581379 original size:22 final size:22
Alignment explanation
Indices: 21581354--21581440 Score: 120
Period size: 22 Copynumber: 3.7 Consensus size: 22
21581344 TCTATATTTA
21581354 GTATGAATATTGTAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
21581376 GTATGAATATTGTAATATTATAATTTT
1 GTATGAATATTGT-A-ATT-T--TTTT
*
21581403 GTATGAATATTGCAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
21581425 GTATGAATATTGTAAT
1 GTATGAATATTGTAAT
21581441 ATTGTAATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
22 32 0.55
23 1 0.02
24 4 0.07
25 4 0.07
26 1 0.02
27 16 0.28
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (22 bp):
GTATGAATATTGTAATTTTTTT
Found at i:21581408 original size:49 final size:49
Alignment explanation
Indices: 21581349--21581448 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
21581339 GATTATCTAT
*
21581349 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
* *
21581398 ATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
21581447 AT
1 AT
21581449 ATTATAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:21581443 original size:8 final size:8
Alignment explanation
Indices: 21581430--21581501 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
21581420 TTTTTGTATG
21581430 AATATTGT
1 AATATTGT
21581438 AATATTGT
1 AATATTGT
*
21581446 AATATTAT
1 AATATTGT
*
21581454 AATTTTGTAT
1 AATATTG--T
21581464 GAATATTGT
1 -AATATTGT
* * *
21581473 AATGTCGGG
1 AATAT-TGT
21581482 ATATATTGT
1 A-ATATTGT
21581491 AATATTGT
1 AATATTGT
21581499 AAT
1 AAT
21581502 TTTTTGTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
8 34 0.69
9 5 0.10
10 4 0.08
11 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.47
Consensus pattern (8 bp):
AATATTGT
Found at i:21581687 original size:27 final size:27
Alignment explanation
Indices: 21581656--21581722 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
21581646 TAACATAAAT
21581656 TTCATTGGCGCCTCGCTATAAGGCACC
1 TTCATTGGCGCCTCGCTATAAGGCACC
* * *
21581683 TTCATTTGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCGCTATAAGGCACC
21581710 TTCATTGGCGCCT
1 TTCATTGGCGCCT
21581723 ACCTGATAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCGCTATAAGGCACC
Found at i:21582834 original size:24 final size:22
Alignment explanation
Indices: 21582782--21582836 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
21582772 CACGTGATTT
21582782 TATATATTTTTTAATTCATTAAA
1 TATATATTTTTTAATTCA-TAAA
21582805 TAATATATTTTTATAATTTC-T-AA
1 T-ATATATTTTT-TAA-TTCATAAA
21582828 TATATATTT
1 TATATATTT
21582837 ATACTCATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 8 0.28
23 4 0.14
24 11 0.38
25 3 0.10
26 3 0.10
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TATATATTTTTTAATTCATAAA
Found at i:21583582 original size:35 final size:34
Alignment explanation
Indices: 21583515--21583583 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
21583505 ATAAAAAATC
21583515 ATTTTTAAAATAATTTCAAATTTAAATTATAATT
1 ATTTTTAAAATAATTTCAAATTTAAATTATAATT
21583549 ATTTTTAACTAATAA-TTCTAAA-TTAAATTATAATT
1 ATTTTTAA--AATAATTTC-AAATTTAAATTATAATT
21583584 GTAATAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 8 0.25
35 16 0.50
36 8 0.25
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (34 bp):
ATTTTTAAAATAATTTCAAATTTAAATTATAATT
Found at i:21583771 original size:43 final size:44
Alignment explanation
Indices: 21583687--21583776 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
21583677 ATAATTGTAA
* **
21583687 ATTAAATTATAATATTTTTGAATGTATAATAATCATAAATTT-T
1 ATTAAATTATAATATTTTTAAATACATAATAATCATAAATTTCT
* * *
21583730 ATTAAATTATACTTATTTTTAAATACATAATTATC-TCAATTTCT
1 ATTAAATTATA-ATATTTTTAAATACATAATAATCATAAATTTCT
21583774 ATT
1 ATT
21583777 TTATGTCACT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
43 17 0.44
44 22 0.56
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (44 bp):
ATTAAATTATAATATTTTTAAATACATAATAATCATAAATTTCT
Found at i:21584720 original size:7 final size:7
Alignment explanation
Indices: 21584708--21584750 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
21584698 AGAATGGGCC
21584708 TTTTTCT
1 TTTTTCT
21584715 TTTTTCT
1 TTTTTCT
21584722 CATTTTTCT
1 --TTTTTCT
21584731 TTTTTCCT
1 TTTTT-CT
*
21584739 TTTTCCT
1 TTTTTCT
21584746 TTTTT
1 TTTTT
21584751 TGGCCTGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 18 0.58
8 6 0.19
9 7 0.23
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCT
Found at i:21584729 original size:16 final size:14
Alignment explanation
Indices: 21584706--21584750 Score: 63
Period size: 16 Copynumber: 3.0 Consensus size: 14
21584696 GAAGAATGGG
21584706 CCTTTTTCTTTTTT
1 CCTTTTTCTTTTTT
21584720 CTCATTTTTCTTTTTT
1 C-C-TTTTTCTTTTTT
21584736 CCTTTTTCCTTTTTT
1 CCTTTTT-CTTTTTT
21584751 TGGCCTGCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.21
15 9 0.32
16 13 0.46
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (14 bp):
CCTTTTTCTTTTTT
Found at i:21584733 original size:15 final size:14
Alignment explanation
Indices: 21584708--21584750 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
21584698 AGAATGGGCC
21584708 TTTTTCTTTTTTCTCA
1 TTTTTC-TTTTT-TCA
*
21584724 TTTTTCTTTTTTCC
1 TTTTTCTTTTTTCA
21584738 TTTTTCCTTTTTT
1 TTTTT-CTTTTTT
21584751 TGGCCTGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 7 0.28
15 12 0.48
16 6 0.24
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTTTTCA
Found at i:21585041 original size:7 final size:7
Alignment explanation
Indices: 21585025--21585077 Score: 65
Period size: 7 Copynumber: 7.9 Consensus size: 7
21585015 GACCCAACTG
21585025 TTTT-TT
1 TTTTCTT
21585031 TTTTCTT
1 TTTTCTT
21585038 TTTTCTT
1 TTTTCTT
21585045 TTTTCTT
1 TTTTCTT
*
21585052 CTTTCTT
1 TTTTCTT
*
21585059 TCTTCTT
1 TTTTCTT
*
21585066 TCTT-TT
1 TTTTCTT
21585072 TTTTCT
1 TTTTCT
21585078 CTCCTTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
6 9 0.22
7 32 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTCTT
Found at i:21585059 original size:4 final size:4
Alignment explanation
Indices: 21585032--21585070 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
21585022 CTGTTTTTTT
21585032 TTTC TTT- TTTC TTT- TTTC -TTC TTTC TTTC -TTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
21585071 TTTTTCTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
3 12 0.39
4 19 0.61
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:21585067 original size:25 final size:25
Alignment explanation
Indices: 21585032--21585090 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
21585022 CTGTTTTTTT
* *
21585032 TTTCTTTTTTCTTTTTTCTTCT-TTC
1 TTTCTTCTTTCTTTTTT-TTCTCTCC
21585057 TTTCTTCTTTCTTTTTTTTCTCTCC
1 TTTCTTCTTTCTTTTTTTTCTCTCC
21585082 TTTCTTCTT
1 TTTCTTCTT
21585091 CGTTTGGCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTCTTCTTTCTTTTTTTTCTCTCC
Found at i:21585084 original size:18 final size:18
Alignment explanation
Indices: 21585033--21585090 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
21585023 TGTTTTTTTT
*
21585033 TTCTTT-TTTCTTTTTTC
1 TTCTTTCTTTCTTCTTTC
21585050 TTCTTTCTTTCTTCTTTC
1 TTCTTTCTTTCTTCTTTC
21585068 TT-TTT-TTTCTCTCCTTTC
1 TTCTTTCTTTCT-T-CTTTC
21585086 TTCTT
1 TTCTT
21585091 CGTTTGGCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 5 0.14
17 10 0.28
18 19 0.53
19 2 0.06
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTTCTTTCTTCTTTC
Found at i:21585675 original size:30 final size:30
Alignment explanation
Indices: 21585628--21585767 Score: 139
Period size: 30 Copynumber: 4.8 Consensus size: 30
21585618 TGAGGCCAAT
*
21585628 ATGTAATTTT-TGAAAGTTTAGGTGCTAAA
1 ATGTAATTTTAAGAAAGTTTAGGTGCTAAA
*
21585657 AAGTAATTTTAAGAAAGTTTAAGGT--TAAA
1 ATGTAATTTTAAGAAAGTTT-AGGTGCTAAA
* *
21585686 ATGTAATTTAAAGAAAGTTTAGG-GGTCAAA
1 ATGTAATTTTAAGAAAGTTTAGGTGCT-AAA
* *
21585716 ATGTAATTTTAAGAAATTTTAAGGTTC-AAA
1 ATGTAATTTTAAGAAAGTTT-AGGTGCTAAA
* *
21585746 TTGTAATTTTGA-AAAGTTTAGG
1 ATGTAATTTTAAGAAAGTTTAGG
21585768 GGGTTGAAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.06
29 38 0.41
30 42 0.45
31 7 0.08
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (30 bp):
ATGTAATTTTAAGAAAGTTTAGGTGCTAAA
Found at i:21585769 original size:59 final size:58
Alignment explanation
Indices: 21585628--21585769 Score: 180
Period size: 59 Copynumber: 2.4 Consensus size: 58
