Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 14 of 120
Found at i:3902317 original size:30 final size:29
Alignment explanation
Indices: 3902243--3902319 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
3902233 TAGTTTATAT
*
3902243 TTTTATAATTTTAAAAAATTAAATCAAAA
1 TTTTATAATTTTAAAAAATAAAATCAAAA
* *
3902272 TTTTATTATTTTAAAAAATAAAAAT-ACAA
1 TTTTATAATTTTAAAAAAT-AAAATCAAAA
*
3902301 TTTTATAAATTATAAAAAA
1 TTTTAT-AATTTTAAAAAA
3902320 ACCAAAACCA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 27 0.66
30 14 0.34
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
TTTTATAATTTTAAAAAATAAAATCAAAA
Found at i:3912280 original size:29 final size:29
Alignment explanation
Indices: 3912238--3912296 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
3912228 AAAAAGAAAG
*
3912238 AAAGAAATCTTAATTTTTAATTAAATTTT
1 AAAGAAATCTTAATTGTTAATTAAATTTT
* *
3912267 AAAGATATCTTAATTGTTAATTAAGTTTT
1 AAAGAAATCTTAATTGTTAATTAAATTTT
3912296 A
1 A
3912297 CCCCTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (29 bp):
AAAGAAATCTTAATTGTTAATTAAATTTT
Found at i:3912641 original size:3 final size:3
Alignment explanation
Indices: 3912633--3912660 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3912623 TTTAAGTATA
3912633 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3912661 TGAGAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3913501 original size:17 final size:15
Alignment explanation
Indices: 3913477--3913515 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
3913467 GGTCACTCAT
3913477 TTTATTTTTCTAAAAA
1 TTTATTTTT-TAAAAA
*
3913493 TTTATTTTTTTAAAA
1 TTTATTTTTTAAAAA
*
3913508 TTAATTTT
1 TTTATTTT
3913516 AAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATTTTTTAAAAA
Found at i:3913509 original size:15 final size:16
Alignment explanation
Indices: 3913477--3913507 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3913467 GGTCACTCAT
3913477 TTTATTTTTCTAAAAA
1 TTTATTTTTCTAAAAA
*
3913493 TTTATTTTTTTAAAA
1 TTTATTTTTCTAAAA
3913508 TTAATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTTTTCTAAAAA
Found at i:3913587 original size:21 final size:22
Alignment explanation
Indices: 3913549--3913589 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
3913539 AACTTTGATG
**
3913549 TTTTATAGGGAAGCACTTAGGT
1 TTTTATAGGGAAAAACTTAGGT
3913571 TTTTATA-GGAAAAACTTAG
1 TTTTATAGGGAAAAACTTAG
3913590 AATTCTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (22 bp):
TTTTATAGGGAAAAACTTAGGT
Found at i:3913912 original size:27 final size:26
Alignment explanation
Indices: 3913863--3913913 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
3913853 AGGAAAAACC
* **
3913863 ATTTTATTTTTTAATTTCCTTTATTT
1 ATTTTATTTTTTAAATTAATTTATTT
3913889 ATTTTCATTTTTTAAATTAATTTAT
1 ATTTT-ATTTTTTAAATTAATTTAT
3913914 AGTTTTTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (26 bp):
ATTTTATTTTTTAAATTAATTTATTT
Found at i:3914581 original size:31 final size:29
Alignment explanation
Indices: 3914543--3914621 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
3914533 ATATCAAAAT
* *
3914543 TATACATGAACTTTGATTTAATGTGCAATTG
1 TATACATGAACTTTAATTT-A-GTGCAATTA
* *
3914574 TATACATGGATTTTAATTTAGTGCAATTA
1 TATACATGAACTTTAATTTAGTGCAATTA
* *
3914603 TACACATGAAACTCTAATT
1 TATACATG-AACTTTAATT
3914622 GTGATTCAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 15 0.38
30 8 0.21
31 16 0.41
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (29 bp):
TATACATGAACTTTAATTTAGTGCAATTA
Found at i:3915299 original size:15 final size:13
Alignment explanation
Indices: 3915276--3915320 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
3915266 ATTTTCTTTA
3915276 TTTTTTACATAATT
1 TTTTTTACAT-ATT
*
3915290 TTTTTATACATATA
1 TTTTT-TACATATT
3915304 TTTTTTACATATT
1 TTTTTTACATATT
3915317 TTTT
1 TTTT
3915321 CTCTGAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 11 0.39
14 12 0.43
15 5 0.18
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTTACATATT
Found at i:3916907 original size:34 final size:33
Alignment explanation
Indices: 3916869--3916946 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 33
3916859 ATGTGCCAAC
* *
3916869 AATTACTTGGATTAAAGTTTTTTATTGACATTTT
1 AATTATTTGGATTAAAG-TTTTTATTGACATCTT
*
3916903 AATTATTTGGGTTTAAAGTTTTTATTGACATCTT
1 AATTATTT-GGATTAAAGTTTTTATTGACATCTT
3916937 AATTATTTGG
1 AATTATTTGG
3916947 GATAATACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 2 0.05
34 30 0.75
35 8 0.20
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (33 bp):
AATTATTTGGATTAAAGTTTTTATTGACATCTT
Found at i:3916947 original size:34 final size:35
Alignment explanation
Indices: 3916880--3916947 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
3916870 ATTACTTGGA
*
3916880 TTAAAGTTTTTTATTGACATTTTAATTATTTGGGT
1 TTAAAGTTTTTTATTGACATCTTAATTATTTGGGT
3916915 TTAAAG-TTTTTATTGACATCTTAATTATTTGGG
1 TTAAAGTTTTTTATTGACATCTTAATTATTTGGG
3916948 ATAATACTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 26 0.81
35 6 0.19
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.54
Consensus pattern (35 bp):
TTAAAGTTTTTTATTGACATCTTAATTATTTGGGT
Found at i:3922242 original size:19 final size:18
Alignment explanation
Indices: 3922198--3922247 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
3922188 TACTTAAACA
3922198 TTTGTTGCTTTTTTGTACC
1 TTTGTTGCTTTTTTGTA-C
3922217 TTTGTTGCTTTTTTGT-C
1 TTTGTTGCTTTTTTGTAC
3922234 TTTGAGTTGCTTTT
1 TTT--GTTGCTTTT
3922248 GTTTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.14
19 25 0.86
ACGTcount: A:0.04, C:0.12, G:0.18, T:0.66
Consensus pattern (18 bp):
TTTGTTGCTTTTTTGTAC
Found at i:3924071 original size:29 final size:29
Alignment explanation
Indices: 3924039--3924106 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
3924029 TACTTTTTTT
*
3924039 AACTTTTAA-AGGCCAAAAATTCTTTTACC
1 AACTTTTAAGAGACC-AAAATTCTTTTACC
* * *
3924068 AACTTTTAAGAGACCTAAATTTTTTTTCC
1 AACTTTTAAGAGACCAAAATTCTTTTACC
3924097 AACTTTTAAG
1 AACTTTTAAG
3924107 GAACTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (29 bp):
AACTTTTAAGAGACCAAAATTCTTTTACC
Found at i:3925214 original size:2 final size:2
Alignment explanation
Indices: 3925207--3925268 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
3925197 CCGGGCCGGT
3925207 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3925249 GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA
3925269 TGGGGTGATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3928730 original size:18 final size:16
Alignment explanation
Indices: 3928698--3928741 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
3928688 ATGGAATGAG
3928698 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
3928714 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
3928728 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
3928742 ACTCTAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:3929089 original size:14 final size:14
Alignment explanation
Indices: 3929070--3929100 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3929060 TAAGTTTAAA
3929070 AAATTTAATTAATT
1 AAATTTAATTAATT
*
3929084 AAATTTATTTAATT
1 AAATTTAATTAATT
3929098 AAA
1 AAA
3929101 AATCTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:3939475 original size:26 final size:26
Alignment explanation
Indices: 3939446--3939502 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
3939436 GTTAAATTGG
3939446 AATTTAAAAAAATTAAAATGGGGTTT
1 AATTTAAAAAAATTAAAATGGGGTTT
******
3939472 AATTGGGTTCAATTAAAATGGGGTTT
1 AATTTAAAAAAATTAAAATGGGGTTT
3939498 AATTT
1 AATTT
3939503 CATCATGTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (26 bp):
AATTTAAAAAAATTAAAATGGGGTTT
Found at i:3942019 original size:23 final size:25
Alignment explanation
Indices: 3941993--3942038 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3941983 CCAATTAGGG
3941993 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
3942016 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
3942039 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:3947420 original size:24 final size:24
Alignment explanation
Indices: 3947392--3947454 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
3947382 AGAAATAATC
*
3947392 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
*
3947416 TTTCAATTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
3947440 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
3947455 TATTACTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:3963684 original size:7 final size:7
Alignment explanation
Indices: 3963674--3963700 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3963664 AGAAAAAGAA
3963674 ATTTTAT
1 ATTTTAT
3963681 ATTTTAT
1 ATTTTAT
3963688 ATTTTAT
1 ATTTTAT
3963695 ATTTTA
1 ATTTTA
3963701 AAAAAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:3963741 original size:20 final size:21
Alignment explanation
Indices: 3963712--3963754 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
3963702 AAAAGAAATT
3963712 AAAAAATTTT-AT-ATTTTAA
1 AAAAAATTTTAATAATTTTAA
3963731 AAAATAATTTTAATAATTTTAA
1 AAAA-AATTTTAATAATTTTAA
3963753 AA
1 AA
3963755 TCATTTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 6 0.29
21 2 0.10
22 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAAAATTTTAATAATTTTAA
Found at i:3963748 original size:29 final size:29
Alignment explanation
Indices: 3963681--3963751 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
3963671 GAAATTTTAT
3963681 ATTTT-AT-ATTTTATATTTTAAAAAAGA
1 ATTTTAATAATTTTATATTTTAAAAAAGA
* * * *
3963708 AATTAAAAAATTTTATATTTTAAAAAATA
1 ATTTTAATAATTTTATATTTTAAAAAAGA
3963737 ATTTTAATAATTTTA
1 ATTTTAATAATTTTA
3963752 AAATCATTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 3 0.09
28 1 0.03
29 31 0.89
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTTTAATAATTTTATATTTTAAAAAAGA
Found at i:3963755 original size:20 final size:18
Alignment explanation
Indices: 3963710--3963760 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
3963700 AAAAAAGAAA
3963710 TTAAAA-AATTTTATATT
1 TTAAAATAATTTTATATT
3963727 TTAAAAAATAATTTTAATAATT
1 TT--AAAATAATTTT-AT-ATT
*
3963749 TTAAAATCATTT
1 TTAAAATAATTT
3963761 GCTAACGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.07
19 4 0.14
20 15 0.54
21 2 0.07
22 5 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATAATTTTATATT
Found at i:3966952 original size:22 final size:21
Alignment explanation
Indices: 3966900--3966952 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
3966890 ATTGTTATGG
3966900 ATGTATTATGCCAATATAATTA
1 ATGT-TTATGCCAATATAATTA
*
3966922 ATTGATTATGCCAATATAATTGA
1 A-TGTTTATGCCAATATAATT-A
3966945 ATGTTTAT
1 ATGTTTAT
3966953 ATGTTAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (21 bp):
ATGTTTATGCCAATATAATTA
Found at i:3982765 original size:48 final size:48
Alignment explanation
Indices: 3982694--3982790 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
3982684 TATCATATAG
3982694 ACTAGCGTGCTTGTTTCCTCTTATCATTTACATCATTTGGTACCTAAC
1 ACTAGCGTGCTTGTTTCCTCTTATCATTTACATCATTTGGTACCTAAC
3982742 ACTAGCGTGCTTGTTTCCTCTTATCATTTACATCATTTGGTACCTAAC
1 ACTAGCGTGCTTGTTTCCTCTTATCATTTACATCATTTGGTACCTAAC
3982790 A
1 A
3982791 ATATCCTAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (48 bp):
ACTAGCGTGCTTGTTTCCTCTTATCATTTACATCATTTGGTACCTAAC
Found at i:3986516 original size:24 final size:24
Alignment explanation
Indices: 3986488--3986548 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
3986478 AGAAATAATC
3986488 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
3986512 TTTCAATTAAA--CTGTTTATTTT
1 TTTCAGTTAAACTCTGTTTATTTG
* *
3986534 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
3986549 TATTAGTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 18 0.60
24 12 0.40
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:3988498 original size:24 final size:24
Alignment explanation
Indices: 3988465--3988515 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3988455 AGAAATAATC
* *
3988465 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
* *
3988489 TTTCAATTAAACTTTATTTTTTTG
1 TTTCAATTAAACTCTATTTATTTG
3988513 TTT
1 TTT
3988516 GAGTCAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.61
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:3989634 original size:97 final size:97
Alignment explanation
Indices: 3989459--3989635 Score: 293
Period size: 97 Copynumber: 1.8 Consensus size: 97
3989449 AATCTTGGAA
*
3989459 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTCACGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
*
3989524 AAACCAGAGATAAAGAAACATTACCTAGATTT
66 AAACCAGAAATAAAGAAACATTACCTAGATTT
* * *
3989556 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCTTAGTAAGTTAAGGTACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
3989621 AAATCC-GAAATAAAG
66 AAA-CCAGAAATAAAG
3989636 GAATATTGCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
97 72 0.97
98 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCAGAAATAAAGAAACATTACCTAGATTT
Found at i:3989926 original size:28 final size:29
