Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000121.1 Hibiscus syriacus cultivar Beakdansim tig00000218_pilon, 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: 2099483
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:703282 original size:43 final size:43
Alignment explanation
Indices: 703221--703303 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
703211 CGATAGGGCA
*
703221 AACTTATCATATATTTTACTAAGTATTATTTCTTTAAATTCGT
1 AACTTATCATATATTTTACTAAGTATTATTTATTTAAATTCGT
703264 AACTTATCATATATTTTACTAAGTATTATTTATTTAAATT
1 AACTTATCATATATTTTACTAAGTATTATTTATTTAAATT
703304 TACAGGAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.52
Consensus pattern (43 bp):
AACTTATCATATATTTTACTAAGTATTATTTATTTAAATTCGT
Found at i:704082 original size:20 final size:21
Alignment explanation
Indices: 704057--704145 Score: 114
Period size: 20 Copynumber: 4.4 Consensus size: 21
704047 CAACGCGAAA
*
704057 ATCGCAACTC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
*
704077 ATCGCAACACGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
*
704097 ATCGCGACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
*
704117 ATCGCAACGC-GAAAATGACT
1 ATCGCAACGCGGAATATGACT
704137 ATCGCAACG
1 ATCGCAACG
704146 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
19 3 0.05
20 55 0.90
21 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:704174 original size:19 final size:19
Alignment explanation
Indices: 704150--704237 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
704140 GCAACGAGAG
704150 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
704169 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
704188 AATCGCAA--C-AAGTG--
1 AATCGCAATGCGAAATGAA
704202 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
704222 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
704238 TGCGATTTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.13
16 5 0.08
17 1 0.02
18 4 0.07
19 31 0.52
20 11 0.18
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:704182 original size:53 final size:54
Alignment explanation
Indices: 704117--704236 Score: 181
Period size: 52 Copynumber: 2.3 Consensus size: 54
704107 GGAATTGACT
** *
704117 ATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAAATGAAA
* *
704170 ATCGCAATGCG-AAATGAAAATCGCAACAAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGCGAAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAAATGAAA
704223 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
704237 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
52 29 0.49
53 28 0.47
54 2 0.03
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (54 bp):
ATCGCAACGCGAAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAAATGAAA
Found at i:704195 original size:52 final size:53
Alignment explanation
Indices: 704117--704237 Score: 181
Period size: 53 Copynumber: 2.3 Consensus size: 53
704107 GGAATTGACT
** *
704117 ATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAATGCG-AAATGAAA
1 ATCGCAACGCG-AAATGAAAATCGCAACAAGAGAATCGCAATGCGAAAATGAAA
* *
704170 ATCGCAATGCGAAATGAAAATCGCAACAAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAAATGAAA
704223 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
704238 TGCGATTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 29 0.48
53 32 0.52
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (53 bp):
ATCGCAACGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAAATGAAA
Found at i:704419 original size:14 final size:14
Alignment explanation
Indices: 704400--704434 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
704390 TCAATTAAAA
704400 AAATCAACATTTAC
1 AAATCAACATTTAC
* *
704414 AAATCATCTTTTAC
1 AAATCAACATTTAC
704428 AAATCAA
1 AAATCAA
704435 TTAAACAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCAACATTTAC
Found at i:705842 original size:42 final size:42
Alignment explanation
Indices: 705784--705888 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
705774 TGTTGGGAGG
* * * *
705784 GACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTGGGAGGA
1 GACCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGG-GGA
** *
705827 GA-CTCTTGAGGGATGATAGGGGCCTCTTGAACGATAGGGGA
1 GACCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGGGA
705868 GACCTCTTGAACGATGACAGG
1 GACCTCTTGAACGATGACAGG
705889 TGAGTCGGGC