21585618 TGAGGCCAAT
*
21585628 ATGTAATTTTTG-AAAGTTTAGGTGCTAAAAAGTAATTTTAAGAAAGTTTAAGGTTAAA
1 ATGTAA-TTTTGAAAAGTTTAGGGGCTAAAAAGTAATTTTAAGAAAGTTTAAGGTTAAA
** * *
21585686 ATGTAATTTAAAGAAAGTTTAGGGG-TCAAAATGTAATTTTAAGAAATTTTAAGGTTCAAA
1 ATGTAATTTTGA-AAAGTTTAGGGGCT-AAAAAGTAATTTTAAGAAAGTTTAAGGTT-AAA
*
21585746 TTGTAATTTTGAAAAGTTTAGGGG
1 ATGTAATTTTGAAAAGTTTAGGGG
21585770 GTTGAAATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
57 3 0.04
58 7 0.10
59 50 0.69
60 12 0.17
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.37
Consensus pattern (58 bp):
ATGTAATTTTGAAAAGTTTAGGGGCTAAAAAGTAATTTTAAGAAAGTTTAAGGTTAAA
Found at i:21586114 original size:74 final size:74
Alignment explanation
Indices: 21585937--21586467 Score: 568
Period size: 77 Copynumber: 7.1 Consensus size: 74
21585927 TTTTAAATAT
* *
21585937 AAATTGAAATATACCTCGGCATGTGCCCTAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTT
1 AAATTGAAA-ATACCTCGACATGTGCCC-GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTT
*
21586002 TTGAAAAAATAG
64 TT-AAAAAACAG
* * * *
21586014 AAATTGAAAAGTACCTTGGCATGTGCCCGAGGCTCAACTCACTTCTCACATTATGAGTTGATTTT
1 AAATTGAAAA-TACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTT
21586079 T-AAAAACAG
65 TAAAAAACAG
*
21586088 AAATTGAAAAGTACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTT
1 AAATTGAAAA-TACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTT
*
21586153 T-AAAAATAG
65 TAAAAAACAG
*
21586162 AAATT-AAAA-A-AT--AC-----CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
1 AAATTGAAAATACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTT
21586217 TCAAAAAACAG
65 T-AAAAAACAG
* ** *
21586228 AAATTGAAAATTACCTCGACGTGTGAAACGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTT
1 AAATTGAAAA-TACCTCGACATGTG-CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTT
*
21586293 TTGACAAAAATAG
64 TT-A-AAAAACAG
* * * * * *
21586306 AAATTAAAAAATACCTTGGCGTGTGCCCGAGGCTCAACTCACCTATCGTATTATGAGTTGATTTT
1 AAATT-GAAAATACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTT
*
21586371 TTCAGAAAACAG
64 TT-AAAAAACAG
** * *
21586383 AAATTGAAAAATACCTC-AGGGTGTGACCTGA-GATCAACTCACCTCTCGCATTATGAGTTGATT
1 AAATTG-AAAATACCTCGA-CATGTG-CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATT
*
21586446 TTTTAAAAACAG
63 TTTAAAAAACAG
21586458 AAATTGAAAA
1 AAATTGAAAA
21586468 ATAATTTTTT
Statistics
Matches: 391, Mismatches: 41, Indels: 47
0.82 0.09 0.10
Matches are distributed among these distances:
63 35 0.09
64 5 0.01
66 12 0.03
67 4 0.01
68 2 0.01
69 1 0.00
70 2 0.01
71 1 0.00
72 2 0.01
73 4 0.01
74 84 0.21
75 13 0.03
76 41 0.10
77 114 0.29
78 67 0.17
79 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (74 bp):
AAATTGAAAATACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
AAAAAACAG
Found at i:21586191 original size:63 final size:64
Alignment explanation
Indices: 21586113--21586320 Score: 229
Period size: 78 Copynumber: 3.0 Consensus size: 64
21586103 TCGACATGTG
21586113 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTT-AAAAATAGAAATTAAAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTAAAAAATAGAAATTAAAAAATAC
* * * *
21586176 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTCAAAAAACAGAAATTGAAAATTA
1 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTT-AATTTTT-AAAAAATAGAAATTAAAAAATA
21586241 CC
64 -C
21586243 TCGACGTGTGAAACGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTGACAAAAATAGAA
1 -C--C--------CGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTT-A-AAAAATAGAA
21586308 ATTAAAAAATAC
53 ATTAAAAAATAC
21586320 C
1 C
21586321 TTGGCGTGTG
Statistics
Matches: 120, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
63 34 0.28
64 6 0.05
66 18 0.15
67 1 0.01
68 1 0.01
70 1 0.01
76 1 0.01
77 8 0.07
78 50 0.42
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (64 bp):
CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTAAAAAATAGAAATTAAAAAATAC
Found at i:21588505 original size:27 final size:27
Alignment explanation
Indices: 21588475--21588652 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21588465 ATATTGAGTC
* * * *
21588475 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21588502 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21588529 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21588557 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21588584 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21588611 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21588638 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21588653 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:21588614 original size:82 final size:81
Alignment explanation
Indices: 21588496--21588651 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21588486 TGCTATATAA
* *
21588496 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21588561 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21588578 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21588642 CACTTAGTGC
65 CACTTAGTGC
21588652 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:21596695 original size:27 final size:27
Alignment explanation
Indices: 21596665--21596814 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
21596655 ATATTGAGCC
* *
21596665 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
21596692 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21596719 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
21596747 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21596774 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
21596801 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21596815 AACAAAGTAG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 79 0.77
28 23 0.23
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21596758 original size:55 final size:54
Alignment explanation
Indices: 21596665--21596842 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
21596655 ATATTGAGCC
* * * *
21596665 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
* * ** *
21596719 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCCACATAATCAAAT
* ** *
21596774 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAA-TCA-AAT
*
21596828 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21596843 GTACAATTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.54
55 45 0.45
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:21596815 original size:27 final size:27
Alignment explanation
Indices: 21596665--21596841 Score: 137
Period size: 27 Copynumber: 6.5 Consensus size: 27
21596655 ATATTGAGCC
* * *
21596665 CGCACACTCAGTGCTAT-ATAATCAACT
1 CGCACACTTAGTGC-ATCATAGTCAATT
* * * *
21596692 CGCACATTTAGTGCCA-CGTAATCAAAT
1 CGCACACTTAGTG-CATCATAGTCAATT
*
21596719 CGCACACTTAGTGC-TACATAGTCAAACT
1 CGCACACTTAGTGCAT-CATAGTC-AATT
** *
21596747 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCATCATAGTCAATT
* *
21596774 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCATCATAGTCAATT
* * *
21596801 CGCACACTTAGTGCAACAAAGTAGAATT
1 CGCACACTTAGTGCATCATAGT-CAATT
21596829 -GCACACTTAGTGC
1 CGCACACTTAGTGC
21596842 TGTACAATTT
Statistics
Matches: 122, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.01
27 94 0.77
28 27 0.22
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCATCATAGTCAATT
Found at i:21610565 original size:23 final size:22
Alignment explanation
Indices: 21610531--21610578 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
21610521 CTGTTTTTAA
21610531 TTTTTTTTCTTTTTCTTCTTTC
1 TTTTTTTTCTTTTTCTTCTTTC
*
21610553 TTTTTTTTCCTTTTTTTTCTTTC
1 TTTTTTTT-CTTTTTCTTCTTTC
21610576 TTT
1 TTT
21610579 CATCTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTTTCTTTTTCTTCTTTC
Found at i:21610586 original size:27 final size:28
Alignment explanation
Indices: 21610536--21610600 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
21610526 TTTAATTTTT
* *
21610536 TTTCTTTTTC-TTCTTTC-TTTTTTTTCC
1 TTTCTTTTTCTTTCTTTCATCTTTTAT-C
21610563 TTT-TTTTTCTTTCTTTCATCTTTTATC
1 TTTCTTTTTCTTTCTTTCATCTTTTATC
21610590 TTTCTTTTTCT
1 TTTCTTTTTCT
21610601 CTCACCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.18
27 14 0.42
28 13 0.39
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTCTTTTTCTTTCTTTCATCTTTTATC