Alignment explanation
Indices: 3989894--3989954 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
3989884 ATCAGGGTCG
3989894 AAAATG-AAGTTTCGAAGAGTTTGA-GGTT
1 AAAATGTAAGTTTCGAA-AGTTTGAGGGTT
* * *
3989922 AAAATGTAATTTTGGAAAGTTTTAGGGTT
1 AAAATGTAAGTTTCGAAAGTTTGAGGGTT
3989951 AAAA
1 AAAA
3989955 ATGTCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (29 bp):
AAAATGTAAGTTTCGAAAGTTTGAGGGTT
Found at i:3989982 original size:29 final size:29
Alignment explanation
Indices: 3989922--3990050 Score: 115
Period size: 29 Copynumber: 4.4 Consensus size: 29
3989912 GTTTGAGGTT
* * *
3989922 AAAATGTAATTTTGGAAAGTTTTAGGGTTA
1 AAAATGTGATTTTGGAAAGATTCAGGG-TA
* *
3989952 AAAATGTCATTTTGGGAAGATTCAGGGTA
1 AAAATGTGATTTTGGAAAGATTCAGGGTA
*
3989981 AAAATGTGATTTTTGAAAG-TTC-GGGTGCA
1 AAAATGTGATTTTGGAAAGATTCAGGGT--A
*
3990010 AAAATATGATTTTTGG-AAGATT-AGGGGTA
1 AAAATGTGA-TTTTGGAAAGATTCA-GGGTA
3990039 AAAATGT-ATTTT
1 AAAATGTGATTTT
3990051 TTTGAAGTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
27 8 0.10
28 4 0.05
29 37 0.45
30 30 0.36
31 4 0.05
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAATGTGATTTTGGAAAGATTCAGGGTA
Found at i:3990051 original size:29 final size:28
Alignment explanation
Indices: 3989943--3990372 Score: 216
Period size: 29 Copynumber: 14.9 Consensus size: 28
3989933 TTGGAAAGTT
* * **
3989943 TTAGGGTTAAAAATGTCATTTTGGGAAG
1 TTAGGGGTAAAAATGTGATTTTTAGAAG
3989971 ATTCA-GGGTAAAAATGTGATTTTT-GAAAG
1 -TT-AGGGGTAAAAATGTGATTTTTAG-AAG
* * * *
3990000 TTCGGGTGCAAAAATATGATTTTTGGAAG
1 TTAGGG-GTAAAAATGTGATTTTTAGAAG
*
3990029 ATTAGGGGTAAAAATGT-ATTTTTTTGAAG
1 -TTAGGGGTAAAAATGTGA-TTTTTAGAAG
* * * * * *
3990058 TTTGGGGGCAAAATTGTAATTTTTGGGAG
1 -TTAGGGGTAAAAATGTGATTTTTAGAAG
* * **
3990087 TTTGGGAGCAAAAATGAAATTTTTAGAAG
1 TTAGGG-GTAAAAATGTGATTTTTAGAAG
* * *
3990116 TTCAAGGGAAAAAATG-GAATTTTTAGAATT
1 TT-AGGGGTAAAAATGTG-ATTTTTAGAA-G
* *
3990146 TTAAGGGG--AAAATGTAATTTTTTAAAAG
1 TT-AGGGGTAAAAATGTGA-TTTTTAGAAG
* * *
3990174 TTTGAGGGT-AAAATGTAATTTTTTAAAAG
1 TTAG-GGGTAAAAATGTGA-TTTTTAGAAG
3990203 TTTAGGGGTAAAAATGTGATTTTTAGAAG
1 -TTAGGGGTAAAAATGTGATTTTTAGAAG
*
3990232 TTCGGGG-AAAAATG-GAATTTTTTA-AAG
1 TTAGGGGTAAAAATGTG-A-TTTTTAGAAG
* * ** *
3990259 TTCGAGGGTGAAAATGAAATTTTTTAAAAG
1 TTAG-GGGTAAAAATGTGA-TTTTTAGAAG
*
3990289 TTTAGGGGTAAAAATGTGATTTTTGGAAG
1 -TTAGGGGTAAAAATGTGATTTTTAGAAG
*
3990318 TTAAGGGGTAAAAATG-GAATTTTTGGAAAG
1 TT-AGGGGTAAAAATGTG-ATTTTTAG-AAG
* * *
3990348 TTCGGGGGTCAAAATATGATTTTTA
1 TT-AGGGGTAAAAATGTGATTTTTA
3990373 AAGAGTTTAA
Statistics
Matches: 323, Mismatches: 49, Indels: 57
0.75 0.11 0.13
Matches are distributed among these distances:
26 1 0.00
27 16 0.05
28 41 0.13
29 199 0.62
30 62 0.19
31 4 0.01
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (28 bp):
TTAGGGGTAAAAATGTGATTTTTAGAAG
Found at i:3990195 original size:86 final size:87
Alignment explanation
Indices: 3990097--3990362 Score: 335
Period size: 86 Copynumber: 3.1 Consensus size: 87
3990087 TTTGGGAGCA
* * * * *
3990097 AAAATGAAA-TTTTTAGAAGTTCAAGGGAAAAAATG-GAATTTTTAGAATTTTAAGGGG-AAAAT
1 AAAATGAAATTTTTTAAAAGTTTAGGGGTAAAAATGTG-ATTTTTAGAA-GTTAAGGGGAAAAAT
* *
3990159 GTAATTTTTTAAAAGTTTGAGGGT-
64 GGAATTTTTT-AAAGTTCGAGGGTG
* *
3990183 AAAATGTAATTTTTTAAAAGTTTAGGGGTAAAAATGTGATTTTTAGAAGTT-CGGGGAAAAATGG
1 AAAATGAAATTTTTTAAAAGTTTAGGGGTAAAAATGTGATTTTTAGAAGTTAAGGGGAAAAATGG
3990247 AATTTTTTAAAGTTCGAGGGTG
66 AATTTTTTAAAGTTCGAGGGTG
*
3990269 AAAATGAAATTTTTTAAAAGTTTAGGGGTAAAAATGTGATTTTTGGAAGTTAAGGGGTAAAAATG
1 AAAATGAAATTTTTTAAAAGTTTAGGGGTAAAAATGTGATTTTTAGAAGTTAAGGGG-AAAAATG
* * *
3990334 GAATTTTTGGAAAGTTCGGGGGTC
65 GAATTTTT-TAAAGTTCGAGGGTG
3990358 AAAAT
1 AAAAT
3990363 ATGATTTTTA
Statistics
Matches: 158, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
85 16 0.10
86 73 0.46
87 36 0.23
88 16 0.10
89 17 0.11
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.35
Consensus pattern (87 bp):
AAAATGAAATTTTTTAAAAGTTTAGGGGTAAAAATGTGATTTTTAGAAGTTAAGGGGAAAAATGG
AATTTTTTAAAGTTCGAGGGTG
Found at i:3992004 original size:11 final size:11
Alignment explanation
Indices: 3991970--3992010 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
3991960 GGACATTATT
3991970 AATTT-AAATA
1 AATTTAAAATA
3991980 AATTTAAAATTA
1 AATTTAAAA-TA
3991992 AATTTAAAATA
1 AATTTAAAATA
3992003 AATTTAAA
1 AATTTAAA
3992011 TTCTGTTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.17
11 13 0.45
12 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:3992703 original size:209 final size:209
Alignment explanation
Indices: 3992302--3992893 Score: 841
Period size: 209 Copynumber: 2.8 Consensus size: 209
3992292 TGGTTTGGTG
* * *
3992302 TCATTGATTCGGTCTACTTCTCAGTTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCC
1 TCATTGATTTGGTTTACTTCTCAG-TATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCC
* * *
3992367 ACTTCTCTGTGTCTTATCAGGAAGACTGATCTGGTTCACTTCTCTGTATCTCATC-AAGAAGGTA
65 ACTTCTCTATGTCTCATCAGGAAGACTGATCTGGTTCACTTCTCTGTATCTCATCGGA-AAGGTA
* * *
3992431 ATCGCTTTATTGCTTCAACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTAGAAGATTTGCT
129 ATCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTAGAAGATTTGCC
3992496 CACTTTGAGCCTAGTT
194 CACTTTGAGCCTAGTT
*
3992512 TCATTGATTTGGTTTACTTCTCAGTATCTCATTAGGAAGATGACCGCATCACTTGTTTTGATCCA
1 TCATTGATTTGGTTTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
* * *
3992577 CTTCTCTATGTCTCATCAGGAAGACTGATCTAGTTTACTTCTTTGTATCTCATCGGAAAGGTAA-
66 CTTCTCTATGTCTCATCAGGAAGACTGATCTGGTTCACTTCTCTGTATCTCATCGGAAAGGTAAT
* * * *
3992641 CTGCTTTATTGCTTCGACTTACTTCTCAGTATCTCATCAGGAAGTTGGGGTTCA-AGGATTTGCC
131 C-GCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTT-AGAAGATTTGCC
* * *
3992705 CGCTTTGAGTCTGGTT
194 CACTTTGAGCCTAGTT
* * *
3992721 TCATTGATTTGATTTACTTCTCAGTATCTCATCAGGAAGCTGACCGCATAACTTGTTTTGATCCA
1 TCATTGATTTGGTTTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
* * * * *
3992786 CTTCTCTCTGTCTCATAAGGAAGACGGATTTGGTTCGCTTCTCTGTATCTCATCAGG-AAGGTAA
66 CTTCTCTATGTCTCATCAGGAAGACTGATCTGGTTCACTTCTCTGTATCTCATC-GGAAAGGTAA
* *
3992850 TCGCTTTATTGCTTCGACCTGCTTCTCTGTATCTCATCAAGAAG
130 TCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAG
3992894 GTAATCGCTT
Statistics
Matches: 341, Mismatches: 36, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
208 1 0.00
209 313 0.92
210 27 0.08
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (209 bp):
TCATTGATTTGGTTTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCA
CTTCTCTATGTCTCATCAGGAAGACTGATCTGGTTCACTTCTCTGTATCTCATCGGAAAGGTAAT
CGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTAGAAGATTTGCCCA
CTTTGAGCCTAGTT
Found at i:3992894 original size:48 final size:48
Alignment explanation
Indices: 3992822--3992941 Score: 204
Period size: 48 Copynumber: 2.5 Consensus size: 48
3992812 GATTTGGTTC
3992822 GCTTCTCTGTATCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACCT
1 GCTTCTCTGTATCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACCT
* * *
3992870 GCTTCTCTGTATCTCATCAAGAAGGTAATCGCTTTATTGCTTTGACTT
1 GCTTCTCTGTATCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACCT
*
3992918 GCTTCTCAGTATCTCATCAGGAAG
1 GCTTCTCTGTATCTCATCAGGAAG
3992942 CTGAGGTTCG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (48 bp):
GCTTCTCTGTATCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACCT
Found at i:3993076 original size:257 final size:257
Alignment explanation
Indices: 3992614--3993149 Score: 817
Period size: 257 Copynumber: 2.1 Consensus size: 257
3992604 ATCTAGTTTA
*
3992614 CTTCTTTGTATCTCATC-GGAAAGGTAACTGCTTTATTGCTTCGACTTACTTCTCAGTATCTCAT
1 CTTCTCTGTATCTCATCAGG-AAGGTAACTGCTTTATTGCTTCGACTTACTTCTCAGTATCTCAT
* * * *
3992678 CAGGAAGTTGGGGTTCAAGGATTTGCCCGCTTTGAGTCTGGTTTCATTGATTTGATTTACTTCTC
65 CAGGAAGCTGAGGTTCAAGGATTTACCCGCTTTGAGTCTGGTTTCATTGATTTGATCTACTTCTC
3992743 AGTATCTCATCAGGAAGCTGACCGCATAACTTGTTTTGATCCACTTCTCTCTGTCTCATAAGGAA
130 AGTATCTCATCAGGAAGCTGACCGCATAACTTGTTTTGATCCACTTCTCTCTGTCTCATAAGGAA
* * * * *
3992808 GACGGATTTGGTTCGCTTCTCTGTATCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACCTG
195 GACAGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACATTATTGCTTCGACCTG
* * *
3992871 CTTCTCTGTATCTCATCAAGAAGGTAA-TCGCTTTATTGCTTTGACTTGCTTCTCAGTATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGGTAACT-GCTTTATTGCTTCGACTTACTTCTCAGTATCTCAT
* * * *
3992935 CAGGAAGCTGAGGTTCGAGGATTTACTCGCTTTGAGTCTGGTTTCATTGATTTGGTCTACTTCTT
65 CAGGAAGCTGAGGTTCAAGGATTTACCCGCTTTGAGTCTGGTTTCATTGATTTGATCTACTTCTC
* * * * *
3993000 AGTATCTCATCAGGAAGCTGACCGTATCACTTGTTTTGATCCACTTCTCTGTGTCTCTTCAGGAA
130 AGTATCTCATCAGGAAGCTGACCGCATAACTTGTTTTGATCCACTTCTCTCTGTCTCATAAGGAA
*
3993065 GACAGATTTGGTTCACTTCTCTGTATTTCATCAGGAAGGTAACCACATTATTGCTTCGACCTG
195 GACAGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACATTATTGCTTCGACCTG
*
3993128 CTTCTC-ATATCTCATCAGGAAG
1 CTTCTCTGTATCTCATCAGGAAG
3993150 CTAGGGTTCG
Statistics
Matches: 252, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
256 15 0.06
257 236 0.94
258 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (257 bp):
CTTCTCTGTATCTCATCAGGAAGGTAACTGCTTTATTGCTTCGACTTACTTCTCAGTATCTCATC
AGGAAGCTGAGGTTCAAGGATTTACCCGCTTTGAGTCTGGTTTCATTGATTTGATCTACTTCTCA
GTATCTCATCAGGAAGCTGACCGCATAACTTGTTTTGATCCACTTCTCTCTGTCTCATAAGGAAG
ACAGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCACATTATTGCTTCGACCTG
Found at i:3993239 original size:208 final size:207
Alignment explanation
Indices: 3992871--3993430 Score: 806
Period size: 208 Copynumber: 2.7 Consensus size: 207
3992861 CTTCGACCTG
* * * *
3992871 CTTCTCTGTATCTCATCAAGAAGGTAATCGCTTTATTGCTTTGACTTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTTGACCTGCTTCTCACTATCTCATC
* * * *
3992936 AGGAAGCT-GAGGTTCGAGGATTTACTCGCTTTGAGTCTGGTTTCATTGATTTGGTCTACTTCTT
66 AGGAAGCTAG-GGTTCGAAGATTTGCTCGCTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTC
* * * *
3993000 AGTATCTCATCAGGAAGCTGACCGTATCACTTGTTTTGATCCACTTCTCTGTGTCTCTTCAGGAA
130 AATATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTC--CAAGAA
*
3993065 GACAGATTTGGTTCA
193 GACAGATCTGGTTCA
* * * *
3993080 CTTCTCTGTATTTCATCAGGAAGGTAACCACATTATTGCTTCGACCTGCTTCTCA-TATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTTGACCTGCTTCTCACTATCTCATC
*
3993144 AGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
66 AGGAAGCTAGGGTTCGAAGATTTGCTCGCTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
* * *
3993209 ATATCTCATTAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTTTGTGTCTCCAAGAAGAT
131 ATATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCCAAGAAGAC
*
3993274 GGATCTGGTTCA
196 AGATCTGGTTCA
3993286 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTTGACCTGCTTCTCACTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTTGACCTGCTTCTCACTATCTCATC
* * *
3993351 AGGAATCTAGGGCTT-GAAGATTTGCTCGCTTTGAGCCTGGTGTCATTGATTTTGTCTACTTCT-
66 AGGAAGCTAGGG-TTCGAAGATTTGCTCGCTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTC
* *
3993414 -GTGTCTCATCAGGAAGA
130 AATATCTCATCAGGAAGA
3993431 CGGATCTGGT
Statistics
Matches: 316, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
205 14 0.04
206 68 0.22
207 65 0.21
208 120 0.38
209 49 0.16
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (207 bp):
CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTTGACCTGCTTCTCACTATCTCATC
AGGAAGCTAGGGTTCGAAGATTTGCTCGCTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
ATATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTCTCCAAGAAGAC
AGATCTGGTTCA
Found at i:3993438 original size:158 final size:161
Alignment explanation
Indices: 3993268--3993594 Score: 426
Period size: 158 Copynumber: 2.0 Consensus size: 161
3993258 GTGTCTCCAA
* * * * **
3993268 GAAGATGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTTGACCT
1 GAAGACGGATCTGGTCCACTTCTCTATATCTCATCAGGAAGGTAACCGCTTTATTACTTCAACCT
* * * * * *
3993333 GCTTCTCACTATCTCATCAGGAATCTAGGGCTT-GAAGATTTGCTCGCTTTGAGC-CTGGTGTCA
66 GCTTCTCACTATCTCATCAGGAAGCTAGGGCTTCAAAGATTTGCTCACATCGAGCTCTAGTGTCA
* *
3993396 TTGATTTTGTCTACTTCT-GTGTCTCATCAG
131 TTGATTTGGTCTACTTCTAGTATCTCATCAG
* *
3993426 GAAGACGGATCTGGTCCACTTCTCTATATCTTATCATGAAGGTAACCGCTTTATTACTTCAACCT
1 GAAGACGGATCTGGTCCACTTCTCTATATCTCATCAGGAAGGTAACCGCTTTATTACTTCAACCT
* * * * *
3993491 GCTTCTTAGTATCTCATCAGGAAGCTAGGGGTTCAAAGATTTGCTCACATCGAGCTTTAGTTTCA
66 GCTTCTCACTATCTCATCAGGAAGCTAGGGCTTCAAAGATTTGCTCACATCGAGCTCTAGTGTCA
*
3993556 TTGATTTGGTTTACTTCTCAGTATCTCATCAG
131 TTGATTTGGTCTACTTCT-AGTATCTCATCAG
3993588 GAAGACG
1 GAAGACG
3993595 ATCGTATTAC
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
158 86 0.60
159 17 0.12
160 22 0.15
162 18 0.13
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (161 bp):
GAAGACGGATCTGGTCCACTTCTCTATATCTCATCAGGAAGGTAACCGCTTTATTACTTCAACCT
GCTTCTCACTATCTCATCAGGAAGCTAGGGCTTCAAAGATTTGCTCACATCGAGCTCTAGTGTCA
TTGATTTGGTCTACTTCTAGTATCTCATCAG
Found at i:4005394 original size:45 final size:45
Alignment explanation
Indices: 4005330--4005421 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