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
41 5 0.10
42 44 0.86
43 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (42 bp):
GACCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGGGA
Found at i:706414 original size:34 final size:33
Alignment explanation
Indices: 706365--706461 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 33
706355 TCTGAAACTT
* *
706365 AAAATCGCAACGCAAAAATGACTATCGCAACGAG
1 AAAATCGCAACGC-AAAATGACTATCGCAACAAC
* * **
706399 AGAATCGCAATGCAAAATGAAAATCGCAACAAC
1 AAAATCGCAACGCAAAATGACTATCGCAACAAC
706432 AAAATCGCAACGCGAAAATGACTATCGCAA
1 AAAATCGCAACGC-AAAATGACTATCGCAA
706462 TGCGAATTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 27 0.52
34 25 0.48
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.12
Consensus pattern (33 bp):
AAAATCGCAACGCAAAATGACTATCGCAACAAC
Found at i:706460 original size:20 final size:20
Alignment explanation
Indices: 706435--706483 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
706425 CAACAACAAA
706435 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
706455 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
706475 ATCGCAACG
1 ATCGCAACG
706484 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:706547 original size:34 final size:34
Alignment explanation
Indices: 706507--706628 Score: 145
Period size: 34 Copynumber: 3.4 Consensus size: 34
706497 GCGATTTTCA
* *
706507 TTTCGCATTGTGATTCTTTCGTTGCGATAGTCAA
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
* *
706541 ATTCGCATTGCGATAGTCATTTTCACATTGCGATAGTCAT
1 TTTCGCATTGCGAT--TC--TTT--CGTTGCGATAGTCAT
*
706581 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAT
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
706615 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
706629 AATAAACTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
34 40 0.53
36 4 0.05
38 5 0.07
40 26 0.35
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (34 bp):
TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
Found at i:706553 original size:20 final size:20
Alignment explanation
Indices: 706528--706629 Score: 126
Period size: 20 Copynumber: 5.4 Consensus size: 20
706518 GATTCTTTCG
**
706528 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
706548 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
706568 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
706588 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
706602 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
706622 TTGCGATA
1 TTGCGATA
706630 ATAAACTATT
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
14 7 0.10
16 6 0.09
18 6 0.09
20 51 0.73
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:708542 original size:20 final size:19
Alignment explanation
Indices: 708519--708601 Score: 86
Period size: 20 Copynumber: 4.5 Consensus size: 19
708509 CTGAAACTTT
708519 AAATCGCAACACGAAAATGA
1 AAATCGCAACACG-AAATGA
708539 AAATCGCAACACGAAAATGA
1 AAATCGCAACACG-AAATGA
** *
708559 CTATCGC-A-ACGCAA-G-
1 AAATCGCAACACGAAATGA
708574 -AATCGCAACACGAAATGA
1 AAATCGCAACACGAAATGA
708592 AAATCGCAAC
1 AAATCGCAAC
708602 GACAGAATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
14 5 0.09
15 1 0.02
16 6 0.11
17 3 0.06
18 3 0.06
19 10 0.19
20 25 0.47
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (19 bp):
AAATCGCAACACGAAATGA
Found at i:708598 original size:33 final size:34
Alignment explanation
Indices: 708540--708610 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
708530 CGAAAATGAA
**
708540 AATCGCAACACGAAAATGACTATCGCAACG-CAAG
1 AATCGCAACACGAAAATGAAAATCGCAACGAC-AG
708574 AATCGCAACACG-AAATGAAAATCGCAACGACAG
1 AATCGCAACACGAAAATGAAAATCGCAACGACAG
708607 AATC
1 AATC
708611 ACATTGCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.11
Consensus pattern (34 bp):
AATCGCAACACGAAAATGAAAATCGCAACGACAG
Found at i:708969 original size:22 final size:22
Alignment explanation
Indices: 708939--708996 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 22
708929 TGACCGTGAA
708939 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGAGAC
* *
708961 TGATATCGTC---G-TGGGGAC
1 TGATTTCGTCGGAGATGGAGAC
708979 TGATTTCGTCGGAGATGG
1 TGATTTCGTCGGAGATGG
708997 GGACAGATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 15 0.52
19 1 0.03
21 1 0.03
22 12 0.41
ACGTcount: A:0.19, C:0.14, G:0.38, T:0.29