Found at i:21611268 original size:60 final size:60
Alignment explanation
Indices: 21611119--21611282 Score: 181
Period size: 60 Copynumber: 2.7 Consensus size: 60
21611109 CTTTTGGGGC
* ** *
21611119 CAAAATGTAATTTTTGAAAAGTTTAGATGCT-AAAA-AGTAATTTTAAGAAAGTTTAAGGGT
1 CAAAATATAA-TTTTGAAAAGTTTAGGGGGTCAAAATA-TAATTTTAAGAAAGTTTAAGGGT
* * ** * *
21611179 TAAAATATAATGTAAAGAAATTTTA-GGGGTCAAAATATAATTTTAAGAAATTTTAAGGGT
1 CAAAATATAATTTTGA-AAAGTTTAGGGGGTCAAAATATAATTTTAAGAAAGTTTAAGGGT
*
21611239 CAAAGTATAATTTTGAAAAGTTTAGGGGGTCAAAATATAATTTT
1 CAAAATATAATTTTGAAAAGTTTAGGGGGTCAAAATATAATTTT
21611283 GAAAAAACAC
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
59 12 0.14
60 71 0.85
61 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (60 bp):
CAAAATATAATTTTGAAAAGTTTAGGGGGTCAAAATATAATTTTAAGAAAGTTTAAGGGT
Found at i:21611287 original size:30 final size:30
Alignment explanation
Indices: 21611156--21611282 Score: 157
Period size: 30 Copynumber: 4.2 Consensus size: 30
21611146 TGCTAAAAAG
*
21611156 TAATTTTAAGAAAGTTTAAGGGTTAAAATA
1 TAATTTTAAGAAAGTTTAAGGGTCAAAATA
* * * *
21611186 TAATGTAAAGAAATTTTAGGGGTCAAAATA
1 TAATTTTAAGAAAGTTTAAGGGTCAAAATA
* *
21611216 TAATTTTAAGAAATTTTAAGGGTCAAAGTA
1 TAATTTTAAGAAAGTTTAAGGGTCAAAATA
* *
21611246 TAATTTTGA-AAAGTTTAGGGGGTCAAAATA
1 TAATTTTAAGAAAGTTTA-AGGGTCAAAATA
21611276 TAATTTT
1 TAATTTT
21611283 GAAAAAACAC
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 7 0.08
30 76 0.92
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.36
Consensus pattern (30 bp):
TAATTTTAAGAAAGTTTAAGGGTCAAAATA
Found at i:21612329 original size:21 final size:21
Alignment explanation
Indices: 21612294--21612334 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21612284 TACAAATTTT
*
21612294 TGTTCTTGAGATCTTGAGACG
1 TGTTCTTGAGATCTTAAGACG
21612315 TGTTCTTGATG-TCTTAAGAC
1 TGTTCTTGA-GATCTTAAGAC
21612335 ACCAACCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (21 bp):
TGTTCTTGAGATCTTAAGACG
Found at i:21615202 original size:127 final size:126
Alignment explanation
Indices: 21614918--21615482 Score: 699
Period size: 126 Copynumber: 4.5 Consensus size: 126
21614908 GATAAAATCA
* * * *
21614918 AAGCAGGATGATTTATCAGAAGAATTTTTGAAGTCACGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
21614983 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGT-TTAAAAAATGCTTT
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCTTC
* * * * **
21615043 AAGCAAGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCTTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
21615108 TGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCTTC
* ** *
21615170 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGGGCCCACGTGGATGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * * *
21615235 AGGTCCTGAAAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTATAAAATAACACTAC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCTTC
* * * * *
21615296 AAGCAGGATGATATT-TGAGAAGAATTTGTGAAATCACACCCTCGTGGATGCGTTTTTACTACAG
1 AAGCAGGATGAT-TTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAG
* * **
21615360 TAGGTCCTGGAAAAATAATTT-GAACTTGACGTTTCTGAGAAAATA--ATATAAAATTGCTTC
65 TAGGTCCTGGAAAAATAATTTCG-AGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCTTC
* * *
21615420 TAGCAGGATGGTTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTTCTACA
1 AAGCAGGATGATTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACA
21615483 ATAGCATGTT
Statistics
Matches: 379, Mismatches: 56, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
123 2 0.01
124 62 0.16
125 66 0.17
126 169 0.45
127 80 0.21
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (126 bp):
AAGCAGGATGATTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCTTC
Found at i:21618770 original size:85 final size:85
Alignment explanation
Indices: 21618622--21619054 Score: 411
Period size: 85 Copynumber: 4.9 Consensus size: 85
21618612 TCAAATTATA
* * * * * *
21618622 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGTGTTAAGGTTTTTTATTTAAGGGTTACGGTTTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTT
*
21618687 AAAGTTAAGGGTTTAAGGTT
66 TAAGTTAAGGGTTTAAGGTT
* *
21618707 TTTAATTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTATGGTTTTTAATTTAAGGGTTAGGGTTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTT
21618771 TTAAGTTAAGGGTTTAAGGTT
65 TTAAGTTAAGGGTTTAAGGTT
* * ****** * * * * *
21618792 TTTAAGTTAAGAGTTAGGGTTGGGGTTTTTAGGCTAAGGGTTTTTAAATTAAGGGTTATGGTTTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTT
*
21618857 TAAGTTAAGGGTTTAGGGTT
66 TAAGTTAAGGGTTTAAGGTT
* * ** *
21618877 TTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAGGTTAAATGTTAGGGTTTTTAGGTTAAGGGTTAG
1 TTTAA-TT-----TAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
*
21618942 GGTTTTTAAGTTAAGGGTTAGGGTTATGGTT
60 GGTTTTTAAGTTAAGGG-T----TTAAGGTT
21618973 TTTAGATAAGGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA
1 TTTA-AT-----TTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTA
21619038 GGGTTTTT-AGATTAAGG
59 GGGTTTTTAAG-TTAAGG
21619055 ATTAGGGTTA
Statistics
Matches: 283, Mismatches: 44, Indels: 30
0.79 0.12 0.08
Matches are distributed among these distances:
84 13 0.05
85 133 0.47
86 7 0.02
91 53 0.19
92 1 0.00
96 37 0.13
97 38 0.13
101 1 0.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.44
Consensus pattern (85 bp):
TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTT
TAAGTTAAGGGTTTAAGGTT
Found at i:21618886 original size:27 final size:26
Alignment explanation
Indices: 21618843--21619081 Score: 168
Period size: 27 Copynumber: 9.9 Consensus size: 26
21618833 TTTTAAATTA
*
21618843 AGGGTTATGGTTTTTAAGTTAA-G--
1 AGGGTTAGGGTTTTTAAGTTAAGGTT
*
21618866 -GGTTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTAGGGTTTTTAAGTTAA-GGTT
*
21618892 AGGGTTAGGGTTTTTAGGTTAA----
1 AGGGTTAGGGTTTTTAAGTTAAGGTT
* *
21618914 A-TGTTAGGGTTTTTAGGTTAAGG--
1 AGGGTTAGGGTTTTTAAGTTAAGGTT
*
21618937 G---TTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTAGGGTTTTTAAGTTAA-GGTT
* *
21618961 AGGGTTATGGTTTTT-AGATAAGGGTT
1 AGGGTTAGGGTTTTTAAGTTAA-GGTT
21618987 AAGGGTTAGGGTTTTTAAGTTAA-G--
1 -AGGGTTAGGGTTTTTAAGTTAAGGTT
*
21619011 -GGTTTAGGGTTTTTAAGTT-A----
1 AGGGTTAGGGTTTTTAAGTTAAGGTT
21619031 AGGGTTAGGGTTTTT-AGATTAAGGATT
1 AGGGTTAGGGTTTTTAAG-TTAAGG-TT
21619058 AGGGTTAGGGTTTTTAAGTTAAGG
1 AGGGTTAGGGTTTTTAAGTTAAGG
21619082 GTTTAAGGTT
Statistics
Matches: 178, Mismatches: 14, Indels: 44
0.75 0.06 0.19
Matches are distributed among these distances:
20 2 0.01
21 52 0.29
22 41 0.23
24 1 0.01
26 11 0.06
27 64 0.36
28 7 0.04
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (26 bp):
AGGGTTAGGGTTTTTAAGTTAAGGTT
Found at i:21618902 original size:70 final size:70
Alignment explanation
Indices: 21618828--21619092 Score: 317
Period size: 70 Copynumber: 3.7 Consensus size: 70
21618818 TTTTAGGCTA
*
21618828 AGGGTTTTTAAATTAAGGGTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA
1 AGGGTTTTTAAATTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA
21618893 GGGTT
66 GGGTT
** ** *
21618898 AGGGTTTTTAGGTTAAATGTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTA
1 AGGGTTTTTAAATTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA
21618962 GGGTT
66 GGGTT
*
21618967 ATGGTTTTTAGATAAGGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA
1 AGGGTTTTT--A-AA---TTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA
21619032 GGGTTAGGGTT
60 GGGTTAGGGTT
*
21619043 ----TTTAGATTAAGGATT-AGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTT
1 AGGGTTT---TTAA--ATTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
21619093 GTCAATTAAA
Statistics
Matches: 170, Mismatches: 13, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
69 37 0.22
70 68 0.40
71 3 0.02
72 4 0.02
73 1 0.01
74 1 0.01
75 27 0.16
76 29 0.17
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (70 bp):
AGGGTTTTTAAATTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA
GGGTT
Found at i:21619084 original size:21 final size:21
Alignment explanation
Indices: 21618622--21619063 Score: 384
Period size: 21 Copynumber: 20.0 Consensus size: 21
21618612 TCAAATTATA
21618622 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
21618643 TTTAAGTTAAGTGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