4005320 AATGACTTTA
*
4005330 ATTGAAAAACCGAGATAAAATGAGTATGCAAATTAAGTACGAGCT
1 ATTGAAAAACCAAGATAAAATGAGTATGCAAATTAAGTACGAGCT
4005375 ATTGAAAAACCAAGATAAAATGAGTATGCAAATTAAGTACGAGCT
1 ATTGAAAAACCAAGATAAAATGAGTATGCAAATTAAGTACGAGCT
4005420 AT
1 AT
4005422 GCAATTAATG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (45 bp):
ATTGAAAAACCAAGATAAAATGAGTATGCAAATTAAGTACGAGCT
Found at i:4005681 original size:29 final size:29
Alignment explanation
Indices: 4005617--4005684 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
4005607 TTAAACTGTA
* *
4005617 ATTTTGGAAAGTTTTAGGGGTAAAAATGT
1 ATTTTGGAAAGATTTAGGGGAAAAAATGT
4005646 CATTTTGGAAAGATTTA-GGGAAAAACATG-
1 -ATTTTGGAAAGATTTAGGGGAAAAA-ATGT
4005675 ATTTTTGGAA
1 A-TTTTGGAA
4005685 GTTCGAGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 15 0.44
30 18 0.53
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
ATTTTGGAAAGATTTAGGGGAAAAAATGT
Found at i:4005725 original size:29 final size:29
Alignment explanation
Indices: 4005617--4005951 Score: 105
Period size: 29 Copynumber: 11.5 Consensus size: 29
4005607 TTAAACTGTA
* * * * *
4005617 ATTTTGGAAAGTTTTAGGGGTAAAAATGTC
1 ATTTTTGAAAG-TTTGGGGGCAAAAATATG
* * *
4005647 ATTTTGGAAAGATTT-AGGG-AAAAACATG
1 ATTTTTGAAAG-TTTGGGGGCAAAAATATG
* * * *
4005675 ATTTTTGGAAG-TTCGAGCCAAAAATATG
1 ATTTTTGAAAGTTTGGGGGCAAAAATATG
*
4005703 ATTTTTGAAAGTTTGGGGGCAAAAAT-GG
1 ATTTTTGAAAGTTTGGGGGCAAAAATATG
* *
4005731 AATTTTTGGAAGTTTGGGGGC-AAAATGT-
1 -ATTTTTGAAAGTTTGGGGGCAAAAATATG
* * ** ** * *
4005759 ATTTTTTTAAAG-GTCAGGATAAAAATGTA
1 A-TTTTTGAAAGTTTGGGGGCAAAAATATG
* *** * *
4005788 ATTTTTTTAAAAGTTAAAGGGTAAAAATTTG
1 A--TTTTTGAAAGTTTGGGGGCAAAAATATG
* * * *
4005819 ATTTTTGGAAGTTCGGAGGCAAAAATATA
1 ATTTTTGAAAGTTTGGGGGCAAAAATATG
* *** ** *
4005848 ATTTTTTAAAAGTTCAAGGATAAAAATGTG
1 A-TTTTTGAAAGTTTGGGGGCAAAAATATG
* *
4005878 ATTTTTGGAAG-TTGAGGGGCAAAAAT-GG
1 ATTTTTGAAAGTTTG-GGGGCAAAAATATG
*
4005906 AATTTTTGGAAAGTTCGGGGGTC-AAAATATG
1 -ATTTTT-GAAAGTTTGGGGG-CAAAAATATG
4005937 ATTTTTGAAGAGTTT
1 ATTTTTGAA-AGTTT
4005952 AAAGACCTTC
Statistics
Matches: 225, Mismatches: 62, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
26 2 0.01
27 5 0.02
28 56 0.25
29 79 0.35
30 67 0.30
31 16 0.07
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (29 bp):
ATTTTTGAAAGTTTGGGGGCAAAAATATG
Found at i:4005824 original size:30 final size:29
Alignment explanation
Indices: 4005790--4005883 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 29
4005780 AAAATGTAAT
*
4005790 TTTTTTAAAAGTTAAAGGGTAAAAATTTGA
1 TTTTTTAAAAGTT-AAGGGTAAAAATATGA
** ** * *
4005820 -TTTTTGGAAGTTCGGAGGCAAAAATATAA
1 TTTTTTAAAAGTTAAG-GGTAAAAATATGA
* *
4005849 TTTTTTAAAAGTTCAAGGATAAAAATGTGA
1 TTTTTTAAAAGTT-AAGGGTAAAAATATGA
4005879 TTTTT
1 TTTTT
4005884 GGAAGTTGAG
Statistics
Matches: 46, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
28 1 0.02
29 20 0.43
30 24 0.52
31 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (29 bp):
TTTTTTAAAAGTTAAGGGTAAAAATATGA
Found at i:4005857 original size:59 final size:59
Alignment explanation
Indices: 4005779--4005912 Score: 189
Period size: 59 Copynumber: 2.3 Consensus size: 59
4005769 AGGTCAGGAT
* *
4005779 AAAAATGTAATTTTTTTAAAAGTTAAAGGGTAAAAATTTGATTTTTGGAAGTTCG-GAGGC
1 AAAAATGTAA-TTTTTTAAAAGTTAAAGGATAAAAATGTGATTTTTGGAAGTT-GAGAGGC
* * *
4005839 AAAAATATAATTTTTTAAAAGTTCAAGGATAAAAATGTGATTTTTGGAAGTTGAGGGGC
1 AAAAATGTAATTTTTTAAAAGTTAAAGGATAAAAATGTGATTTTTGGAAGTTGAGAGGC
*
4005898 AAAAATGGAATTTTT
1 AAAAATGTAATTTTT
4005913 GGAAAGTTCG
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 1 0.02
59 56 0.85
60 9 0.14
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (59 bp):
AAAAATGTAATTTTTTAAAAGTTAAAGGATAAAAATGTGATTTTTGGAAGTTGAGAGGC
Found at i:4005919 original size:59 final size:58
Alignment explanation
Indices: 4005694--4005950 Score: 187
Period size: 59 Copynumber: 4.4 Consensus size: 58
4005684 AGTTCGAGCC
* * ** *
4005694 AAAAATATGATTTTTGAAAGTTTGGGGGCAAAAATGGAATTTTTG-GAAGTT-TGGGGG
1 AAAAATGTGATTTTTGAAAG-TTGGGGGCAAAAATGGAATTTTTGAAAAGTTCAAGGGT
* * * ** ** * * *
4005751 CAAAATGT-ATTTTTTTAAAGGTCAGGATAAAAATGTAATTTTTTTAAAAGTTAAAGGGT
1 AAAAATGTGA-TTTTTGAAAGTTGGGGGCAAAAATGGAA-TTTTTGAAAAGTTCAAGGGT
* * * ** * *
4005810 AAAAATTTGATTTTTGGAAGTTCGGAGGCAAAAATATAATTTTTTAAAAGTTCAAGGAT
1 AAAAATGTGATTTTTGAAAGTT-GGGGGCAAAAATGGAATTTTTGAAAAGTTCAAGGGT
* * **
4005869 AAAAATGTGATTTTTGGAAGTTGAGGGGCAAAAATGGAATTTTTGGAAAGTTCGGGGGT
1 AAAAATGTGATTTTTGAAAGTTG-GGGGCAAAAATGGAATTTTTGAAAAGTTCAAGGGT
* *
4005928 CAAAATATGATTTTTGAAGAGTT
1 AAAAATGTGATTTTTGAA-AGTT
4005951 TAAAGACCTT
Statistics
Matches: 153, Mismatches: 39, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
56 13 0.08
57 20 0.13
58 6 0.04
59 99 0.65
60 15 0.10
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (58 bp):
AAAAATGTGATTTTTGAAAGTTGGGGGCAAAAATGGAATTTTTGAAAAGTTCAAGGGT
Found at i:4005941 original size:30 final size:29
Alignment explanation
Indices: 4005667--4005943 Score: 106
Period size: 29 Copynumber: 9.5 Consensus size: 29
4005657 GATTTAGGGA
* * *
4005667 AAAACATGATTTTTGG-AAGTTC-GAGCC
1 AAAATATGATTTTTGGAAAGTTCGGGGGC
*
4005694 AAAAATATGATTTTT-GAAAGTTTGGGGGC
1 -AAAATATGATTTTTGGAAAGTTCGGGGGC
*
4005723 AAAA-ATGGAATTTTTGG-AAGTTTGGGGGC
1 AAAATAT-G-ATTTTTGGAAAGTTCGGGGGC
* ** * * ***
4005752 AAAATGT-ATTTTTTTAAAGGTCAGGATA
1 AAAATATGATTTTTGGAAAGTTCGGGGGC
* * ** ** **
4005780 AAAATGTAATTTTTTTAAAAGTTAAAGGGTA
1 AAAATATGA-TTTTTGGAAAGTT-CGGGGGC
* *
4005811 AAAATTTGATTTTTGG-AAGTTCGGAGGC
1 AAAATATGATTTTTGGAAAGTTCGGGGGC
* ** * ***
4005839 AAAAATATAATTTTTTAAAAGTTCAAGGATA
1 -AAAATATGATTTTTGGAAAGTTC-GGGGGC
*
4005870 AAAATGTGATTTTTGG-AAGTT-GAGGGGC
1 AAAATATGATTTTTGGAAAGTTCG-GGGGC
4005898 AAAA-ATGGAATTTTTGGAAAGTTCGGGGGTC
1 AAAATAT-G-ATTTTTGGAAAGTTCGGGGG-C
4005929 AAAATATGATTTTTG
1 AAAATATGATTTTTG
4005944 AAGAGTTTAA
Statistics
Matches: 185, Mismatches: 44, Indels: 38
0.69 0.16 0.14
Matches are distributed among these distances:
27 10 0.05
28 45 0.24
29 56 0.30
30 52 0.28
31 20 0.11
32 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAATATGATTTTTGGAAAGTTCGGGGGC
Found at i:4006904 original size:7 final size:7
Alignment explanation
Indices: 4006892--4006928 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
4006882 GCTAGTTTCG
4006892 AAATAAT
1 AAATAAT
4006899 AAATAAT
1 AAATAAT
*
4006906 AAATTAT
1 AAATAAT
4006913 AATATAAT
1 AA-ATAAT
4006921 AAATAAT
1 AAATAAT
4006928 A
1 A
4006929 GGTATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AAATAAT
Found at i:4006921 original size:15 final size:14
Alignment explanation
Indices: 4006892--4006928 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
4006882 GCTAGTTTCG
4006892 AAATAATAAATAAT
1 AAATAATAAATAAT
*
4006906 AAATTATAATATAAT
1 AAATAATAA-ATAAT
4006921 AAATAATA
1 AAATAATA
4006929 GGTATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATAATAAATAAT
Found at i:4007608 original size:17 final size:16
Alignment explanation
Indices: 4007581--4007618 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
4007571 GGACATTATT
4007581 AATTTAAATAAATTTA
1 AATTTAAATAAATTTA
4007597 AATTTCAAATAAATTTA
1 AATTT-AAATAAATTTA
4007614 AATTT
1 AATTT
4007619 TGTTGGGCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTAAATAAATTTA
Found at i:4012958 original size:19 final size:19
Alignment explanation
Indices: 4012896--4012958 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
4012886 TAAAAATAAT
4012896 TTAAAAAAAATTAATTTTATGG
1 TTAAAAAAAA-T-ATTTTA-GG
** *
4012918 TTTTAAATAAT-TTTTAGG
1 TTAAAAAAAATATTTTAGG
4012936 -TAAAAAAAATATTTTAGG
1 TTAAAAAAAATATTTTAGG
4012954 TTAAA
1 TTAAA
4012959 TTGGAGTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 7 0.21
18 9 0.27
19 9 0.27
21 1 0.03
22 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (19 bp):
TTAAAAAAAATATTTTAGG
Found at i:4014054 original size:6 final size:6
Alignment explanation
Indices: 4014033--4014071 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
4014023 TTTTTTTGAG
**
4014033 TTTAAA TTTATT TTTAAA TTTAAA TTTAAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TT
4014072 AATAATGTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:4014054 original size:18 final size:18
Alignment explanation
Indices: 4013991--4014060 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 18
4013981 AATTTTAAAA
*
4013991 TTTTAAATTTTAATTTA-
1 TTTTAAATTTAAATTTAT
*
4014008 TTTAAAATTTAAAATTT-T
1 TTTTAAATTT-AAATTTAT
* *
4014026 TTTTGAGTTTAAATTTAT
1 TTTTAAATTTAAATTTAT
4014044 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
4014061 AAATTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
17 15 0.35
18 28 0.65
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAAATTTAAATTTAT
Found at i:4015858 original size:60 final size:58
Alignment explanation
Indices: 4015774--4016101 Score: 263
Period size: 60 Copynumber: 5.6 Consensus size: 58
4015764 AAACTGTTCA
* * *
4015774 AAAATTACATTTT-AACCTCTAAACTTTCCAAAAATTACATTTTAACCCCCAAACTTCTCC
1 AAAATTACATTTTGACCCTC-AAAC-TTCCAAAAATCACATTTTTACCCCCAAACTTCT-C
* **
4015834 AAAATTATATTTTGACCCTCAAACTTCTCAAAAATCACATTTTTTTCCCCAAACTATC-C
1 AAAATTACATTTTGACCCTCAAACTTC-CAAAAATCACATTTTTACCCCCAAACT-TCTC
** * * * * *
4015893 AAAAGTTACATTTTGACCCTTGAACTTCTTAAAAATCACATTTTTGCCCTCAAACCTCTA
1 AAAA-TTACATTTTGACCCTCAAACTTC-CAAAAATCACATTTTTACCCCCAAACTTCTC
* ** * ** *
4015953 AAAATTACATTTTCACCCCTCGTACTTCCAAAAATCACATTTTTACCCTCGTA-TTCTT
1 AAAATTACATTTTGA-CCCTCAAACTTCCAAAAATCACATTTTTACCCCCAAACTTCTC
* * * * *
4016011 AAAATCACATTTTTACCC-CAAACTTTTCAAAAATTACA-TTTTACCCCCAAACTTCTA
1 AAAATTACATTTTGACCCTCAAAC-TTCCAAAAATCACATTTTTACCCCCAAACTTCTC
* * * *
4016068 AAAATCACCATTTT-ACCCTCGAGCATCCAAAAAT
1 AAAATTA-CATTTTGACCCTCAAACTTCCAAAAAT
4016102 TACCATTCTA
Statistics
Matches: 220, Mismatches: 38, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
56 13 0.06
57 38 0.17
58 25 0.11
59 41 0.19
60 96 0.44
61 7 0.03
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAATTACATTTTGACCCTCAAACTTCCAAAAATCACATTTTTACCCCCAAACTTCTC
Found at i:4015957 original size:29 final size:29
Alignment explanation
Indices: 4015773--4016087 Score: 228
Period size: 30 Copynumber: 10.7 Consensus size: 29
4015763 TAAACTGTTC
* * *
4015773 AAAAATTACA-TTTTAACCTCTAAACTTTCC
1 AAAAATCACATTTTTACCCTC-AAAC-TTCT
* * *
4015803 AAAAATTACATTTTAACCCCCAAACTTCT
1 AAAAATCACATTTTTACCCTCAAACTTCT
* * * *
4015832 CCAAAATTATATTTTGACCCTCAAACTTCT
1 -AAAAATCACATTTTTACCCTCAAACTTCT
* *
4015862 CAAAAATCACATTTTTTTCCC-CAAACTATCC
1 -AAAAATCACA-TTTTTACCCTCAAACT-TCT
* * * **
4015893 AAAAGTTACATTTTGACCCTTGAACTTCTT
1 AAAAATCACATTTTTACCCTCAAACTTC-T
* *
4015923 AAAAATCACATTTTTGCCCTCAAACCTCT
1 AAAAATCACATTTTTACCCTCAAACTTCT
* * ** *
4015952 AAAAATTACATTTTCACCCCTCGTACTTCC
1 AAAAATCACATTTTTA-CCCTCAAACTTCT
**
4015982 AAAAATCACATTTTTACCCTCGTA-TTCT
1 AAAAATCACATTTTTACCCTCAAACTTCT
* *
4016010 TAAAATCACATTTTTACCC-CAAACTTTT
1 AAAAATCACATTTTTACCCTCAAACTTCT
* *
4016038 CAAAAATTACA-TTTTACCCCCAAACTTCT
1 -AAAAATCACATTTTTACCCTCAAACTTCT
4016067 AAAAATCACCA-TTTTACCCTC
1 AAAAATCA-CATTTTTACCCTC
4016088 GAGCATCCAA
Statistics
Matches: 227, Mismatches: 47, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.01
28 39 0.17
29 61 0.27
30 109 0.48
31 16 0.07
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATCACATTTTTACCCTCAAACTTCT
Found at i:4016125 original size:29 final size:28
Alignment explanation
Indices: 4016038--4016128 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 28
4016028 CCAAACTTTT
* *
4016038 CAAAAATTA-CATTTTACCCCCAAACTTC
1 CAAAAATTACCATTTTACCCTC-AAGTTC
* * * *
4016066 TAAAAATCACCATTTTACCCTCGAGCATC
1 CAAAAATTACCATTTTACCCTCAAG-TTC
*
4016095 CAAAAATTACCATTCTACCCTCAATGTTC
1 CAAAAATTACCATTTTACCCTCAA-GTTC
4016124 CAAAA
1 CAAAA
4016129 GTTCGACTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 8 0.16
29 40 0.82
30 1 0.02
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.27
Consensus pattern (28 bp):
CAAAAATTACCATTTTACCCTCAAGTTC
Found at i:4031173 original size:210 final size:210
Alignment explanation
Indices: 4030436--4031545 Score: 1532
Period size: 210 Copynumber: 5.3 Consensus size: 210
4030426 AAACCCACAA
* * *
4030436 CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTAAATTCTCTTCTCTATATCTCATCAG
1 CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
* * * *
4030501 GAAGACGGATTTGGTCCACTTCTCTGTATTTCATCATGAAGCTGACCAGTTTATTGCTTCGACCT
66 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACCT
* * * * * *
4030566 GCTTCTCAGTATCTCATCAGGAAG-TTGGGTTCGAAGTTTTGCTCACATCGAGCTTTGTTTCATT
131 GCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCATATTGAGCTTTGTTTCATT
4030630 GATTT-GGTATACTT
196 GATTTGGGTATACTT
** * *
4030644 CTCTGTATCTCATCATAAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTGTATCTCATCAG
1 CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
* * *
4030709 GAAGACGGATTTGGTCCACTTCTTTGTATCTCATCAGGAAGACGACGATTTTATTGCTTCGACCT
66 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACCT
* * * *
