Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 53 of 117
Found at i:9910367 original size:12 final size:12
Alignment explanation
Indices: 9910350--9910375 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9910340 TCTTAATTAA
9910350 AAATTTTATTTT
1 AAATTTTATTTT
9910362 AAATTTTATTTT
1 AAATTTTATTTT
9910374 AA
1 AA
9910376 TTCGAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AAATTTTATTTT
Found at i:9911084 original size:6 final size:5
Alignment explanation
Indices: 9911014--9911083 Score: 61
Period size: 5 Copynumber: 13.4 Consensus size: 5
9911004 TTAAAAAAAT
* ** *
9911014 AATAA AATAA AATTA AA-AA AATGG ATTAGA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATA-A AATAA AATAA AATAA AATAA
9911064 AATCAAA AATAAA AATAA AA
1 AAT--AA AAT-AA AATAA AA
9911084 AAAGAAAACC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
4 3 0.06
5 36 0.68
6 9 0.17
7 5 0.09
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:9911500 original size:21 final size:21
Alignment explanation
Indices: 9911476--9911515 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9911466 CAAAAAACCC
9911476 AAAAAAACCCAAAAAAATTTG
1 AAAAAAACCCAAAAAAATTTG
*
9911497 AAAAAAATCCAAAAAAATT
1 AAAAAAACCCAAAAAAATT
9911516 CCTAGATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAAAAACCCAAAAAAATTTG
Found at i:9911510 original size:10 final size:10
Alignment explanation
Indices: 9911467--9911514 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
9911457 AAAATTCTTC
*
9911467 AAAAAACCCA
1 AAAAAATCCA
*
9911477 AAAAAACCCA
1 AAAAAATCCA
**
9911487 AAAAAATTTGA
1 AAAAAA-TCCA
9911498 AAAAAATCCA
1 AAAAAATCCA
9911508 AAAAAAT
1 AAAAAAT
9911515 TCCTAGATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 25 0.78
11 7 0.22
ACGTcount: A:0.71, C:0.17, G:0.02, T:0.10
Consensus pattern (10 bp):
AAAAAATCCA
Found at i:9911512 original size:11 final size:10
Alignment explanation
Indices: 9911467--9911492 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9911457 AAAATTCTTC
9911467 AAAAAACCCA
1 AAAAAACCCA
9911477 AAAAAACCCA
1 AAAAAACCCA
9911487 AAAAAA
1 AAAAAA
9911493 TTTGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACCCA
Found at i:9911918 original size:3 final size:3
Alignment explanation
Indices: 9911912--9911973 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
9911902 AAAGAAATGA
9911912 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9911960 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
9911974 AAGTATCTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9912070 original size:26 final size:26
Alignment explanation
Indices: 9912011--9912070 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
9912001 ATAATGGATC
*
9912011 TGACCAAAATGGTGTATAGTTGGGCT
1 TGACCAAAATGGTATATAGTTGGGCT
* *
9912037 TGATCAAAATGG-ATCTAGTTGGGCT
1 TGACCAAAATGGTATATAGTTGGGCT
9912062 TGGACCAAA
1 T-GACCAAA
9912071 TGGGCCCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (26 bp):
TGACCAAAATGGTATATAGTTGGGCT
Found at i:9912135 original size:26 final size:26
Alignment explanation
Indices: 9912075--9912151 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
9912065 ACCAAATGGG
* *
9912075 CCCAATT-GAGCCCGAACTAAAATGAG
1 CCCAATTAG-GCCCGAACCAAAATGAA
* * **
9912101 TCCATTTAGGTTCGAACCAAAATGAA
1 CCCAATTAGGCCCGAACCAAAATGAA
*
9912127 CCCAATTAGGCCCGAATCAAAATGA
1 CCCAATTAGGCCCGAACCAAAATGA
9912152 GTATCTACAC
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
26 38 0.97
27 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (26 bp):
CCCAATTAGGCCCGAACCAAAATGAA
Found at i:9912206 original size:17 final size:17
Alignment explanation
Indices: 9912184--9912222 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9912174 ATCAATAGAG
*
9912184 CCTAATTGTGTTTTTCA
1 CCTAATTATGTTTTTCA
*
9912201 CCTAATTATTTTTTTCA
1 CCTAATTATGTTTTTCA
9912218 CCTAA
1 CCTAA
9912223 CTAAACACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (17 bp):
CCTAATTATGTTTTTCA
Found at i:9914474 original size:33 final size:33
Alignment explanation
Indices: 9914437--9914501 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
9914427 TGAATACCAT
9914437 TTTTAAGATAATAACTAAATGAATCAATTAAAA
1 TTTTAAGATAATAACTAAATGAATCAATTAAAA
9914470 TTTTAAGATAATAACTAAATGAATCAATTAAA
1 TTTTAAGATAATAACTAAATGAATCAATTAAA
9914502 TTAAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (33 bp):
TTTTAAGATAATAACTAAATGAATCAATTAAAA
Found at i:9915077 original size:2 final size:2
Alignment explanation
Indices: 9915070--9915102 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9915060 CAATCAAACA
9915070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9915103 CATAGATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9917201 original size:2 final size:2
Alignment explanation
Indices: 9917194--9917259 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
9917184 ACAACAATAC
9917194 CT CT CT CT CT CT CT CT CT CT CT CT CT -T CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9917235 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
9917260 ATGTTGGTGG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9918613 original size:2 final size:2
Alignment explanation
Indices: 9918606--9918636 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9918596 TATTTTTGTC
9918606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9918637 AAGAATAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9920622 original size:3 final size:3
Alignment explanation
Indices: 9920614--9920654 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
9920604 AGCATCTGTA
* *
9920614 ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC ATT ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
9920655 TAATTAAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.29, G:0.02, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:9924589 original size:10 final size:10
Alignment explanation
Indices: 9924567--9924598 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9924557 AAAAAGAAAC
9924567 AAAATAAAT-
1 AAAATAAATA
9924576 -AAATAAATA
1 AAAATAAATA
9924585 AAAATAAATA
1 AAAATAAATA
9924595 AAAA
1 AAAA
9924599 ATATTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:9924590 original size:18 final size:17
Alignment explanation
Indices: 9924567--9924601 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
9924557 AAAAAGAAAC
9924567 AAAATAAATAAATAAATA
1 AAAATAAATAAA-AAATA
9924585 AAAATAAATAAAAAATA
1 AAAATAAATAAAAAATA
9924602 TTGATAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATAAATAAAAAATA
Found at i:9924681 original size:25 final size:26
Alignment explanation
Indices: 9924652--9924701 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9924642 TGAGATTCTT
*
9924652 AGAAATTTC-AAATGATAAATTTTTA
1 AGAAATCTCTAAATGATAAATTTTTA
*
9924677 AGAAATCTCTAGATGATAAATTTTT
1 AGAAATCTCTAAATGATAAATTTTT
9924702 TTCTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (26 bp):
AGAAATCTCTAAATGATAAATTTTTA
Found at i:9925005 original size:52 final size:48
Alignment explanation
Indices: 9924949--9925094 Score: 121
Period size: 51 Copynumber: 2.9 Consensus size: 48
9924939 CTTTCTTTCC
* * *
9924949 AAAAATAAAATTTTAAATAGGCCCAAATGATGAAAAATTTAGATATTTCGA
1 AAAAAAAAAATTTTAAATAGGCCCAAATGATGAAAAATTTAGAGA--T-AA
* * * * *
9925000 AAAAAAAATATTTCTAAATTGACCTAAATGACGAAAAATTTAGAGATAAA
1 AAAAAAAAAATTT-TAAATAGGCCCAAATGATGAAAAATTTAGAGAT-AA
* * * *
9925050 ACAATAAAAAAATTCTAAATAAGCCCAAATGGTGGAAAATTTAGA
1 A-AA-AAAAAAATTTTAAATAGGCCCAAATGATGAAAAATTTAGA
9925095 AATTCAAAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
50 3 0.04
51 36 0.49
52 35 0.47
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (48 bp):
AAAAAAAAAATTTTAAATAGGCCCAAATGATGAAAAATTTAGAGATAA
Found at i:9925147 original size:104 final size:104
Alignment explanation
Indices: 9924955--9925167 Score: 263
Period size: 103 Copynumber: 2.0 Consensus size: 104
9924945 TTCCAAAAAT
* * * *
9924955 AAAATTTTAAATAGGCCCAAATGATGAAAAATTTAGATATTTCGAAAAAAAAATATTTCTAAATT
1 AAAATTCTAAATAAGCCCAAATGATGAAAAATTTAGATAATTCAAAAAAAAAATATTTCTAAATT
9925020 GACCTAAATGACGAAAAATTTAGAGATA-AAACAATAAA
66 GACCTAAATGACGAAAAATTTAGAGATATAAACAATAAA
* * *
9925058 AAAATTCTAAATAAGCCCAAATGGTGGAAAATTTAGA-AATTCAAAAAGAGAAAATATTTCTAAT
1 AAAATTCTAAATAAGCCCAAATGATGAAAAATTTAGATAATTCAAAAA-A-AAAATATTTCTAAA
* * **
9925122 TTGACCTAAATTGTA-GAATAA-TTAGATATATATTCAATAAA
64 TTGACCTAAA-TG-ACGAAAAATTTAGAGATATAAACAATAAA
9925163 AAAAT
1 AAAAT
9925168 AAATAATTAA
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
102 8 0.09
103 34 0.36
104 31 0.33
105 20 0.21
106 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (104 bp):
AAAATTCTAAATAAGCCCAAATGATGAAAAATTTAGATAATTCAAAAAAAAAATATTTCTAAATT
GACCTAAATGACGAAAAATTTAGAGATATAAACAATAAA
Found at i:9925787 original size:19 final size:20
Alignment explanation
Indices: 9925737--9925788 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
9925727 TTTGTCCCAA
*
9925737 AAAAACTAAAAATAATAATAC
1 AAAAAC-AAAAAAAATAATAC
*
9925758 AAAATACAAAAAAAATTATAC
1 AAAA-ACAAAAAAAATAATAC
9925779 -AAAACAAAAA
1 AAAAACAAAAA
9925789 GAAGAAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.25
20 3 0.11
21 16 0.57
22 2 0.07
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAACAAAAAAAATAATAC
Found at i:9926806 original size:10 final size:9
Alignment explanation
Indices: 9926778--9926804 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9926768 GGTAAAAAAA
9926778 AAATTTTTT
1 AAATTTTTT
9926787 AAATTTTTT
1 AAATTTTTT
9926796 AAATTTTTT
1 AAATTTTTT
9926805 TATATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
AAATTTTTT
Found at i:9926945 original size:23 final size:23
Alignment explanation
Indices: 9926919--9926962 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9926909 TGAAAACAAA
*
9926919 TAAAAATGATGAAAAATATATGT
1 TAAAAATGATCAAAAATATATGT
*
9926942 TAAAAATGTTCAAAAATATAT
1 TAAAAATGATCAAAAATATAT
9926963 ATATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (23 bp):
TAAAAATGATCAAAAATATATGT
Found at i:9926975 original size:3 final size:3
Alignment explanation
Indices: 9926967--9926992 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9926957 ATATATATAT
9926967 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9926993 TTTCCTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9927278 original size:16 final size:15
Alignment explanation
Indices: 9927249--9927377 Score: 100
Period size: 15 Copynumber: 8.5 Consensus size: 15
9927239 TAGGTTTCTA
9927249 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
*
9927264 AAACCCCTAAAAATCTA
1 AAACCCCT-AAAATC-C
* * * *
9927281 AAATCTCTTAAATCT
1 AAACCCCTAAAATCC
*
9927296 GAACCCCTAAAATTCC
1 AAACCCCTAAAA-TCC
*
9927312 AAACCCCTAAAATTC
1 AAACCCCTAAAATCC
*
9927327 AAACTCC-AAAATCC
1 AAACCCCTAAAATCC
* *
9927341 AAAATCCCTAAAATTC
1 -AAACCCCTAAAATCC
* *
9927357 AAA-CCCTCAAATCA
1 AAACCCCTAAAATCC
9927371 AAACCCC
1 AAACCCC
9927378 AAACCACAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
14 17 0.19
15 35 0.40
16 30 0.34
17 6 0.07
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:9927369 original size:30 final size:30
Alignment explanation
Indices: 9927248--9927377 Score: 113
Period size: 30 Copynumber: 4.3 Consensus size: 30
9927238 CTAGGTTTCT
* *
9927248 AAAACCCCTAAAATCCAAACCCCTAAAAATCT
1 AAAACCCCTAAAATTCAAA-CCCT-AAAATCC
* * * * *
9927280 AAAATCTCTTAAATCTGAACCCCTAAAATTCC
1 AAAACCCCTAAAAT-TCAAACCCTAAAA-TCC
9927312 -AAACCCCTAAAATTCAAACTCC-AAAATCC
1 AAAACCCCTAAAATTCAAAC-CCTAAAATCC
* *
9927341 AAAATCCCTAAAATTCAAACCCTCAAAT-C
1 AAAACCCCTAAAATTCAAACCCTAAAATCC
9927370 AAAACCCC
1 AAAACCCC
9927378 AAACCACAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
29 13 0.17
30 30 0.38
31 16 0.21
32 17 0.22
33 2 0.03
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (30 bp):
AAAACCCCTAAAATTCAAACCCTAAAATCC
Found at i:9928553 original size:13 final size:13
Alignment explanation
Indices: 9928534--9928566 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9928524 GTTTACCAAC
9928534 ATTTTTGTCTTTT
1 ATTTTTGTCTTTT
*
9928547 TTTTTTGTCTTTT
1 ATTTTTGTCTTTT
9928560 ATTTTTG
1 ATTTTTG
9928567 GGGCATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (13 bp):
ATTTTTGTCTTTT
Found at i:9930519 original size:15 final size:15
Alignment explanation
Indices: 9930473--9930519 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
9930463 ATTGTGAACA
9930473 ATAGTCATCCTACCC
1 ATAGTCATCCTACCC
* *
9930488 ATA-TCAGTCTTATCC
1 ATAGTCA-TCCTACCC
*
9930503 ATAGCCATCCTACCC
1 ATAGTCATCCTACCC
9930518 AT
1 AT
9930520 CAACATACCA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.28, C:0.36, G:0.06, T:0.30
Consensus pattern (15 bp):
ATAGTCATCCTACCC
Found at i:9932117 original size:19 final size:19
Alignment explanation
Indices: 9932103--9932141 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9932093 ATAAAACAAA
9932103 GAAAAAAAGAGAAAAAAAT
1 GAAAAAAAGAGAAAAAAAT
* *
9932122 GGAAAAGAGAGAAAAGAAAT
1 GAAAAAAAGAGAAAA-AAAT
9932142 ACTCAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (19 bp):
GAAAAAAAGAGAAAAAAAT
Found at i:9933638 original size:23 final size:23
Alignment explanation
Indices: 9933598--9933648 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