21618664 TTTTATTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
21618685 TTAAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
21618707 TTTAATTTAAGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
*
21618727 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
21618749 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
21618770 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
21618792 TTTAAGTTAAGAGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
****** * * *
21618813 GGGGTTTTTAGGCTAAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
21618834 TTTAAATTAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
21618855 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
21618877 TTTAAGTTAAGGGTTAGGGTTAGGGTT
1 TTTAAGTT-A-----AGGGTTAGGGTT
* **
21618904 TTTAGGTTAAATGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
21618925 TTTAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
21618946 TTTAAGTTAAGGGTTAGGGTTATGGT
1 TTTAAGTTAAGGGTTAGGG---T--T
* *
21618972 TTTTAGATAAGGGTTAAGGGTTAGGGTT
1 TTTAAGTTAA-------GGGTTAGGGTT
21619000 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
21619022 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
21619043 TTT-AGATTAAGGATTAGGGTT
1 TTTAAG-TTAAGGGTTAGGGTT
21619064 AGGGTTTTTA
Statistics
Matches: 342, Mismatches: 54, Indels: 50
0.77 0.12 0.11
Matches are distributed among these distances:
20 15 0.04
21 191 0.56
22 86 0.25
23 1 0.00
24 1 0.00
26 10 0.03
27 15 0.04
28 13 0.04
30 1 0.00
33 9 0.03
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:21619139 original size:8 final size:8
Alignment explanation
Indices: 21619115--21619146 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
21619105 ATACATTTAC
21619115 TTATAAA-
1 TTATAAAT
21619122 TTAT-AAT
1 TTATAAAT
21619129 TTATAAAT
1 TTATAAAT
21619137 TTATAAAT
1 TTATAAAT
21619145 TT
1 TT
21619147 TTAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
6 2 0.09
7 8 0.35
8 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTATAAAT
Found at i:21619659 original size:18 final size:18
Alignment explanation
Indices: 21619633--21619675 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21619623 GACTCAGAAA
* *
21619633 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
21619651 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
21619669 AGGAAAC
1 AGGAAAC
21619676 GCACCTAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:21620547 original size:20 final size:20
Alignment explanation
Indices: 21620510--21620547 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21620500 TTTATTTTTA
*
21620510 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
21620530 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
21620548 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:21621545 original size:51 final size:50
Alignment explanation
Indices: 21621484--21621583 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
21621474 AATTATTTAA
21621484 AAATAGGGATTTAAGAGAAATTT-AAGAGAAACTTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGAAG-G-AACTTGAGAGCAAATTGAGATT
* * *
21621535 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTT-GAAGGAACTTGAGAGCAAATTGAGA
21621584 GGAAATTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.91
52 1 0.02
53 3 0.07
ACGTcount: A:0.45, C:0.03, G:0.26, T:0.26
Consensus pattern (50 bp):
AAATAGGGATTTAAGAGAAATTTGAAGGAACTTGAGAGCAAATTGAGATT
Found at i:21621557 original size:11 final size:11
Alignment explanation
Indices: 21621543--21621597 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
21621533 TTAAATATGG
21621543 ATTTGAGAGAA
1 ATTTGAGAGAA
*
21621554 ATTTG-GAAGGA
1 ATTTGAG-AGAA
21621565 ATTTGAGAGCAA
1 ATTTGAGAG-AA
21621577 A-TTGAGAGGAA
1 ATTTGAGA-GAA
21621588 ATTTGAGAGA
1 ATTTGAGAGA
21621598 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:21621590 original size:23 final size:22
Alignment explanation
Indices: 21621543--21621597 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
21621533 TTAAATATGG
21621543 ATTTGAGAGAAATTTGGAAGGA
1 ATTTGAGAGAAATTTGGAAGGA
21621565 ATTTGAGAGCAAA-TT-GAGAGGAA
1 ATTTGAGAG-AAATTTGGA-AGG-A
21621588 ATTTGAGAGA
1 ATTTGAGAGA
21621598 GGATTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.07
22 15 0.50
23 13 0.43
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTTGGAAGGA
Found at i:21622298 original size:17 final size:18
Alignment explanation
Indices: 21622276--21622310 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21622266 TTGAGATGCT
*
21622276 CTAATT-AATCATGTAAA
1 CTAATTAAAGCATGTAAA
21622293 CTAATTAAAGCATGTAAA
1 CTAATTAAAGCATGTAAA
21622311 TTAGATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (18 bp):
CTAATTAAAGCATGTAAA
Found at i:21622932 original size:27 final size:31
Alignment explanation
Indices: 21622902--21622962 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 31
21622892 TAAAAAGATA
21622902 AATTTTAGAAT-TT-TTATGAA-TATTTT-T
1 AATTTTAGAATGTTATTATGAATTATTTTGT
* *
21622929 AATTTTTGAATGTTATTTTGAATTATTTTGT
1 AATTTTAGAATGTTATTATGAATTATTTTGT
21622960 AAT
1 AAT
21622963 ATTTGTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 10 0.36
28 2 0.07
29 6 0.21
30 6 0.21
31 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (31 bp):
AATTTTAGAATGTTATTATGAATTATTTTGT
Found at i:21624562 original size:15 final size:15
Alignment explanation
Indices: 21624542--21624571 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21624532 ACTATTAGTA
21624542 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
21624557 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
21624572 TACCATACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:21629866 original size:21 final size:21
Alignment explanation
Indices: 21629840--21629891 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
21629830 AGCGGTGGCG
*
21629840 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGGTACTGTAGCA
*
21629861 GTGAGATTGGGTACTGTAGCA
1 GTGAGATTAGGTACTGTAGCA
21629882 GTGAGATTAG
1 GTGAGATTAG
21629892 AAACAGCGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.08, G:0.35, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGGTACTGTAGCA
Found at i:21630039 original size:19 final size:19
Alignment explanation
Indices: 21629997--21630043 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
21629987 ATATAATAGA
* * *
21629997 AATTTTAAAATTATTTAAT
1 AATTATAAAATTAATAAAT
21630016 AATTATAAAATTAATAAAT
1 AATTATAAAATTAATAAAT
*
21630035 GATTA-AAAA
1 AATTATAAAA
21630044 CTATTACAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTATAAAATTAATAAAT
Found at i:21636851 original size:199 final size:199
Alignment explanation
Indices: 21636511--21636908 Score: 751
Period size: 199 Copynumber: 2.0 Consensus size: 199
21636501 ATTAGGTAGG
21636511 GTGATCCATTGTCACCCTACCTATCTTTCTTTACCATGAATATCATCTTGAAACTATTGGACTTG
1 GTGATCCATTGTCACCCTACCTATCTTTCTTTACCATGAATATCATCTTGAAACTATTGGACTTG
*
21636576 GGAGCAAAGGAAGGAGTGTTCAGTTTTTGTCCAAAATGTCATCCCATTCAATTGATTCATCTGTG
66 GGAGCAAAGGAAGGAGTGTTCAGTTTTCGTCCAAAATGTCATCCCATTCAATTGATTCATCTGTG
*
21636641 CTTTGAAGATGATTTGCTTATCTTTTGCAAGGGTAAAGCAGATTCTCTGATAGGTATTTGGAGTA
131 CTTTGAAGATGATTTGCTTATCTTTTGCAAGGGTAAAACAGATTCTCTGATAGGTATTTGGAGTA
21636706 TTCT
196 TTCT
*
21636710 GTGATCCATTGTCACCCTACCTATTTTTCTTTACCATGAATATCATCTTGAAACTATTGGACTTG
1 GTGATCCATTGTCACCCTACCTATCTTTCTTTACCATGAATATCATCTTGAAACTATTGGACTTG
*
21636775 GGAGCAAAGGAAGGAGTGTTCAGTTTTCGTCCAAAATGTCATCGCATTCAATTGATTCATCTGTG
66 GGAGCAAAGGAAGGAGTGTTCAGTTTTCGTCCAAAATGTCATCCCATTCAATTGATTCATCTGTG
*
21636840 CTTTGAAGATGATTTGCTTATCTTTTGCAAGGGTAAAACAGATTCTGTGATAGGTATTTGGAGTA
131 CTTTGAAGATGATTTGCTTATCTTTTGCAAGGGTAAAACAGATTCTCTGATAGGTATTTGGAGTA
21636905 TTCT
196 TTCT
21636909 TTCAATTTTT
Statistics
Matches: 194, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 194 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (199 bp):
GTGATCCATTGTCACCCTACCTATCTTTCTTTACCATGAATATCATCTTGAAACTATTGGACTTG
GGAGCAAAGGAAGGAGTGTTCAGTTTTCGTCCAAAATGTCATCCCATTCAATTGATTCATCTGTG
CTTTGAAGATGATTTGCTTATCTTTTGCAAGGGTAAAACAGATTCTCTGATAGGTATTTGGAGTA
TTCT
Found at i:21639299 original size:46 final size:46
Alignment explanation
Indices: 21639232--21639406 Score: 255
Period size: 46 Copynumber: 3.8 Consensus size: 46
21639222 ACAATGCTAT
*