4030774 ACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCGTATTGAGCTTTGTTTTATT
131 GCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCATATTGAGCTTTGTTTCATT
4030839 GATTTGGGGTATACTT
196 GATTT-GGGTATACTT
* * ** *
4030855 CTCTGTATCTCATCAGGAAGATGATCACCTCACTTGTTTTAATCCGTTTCTCTGTATCTCATCAG
1 CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
* * * *
4030920 GAAGATGGATTTGGTCCACTTCTCTGTATCTTATCAAGAAGATGACCATTTTATTGCTTCGACTT
66 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACCT
* *
4030985 GCTTCTTAGTATCTCTTAAGGAAGCTGGGGTTCAAAGTTTCGCTCATATTGAGCTTTGTTTCATT
131 GCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCATATTGAGCTTTGTTTCATT
4031050 GATTTGGGTATACTT
196 GATTTGGGTATACTT
* * * * * *
4031065 CTCTGTACCTCATCAGGAAGATGACAGCCTCAATTATTTTAAACCGCTTCTCTATATCTCATCAG
1 CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
* * * *
4031130 GAAGACGAATTTGGTCCACTTCGCTGTATCTCATTC-GGAAGATGACCATTTTATTTCTTCGACT
66 GAAGACGGATTTGGTCCACTTCTCTGTATCTCA-TCAGGAAGATGACCATTTTATTGCTTCGACC
* * * *
4031194 TGCTTCTTAGTATCTCATCAGGAAGCT-GGGTTCAAAGTTTTGCTCACATCGTGCTTTGTTTCAT
130 TGCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCATATTGAGCTTTGTTTCAT
4031258 TGATTT--GTATACTT
195 TGATTTGGGTATACTT
* * * *
4031272 CTCTGTATCTCATCAGGAAGATGACTGCATAACTTGTTTTAATCCACTTCTCTATATCTCATTAG
1 CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
*
4031337 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTGCTTCGACCT
66 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACCT
* * ** * * * * *
4031402 ACTTCTTAGTATCTAATCAAAAAGCTGAGCTTCGAAGTTCCACTCATATTGAGCTTTGTTTCATT
131 GCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCATATTGAGCTTTGTTTCATT
4031467 GATTTGGGTATACTT
196 GATTTGGGTATACTT
* * * * *
4031482 CTCTGTATCTCATCAGGAATATGGCCGCCTTACTTATTTTAATCTC-CTTCTCTGTATCTCATCA
1 CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATC-CACTTCTCTATATCTCATCA
4031546 AGAATATGAC
Statistics
Matches: 795, Mismatches: 98, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
206 2 0.00
207 143 0.18
208 173 0.22
209 77 0.10
210 208 0.26
211 192 0.24
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (210 bp):
CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACCT
GCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCATATTGAGCTTTGTTTCATT
GATTTGGGTATACTT
Found at i:4031413 original size:417 final size:418
Alignment explanation
Indices: 4030436--4031545 Score: 1518
Period size: 417 Copynumber: 2.7 Consensus size: 418
4030426 AAACCCACAA
* * * * *
4030436 CTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTAAATTCTCTTCTCTATATCTCATCAG
1 CTCTGTATCTCATCAGGAAGATGACTGCATCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
* * *
4030501 GAAGACGGATTTGGTCCACTTCTCTGTATTTCATCATGAAG-CTGACCAGTTTATTGCTTCGACC
66 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGAC-GACCATTTTATTGCTTCGACC
* * * * * * *
4030565 TGCTTCTCAGTATCTCATCAGGAAG-TTGGGTTCGAAGTTTTGCTCACATCGAGCTTTGTTTCAT
130 TGCTTCTTAGTATCTCTTAAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGCTTTGTTTCAT
** * *
4030629 TGATTT-GGTATACTTCTCTGTATCTCATCATAAAGATGACCGCATCACTTGTTTTAATCCACTT
195 TGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTATTTTAATCC-CTT
* ** *
4030693 CTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTTTGTATCTCATCAGGAAGACGACGAT
259 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCGCTGTATCTCATCAGGAAGACGACCAT
**
4030758 TTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCGTAT
324 TTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCACAT
* *
4030823 TGAGCTTTGTTTTATTGATTTGGGGTATACTT
389 CGAGCTTTGTTTCATTGATTT--GGTATACTT
** *
4030855 CTCTGTATCTCATCAGGAAGATGA-T-CACCTCACTTGTTTTAATCCGTTTCTCTGTATCTCATC
1 CTCTGTATCTCATCAGGAAGATGACTGCA--TCACTTGTTTTAATCCACTTCTCTATATCTCATC
* * *
4030918 AGGAAGATGGATTTGGTCCACTTCTCTGTATCTTATCAAGAAGATGACCATTTTATTGCTTCGAC
64 AGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGACCATTTTATTGCTTCGAC
* *
4030983 TTGCTTCTTAGTATCTCTTAAGGAAGCTGGGGTTCAAAGTTTCGCTCATATTGAGCTTTGTTTCA
129 CTGCTTCTTAGTATCTCTTAAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGCTTTGTTTCA
* * * *
4031048 TTGATTTGGGTATACTTCTCTGTACCTCATCAGGAAGATGACAGCCTCAATTATTTTAAACCGCT
194 TTGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTATTTTAATCC-CT
* *
4031113 TCTCTATATCTCATCAGGAAGACGAATTTGGTCCACTTCGCTGTATCTCATTC-GGAAGATGACC
258 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCGCTGTATCTCA-TCAGGAAGACGACC
* * * * *
4031177 ATTTTATTTCTTCGACTTGCTTCTTAGTATCTCATCAGGAAGCT-GGGTTCAAAGTTTTGCTCAC
322 ATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCAC
*
4031241 ATCGTGCTTTGTTTCATTGATTT-GTATACTT
387 ATCGAGCTTTGTTTCATTGATTTGGTATACTT
* *
4031272 CTCTGTATCTCATCAGGAAGATGACTGCATAACTTGTTTTAATCCACTTCTCTATATCTCATTAG
1 CTCTGTATCTCATCAGGAAGATGACTGCATCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
*
4031337 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTGCTTCGACCT
66 GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGACCATTTTATTGCTTCGACCT
* * * * * * * *
4031402 ACTTCTTAGTATCTAATCAA-AAAGCTGAGCTTCGAAGTTCCACTCATATTGAGCTTTGTTTCAT
131 GCTTCTTAGTATCT-CTTAAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGCTTTGTTTCAT
* * *
4031466 TGATTTGGGTATACTTCTCTGTATCTCATCAGGAATATGGCCGCCTTACTTATTTTAATCTCCTT
195 TGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTATTTTAATC-CCTT
4031531 CTCTGTATCTCATCA
259 CTCTGTATCTCATCA
4031546 AGAATATGAC
Statistics
Matches: 607, Mismatches: 74, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
417 245 0.40
418 5 0.01
419 135 0.22
420 77 0.13
421 143 0.24
422 2 0.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (418 bp):
CTCTGTATCTCATCAGGAAGATGACTGCATCACTTGTTTTAATCCACTTCTCTATATCTCATCAG
GAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGACCATTTTATTGCTTCGACCT
GCTTCTTAGTATCTCTTAAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGCTTTGTTTCATT
GATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTATTTTAATCCCTTCT
CTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCGCTGTATCTCATCAGGAAGACGACCATTT
TATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTCACATCG
AGCTTTGTTTCATTGATTTGGTATACTT
Found at i:4031536 original size:49 final size:49
Alignment explanation
Indices: 4031479--4031598 Score: 222
Period size: 49 Copynumber: 2.4 Consensus size: 49
4031469 TTTGGGTATA
* *
4031479 CTTCTCTGTATCTCATCAGGAATATGGCCGCCTTACTTATTTTAATCTC
1 CTTCTCTGTATCTCATCAAGAATATGACCGCCTTACTTATTTTAATCTC
4031528 CTTCTCTGTATCTCATCAAGAATATGACCGCCTTACTTATTTTAATCTC
1 CTTCTCTGTATCTCATCAAGAATATGACCGCCTTACTTATTTTAATCTC
4031577 CTTCTCTGTATCTCATCAAGAA
1 CTTCTCTGTATCTCATCAAGAA
4031599 GACGAATTTG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (49 bp):
CTTCTCTGTATCTCATCAAGAATATGACCGCCTTACTTATTTTAATCTC
Found at i:4031728 original size:259 final size:259
Alignment explanation
Indices: 4031267--4031810 Score: 759
Period size: 259 Copynumber: 2.1 Consensus size: 259
4031257 TTGATTTGTA
* * *
4031267 TACTTCTCTGTATCTCATCAGGAAGATGACTGCATAACTTGTTTTAATCCACTTCTCTATATCTC
1 TACTTCTCTGTATCTCATCAAGAAGATGACCGCATAACTTATTTTAATCCACTTCTCTATATCTC
* * * *
4031332 ATTAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTGCTTC
66 ATCAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGACGACCATTTTATTGCTTC
* *
4031397 GACCTACTTCTTAGTATCTAATCAAAAAGCTGAGCTTCGAAGTTCCACTCATATTGAGCTTTGTT
131 GACCTACTTCTCAGTATCTAATCAAAAAGCTGAGCTTCGAAGTTCCACTCATATTGAGCTTTATT
* * * * *
4031462 TCATTGATTTGGGTATACTTCTCTGTATCTCATCAGGAATATGGCCGCCTTACTTATTTTAATC
196 TCATTGATTTGGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTATTCTAATC
* * * * *
4031526 TCCTTCTCTGTATCTCATCAAGAATATGACCGCCTTACTTATTTTAATCTC-CTTCTCTGTATCT
1 TACTTCTCTGTATCTCATCAAGAAGATGACCGCATAACTTATTTTAATC-CACTTCTCTATATCT
** * *
4031590 CATCAAGAAGACGAATTTGGTTGACTTCTCTATATCTCATCGGGAATACGACCATTTTATTGCTT
65 CATCAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGACGACCATTTTATTGCTT
* * * * * * *
4031655 CGACTTGCTTCTCAGTATCTCAT-AAGGAAGCTGGGGTTCGAAGTTTCACTCATATTGAGCTTTA
130 CGACCTACTTCTCAGTATCTAATCAA-AAAGCTGAGCTTCGAAGTTCCACTCATATTGAGCTTTA
*
4031719 TTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTGTTCTAAT
194 TTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTATTCTAAT
4031784 C
259 C
* *
4031785 TACTTATCTATATCTCATCAAGAAGA
1 TACTTCTCTGTATCTCATCAAGAAGA
4031811 CGTATTTGGT
Statistics
Matches: 248, Mismatches: 35, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
258 2 0.01
259 245 0.99
260 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (259 bp):
TACTTCTCTGTATCTCATCAAGAAGATGACCGCATAACTTATTTTAATCCACTTCTCTATATCTC
ATCAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGACGACCATTTTATTGCTTC
GACCTACTTCTCAGTATCTAATCAAAAAGCTGAGCTTCGAAGTTCCACTCATATTGAGCTTTATT
TCATTGATTTGGGTATACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTATTCTAATC
Found at i:4031895 original size:210 final size:208
Alignment explanation
Indices: 4031528--4031969 Score: 636
Period size: 210 Copynumber: 2.1 Consensus size: 208
4031518 TTTTAATCTC
* * * * * *
4031528 CTTCTCTGTATCTCATCA-AGAATATGACCGCCTTACTTATTTTAATCTCCTTCTCTGTATCTCA
1 CTTCTCTGTATCTCATCAGA-AAGATGACCGCCTCACTTATTCTAATCTACTTATCTATATCTCA
** *
4031592 TCAAGAAGACGAATTTGGTTGACTTCTCTATATCTCATCGGGAATACGACCATTTTATTGCTTCG
65 TCAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAGGAATACGACCATTTTATTGCTTCG
* * * *
4031657 ACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCACTCATATTGAGCTTTATTT
130 ACCTCCTTCTCAGTATCTCATAAGGAAGCT-GGGTTCGAAGTTTCACTCACATCGAGCTTTATTT
4031722 CATTGATTTGGGTATA
194 CATTGATTT-GGTATA
*
4031738 CTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTGTTCTAATCTACTTATCTATATCTCAT
1 CTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTATTCTAATCTACTTATCTATATCTCAT
* * *
4031803 CAAGAAGACGTATTTGGTCCACTTCTCTGTATCTCATCAGGAAGT-TGACCATTTTATTGCTTCG
66 CAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAGGAA-TACGACCATTTTATTGCTTCG
* ** *
4031867 ACCTCCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGTTTTGCTCACATCGAGCTTTGTTTC
130 ACCTCCTTCTCAGTATCTCATAAGGAAGCTGGGTTCGAAGTTTCACTCACATCGAGCTTTATTTC
4031932 ATTGATTTGGTATA
195 ATTGATTTGGTATA
*
4031946 CTTCTCTGTATCTCATCAGGAAGA
1 CTTCTCTGTATCTCATCAGAAAGA
4031970 CGGATTTGGT
Statistics
Matches: 208, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
208 29 0.14
209 38 0.18
210 139 0.67
211 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (208 bp):
CTTCTCTGTATCTCATCAGAAAGATGACCGCCTCACTTATTCTAATCTACTTATCTATATCTCAT
CAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAGGAATACGACCATTTTATTGCTTCGA
CCTCCTTCTCAGTATCTCATAAGGAAGCTGGGTTCGAAGTTTCACTCACATCGAGCTTTATTTCA
TTGATTTGGTATA
Found at i:4031986 original size:37 final size:37
Alignment explanation
Indices: 4031935--4032008 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
4031925 TTGTTTCATT
4031935 GATTTGGTATACTTCTCTGTATCTCATCAGGAAGACG
1 GATTTGGTATACTTCTCTGTATCTCATCAGGAAGACG
*
4031972 GATTTGGT-TCACTTCTCTGTATCTTATCAGGAAGACG
1 GATTTGGTAT-ACTTCTCTGTATCTCATCAGGAAGACG
4032009 ACCATTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.03
37 34 0.97
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (37 bp):
GATTTGGTATACTTCTCTGTATCTCATCAGGAAGACG
Found at i:4032143 original size:159 final size:159
Alignment explanation
Indices: 4031785--4032144 Score: 447
Period size: 159 Copynumber: 2.3 Consensus size: 159
4031775 TGTTCTAATC
* * * ** * **
4031785 TACTTATCTATATCTCATCAAGAAGACGTATTTG-GTCCACTTCTCTGTATCTCATCAGGAAGTT
1 TACTTCTCTGTATCTCATCAAGAAGACGGATCCGCCT-CACTTCTCTGTATCTCATCAGGAAGAC
* * * *
4031849 GACCATTTTATTGCTTCGACCTCCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGTTTTGCT
65 GACCATTTTATTGCTTCGACCTCCTACTCAGTATCTCATAAGGAAGCTAGGTTCGAAGTTTCGCT
4031914 CACATCGAGCTTTGTTTCATTGATTTGGTA
130 CACATCGAGCTTTGTTTCATTGATTTGGTA
* ** ** *
4031944 TACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTTATCAGGAAGACG
1 TACTTCTCTGTATCTCATCAAGAAGACGGATCCGCCTCACTTCTCTGTATCTCATCAGGAAGACG
* * *
4032009 ACCATTTTATTGCTTCGACCTGCTACTCAGTATCTCATAAGGAAGTTCAGGTTCGAAGTTTCGTT
66 ACCATTTTATTGCTTCGACCTCCTACTCAGTATCTCATAAGGAAGCT-AGGTTCGAAGTTTCGCT
* *
4032074 CATATTGAGCTTTGTTTCATTGATTTGGGTA
130 CACATCGAGCTTTGTTTCATTGATTT-GGTA
* *
4032105 TAGTTCTCTGTATCTCATCAAGAAGA-TGA-CCGCCTCACTT
1 TACTTCTCTGTATCTCATCAAGAAGACGGATCCGCCTCACTT
4032145 GTTTTATCCG
Statistics
Matches: 174, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
159 105 0.60
160 41 0.24
161 28 0.16
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (159 bp):
TACTTCTCTGTATCTCATCAAGAAGACGGATCCGCCTCACTTCTCTGTATCTCATCAGGAAGACG
ACCATTTTATTGCTTCGACCTCCTACTCAGTATCTCATAAGGAAGCTAGGTTCGAAGTTTCGCTC
ACATCGAGCTTTGTTTCATTGATTTGGTA
Found at i:4032227 original size:209 final size:207
Alignment explanation
Indices: 4031946--4032337 Score: 563
Period size: 209 Copynumber: 1.9 Consensus size: 207
4031936 ATTTGGTATA
* * * *
4031946 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTTATCAGGAAGACGAC
1 CTTCACTGTATCTCATCAGGAAGACAGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGAC
* * * * *