9933588 TGGATGTAAG
* * *
9933598 TCTTGCAATTTGTAAATATGAA-
1 TCTTGAAATTTGCAAATATAAAT
9933620 TCTTGAAATCTTGCAAATATAAAT
1 TCTTGAAAT-TTGCAAATATAAAT
9933644 TCTTG
1 TCTTG
9933649 CATATCTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 11 0.46
24 5 0.21
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (23 bp):
TCTTGAAATTTGCAAATATAAAT
Found at i:9934113 original size:125 final size:125
Alignment explanation
Indices: 9933867--9934129 Score: 311
Period size: 125 Copynumber: 2.1 Consensus size: 125
9933857 GTGCCTCTAT
* *
9933867 TTAGAAGAGCATTTAATTTTTCAAAGTTATGGTGCCTCTATTTAGAAAAGCAATTTATTTTTCCA
1 TTAGAAGAGCATTTAATTTTCCAAAGTTATAGTGCCTCTATTTAGAAAAGCAATTTATTTTTCCA
* * ** *
9933932 AAGTTATGGTGCCTCTGTTTAGATGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTGC
66 AAATTATGGTACCTCTGTTTAGATGAGCAATTTATTTTTTCAAAGTCATGGAGCCTCTGC
* * * * *
9933992 TTAGAAGATCATTTTATCTTTCCAAAGTTGTAGTGCCTCTGTTTA-AAGGAGCAATTTATTTTT-
1 TTAGAAGAGCATTTAAT-TTTCCAAAGTTATAGTGCCTCTATTTAGAA-AAGCAATTTATTTTTC
* * *
9934055 CAAAATTGTGGTACCTCTGTTTAGA-GAAGC-ATTTATTTTTCTCAAAGTCATTGAGCCTCTGT
64 CAAAATTATGGTACCTCTGTTTAGATG-AGCAATTTATTTTT-TCAAAGTCATGGAGCCTCTGC
9934117 TTAG-AGAAGCATT
1 TTAGAAG-AGCATT
9934130 GTTTATCTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
124 13 0.11
125 67 0.57
126 37 0.32
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (125 bp):
TTAGAAGAGCATTTAATTTTCCAAAGTTATAGTGCCTCTATTTAGAAAAGCAATTTATTTTTCCA
AAATTATGGTACCTCTGTTTAGATGAGCAATTTATTTTTTCAAAGTCATGGAGCCTCTGC
Found at i:9934122 original size:42 final size:41
Alignment explanation
Indices: 9933837--9934129 Score: 279
Period size: 42 Copynumber: 7.0 Consensus size: 41
9933827 TAAGGAGAAT
* ** *
9933837 TTTATTTTTTAAAAGTTGCGGTGCCTCTATTTAGA-AGAGCA
1 TTTATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAGA-AGCA
* * *
9933878 TTTAATTTTTCAAAGTTATGGTGCCTCTATTTAGAAAAGCAA
1 TTTATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAGAAGC-A
*
9933920 TTTATTTTTCCAAAGTTATGGTGCCTCTGTTTAGATG-AGCAA
1 TTTATTTTTTCAAAGTTATGGTGCCTCTGTTTAGA-GAAGC-A
* * *
9933962 TTTATTTTTTCAAAGTTGTGGTGCCTCTGCTTAGA-AGATCA
1 TTTATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAGA-AGCA
* * * * * *
9934003 TTTTATCTTTCCAAAGTTGTAGTGCCTCTGTTTAAAGGAGCAA
1 -TTTATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAGAAGC-A
* * *
9934046 TTTA-TTTTTCAAAATTGTGGTACCTCTGTTTAGAGAAGCA
1 TTTATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAGAAGCA
* * *
9934086 TTTATTTTTCTCAAAGTCATTGAGCCTCTGTTTAGAGAAGCA
1 TTTATTTTT-TCAAAGTTATGGTGCCTCTGTTTAGAGAAGCA
9934128 TT
1 TT
9934130 GTTTATCTTT
Statistics
Matches: 210, Mismatches: 32, Indels: 19
0.80 0.12 0.07
Matches are distributed among these distances:
40 5 0.02
41 67 0.32
42 137 0.65
43 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (41 bp):
TTTATTTTTTCAAAGTTATGGTGCCTCTGTTTAGAGAAGCA
Found at i:9934732 original size:25 final size:27
Alignment explanation
Indices: 9934704--9934761 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
9934694 AGAGAAAAAG
*
9934704 GAAAAAAAAAATTT-T-GAAGTTTTTT
1 GAAAAAAAAAATTTCTGGAAATTTTTT
*
9934729 GAAAAAAAACATTTCTGGAAATTTTTT
1 GAAAAAAAAAATTTCTGGAAATTTTTT
*
9934756 GGAAAA
1 GAAAAA
9934762 TTTCCAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.46
26 1 0.04
27 14 0.50
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.34
Consensus pattern (27 bp):
GAAAAAAAAAATTTCTGGAAATTTTTT
Found at i:9935550 original size:12 final size:12
Alignment explanation
Indices: 9935525--9935557 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9935515 TAAATTTAAT
*
9935525 AAAA-AAATATA
1 AAAATAAATAAA
9935536 AAAATAAATAAA
1 AAAATAAATAAA
9935548 AAAATAAATA
1 AAAATAAATA
9935558 TTATGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:9935743 original size:16 final size:15
Alignment explanation
Indices: 9935719--9935748 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9935709 ATTTTCAAAC
9935719 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
9935734 AAAAATAAATAAAAA
1 AAAAA-AAATAAAAA
9935749 ATATTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:9936185 original size:55 final size:54
Alignment explanation
Indices: 9936093--9936197 Score: 124
Period size: 55 Copynumber: 1.9 Consensus size: 54
9936083 TATTATTTTC
* * * *
9936093 TTTCAAAAAAAAAAAGAATTTCTAAATAGGCCTAAATGGTAAAAATTTTAAAAT
1 TTTCAAAAAAAAAAAGAATTTCTAAATAGACCCAAATGGCAAAAAATTTAAAAT
*
9936147 TTTCAAAAAAAAGAAA-ATATTTTTAAATTA-ACCCAAATGGCAAAAAATTTA
1 TTTCAAAAAAAA-AAAGA-ATTTCTAAA-TAGACCCAAATGGCAAAAAATTTA
9936198 GAGATAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
54 13 0.30
55 28 0.65
56 2 0.05
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTCAAAAAAAAAAAGAATTTCTAAATAGACCCAAATGGCAAAAAATTTAAAAT
Found at i:9940830 original size:51 final size:51
Alignment explanation
Indices: 9940766--9940864 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
9940756 AAATTTTACA
* * * ** *
9940766 AAATTTCATAAATTCTAAATATGTATCACAA-TTTCTATAATAGTTCCACAC
1 AAATTCCACAAATTCCAAATATACATCACAATTTTC-ATAATAATTCCACAC
9940817 AAATTCCACAAATTCCAAATATACATCACAATTTTCATAATAATTCCA
1 AAATTCCACAAATTCCAAATATACATCACAATTTTCATAATAATTCCA
9940865 TGCAGATTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 37 0.90
52 4 0.10
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.34
Consensus pattern (51 bp):
AAATTCCACAAATTCCAAATATACATCACAATTTTCATAATAATTCCACAC
Found at i:9943522 original size:26 final size:26
Alignment explanation
Indices: 9943486--9943537 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
9943476 CAGGTTTGGT
9943486 TCATCGAACGAAAACTAAGACACAAA
1 TCATCGAACGAAAACTAAGACACAAA
*
9943512 TCATCGAACGAAAACTAAGACGCAAA
1 TCATCGAACGAAAACTAAGACACAAA
9943538 ACTTGACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.23, G:0.13, T:0.12
Consensus pattern (26 bp):
TCATCGAACGAAAACTAAGACACAAA
Found at i:9947844 original size:28 final size:28
Alignment explanation
Indices: 9947812--9947869 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
9947802 TAATAGGCTC
* *
9947812 AATGAAAGGGCCTTGTAAATTACCTTGT
1 AATGAAAAGGCCTTGAAAATTACCTTGT
9947840 AATGAAAAGGCCTTGAAAATTACCTTGT
1 AATGAAAAGGCCTTGAAAATTACCTTGT
9947868 AA
1 AA
9947870 CTTTTCTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (28 bp):
AATGAAAAGGCCTTGAAAATTACCTTGT
Found at i:9960537 original size:18 final size:19
Alignment explanation
Indices: 9960498--9960537 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
9960488 TTTCCAAAAA
*
9960498 TTTTTCATATTTTCCTTAT
1 TTTTTCATATTTTCATTAT
9960517 TTTTTCA-ATTTTCATT-T
1 TTTTTCATATTTTCATTAT
9960534 TTTT
1 TTTT
9960538 GCCTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 8 0.40
19 7 0.35
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTCATATTTTCATTAT
Found at i:9968398 original size:30 final size:30
Alignment explanation
Indices: 9968306--9968437 Score: 112
Period size: 30 Copynumber: 4.5 Consensus size: 30
9968296 TCATTTTATT
*
9968306 TAAATAAATTTTT--ATCTTT-A-TTATACT
1 TAAATAAATTTTTAAAT-TTTAATTTATACA
* * * *
9968333 TAAATAAACTTTTAAATTTTGATTTACACC
1 TAAATAAATTTTTAAATTTTAATTTATACA
* *
9968363 CAAATAAATTTTTAAATTTTAATTTATATA
1 TAAATAAATTTTTAAATTTTAATTTATACA
* * *
9968393 TAAATAAATTTGTAACA-TTTAATTTGTACG
1 TAAATAAATTTTTAA-ATTTTAATTTATACA
*
9968423 TAAATAAATATTTAA
1 TAAATAAATTTTTAA
9968438 CATAAATCAA
Statistics
Matches: 84, Mismatches: 16, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
27 12 0.14
28 3 0.04
29 3 0.04
30 65 0.77
31 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAATAAATTTTTAAATTTTAATTTATACA
Found at i:9969523 original size:2 final size:2
Alignment explanation
Indices: 9969511--9969556 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
9969501 CGATACCATT
9969511 TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9969552 TC TC T
1 TC TC T
9969557 ATATATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9969561 original size:2 final size:2
Alignment explanation
Indices: 9969556--9969586 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9969546 TCTCTCTCTC
*
9969556 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9969587 GGAGCTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:9974610 original size:29 final size:29
Alignment explanation
Indices: 9974565--9974629 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
9974555 ATTTGATTTT
*
9974565 TTTTTTAATTTTTATT-ATATTCAAATAA
1 TTTTTTAATTTTGATTAATATTCAAATAA
9974593 TTTTTTATATTTTGATTAATATTCAAATAA
1 TTTTTTA-ATTTTGATTAATATTCAAATAA
*
9974623 TTGTTTA
1 TTTTTTA
9974630 CGCAAACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 7 0.21
29 8 0.24
30 18 0.55
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTTTTAATTTTGATTAATATTCAAATAA
Found at i:9974692 original size:30 final size:30
Alignment explanation
Indices: 9974653--9974758 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 30
9974643 TTGATTTTTG
*
9974653 TTAAAAGTTTATTTAAGTTCAAATTAAAAT
1 TTAAAAGTTTATTTAAGTACAAATTAAAAT
* * *
9974683 TTAAGAGTTTATTCATA-TACAAATTAAAAG
1 TTAAAAGTTTATTTA-AGTACAAATTAAAAT
* *
9974713 TT-AAAGTTATATTT-TGATGCAAATTAAAAT
1 TTAAAAGTT-TATTTAAG-TACAAATTAAAAT
*
9974743 TTAAAAATTTATTTAA
1 TTAAAAGTTTATTTAA
9974759 ATATATTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
29 5 0.08
30 48 0.81
31 6 0.10
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (30 bp):
TTAAAAGTTTATTTAAGTACAAATTAAAAT
Found at i:9975134 original size:28 final size:29
Alignment explanation
Indices: 9975103--9975167 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
9975093 TGATTAAGGC
9975103 TTATTTAATACAAATT-AAAGTTAAAAAT
1 TTATTTAATACAAATTAAAAGTTAAAAAT
* *
9975131 TTATTAAATACAAATTAAAATTTAAAAAT
1 TTATTTAATACAAATTAAAAGTTAAAAAT
9975160 TTATTTAA
1 TTATTTAA
9975168 ATATAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 15 0.45
29 18 0.55
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (29 bp):
TTATTTAATACAAATTAAAAGTTAAAAAT
Found at i:9975186 original size:30 final size:29
Alignment explanation
Indices: 9975103--9975170 Score: 102
Period size: 28 Copynumber: 2.3 Consensus size: 29
9975093 TGATTAAGGC
* *
9975103 TTATTTAATACAAATT-AAAGTTAAAAAT
1 TTATTAAATACAAATTAAAATTTAAAAAT
9975131 TTATTAAATACAAATTAAAATTTAAAAAT
1 TTATTAAATACAAATTAAAATTTAAAAAT
9975160 TTATTTAAATA
1 TTA-TTAAATA
9975171 TAATAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 15 0.42
29 14 0.39
30 7 0.19
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (29 bp):
TTATTAAATACAAATTAAAATTTAAAAAT
Found at i:9977176 original size:41 final size:41
Alignment explanation
Indices: 9977120--9977205 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
9977110 TTTAAGGTAG
*
9977120 AAAATAAACTATTTTCATGTCCAAATCTTTCATAGCTTAGA
1 AAAATAAACTATTTTCATGTCCAAATCTTTCATAGCTAAGA
* * *
9977161 AAAATGAACTGTTTTCATGTCCTAATCTTTCATAGCTAAGA
1 AAAATAAACTATTTTCATGTCCAAATCTTTCATAGCTAAGA
9977202 AAAA
1 AAAA
9977206 GTGATCGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (41 bp):
AAAATAAACTATTTTCATGTCCAAATCTTTCATAGCTAAGA
Found at i:9980486 original size:24 final size:24
Alignment explanation
Indices: 9980454--9980512 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
9980444 CAACAATATT
* *
9980454 AACTGGATTTAAAATTGGAATTGA
1 AACTAGATTTAAAACTGGAATTGA
* * *
9980478 AACTAGATTTGAAGCTGGATTTGA
1 AACTAGATTTAAAACTGGAATTGA
9980502 AACTAGATTTA
1 AACTAGATTTA
9980513 GGGTTTATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (24 bp):
AACTAGATTTAAAACTGGAATTGA
Found at i:9980489 original size:12 final size:12
Alignment explanation
Indices: 9980474--9980511 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
9980464 AAAATTGGAA
9980474 TTGAAACTAGAT
1 TTGAAACTAGAT
* *
9980486 TTGAAGCTGGAT
1 TTGAAACTAGAT
9980498 TTGAAACTAGAT
1 TTGAAACTAGAT
9980510 TT
1 TT
9980512 AGGGTTTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (12 bp):
TTGAAACTAGAT
Found at i:9980828 original size:16 final size:17
Alignment explanation
Indices: 9980807--9980844 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
9980797 TTTATACATT
9980807 TAATAGTCA-AAT-TTTA
1 TAATAGT-ATAATATTTA
9980823 TAATAGTATAATATTTA
1 TAATAGTATAATATTTA
9980840 TAATA
1 TAATA
9980845 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 10 0.50
17 9 0.45
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (17 bp):
TAATAGTATAATATTTA
Found at i:9984114 original size:79 final size:80
Alignment explanation
Indices: 9983982--9984149 Score: 302
Period size: 79 Copynumber: 2.1 Consensus size: 80
9983972 ACTTAAAATT
*
9983982 GATATAAGGTCAAAGAAACAAAAGCTTACATAAACAATTAAATAATTACAATCAATCACTTACCA
1 GATATAAGGTCAAAGAAACAAAAGCCTACATAAACAATTAAATAATTACAATCAATCACTTACCA
9984047 CTGTGAGTTTTTTTA
66 CTGTGAGTTTTTTTA
9984062 -ATATAAGGTCAAAGAAACAAAAGCCTACATAAACAATTAAATAATTACAATCAATCACTTACCA
1 GATATAAGGTCAAAGAAACAAAAGCCTACATAAACAATTAAATAATTACAATCAATCACTTACCA
*
9984126 CTGTGGGTTTTTTTA
66 CTGTGAGTTTTTTTA
9984141 GGATATAAG
1 -GATATAAG
9984150 TCTTTGTAAG
Statistics
Matches: 84, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
79 77 0.92
81 7 0.08
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (80 bp):
GATATAAGGTCAAAGAAACAAAAGCCTACATAAACAATTAAATAATTACAATCAATCACTTACCA