21639232 AACTCAGTATGGTTTTCTTCACAGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
21639278 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * * *
21639324 AACTCAGCATGGTTTTCTTTACCGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * *
21639370 AACTTAGTATGGTTTTTTTTACTG-AA-ACCATACCTAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTAC
21639407 GTTCCACACT
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 10 0.09
45 2 0.02
46 105 0.90
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:21643241 original size:25 final size:25
Alignment explanation
Indices: 21643212--21643275 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
21643202 TTTTTTACAC
21643212 ATATTTAAATTTATTATTAATGATT
1 ATATTTAAATTTATTATTAATGATT
* *
21643237 CTATTTAAATTTATTATTAATTATT
1 ATATTTAAATTTATTATTAATGATT
21643262 ATATTT-AATTTATT
1 ATATTTAAATTTATT
21643276 GATATTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 8 0.22
25 28 0.78
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
ATATTTAAATTTATTATTAATGATT
Found at i:21645797 original size:24 final size:24
Alignment explanation
Indices: 21645765--21645815 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
21645755 AACCTAATTT
* *
21645765 TAATCAATGTCAAATATATTATGC
1 TAATAAATGTCAAATATATTATAC
*
21645789 TAATAAATGTTAAATATATTATAC
1 TAATAAATGTCAAATATATTATAC
21645813 TAA
1 TAA
21645816 ATACTAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATAC
Found at i:21646713 original size:146 final size:145
Alignment explanation
Indices: 21646474--21646761 Score: 396
Period size: 146 Copynumber: 2.0 Consensus size: 145
21646464 ATCAAAATTT
* * * * * * ** *
21646474 AAAATATACTCAAGTTTTTGAAATATAATATATTAGTTTTTTATCTCGTGTGATTCATGGGTTGC
1 AAAATATACTCAAGTTTTCGAAATATAATATACTAATTTTTTATCCCGTGTAATGCACAGGTTAC
** * * *
21646539 TTGTGTGTTTTATAAAATTATTATTTAAATAACGATATATTAAATAAAATTATTGATAAAATAAT
66 TCATATGTTTTATAAAATTATTATTTAAATAACGATATATTAAAT-AAATTATTAATAAAACAAT
21646604 ATTTAAAAGATATTAA
130 ATTTAAAAGATATTAA
*
21646620 AAAATATACTTAAGTTTTCGAAATATAATATACTAATTTTTTATCCCGTGTAATGCACAGGTTAC
1 AAAATATACTCAAGTTTTCGAAATATAATATACTAATTTTTTATCCCGTGTAATGCACAGGTTAC
** *
21646685 TCATATGTTTTATAACTTTTTTATTTAAATAACGATATATTAAATAAATTATTAATAAAACAATA
66 TCATATGTTTTATAAAATTATTATTTAAATAACGATATATTAAATAAATTATTAATAAAACAATA
*
21646750 TTTAAAATATAT
131 TTTAAAAGATAT
21646762 AACCAAATTA
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
145 29 0.24
146 94 0.76
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (145 bp):
AAAATATACTCAAGTTTTCGAAATATAATATACTAATTTTTTATCCCGTGTAATGCACAGGTTAC
TCATATGTTTTATAAAATTATTATTTAAATAACGATATATTAAATAAATTATTAATAAAACAATA
TTTAAAAGATATTAA
Found at i:21647775 original size:22 final size:22
Alignment explanation
Indices: 21647747--21647795 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
21647737 CTCTAATCGT
21647747 CTCAATTTCCTTCCTAAATTCG
1 CTCAATTTCCTTCCTAAATTCG
*
21647769 CTCAATTTCCTTCCTAAATTCT
1 CTCAATTTCCTTCCTAAATTCG
21647791 CTCAA
1 CTCAA
21647796 ACCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.41
Consensus pattern (22 bp):
CTCAATTTCCTTCCTAAATTCG
Found at i:21647825 original size:51 final size:51
Alignment explanation
Indices: 21647769--21647879 Score: 195
Period size: 51 Copynumber: 2.2 Consensus size: 51
21647759 CCTAAATTCG
* *
21647769 CTCAATTTCCTTCCTAAATTCTCTCAAACCCATATTTAATTTCAATTTCCT
1 CTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCC
*
21647820 CTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTCCC
1 CTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCC
21647871 CTCAATTTC
1 CTCAATTTC
21647880 ATTTTTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCC
Found at i:21647915 original size:30 final size:30
Alignment explanation
Indices: 21647880--21647943 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 30
21647870 CCTCAATTTC
21647880 ATTTTTTAAAATAATTTTAAA-TTTTTTAT
1 ATTTTTTAAAATAATTTTAAATTTTTTTAT
21647909 ATTTTTTAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAATAATTTTAAATTTTTTTAT
21647939 ATTTT
1 ATTTT
21647944 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTTTTTAAAATAATTTTAAATTTTTTTAT
Found at i:21649037 original size:7 final size:7
Alignment explanation
Indices: 21649025--21649049 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21649015 AGTGGATTGA
21649025 TATTTAG
1 TATTTAG
21649032 TATTTAG
1 TATTTAG
21649039 TATTTAG
1 TATTTAG
21649046 TATT
1 TATT
21649050 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:21653682 original size:123 final size:123
Alignment explanation
Indices: 21653462--21653796 Score: 557
Period size: 123 Copynumber: 2.7 Consensus size: 123
21653452 CCCAAACTTG
* *
21653462 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCCCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
21653527 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAA-ATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAAAAACGT-AAAAAAAAATATTTCTTACATGAC
* *
21653585 CTACTGTAGCAAAATCGCGTTCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
21653650 TAGAGGCGATTTTATACTATTTTCTCAAAAACGTAAAAAAAAATTATTTCTTCCATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAAAAACGTAAAAAAAAA-TATTTCTTACATGAC
21653709 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
21653774 TA-AAGCTGATTTTATACTATTTG
66 TAGAGGC-GATTTTATACTATTTG
21653797 ACCAGAAACG
Statistics
Matches: 198, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
122 9 0.05
123 96 0.48
124 93 0.47
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (123 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAGGCGATTTTATACTATTTGCTCAAAAACGTAAAAAAAAATATTTCTTACATGAC
Found at i:21653756 original size:124 final size:123
Alignment explanation
Indices: 21653462--21653810 Score: 560
Period size: 124 Copynumber: 2.8 Consensus size: 123
21653452 CCCAAACTTG
* *
21653462 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCCCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
21653527 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAAATTTCTTACATGAC
* *
21653585 CTACTGTAGCAAAATCGCGTTCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
21653650 TAGAGGCGATTTTATACTATTTTCTCAAAAACGT-AAAAAAAAATTATTTCTTCCATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAA--ATTTCTTACATGAC
21653709 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
21653774 TA-AAGCTGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAGGC-GATTTTATACTATTTG-CTCAAAAACGTCAA
21653811 CTCGAAATAA
Statistics
Matches: 209, Mismatches: 12, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
122 9 0.04
123 96 0.46
124 101 0.48
125 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAGGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAAAATTTCTTACATGAC
Found at i:21657225 original size:11 final size:11
Alignment explanation
Indices: 21657189--21657264 Score: 86
Period size: 11 Copynumber: 6.9 Consensus size: 11
21657179 TAAATCCTTT
*
21657189 CTCTC-AATTT
1 CTCTCAAATTC
21657199 CTCTCCAATATT-
1 CTCT-CAA-ATTC
21657211 CTCTCAAATTC
1 CTCTCAAATTC
21657222 CTCTCAAATTC
1 CTCTCAAATTC
21657233 CTCT-AAATTTC
1 CTCTCAAA-TTC
*
21657244 CTCCCAAATTC
1 CTCTCAAATTC
21657255 CTCTCAAATT
1 CTCTCAAATT
21657265 TCTATTTAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
10 10 0.17
11 37 0.64
12 8 0.14
13 3 0.05
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.39
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:21658412 original size:43 final size:43
Alignment explanation
Indices: 21658356--21658500 Score: 218
Period size: 43 Copynumber: 3.4 Consensus size: 43
21658346 TTTTTCACAT
* *
21658356 AAACACCGCTAAAGAACATGACCTTTAGCGGCGCATTCATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCATTTATCAC
*
21658399 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCATTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCATTTATCAC
* * * * *
21658442 AAACGCCGCTAAAGAACATGACCTTAAGCGGCACTTTTTTCAG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCATTTATCAC
21658485 AAACGCCGCTAAAGAA
1 AAACGCCGCTAAAGAA
21658501 ACCTTTAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCATTTATCAC
Found at i:21664197 original size:30 final size:30
Alignment explanation
Indices: 21664161--21664245 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
21664151 ATCCATATTT
*