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGAGAC
Found at i:709000 original size:22 final size:22
Alignment explanation
Indices: 708939--709000 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
708929 TGACCGTGAA
*
708939 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
708961 TGATATCGTC---G-TGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
708979 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
709001 AGATGTCGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 15 0.45
19 1 0.03
21 1 0.03
22 16 0.48
ACGTcount: A:0.19, C:0.15, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:709211 original size:20 final size:20
Alignment explanation
Indices: 709186--709277 Score: 130
Period size: 20 Copynumber: 4.5 Consensus size: 20
709176 ATCGCATTAA
709186 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
709206 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAT
* **
709226 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
*
709247 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
709267 TCGCATTGCGA
1 TCGCATTGCGA
709278 ATTAGGAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 46 0.75
21 15 0.25
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:709261 original size:41 final size:40
Alignment explanation
Indices: 709183--709277 Score: 136
Period size: 41 Copynumber: 2.4 Consensus size: 40
709173 TAAATCGCAT
**
709183 TAATCGCATTGCGATTTACGTATTCGCATTGCGATTTACG
1 TAATCGCATTGCGATTTACAAATTCGCATTGCGATTTACG
* *
709223 TAATCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACG
1 TAATCGCATTGCGA-TTTACAAATTCGCATTGCGATTTACG
*
709264 TATTCGCATTGCGA
1 TAATCGCATTGCGA
709278 ATTAGGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 14 0.29
41 35 0.71
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (40 bp):
TAATCGCATTGCGATTTACAAATTCGCATTGCGATTTACG
Found at i:709298 original size:21 final size:21
Alignment explanation
Indices: 709274--709314 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
709264 TATTCGCATT
709274 GCGAA-TTAGGAAAATCGCAAC
1 GCGAATTTAGG-AAATCGCAAC
709295 GCGAATTTAGGAAATCGCAA
1 GCGAATTTAGGAAATCGCAA
709315 TGCAATAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTTAGGAAATCGCAAC
Found at i:710096 original size:30 final size:27
Alignment explanation
Indices: 710038--710096 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 27
710028 CTCAAAACAT
***
710038 TATTATTTTATATATTTAATATTGATA
1 TATTATTTTATATATTTAATAAAAATA
710065 TATTATTTTAGTATCATTTTAATAAAAATA
1 TATTATTTTA-TAT-A-TTTAATAAAAATA
710095 TA
1 TA
710097 AATTATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 10 0.38
28 3 0.12
29 1 0.04
30 12 0.46
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (27 bp):
TATTATTTTATATATTTAATAAAAATA
Found at i:710221 original size:43 final size:42
Alignment explanation
Indices: 710125--710226 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
710115 ATTGATAATT
* * *
710125 TTAATAATATAATATTATATTTTTATTGTTAAAATTGTATTAT
1 TTAA-AATATAATATTATAATTTTATTGTTAAAATTGTATAAA
*
710168 TCTAATATATAATATTATAATTTTATT-TTAATAA-TGTATAAAAA
1 T-TAAAATATAATATTATAATTTTATTGTTAA-AATTGTAT--AAA
710212 TTAAAATATAATATT
1 TTAAAATATAATATT
710227 TTAGTATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
42 9 0.18
43 36 0.72
44 5 0.10
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (42 bp):
TTAAAATATAATATTATAATTTTATTGTTAAAATTGTATAAA
Found at i:710468 original size:12 final size:13
Alignment explanation
Indices: 710430--710487 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 13
710420 TATTTTAATT
*
710430 ATATATTACTAAA
1 ATATATTAATAAA
*
710443 ATCATAATAA-AAA
1 AT-ATATTAATAAA
*
710456 ATAT-TTCATAAA
1 ATATATTAATAAA
710468 AT-TATTAATAAA
1 ATATATTAATAAA
*
710480 ATAAATTA
1 ATATATTA
710488 GAGTGAACCC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
11 3 0.09
12 16 0.46
13 11 0.31
14 5 0.14
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATATTAATAAA
Found at i:716365 original size:60 final size:57
Alignment explanation
Indices: 716280--716409 Score: 161
Period size: 57 Copynumber: 2.2 Consensus size: 57
716270 TTTTGTCTCG
* * ***
716280 TTTTAGTCACTCAATTATTAGTTTTTTTTTTCAAAATCATAACATTATGCTTTTATTTCA
1 TTTTAGTCACCCAACTATTA-TTTTTTAAATC-AAATC-TAACATTATGCTTTTATTTCA
* *
716340 TTTTAGTCACCCAACTATTATTTTTTAAATCATATCTAACATTATGTTTTTATTTCA