CTGTGAGTTTTTTTA
Found at i:9988616 original size:15 final size:14
Alignment explanation
Indices: 9988598--9988644 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
9988588 ATTAAGAACG
9988598 TTTTATTTTTTGTT
1 TTTTATTTTTTGTT
*
9988612 CTTTTATTATTTGTT
1 -TTTTATTTTTTGTT
*
9988627 TTTTGTTTTTTGTT
1 TTTTATTTTTTGTT
9988641 TTTT
1 TTTT
9988645 GAACTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.06, C:0.02, G:0.09, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTTGTT
Found at i:9988642 original size:6 final size:7
Alignment explanation
Indices: 9988598--9988645 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
9988588 ATTAAGAACG
*
9988598 TTTTATT
1 TTTTGTT
9988605 TTTTGTT
1 TTTTGTT
*
9988612 CTTTTATT
1 -TTTTGTT
*
9988620 ATTTGTT
1 TTTTGTT
9988627 TTTTGTT
1 TTTTGTT
9988634 TTTTGTT
1 TTTTGTT
9988641 TTTTG
1 TTTTG
9988646 AACTATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.06, C:0.02, G:0.10, T:0.81
Consensus pattern (7 bp):
TTTTGTT
Found at i:9988807 original size:17 final size:18
Alignment explanation
Indices: 9988772--9988809 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9988762 TTTAATTTTT
9988772 ATTTCAAATAAAATATTA
1 ATTTCAAATAAAATATTA
9988790 ATTT-AAATGAAAAT-TTA
1 ATTTCAAAT-AAAATATTA
9988807 ATT
1 ATT
9988810 AATATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTTCAAATAAAATATTA
Found at i:9988854 original size:30 final size:30
Alignment explanation
Indices: 9988799--9988885 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
9988789 AATTTAAATG
*
9988799 AAAATTTAATTAATATATTAATTAAAAATTA
1 AAAATTTAATTAA-ATATAAATTAAAAATTA
* *
9988830 AAAATTTATTTAAATATAAATTAAAGATTA
1 AAAATTTAATTAAATATAAATTAAAAATTA
*
9988860 AAAATTTAATTAAATACAAATTAAAA
1 AAAATTTAATTAAATATAAATTAAAA
9988886 TTCAAAGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 38 0.76
31 12 0.24
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAATTTAATTAAATATAAATTAAAAATTA
Found at i:9992348 original size:113 final size:114
Alignment explanation
Indices: 9992149--9992364 Score: 398
Period size: 113 Copynumber: 1.9 Consensus size: 114
9992139 CAATTTACAC
*
9992149 GAAATCCCTTGGTTTATGTATGTACTGCCTCTAATTTGATTTTTTCAAGTGCAAGTTGGTTCAGT
1 GAAATCCCTTGGTTTATGTATATACTGCCTCTAATTTGATTTTTTCAAGTGCAAGTTGGTTCAGT
9992214 TTTGCATGTAAGCCCTAGAGGCTTTCAATCACACTCCTAACCTTAAACT
66 TTTGCATGTAAGCCCTAGAGGCTTTCAATCACACTCCTAACCTTAAACT
*
9992263 GAAATCCCTTGGTTTATGTATATTCTGCCTCTAATTTGA-TTTTTCAAGTGCAAGTTGGTTCAGT
1 GAAATCCCTTGGTTTATGTATATACTGCCTCTAATTTGATTTTTTCAAGTGCAAGTTGGTTCAGT
*
9992327 TTTGCATGTAAGCCCTAGAGGCTTTCAATCACATTCCT
66 TTTGCATGTAAGCCCTAGAGGCTTTCAATCACACTCCT
9992365 TTTGCATGTA
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
113 62 0.63
114 37 0.37
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (114 bp):
GAAATCCCTTGGTTTATGTATATACTGCCTCTAATTTGATTTTTTCAAGTGCAAGTTGGTTCAGT
TTTGCATGTAAGCCCTAGAGGCTTTCAATCACACTCCTAACCTTAAACT
Found at i:9992377 original size:38 final size:38
Alignment explanation
Indices: 9992326--9992399 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
9992316 GTTGGTTCAG
*
9992326 TTTTGCATGTAAGCCCTAGAGGCTTTCAATCACATTCC
1 TTTTGCATGTAAGCCCTAGAGGATTTCAATCACATTCC
*
9992364 TTTTGCATGTAAGCCCTAGAGGATTTTAATCACATT
1 TTTTGCATGTAAGCCCTAGAGGATTTCAATCACATT
9992400 TTTTTGTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (38 bp):
TTTTGCATGTAAGCCCTAGAGGATTTCAATCACATTCC
Found at i:9994233 original size:19 final size:20
Alignment explanation
Indices: 9994195--9994233 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
9994185 AAATAATCAA
* *
9994195 GTTTAATTTGAAATAAATTT
1 GTTTAAGTTGAAACAAATTT
9994215 GTTTAAGTT-AAACAAATTT
1 GTTTAAGTTGAAACAAATTT
9994234 ATTGTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (20 bp):
GTTTAAGTTGAAACAAATTT
Found at i:9995013 original size:162 final size:161
Alignment explanation
Indices: 9994732--9995631 Score: 778
Period size: 162 Copynumber: 5.6 Consensus size: 161
9994722 AATATTGTAA
* * * ** * *
9994732 TATAAAGTAATATAT-AGGGTATATTTAGAATTTCTTTTCAAAACTTTTGACAAAAGCAATTACG
1 TATAAAGTAATATATGA-GTTGTATTTAGAATTCCTTTT-AAAAC-TTTGACGTATGCAATTACA
* ** * * ** * *
9994796 TAAAATAAAAAC-T-CACTGTTTCACTCGTAATTAATTGTCTCCACATGATATCTATCAATAATC
63 TAAAATAAAATCTTCCACCATTTCACTCGCAATTAAGTGTCTCCATGTGCTATCTATCCATAATC
* *
9994859 GACATGAATTTTAGATGTATTTAATAGTATGGTG
128 GACATGAATTTGAGATGTATTTAATAGTAGGGTG
* * * * *
9994893 TATAAAATAATATATAAGTTGTACTTAGAATTACCTTTTGAAACTTTGACGTCTGCAATTACATA
1 TATAAAGTAATATATGAGTTGTATTTAGAATT-CCTTTTAAAACTTTGACGTATGCAATTACATA
* *** *** * * * * *
9994958 AAATAAAATCTTCTATTGTTTCACTTTTAATTAAATGTCTTCATGTTCTATCTATCCATAGTTGA
65 AAATAAAATCTTCCACCATTTCACTCGCAATTAAGTGTCTCCATGTGCTATCTATCCATAATCGA
* *
9995023 CATGAATTTGAGATGTATTTAATAATAGGGCG
130 CATGAATTTGAGATGTATTTAATAGTAGGGTG
* * * * ** *
9995055 TATAAAGTAATATATGGGATATATTTAGAATTCTTTTTCAAAACTTTGACGTACACAATTACGTA
1 TATAAAGTAATATATGAGTTGTATTTAGAATTCCTTTT-AAAACTTTGACGTATGCAATTACATA
* * * * * * *
9995120 AAATAGAATTTTCCACCATTTCACTCACAATTAAGTGTCTCCATGTACTATCTACCCATAGTCAA
65 AAATAAAATCTTCCACCATTTCACTCGCAATTAAGTGTCTCCATGTGCTATCTATCCATAATCGA
* *
9995185 CATGAATTTGAAATGTATTTAATAGTAAGGTG
130 CATGAATTTGAGATGTATTTAATAGTAGGGTG
* * * * * *
9995217 TATAAAGTAATATATAAGGTGTATTTAGAATTTCCCTTTGAAACTCTAACGTATGCAATTACATA
1 TATAAAGTAATATATGAGTTGTATTTAGAA-TTCCTTTTAAAACTTTGACGTATGCAATTACATA
* * * * * *
9995282 AAATACAATTTTCCATCATTTCACTCGCAATTAAGTGTCTCAACATAT--TATCAACCCATAATC
65 AAATAAAATCTTCCACCATTTCACTCGCAATTAAGTGTCTC--CATGTGCTATCTATCCATAATC
* *
9995345 GACATGAATTTGAGATGTATTTAATAAT-GAAGTG
128 GACATGAATTTGAGATGTATTTAATAGTAG-GGTG
* * **
9995379 TATAAAGTAATATATGGAG-TGTATTTAAAATTCTTTTTCAAAACTTTGACGTATATAATTACAT
1 TATAAAGTAATATAT-GAGTTGTATTTAGAATTCCTTTT-AAAACTTTGACGTATGCAATTACAT
* * * * *
9995443 AAAATAGAACAT-TT-CACCATTTCACTAGCAATTTAGTGTCTCCACGTGCTATCTATCAATATT
64 AAAATA-AA-ATCTTCCACCATTTCACTCGCAATTAAGTGTCTCCATGTGCTATCTATCCATAAT
* *
9995506 CGACATGACTTTGAGATATATTTAATAGT-GGAGTG
127 CGACATGAATTTGAGATGTATTTAATAGTAGG-GTG
* * * * * * *
9995541 CATAAAATGATATATGA-TGTGTATTTAAAATTCCCTTTAAAAATTTTGGCGTATGCAATTACAT
1 TATAAAGTAATATATGAGT-TGTATTTAGAATT-CCTTTTAAAACTTTGACGTATGCAATTACAT
* * **
9995605 AAAATAGAACCTTCCATTATTTCACTC
64 AAAATAAAATCTTCCACCATTTCACTC
9995632 CTTTAAAACT
Statistics
Matches: 598, Mismatches: 120, Indels: 41
0.79 0.16 0.05
Matches are distributed among these distances:
160 29 0.05
161 47 0.08
162 501 0.84
163 15 0.03
164 6 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (161 bp):
TATAAAGTAATATATGAGTTGTATTTAGAATTCCTTTTAAAACTTTGACGTATGCAATTACATAA
AATAAAATCTTCCACCATTTCACTCGCAATTAAGTGTCTCCATGTGCTATCTATCCATAATCGAC
ATGAATTTGAGATGTATTTAATAGTAGGGTG
Found at i:9995351 original size:324 final size:323
Alignment explanation
Indices: 9994732--9995631 Score: 998
Period size: 324 Copynumber: 2.8 Consensus size: 323
9994722 AATATTGTAA
*
9994732 TATAAAGTAATATATAGGG-TATATTTAGAATT-TCTTTTCAAAACTTTTGAC-AAAAGCAATTA
1 TATAAAGTAATATAT-GGGATATATTTAGAATTCT-TTTTCAAAAC-TTTGACGTAAA-CAATTA
** ** ** *
9994794 CGTAAAATA-AAAACTCACTGTTTCACTCGTAATTAATTGTCTCCACATG-A-TATCTATCAATA
62 CGTAAAATAGAAATTTCACCATTTCACTCACAATTAAGTGTCT-C-CATGTACTATCTATCAATA
* * * *
9994856 ATCGACATGAATTTTAGATGTATTTAATAGTATGGTGTATAAAATAATATATAAGTTGTACTTAG
125 ATCGACATGAATTTGAGATGTATTTAATAGTAAGGTGTATAAAATAATATATAAGGTGTATTTAG
* * * * * ***
9994921 AATTACCTTTTGAAACTTTGACGTCTGCAATTACATAAAATAAAATCTTCTATTGTTTCACTTTT
190 AATTTCCCTTTGAAACTTTGACGTATGCAATTACATAAAATAAAATCTTCCATTATTTCACTCGC
* * * * * *
9994986 AATTAAATGTCTTCATGTTCTATCTATCCATAGTTGACATGAATTTGAGATGTATTTAATAAT-A
255 AATTAAATGTCTACATGATCTATCAACCCATAATCGACATGAATTTGAGATGTATTTAATAATGA
*
9995050 GGGCG
320 -AGCG
*
9995055 TATAAAGTAATATATGGGATATATTTAGAATTCTTTTTCAAAACTTTGACGTACACAATTACGTA
1 TATAAAGTAATATATGGGATATATTTAGAATTCTTTTTCAAAACTTTGACGTAAACAATTACGTA
* * * * *
9995120 AAATAGAATTTTCCACCATTTCACTCACAATTAAGTGTCTCCATGTACTATCTACCCATAGTCAA
66 AAATAGAAATTT-CACCATTTCACTCACAATTAAGTGTCTCCATGTACTATCTATCAATAATCGA
* *
9995185 CATGAATTTGAAATGTATTTAATAGTAAGGTGTATAAAGTAATATATAAGGTGTATTTAGAATTT
130 CATGAATTTGAGATGTATTTAATAGTAAGGTGTATAAAATAATATATAAGGTGTATTTAGAATTT
* * * * *
9995250 CCCTTTGAAACTCTAACGTATGCAATTACATAAAATACAATTTTCCATCATTTCACTCGCAATTA
195 CCCTTTGAAACTTTGACGTATGCAATTACATAAAATAAAATCTTCCATTATTTCACTCGCAATTA
* *
9995315 AGTGTCTCAACAT-AT-TATCAACCCATAATCGACATGAATTTGAGATGTATTTAATAATGAAGT
260 AATGTCT--ACATGATCTATCAACCCATAATCGACATGAATTTGAGATGTATTTAATAATGAAGC
9995378 G
323 G
* * * * *
9995379 TATAAAGTAATATAT-GGAGTGTATTTAAAATTCTTTTTCAAAACTTTGACGTATATAATTACAT
1 TATAAAGTAATATATGGGA-TATATTTAGAATTCTTTTTCAAAACTTTGACGTAAACAATTACGT
* * * *
9995443 AAAATAGAACATTTCACCATTTCACT-AGCAATTTAGTGTCTCCACGTGCTATCTATCAATATTC
65 AAAATAGAA-ATTTCACCATTTCACTCA-CAATTAAGTGTCTCCATGTACTATCTATCAATAATC
* * * * * * *
9995507 GACATGACTTTGAGATATATTTAATAGT-GGAGTGCATAAAATGATATATGATGTGTATTTA-AA
128 GACATGAATTTGAGATGTATTTAATAGTAAG-GTGTATAAAATAATATATAAGGTGTATTTAGAA
* * * * * *
9995570 ATTCCCTTTAAAAATTTTGGCGTATGCAATTACATAAAATAGAACCTTCCATTATTTCACTC
192 TTTCCCTTT-GAAACTTTGACGTATGCAATTACATAAAATAAAATCTTCCATTATTTCACTC
9995632 CTTTAAAACT
Statistics
Matches: 488, Mismatches: 74, Indels: 29
0.83 0.13 0.05
Matches are distributed among these distances:
322 28 0.06
323 60 0.12
324 392 0.80
325 5 0.01
326 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (323 bp):
TATAAAGTAATATATGGGATATATTTAGAATTCTTTTTCAAAACTTTGACGTAAACAATTACGTA
AAATAGAAATTTCACCATTTCACTCACAATTAAGTGTCTCCATGTACTATCTATCAATAATCGAC
ATGAATTTGAGATGTATTTAATAGTAAGGTGTATAAAATAATATATAAGGTGTATTTAGAATTTC
CCTTTGAAACTTTGACGTATGCAATTACATAAAATAAAATCTTCCATTATTTCACTCGCAATTAA
ATGTCTACATGATCTATCAACCCATAATCGACATGAATTTGAGATGTATTTAATAATGAAGCG
Found at i:9995638 original size:57 final size:56
Alignment explanation
Indices: 9995574--9995686 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
9995564 TTTAAAATTC
* * * **
9995574 CCTTTAAAAATTTTGGCGTATGCAATTACATAAAATAGAACCTTCCATTATTTCACT
1 CCTTT-AAAACTTTGGCGCATACAATTACATAAAATAGAACCTTCCACCATTTCACT
* * *
9995631 CCTTTAAAACTTTGGTGCATACAATTACATAAAATGGAACTTTCCACCATTTCACT
1 CCTTTAAAACTTTGGCGCATACAATTACATAAAATAGAACCTTCCACCATTTCACT
9995687 TATAGTTAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 43 0.90
57 5 0.10
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (56 bp):
CCTTTAAAACTTTGGCGCATACAATTACATAAAATAGAACCTTCCACCATTTCACT
Found at i:9996187 original size:162 final size:159
Alignment explanation
Indices: 9995752--9996508 Score: 527
Period size: 162 Copynumber: 4.6 Consensus size: 159
9995742 TATTGAATAG
* * * * * *
9995752 TAAGGTGTATTTAGAATTCCCCTTCGAAATTTTGACATATGCAATTACGTAAAATAAAACCTTCC
1 TAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTTCC
* ** * *
9995817 ACCGTTTCACTTGCAATTAAGTGTCTCTATATGCTATCTACCCATAGTCGACAAGAATTTGAGAT
66 ACTGTTTCACTTGCAATTAAGTGTCTCTACGTGCTATC-ACCCATAGTC-ATATGAATTTGAGAT
* * *
9995882 GTGTTTAATAATAAGGTATATAAAGTAATAAA
129 GTATTTAATAAT-AGGTGTATAAAGTAATATA
* * * * **
9995914 TGAA-GTGTATTT-AGA-TTCTTCTTTGAAACTTTGACGTATGTAATTACATAAAATAGAATATT
1 T-AAGGTGTATTTAAAATTTC-TCTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTT
* * * * *
9995976 CTATTGTTTCACTTACAATTAAGTGTCTCTACGCGCTA-CATATCCATAGTCATTATGAATTTGA
64 CCACTGTTTCACTTGCAATTAAGTGTCTCTACGTGCTATC--ACCCATAGTCA-TATGAATTTGA
9996040 GATGTATTTAATAATATGGTGTATAAAGTAATATA
126 GATGTATTTAATAATA-GGTGTATAAAGTAATATA
* *
9996075 TAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCC
1 TAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTTCC
* * * * ** *
9996140 ACTGTTTCACTGGCAATTAAATGTCTCAACGTGTTATTCACCCATAGTTGGTATGAATTTGAAAT
66 ACTGTTTCACTTGCAATTAAGTGTCTCTACGTGCTA-TCACCCATAG-TCATATGAATTTGAGAT
* * *
9996205 GTATATAATAGTGAGGTGTATTAAGTAATATA
129 GTATTTAATAAT-AGGTGTATAAAGTAATATA
* * * * * *
9996237 TTAGGTGTATTAAGTAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAA
1 TAAGGTGTATT---TAA-A-ATT---TCTCTTT-GAA----ACTTTG--AC-GT-ATG----CAA
* * ** * * * * *
9996302 TTACGTAATATAGAAACCTTCTACCATTTCAC--ACAATTAAGTATCTCAATGTGTTATCTACCC
45 TTACGTAAAATA-AAACCTTCCACTGTTTCACTTGCAATTAAGTGTCTCTACGTGCTATC-ACCC
* * * * *
9996365 ATAGTCAGCATGAATTTGAGATATATTTGATAGTGAGGTGTATAAAATAATATA
108 ATAGTCA-TATGAATTTGAGATGTATTTAATAAT-AGGTGTATAAAGTAATATA
* * * * * * * *
9996419 TTATGTGTATTTAAATTTTTTTTTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTC
1 TAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTTCC
* **
9996484 ACAGTTTCACTCACAATTAAGTGTC
66 ACTGTTTCACTTGCAATTAAGTGTC
9996509 ATGAATTTAA
Statistics
Matches: 471, Mismatches: 86, Indels: 76
0.74 0.14 0.12
Matches are distributed among these distances:
160 21 0.04
161 138 0.29
162 146 0.31
163 7 0.01
164 1 0.00
165 5 0.01
166 2 0.00
167 5 0.01
169 5 0.01
170 5 0.01
171 3 0.01
173 3 0.01
174 5 0.01
175 5 0.01
177 4 0.01
178 2 0.00
179 5 0.01
181 3 0.01
182 77 0.16
183 13 0.03
184 16 0.03
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (159 bp):
TAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTTCC
ACTGTTTCACTTGCAATTAAGTGTCTCTACGTGCTATCACCCATAGTCATATGAATTTGAGATGT
ATTTAATAATAGGTGTATAAAGTAATATA
Found at i:9996243 original size:21 final size:21
Alignment explanation
Indices: 9996218--9996268 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