21664161 ATGGAAAGTCAAAGATATAGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
21664191 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
21664221 TTAGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
21664246 GAGATATTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:21664217 original size:15 final size:15
Alignment explanation
Indices: 21664169--21664245 Score: 50
Period size: 15 Copynumber: 5.1 Consensus size: 15
21664159 TTATGGAAAG
*
21664169 TCAAAGATATAGGTA
1 TCAAAGATATGGGTA
* **
21664184 TCAAATA-ATGGAAA
1 TCAAAGATATGGGTA
21664198 GTCAAAGATATGGGTA
1 -TCAAAGATATGGGTA
* * **
21664214 TCAAATAT-TAGAAA
1 TCAAAGATATGGGTA
21664228 GTCAAAGATATGGGTA
1 -TCAAAGATATGGGTA
21664244 TC
1 TC
21664246 GAGATATTGG
Statistics
Matches: 43, Mismatches: 15, Indels: 8
0.65 0.23 0.12
Matches are distributed among these distances:
14 7 0.16
15 28 0.65
16 8 0.19
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (15 bp):
TCAAAGATATGGGTA
Found at i:21665374 original size:13 final size:13
Alignment explanation
Indices: 21665358--21665386 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21665348 AAATAAATTA
21665358 AAATATTAAAATC
1 AAATATTAAAATC
21665371 AAATATTAAAATC
1 AAATATTAAAATC
21665384 AAA
1 AAA
21665387 AAATAAAATT
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:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATATTAAAATC
Found at i:21666768 original size:109 final size:109
Alignment explanation
Indices: 21666651--21666867 Score: 357
Period size: 109 Copynumber: 2.0 Consensus size: 109
21666641 CATTTTTTTT
21666651 TTTACATTTTGGTTGTCATTGGTC-GGCACCAGTATACGAAAAAAATTAAAAAATAAAAATTTTT
1 TTTACATTTTGGTTGTCATT-GTCTGGCACCAGTATACGAAAAAAATTAAAAAA-AAAAATTTTT
*
21666715 -GGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAA
64 GGGTGGTGGCCTGGCAATGGCCGACACCACCTTTATGTAAAAAAAA
* **
21666760 TTTACATTTTGGTTGTCATTGTCTGGCACCAGTATACGAAAAAATTTAAAAAAAAATTTTTTTGG
1 TTTACATTTTGGTTGTCATTGTCTGGCACCAGTATACGAAAAAAATTAAAAAAAAAAATTTTTGG
*
21666825 GTGGTGGCCTGGCAATGGCCGACACCACCTTTATTTAAAAAAA
66 GTGGTGGCCTGGCAATGGCCGACACCACCTTTATGTAAAAAAA
21666868 TAAAATTCAA
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
108 11 0.11
109 90 0.89
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (109 bp):
TTTACATTTTGGTTGTCATTGTCTGGCACCAGTATACGAAAAAAATTAAAAAAAAAAATTTTTGG
GTGGTGGCCTGGCAATGGCCGACACCACCTTTATGTAAAAAAAA
Found at i:21666959 original size:55 final size:52
Alignment explanation
Indices: 21666876--21667001 Score: 198
Period size: 55 Copynumber: 2.4 Consensus size: 52
21666866 AATAAAATTC
* *
21666876 AAAAAATTAAAATAAATGAGATTGAATGAAAAAACAGGGTGTTAGATGTAGAAA
1 AAAAAATTGAAATAAATGAGATTAAATGAAAAAAC-GGGTGTTAGATGTAG-AA
21666930 AATAAAATTGAAATAAATGAGATTAAATGAAAAAACGGGTGTTAGATGTAGAA
1 AA-AAAATTGAAATAAATGAGATTAAATGAAAAAACGGGTGTTAGATGTAGAA
*
21666983 AAAAAATTGAAATGAATGA
1 AAAAAATTGAAATAAATGA
21667002 AAAAAAAAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
52 16 0.24
53 4 0.06
54 17 0.25
55 31 0.46
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.23
Consensus pattern (52 bp):
AAAAAATTGAAATAAATGAGATTAAATGAAAAAACGGGTGTTAGATGTAGAA
Found at i:21668493 original size:55 final size:55
Alignment explanation
Indices: 21668421--21668578 Score: 262
Period size: 55 Copynumber: 2.9 Consensus size: 55
21668411 CAAAATATTA
21668421 AAATAAATGAGATTGAATGAAAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
1 AAATAAATGAGATTGAATGAAAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
* * * *
21668476 AATTAAATGAGATTGAATGATATAAAAAGGTGTTAGACGTAGAAAAATAAAATTG
1 AAATAAATGAGATTGAATGAAAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
*
21668531 AAATAAATGAGATTAAATGGAAAAAAAAAGGTGTTAGATGTAGAAAAA
1 AAATAAATGAGATTGAAT-GAAAAAAAAAGGTGTTAGATGTAGAAAAA
21668579 CAATTGAACT
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 67 0.72
56 26 0.28
ACGTcount: A:0.55, C:0.01, G:0.20, T:0.24
Consensus pattern (55 bp):
AAATAAATGAGATTGAATGAAAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
Found at i:21669620 original size:23 final size:23
Alignment explanation
Indices: 21669590--21669635 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21669580 TTTTTCGCGT
*
21669590 AAAGGTAGTGTCAGCCATTGGCA
1 AAAGGTAGTGCCAGCCATTGGCA
21669613 AAAGGTAGTGCCAGCCATTGGCA
1 AAAGGTAGTGCCAGCCATTGGCA
21669636 GGCCACCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (23 bp):
AAAGGTAGTGCCAGCCATTGGCA
Found at i:21669952 original size:105 final size:108
Alignment explanation
Indices: 21669748--21669961 Score: 301
Period size: 105 Copynumber: 2.0 Consensus size: 108
21669738 AATTTTTTTT
* *
21669748 TTTACATTTTGGTTCTCATTGGCCGGCACCAATATATGAAAAAAATTCAAAAATAAAAATTTTTG
1 TTTACATTTTGGTTCTCATTGGCCGGCACCAATATACGAAAAAAATGCAAAAATAAAAA--TTTG
*
21669813 GTGGTGGCCTGGCAATGGTCAGCACCACCTTTATGTAAAAAAAAA
64 GTGGTGGCCTGGCAATGGCCAGCACCACCTTTATGTAAAAAAAAA
* * * * *
21669858 TTTACATTTTGGTTGTCATTGTCCGGCACTAGTATCCG-AAAAAATGCAAAAA-AAAAA-TTGGT
1 TTTACATTTTGGTTCTCATTGGCCGGCACCAATATACGAAAAAAATGCAAAAATAAAAATTTGGT
21669920 GGTGGCCTGGCAATGGCC-GACACCACCTTTATGTAAAAAAAA
66 GGTGGCCTGGCAATGGCCAG-CACCACCTTTATGTAAAAAAAA
21669962 TAAAATTCAA
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
104 1 0.01
105 44 0.46
108 5 0.05
109 13 0.14
110 32 0.34
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (108 bp):
TTTACATTTTGGTTCTCATTGGCCGGCACCAATATACGAAAAAAATGCAAAAATAAAAATTTGGT
GGTGGCCTGGCAATGGCCAGCACCACCTTTATGTAAAAAAAAA
Found at i:21670053 original size:55 final size:51
Alignment explanation
Indices: 21669970--21670094 Score: 187
Period size: 55 Copynumber: 2.4 Consensus size: 51
21669960 AATAAAATTC
* *
21669970 AAAAAATTAAAATAAATGAGATTGAATGAAAAAAAAGGGTGTTAGATGTAGAAA
1 AAAAAATTGAAATAAATGAGATTAAATGAAAAAAAA-GGTGTTAGATGTAG--A
21670024 AATAAAATTGAAATAAATGAGATTAAATGAAAAAAAAGGTGTTAGATGTAGA
1 AA-AAAATTGAAATAAATGAGATTAAATGAAAAAAAAGGTGTTAGATGTAGA
*
21670076 AAAAAATTGAAATGAATGA
1 AAAAAATTGAAATAAATGA
21670095 AAAAAAAAAG
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
51 16 0.24
52 3 0.04
54 16 0.24
55 32 0.48
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (51 bp):
AAAAAATTGAAATAAATGAGATTAAATGAAAAAAAAGGTGTTAGATGTAGA
Found at i:21671583 original size:55 final size:55
Alignment explanation
Indices: 21671511--21671684 Score: 271
Period size: 55 Copynumber: 3.2 Consensus size: 55
21671501 CAAAATATTA
*
21671511 AAATAAATGAGATTGAATGAAAAAAAAAGGTGTTAGATCTAGAAAAATAAAATTG
1 AAATAAATGAGATTGAATGAAAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
*
21671566 AAATAAATGAGATTGAATGACAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
1 AAATAAATGAGATTGAATGAAAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
* * *
21671621 AAATAAATGAGATTAAATGGAAAAAAAAGGGTGTTAGATGTAG-AAAA-ACAATTG
1 AAATAAATGAGATTGAAT-GAAAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
*
21671675 AAATGAATGA
1 AAATAAATGA
21671685 AGAAAAAAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
54 15 0.14
55 74 0.67
56 22 0.20
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (55 bp):
AAATAAATGAGATTGAATGAAAAAAAAAGGTGTTAGATGTAGAAAAATAAAATTG
Found at i:21672798 original size:42 final size:43
Alignment explanation
Indices: 21672726--21672864 Score: 217
Period size: 43 Copynumber: 3.3 Consensus size: 43
21672716 TATATGTTTT
* *
21672726 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
* * *
21672769 TAGCGGCGTTTGT-GTAAAAGCGCCGCTAAAGCTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
*
21672811 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
21672854 TAGCGGCGTTT
1 TAGCGGCGTTT
21672865 ATTTCTAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 38 0.44
43 49 0.56
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
Found at i:21674148 original size:41 final size:42
Alignment explanation
Indices: 21674097--21674179 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
21674087 TTTGCAGTGT
*
21674097 TCAATTTCACTACAGAACAACTATATGATGTTGCAGAGGTAA
1 TCAATTTCACTACAGAACAACTACATGATGTTGCAGAGGTAA
* *
21674139 TCAA-TTCACTACCGGACAACTACATGATGTTGCAGAGGTAA
1 TCAATTTCACTACAGAACAACTACATGATGTTGCAGAGGTAA
21674180 CGAAAACTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (42 bp):
TCAATTTCACTACAGAACAACTACATGATGTTGCAGAGGTAA
Found at i:21676365 original size:98 final size:98
Alignment explanation