1 TTTTAGTCACCCAACTATTATTTTTTAAATCAAATCTAACATTATGCTTTTATTTCA
*
716397 TTTTGGTCACCCA
1 TTTTAGTCACCCA
716410 CTGTTCAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 32 0.52
58 4 0.06
59 8 0.13
60 18 0.29
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (57 bp):
TTTTAGTCACCCAACTATTATTTTTTAAATCAAATCTAACATTATGCTTTTATTTCA
Found at i:717974 original size:22 final size:22
Alignment explanation
Indices: 717946--717989 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
717936 AGGTCACCCC
717946 AACAGGGTTATAGGGGCCAAAT
1 AACAGGGTTATAGGGGCCAAAT
*
717968 AACAGGGTTATAGGGGTCAAAT
1 AACAGGGTTATAGGGGCCAAAT
717990 GATAAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.20
Consensus pattern (22 bp):
AACAGGGTTATAGGGGCCAAAT
Found at i:719977 original size:21 final size:20
Alignment explanation
Indices: 719931--720063 Score: 127
Period size: 21 Copynumber: 6.8 Consensus size: 20
719921 AACATTTGTC
*
719931 CCGAAGGACCACT-ATGTC-
1 CCGAAGGACCACTGATATCT
*
719949 CAGAAGGACCACTGATATCT
1 CCGAAGGACCACTGATATCT
*
719969 CCTGAAGGACCACTGATATGT
1 CC-GAAGGACCACTGATATCT
*
719990 CCCGAATGACCACT-ATATC-
1 -CCGAAGGACCACTGATATCT
*
720009 CCGAAGGACCACTGATATGT
1 CCGAAGGACCACTGATATCT
*
720029 CCCGAA-GACCACT-ATGTC-
1 -CCGAAGGACCACTGATATCT
*
720047 CCGAAGGACTACTGATA
1 CCGAAGGACCACTGATA
720064 ATCCCTCGAC
Statistics
Matches: 94, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
17 5 0.05
18 30 0.32
19 13 0.14
20 12 0.13
21 32 0.34
22 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (20 bp):
CCGAAGGACCACTGATATCT
Found at i:719977 original size:39 final size:36
Alignment explanation
Indices: 719929--720055 Score: 130
Period size: 39 Copynumber: 3.3 Consensus size: 36
719919 TGAACATTTG
719929 TCCCGAAGGACCACTATGTCCAGAAGGACCACTGATA
1 TCCCGAAGGACCACTATGTCCAGAAGGACCACT-ATA
* *
719966 TCTCCTGAAGGACCACTGATATGTCCCGAATGACCACTATA
1 TC-CC-GAAGGACCAC---TATGTCCAGAAGGACCACTATA
* *
720007 TCCCGAAGGACCACTGATATGTCCCGAA-GACCACTATG
1 TCCCGAAGGACCAC---TATGTCCAGAAGGACCACTATA
720045 TCCCGAAGGAC
1 TCCCGAAGGAC
720056 TACTGATAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
37 2 0.02
38 22 0.27
39 34 0.41
40 2 0.02
41 5 0.06
42 17 0.21
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (36 bp):
TCCCGAAGGACCACTATGTCCAGAAGGACCACTATA
Found at i:720015 original size:60 final size:59
Alignment explanation
Indices: 719927--720055 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 59
719917 ACTGAACATT
* *
719927 TGTCCCGAAGGACCACTATGTCCAGAAGGACCACTGATATCTCCTGAAGGACCACTGATA
1 TGTCCCGAAGGACCACTATATCCAGAAGGACCACTGATATCTCCCGAA-GACCACTGATA
* * *
719987 TGTCCCGAATGACCACTATATCCCGAAGGACCACTGATATGTCCCGAAGACCAC---TA
1 TGTCCCGAAGGACCACTATATCCAGAAGGACCACTGATATCTCCCGAAGACCACTGATA
720043 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
720056 TACTGATAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
56 14 0.22
59 6 0.10
60 43 0.68
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.19
Consensus pattern (59 bp):
TGTCCCGAAGGACCACTATATCCAGAAGGACCACTGATATCTCCCGAAGACCACTGATA
Found at i:720698 original size:63 final size:64
Alignment explanation
Indices: 720631--720753 Score: 167
Period size: 63 Copynumber: 1.9 Consensus size: 64
720621 TCCTTAACGT
*
720631 GTGCATCGACGCACTACCTGTGCATCGGTACAC-AATCACATTCGATGTTTGTATTTTAAGGGG
1 GTGCATCGACGCACTACCTGTGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAGGGG
* * * * ** *
720694 GTGCATCGATGCATTACTTGTGCATCGATACACTGATGGCATTCGATGTTTTTATTTTAA
1 GTGCATCGACGCACTACCTGTGCATCGATACACTAATCACATTCGATGTTTGTATTTTAA
720754 AAGAGTGCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 29 0.57
64 22 0.43
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (64 bp):
GTGCATCGACGCACTACCTGTGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAGGGG
Found at i:725240 original size:18 final size:18
Alignment explanation
Indices: 725217--725251 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
725207 AACATGACTC
725217 AAAATAATATATTTATTA
1 AAAATAATATATTTATTA
* *
725235 AAAATATTATTTTTATT
1 AAAATAATATATTTATT
725252 CAATAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATAATATATTTATTA
Found at i:727649 original size:19 final size:19
Alignment explanation
Indices: 727625--727676 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
727615 ACAAGCCTGA
*
727625 GTGCATCGATTCATGGCTT
1 GTGCATCGATGCATGGCTT