9996208 TATAATAGTG
9996218 AGGTGTATTAAGTAATATATT
1 AGGTGTATTAAGTAATATATT
9996239 AGGTGTATTAAGTAATATATT
1 AGGTGTATTAAGTAATATATT
9996260 AGGTGTATT
1 AGGTGTATT
9996269 TAGAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (21 bp):
AGGTGTATTAAGTAATATATT
Found at i:9996420 original size:182 final size:182
Alignment explanation
Indices: 9996057--9996429 Score: 498
Period size: 182 Copynumber: 2.0 Consensus size: 182
9996047 TTAATAATAT
*
9996057 GGTGTATAAAGTAATATATAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTA
1 GGTGTATTAAGTAATATATAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTA
* ** * *
9996122 TGTAACATAAAACCTTCCACTGTTTCACTGGCAATTAAATGTCTCAACGTGTTATTCACCCATAG
66 CGTAACATAAAACCTTCCACCATTTCAC-GACAATTAAATATCTCAACGTGTTATTCACCCATAG
** * * * *
9996187 TTGGTATGAATTTGAAATGTATATAATAGTGAGGTGTATTAAGTAATATATTA
130 TCAGCATGAATTTGAAATATATATAATAGTGAGGTGTATAAAATAATATATTA
* * *
9996240 GGTGTATTAAGTAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTA
1 GGTGTATTAAGTAATATATAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTA
* * * *
9996305 CGTAATATAGAAACCTTCTACCATTTCAC-ACAATTAAGTATCTCAATGTGTTA-TCTACCCATA
66 CGTAACATA-AAACCTTCCACCATTTCACGACAATTAAATATCTCAACGTGTTATTC-ACCCATA
* * *
9996368 GTCAGCATGAATTTGAGATATATTTGATAGTGAGGTGTATAAAATAATATATTA
129 GTCAGCATGAATTTGAAATATATATAATAGTGAGGTGTATAAAATAATATATTA
*
9996422 TGTGTATT
1 GGTGTATT
9996430 TAAATTTTTT
Statistics
Matches: 165, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
181 2 0.01
182 79 0.48
183 68 0.41
184 16 0.10
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (182 bp):
GGTGTATTAAGTAATATATAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTA
CGTAACATAAAACCTTCCACCATTTCACGACAATTAAATATCTCAACGTGTTATTCACCCATAGT
CAGCATGAATTTGAAATATATATAATAGTGAGGTGTATAAAATAATATATTA
Found at i:9996626 original size:134 final size:135
Alignment explanation
Indices: 9996373--9996642 Score: 330
Period size: 134 Copynumber: 2.0 Consensus size: 135
9996363 CCATAGTCAG
* * * * *
9996373 CATGAATTTGAGATATATTTGATAGTGAGGTGTATAAAATAATATATTATGTGTATTTAAATTTT
1 CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAATAATATAGTAGGTGTATTTAAATTTC
** * * * *
9996438 TTTTTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTA
66 TCCTCTGAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACTCACAATTA
9996503 AGTGT
131 AGTGT
* *
9996508 CATGAATTTAAGATATATTTAATAGTG-GGTGTATAAAGTAATGTAGTAGGTGTATTTAGAA-TT
1 CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAATAATATAGTAGGTGTATTTA-AATTT
* * * * **
9996571 CTCCTCTGAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCATTA-TTTCACTCGTAAT
65 CTCCTCTGAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCA-CAGTTTCACTCACAAT
9996635 TAAGTGT
129 TAAGTGT
9996642 C
1 C
9996643 TCCACGTGCC
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
134 86 0.75
135 28 0.25
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (135 bp):
CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAATAATATAGTAGGTGTATTTAAATTTC
TCCTCTGAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACTCACAATTA
AGTGT
Found at i:9996778 original size:162 final size:162
Alignment explanation
Indices: 9996509--9997126 Score: 719
Period size: 162 Copynumber: 3.8 Consensus size: 162
9996499 ATTAAGTGTC
* * *
9996509 ATGAATTTAAGATATATTTAATAGTG-GGTGTATAAAGTAATGTAGTAGGTGTATTTAGAA-TTC
1 ATGAATTTGAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
* * * * *
9996572 TCCTCTGAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCATTATTTCACTCGTAATTA
66 T-CTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTA
* ** *
9996637 AGTGTCTCCACGTGCCATCTACTCATAATTGAT
130 AGTGTCTCAACGTGTTATCTACCCATAATTGAT
* * *
9996670 ATGAATTTGAGATGTATTTAATAGT-AGGGTGTATAAAGTAATATATAAGGTGTATTTAAAATTT
1 ATGAATTTGAGATATATTTAATAGTGA-GGTGTATAAAGTAATATATTAGGTGTATTTAGAATTT
** * * *
9996734 CTCTTTGAAACTTTGACGTATGCAATTATATAACATAAAACCTTCCACTGTTTCACTGGCAATTA
65 CTCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTA
* * * *
9996799 AATGTCTCAACGTGTTGT-TCACCCATAGTTGGT
130 AGTGTCTCAACGTGTTATCT-ACCCATAATTGAT
* * * *
9996832 ATGAATTTGAGATATATATAATAGTGAGGTGTATTAAGTAATATATTAGGTGTATTTATAATTTT
1 ATGAATTTGAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
* ** * *
9996897 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAGAACCTTATACCATTTCA--CACAATTAA
66 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTAA
* * * * *
9996960 GTATCTCAATGTGTTATCTACCCAT-AGTCAGC
131 GTGTCTCAACGTGTTATCTACCCATAATTGA-T
* *
9996992 ATGAATTTGAGATATATTTGATAGTGAGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTC
1 ATGAATTTGAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
* * * * * * * *
9997057 TTTTTGAAACTTTGACATATGTAATTACGTAAAATAAAATCTTTCACAATTTCACTCACAATTAA
66 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTAA
9997122 GTGTC
131 GTGTC
9997127 ATGAATTTAA
Statistics
Matches: 383, Mismatches: 65, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
159 1 0.00
160 130 0.34
161 25 0.07
162 222 0.58
163 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (162 bp):
ATGAATTTGAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTAA
GTGTCTCAACGTGTTATCTACCCATAATTGAT
Found at i:9997244 original size:134 final size:135
Alignment explanation
Indices: 9996991--9997260 Score: 357
Period size: 134 Copynumber: 2.0 Consensus size: 135
9996981 CCATAGTCAG
* * *
9996991 CATGAATTTGAGATATATTTGATAGTGAGGTGTATAAAGTAATATATTATGTGTATTTAGAATTT
1 CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTT
* ** * * *
9997056 CTTTTTGAAACTTTGACATATGTAATTACGTAAAATAAAATCTTTCACAATTTCACTCACAATTA
66 CTCTTCAAAACTTTAACATATGCAATTACGTAAAATAAAATCTTCCACAATTTCACTCACAATTA
9997121 AGTGT
131 AGTGT
9997126 CATGAATTTAAGATATATTTAATAGTG-GGTGTATAAAGTAATATATTAGGTGTATTTAGAA-TT
1 CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTT
* * * ** **
9997189 CTCCTTCAAAACTTTAACGTATGCAATTACGTAATATAGAA-CATTCCACTGTTTCACTCGTAAT
66 CT-CTTCAAAACTTTAACATATGCAATTACGTAAAATAAAATC-TTCCACAATTTCACTCACAAT
9997253 TAAGTGT
129 TAAGTGT
9997260 C
1 C
9997261 TTCACGTGCC
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
133 5 0.04
134 87 0.74
135 25 0.21
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (135 bp):
CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTT
CTCTTCAAAACTTTAACATATGCAATTACGTAAAATAAAATCTTCCACAATTTCACTCACAATTA
AGTGT
Found at i:9997255 original size:618 final size:618
Alignment explanation
Indices: 9995900--10001082 Score: 7142
Period size: 618 Copynumber: 8.2 Consensus size: 618
9995890 TAATAAGGTA
* * * * ** * * *
9995900 TATAAAGTAATAAATGAAGTGTATTTAG-ATTCTTCTTTGAAACTTTGACGTATGTAATTACATA
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
* ** * * *** * * * *
9995964 AAATAGAATATTCTATTGTTTCACTTACAATTAAGTGTCTCTACGCGCTA-CATA-TCCATAGTC
66 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATC-TACT-CATAATC
* * *
9996027 -ATTATGAATTTGAGATGTATTTAATAATATGGTGTATAAAGTAATATATAAGGTGTATTTAAAA
129 GA-TATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAA
9996091 TTTCTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAA
193 TTTCTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAA
* *
9996156 TTAAATGTCTCAACGTGTTATTCACCCATAGTTGGTATGAATTTGAAATGTATATAATAGTGAGG
258 TTAAATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATAT-A-A-T-A--
*
9996221 TGTATTAAGTAATATATTAGGTGTATTAAGTAATATATTAGGTGTATTTAGAATTTTTCTTTGAA
317 -G---T--G---------AGGTGTATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAA
9996286 ACTTTGACGTATGCAATTACGTAATATAGAAACCTTCTACCATTTCACACAATTAAGTATCTCAA
367 ACTTTGACGTATGCAATTACGTAATATAG-AACCTTCTACCATTTCACACAATTAAGTATCTCAA
* *
9996351 TGTGTTATCTACCCATAGTCAGCATGAATTTGAGATATATTTGATAGTGAGGTGTATAAAATAAT
431 TGTGTTATCTACCCATAGTCAGCATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAAT
*
9996416 ATATTATGTGTATTTA-AATTTTTTTTTTGAAACTTTGACATATGCAATTACGTAAAATAAAATC
496 ATATTATGTGTATTTAGAA-TTTCTTTTTGAAACTTTGACATATGCAATTACGTAAAATAAAATC
9996480 TTTCACAGTTTCACTCACAATTAAGTGTCATGAATTTAAGATATATTTAATAGTGGGTG
560 TTTCACAGTTTCACTCACAATTAAGTGTCATGAATTTAAGATATATTTAATAGTGGGTG
* * *
9996539 TATAAAGTAATGTAGTAGGTGTATTTAGAATTCTCC-TCTGAAACTTTAACGTATGCAATTACGT
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTC-AAAACTTTAACGTATGCAATTACGT
* * *
9996603 AATATAGAACCTTCCATTATTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATTG
65 AATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCG
*
9996668 ATATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATATAAGGTGTATTTAAAATT
130 ATATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATT
*
9996733 TCTCTTTGAAACTTTGACGTATGCAATTATATAACATAAAACCTTCCACTGTTTCACTGGCAATT
195 TCTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAATT
* * *
9996798 AAATGTCTCAACGTGTTGTTCACCCATAGTTGGTATGAATTTGAGATATATATAATAGTGAGGTG
260 AAATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTG
* *
9996863 TATTAAGTAATATATTAGGTGTATTTATAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTA
325 TATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTA
*
9996928 ATATAGAACCTTATACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTCAGCA
390 ATATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTCAGCA
*
9996993 TGAATTTGAGATATATTTGATAGTGAGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCT
455 TGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCT
* *
9997058 TTTTGAAACTTTGACATATGTAATTACGTAAAATAAAATCTTTCACAATTTCACTCACAATTAAG
520 TTTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAG
9997123 TGTCATGAATTTAAGATATATTTAATAGTGGGTG
585 TGTCATGAATTTAAGATATATTTAATAGTGGGTG
9997157 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
* *
9997222 ATATAGAACATTCCACTGTTTCACTCGTAATTAAGTGTCTTCACGTGCCATCTACTCATAATCGA
66 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
* *
9997287 TATGAATTTGAGATATATTTAATAGTAGGGT-TATAAATTAATATACAAGGTGTATTTAAAATTT
131 TATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTT
*
9997351 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGACAATTA
196 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAATTA
*
9997416 AATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAATGAGGTGT
261 AATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
9997481 ATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
326 ATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
*
9997546 TATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATATGTTATCTACCCATAGTCAGCAT
391 TATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTCAGCAT
*
9997611 GAATTTGAGATATATTTGATAATGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
456 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
* * *
9997676 TTTGAAACTTTGACATATACAATTACGTAAAATAAAATCTTTCACAGTTTTACTCACAATTAAGA
521 TTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
*
9997741 GTCATGAATTTAAAATATATTTAATAGTGGGTG
586 GTCATGAATTTAAGATATATTTAATAGTGGGTG
* * *
9997774 TTTAAAGTAATGTATTAGGTGTATTTAGAATTCTCCTTCGAAACTTTAACGTATGCAATTACGTA
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
*
9997839 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACATGCCATCTACTCATAATCGA
66 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
* *
9997904 TATGAATTTGAGATGTATTTAATAGTAGGGTGTACAAAGTAATATATAAGGTGTATTTAAAATTT
131 TATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTT
* *
9997969 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCATTGTTTCACTGACAATTA
196 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAATTA
* * *
9998034 AATGTCTTAATGTGTTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
261 AATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
* *
9998099 ATTAAGTAATATATTAGGTGTATTTAAAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
326 ATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
* * *
9998164 TATAGAACCTTATACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTTAGGAT
391 TATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTCAGCAT
9998229 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
456 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
*
9998294 TTTGAAACTTTAACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
521 TTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
9998359 GTCATGAATTTAAGATATATTTAATAGTGGGTG
586 GTCATGAATTTAAGATATATTTAATAGTGGGTG
*
9998392 TATAAAGT-A-ATATTAGGTGTATTTAGAATTCTCTTTCAAAACTTTAACGTATGCAATTACGTA
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
9998455 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
66 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
* *
9998520 TATGAATTTGAGATATATTTAATAGTAGGGTTTATAAAGTAATATACAAGGTGTATTTAAAATTT
131 TATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTT
*
9998585 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTATTTCACTGGCAATTA
196 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAATTA
*
9998650 AATGTCTCAACATATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
261 AATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
*
9998715 ATTCAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
326 ATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
* *
9998780 TATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTTAGGAT
391 TATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTCAGCAT
9998845 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
456 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
*
9998910 TTTGAAACTTTAACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
521 TTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
9998975 GTCATGAATTTAAGATATATTTAATAGTGGGTG
586 GTCATGAATTTAAGATATATTTAATAGTGGGTG
*
9999008 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCTTTCAAAACTTTAACGTATGCAATTACGTA
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
9999073 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
66 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
* *
9999138 TATGAATTTGAGATATATTTAATAGTAGGGTTTATAAAGTAATATACAAGGTGTATTTAAAATTT
131 TATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTT
*
9999203 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTATTTCACTGGCAATTA
196 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAATTA
*
9999268 AATGTCTCAACATATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
261 AATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
* *
9999333 ATTCAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTGA
326 ATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
* *
9999398 TATAGAACCTTCTACCATTTCCCACAATTAAGTATCTCAATATGTTATCTACCCATAGTCAGCAT
391 TATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTCAGCAT
*
9999463 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAAAATTTCTT
456 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
*
9999528 TTTGAAACTTTGACATATGCAATTACATAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
521 TTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
9999593 GTCATGAATTTAAGATATATTTAATAGTGGGTG
586 GTCATGAATTTAAGATATATTTAATAGTGGGTG
* * * *
9999626 TATAAAGTAATGTATTAAGTGTATTTAGAATTCTCTTTCAAAACTTTAACGTATGCAATTATGTA
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
* * *
9999691 ATATAGAACCTTCCACTATTTCACTTGTAATTAAATGTCTCCACGTGCCATCTACTCATAATCGA
66 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
* * **** * * * * * *
9999756 TATGAATTTGAGGTGTATTCCTTCCACT-GTTTCACTCGTAATTAAGT-GTCTTC-ACGTGCCAT
131 TATGAATTTGAGATGTA-T--TT--AATAG-TAGGGT-GT-ATAAAGTAATATACAAGGTG-TAT
*** * * *
9999818 CTACTCATAATCGATTTGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATATAAGG
187 -T--T-A-AA---ATTTCTCTTTGA-A---ACTT--T-G-A---CGTAT---GCAAT-TAT---G
* ** * ** * * * **
9999883 TGTATTTAAAA-TTTCTCTTTGAAACTTTGACGTATGCAATT--ATG--T-AACATAAAACCTTC
226 T-AACATAAAACCTTC-CACTG----TTTCAC-T-GGCAATTAAATGTCTCAACGTATTA--TTC
* * * * * * * * *
9999942 -CAC-T-GTT--TCACTGGCAA-TT-AAATGTCT-TAA-CGT---GT-TGTTCACCCATA-GTT-
281 ACCCATAGTTGGT-A-T-G-AATTTGAGATGTATATAATAGTGAGGTGTATTAAGCAATATATTA
* ** * ** * * * * *
9999992 GGTATGAATTT-GAGATGTATATAATAGTG-AGGTGTATTAAGTAAT--ATATTAAGTGTATTTA
342 GG--TGTATTTAGA-AT-T-T-TTCT-TTGAAACT-T-TGACGT-ATGCA-ATTACGT-AATATA
** * * * * * * * * *
10000053 GAATTTTTTTTTGA-AACTTTGACGTATGCAATTACGTAATATAGAACCT-TATACCATTTCACA
395 GAA---CCTTCT-ACCA-TTTCAC--A--CAATTAAGT-ATCT-CAA--TGTGT--TATCT-AC-
* * ** * * *
10000116 CAATTAAGT-ATCTCAATGTGTTATCTACCCATAGTTAGCATGAATTTGAGATATATTTGATAGT
443 CCA-T-AGTCA--GC-ATGAATT-T-GA--GATAT---------ATTT--G--ATA---G-T-G-
10000180 GAGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTTTTTGAAACTTTGACATATGCAAT
480 G-GGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTTTTTGAAACTTTGACATATGCAAT
*
10000245 TACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAATGTCATGAATTTAAGATATATTTA
544 TACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGTGTCATGAATTTAAGATATATTTA
10000310 ATAGTGGGTG
609 ATAGTGGGTG
10000320 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
* *
10000385 ATATAGAACCTTCCACTGTTTCACGCATAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
66 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
* *
10000450 TATGAATTTGAGATATATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAATTTT
131 TATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTT
*
10000515 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTAGCAATTA
196 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAATTA
*
10000580 AATGTCTCAACGTATTATTCACCCATAGTTAGTATGAATTTGAGATGTATATAATAGTGAGGTGT
261 AATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
*
10000645 ATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTAACGTATGCAATTACGTAA
326 ATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
* *
10000710 TATAAAACCTTCTACCA-TTCACACAATTAAGTATCTCAATATGTTATCTACCCATAGTCAGCAT
391 TATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTCAGCAT
*
10000774 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATAT-TTATGTGTATTTAAAATTTCTT
456 GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
* *
10000838 TTTGAAACTTTGACATACGCAATTACATAAAATAAAATCTTTCACAGTTTCACTCACAATTAA--
521 TTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
*
10000901 GTCATGAATTTAAGATATATTTAATAATGGGTG
586 GTCATGAATTTAAGATATATTTAATAGTGGGTG
* *
10000934 TATAAAGTAATGTATTAGGTGTATTTAGAATTCTCTTTCAAAACTTTAACGTATGCAATTACGTA
1 TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
* * * *
10000999 ACATAGAACCTTCCACTATTTCACTTGTAATTAAATGTCTCCACGTGCCATCTACTCATAATCGA
66 ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
10001064 TATGAATTTGAGATGTATT
131 TATGAATTTGAGATGTATT
10001083 CCTTCCACTT
Statistics
Matches: 4107, Mismatches: 289, Indels: 321
0.87 0.06 0.07
Matches are distributed among these distances:
614 172 0.04
616 678 0.17
617 609 0.15
618 1546 0.38
619 81 0.02
620 1 0.00
621 3 0.00
622 1 0.00
623 8 0.00
624 9 0.00
625 7 0.00
626 1 0.00
627 1 0.00
628 6 0.00
629 2 0.00
630 1 0.00
632 9 0.00
633 2 0.00
636 4 0.00
637 4 0.00
638 2 0.00
639 27 0.01
640 253 0.06
641 8 0.00
642 1 0.00
643 9 0.00
644 6 0.00
645 19 0.00
646 9 0.00
647 7 0.00
648 5 0.00
649 9 0.00
650 21 0.01
651 30 0.01
652 19 0.00
653 5 0.00
654 8 0.00
655 19 0.00
656 6 0.00
657 16 0.00
658 7 0.00
659 13 0.00
660 13 0.00
661 29 0.01
662 21 0.01
663 8 0.00
664 7 0.00
665 6 0.00
666 9 0.00
667 18 0.00
668 7 0.00
669 7 0.00
670 5 0.00
671 1 0.00
672 2 0.00
673 1 0.00
674 4 0.00
676 3 0.00
679 1 0.00
680 8 0.00
683 6 0.00
684 1 0.00
685 2 0.00
687 10 0.00
688 7 0.00
689 8 0.00
690 2 0.00
691 3 0.00
692 1 0.00
693 2 0.00
694 271 0.07
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (618 bp):
TATAAAGTAATATATTAGGTGTATTTAGAATTCTCCTTCAAAACTTTAACGTATGCAATTACGTA
ATATAGAACCTTCCACTGTTTCACTCGTAATTAAGTGTCTCCACGTGCCATCTACTCATAATCGA
TATGAATTTGAGATGTATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTT
CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAATTA
AATGTCTCAACGTATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGT
ATTAAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAA
TATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTCAGCAT
GAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTT
TTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGT
GTCATGAATTTAAGATATATTTAATAGTGGGTG
Found at i:9997539 original size:162 final size:162
Alignment explanation
Indices: 9997127--9997739 Score: 668
Period size: 161 Copynumber: 3.8 Consensus size: 162
9997117 ATTAAGTGTC
* * *
9997127 ATGAATTTAAGATATATTTAATAGTG-GGTGTATAAAGTAATATATTAGGTGTATTTAGAATTCT
1 ATGAATTTGAGATATATTTAATAATGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTT
* ** * * * *
9997191 CCTTCAAAACTTTAACGTATGCAATTACGTAATATAGAACATTCCACTGTTTCACTCG-TAATTA
66 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACT-GACAATTA
** * * *
9997255 AGTGTCTTC-ACGTGCCATCTACTCATAATCGAT
130 AGTGTC-TCAACGTGTTATCTACCCATAGTCGGT
* * ** *
9997288 ATGAATTTGAGATATATTTAATAGT-AGG-GTTATAAATTAATATACAAGGTGTATTTAAAATTT
1 ATGAATTTGAGATATATTTAATAATGAGGTG-TATAAAGTAATATATTAGGTGTATTTAGAATTT
* * *
9997351 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGACAATTA
65 TTCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTGACAATTA
* * *
9997416 AATGTCTCAACGTATTAT-TCACCCATAGTTGGT
130 AGTGTCTCAACGTGTTATCT-ACCCATAGTCGGT
* * * *
9997449 ATGAATTTGAGATGTATATAATAATGAGGTGTATTAAGCAATATATTAGGTGTATTTAGAATTTT
1 ATGAATTTGAGATATATTTAATAATGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTT
* * **
9997514 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAGAACCTTCTACCATTTCAC--ACAATTAA
66 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTGACAATTAA
* ** * *
9997577 GTATCTCAATATGTTATCTACCCATAGTCAGC
131 GTGTCTCAACGTGTTATCTACCCATAGTCGGT
* * *
9997609 ATGAATTTGAGATATATTTGATAATGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTC
1 ATGAATTTGAGATATATTTAATAATGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTT-
* * * * * * * *
9997674 TT-TTTGAAACTTTGACATATACAATTACGTAAAATAAAATCTTTCACAGTTTTACTCACAATTA
65 TTCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTGACAATTA
9997738 AG
130 AG
9997740 AGTCATGAAT
Statistics
Matches: 376, Mismatches: 65, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
160 135 0.36
161 152 0.40
162 88 0.23
163 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (162 bp):
ATGAATTTGAGATATATTTAATAATGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTT
TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTGACAATTAA
GTGTCTCAACGTGTTATCTACCCATAGTCGGT
Found at i:9998013 original size:162 final size:160
Alignment explanation
Indices: 9997744--9998361 Score: 679
Period size: 162 Copynumber: 3.8 Consensus size: 160
9997734 ATTAAGAGTC
* * * * *
9997744 ATGAATTTAAAATATATTTAATAGTGGGTGTTTAAAGTAATGTATTAGGTGTATTTAGAA-TTCT
1 ATGAATTTGAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTCT
* * *
9997808 CCTTCGAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCACTGTTTCACTCGTAATTAA
66 -CTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTCGCAATTAA
* ** ** * *
9997873 GTGTCTCCACATGCCATCTACTCATAATCGAT
130 GTGTCTCAATGTGTTATCTACCCATAGT-GAT
* * *
9997905 ATGAATTTGAGATGTATTTAATAGTAGGGTGTACAAAGTAATATATAAGGTGTATTTAAAATTTC
1 ATGAATTTGAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTC
* * * *
9997970 TCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCATTGTTTCACT-GACAATTA
65 TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTCG-CAATTA
* * *
9998034 AATGTCTTAATGTGTTAT-TCACCCATAGTTGGT
129 AGTGTCTCAATGTGTTATCT-ACCCATAG-TGAT
* * * *
9998067 ATGAATTTGAGATGTATATAATAGTGAGGTGTATTAAGTAATATATTAGGTGTATTTAAAATTTT
1 ATGAATTTGAGATATATTTAATAGTG-GGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTC
* * ** ** *
9998132 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAGAACCTTATACCATTTCA--CACAATTAA
65 TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTCGCAATTAA
* * *
9998195 GTATCTCAATGTGTTATCTACCCATAGTTAGG
130 GTGTCTCAATGTGTTATCTACCCATAGTGA-T
* * *
9998227 ATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTC
1 ATGAATTTGAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTC
* * * * * * *
9998292 TTTTTGAAACTTTAACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAA
65 TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTCGCAATTAA
9998357 GTGTC
130 GTGTC
9998362 ATGAATTTAA
Statistics
Matches: 382, Mismatches: 63, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
159 1 0.00
160 129 0.34
161 27 0.07
162 220 0.58
163 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (160 bp):
ATGAATTTGAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTCT
CTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACTCGCAATTAAG
TGTCTCAATGTGTTATCTACCCATAGTGAT
Found at i:9998476 original size:132 final size:135
Alignment explanation
Indices: 9998227--9998493 Score: 380
Period size: 132 Copynumber: 2.0 Consensus size: 135
9998217 CATAGTTAGG
* * *
9998227 ATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTC
1 ATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
** * *
9998292 TTTTTGAAACTTTAACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAA
66 TTTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACTCACAATTAA
9998357 GTGTC
131 GTGTC
9998362 ATGAATTTAAGATATATTTAATAGT-GGGTGTATAAAGT-A-ATATTAGGTGTATTTAGAA-TTC
1 ATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
* * * * **
9998423 TCTTTCAAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCACTGTTTCACTCGTAATTA
66 T-TTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACTCACAATTA
9998488 AGTGTC
130 AGTGTC
9998494 TCCACGTGCC
Statistics
Matches: 118, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
131 4 0.03
132 77 0.65
133 1 0.01
134 13 0.11
135 23 0.19
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (135 bp):
ATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
TTTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACTCACAATTAA
GTGTC
Found at i:9998629 original size:162 final size:160
Alignment explanation
Indices: 9998362--9998977 Score: 697
Period size: 162 Copynumber: 3.8 Consensus size: 160
9998352 ATTAAGTGTC
*
9998362 ATGAATTTAAGATATATTTAATAGTGGGTGTATAAAGT-A-ATATTAGGTGTATTTAGAA-TTCT
1 ATGAATTTGAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTCT
* * * *
9998424 CTTTCAAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCACTGTTTCACTCGTAATTAA
66 CTTT-GAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTAA
* ** * *
9998489 GTGTCTCCACGTGCCATCTACTCATAATCGAT
130 GTGTCTCAACGTGTTATCTACCCATAGT-GAT
* ** *
9998521 ATGAATTTGAGATATATTTAATAGTAGGGTTTATAAAGTAATATACAAGGTGTATTTAAAATTTC
1 ATGAATTTGAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
* * * *
9998586 TCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTATTTCACTGGCAATTAA
65 TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTAA
* * * *
9998651 ATGTCTCAACATATTAT-TCACCCATAGTTGGT
130 GTGTCTCAACGTGTTATCT-ACCCATAG-TGAT
* * ** * *
9998683 ATGAATTTGAGATGTATATAATAGTGAGGTGTATTCAGCAATATATTAGGTGTATTTAGAATTTT
1 ATGAATTTGAGATATATTTAATAGTG-GGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
* * * * *
9998748 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAGAACCTTCTACCATTTCA--CACAATTAA
65 TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTAA
* * * *
9998811 GTATCTCAATGTGTTATCTACCCATAGTTAGG
130 GTGTCTCAACGTGTTATCTACCCATAGTGA-T
* *
9998843 ATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTC
1 ATGAATTTGAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
* * * * * *
9998908 TTTTTGAAACTTTAACATATGCAATTACGTAAAATAAAATCTTTCAC-AGTTTCACTCACAATTA
65 TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTA-TTTCACTCGCAATTA
9998972 AGTGTC
129 AGTGTC
9998978 ATGAATTTAA
Statistics
Matches: 380, Mismatches: 64, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
159 26 0.07
160 138 0.36
161 5 0.01
162 202 0.53
163 9 0.02
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (160 bp):
ATGAATTTGAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTCT
CTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCGCAATTAAG
TGTCTCAACGTGTTATCTACCCATAGTGAT
Found at i:9999094 original size:134 final size:135
Alignment explanation
Indices: 9998843--9999111 Score: 398
Period size: 134 Copynumber: 2.0 Consensus size: 135
9998833 CATAGTTAGG
* * *
9998843 ATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTC
1 ATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
** * *
9998908 TTTTTGAAACTTTAACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAA
66 TTTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACTCACAATTAA
9998973 GTGTC
131 GTGTC
9998978 ATGAATTTAAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAGAA-TTC
1 ATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
* * * * **
9999041 TCTTTCAAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCACTGTTTCACTCGTAATTA
66 T-TTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACTCACAATTA
9999106 AGTGTC
130 AGTGTC
9999112 TCCACGTGCC
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
133 4 0.03
134 93 0.77
135 23 0.19
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (135 bp):
ATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTC
TTTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACTCACAATTAA
GTGTC
Found at i:9999247 original size:162 final size:161
Alignment explanation
Indices: 9998978--9999595 Score: 708
Period size: 162 Copynumber: 3.8 Consensus size: 161
9998968 ATTAAGTGTC
* *
9998978 ATGAATTTAAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAGAA-TTCT
1 ATGAATTTGAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTCT
* * * * **
9999042 CTTTCAAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCACTGTTTCACTCGTAATTAA
66 CTTT-GAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCACAATTAA
* * ** * *
9999107 GTGTCTCCACGTGCCATCTACTCATAATCGAT
130 GTGTCTCAACATGTTATCTACCCATAGTCGAT
* **
9999139 ATGAATTTGAGATATATTTAATAGTAGGGTTTATAAAGTAATATACAAGGTGTATTTAAAATTTC
1 ATGAATTTGAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTC
* * **
9999204 TCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTATTTCACTGGCAATTAA
65 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCACAATTAA
* * * *
9999269 ATGTCTCAACATATTAT-TCACCCATAGTTGGT
130 GTGTCTCAACATGTTATCT-ACCCATAGTCGAT
* * ** * * *
9999301 ATGAATTTGAGATGTATATAATAGTGAGGTGTATTCAGCAATATATTAGGTGTATTTAGAATTTT
1 ATGAATTTGAGATATATTTAATAGTG-GGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTC
* * * *
9999366 TCTTTGAAACTTTGACGTATGCAATTACGTGATATAGAACCTTCTACCATTTC-C-CACAATTAA
65 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCACAATTAA
* * *
9999429 GTATCTCAATATGTTATCTACCCATAGTC-AGC
130 GTGTCTCAACATGTTATCTACCCATAGTCGA-T
* *
9999461 ATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAAAATTTC
1 ATGAATTTGAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTC
* * * * * *
9999526 TTTTTGAAACTTTGACATATGCAATTACATAAAATAAAATCTTTCAC-AGTTTCACTCACAATTA
65 TCTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTA-TTTCACTCACAATTA
9999590 AGTGTC
129 AGTGTC
9999596 ATGAATTTAA
Statistics
Matches: 380, Mismatches: 67, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
159 1 0.00
160 125 0.33
161 30 0.08
162 216 0.57
163 8 0.02
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (161 bp):
ATGAATTTGAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAAAATTTCT
CTTTGAAACTTTGACGTATGCAATTACGTAATATAAAACCTTCCACTATTTCACTCACAATTAAG
TGTCTCAACATGTTATCTACCCATAGTCGAT
Found at i:9999430 original size:456 final size:457
Alignment explanation
Indices: 9998521--9999395 Score: 1134
Period size: 456 Copynumber: 1.9 Consensus size: 457
9998511 CATAATCGAT
* *
9998521 ATGAATTTGAGATATATTTAATAGTAGGGTTTATAAAGTAATATACAAGGTGTATTTAAAATTTC
1 ATGAATTTAAGATATATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTTC
* * * *
9998586 TCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTATTTCACTGGCAATTAA
66 TCTTTAAAACTTTAACGTATGCAATTACGTAACATAAAACCTTCCACTATTTCACTCGCAATTAA
** * * * *
9998651 ATGTCTCAACATATTATTCACCCATAGTTGGTATGAATTTGAGATGTATATAATAGTGAGGTGTA
131 ATGTCTCAACATACCATTCACCCATAATCGATATGAATTTGAGATATATATAATAGTGAGGTGTA
** ** * * *
9998716 TTCAGCAATATATTAGGTGTATTTAGAATTTTTCTTTGAAACTTTGACGTATGCAATTACGTAAT
196 TAAAGCAATATACAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTACGTAAC
* * * ** *
9998781 ATAGAACCTTCTACCATTTCACACAATTAAGTATCTCAATGTGTTATCTACCCATAGTTAGGATG
261 ATAAAACCTTCCACCATTTCACACAATTAAATATCTCAACATATTATCTACCCATAGTTAGGATG
* * * * *
9998846 AATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCTTT
326 AATTTGAGATATATATAATAGTGAGGTGTATAAAGCAATATATTAGGTGTATTTAGAATTTCTTT
*
9998911 TTGAAACTTTAACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAGTG
391 TTGAAACTTTAACATATGCAATTACGTAAAATAAAACCTTTCACAGTTTCACTCACAATTAAGTG
9998976 TC
456 TC
** *
9998978 ATGAATTTAAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAGAA-TTC
1 ATGAATTTAAGATATATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTTC
* * * *
9999041 TCTTTCAAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCACTGTTTCACTCGTAATTA
66 TCTTT-AAAACTTTAACGTATGCAATTACGTAACATAAAACCTTCCACTATTTCACTCGCAATTA
* * * * * *
9999106 AGTGTCTCCACGTGCCA-TCTACTCATAATCGATATGAATTTGAGATATATTTAATAGT-AGGGT
130 AATGTCTCAACATACCATTC-ACCCATAATCGATATGAATTTGAGATATATATAATAGTGA-GGT
* * *
9999169 TTATAAAGTAATATACAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTATGT
193 GTATAAAGCAATATACAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTACGT
* * *
9999234 AACATAAAACCTTCCACTATTTCACTGGCAATTAAATGTCTCAACATATTAT-TCACCCATAGTT
258 AACATAAAACCTTCCACCATTTCAC--ACAATTAAATATCTCAACATATTATCT-ACCCATAGTT
* **
9999298 -GGTATGAATTTGAGATGTATATAATAGTGAGGTGTATTCAGCAATATATTAGGTGTATTTAGAA
320 AGG-ATGAATTTGAGATATATATAATAGTGAGGTGTATAAAGCAATATATTAGGTGTATTTAGAA
* *
9999362 TTT-TTCTTTGAAACTTTGACGTATGCAATTACGT
384 TTTCTT-TTTGAAACTTTAACATATGCAATTACGT
9999396 GATATAGAAC
Statistics
Matches: 356, Mismatches: 54, Indels: 15
0.84 0.13 0.04
Matches are distributed among these distances:
455 11 0.03
456 205 0.58
457 29 0.08
458 111 0.31
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (457 bp):
ATGAATTTAAGATATATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTAAAATTTC
TCTTTAAAACTTTAACGTATGCAATTACGTAACATAAAACCTTCCACTATTTCACTCGCAATTAA
ATGTCTCAACATACCATTCACCCATAATCGATATGAATTTGAGATATATATAATAGTGAGGTGTA
TAAAGCAATATACAAGGTGTATTTAAAATTTCTCTTTGAAACTTTGACGTATGCAATTACGTAAC
ATAAAACCTTCCACCATTTCACACAATTAAATATCTCAACATATTATCTACCCATAGTTAGGATG
AATTTGAGATATATATAATAGTGAGGTGTATAAAGCAATATATTAGGTGTATTTAGAATTTCTTT
TTGAAACTTTAACATATGCAATTACGTAAAATAAAACCTTTCACAGTTTCACTCACAATTAAGTG
TC
Found at i:9999713 original size:134 final size:135
Alignment explanation
Indices: 9999460--9999715 Score: 338
Period size: 134 Copynumber: 1.9 Consensus size: 135
9999450 CCATAGTCAG
* * *
9999460 CATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATATTATGTGTATTTAAAATTT
1 CATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAAGTGTATTTAAAATTT
** * * *
9999525 CTTTTTGAAACTTTGACATATGCAATTACATAAAATAAAATCTTTCACAGTTTCACTCACAATTA
66 CTTTTCAAAACTTTAACATATGCAATTACATAAAATAAAACCTTCCACAGTTTCACTCACAATTA
9999590 AGTGT
131 AGTGT
* *
9999595 CATGAATTTAAGATATATTTAATAGT-GGGTGTATAAAGTAATGTATTAAGTGTATTTAGAA-TT
1 CATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAAGTGTATTTAAAATTT
* ** * *
9999658 CTCTTTCAAAACTTTAACGTATGCAATTATGTAATATAGAACCTTCCACTA-TTTCACT
66 CT-TTTCAAAACTTTAACATATGCAATTACATAAAATAAAACCTTCCAC-AGTTTCACT
9999716 TGTAATTAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
133 4 0.04
134 75 0.72
135 25 0.24
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (135 bp):
CATGAATTTAAGATATATTTAATAGTGGGGTGTATAAAGTAATATATTAAGTGTATTTAAAATTT
CTTTTCAAAACTTTAACATATGCAATTACATAAAATAAAACCTTCCACAGTTTCACTCACAATTA
AGTGT
Found at i:9999825 original size:76 final size:76
Alignment explanation
Indices: 9999699--9999850 Score: 250
Period size: 76 Copynumber: 2.0 Consensus size: 76
9999689 TAATATAGAA
*
9999699 CCTTCCACTATTTCACTTGTAATTAAATGTCTCCACGTGCCATCTACTCATAATCGATATGAATT
1 CCTTCCACTATTTCACTCGTAATTAAATGTCTCCACGTGCCATCTACTCATAATCGATATGAATT
*
9999764 TGAGGTGTATT
66 TGAGATGTATT
* * * *
9999775 CCTTCCACTGTTTCACTCGTAATTAAGTGTCTTCACGTGCCATCTACTCATAATCGATTTGAATT
1 CCTTCCACTATTTCACTCGTAATTAAATGTCTCCACGTGCCATCTACTCATAATCGATATGAATT
9999840 TGAGATGTATT
66 TGAGATGTATT
9999851 TAATAGTAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (76 bp):
CCTTCCACTATTTCACTCGTAATTAAATGTCTCCACGTGCCATCTACTCATAATCGATATGAATT
TGAGATGTATT
Found at i:10000050 original size:162 final size:161
Alignment explanation
Indices: 9999834--10000289 Score: 589
Period size: 160 Copynumber: 2.8 Consensus size: 161
9999824 ATAATCGATT
*
9999834 TGAATTTGAGATGTATTTAATAGT-AGGGTGTATAAAGTAATATA-TAAGGTGTATTTAAAATTT
1 TGAATTTGAGATGTATTTAATAGTGA-GGTGTATAAAGTAATATATTAA-GTGTATTTAGAATTT
* * * * * *
9999897 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCACTGGCAATTA
64 CTTTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTTACACAGTTTCACT-ACAATTA
* * * *
9999962 AATGTCTTAACGTGTTGT-TCACCCATAGTTGGTA
128 AATGTCTCAACGTGTTATCT-ACCCATAGTTAGCA
* * *
9999996 TGAATTTGAGATGTATATAATAGTGAGGTGTATTAAGTAATATATTAAGTGTATTTAGAATTTTT
1 TGAATTTGAGATGTATTTAATAGTGAGGTGTATAAAGTAATATATTAAGTGTATTTAGAATTTCT
* * * *
10000061 TTTTGAAACTTTGACGTATGCAATTACGTAATATAGAACCTTATACCA-TTTCAC-ACAATTAAG
66 TTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTTACA-CAGTTTCACTACAATTAAA
* *
10000124 TATCTCAATGTGTTATCTACCCATAGTTAGCA
130 TGTCTCAACGTGTTATCTACCCATAGTTAGCA
* * *
10000156 TGAATTTGAGATATATTTGATAGTGAGGTGTATAAAGTAATATATTATGTGTATTTAGAATTTCT
1 TGAATTTGAGATGTATTTAATAGTGAGGTGTATAAAGTAATATATTAAGTGTATTTAGAATTTCT
* * *
10000221 TTTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTAAA
66 TTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTTACACAGTTTCACT-ACAATTAAA
10000286 TGTC
130 TGTC
10000290 ATGAATTTAA
Statistics
Matches: 254, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
159 2 0.01
160 135 0.53
161 1 0.00
162 111 0.44
163 5 0.02
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (161 bp):
TGAATTTGAGATGTATTTAATAGTGAGGTGTATAAAGTAATATATTAAGTGTATTTAGAATTTCT
TTTTGAAACTTTGACGTATGCAATTACGTAAAATAAAACCTTACACAGTTTCACTACAATTAAAT
GTCTCAACGTGTTATCTACCCATAGTTAGCA
Found at i:10000406 original size:134 final size:135
Alignment explanation
Indices: 10000154--10000423 Score: 373
Period size: 134 Copynumber: 2.0 Consensus size: 135
10000144 CCATAGTTAG
* * *
10000154 CATGAATTTGAGATATATTTGATAGTGAGGTGTATAAAGTAATATATTATGTGTATTTAGAATTT
1 CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTT
* ** * * * *
10000219 CTTTTTGAAACTTTGACATATGCAATTACGTAAAATAAAATCTTTCACAGTTTCACTCACAATTA
66 CTCTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACGCACAATTA
10000284 AATGT
131 AATGT
10000289 CATGAATTTAAGATATATTTAATAGTG-GGTGTATAAAGTAATATATTAGGTGTATTTAGAA-TT
1 CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTT
* * * * *
10000352 CTCCTTCAAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCACTGTTTCACGCATAATT
66 CT-CTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACGCACAATT
*
10000417 AAGTGT
130 AAATGT
10000423 C
1 C
10000424 TCCACGTGCC
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
133 4 0.03
134 89 0.75
135 25 0.21
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (135 bp):
CATGAATTTAAGATATATTTAATAGTGAGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTT
CTCTTCAAAACTTTAACATATGCAATTACGTAAAATAAAACCTTCCACAGTTTCACGCACAATTA
AATGT
Found at i:10000559 original size:162 final size:162
Alignment explanation
Indices: 10000290--10000902 Score: 699