Indices: 21676181--21676385 Score: 283
Period size: 100 Copynumber: 2.1 Consensus size: 98
21676171 TTTTTTTTAC
21676181 TTTTTT-GTATACTGATACCTGCTATTGACACGAAAAAAGTGAAAAAACAAATTTTCCCCAAAAA
1 TTTTTTCGTATACTGATACCTGCTATTGACAC-AAAAAAGTGAAAAAA-AAA-TTTCCCCAAAAA
*
21676245 AGGTGGTGTCGGCCATTGGCAGGCCACCA-AAATTT
63 AGGTGGTGCCGGCCATTGGCAGGCCACCACAAATTT
* *
21676280 TTTTTTCGTATACTAATACCTACTATTGACACTAAAAAAGT-AAAAAAAACA-TTCCTCCAAAAA
1 TTTTTTCGTATACTGATACCTGCTATTGACAC-AAAAAAGTGAAAAAAAA-ATTTCC-CCAAAAA
*
21676343 AGGTGGTGCCGGCCATTTGCAGGCCACCACCAAATTT
63 AGGTGGTGCCGGCCATTGGCAGGCCACCA-CAAATTT
21676380 TTTTTT
1 TTTTTT
21676386 TTAGTTTTTT
Statistics
Matches: 96, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
97 4 0.04
98 36 0.38
99 13 0.14
100 43 0.45
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (98 bp):
TTTTTTCGTATACTGATACCTGCTATTGACACAAAAAAGTGAAAAAAAAATTTCCCCAAAAAAGG
TGGTGCCGGCCATTGGCAGGCCACCACAAATTT
Found at i:21678287 original size:3 final size:3
Alignment explanation
Indices: 21678281--21678311 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21678271 ATAAAGAAGA
21678281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21678312 GTACAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21678916 original size:3 final size:3
Alignment explanation
Indices: 21678908--21678945 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21678898 AAATGAAAGA
21678908 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21678946 AGCGAAGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21680029 original size:44 final size:44
Alignment explanation
Indices: 21679966--21680131 Score: 244
Period size: 44 Copynumber: 3.8 Consensus size: 44
21679956 ACTACTGCTT
* *
21679966 AGGGAGACAGGA-TCTACAATCTTCAACCTATTCCATTGTTGTCC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCATTGCTGTCC
* * *
21680010 AGGGAGAGAGGACTTACAATCTTCAACCTATTCCACTACTGTCC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCATTGCTGTCC
* *
21680054 AGGGAGATAGGACTTACAATCCTCAACCTATTCCATCGCTGTCC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCATTGCTGTCC
*
21680098 AGGGAGATAGGACTTACAATCTTCGACCTATTCC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCC
21680132 TGTAATGACC
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 109 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCATTGCTGTCC
Found at i:21680907 original size:18 final size:18
Alignment explanation
Indices: 21680877--21680942 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
21680867 ATAAATTATC
21680877 AAGTAAATA-AAA-TAAAG
1 AAGTAAA-AGAAAGTAAAG
* *
21680894 TAAGTAAAGGAAATTAAAG
1 -AAGTAAAAGAAAGTAAAG
* *
21680913 AAATAAAAGAAAGAAAAG
1 AAGTAAAAGAAAGTAAAG
21680931 AAGTAAAAGAAA
1 AAGTAAAAGAAA
21680943 TAGAATAGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 35 0.88
19 5 0.12
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.14
Consensus pattern (18 bp):
AAGTAAAAGAAAGTAAAG
Found at i:21680915 original size:9 final size:9
Alignment explanation
Indices: 21680898--21680944 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
21680888 ATAAAGTAAG
*
21680898 TAAAGGAAA
1 TAAAAGAAA
*
21680907 TTAAAGAAA
1 TAAAAGAAA
21680916 TAAAAGAAA
1 TAAAAGAAA
* *
21680925 GAAAAGAAG
1 TAAAAGAAA
21680934 TAAAAGAAA
1 TAAAAGAAA
21680943 TA
1 TA
21680945 GAATAGGCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (9 bp):
TAAAAGAAA
Found at i:21681001 original size:16 final size:16
Alignment explanation
Indices: 21680980--21681015 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21680970 AGACGAAAAA
* *
21680980 GAAAGAAAGGAAAGGG
1 GAAAGAAAAGAAAAGG
21680996 GAAAGAAAAGAAAAGG
1 GAAAGAAAAGAAAAGG
21681012 GAAA
1 GAAA
21681016 AACTAGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAAAGG
Found at i:21683338 original size:44 final size:44
Alignment explanation
Indices: 21683288--21683707 Score: 642
Period size: 44 Copynumber: 9.5 Consensus size: 44
21683278 GGGTGTTACA
* * ** *
21683288 ATTCCACTGTTGTCCAGGGAGATAGGACTTAAAATCTTCGACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
* * *
21683332 ATTCCACTGCTGTCCAGGGAGATAGGACTTACAATCTTCGACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
* * * *
21683376 ATTCTACTGCTGTCCAGGGAGATAGAACTTGCAATCTTTAACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
* *
21683420 ATTCCACTGCTGTCCAGGGAGATAGGACTTACAATCTTCAACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
*
21683464 ATTCCACTGCTATTCAGGGAGATAGGACTTGCAATCTTCAACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
* * *
21683508 ATTCCACTGTTGTTCAGGGAGATAAGACTTACAATCTTCAACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
* *
21683552 ATTCCACTACTGTTCAGGGAGATAGGATTTGCAATCTTCAACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
* *
21683596 ATTCCACTGCTATTCAGGGAGATATGACTTGCAATCTTCAACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
21683640 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
1 ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
21683684 ATTCCACTGCTGTTCAGGGAGATA
1 ATTCCACTGCTGTTCAGGGAGATA
21683708 CGATTTGTGG
Statistics
Matches: 347, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 347 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
ATTCCACTGCTGTTCAGGGAGATAGGACTTGCAATCTTCAACCT
Found at i:21692035 original size:682 final size:682
Alignment explanation
Indices: 21690730--21692093 Score: 2685
Period size: 682 Copynumber: 2.0 Consensus size: 682
21690720 AAAATAAAAC
21690730 ACTCTTATTTCAAAGAAATAAAACGTCATACCCAGTGAGTTAGGGCACAACATTTTTAATCTTCA
1 ACTCTTATTTCAAAGAAATAAAACGTCATACCCAGTGAGTTAGGGCACAACATTTTTAATCTTCA
21690795 AAATTAAGTTTATCTTTTGACTTTTAAAACCCATGCATTTTGAGAAGGATATTTGGTTATTTGGG
66 AAATTAAGTTTATCTTTTGACTTTTAAAACCCATGCATTTTGAGAAGGATATTTGGTTATTTGGG
21690860 TCAAATGAAAAATCAAAACCCAGTAAGTTAGGGTTCAATTTCTTGAAATTCCTAAATATCGAATA
131 TCAAATGAAAAATCAAAACCCAGTAAGTTAGGGTTCAATTTCTTGAAATTCCTAAATATCGAATA
21690925 TTGCCTTTATTTTTAAAATCCTTAATTCGAGGTAGCAAAATGTCATATCCAGTGAGTTAGGATCC
196 TTGCCTTTATTTTTAAAATCCTTAATTCGAGGTAGCAAAATGTCATATCCAGTGAGTTAGGATCC
21690990 AACATTTTGAAATCCCGAAAAACTTTTATTTAAAATTTGTATGGTTTTATTGTAAAATAAATACT
261 AACATTTTGAAATCCCGAAAAACTTTTATTTAAAATTTGTATGGTTTTATTGTAAAATAAATACT
21691055 TGGCTATCTAAATTTATCGTAAAGAATTGAATCTCAATAAGTTAGGGCACAACCTTCTCGAGAAT
326 TGGCTATCTAAATTTATCGTAAAGAATTGAATCTCAATAAGTTAGGGCACAACCTTCTCGAGAAT
21691120 CGTGAAAAACAAGCACTTTAAAAATTTATGGAAATAAAATGATTTGAATGCTTCAATGAAACACC
391 CGTGAAAAACAAGCACTTTAAAAATTTATGGAAATAAAATGATTTGAATGCTTCAATGAAACACC
* *
21691185 ATTTTTAAAACAAATGTAATATGATTCAATGTCGATGTATGATGTACAGATGGTTGAATGAGCAA
456 ATTTTTAAAACAAATGTAATATGATTCAATGTCGATGTATGATGTACAAATAGTTGAATGAGCAA
21691250 TAGATAAATGCAAATAAGAATAGCAACAATGATTTTAATCACATTATACAAATAACAATATCAAA
521 TAGATAAATGCAAATAAGAATAGCAACAATGATTTTAATCACATTATACAAATAACAATATCAAA
21691315 ACTCGAAATCTAAATAAATCTATCATCTATTTTGAAAGGTATACTAAGACAAAAAAAAAAGCAAT
586 ACTCGAAATCTAAATAAATCTATCATCTATTTTGAAAGGTATACTAAGACAAAAAAAAAAGCAAT
21691380 ATAATCAATATATTATATATATAAAAATTTTA
651 ATAATCAATATATTATATATATAAAAATTTTA
21691412 ACTCTTATTTCAAAGAAATAAAACGTCATACCCAGTGAGTTAGGGCACAACATTTTTAATCTTCA
1 ACTCTTATTTCAAAGAAATAAAACGTCATACCCAGTGAGTTAGGGCACAACATTTTTAATCTTCA
21691477 AAATTAAGTTTATCTTTTGACTTTTAAAACCCATGCATTTTGAGAAGGATATTTGGTTATTTGGG
66 AAATTAAGTTTATCTTTTGACTTTTAAAACCCATGCATTTTGAGAAGGATATTTGGTTATTTGGG
21691542 TCAAATGAAAAATCAAAACCCAGTAAGTTAGGGTTCAATTTCTTGAAATTCCTAAATATCGAATA
131 TCAAATGAAAAATCAAAACCCAGTAAGTTAGGGTTCAATTTCTTGAAATTCCTAAATATCGAATA
21691607 TTGCCTTTATTTTTAAAATCCTTAATTCGAGGTAGCAAAATGTCATATCCAGTGAGTTAGGATCC
196 TTGCCTTTATTTTTAAAATCCTTAATTCGAGGTAGCAAAATGTCATATCCAGTGAGTTAGGATCC
21691672 AACATTTTGAAATCCCGAAAAACTTTTATTTAAAATTTGTATGGTTTTATTGTAAAATAAATACT
261 AACATTTTGAAATCCCGAAAAACTTTTATTTAAAATTTGTATGGTTTTATTGTAAAATAAATACT
21691737 TGGCTATCTAAATTTATCGTAAAGAATTGAATCTCAATAAGTTAGGGCACAACCTTCTCGAGAAT
326 TGGCTATCTAAATTTATCGTAAAGAATTGAATCTCAATAAGTTAGGGCACAACCTTCTCGAGAAT
21691802 CGTGAAAAACAAGC-CTTTTAAAAATTTATGGAAATAAAATGATTTGAATGCTTCAATGAAACAC
391 CGTGAAAAACAAGCAC-TTTAAAAATTTATGGAAATAAAATGATTTGAATGCTTCAATGAAACAC
*
21691866 CATTTTTAAAACAAATGTAATATGATTGAATGTCGATGTATGATGTACAAATAGTTGAATGAGCA
455 CATTTTTAAAACAAATGTAATATGATTCAATGTCGATGTATGATGTACAAATAGTTGAATGAGCA
21691931 ATAGATAAATGCAAATAAGAATAGCAACAATGATTTTAATCACATTATACAAATAACAATATCAA