4032011 CATTTTATTGCTTCGACCTGCTACTCAGTATCTCAT-AAGGAAGTTCAGGTTCGAAGTTTCGTTC
66 AATTTTATTACTTCGACCTACTACTCAGTATCTCATCAA-GAAGCT-AGGTTCGAAGTTTCGCTC
* * *
4032075 ATATTGAGCTTTGTTTCATTGATTTGGGTATAGTTCTCTGTATCTCATCAAGAAGATGACCGCCT
129 ACATCGAGCTTTGTTTCATTGATTT-GGTATACTTCTCTGTATCTCATCAAGAAGATGACCGCCT
4032140 CACTTGTTTTATCCG
193 CACTTGTTTTATCCG
* **
4032155 CTTCACTGTATCTCATCAGGAAGACAGATTTGGTCCACTTCTTTGTATCTCATTC-GGAAGTTGA
1 CTTCACTGTATCTCATCAGGAAGACAGATTTGGTCCACTTCTCTGTATCTCA-TCAGGAAGACGA
* * *
4032219 CAATTTTATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGTTCGAAGTTTTGCTCA
65 CAATTTTATTACTTCGACCTACTACTCAGTATCTCATCAAGAAGCTAGGTTCGAAGTTTCGCTCA
*
4032284 CATCGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATCTCATCAGGAAGA
130 CATCGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATCTCATCAAGAAGA
4032338 CGTATTTGAC
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
207 28 0.17
208 38 0.23
209 92 0.57
210 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (207 bp):
CTTCACTGTATCTCATCAGGAAGACAGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGAC
AATTTTATTACTTCGACCTACTACTCAGTATCTCATCAAGAAGCTAGGTTCGAAGTTTCGCTCAC
ATCGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCAC
TTGTTTTATCCG
Found at i:4032332 original size:368 final size:367
Alignment explanation
Indices: 4031577--4032702 Score: 1641
Period size: 368 Copynumber: 3.0 Consensus size: 367
4031567 TTTTAATCTC
* * * * *
4031577 CTTCTCTGTATCTCATCAAGAAGACGAATTTGGTTGACTTCTCTATATCTCATCGGGAATACGAC
1 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGACGAC
*
4031642 CATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCACTCA
66 CATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTCA
*
4031707 TATTGAGCTTTATTTCATTGATTTGGGTATACTTCTCTGTATCTCATC-AGAAAGATGACCGCCT
131 TATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAAG-AAGATGACCGCCT
* * *
4031771 CACTTGTTCTAATCTACTT-ATCTATATCTCATCAAGAAGACGTATTTGGTCCACTTCTCTGTAT
195 CACTTGTT-TTATCTGCTTCA-CTGTATCTCATCAAGAAGACG-ATTTGGTCCACTTCTCTGTAT
* *
4031835 CTCATCAGGAAGTTGACCATTTTATTGCTTCGACCTCCTTCTCAGTATCTCATCAGGAAGCTGGG
257 CTCATCAGGAAGTTGACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGG
4031900 TTCGAAGTTTTGCTCACATCGAGCTTTGTTTCATTGATTTGGTATA
322 TTCGAAGTTTTGCTCACATCGAGCTTTGTTTCATTGATTTGGTATA
* *
4031946 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTTATCAGGAAGACGAC
1 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGACGAC
* * * ** *
4032011 CATTTTATTGCTTCGACCTGCTACTCAGTATCTCATAAGGAAGTTCAGGTTCGAAGTTTCGTTCA
66 CATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTCA
*
4032076 TATTGAGCTTTGTTTCATTGATTTGGGTATAGTTCTCTGTATCTCATCAAGAAGATGACCGCCTC
131 TATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAAGAAGATGACCGCCTC
* * *
4032141 ACTTGTTTTATCCGCTTCACTGTATCTCATCAGGAAGACAGATTTGGTCCACTTCTTTGTATCTC
196 ACTTGTTTTATCTGCTTCACTGTATCTCATCAAGAAGAC-GATTTGGTCCACTTCTCTGTATCTC
* *
4032206 ATTC-GGAAGTTGACAATTTTATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGTT
260 A-TCAGGAAGTTGACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGTT
4032270 CGAAGTTTTGCTCACATCGAGCTTTGTTTCATTGATTTGGTATA
324 CGAAGTTTTGCTCACATCGAGCTTTGTTTCATTGATTTGGTATA
* ** * * *
4032314 CTTCTCTGTATCTCATCAGGAAGACGTATTT-GACCTATTTCTTTGTATCTCATCAGGAAGACAA
1 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTC-ACTTCTCTGTATCTCATCAGGAAGACGA
* * * *
4032378 CCATTTTATTGCTTTGACTTGTTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTC
65 CCATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTC
* * *
4032443 ATATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATATCATCAGGAAGATGACCACCT
130 ATATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAAGAAGATGACCGCCT
* * * * *
4032508 CACTTGTTTTAATCTGTTTCTCTGTATATCATCATGAAGATGGATTTGGTCCACTTCTCTGTATC
195 CACTTGTTTT-ATCTGCTTCACTGTATCTCATCAAGAAGA-CGATTTGGTCCACTTCTCTGTATC
** * * *
4032573 TCATCAGGAAGACGACCACTTTATTGCTTCGACTTGCTTCTCAGTATCTCAT-AAGGAAGCTGGG
258 TCATCAGGAAGTTGACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAA-GAAGCT-GG
* * *
4032637 GTTCGAAGTTTTGCTCATATGGAGCTTTATTTCATTGATTTGGGTATA
321 GTTCGAAGTTTTGCTCACATCGAGCTTTGTTTCATTGATTT-GGTATA
4032685 CTTCTCTGTATCTCATCA
1 CTTCTCTGTATCTCATCA
4032703 ATAAGATGAC
Statistics
Matches: 682, Mismatches: 64, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
367 2 0.00
368 333 0.49
369 281 0.41
370 42 0.06
371 24 0.04
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (367 bp):
CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGACGAC
CATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTCA
TATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAAGAAGATGACCGCCTC
ACTTGTTTTATCTGCTTCACTGTATCTCATCAAGAAGACGATTTGGTCCACTTCTCTGTATCTCA
TCAGGAAGTTGACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGTTCG
AAGTTTTGCTCACATCGAGCTTTGTTTCATTGATTTGGTATA
Found at i:4032965 original size:208 final size:210
Alignment explanation
Indices: 4032314--4033334 Score: 1361
Period size: 210 Copynumber: 4.9 Consensus size: 210
4032304 ATTTGGTATA
* * * * * *
4032314 CTTCTCTGTATCTCATCAGGAAGACGTATTT-GACCTATTTCTTTGTATCTCATCAGGAAGACAA
1 CTTCTCTATATCTCATCAGGAAGACGGATTTGGTCC-ACTTCTCTGTATCTCATCAGGAAGACGA
* * * *
4032378 CCATTTTATTGCTTTGACTTGTTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTTCGCTC
65 CCATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTC
* *
4032443 ATATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATATCATCAGGAAGATGACCACCT
130 ATATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCT
*
4032508 CACTTGTTTTAATCTG
195 CACTTGTTTTAATCCG
* * * * *
4032524 TTTCTCTGTATATCATCATGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGAC
1 CTTCTCTATATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGAC
* *
4032589 CACTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTTGCTCA
66 CATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTCA
* * ** *
4032654 TATGGAGCTTTATTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAATAAGATGACTGCCTC
131 TATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
4032719 ACTTGTTTTAATCCG
196 ACTTGTTTTAATCCG
* *
4032734 TTTCTCTATATCTCATCAGGAAGACGGATTTGGCCCACTTCTCTGTATCTCATCAGGAAG-CTGA
1 CTTCTCTATATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGAC-GA
* * * * *
4032798 CCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAG-TTGGGTTCGAAGTTTTGCTC
65 CCATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTC
* *
4032862 ACATTGAGCTTTGTTTCATTGATTT-GGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCAT
130 ATATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCT
* * *
4032926 AACTTCTTTTAATCCA
195 CACTTGTTTTAATCCG
* *
4032942 CTTCTCTATATCTCATCAGGAAGACAGATTTGGTCCACTTCTCTGTATCTCATCAGGAA-ATGAC
1 CTTCTCTATATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGAC
* * * * * **
4033006 CATTTTATTACTTCGACCTGCTTCTTAGTATCTAATTAGGAAGCTAAGGTTCGAAGTTTCGCTCA
66 CATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTCA
* * ** * * ** *
4033071 TATTGAACTTTGTTTCATTAATTTCAGTATACTTCTCT-TATCTCATTAGAAAGATGATTGCCTT
131 TATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
* * **
4033135 GCTTGTTTAAATTTG
196 ACTTGTTTTAATCCG
* * * * * * *
4033150 CTTCTCTTTATCTCATCAAGAAGACGAATTTGGTCGACTTCTCTATATCTCATCGGGAAGACAAC
1 CTTCTCTATATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGAC
* * *
4033215 CATTTTATTGCTTTGACTTGCTTCTCAGTATCTCATAAAGAAGCTGGGGTTCGAAGTTTCACTCA
66 CATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTCA
4033280 TATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGA
131 TATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGA
4033335 CGGATTTGGT
Statistics
Matches: 708, Mismatches: 96, Indels: 14
0.87 0.12 0.02
Matches are distributed among these distances:
207 41 0.06
208 224 0.32
209 146 0.21
210 294 0.42
211 3 0.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (210 bp):
CTTCTCTATATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGAC
CATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATAAGGAAGCTGGGGTTCGAAGTTTCGCTCA
TATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
ACTTGTTTTAATCCG
Found at i:4033063 original size:787 final size:778
Alignment explanation
Indices: 4031947--4033753 Score: 2070
Period size: 787 Copynumber: 2.3 Consensus size: 778
4031937 TTTGGTATAC
* *
4031947 TTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTTATCAGGAAGAC-GAC
1 TTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAG-CTGAC
* * * * *
4032011 CATTTTATTGCTTCGACCTGCTACTCAGTATCTCATAAGGAAGTTCAGGTTCGAAGTTTCGTTCA
65 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTT-GGGTTCGAAGTTTTGCTCA
* * *
4032076 TATTGAGCTTTGTTTCATTGATTTGGGTATAGTTCTCTGTATCTCATCAAGAAGATGACCGCCTC
129 AATTGAGCTTTGTTTCATTGATTT-GGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
* * * *
4032141 ACTTGTTTT-ATCCGCTTCACTGTATCTCATCAGGAAGACAGATTTGGTCCACTTCTTTGTATCT
193 ACTTATTTTAATCCGCTTCTCTATATCTCATCAGGAAGACAGATTTGGTCCACTTCTCTGTATCT
* * *
4032205 CATTCGGAAGTTGACAATTTTATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGTT
258 CATTCGGAAGATGACAATTTTATTACTTCGACCTACTTCTCAGTATCTAATCAAGAAGCTAGGTT
* * * * *
4032270 CGAAGTTTTGCTCACATCGAGCTTTGTTTCATTGATTT-GGTATACTTCTCTGTATCTCATCAGG
323 CGAAGTTTCGCTCACATCGAACTTTGTTTCATTAATTTCAGTATACTTCTCT-TATCTCATCAGA
* *
4032334 AAGACG-TAT-TTGAC-CT-ATTT-C-T-T-TGTATCTCATCAGGAAGACAACCATTTTATTGCT
387 AAGACGAT-TCTTG-CTCTAATTTGCTTCTCTGTATCTCATCAAGAAGACAA--A---T-TTG-G
* * *****
4032391 TTGACTTGTTTCTCAGTATCTCATCAGGAAG-CTGGGGTTCAAAGTTTCGCTCAT-A-TTGAGCT
443 TCGAC-T-TCTCT-A-TATCTCATCAGGAAGACAACCATT-AAA--TT-GCT-ATGACTT--GCT
* ** ***
4032453 T-T-GT-T-TCAT-TG-ATTTGGGTATACTTCTCTGTATATCA-TCAGGAAGATGA-C-CACCTC
497 TCTAGTATCTCATAAGAAGCTGGG----CTTCGAAGT-T-TCACTCA--AA-ATGAGCTCACCTC
* * ** * * *
4032509 ACTTG-TTTTAATCTGTTTCTCTGTATATCATCATGAAGATGGATTTGGTCCACTTCTCTGTATC
553 A-TTGATTTGAATATACTTCTCTGTATATCATCAGGAAGACGGATTTGGTCCACTTCTCAGTATC
* * *
4032573 TCATCAGGAAGACGACCACTTTATTGCTTCGACTTGCTTCTCAGTATCTCAT-AAGGAAGCTGGG
617 TCATCAGGAAGACGACCACTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAA-GAAGCTAGG
* * *
4032637 GTTCGAAGTTTTGCTCATATGGAGCTTTATTTCATTGATTTGGGTATACTTCTCTGTATCTCATC
681 GTTCGAAGTTTCGCTCATATGGAGCTTT-TTTCATTGATTTAGGTATACTTCTCTATATCTCATC
* * *
4032702 AATAAGATGACTGCCTCACTTGTTTTAATCCG-T
745 AAGAAGATGACCGCCTCACTTATTTTAATCCGCT
* *
4032735 TTCTCTATATCTCATCAGGAAGACGGATTTGGCCCACTTCTCTGTATCTCATCAGGAAGCTGACC
1 TTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACC
* *
4032800 ATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTTGCTCACA
66 ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTTGCTCAAA
* *
4032865 TTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCATAACT
131 TTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACT
* *
4032930 TCTTTTAATCCACTTCTCTATATCTCATCAGGAAGACAGATTTGGTCCACTTCTCTGTATCTCA-
196 TATTTTAATCCGCTTCTCTATATCTCATCAGGAAGACAGATTTGGTCCACTTCTCTGTATCTCAT
* * * * *
4032994 TCAGGAA-ATGACCATTTTATTACTTCGACCTGCTTCTTAGTATCTAATTAGGAAGCTAAGGTTC
261 TC-GGAAGATGACAATTTTATTACTTCGACCTACTTCTCAGTATCTAATCAAGAAGCT-AGGTTC
* * *
4033058 GAAGTTTCGCTCATATTGAACTTTGTTTCATTAATTTCAGTATACTTCTCTTATCTCATTAGAAA
324 GAAGTTTCGCTCACATCGAACTTTGTTTCATTAATTTCAGTATACTTCTCTTATCTCATCAGAAA
* * * *
4033123 GATGATTGCCTTGCTTGTTTAAATTTGCTTCTCTTTATCTCATCAAGAAGACGAATTTGGTCGAC
389 GACGATT--CTTGC---TCT-AATTTGCTTCTCTGTATCTCATCAAGAAGACAAATTTGGTCGAC
* ** *
4033188 TTCTCTATATCTCATCGGGAAGACAACCATTTTATTGCTTTGACTTGCTTCTCAGTATCTCATAA
448 TTCTCTATATCTCATCAGGAAGACAACCATTAAATTGCTATGACTTGCTTCT-AGTATCTCAT-A
* * * **** **
4033253 AGAAGCTGGGGTTCGAAGTTTCACTCATATTGAGCTTTGTTTCATTGATTTGGGTATACTTCTCT
511 AGAAGCTGGGCTTCGAAGTTTCACTCAAAATGAGC-TCACCTCATTGATTTGAATATACTTCTCT
* * *
4033318 GTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCAGTATCTCATCAGGAAGTCGACCATTTTA
575 GTATATCATCAGGAAGACGGATTTGGTCCACTTCTCAGTATCTCATCAGGAAGACGACCACTTTA
* * *
4033383 TTGCTTTGACCTACTTCTTAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTCATATTGAG
640 TTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTCATATGGAG
4033448 CTTTTTTCATTGATTTAGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTCACTTATTT
705 CTTTTTTCATTGATTTAGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTCACTTATTT
4033513 TAATCCGCT
770 TAATCCGCT
* * * *
4033522 TT-TCTGTATCTCATCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATAAGGAAGCTGACT
1 TTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACC
*
4033586 ATTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTTGCTCAAA
66 ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTTGCTCAAA
* * * *
4033651 TCGAGCTTTGGTTTCATTGATTTGGTATGCTTCTTTGTATCTTATCAGGAAGATGACCGCCTCAC
131 TTGAGCTTT-GTTTCATTGATTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCAC
4033716 TTATTTTAATCCGCTTCTCTATATCTCATCAGGAAGAC
195 TTATTTTAATCCGCTTCTCTATATCTCATCAGGAAGAC
4033754 GGGTTCGAAG
Statistics
Matches: 874, Mismatches: 107, Indels: 77
0.83 0.10 0.07
Matches are distributed among these distances:
784 8 0.01
785 7 0.01
786 288 0.33
787 377 0.43
788 136 0.16