Period size: 162 Copynumber: 3.8 Consensus size: 162
10000280 ATTAAATGTC
* *
10000290 ATGAATTTAAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTCTC
1 ATGAATTTGAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTTC
** * *
10000355 -CTTCAAAACTTTAACGTATGCAATTACGTAATATAGAACCTTCCACTGTTTCACGCATAATTAA
66 TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACGCACAATTAA
* ** * *
10000419 GTGTCTCCACGTGCCATCTACTCATAATC-GAT
131 GTGTCTCAACGTGTTATCTACCCATAGTCAG-T
**
10000451 ATGAATTTGAGATATATTTAATAGTAGGGTGTATAAAGTAATATACAAGGTGTATTTA-AATTTT
1 ATGAATTTGAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTT
* * * *
10000515 CTCTTTGAAACTTTGACGTATGCAATTATGTAACATAAAACCTTCCACTGTTTCAC-TAGCAATT
65 CTCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACGCA-CAATT
* * *
10000579 AAATGTCTCAACGTATTAT-TCACCCATAGTTAGT
129 AAGTGTCTCAACGTGTTATCT-ACCCATAGTCAGT
* * * *
10000613 ATGAATTTGAGATGTATATAATAGTGAGGTGTATTAAGCAATATATTAGGTGTATTTAGAATTTT
1 ATGAATTTGAGATATATTTAATAGTG-GGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTT
* **
10000678 -TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCTAC-CATTCA--CACAATTA
65 CTCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACGCACAATTA
* ** *
10000739 AGTATCTCAATATGTTATCTACCCATAGTCAGC
130 AGTGTCTCAACGTGTTATCTACCCATAGTCAGT
* * *
10000772 ATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATAT-TTATGTGTATTTA-AAATTT
1 ATGAATTTGAGATATATTTAATAGT-GGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTT
* * * * * * * * * *
10000835 CTTTTTGAAACTTTGACATACGCAATTACATAAAATAAAATCTTTCACAGTTTCACTCACAATTA
65 CTCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACGCACAATTA
10000900 AGT
130 AGT
10000903 CATGAATTTA
Statistics
Matches: 381, Mismatches: 58, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
157 5 0.01
158 50 0.13
159 71 0.19
160 3 0.01
161 48 0.13
162 197 0.52
163 7 0.02
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (162 bp):
ATGAATTTGAGATATATTTAATAGTGGGTGTATAAAGTAATATATTAGGTGTATTTAGAATTTTC
TCTTTGAAACTTTAACGTATGCAATTACGTAATATAAAACCTTCCACTGTTTCACGCACAATTAA
GTGTCTCAACGTGTTATCTACCCATAGTCAGT
Found at i:10001032 original size:132 final size:132
Alignment explanation
Indices: 10000771--10001023 Score: 314
Period size: 132 Copynumber: 1.9 Consensus size: 132
10000761 CCATAGTCAG
* * * *
10000771 CATGAATTTGAGATATATTTGATAGTGGGGTGTATAAAGTAATATTTATGTGTATTTAAAATTTC
1 CATGAATTTAAGATATATTTAATAATGGGGTGTATAAAGTAATATTTAGGTGTATTTAAAATTTC
** * * *
10000836 TTTTTGAAACTTTGACATACGCAATTACATAAAATAAAATCTTTCACAGTTTCACTCACAATTAA
66 TTTTCAAAACTTTAACATACGCAATTACATAAAATAAAACCTTCCACAGTTTCACTCACAATTAA
10000901 GT
131 GT
* *
10000903 CATGAATTTAAGATATATTTAATAAT-GGGTGTATAAAGTAATGTATTAGGTGTATTTAGAA-TT
1 CATGAATTTAAGATATATTTAATAATGGGGTGTATAAAGTAATAT-TTAGGTGTATTTAAAATTT
* * * * *
10000966 CTCTTTCAAAACTTTAACGTATGCAATTACGTAACATAGAACCTTCCACTA-TTTCACT
65 CT-TTTCAAAACTTTAACATACGCAATTACATAAAATAAAACCTTCCAC-AGTTTCACT
10001024 TGTAATTAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
131 21 0.21
132 80 0.78
133 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (132 bp):
CATGAATTTAAGATATATTTAATAATGGGGTGTATAAAGTAATATTTAGGTGTATTTAAAATTTC
TTTTCAAAACTTTAACATACGCAATTACATAAAATAAAACCTTCCACAGTTTCACTCACAATTAA
GT
Found at i:10001131 original size:75 final size:76
Alignment explanation
Indices: 10001007--10001157 Score: 259
Period size: 75 Copynumber: 2.0 Consensus size: 76
10000997 TAACATAGAA
* *
10001007 CCTTCCACTATTTCACTTGTAATTAAATGTCTCCACGTGCCATCTACTCATAATCGATATGAATT
1 CCTTCCACTATTTCACTCGTAATTAAATGTCTCCACATGCCATCTACTCATAATCGATATGAATT
10001072 TGAGATGTATT
66 TGAGATGTATT
* *
10001083 CCTTCCACT-TTTCACTCGTAATTAAGTGTCTCCACATGCCATCTACTCATAATCGATTTGAATT
1 CCTTCCACTATTTCACTCGTAATTAAATGTCTCCACATGCCATCTACTCATAATCGATATGAATT
10001147 TGAGATGTATT
66 TGAGATGTATT
10001158 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
75 62 0.87
76 9 0.13
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (76 bp):
CCTTCCACTATTTCACTCGTAATTAAATGTCTCCACATGCCATCTACTCATAATCGATATGAATT
TGAGATGTATT
Found at i:10002941 original size:93 final size:93
Alignment explanation
Indices: 10002832--10003007 Score: 221
Period size: 93 Copynumber: 1.9 Consensus size: 93
10002822 TTTATCTTTT
*
10002832 AACTTCTTTTTCATTTTTTTCTTTGCCTACTTCTTCATCTTCTCCCTCATCATCTTAATCA-TCA
1 AACTTCTTTTTCATTTTTTTCTTTGCCTACTTCTTCATCTTCTCCCTCATAATCTTAATCAGT-A
10002896 TACTCATCTTGATCTTTTTTATTGCCATC
65 TACTCATCTTGATCTTTTTTATTGCCATC
* ** * * * ** * *
10002925 AACTT-TTTCTTCATTTTTTTTTTTGTTTTCTTCTTTATCTTTTCCCTTGTAATCTTGATGAGTA
1 AACTTCTTT-TTCATTTTTTTCTTTGCCTACTTCTTCATCTTCTCCCTCATAATCTTAATCAGTA
10002989 TACTCATCTTGATCTTTTT
65 TACTCATCTTGATCTTTTT
10003008 CTTCTTCACT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
92 3 0.04
93 66 0.94
94 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.56
Consensus pattern (93 bp):
AACTTCTTTTTCATTTTTTTCTTTGCCTACTTCTTCATCTTCTCCCTCATAATCTTAATCAGTAT
ACTCATCTTGATCTTTTTTATTGCCATC
Found at i:10004636 original size:10 final size:10
Alignment explanation
Indices: 10004614--10004645 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
10004604 AAAAAGAAAC
10004614 AAAATAAAT-
1 AAAATAAATA
10004623 -AAATAAATA
1 AAAATAAATA
10004632 AAAATAAATA
1 AAAATAAATA
10004642 AAAA
1 AAAA
10004646 AATATTGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:10004637 original size:18 final size:18
Alignment explanation
Indices: 10004614--10004649 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10004604 AAAAAGAAAC
*
10004614 AAAATAAATAAATAAATA
1 AAAATAAATAAAAAAATA
10004632 AAAATAAATAAAAAAATA
1 AAAATAAATAAAAAAATA
10004650 TTGATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATAAATAAAAAAATA
Found at i:10004638 original size:14 final size:13
Alignment explanation
Indices: 10004602--10004647 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
10004592 TATTTTTTTT
* *
10004602 AAAAAAAGAAACA
1 AAAAAAATAAATA
*
10004615 AAATAAATAAATA
1 AAAAAAATAAATA
10004628 AATAAAAATAAATA
1 AA-AAAAATAAATA
10004642 AAAAAA
1 AAAAAA
10004648 TATTGATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (13 bp):
AAAAAAATAAATA
Found at i:10004730 original size:25 final size:25
Alignment explanation
Indices: 10004689--10004749 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
10004679 TTCCCCATAT
* *
10004689 ATAAGATTCTTAAAAATTTC-AAATG
1 ATAA-ATTTTTAAAAATCTCTAAATG
*
10004714 ATAAATTTTTAAGAAATCTCTAGATG
1 ATAAATTTTTAA-AAATCTCTAAATG
*
10004740 AGAAATTTTT
1 ATAAATTTTT
10004750 TTCTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 10 0.33
26 13 0.43
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (25 bp):
ATAAATTTTTAAAAATCTCTAAATG
Found at i:10005822 original size:32 final size:31
Alignment explanation
Indices: 10005782--10005853 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
10005772 ATTTTGTCCA
*
10005782 AAAAAAAAATAAAAATAATAATACAAAATAC
1 AAAAAAAAATAAAAAGAATAATACAAAATAC
* * * *
10005813 AAAACAAAAAGAAGAAGAATAGTAGAAAATA-
1 AAAA-AAAAATAAAAAGAATAATACAAAATAC
10005844 AAAAAAAAAT
1 AAAAAAAAAT
10005854 CGAAGATAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 5 0.15
31 8 0.24
32 21 0.62
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.12
Consensus pattern (31 bp):
AAAAAAAAATAAAAAGAATAATACAAAATAC
Found at i:10007297 original size:17 final size:16
Alignment explanation
Indices: 10007271--10007405 Score: 90
Period size: 16 Copynumber: 8.8 Consensus size: 16
10007261 CTAGGTTTCT
10007271 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
10007287 AAAACCTCCTAAAATCC
1 AAAACC-CCTAAAATCC
*
10007304 -AAACCCCTAAAAATCT
1 AAAACCCCT-AAAATCC
* * *
10007320 AAAATCTCTTAAAT-C
1 AAAACCCCTAAAATCC
**
10007335 TGAACCCCTAAAATTCC
1 AAAACCCCTAAAA-TCC
10007352 -AAACCCC-AAAA-CC
1 AAAACCCCTAAAATCC
*
10007365 CAAA-CCCTAAAATCTC
1 AAAACCCCTAAAATC-C
* *
10007381 TAAA-CTCTAAAAT-C
1 AAAACCCCTAAAATCC
10007395 AAAA-CCCTAAA
1 AAAACCCCTAAA
10007406 TCTTCCATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
13 5 0.05
14 17 0.18
15 16 0.17
16 40 0.42
17 17 0.18
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.19
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:10008529 original size:14 final size:15
Alignment explanation
Indices: 10008510--10008541 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
10008500 TTTACCAACA
10008510 TTTTTGTCTTTT-TT
1 TTTTTGTCTTTTATT
10008524 TTTTTGTCTTTTATT
1 TTTTTGTCTTTTATT
10008539 TTT
1 TTT
10008542 GGGGCATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTTGTCTTTTATT
Found at i:10008535 original size:13 final size:14
Alignment explanation
Indices: 10008509--10008542 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
10008499 GTTTACCAAC
10008509 ATTTTTGTCTTTTT
1 ATTTTTGTCTTTTT
*
10008523 TTTTTTGTC-TTTT
1 ATTTTTGTCTTTTT
10008536 ATTTTTG
1 ATTTTTG
10008543 GGGCATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (14 bp):
ATTTTTGTCTTTTT
Found at i:10011635 original size:9 final size:9
Alignment explanation
Indices: 10011616--10011664 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
10011606 TTAAAGATAG
10011616 AAAGCAAAAA
1 AAAG-AAAAA
*
10011626 AAAAAAAAA
1 AAAGAAAAA
* *
10011635 AAAGCAAAC
1 AAAGAAAAA
*
10011644 AAAGAAAAT
1 AAAGAAAAA
10011653 AAAGAAAAA
1 AAAGAAAAA
10011662 AAA
1 AAA
10011665 ATGCCATACA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
9 29 0.91
10 3 0.09
ACGTcount: A:0.84, C:0.06, G:0.08, T:0.02
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:10012063 original size:19 final size:19
Alignment explanation
Indices: 10012041--10012094 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
10012031 AAAAATGAAT
10012041 AAAATAAAATAAAAAATTA
1 AAAATAAAATAAAAAATTA
* ***
10012060 AAAAGAAGGGAAAAAATTA
1 AAAATAAAATAAAAAATTA
10012079 AAAATTAAAAATAAAA
1 AAAA-T-AAAATAAAA
10012095 CAAAGAAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
19 19 0.76
21 6 0.24
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAATAAAATAAAAAATTA
Found at i:10012113 original size:19 final size:18
Alignment explanation
Indices: 10012091--10012138 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
10012081 AATTAAAAAT
10012091 AAAACAAAGAAAAAAAGAG
1 AAAA-AAAGAAAAAAAGAG
* *
10012110 AAAAAAATGGAAAAGAGAG
1 AAAAAAA-GAAAAAAAGAG
10012129 AAAAGAAAGA
1 AAAA-AAAGA
10012139 CTCAAATCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAGAG
Found at i:10012113 original size:40 final size:40
Alignment explanation
Indices: 10012027--10012115 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
10012017 AATGACAGAT
**
10012027 GAGAAAAAATGAATAAAATAAAATAAAAAATTAAAAAGAA
1 GAGAAAAAATGAATAAAATAAAATAAAAAAAGAAAAAGAA
* * *
10012067 GGGAAAAAATTAA-AAATTAAAAATAAAACAAAGAAAAA-AA
1 GAGAAAAAATGAATAAAAT-AAAATAAAA-AAAGAAAAAGAA
10012107 GAGAAAAAA
1 GAGAAAAAA
10012116 ATGGAAAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
39 4 0.10
40 30 0.73
41 7 0.17
ACGTcount: A:0.75, C:0.01, G:0.11, T:0.12
Consensus pattern (40 bp):
GAGAAAAAATGAATAAAATAAAATAAAAAAAGAAAAAGAA
Found at i:10013887 original size:41 final size:41
Alignment explanation
Indices: 10013822--10014115 Score: 306
Period size: 42 Copynumber: 7.0 Consensus size: 41
10013812 ATGATTGTTA
* * *
10013822 AGGAG-AATTTTATTTTTTAAAAGTTGTGGTGCCTTTATTTAG
1 AGGAGCAA-TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
10013864 AGGAGC-ATTTAATTTTTCAAAGTTGTGGTACCTCTATTTAG
1 AGGAGCAATTT-ATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
10013905 AGAAGCAATTTATTTTTCCAAAGTTATGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTT-CAAAGTTGTGGTGCCTCTGTTTAG
* *
10013947 ATGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTGCTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * * * *
10013989 AGGATCATTTTATCTTTCCAAAGTTGTAGTGCCTCTGTTTAA
1 AGGAGCAATTTAT-TTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
10014031 AGGAGCAATTTATTTTTCAAAATTGTGGTACCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * * * *
10014072 AGAAGC-ATTTATTTTTCTCAGAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTT-TCAAAGTTGTGGTGCCTCTGTTTAG
10014114 AG
1 AG
10014116 AAGCTTTGTT
Statistics
Matches: 212, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
40 5 0.02
41 73 0.34
42 129 0.61
43 5 0.02
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
Found at i:10013982 original size:84 final size:83
Alignment explanation
Indices: 10013830--10014115 Score: 351
Period size: 83 Copynumber: 3.4 Consensus size: 83
10013820 TAAGGAGAAT
** * *
10013830 TTTATTTTTTAAAAGTTGTGGTGCCTTTATTTAGAGGAGC-ATTTAATTTTTCAAAGTTGTGGTA
1 TTTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTT-ATTTTTCAAAGTTGTGGTA
*
10013894 CCTCTATTTAGAGAAGCAA
65 CCTCTGTTTAGAGAAGCAA
* * *
10013913 TTTATTTTTCCAAAGTTATGGTGCCTCTGTTTAGATGAGCAATTTATTTTTTCAAAGTTGTGGTG
1 TTTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTTGTGGTA
* * * *
10013978 CCTCTGCTTAGAGGATCAT
65 CCTCTGTTTAGAGAAGCAA
* * * *
10013997 TTTATCTTTCCAAAGTTGTAGTGCCTCTGTTTAAAGGAGCAATTTATTTTTCAAAATTGTGGTAC
1 TTTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTAC
10014062 CTCTGTTTAGAGAAGC-A
66 CTCTGTTTAGAGAAGCAA
* * * *
10014079 TTTATTTTTCTCAGAGTCGTTGAGCCTCTGTTTAGAG
1 TTTATTTTTC-CAAAGTTGTGGTGCCTCTGTTTAGAG