727644 GTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGGCTT
*
727663 GTGCATCGAAGCAT
1 GTGCATCGATGCAT
727677 AAAATGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGCTT
Found at i:727734 original size:84 final size:83
Alignment explanation
Indices: 727580--727741 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 83
727570 TGCACCAAGA
* * * * *
727580 GTGCATCGATGCATGAAGTGCATTCGATGTTTCAAACAAGCCTGAGTGCATCGATTCATGGCTTG
1 GTGCATCGAAGCATAAAATGCATTCGATGTTTCAAACAAACCTGAGTGCATCGATGCATGGCTTG
727645 TGCATCGATGCATGGCTT
66 TGCATCGATGCATGGCTT
* *
727663 GTGCATCGAAGCATAAAATGCATTCGATGTTTTCATAA-AAACCTTAGTGCATCGATGCGTGG-T
1 GTGCATCGAAGCATAAAATGCATTCGATG-TTTCA-AACAAACCTGAGTGCATCGATGCATGGCT
727726 ATGTGCATCGATGCAT
64 -TGTGCATCGATGCAT
727742 ATAATGCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
83 27 0.39
84 40 0.58
85 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (83 bp):
GTGCATCGAAGCATAAAATGCATTCGATGTTTCAAACAAACCTGAGTGCATCGATGCATGGCTTG
TGCATCGATGCATGGCTT
Found at i:730520 original size:21 final size:22
Alignment explanation
Indices: 730458--730520 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
730448 GCATGGCCTT
730458 GTGCATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTC-AGGA
* *
730481 GTGCATC-AGTGCACCTTCATG-
1 GTGCATCGA-TGCACATTCAGGA
*
730502 GTGTATCGATGCACATTCA
1 GTGCATCGATGCACATTCA
730521 AAGGGATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAGGA
Found at i:736465 original size:46 final size:45
Alignment explanation
Indices: 736360--736483 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 45
736350 GGTACACTAA
* * *
736360 GAGTGCATCGATGCATGAAGTGCATTCGATGTTTCAAACAAGCCC
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAACAAACCC
* * *
736405 GAGTGCATCGATGCATAAAATGCATTCGATATTTTTATAA-AAACCT
1 GAGTGCATCGATGCATAAAATGCATTCGAT-GTTTCA-AACAAACCC
* *
736451 GAGTGCATCGATGCATATAATGTATTCGATGTT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTT
736484 CAATTTATTC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 30 0.44
46 36 0.53
47 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (45 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAACAAACCC
Found at i:746465 original size:32 final size:32
Alignment explanation
Indices: 746424--746538 Score: 131
Period size: 32 Copynumber: 3.9 Consensus size: 32
746414 TAGTGTGCTG
746424 GTATTGAAATTATTATGTTTTAAGTTTGTTGA
1 GTATTGAAATTATTATGTTTTAAGTTTGTTGA
746456 GTATTGAAATTATTATGTTTTAA--TT-TT--
1 GTATTGAAATTATTATGTTTTAAGTTTGTTGA
* * *
746483 G-CTT--AGTT-CTATGTTTTAAGTTTGTTGA
1 GTATTGAAATTATTATGTTTTAAGTTTGTTGA
*
746511 GTATTGAAATTATTATGTTTTAATTTTG
1 GTATTGAAATTATTATGTTTTAAGTTTG
746539 CTTAGTTCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
23 10 0.15
24 3 0.04
25 2 0.03
26 4 0.06
27 1 0.01
28 1 0.01
29 4 0.06
30 2 0.03
31 3 0.04
32 37 0.55
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.56
Consensus pattern (32 bp):
GTATTGAAATTATTATGTTTTAAGTTTGTTGA
Found at i:746521 original size:55 final size:55
Alignment explanation
Indices: 746437--746580 Score: 270
Period size: 55 Copynumber: 2.6 Consensus size: 55
746427 TTGAAATTAT
746437 TATGTTTTAAGTTTGTTGAGTATTGAAATTATTATGTTTTAATTTTGCTTAGTTC
1 TATGTTTTAAGTTTGTTGAGTATTGAAATTATTATGTTTTAATTTTGCTTAGTTC
746492 TATGTTTTAAGTTTGTTGAGTATTGAAATTATTATGTTTTAATTTTGCTTAGTTC
1 TATGTTTTAAGTTTGTTGAGTATTGAAATTATTATGTTTTAATTTTGCTTAGTTC
* *
746547 TATGTTTTAAGTTTGTTGATTATAGAAATTATTA
1 TATGTTTTAAGTTTGTTGAGTATTGAAATTATTA
746581 AGAGTAAAGG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 87 1.00
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.56
Consensus pattern (55 bp):
TATGTTTTAAGTTTGTTGAGTATTGAAATTATTATGTTTTAATTTTGCTTAGTTC
Found at i:749673 original size:18 final size:18
Alignment explanation
Indices: 749652--749686 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
749642 TTTAATGAGC
749652 AAATAAAATAAATAAAAA
1 AAATAAAATAAATAAAAA
* *
749670 AAATATAGTAAATAAAA
1 AAATAAAATAAATAAAA
749687 CAAGAGGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (18 bp):
AAATAAAATAAATAAAAA
Found at i:771338 original size:166 final size:166
Alignment explanation
Indices: 771052--771361 Score: 410
Period size: 166 Copynumber: 1.9 Consensus size: 166
771042 GGTTTGGGCT
* * **
771052 TTCATTGTCAAATGGTTAAAGGAATGGTTGTTATTCTCAGAGGTCTCAGGTTCAGACACCAGTGA