789 9 0.01
790 7 0.01
791 2 0.00
792 9 0.01
793 4 0.00
794 1 0.00
795 4 0.00
796 1 0.00
797 2 0.00
798 1 0.00
799 18 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (778 bp):
TTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACC
ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTTGCTCAAA
TTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACT
TATTTTAATCCGCTTCTCTATATCTCATCAGGAAGACAGATTTGGTCCACTTCTCTGTATCTCAT
TCGGAAGATGACAATTTTATTACTTCGACCTACTTCTCAGTATCTAATCAAGAAGCTAGGTTCGA
AGTTTCGCTCACATCGAACTTTGTTTCATTAATTTCAGTATACTTCTCTTATCTCATCAGAAAGA
CGATTCTTGCTCTAATTTGCTTCTCTGTATCTCATCAAGAAGACAAATTTGGTCGACTTCTCTAT
ATCTCATCAGGAAGACAACCATTAAATTGCTATGACTTGCTTCTAGTATCTCATAAGAAGCTGGG
CTTCGAAGTTTCACTCAAAATGAGCTCACCTCATTGATTTGAATATACTTCTCTGTATATCATCA
GGAAGACGGATTTGGTCCACTTCTCAGTATCTCATCAGGAAGACGACCACTTTATTGCTTCGACC
TACTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTCATATGGAGCTTTTTTCATT
GATTTAGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTCACTTATTTTAATCCGCT
Found at i:4033419 original size:161 final size:160
Alignment explanation
Indices: 4033150--4033494 Score: 530
Period size: 161 Copynumber: 2.1 Consensus size: 160
4033140 TTTAAATTTG
* * *
4033150 CTTCTCTTTATCTCATCAAGAAGACGAATTTGGTCGACTTCTCTATATCTCATCGGGAAGACAAC
1 CTTCTCTATATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGACAAC
* * *
4033215 CATTTTATTGCTTTGACTTGCTTCTCAGTATCTCATAAAGAAGCTGGGGTTCGAAGTTTCACTCA
66 CATTTTATTGCTTTGACCTACTTCTCAGTATCTCATAAAGAAGCTAGGGTTCGAAGTTTCACTCA
*
4033280 TATTGAGCTTTGTTTCATTGATTTGGGTATA
131 TATTGAGCTTT-TTTCATTGATTTAGGTATA
* * * * *
4033311 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTC-AGTATCTCATCAGGAAGTCGA
1 CTTCTCTATATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTA-TATCTCATCAGGAAGACAA
* * *
4033375 CCATTTTATTGCTTTGACCTACTTCTTAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTC
65 CCATTTTATTGCTTTGACCTACTTCTCAGTATCTCATAAAGAAGCTAGGGTTCGAAGTTTCACTC
4033440 ATATTGAGCTTTTTTCATTGATTTAGGTATA
130 ATATTGAGCTTTTTTCATTGATTTAGGTATA
4033471 CTTCTCTATATCTCATCAAGAAGA
1 CTTCTCTATATCTCATCAAGAAGA
4033495 TGACCGCCTC
Statistics
Matches: 167, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
160 41 0.25
161 126 0.75
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (160 bp):
CTTCTCTATATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGACAAC
CATTTTATTGCTTTGACCTACTTCTCAGTATCTCATAAAGAAGCTAGGGTTCGAAGTTTCACTCA
TATTGAGCTTTTTTCATTGATTTAGGTATA
Found at i:4033592 original size:209 final size:208
Alignment explanation
Indices: 4033311--4033754 Score: 667
Period size: 209 Copynumber: 2.1 Consensus size: 208
4033301 TTTGGGTATA
* *
4033311 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCAGTATCTCATCAGGAAGTCGAC
1 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATAAGGAAGTCGAC
*
4033376 CATTTTATTGCTTTGACCTACTTCTTAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTCA
66 CATTTTATTGCTTCGACCTACTTCTTAGTATCTCATCAAGAAG-TAGGGTTCGAAGTTTCGCTCA
* *
4033441 TATTGAGCTTT-TTTCATTGATTTAGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTC
130 AATCGAGCTTTGTTTCATTGATTT-GGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTC
4033505 ACTTATTTTAATCCG
194 ACTTATTTTAATCCG
* * *
4033520 CTTTTCTGTATCTCATCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATAAGGAAG-CTGA
1 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATAAGGAAGTC-GA
* * * * *
4033584 CTATTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTTGCTCA
65 CCATTTTATTGCTTCGACCTACTTCTTAGTATCTCATCAAGAAGTAGGGTTCGAAGTTTCGCTCA
* * * * *
4033649 AATCGAGCTTTGGTTTCATTGATTTGGTATGCTTCTTTGTATCTTATCAGGAAGATGACCGCCTC
130 AATCGAGCTTT-GTTTCATTGATTTGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTC
4033714 ACTTATTTTAATCCG
194 ACTTATTTTAATCCG
*
4033729 CTTCTCTATATCTCATCAGGAAGACG
1 CTTCTCTGTATCTCATCAGGAAGACG
4033755 GGTTCGAAGT
Statistics
Matches: 211, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
208 29 0.14
209 170 0.81
210 12 0.06
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (208 bp):
CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATAAGGAAGTCGAC
CATTTTATTGCTTCGACCTACTTCTTAGTATCTCATCAAGAAGTAGGGTTCGAAGTTTCGCTCAA
ATCGAGCTTTGTTTCATTGATTTGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTCAC
TTATTTTAATCCG
Found at i:4033766 original size:124 final size:123
Alignment explanation
Indices: 4033604--4033879 Score: 390
Period size: 124 Copynumber: 2.2 Consensus size: 123
4033594 GCTTCGACCT
** * * *
4033604 GCTTCTTAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTTGCTCAAATCGAGCTTTGGTTTCATT
1 GCTTCTTA-TATCTCATCAGGAAGACGGGTTCGAAGTTTTGCTCAAATCCAACTTTCGTTTCATT
* * * *
4033669 GATTTGGTATGCTTCTTTGTATCTTATCAGGAAGATGACCGCCTCACTTATTTTAATCC
65 GATTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACCTATTTTAATCC
*
4033728 GCTTCTCTATATCTCATCAGGAAGACGGGTTCGAAGTTTTGCTCATATCCAACTTTCGTTTCATT
1 GCTTCT-TATATCTCATCAGGAAGACGGGTTCGAAGTTTTGCTCAAATCCAACTTTCGTTTCATT
* * *
4033793 GATTTGGTATATTTCTCTGTATCTCATCAGGAAGATGACTGCCTCACCTATTTTAATTC
65 GATTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACCTATTTTAATCC
* *
4033852 ACTTCTTTGTATCTCATCAGGAAGACGG
1 GCTTC-TTATATCTCATCAGGAAGACGG
4033880 ATTTGGTCCA
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
124 132 0.98
125 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (123 bp):
GCTTCTTATATCTCATCAGGAAGACGGGTTCGAAGTTTTGCTCAAATCCAACTTTCGTTTCATTG
ATTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACCTATTTTAATCC
Found at i:4035058 original size:210 final size:207
Alignment explanation
Indices: 4034688--4035363 Score: 913
Period size: 209 Copynumber: 3.2 Consensus size: 207
4034678 AATCATTCTA
* * * *
4034688 AGCTTCCTGATGAGATATTGAGAAGCAGGTTGAAGCAATAAAATGGTCATCTTCCCGATGAGATA
1 AGCTTCCTGATGAGATACTGAGAAGCAGATTGAAGCAATAAAATGGTCGTCTT-CTGATGAGATA
* * * *
4034753 TAGAGAAGTGGACCAAATCCGTCTTCTTGATGAGATATAGAGAAGCAGATTAAAATAAGTGAGGT
65 TAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGAGGC
* * * * * *
4034818 GGTCATCTTCTTGATAAGATACAAAGAAGTATACCCAAATTAATGAAACAAAGCTTAATATGACC
130 GGTCATCTTCCTGATGAGATACAGAGAAGTATA-CCAAATCAATGAAACAAAGCTCAATATGAGC
4034883 GAAACTTCGAACCC
194 GAAACTTCGAACCC
4034897 TAGCTTCCTGATGAGATACTGAGAAGCAGATTGAAGCAATAAAATGGTCGTCTTCTTGATGAGAT
1 -AGCTTCCTGATGAGATACTGAGAAGCAGATTGAAGCAATAAAATGGTCGTCTTC-TGATGAGAT
* * *
4034962 ATAGAGAGGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTAGATTAAAACAAGTGATG
64 ATAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGAGG
*
4035027 CGGTCATCTTCCTGATGAGGTACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGAGC
129 CGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGAGC
* *
4035092 GAAACTTTGAGCCCC
194 GAAACTTCGA-ACCC
* * * * *
4035107 AGTTTCCTGATGTGATACTGAGAAGCA-AGTCGAAGCCATAAAATGGTCAGTTTTCTGATGAGAT
1 AGCTTCCTGATGAGATACTGAGAAGCAGA-TTGAAGCAATAAAATGGTC-GTCTTCTGATGAGAT
** * * ** * *
4035171 ACGGAGAAGCGGGCCAAATCTTTCTTCCTGATGAGATACAGACAAGCGGATTAAAACAAGTGAGG
64 ATAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGAGG
* *
4035236 CGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGT
129 CGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGAGC
*
4035301 GAAACTTCAAACACC
194 GAAACTTCGAAC-CC
* * * *
4035316 ATCTTCCTGATGAGATACTGAGAAGTAGGTTGAAGCAATAAAGTGGTC
1 AGCTTCCTGATGAGATACTGAGAAGCAGATTGAAGCAATAAAATGGTC
4035364 ACCTTCCTGA
Statistics
Matches: 410, Mismatches: 50, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
208 2 0.00
209 254 0.62
210 154 0.38
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (207 bp):
AGCTTCCTGATGAGATACTGAGAAGCAGATTGAAGCAATAAAATGGTCGTCTTCTGATGAGATAT
AGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGAGGCG
GTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGAGCGA
AACTTCGAACCC
Found at i:4035828 original size:17 final size:16
Alignment explanation
Indices: 4035806--4035851 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
4035796 CAATTTTAAA
4035806 ATTTTAAAATTTAATTT
1 ATTTT-AAATTTAATTT
*
4035823 ATTTTAAGTTTAAATTT
1 ATTTTAAATTT-AATTT
*
4035840 ATATTAAATTTA
1 ATTTTAAATTTA
4035852 GAGGGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTTTAAATTTAATTT
Found at i:4035886 original size:17 final size:16
Alignment explanation
Indices: 4035813--4035891 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 16
4035803 AAAATTTTAA
4035813 AATTT-AATTTATTTT
1 AATTTAAATTTATTTT
*
4035828 AAGTTTAAATTTATATTA
1 AA-TTTAAATTTAT-TTT
*
4035846 AATTTAGAGGGTTT-TTTT
1 AATTTA-A--ATTTATTTT
*
4035864 AGTTTAAATTTATTTT
1 AATTTAAATTTATTTT
4035880 GAATTTAAATTT
1 -AATTTAAATTT
4035892 GAAATTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
15 5 0.10
16 7 0.14
17 22 0.44
18 12 0.24
19 1 0.02
20 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (16 bp):
AATTTAAATTTATTTT
Found at i:4037556 original size:30 final size:30
Alignment explanation
Indices: 4037509--4037771 Score: 231
Period size: 30 Copynumber: 8.9 Consensus size: 30
4037499 CCCAGAAGGT
4037509 CCCT-AAACTATCT-AAAAATTACATTTTAA
1 CCCTCAAACT-TCTCAAAAATTACATTTTAA
*
4037538 -CCTCCAAACTTCTCAAAAATTAAATTTTAA
1 CCCT-CAAACTTCTCAAAAATTACATTTTAA
* *
4037568 CCCTCAAACTTGC-CAAAAATCATATTTTAA
1 CCCTCAAACTT-CTCAAAAATTACATTTTAA
4037598 CCCTCAAACTT-TCCAAAAATTACATTTTAA
1 CCCTCAAACTTCT-CAAAAATTACATTTTAA
* * * *
4037628 CCCTTAAACTTATCCAAAATTACATTTTGA
1 CCCTCAAACTTCTCAAAAATTACATTTTAA
* * **
4037658 CCCTCAAACTTCTCAAAAATCATATTTTTT
1 CCCTCAAACTTCTCAAAAATTACATTTTAA
* * *
4037688 CCC-CTAAACCTCT-AAAAATCACATTTTTA
1 CCCTC-AAACTTCTCAAAAATTACATTTTAA
* * * * *
4037717 CCCCCATA-TTC-CCAAAATCACATTTTTA
1 CCCTCAAACTTCTCAAAAATTACATTTTAA
*
4037745 CCCT-AAACTTTTCAAAAATTACATTTT
1 CCCTCAAACTTCTCAAAAATTACATTTT
4037772 TGCCCTCGAC
Statistics
Matches: 195, Mismatches: 26, Indels: 26
0.79 0.11 0.11
Matches are distributed among these distances:
27 2 0.01
28 25 0.13
29 36 0.18
30 127 0.65
31 5 0.03
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.35
Consensus pattern (30 bp):
CCCTCAAACTTCTCAAAAATTACATTTTAA
Found at i:4037715 original size:28 final size:29
Alignment explanation
Indices: 4037509--4037805 Score: 205
Period size: 30 Copynumber: 10.1 Consensus size: 29
4037499 CCCAGAAGGT
* *
4037509 CCCTAAACTATCT-AAAAATTACATTTTAA
1 CCCTAAACT-TCTCAAAAATCACATTTTTA
* * * *
4037538 CCTCCAAACTTCTCAAAAATTAAATTTTAA
1 CC-CTAAACTTCTCAAAAATCACATTTTTA
* *
4037568 CCCTCAAACTTGC-CAAAAATCATATTTTAA
1 CCCT-AAACTT-CTCAAAAATCACATTTTTA
* *
4037598 CCCTCAAACTT-TCCAAAAATTACATTTTAA
1 CCCT-AAACTTCT-CAAAAATCACATTTTTA
* * * *
4037628 CCCTTAAACTTATCCAAAATTACATTTTGA
1 CCC-TAAACTTCTCAAAAATCACATTTTTA
* *
4037658 CCCTCAAACTTCTCAAAAATCATATTTTTTC
1 CCCT-AAACTTCTCAAAAATCACA-TTTTTA
*
4037689 CCCTAAACCTCT-AAAAATCACATTTTTA
1 CCCTAAACTTCTCAAAAATCACATTTTTA
* * *
4037717 CCCCCATA-TTC-CCAAAATCACATTTTTA
1 -CCCTAAACTTCTCAAAAATCACATTTTTA
* * *
4037745 CCCTAAACTTTTCAAAAATTACATTTTTG
1 CCCTAAACTTCTCAAAAATCACATTTTTA
** *
4037774 CCCTCGACTTC-CAAAAGTCACCA-TTTTA
1 CCCTAAACTTCTCAAAAATCA-CATTTTTA
4037802 CCCT
1 CCCT
4037806 CGAGCATCCA
Statistics
Matches: 219, Mismatches: 34, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
27 5 0.02
28 39 0.18
29 45 0.21
30 119 0.54
31 11 0.05
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
CCCTAAACTTCTCAAAAATCACATTTTTA
Found at i:4037716 original size:90 final size:89
Alignment explanation
Indices: 4037509--4037772 Score: 270
Period size: 90 Copynumber: 3.0 Consensus size: 89
4037499 CCCAGAAGGT
* *
4037509 CCCTAAACTATCTAAAAATTACATTTTAA-CCTCCAAACTTCTCAAAAATTAAATTTTAACCCTC
1 CCCTAAACTATCTAAAAATTACATTTTAACCCT-CAAACTT-TCCAAAATTACATTTTAACCCTC
4037573 AAACTTGC-CAAAAATCATA-TTTTAA
64 AAACTT-CTCAAAAATCATATTTTTAA
* * * *
4037598 CCCTCAAACTTTCCAAAAATTACATTTTAACCCTTAAACTTATCCAAAATTACATTTTGACCCTC
1 CCCT-AAACTATCTAAAAATTACATTTTAACCCTCAAACTT-TCCAAAATTACATTTTAACCCTC
**
4037663 AAACTTCTCAAAAATCATATTTTTTC
64 AAACTTCTCAAAAATCATATTTTTAA
* * * * * * * *
4037689 CCCTAAAC-CTCTAAAAATCACATTTTTACCCCCATA-TTCCCAAAATCACATTTTTACCCT-AA
1 CCCTAAACTATCTAAAAATTACATTTTAACCCTCAAACTTTCCAAAATTACATTTTAACCCTCAA
* * *
4037751 ACTTTTCAAAAATTACATTTTT
66 ACTTCTCAAAAATCATATTTTT
4037773 GCCCTCGACT
Statistics
Matches: 149, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
86 21 0.14
87 19 0.13
88 2 0.01
89 26 0.17
90 70 0.47
91 11 0.07
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.35
Consensus pattern (89 bp):
CCCTAAACTATCTAAAAATTACATTTTAACCCTCAAACTTTCCAAAATTACATTTTAACCCTCAA
ACTTCTCAAAAATCATATTTTTAA
Found at i:4037798 original size:29 final size:30
Alignment explanation
Indices: 4037757--4037835 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 30
4037747 CTAAACTTTT
* * *
4037757 CAAAAATTA-CATTTTTGCCCTCGA-CTTC
1 CAAAAATCACCATTTTTACCCTCGAGCATC
*
4037785 CAAAAGTCACCA-TTTTACCCTCGAGCATC
1 CAAAAATCACCATTTTTACCCTCGAGCATC
* *
4037814 CAAAAATTACCA-TTCTACCCTC
1 CAAAAATCACCATTTTTACCCTC
4037836 AATGTTCCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.32, C:0.33, G:0.06, T:0.29
Consensus pattern (30 bp):
CAAAAATCACCATTTTTACCCTCGAGCATC