10014116 AAGCTTTGTT
Statistics
Matches: 171, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
82 9 0.05
83 86 0.50
84 76 0.44
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (83 bp):
TTTATTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTAC
CTCTGTTTAGAGAAGCAA
Found at i:10015203 original size:164 final size:167
Alignment explanation
Indices: 10014899--10015225 Score: 534
Period size: 164 Copynumber: 2.0 Consensus size: 167
10014889 ATGAACCAAC
* *
10014899 CCTAATTTCGATAACATTTTTTATAATCCGACGAAGATTCAATCGAAATTCATCCGATTTTAGAT
1 CCTAATTTCGATAACATTTTTTAGAATCCGACGAAGATTCAATCGAAATTCATCCGATTCTAGAT
*
10014964 AGAGAGAGAGGAGAGAGAAAAAAAAGGAAGAGAGAGTGTGGGGAAGGAAGAATCTAAGGAAAAAG
66 AGAAAGAGAGGAGAGAGAAAAAAAAGGAAGAGAGAGTGTGGGGAAGGAAGAATCTAAGGAAAAAG
*
10015029 AAGGAATTTGGCCTTTTATAGCATTACCAAAATGATG
131 AAGAAATTTGGCCTTTTATAGCATTACCAAAATGATG
* * *
10015066 CCTAATTTTGGTAACATTTTTTAGAATCCGACGAAGATTCAATCGAAATTCATCCGGTTCTA-A-
1 CCTAATTTCGATAACATTTTTTAGAATCCGACGAAGATTCAATCGAAATTCATCCGATTCTAGAT
* * *
10015129 AGAAAGAGAGG-GAGAGAAAGAAAGGGAAGAGAGAGTGTGGGGAAGGAGGAATCTAAGGAAAAAG
66 AGAAAGAGAGGAGAGAGAAAAAAAAGGAAGAGAGAGTGTGGGGAAGGAAGAATCTAAGGAAAAAG
*
10015193 AAGAAATTTGGCCTTTTATAGCGTTACCAAAAT
131 AAGAAATTTGGCCTTTTATAGCATTACCAAAAT
10015226 AATGTCGTTT
Statistics
Matches: 149, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
164 81 0.54
165 10 0.07
166 1 0.01
167 57 0.38
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (167 bp):
CCTAATTTCGATAACATTTTTTAGAATCCGACGAAGATTCAATCGAAATTCATCCGATTCTAGAT
AGAAAGAGAGGAGAGAGAAAAAAAAGGAAGAGAGAGTGTGGGGAAGGAAGAATCTAAGGAAAAAG
AAGAAATTTGGCCTTTTATAGCATTACCAAAATGATG
Found at i:10015533 original size:11 final size:12
Alignment explanation
Indices: 10015498--10015539 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
10015488 TTTGCATGAC
*
10015498 TAAATTTAATAAA
1 TAAATATAA-AAA
10015511 -AAATATAAAAA
1 TAAATATAAAAA
10015522 TAAATA-AAAAA
1 TAAATATAAAAA
10015533 TAAATAT
1 TAAATAT
10015540 TAGGAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 14 0.54
12 12 0.46
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAATATAAAAA
Found at i:10020717 original size:51 final size:51
Alignment explanation
Indices: 10020653--10020751 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
10020643 AAATTTTACA
* * * ** *
10020653 AAATTTCATAAATTCTAAATATGTATCACAA-TTTCTATAATAGTTCCACAC
1 AAATTCCACAAATTCCAAATATACATCACAATTTTC-ATAATAATTCCACAC
10020704 AAATTCCACAAATTCCAAATATACATCACAATTTTCATAATAATTCCA
1 AAATTCCACAAATTCCAAATATACATCACAATTTTCATAATAATTCCA
10020752 TGCAGATTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 37 0.90
52 4 0.10
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.34
Consensus pattern (51 bp):
AAATTCCACAAATTCCAAATATACATCACAATTTTCATAATAATTCCACAC
Found at i:10023405 original size:26 final size:26
Alignment explanation
Indices: 10023369--10023420 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
10023359 CAGGTTTGGT
10023369 TCATCGAACGAAAACTAAGACACAAA
1 TCATCGAACGAAAACTAAGACACAAA
*
10023395 TCATCGAACGAAAACTAAGACGCAAA
1 TCATCGAACGAAAACTAAGACACAAA
10023421 ACTTGACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.23, G:0.13, T:0.12
Consensus pattern (26 bp):
TCATCGAACGAAAACTAAGACACAAA
Found at i:10025501 original size:1 final size:1
Alignment explanation
Indices: 10025490--10025521 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
10025480 TCATTTATAC
*
10025490 AAAAAACAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10025522 CATAGTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10035232 original size:11 final size:11
Alignment explanation
Indices: 10035216--10035277 Score: 88
Period size: 11 Copynumber: 5.6 Consensus size: 11
10035206 AATCTCATAA
10035216 GAGATTTGTTT
1 GAGATTTGTTT
*
10035227 GAGATTTGTTA
1 GAGATTTGTTT
*
10035238 GAGATTTATTT
1 GAGATTTGTTT
*
10035249 GAGATTTGTTA
1 GAGATTTGTTT
*
10035260 GAGATTTATTT
1 GAGATTTGTTT
10035271 GAGATTT
1 GAGATTT
10035278 ATCAGATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 44 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:10035243 original size:22 final size:22
Alignment explanation
Indices: 10035215--10035277 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
10035205 AAATCTCATA
*
10035215 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
10035237 AGAGATTTATTTGAGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
10035259 AGAGATTTATTTGAGATTT
1 AGAGATTTATTTGAGATTT
10035278 ATCAGATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:10035258 original size:33 final size:33
Alignment explanation
Indices: 10035216--10035279 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
10035206 AATCTCATAA
* *
10035216 GAGATTTGTTTGAGATTTGTTAGAGATTTATTT
1 GAGATTTGTTAGAGATTTATTAGAGATTTATTT
*
10035249 GAGATTTGTTAGAGATTTATTTGAGATTTAT
1 GAGATTTGTTAGAGATTTATTAGAGATTTAT
10035280 CAGATATTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (33 bp):
GAGATTTGTTAGAGATTTATTAGAGATTTATTT
Found at i:10035393 original size:52 final size:52
Alignment explanation
Indices: 10035304--10035460 Score: 226
Period size: 52 Copynumber: 3.0 Consensus size: 52
10035294 TGGACAAGAA
* *
10035304 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
10035356 GACTTGCAAAAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
** * * *
10035408 GACTTATAAGAGAAGAATTCTAAGAGGAGAGGGATTCTTACTAGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
10035460 G
1 G
10035461 TATGGTTATA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 90 0.95
53 5 0.05
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:10036467 original size:52 final size:52
Alignment explanation
Indices: 10036401--10036557 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
10036391 TGGACAATAA
* * *
10036401 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
*
10036453 GACTTGCAAGAGAAGAATTCTAAAAGGAAAG-GGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGCAAGTTT
** * * *
10036505 GACTTATAGGAGAAGAATTCTAAGAG-GAGAGGGATTCTTACTAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGA-GGATTCTTAATAGGCAAGTTT
10036557 G
1 G
10036558 TATGGTTATA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 2 0.02
51 1 0.01
52 84 0.91
53 5 0.05
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:10040750 original size:20 final size:20
Alignment explanation
Indices: 10040711--10040752 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10040701 AAGATTTGAC
*
10040711 CTAAAATAAATAAAATAAAA
1 CTAAAATAAATAAAAAAAAA
10040731 CTAAAATAAA-AAACAAAAAA
1 CTAAAATAAATAAA-AAAAAA
10040751 CT
1 CT
10040753 TTTCAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
CTAAAATAAATAAAAAAAAA
Found at i:10046295 original size:16 final size:16
Alignment explanation
Indices: 10046274--10046305 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10046264 GTTCCTTTCA
10046274 ACATTTGCTGTAGTAT
1 ACATTTGCTGTAGTAT
10046290 ACATTTGCTGTAGTAT
1 ACATTTGCTGTAGTAT
10046306 CTAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (16 bp):
ACATTTGCTGTAGTAT
Found at i:10048976 original size:30 final size:29
Alignment explanation
Indices: 10048909--10049023 Score: 108
Period size: 30 Copynumber: 3.9 Consensus size: 29
10048899 ATCATTTTAT
*
10048909 TTAAATAAATTTTTATATCTTT-ATTATAC-
1 TTAAATAAATTTTTAAAT-TTTAATT-TACA
10048938 TTAAATAAATTTTTAAATTTTAATTTACA
1 TTAAATAAATTTTTAAATTTTAATTTACA
* * * *
10048967 TCCAAATAAAATTTTAACTTTTAATTTATA
1 T-TAAATAAATTTTTAAATTTTAATTTACA
* **
10048997 TTTAAATAAATTTGTAACCTTTAATTT
1 -TTAAATAAATTTTTAAATTTTAATTT
10049024 GTACCTAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
28 6 0.08
29 21 0.29
30 45 0.62
31 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (29 bp):
TTAAATAAATTTTTAAATTTTAATTTACA
Found at i:10049033 original size:30 final size:29
Alignment explanation
Indices: 10048932--10049044 Score: 111
Period size: 30 Copynumber: 3.8 Consensus size: 29
10048922 TATATCTTTA
* *
10048932 TTATACTTAAATAAATTTTTAAATTTTAAT
1 TTATACCTAAATAAA-TTTTAACTTTTAAT
*
10048962 TTACATCC-AAATAAAATTTTAACTTTTAAT
1 TTATA-CCTAAAT-AAATTTTAACTTTTAAT
** *
10048992 TTATATTTAAATAAATTTGTAACCTTTAAT
1 TTATACCTAAATAAATTT-TAACTTTTAAT
*
10049022 TTGTACCTAAATAAATATTTAAC
1 TTATACCTAAATAAAT-TTTAAC
10049045 ATAAATCAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
29 6 0.09
30 56 0.82
31 6 0.09
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (29 bp):
TTATACCTAAATAAATTTTAACTTTTAAT
Found at i:10049974 original size:20 final size:19
Alignment explanation
Indices: 10049949--10050001 Score: 88
Period size: 20 Copynumber: 2.7 Consensus size: 19
10049939 TAGTAATATA
10049949 TGGAAGTTTTCAGAAAGCTT
1 TGGAAGTTTTCAGAAAGC-T
10049969 TGGAAGTTTTCAGAAAGCT
1 TGGAAGTTTTCAGAAAGCT
10049988 TGAGAAGTTTTCAG
1 TG-GAAGTTTTCAG
10050002 CTTCTACGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.34
Consensus pattern (19 bp):
TGGAAGTTTTCAGAAAGCT
Found at i:10050165 original size:2 final size:2
Alignment explanation
Indices: 10050158--10050182 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10050148 CGATACCATT
10050158 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
10050183 TTAGATGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10060023 original size:12 final size:12
Alignment explanation
Indices: 10060000--10060057 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
10059990 CAACAATATT
10060000 AACTGGATTTGA
1 AACTGGATTTGA
* *
10060012 AATTGGAATTGA
1 AACTGGATTTGA
*
10060024 AACTAGATTTGA
1 AACTGGATTTGA
10060036 AACTGGATTTGA
1 AACTGGATTTGA
*
10060048 AACTAGATTT
1 AACTGGATTT
10060058 AAGGTTTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (12 bp):
AACTGGATTTGA
Found at i:10060032 original size:24 final size:24
Alignment explanation
Indices: 10060000--10060057 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
10059990 CAACAATATT
* *
10060000 AACTGGATTTGAAATTGGAATTGA
1 AACTAGATTTGAAACTGGAATTGA
*
10060024 AACTAGATTTGAAACTGGATTTGA
1 AACTAGATTTGAAACTGGAATTGA
10060048 AACTAGATTT
1 AACTAGATTT
10060058 AAGGTTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (24 bp):
AACTAGATTTGAAACTGGAATTGA
Found at i:10060374 original size:16 final size:17
Alignment explanation
Indices: 10060353--10060390 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
10060343 TTTGTACATT
10060353 TAATAGT-CAA-ATTTTA
1 TAATAGTACAATA-TTTA
10060369 TAATAGTACAATATTTA
1 TAATAGTACAATATTTA
10060386 TAATA
1 TAATA
10060391 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 12 0.60
18 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (17 bp):
TAATAGTACAATATTTA
Found at i:10060387 original size:17 final size:16
Alignment explanation
Indices: 10060353--10060390 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
10060343 TTTGTACATT
10060353 TAATAGTCAAATTTTA
1 TAATAGTCAAATTTTA
10060369 TAATAGT-ACAATATTTA
1 TAATAGTCA-AAT-TTTA
10060386 TAATA
1 TAATA
10060391 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 10 0.50
17 9 0.45
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
TAATAGTCAAATTTTA
Found at i:10060678 original size:29 final size:29
Alignment explanation
Indices: 10060616--10060679 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
10060606 GAGGTAGAAT
* *
10060616 TTTTTCTTTTATCCTTGGTTTGTCTCAAC
1 TTTTTCTTCTATCCTTGGTTTGTCCCAAC
10060645 TTTTTCTTCTATCCTTGGTTTAG-CCCAATC
1 TTTTTCTTCTATCCTTGGTTT-GTCCCAA-C
10060675 TTTTT
1 TTTTT
10060680 TACCAAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.11, C:0.22, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTCTTCTATCCTTGGTTTGTCCCAAC
Found at i:10064078 original size:82 final size:82
Alignment explanation
Indices: 10063936--10064089 Score: 238
Period size: 82 Copynumber: 1.9 Consensus size: 82
10063926 ATTGAATTTG
* * *
10063936 AATCAGTAATTGAAATAACTTGTATAGGTGATTAGGATTAACGATGATATGTTTTGAGTTTGAGG
1 AATCAGTAATTGAAATAACTTGTATAGGTGATTAAGATTAACGATGATATGCTTTAAGTTTGAGG
*
10064001 TTTTTTTTTGCTTGTTT
66 GTTTTTTTTGCTTGTTT
* *
10064018 AATCAGTAATTGAAATAACTTGTAT-GGATGATTAAGATTAACGATGATCTGCTTTAAGTTTGGG
1 AATCAGTAATTGAAATAACTTGTATAGG-TGATTAAGATTAACGATGATATGCTTTAAGTTTGAG
10064082 GGTTTTTT
65 GGTTTTTT
10064090 GCTTTTTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 2 0.03
82 63 0.97
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.44
Consensus pattern (82 bp):
AATCAGTAATTGAAATAACTTGTATAGGTGATTAAGATTAACGATGATATGCTTTAAGTTTGAGG
GTTTTTTTTGCTTGTTT
Found at i:10064291 original size:78 final size:78
Alignment explanation
Indices: 10064209--10064368 Score: 302
Period size: 78 Copynumber: 2.1 Consensus size: 78
10064199 CTGATTTTTA
*
10064209 TTATTTTTACACGTTATTACCATGTATAACATTTACATCCTAGTTTTCGTTGAAAAAAATCTTAC
1 TTATTTTTACACGTTATTACCATGTATAACATGTACATCCTAGTTTTCGTTGAAAAAAATCTTAC
10064274 GTTGTTATATATT
66 GTTGTTATATATT
*
10064287 TTATTTTTACACGTTATTACTATGTATAACATGTACATCCTAGTTTTCGTTGAAAAAAATCTTAC
1 TTATTTTTACACGTTATTACCATGTATAACATGTACATCCTAGTTTTCGTTGAAAAAAATCTTAC
10064352 GTTGTTATATATT
66 GTTGTTATATATT
10064365 TTAT
1 TTAT
10064369 ACAAATTAAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (78 bp):
TTATTTTTACACGTTATTACCATGTATAACATGTACATCCTAGTTTTCGTTGAAAAAAATCTTAC
GTTGTTATATATT
Done.