1 TTCATTATCAAATGATTAAAGGAATGGTTGTTATTCTCAGAGGTCTCAGGTTCAGACACCAAAGA
* * *
771117 CTCTAAGGTATTTGAGCATTCACAGCCAAATGGTTAAAGGAATGGTTGTTATTCCTAGAGGTCTC
66 CTCTAAGGTATTTGAACATTCACAGCCAAATGGTTAAAGGAATGGTTGCTATTCCTAAAGGTCTC
*
771182 AAGTTTGAACACCATAGACTTTAGGGTATTTGGACA
131 AAGTTCGAACACCATAGACTTTAGGGTATTTGGACA
* *
771218 TTCATTATCAAATGATTTAAGGAATGGTTGTTATTC-CTAGAGGTCTCATGTTC-GAACACCAAA
1 TTCATTATCAAATGATTAAAGGAATGGTTGTTATTCTC-AGAGGTCTCAGGTTCAG-ACACCAAA
* * *** * *
771281 GATTGT-AGTGTATTTGAACATTCGTTGTCAAATGGTTAAATGAATGGTTGCTATTCCTAAAGGT
64 GACTCTAAG-GTATTTGAACATTCACAGCCAAATGGTTAAAGGAATGGTTGCTATTCCTAAAGGT
*
771345 CTCAGGTTCGAACACCA
128 CTCAAGTTCGAACACCA
771362 AATGCTAGTA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
165 4 0.03
166 119 0.97
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (166 bp):
TTCATTATCAAATGATTAAAGGAATGGTTGTTATTCTCAGAGGTCTCAGGTTCAGACACCAAAGA
CTCTAAGGTATTTGAACATTCACAGCCAAATGGTTAAAGGAATGGTTGCTATTCCTAAAGGTCTC
AAGTTCGAACACCATAGACTTTAGGGTATTTGGACA
Found at i:771362 original size:83 final size:81
Alignment explanation
Indices: 771052--771363 Score: 367
Period size: 83 Copynumber: 3.8 Consensus size: 81
771042 GGTTTGGGCT
**
771052 TTCATTGTCAAATGGTTAAAGGAATGGTTGTTATT-CTCAGAGGTCTCAGGTTC-AGACACCAGT
1 TTCATTGTCAAATGGTTAAAGGAATGGTTGTTATTCCT-AGAGGTCTCAGGTTCGA-ACACCAAA
* *
771115 GACTCTAAGGTATTTGAGCA
64 GA-T-TTAGGTATTTGAACA
** * * * *
771135 TTCACAGCCAAATGGTTAAAGGAATGGTTGTTATTCCTAGAGGTCTCAAGTTTGAACACCATAGA
1 TTCATTGTCAAATGGTTAAAGGAATGGTTGTTATTCCTAGAGGTCTCAGGTTCGAACACCAAAGA
*
771200 CTTTAGGGTATTTGGACA
66 -TTTA-GGTATTTGAACA
* * * *
771218 TTCATTATCAAATGATTTAAGGAATGGTTGTTATTCCTAGAGGTCTCATGTTCGAACACCAAAGA
1 TTCATTGTCAAATGGTTAAAGGAATGGTTGTTATTCCTAGAGGTCTCAGGTTCGAACACCAAAGA
771283 TTGTAGTGTATTTGAACA
66 TT-TAG-GTATTTGAACA
* * * *
771301 TTCGTTGTCAAATGGTTAAATGAATGGTTGCTATTCCTAAAGGTCTCAGGTTCGAACACCAAA
1 TTCATTGTCAAATGGTTAAAGGAATGGTTGTTATTCCTAGAGGTCTCAGGTTCGAACACCAAA
771364 TGCTAGTATT
Statistics
Matches: 196, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
82 5 0.03
83 188 0.96
84 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (81 bp):
TTCATTGTCAAATGGTTAAAGGAATGGTTGTTATTCCTAGAGGTCTCAGGTTCGAACACCAAAGA
TTTAGGTATTTGAACA
Found at i:778024 original size:27 final size:27
Alignment explanation
Indices: 777972--778024 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
777962 TCATCAAGCT
* * *
777972 CCATGGAACTTAAATCAGCACCATCAG
1 CCATGGAACTTAAACCAACACAATCAG
777999 CCATGGAAC-TAAAGCCAACACAATCA
1 CCATGGAACTTAAA-CCAACACAATCA
778025 ATCCCAAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.42, C:0.30, G:0.13, T:0.15
Consensus pattern (27 bp):
CCATGGAACTTAAACCAACACAATCAG
Found at i:783078 original size:59 final size:61
Alignment explanation
Indices: 782945--783080 Score: 147
Period size: 59 Copynumber: 2.3 Consensus size: 61
782935 AGAACTGTAT
* ** *
782945 CCATAAGGACTTACCCTAGGCCCGAAGAGCGTAGGTGCCAACCTAAGGGAGCACCTTGGGT
1 CCATAAGGACTTACCCTAGGCCCGAAGAGCATAGGTGCCAACCTAAGGGAGCACCTCAGGC
* * *
783006 CCATAAGGTCTTACCCTA-G-CC-AA-AGCATAGGTGCCCACCTGAGGGGAGTGC-CCTCAGGC
1 CCATAAGGACTTACCCTAGGCCCGAAGAGCATAGGTGCCAACCT-AAGGGA--GCACCTCAGGC
783065 CCATAAGGACTTACCC
1 CCATAAGGACTTACCC
783081 AATGCACACA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
57 15 0.23
58 7 0.11
59 22 0.34
60 3 0.05
61 17 0.27
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (61 bp):
CCATAAGGACTTACCCTAGGCCCGAAGAGCATAGGTGCCAACCTAAGGGAGCACCTCAGGC
Found at i:785812 original size:19 final size:21
Alignment explanation
Indices: 785790--785828 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
785780 TTAATAAAAA
785790 TAAAATTATT-AA-TTAAATT
1 TAAAATTATTCAACTTAAATT
*
785809 TAAATTTATTCAACTTAAAT
1 TAAAATTATTCAACTTAAAT
785829 CATATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATTATTCAACTTAAATT
Found at i:789757 original size:19 final size:21
Alignment explanation
Indices: 789709--789758 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 21
789699 ATATTCAATG
789709 AAATATAATATAAAAAACATTA
1 AAAT-TAATATAAAAAACATTA
789731 AAGA-TAATAT-AAAAACA-TA
1 AA-ATTAATATAAAAAACATTA
789750 AAATTAATA
1 AAATTAATA
789759 CATAATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 9 0.35
20 7 0.27
21 6 0.23
22 2 0.08
23 1 0.04
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (21 bp):
AAATTAATATAAAAAACATTA