Found at i:4037806 original size:28 final size:29
Alignment explanation
Indices: 4037769--4037835 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
4037759 AAAATTACAT
* * *
4037769 TTTTGCCCTCGA-CTTCCAAAAGTCACCA
1 TTTTACCCTCGAGCATCCAAAAATCACCA
*
4037797 TTTTACCCTCGAGCATCCAAAAATTACCA
1 TTTTACCCTCGAGCATCCAAAAATCACCA
*
4037826 TTCTACCCTC
1 TTTTACCCTC
4037836 AATGTTCCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 11 0.33
29 22 0.67
ACGTcount: A:0.27, C:0.36, G:0.07, T:0.30
Consensus pattern (29 bp):
TTTTACCCTCGAGCATCCAAAAATCACCA
Found at i:4053701 original size:15 final size:15
Alignment explanation
Indices: 4053654--4053695 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
4053644 TATCCTTATT
4053654 TAATTGGGTGTTTTG
1 TAATTGGGTGTTTTG
*
4053669 T-ATTCGGTGTTTTG
1 TAATTGGGTGTTTTG
4053683 TAATTGGGTGTTT
1 TAATTGGGTGTTT
4053696 CCTAATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.12, C:0.02, G:0.31, T:0.55
Consensus pattern (15 bp):
TAATTGGGTGTTTTG
Found at i:4059005 original size:28 final size:24
Alignment explanation
Indices: 4058980--4059054 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
4058970 AGTTTGAATC
4058980 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
*
4059004 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
* *
4059028 AAACAATTAAATAGAGTTTAATCG
1 AAACAAATAAATAGAGTTTAATTG
4059052 AAA
1 AAA
4059055 GATTATTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.27
Consensus pattern (24 bp):
AAACAAATAAATAGAGTTTAATTG
Found at i:4059054 original size:24 final size:24
Alignment explanation
Indices: 4058968--4059054 Score: 122
Period size: 24 Copynumber: 3.6 Consensus size: 24
4058958 TAGACTAATA
4058968 AGAGTTTGAATC-AAACAAATAAAT
1 AGAGTTT-AATCGAAACAAATAAAT
* *
4058992 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAATCGAAACAAATAAAT
* *
4059016 AGAGTTTAATTGAAACAATTAAAT
1 AGAGTTTAATCGAAACAAATAAAT
4059040 AGAGTTTAATCGAAA
1 AGAGTTTAATCGAAA
4059055 GATTATTTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 3 0.05
24 54 0.95
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (24 bp):
AGAGTTTAATCGAAACAAATAAAT
Found at i:4060938 original size:24 final size:24
Alignment explanation
Indices: 4060910--4060992 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 24
4060900 TAGACTAATA
* * *
4060910 AGAGTTTGACTCAATCAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAC
* *
4060934 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* * *
4060958 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTCAAACAAATAAAC
*
4060982 AAAGTTTAACT
1 AGAGTTTAACT
4060993 GAAAGATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:4060946 original size:28 final size:24
Alignment explanation
Indices: 4060925--4060996 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
4060915 TTGACTCAAT
*
4060925 CAAATAAATAGAGTTTAATTGAAA
1 CAAATAAACAGAGTTTAATTGAAA
4060949 CAAATAAACAGAGTTTAATTGAAA
1 CAAATAAACAGAGTTTAATTGAAA
* * *
4060973 CAATTAAACAAAGTTTAACTGAAA
1 CAAATAAACAGAGTTTAATTGAAA
4060997 GATTATTTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.26
Consensus pattern (24 bp):
CAAATAAACAGAGTTTAATTGAAA
Found at i:4064184 original size:157 final size:157
Alignment explanation
Indices: 4063898--4064214 Score: 487
Period size: 157 Copynumber: 2.0 Consensus size: 157
4063888 AAAATTTAAT
* * * *
4063898 GCTTAATTGCTTTGATTTATGCATGATTGGGTGCAAATTACTTGATGTTTTTACTATCTTTCACT
1 GCTTAATTGCTTCGATTTATGCATGATTGGATGAAAATTACTTGATGTTTTTACTATCATTCACT
* *
4063963 GAGCTTTTTAAACTCATATCCTCACATTTCGTGCAGAGAATTTTCGGGCGTAAGGAGTCTAGAAG
66 GAGCTTTTTAAACTCACATCCTCACATTTCGTGCAGAGAATTTTCGGGCGTAAGGAGTCGAGAAG
4064028 CAAGTGCAAGGACGATCCAAGAATAAG
131 CAAGTGCAAGGACGATCCAAGAATAAG
*
4064055 GCTTAATTGCTTCGATTTATGCATGATTGGATGAAAATTACTTGATGTTTTTAGTATCATTCACT
1 GCTTAATTGCTTCGATTTATGCATGATTGGATGAAAATTACTTGATGTTTTTACTATCATTCACT
* * * *
4064120 -AGGCTTTTTAAGCTCACAT-CTGTACATTTCGTGTAGAGAA-TTTCTGGGTGTAAGGAGTCGAG
66 GA-GCTTTTTAAACTCACATCCT-CACATTTCGTGCAGAGAATTTTC-GGGCGTAAGGAGTCGAG
4064182 AAGCAAGTGCAAGGACGATCCAAGAATAAG
128 AAGCAAGTGCAAGGACGATCCAAGAATAAG
4064212 GCT
1 GCT
4064215 CGATAGTGGC
Statistics
Matches: 146, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
156 7 0.05
157 139 0.95
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (157 bp):
GCTTAATTGCTTCGATTTATGCATGATTGGATGAAAATTACTTGATGTTTTTACTATCATTCACT
GAGCTTTTTAAACTCACATCCTCACATTTCGTGCAGAGAATTTTCGGGCGTAAGGAGTCGAGAAG
CAAGTGCAAGGACGATCCAAGAATAAG
Found at i:4064545 original size:24 final size:24
Alignment explanation
Indices: 4064517--4064579 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
4064507 AGAAATAATC
*
4064517 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
*
4064541 TTTCAATTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
4064565 TTTAAGTCAAACTCT
1 TTTCAGTTAAACTCT
4064580 TATTACTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:4065793 original size:40 final size:40
Alignment explanation
Indices: 4065693--4065804 Score: 134
Period size: 41 Copynumber: 2.8 Consensus size: 40
4065683 AGACATCTTC
* * * * *
4065693 AGGGGTTTGTCGCGACATAAACATGCTGTGTTGTGACATT
1 AGGGGTTTGTCGCGACATAGACATTCTATGTTGCGACATA
* *
4065733 GGGGAGTTTGTCACGACATAGACATTCTATGTTGCGACATA
1 AGGG-GTTTGTCGCGACATAGACATTCTATGTTGCGACATA
* *
4065774 AGGGGTTTGTCGCTACATAGACATTTTATGT
1 AGGGGTTTGTCGCGACATAGACATTCTATGT
4065805 CATGATAAAG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 27 0.45
41 33 0.55
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (40 bp):
AGGGGTTTGTCGCGACATAGACATTCTATGTTGCGACATA
Found at i:4068106 original size:15 final size:15
Alignment explanation
Indices: 4068066--4068107 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
4068056 CTATCCTTAT
4068066 TAATTGGGTGTTTTG
1 TAATTGGGTGTTTTG
*
4068081 T-ATTCGGTGTTTTG
1 TAATTGGGTGTTTTG
4068095 TAATTGGGTGTTT
1 TAATTGGGTGTTT
4068108 CCCAACATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.12, C:0.02, G:0.31, T:0.55
Consensus pattern (15 bp):
TAATTGGGTGTTTTG
Found at i:4072865 original size:20 final size:21
Alignment explanation
Indices: 4072827--4072865 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4072817 TTTATGGTTT
*
4072827 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTAGGGTAAAAA
*
4072848 TAAAT-ATTTTAGGTTAAA
1 TAAATAATTTTAGGGTAAA
4072866 TTAGAGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTAGGGTAAAAA
Found at i:4083602 original size:16 final size:16
Alignment explanation
Indices: 4083560--4083603 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
4083550 AGATAGTTTG
* *
4083560 TGCGATTGAGCTAGTA
1 TGCGCTTGAGTTAGTA
4083576 TGCGCTTGAGTTAGTA
1 TGCGCTTGAGTTAGTA
4083592 TGCGCTTGAGTT
1 TGCGCTTGAGTT
4083604 TGTGGCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.36
Consensus pattern (16 bp):
TGCGCTTGAGTTAGTA
Found at i:4086667 original size:15 final size:15
Alignment explanation
Indices: 4086627--4086668 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
4086617 TGTCCTTATT
* *
4086627 TAATTGGGTGTCTTG
1 TAATTGGGTGTTTTA
*
4086642 T-ATTCGGTGTTTTA
1 TAATTGGGTGTTTTA
4086656 TAATTGGGTGTTT
1 TAATTGGGTGTTT
4086669 CCTAACATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.14, C:0.05, G:0.29, T:0.52
Consensus pattern (15 bp):
TAATTGGGTGTTTTA
Found at i:4096963 original size:21 final size:21
Alignment explanation
Indices: 4096893--4096964 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
4096883 ATAGGGGGTT
4096893 TGTCACGACATAGACATTTTA
1 TGTCACGACATAGACATTTTA
** ****
4096914 TGTTGCGACATA-AGGGGGTT-
1 TGTCACGACATAGA-CATTTTA
*
4096934 TGTCGCGACATAGACATTTTA
1 TGTCACGACATAGACATTTTA
4096955 TGTCACGACA
1 TGTCACGACA
4096965 AAGAAGACAG
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (21 bp):
TGTCACGACATAGACATTTTA
Found at i:4096964 original size:41 final size:40
Alignment explanation
Indices: 4096848--4096957 Score: 166
Period size: 40 Copynumber: 2.7 Consensus size: 40
4096838 ACATTTTCAA
* * **
4096848 GGGTTTGTCGTGACATAAACATGCTATGTTGCGACATAGG
1 GGGTTTGTCGCGACATAGACATTTTATGTTGCGACATAGG
*
4096888 GGGTTTGTCACGACATAGACATTTTATGTTGCGACATAAGG
1 GGGTTTGTCGCGACATAGACATTTTATGTTGCGACAT-AGG
4096929 GGGTTTGTCGCGACATAGACATTTTATGT
1 GGGTTTGTCGCGACATAGACATTTTATGT
4096958 CACGACAAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 32 0.51
41 31 0.49
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (40 bp):
GGGTTTGTCGCGACATAGACATTTTATGTTGCGACATAGG
Found at i:4119076 original size:89 final size:89
Alignment explanation
Indices: 4118948--4119192 Score: 275
Period size: 89 Copynumber: 2.7 Consensus size: 89
4118938 AGAATTTCGA
* * *
4118948 GGTCAAAATGTGATTTTGGGAAAGTTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGG-GGTT
1 GGTCAAAATGTAATTTT-GGAAAG-TTAGGGGTTAAAATGTAATTTTAGAAAAGTTTAGGTGGTC
* *
4119012 AAAAT-TTAAATTTGGGAAAGTTTAAG
64 AAAATATT-AATTTGGAAAAATTTAAG
*
4119038 GGTTAAAATGTAATTTTGGAAGAGTTAGGGGTTAAAATGT-ATTTCTAGAAAAG-TTAGGTGGTC
1 GGTCAAAATGTAATTTTGGAA-AGTTAGGGGTTAAAATGTAATTT-TAGAAAAGTTTAGGTGGTC
* *
4119101 AAAATATTATTTTGGAAAAATTTAGG
64 AAAATATTAATTTGGAAAAATTTAAG
* ** * * *
4119127 GGTCGAAATGTAATTTTTAAAAGTTAAGGGGTCAAAATGCAATTTTAAAAAAGTTTAGGT-GTCA
1 GGTCAAAATGTAATTTTGGAAAGTT-AGGGGTTAAAATGTAATTTTAGAAAAGTTTAGGTGGTCA
4119191 AA
65 AA
4119193 TTTCAATTTC
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
88 13 0.10
89 91 0.68
90 29 0.22
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (89 bp):
GGTCAAAATGTAATTTTGGAAAGTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTAGGTGGTCAA
AATATTAATTTGGAAAAATTTAAG
Found at i:4119181 original size:30 final size:30
Alignment explanation
Indices: 4118948--4119192 Score: 219
Period size: 30 Copynumber: 8.2 Consensus size: 30
4118938 AGAATTTCGA
* * *
4118948 GGTCAAAATGTGATTTTGGGAAAGTTTAGG
1 GGTCAAAATGTAATTTTAGAAAAGTTTAGG
* *
4118978 GGTTAAAATGTAATTTTAGAGAAGTTTAGG
1 GGTCAAAATGTAATTTTAGAAAAGTTTAGG
* * * * * *
4119008 GGTTAAAATTTAAATTTGGGAAAGTTTAAG
1 GGTCAAAATGTAATTTTAGAAAAGTTTAGG
* * *
4119038 GGTTAAAATGTAATTTTGGAAGAG-TTAGG
1 GGTCAAAATGTAATTTTAGAAAAGTTTAGG
*
4119067 GGTTAAAATGT-ATTTCTAGAAAAG-TTAGG
1 GGTCAAAATGTAATTT-TAGAAAAGTTTAGG
* * * *
4119096 TGGTCAAAATATTATTTTGGAAAAATTTAGG
1 -GGTCAAAATGTAATTTTAGAAAAGTTTAGG
* * *
4119127 GGTCGAAATGTAATTTT-TAAAAGTTAAGG
1 GGTCAAAATGTAATTTTAGAAAAGTTTAGG
* *
4119156 GGTCAAAATGCAATTTTAAAAAAGTTTAGG
1 GGTCAAAATGTAATTTTAGAAAAGTTTAGG
*
4119186 TGTCAAA
1 GGTCAAA
4119193 TTTCAATTTC
Statistics
Matches: 177, Mismatches: 33, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
28 4 0.02
29 50 0.28
30 114 0.64
31 9 0.05
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTAGAAAAGTTTAGG
Found at i:4119184 original size:59 final size:59
Alignment explanation
Indices: 4118948--4119192 Score: 194
Period size: 59 Copynumber: 4.1 Consensus size: 59
4118938 AGAATTTCGA
* * * * * *
4118948 GGTCAAAATGTGATTTTGGGAAAGTTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGG
1 GGTCAAAATGTAATTTT-GAAAAGTTAAGGGGTCAAAATGTAATTTTAAAAAAGTTTAGG
* * * * * ** *
4119008 GGTTAAAATTTAAATTTGGGAAAGTTTAA-GGGTTAAAATGTAATTTTGGAAGAG-TTAGG
1 GGTCAAAATGT-AATTTTGAAAAG-TTAAGGGGTCAAAATGTAATTTTAAAAAAGTTTAGG
* * * *
4119067 GGTTAAAATGT-ATTTCTAGAAAAGTT-AGGTGGTCAAAATATTATTTTGGAAAAA-TTTAGG
1 GGTCAAAATGTAATTT-T-GAAAAGTTAAGG-GGTCAAAATGTAATTTT-AAAAAAGTTTAGG
* * *
4119127 GGTCGAAATGTAATTTTTAAAAGTTAAGGGGTCAAAATGCAATTTTAAAAAAGTTTAGG
1 GGTCAAAATGTAATTTTGAAAAGTTAAGGGGTCAAAATGTAATTTTAAAAAAGTTTAGG
*
4119186 TGTCAAA
1 GGTCAAA
4119193 TTTCAATTTC
Statistics
Matches: 149, Mismatches: 25, Indels: 23
0.76 0.13 0.12
Matches are distributed among these distances:
57 5 0.03
58 8 0.05
59 66 0.44
60 59 0.40
61 11 0.07
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (59 bp):
GGTCAAAATGTAATTTTGAAAAGTTAAGGGGTCAAAATGTAATTTTAAAAAAGTTTAGG
Found at i:4119200 original size:30 final size:29
Alignment explanation
Indices: 4119116--4119201 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 29
4119106 ATTATTTTGG
*
4119116 AAAAA-TTTAGGGGTCGAAATGT-AATTTT
1 AAAAAGTTTAGGGGTC-AAATTTCAATTTT
* * * *
4119144 TAAAAGTTAAGGGGTCAAAATGCAATTTT
1 AAAAAGTTTAGGGGTCAAATTTCAATTTT
*
4119173 AAAAAAGTTTAGGTGTCAAATTTCAATTT
1 -AAAAAGTTTAGGGGTCAAATTTCAATTT
4119202 CTTAATAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 7 0.16
29 15 0.33
30 23 0.51
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.35
Consensus pattern (29 bp):
AAAAAGTTTAGGGGTCAAATTTCAATTTT
Found at i:4120265 original size:11 final size:11
Alignment explanation
Indices: 4120233--4120273 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4120223 ACCTCCTTTC
*
4120233 TTTATTATTTA
1 TTTATTATGTA
* *
4120244 CTTAATATGTA
1 TTTATTATGTA
4120255 TTTATTATGTA
1 TTTATTATGTA
4120266 TTTATTAT
1 TTTATTAT
4120274 AAAAACGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (11 bp):
TTTATTATGTA
Found at i:4128383 original size:20 final size:20
Alignment explanation
Indices: 4128358--4128397 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4128348 AAGAAGAAAT
4128358 AACTTTTGTTCTCTCTCAAA
1 AACTTTTGTTCTCTCTCAAA