520 ATAGATAAATGCAAATAAGAATAGCAACAATGATTTTAATCACATTATACAAATAACAATATCAA
21691996 AACTCGAAATCTAAATAAATCTATCATCTATTTTGAAAGGTATACTAAGACAAAAAAAAAAGCAA
585 AACTCGAAATCTAAATAAATCTATCATCTATTTTGAAAGGTATACTAAGACAAAAAAAAAAGCAA
21692061 TATAATCAATATATTATATATATAAAAATTTTA
650 TATAATCAATATATTATATATATAAAAATTTTA
21692094 CAATAAATTA
Statistics
Matches: 678, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
681 1 0.00
682 677 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (682 bp):
ACTCTTATTTCAAAGAAATAAAACGTCATACCCAGTGAGTTAGGGCACAACATTTTTAATCTTCA
AAATTAAGTTTATCTTTTGACTTTTAAAACCCATGCATTTTGAGAAGGATATTTGGTTATTTGGG
TCAAATGAAAAATCAAAACCCAGTAAGTTAGGGTTCAATTTCTTGAAATTCCTAAATATCGAATA
TTGCCTTTATTTTTAAAATCCTTAATTCGAGGTAGCAAAATGTCATATCCAGTGAGTTAGGATCC
AACATTTTGAAATCCCGAAAAACTTTTATTTAAAATTTGTATGGTTTTATTGTAAAATAAATACT
TGGCTATCTAAATTTATCGTAAAGAATTGAATCTCAATAAGTTAGGGCACAACCTTCTCGAGAAT
CGTGAAAAACAAGCACTTTAAAAATTTATGGAAATAAAATGATTTGAATGCTTCAATGAAACACC
ATTTTTAAAACAAATGTAATATGATTCAATGTCGATGTATGATGTACAAATAGTTGAATGAGCAA
TAGATAAATGCAAATAAGAATAGCAACAATGATTTTAATCACATTATACAAATAACAATATCAAA
ACTCGAAATCTAAATAAATCTATCATCTATTTTGAAAGGTATACTAAGACAAAAAAAAAAGCAAT
ATAATCAATATATTATATATATAAAAATTTTA
Found at i:21692584 original size:3 final size:3
Alignment explanation
Indices: 21692578--21692621 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
21692568 GAAATAAGAG
21692578 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21692622 GTACAAAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:21693740 original size:3 final size:3
Alignment explanation
Indices: 21693734--21693777 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
21693724 GAAATAAGAG
21693734 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21693778 GTACAAAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:21698722 original size:31 final size:31
Alignment explanation
Indices: 21698684--21698745 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
21698674 ATCATATTCC
21698684 GATGGATCTGGTGCCCTAAGTGTAGTATTTT
1 GATGGATCTGGTGCCCTAAGTGTAGTATTTT
*
21698715 GATGGATCTGGTGTCCTAAGTGTAGTATTTT
1 GATGGATCTGGTGCCCTAAGTGTAGTATTTT
21698746 CGTCTATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.11, G:0.29, T:0.40
Consensus pattern (31 bp):
GATGGATCTGGTGCCCTAAGTGTAGTATTTT
Found at i:21703039 original size:20 final size:20
Alignment explanation
Indices: 21703011--21703058 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
21703001 GGAGCTAAAG
*
21703011 TCGCTACATCAGGACCAGAA
1 TCGCGACATCAGGACCAGAA
*
21703031 TCGCGACATCAGGACCAGAG
1 TCGCGACATCAGGACCAGAA
21703051 TCGCGACA
1 TCGCGACA
21703059 CCAATGCTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCGACATCAGGACCAGAA
Found at i:21704062 original size:23 final size:23
Alignment explanation
Indices: 21704020--21704067 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
21704010 AAATTTTATA
* *
21704020 TAATCTTAATTATATTAAATACTT
1 TAATATTAATTATATGAAATA-TT
21704044 TAATATTAA-TATATGAAATATT
1 TAATATTAATTATATGAAATATT
21704066 TA
1 TA
21704068 TATGTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATATTAATTATATGAAATATT
Found at i:21714182 original size:12 final size:11
Alignment explanation
Indices: 21714165--21714197 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
21714155 AACAAATCAT
21714165 CTCTCATATTTC
1 CTCTCA-ATTTC
21714177 CTCTCAA-TTC
1 CTCTCAATTTC
21714187 CTCTCAATTTC
1 CTCTCAATTTC
21714198 TTTCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:21714212 original size:22 final size:22
Alignment explanation
Indices: 21714182--21714237 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
21714172 ATTTCCTCTC
*
21714182 AATTCCTCTCAATTTCTTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
21714205 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
21714227 AATTCTCTCAA
1 AATTCTCTCAA
21714238 ATCCATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:21714266 original size:11 final size:11
Alignment explanation
Indices: 21714252--21714294 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
21714242 ATATTTAATT
21714252 TCAATTTCCTC
1 TCAATTTCCTC
*
21714263 TCAATTTCCTT
1 TCAATTTCCTC
21714274 TCAATATT-CTC
1 TCAAT-TTCCTC
*
21714285 TTAATTTCCT
1 TCAATTTCCT
21714295 TCCAAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 2 0.07
11 23 0.85
12 2 0.07
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.51
Consensus pattern (11 bp):
TCAATTTCCTC
Found at i:21714269 original size:22 final size:22
Alignment explanation
Indices: 21714244--21714310 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
21714234 TCAAATCCAT
21714244 ATTTAATTTCAAT-TTCCTCTCA
1 ATTTAATTTCAATATT-CTCTCA
** *
21714266 ATTTCCTTTCAATATTCTCTTA
1 ATTTAATTTCAATATTCTCTCA
** * *
21714288 ATTTCCTTCCAAAATTCTCTCA
1 ATTTAATTTCAATATTCTCTCA
21714310 A
1 A
21714311 ATCCATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 36 0.95
23 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTAATTTCAATATTCTCTCA
Found at i:21714283 original size:73 final size:74
Alignment explanation
Indices: 21714180--21714347 Score: 279
Period size: 73 Copynumber: 2.3 Consensus size: 74
21714170 ATATTTCCTC
21714180 TCAA-TTCCTCTCAATTT-CTTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCA
1 TCAATTTCCTCTCAATTTCCTTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCA
21714243 TATTTAATT
66 TATTTAATT
* *
21714252 TCAATTTCCTCTCAATTTCCTTT-CAATATTCTCTTAATTTCCTTCCAAAATTCTCTCAAATCCA
1 TCAATTTCCTCTCAATTTCCTTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCA
*
21714316 TATTTGATT
66 TATTTAATT
*
21714325 TCAATTTTCTCTCAATTTCCTTT
1 TCAATTTCCTCTCAATTTCCTTT
21714348 TTTAAAATAA
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
72 4 0.04
73 82 0.91
74 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.46
Consensus pattern (74 bp):
TCAATTTCCTCTCAATTTCCTTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCA
TATTTAATT
Found at i:21717996 original size:12 final size:11
Alignment explanation
Indices: 21717979--21718011 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
21717969 AACAAATCAT
21717979 CTCTCATATTTC
1 CTCTCA-ATTTC
21717991 CTCTCAA-TTC
1 CTCTCAATTTC
21718001 CTCTCAATTTC
1 CTCTCAATTTC
21718012 TTTCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:21718026 original size:22 final size:22
Alignment explanation
Indices: 21717996--21718051 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
21717986 ATTTCCTCTC
*
21717996 AATTCCTCTCAATTTCTTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
21718019 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
21718041 AATTCTCTCAA
1 AATTCTCTCAA
21718052 ATCCATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:21718099 original size:22 final size:22
Alignment explanation
Indices: 21718074--21718124 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
21718064 TTTCAATTTC
21718074 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
21718096 CTCTTAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
21718118 CTCTCAA
1 CTCTCAA
21718125 ATCCATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:21718105 original size:73 final size:73
Alignment explanation
Indices: 21717994--21718160 Score: 300
Period size: 73 Copynumber: 2.3 Consensus size: 73
21717984 ATATTTCCTC
*
21717994 TCAA-TTCCTCTCAATTTCTTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCAT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCAT
21718058 ATTTAATT
66 ATTTAATT
*
21718066 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTTAATTTCCTTCCAAAATTCTCTCAAATCCAT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCAT
*
21718131 ATTTGATT
66 ATTTAATT
21718139 TCAATTTCCTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
21718161 TTTTAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 4 0.04
73 87 0.96
ACGTcount: A:0.27, C:0.28, G:0.01, T:0.44
Consensus pattern (73 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCAT
ATTTAATT
Found at i:21719310 original size:7 final size:7
Alignment explanation
Indices: 21719298--21719322 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21719288 AGTCGATTAA
21719298 TATTTAG
1 TATTTAG
21719305 TATTTAG
1 TATTTAG
21719312 TATTTAG
1 TATTTAG
21719319 TATT
1 TATT
21719323 ATTATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Done.