Found at i:789776 original size:21 final size:21
Alignment explanation
Indices: 789752--789857 Score: 56
Period size: 21 Copynumber: 5.0 Consensus size: 21
789742 AAAACATAAA
*
789752 ATTAATACATAATATAAAAAT
1 ATTAAAACATAATATAAAAAT
* * *
789773 ATT-AAACATGAATATTATAAC
1 ATTAAAACAT-AATATAAAAAT
*
789794 ATAAAAAC-TAAATATAAAAAT
1 ATTAAAACAT-AATATAAAAAT
* **
789815 ATATAATATTTAAT-TAAAAACAT
1 AT-TAAAACATAATAT-AAAA-AT
**
789838 AAAAAAACATAATATAAAAA
1 ATTAAAACATAATATAAAAA
789858 CTAACTATGT
Statistics
Matches: 61, Mismatches: 17, Indels: 14
0.66 0.18 0.15
Matches are distributed among these distances:
20 5 0.08
21 26 0.43
22 25 0.41
23 5 0.08
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (21 bp):
ATTAAAACATAATATAAAAAT
Found at i:791409 original size:108 final size:108
Alignment explanation
Indices: 791189--791761 Score: 490
Period size: 108 Copynumber: 5.2 Consensus size: 108
791179 TCTCCCATAG
* * *
791189 TTTAGCGCGTTTTTGCATATTGGTCACTTGT-GATGACCAAAGTTGTTATTTACCCGTTTTCATG
1 TTTAGCGTGTTTTTGCATGTTGGTCACTTGTAG-TGACCAAAGTTGTTATTTACCCATTTTCATG
* *
791253 CATGTTATATAT-TTTTGGGATATTTGTTGTTCAGT-CCCCTATAT
65 CATGTTATATATATTTTGGAATATTT-TTGTTTAGTCCCCCT-TAT
*
791297 TTTAGCGTGTTTTTGCATGTTGGTCACTTGTAGGGACCAAAGTTGTTATTTACCCATTTTCATGC
1 TTTAGCGTGTTTTTGCATGTTGGTCACTTGTAGTGACCAAAGTTGTTATTTACCCATTTTCATGC
791362 ATGTTATATATATTTTGGAATATTTTCTGTTTAGTCCCCCTTA-
66 ATGTTATATATATTTTGGAATATTTT-TGTTTAGTCCCCCTTAT
* * ** **
791405 TTTAGGCGTGTTTTTGCATTTTAGTCA-TGTGTAGTGATTATTTAA-TT-TTATTTTA-ATATTT
1 TTTA-GCGTGTTTTTGCATGTTGGTCACT-TGTAGTGACCA---AAGTTGTTA-TTTACCCA-TT
* * * * ****** * * *
791466 TTGGACTG-ATGGGTTTTATAGGGGAAGTTTATGGTAA-AATCACACATAGGTCTCCCATAG
59 TT-CA-TGCAT--GTTATATA----TA-TTT-TGG-AATATTTTTGTTTA-GTCCCCCTTAT
* * * *
791526 TTTAGCGCGTTTTTGCATGTTGGTCACCTG-CGATGACCAAAGTTGTTATTTACCCGTTTTCATG
1 TTTAGCGTGTTTTTGCATGTTGGTCACTTGTAG-TGACCAAAGTTGTTATTTACCCATTTTCATG
* *
791590 CATGTTATATAT-TTTTGGGATATTTGTTGTTTAGTCCCCCATAT
65 CATGTTATATATATTTTGGAATATTT-TTGTTTAGTCCCCCTTAT
* *
791634 TTTAGCATGTTTTTGCATGTTGGTCACTTGTAGGGACCAAAGTTGTTATTTACCCATTTTCATGC
1 TTTAGCGTGTTTTTGCATGTTGGTCACTTGTAGTGACCAAAGTTGTTATTTACCCATTTTCATGC
791699 ATGTTATATATATTTTTGGAATATTTTATGTTTAGTCCCCCTTA-
66 ATGTTATATATA-TTTTGGAATATTTT-TGTTTAGTCCCCCTTAT
791743 TTTAG-GTTTGTTTTTGCAT
1 TTTAGCG--TGTTTTTGCAT
791762 TTTAGTAATG
Statistics
Matches: 370, Mismatches: 57, Indels: 74
0.74 0.11 0.15
Matches are distributed among these distances:
107 1 0.00
108 158 0.43
109 62 0.17
110 47 0.13
111 10 0.03
112 5 0.01
113 2 0.01
114 7 0.02
115 7 0.02
116 2 0.01
117 5 0.01
118 11 0.03
119 9 0.02
120 38 0.10
121 6 0.02
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (108 bp):
TTTAGCGTGTTTTTGCATGTTGGTCACTTGTAGTGACCAAAGTTGTTATTTACCCATTTTCATGC
ATGTTATATATATTTTGGAATATTTTTGTTTAGTCCCCCTTAT
Found at i:802492 original size:2 final size:2
Alignment explanation
Indices: 802487--802520 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
802477 AAAGAAAATC
802487 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
802521 GATCCTCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:804044 original size:26 final size:28
Alignment explanation
Indices: 804014--804095 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
804004 AATAAAAATA
804014 TTAATTAT-TAA-ATTATATTTATTATT
1 TTAATTATATAATATTATATTTATTATT
* *
804040 TTAATAATATAATATAATATTTTATTATT
1 TTAATTATATAATATTATA-TTTATTATT
* *
804069 ATAA-TATATAATATTATACTT-TTATT
1 TTAATTATATAATATTATATTTATTATT
804095 T
1 T
804096 AGATAAGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
26 12 0.26
27 5 0.11
28 17 0.37
29 12 0.26
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (28 bp):
TTAATTATATAATATTATATTTATTATT
Found at i:804060 original size:21 final size:21
Alignment explanation
Indices: 804036--804076 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
804026 TTATATTTAT
804036 TATTTTAATAATATAATATAA
1 TATTTTAATAATATAATATAA
* *
804057 TATTTTATTATTATAATATA
1 TATTTTAATAATATAATATA
804077 TAATATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTAATAATATAATATAA
Found at i:804063 original size:29 final size:29
Alignment explanation
Indices: 804031--804094 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
804021 TTAAATTATA
*
804031 TTTATTATTTTAATAATATAATATAATA-T
1 TTTATTATTATAAT-ATATAATATAATACT
*