*
4128378 AACTTTTGTTTTCTCTCAAA
1 AACTTTTGTTCTCTCTCAAA
4128398 TACTGCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (20 bp):
AACTTTTGTTCTCTCTCAAA
Found at i:4129718 original size:17 final size:17
Alignment explanation
Indices: 4129692--4129749 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 17
4129682 ATCTTCTTTG
*
4129692 AATCCTTAAAATATTGA
1 AATCCCTAAAATATTGA
4129709 AATCCCT-AAATATT-A
1 AATCCCTAAAATATTGA
*
4129724 AAGTCCC-CAAATCATTG-
1 AA-TCCCTAAAAT-ATTGA
4129741 AATCCCTAA
1 AATCCCTAA
4129750 CCCAAGATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 3 0.09
16 19 0.56
17 12 0.35
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.29
Consensus pattern (17 bp):
AATCCCTAAAATATTGA
Found at i:4129719 original size:16 final size:16
Alignment explanation
Indices: 4129700--4129749 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
4129690 TGAATCCTTA
4129700 AAATATTGAAATCCCT
1 AAATATTGAAATCCCT
*
4129716 AAATATT-AAAGTCCCC
1 AAATATTGAAA-TCCCT
4129732 AAATCATTG-AATCCCT
1 AAAT-ATTGAAATCCCT
4129748 AA
1 AA
4129750 CCCAAGATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 3 0.10
16 21 0.72
17 5 0.17
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (16 bp):
AAATATTGAAATCCCT
Found at i:4130631 original size:17 final size:16
Alignment explanation
Indices: 4130589--4130632 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
4130579 GGATTCAATA
* *
4130589 ATTTGGGGACTTTAAT
1 ATTTAGGGATTTTAAT
*
4130605 ATTTAAGGATTTTAAT
1 ATTTAGGGATTTTAAT
4130621 ATTTTAGGGATT
1 A-TTTAGGGATT
4130633 CAAAGAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (16 bp):
ATTTAGGGATTTTAAT
Found at i:4141813 original size:41 final size:41
Alignment explanation
Indices: 4141768--4141892 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 41
4141758 AATTCTTATC
* *
4141768 AAGGTGGAGATTGTTAGAATTTGATGACTAGAGTTCTTGTT
1 AAGGTGGAGATTGTTAGAATTGGGTGACTAGAGTTCTTGTT
4141809 AAGGTGGAGATTGTTAGAATTGGGTGACTAGAGTTCTTGTT
1 AAGGTGGAGATTGTTAGAATTGGGTGACTAGAGTTCTTGTT
* * *
4141850 AAGGTGGAGATTATTAGAATTGGGTGACTAAAATTCTTGTT
1 AAGGTGGAGATTGTTAGAATTGGGTGACTAGAGTTCTTGTT
4141891 AA
1 AA
4141893 AATAAAATTC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.29, C:0.05, G:0.30, T:0.37
Consensus pattern (41 bp):
AAGGTGGAGATTGTTAGAATTGGGTGACTAGAGTTCTTGTT
Found at i:4141978 original size:17 final size:17
Alignment explanation
Indices: 4141956--4141988 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4141946 TCTTTTATTT
4141956 TATTTTAATTAGAATAG
1 TATTTTAATTAGAATAG
4141973 TATTTTAATTAGAATA
1 TATTTTAATTAGAATA
4141989 AGGTATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
TATTTTAATTAGAATAG
Found at i:4146255 original size:17 final size:16
Alignment explanation
Indices: 4146235--4146268 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4146225 CTTTTTTTTT
*
4146235 TTGTTAAATTTGTTAAA
1 TTGTTAAAATT-TTAAA
4146252 TTGTTAAAATTTTAAA
1 TTGTTAAAATTTTAAA
4146268 T
1 T
4146269 ACGACAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
TTGTTAAAATTTTAAA
Found at i:4147862 original size:25 final size:25
Alignment explanation
Indices: 4147834--4147896 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
4147824 TATAATTTTT
*
4147834 ATTTTTTATTTTTTAAAAGATTTAA
1 ATTTTTAATTTTTTAAAAGATTTAA
4147859 ATTTTTAATTTTTTAAAAGATTTAA
1 ATTTTTAATTTTTTAAAAGATTTAA
4147884 ATTTTTAATTTTT
1 ATTTTTAATTTTT
4147897 AATTTTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (25 bp):
ATTTTTAATTTTTTAAAAGATTTAA
Found at i:4147904 original size:8 final size:8
Alignment explanation
Indices: 4147854--4147903 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
4147844 TTTTAAAAGA
4147854 TTTAAATT
1 TTTAAATT
*
4147862 TTTAATTT
1 TTTAAATT
**
4147870 TTTAAAAGA
1 TTT-AAATT
4147879 TTTAAATT
1 TTTAAATT
4147887 TTT-AATT
1 TTTAAATT
4147894 TTT-AATT
1 TTTAAATT
4147901 TTT
1 TTT
4147904 TTGTTATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
7 14 0.40
8 16 0.46
9 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TTTAAATT
Found at i:4148137 original size:20 final size:20
Alignment explanation
Indices: 4148112--4148153 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4148102 CAAATTAAAT
4148112 TGAGTTTTCTTCACATTTTC
1 TGAGTTTTCTTCACATTTTC
*
4148132 TGAGTTTTCTTTACATTTTC
1 TGAGTTTTCTTCACATTTTC
4148152 TG
1 TG
4148154 TTGGCTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.17, G:0.12, T:0.57
Consensus pattern (20 bp):
TGAGTTTTCTTCACATTTTC
Found at i:4149155 original size:18 final size:18
Alignment explanation
Indices: 4149129--4149166 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4149119 AGCAACTGAA
4149129 TTGAAGTCAAAGTGACTG
1 TTGAAGTCAAAGTGACTG
*
4149147 TTGATGTCAAAGTGACTG
1 TTGAAGTCAAAGTGACTG
4149165 TT
1 TT
4149167 TTATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (18 bp):
TTGAAGTCAAAGTGACTG
Found at i:4149198 original size:68 final size:68
Alignment explanation
Indices: 4149089--4149221 Score: 266
Period size: 68 Copynumber: 2.0 Consensus size: 68
4149079 CAATAACGTT
4149089 AGTGACTGTTTTATTATTTTTTGAAAATTTAGCAACTGAATTGAAGTCAAAGTGACTGTTGATGT
1 AGTGACTGTTTTATTATTTTTTGAAAATTTAGCAACTGAATTGAAGTCAAAGTGACTGTTGATGT
4149154 CAA
66 CAA
4149157 AGTGACTGTTTTATTATTTTTTGAAAATTTAGCAACTGAATTGAAGTCAAAGTGACTGTTGATGT
1 AGTGACTGTTTTATTATTTTTTGAAAATTTAGCAACTGAATTGAAGTCAAAGTGACTGTTGATGT
4149222 AATTTACTCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (68 bp):
AGTGACTGTTTTATTATTTTTTGAAAATTTAGCAACTGAATTGAAGTCAAAGTGACTGTTGATGT
CAA
Found at i:4154671 original size:17 final size:16
Alignment explanation
Indices: 4154647--4154680 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4154637 TTGGATTGAG
*
4154647 AAAATAATTTAATTTT
1 AAAATAATTAAATTTT
4154663 AAAATTAATTAAATTTT
1 AAAA-TAATTAAATTTT
4154680 A
1 A
4154681 GATAGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATAATTAAATTTT
Found at i:4155020 original size:13 final size:13
Alignment explanation
Indices: 4155002--4155030 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4154992 GTATATTTTT
4155002 AAAAAATTCTAAA
1 AAAAAATTCTAAA
4155015 AAAAAATTCTAAA
1 AAAAAATTCTAAA
4155028 AAA
1 AAA
4155031 TATTAAAATA
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:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAAATTCTAAA
Found at i:4155116 original size:3 final size:3
Alignment explanation
Indices: 4155108--4155138 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4155098 TCAAGTATCT
4155108 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4155139 ATTTTACTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4155499 original size:21 final size:21
Alignment explanation
Indices: 4155473--4155513 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4155463 GGAGAGTGAC
*
4155473 TAAAGT-ATTTAATTTAAAAAA
1 TAAAGTGA-TTAAATTAAAAAA
4155494 TAAAGTGATTAAATTAAAAA
1 TAAAGTGATTAAATTAAAAA
4155514 TTAATAATTA
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:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
TAAAGTGATTAAATTAAAAAA
Found at i:4155513 original size:22 final size:21
Alignment explanation
Indices: 4155473--4155513 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4155463 GGAGAGTGAC
* *
4155473 TAAAGTATTTAATTTAAAAAA
1 TAAAGTATTAAATTAAAAAAA
4155494 TAAAGTGATTAAATTAAAAA
1 TAAAGT-ATTAAATTAAAAA
4155514 TTAATAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
TAAAGTATTAAATTAAAAAAA
Found at i:4156223 original size:21 final size:22
Alignment explanation
Indices: 4156197--4156246 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4156187 AAAATATTGT
*
4156197 TGTTTTTG-TGCTATTTTTTAC
1 TGTTTTGGTTGCTATTTTTTAC
*
4156218 TGTTTTGGTTGCTGTTTTTTAC
1 TGTTTTGGTTGCTATTTTTTAC
*
4156240 TATTTTG
1 TGTTTTG
4156247 ATTTTTTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.08, C:0.08, G:0.18, T:0.66
Consensus pattern (22 bp):
TGTTTTGGTTGCTATTTTTTAC
Found at i:4156254 original size:17 final size:17
Alignment explanation
Indices: 4156232--4156266 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4156222 TTGGTTGCTG
4156232 TTTTTTACTATTTTGAT
1 TTTTTTACTATTTTGAT
*
4156249 TTTTTTACTGTTTTGAT
1 TTTTTTACTATTTTGAT
4156266 T
1 T
4156267 GTTGTTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTTTTACTATTTTGAT
Found at i:4156273 original size:51 final size:49
Alignment explanation
Indices: 4156218--4156330 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 49
4156208 TATTTTTTAC
* * *
4156218 TGTTTTGGTTGCT-GTTTTTTACTATTTTGATTTTTTTACTGTTTTGATTGT
1 TGTTTTGGTTGCTAGTTTTTTACTATTTTGATGTTGTTA-T-TTTAG-TTGT
* *
4156269 TGTTTTGG-TGCTATTTTTTTACTGTTTTGATGTTGTTATTTTAGTTGT
1 TGTTTTGGTTGCTAGTTTTTTACTATTTTGATGTTGTTATTTTAGTTGT
*
4156317 TGTTTTTGTTGCTA
1 TGTTTTGGTTGCTA
4156331 TTCTTGTTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
48 11 0.20
49 9 0.17
50 5 0.09
51 29 0.54
ACGTcount: A:0.10, C:0.05, G:0.19, T:0.65
Consensus pattern (49 bp):
TGTTTTGGTTGCTAGTTTTTTACTATTTTGATGTTGTTATTTTAGTTGT
Found at i:4156274 original size:22 final size:21
Alignment explanation
Indices: 4156210--4156274 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 21
4156200 TTTTGTGCTA
*
4156210 TTTTTTACTGTTTTGGTTGCTG
1 TTTTTTACTGTTTTGATTG-TG
*
4156232 TTTTTTACTATTTTGA---T-
1 TTTTTTACTGTTTTGATTGTG
4156249 TTTTTTACTGTTTTGATTGTTG
1 TTTTTTACTGTTTTGATTG-TG
4156271 TTTT
1 TTTT
4156275 GGTGCTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 15 0.43
18 1 0.03
21 1 0.03
22 18 0.51
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.69
Consensus pattern (21 bp):
TTTTTTACTGTTTTGATTGTG
Found at i:4156317 original size:12 final size:11
Alignment explanation
Indices: 4156299--4156409 Score: 84
Period size: 12 Copynumber: 9.6 Consensus size: 11
4156289 ACTGTTTTGA
4156299 TGTTGTTATTT
1 TGTTGTTATTT
*
4156310 TAGTTGTTGTTTT
1 T-GTTGTT-ATTT
*
4156323 TGTTGCTATTCT
1 TGTTGTTATT-T
4156335 TGTTGTTATTTT
1 TGTTGTTA-TTT
*
4156347 TGTTGCTATTT
1 TGTTGTTATTT
4156358 T-TAT-TT-TTT
1 TGT-TGTTATTT
4156367 TGTTGTTATTTT
1 TGTTGTTA-TTT
* *
4156379 TGTTGCTGTTT
1 TGTTGTTATTT
4156390 TGATTGTTATTT
1 TG-TTGTTATTT
4156402 TGATTGTT
1 TG-TTGTT
4156410 TGGATGTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 19
0.73 0.09 0.17
Matches are distributed among these distances:
9 5 0.06
10 5 0.06
11 13 0.16
12 51 0.64
13 6 0.08
ACGTcount: A:0.09, C:0.04, G:0.18, T:0.69
Consensus pattern (11 bp):
TGTTGTTATTT
Found at i:4156326 original size:24 final size:23
Alignment explanation
Indices: 4156259--4156409 Score: 105
Period size: 24 Copynumber: 6.4 Consensus size: 23
4156249 TTTTTTACTG
* *
4156259 TTTTGATTGTTG-TTTTGGTGCTA
1 TTTTG-TTGTTGTTTTTGTTGTTA
* **
4156282 TTTTTTTACTGTTTTGATGTTGTTA
1 TTTTGTTGTTGTTTT--TGTTGTTA
*
4156307 TTTTAGTTGTTGTTTTTGTTGCTA
1 TTTT-GTTGTTGTTTTTGTTGTTA
* *
4156331 TTCTTGTTGTTATTTTTGTTGCTA
1 TT-TTGTTGTTGTTTTTGTTGTTA
*
4156355 -TTT-TTATT-TTTTTGTTGTTA
1 TTTTGTTGTTGTTTTTGTTGTTA
*
4156375 TTTTTGTTGCTG-TTTTGATTGTTA
1 -TTTTGTTGTTGTTTTTG-TTGTTA
4156399 TTTTGATTGTT
1 TTTTG-TTGTT
4156410 TGGATGTTAT
Statistics
Matches: 102, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
20 11 0.11
21 4 0.04
22 9 0.09
23 21 0.21
24 37 0.36
25 12 0.12
26 8 0.08
ACGTcount: A:0.09, C:0.04, G:0.19, T:0.68
Consensus pattern (23 bp):
TTTTGTTGTTGTTTTTGTTGTTA
Found at i:4156341 original size:72 final size:70
Alignment explanation
Indices: 4156192--4156409 Score: 196
Period size: 72 Copynumber: 3.1 Consensus size: 70
4156182 ATAAAAAAAT
* * * *
4156192 ATTGTTGTTTTTGTGCTATTTTTTACTGTTTTGGTTGCTGTT-TTTTACTATTTTGATTTTTTTA
1 ATTGTTGTTTTGGTGCTATTTTTTACTGTTTT-GTTGTTGTTATTTTAGT-TGTTG-TTTTTTTA
*
4156256 CTGTTTTG
63 CTATTTTG
* *
4156264 ATTGTTGTTTTGGTGCTATTTTTTTACTGTTTTGATGTTGTTATTTTAGTTGTTGTTTTTGTTGC
1 ATTGTTGTTTTGGTGCTA-TTTTTTACTGTTTTGTTGTTGTTATTTTAGTTGTTGTTTTT-TTAC
4156329 TATTCTTG
64 TATT-TTG
* * * * * **
4156337 -TTGTTATTTTTGTTGCTA-TTTTTA-T-TTTT-TTGTTGTTATTTTTGTTGCTGTTTTGATTGT
1 ATTGTT-GTTTTGGTGCTATTTTTTACTGTTTTGTTGTTGTTATTTTAGTTGTTGTTTT-TTTAC
4156397 TATTTTG
64 TATTTTG
4156404 ATTGTT
1 ATTGTT
4156410 TGGATGTTAT
Statistics
Matches: 125, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
67 3 0.02
68 34 0.27
69 4 0.03
70 1 0.01
71 11 0.09
72 39 0.31
73 33 0.26
ACGTcount: A:0.10, C:0.05, G:0.18, T:0.67
Consensus pattern (70 bp):
ATTGTTGTTTTGGTGCTATTTTTTACTGTTTTGTTGTTGTTATTTTAGTTGTTGTTTTTTTACTA
TTTTG
Found at i:4156382 original size:44 final size:44
Alignment explanation
Indices: 4156319--4156423 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
4156309 TTAGTTGTTG
* * * * *
4156319 TTTTTGTTGCTATTCTTGTTGTTATTTTTG-TTGCTATTTTTATT
1 TTTTTGTTGTTATTTTTGTTGCT-GTTTTGATTGCTATTTTGATT
*
4156363 TTTTTGTTGTTATTTTTGTTGCTGTTTTGATTGTTATTTTGATT
1 TTTTTGTTGTTATTTTTGTTGCTGTTTTGATTGCTATTTTGATT
* * *
4156407 GTTTGGATGTTATTTTT
1 TTTTTGTTGTTATTTTT
4156424 ATGCGTTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 5 0.10
44 46 0.90
ACGTcount: A:0.10, C:0.04, G:0.17, T:0.70
Consensus pattern (44 bp):
TTTTTGTTGTTATTTTTGTTGCTGTTTTGATTGCTATTTTGATT
Done.