804060 TTTATTATTATAATATATAATATTATACT
1 TTTATTATTATAATATATAATATAATACT
804089 TTTATT
1 TTTATT
804095 TAGATAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 12 0.38
29 20 0.62
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTATTATTATAATATATAATATAATACT
Found at i:804101 original size:29 final size:28
Alignment explanation
Indices: 804031--804107 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
804021 TTAAATTATA
**
804031 TTTATTATTTTAATAATATAATATAATAT
1 TTTATTATGATAAT-ATATAATATAATAT
* *
804060 TTTATTATTATAATATATAATATTATACT
1 TTTATTATGATAATATATAATATAATA-T
*
804089 TTTATT-TAGATAAGATATA
1 TTTATTAT-GATAATATATA
804108 GTAAATTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 13 0.31
29 29 0.69
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (28 bp):
TTTATTATGATAATATATAATATAATAT
Found at i:804261 original size:14 final size:14
Alignment explanation
Indices: 804204--804261 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
804194 AAATATAATA
*
804204 TAATATTTTTATTT
1 TAATATTATTATTT
804218 TAATATTA-TATTTT
1 TAATATTATTA-TTT
*
804232 TAATATT-TTA--A
1 TAATATTATTATTT
*
804243 CAATATTATTATTT
1 TAATATTATTATTT
804257 TAATA
1 TAATA
804262 AATAAATAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
11 6 0.18
12 3 0.09
13 2 0.06
14 23 0.68
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATATTATTATTT
Found at i:804302 original size:22 final size:22
Alignment explanation
Indices: 804276--804327 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
804266 AATAGTATAA
*
804276 TTAATAATAT-ATTATTCTTATT
1 TTAATAATATAATAATT-TTATT
804298 TTAATAA-ATAATAATTTTATT
1 TTAATAATATAATAATTTTATT
804319 TATAATAAT
1 T-TAATAAT
804328 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAATAATATAATAATTTTATT
Found at i:804325 original size:15 final size:15
Alignment explanation
Indices: 804305--804340 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
804295 ATTTTAATAA
804305 ATAATAATTTTATTT
1 ATAATAATTTTATTT
804320 ATAATAATTTTATTT
1 ATAATAATTTTATTT
804335 -TAATAA
1 ATAATAA
804341 AATATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATAATTTTATTT
Found at i:804333 original size:42 final size:42
Alignment explanation
Indices: 804246--804333 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
804236 ATTTTAACAA
*
804246 TATTATTATTTTAATAAATAAATAGTATAATTAATAATATAT
1 TATTATTATTTTAATAAATAAATAATATAATTAATAATATAT
* * * *
804288 TATTCTTATTTTAATAAAT-AATAATTTTATTTATAATA-AT
1 TATTATTATTTTAATAAATAAATAATATAATTAATAATATAT
804328 T-TTATT
1 TATTATT
804334 TTAATAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.10
40 3 0.08
41 15 0.38
42 18 0.45
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (42 bp):
TATTATTATTTTAATAAATAAATAATATAATTAATAATATAT
Found at i:804437 original size:20 final size:22
Alignment explanation
Indices: 804412--804452 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
804402 TTGATATAAA
*
804412 TAATA-TTAAATAA-ATTATTT
1 TAATATTTAAAAAATATTATTT
804432 TAATATTTAAAAAATATTATT
1 TAATATTTAAAAAATATTATT
804453 ATTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATATTTAAAAAATATTATTT
Found at i:804466 original size:24 final size:25
Alignment explanation
Indices: 804425--804484 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
804415 TATTAAATAA
* *
804425 ATTATTTTAATATTTAAAAAATATT
1 ATTATTTTATTATATAAAAAATATT
**
804450 ATTATTTTATTA-ATAAATGATATT
1 ATTATTTTATTATATAAAAAATATT
* *
804474 TTTATTGTATT
1 ATTATTTTATT
804485 TGATGTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
ATTATTTTATTATATAAAAAATATT
Found at i:807070 original size:10 final size:10
Alignment explanation
Indices: 807039--807103 Score: 67
Period size: 10 Copynumber: 6.2 Consensus size: 10
807029 TTTAGCTTTA
807039 TATTACATTTT
1 TATT-CATTTT
* *
807050 TATTAAATTT
1 TATTCATTTT
807060 TATTCATTTT
1 TATTCATTTT
807070 TAATTCATTTT
1 T-ATTCATTTT
*
807081 TATTGTATTTT
1 TATT-CATTTT
*
807092 TATTTATTTT
1 TATTCATTTT
807102 TA
1 TA
807104 AAAAATGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
10 24 0.51
11 23 0.49
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (10 bp):
TATTCATTTT
Found at i:807100 original size:21 final size:20
Alignment explanation
Indices: 807039--807103 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
807029 TTTAGCTTTA
*
807039 TATTACATTTTTATTAAATTT
1 TATT-CATTTTTATTAATTTT
*
807060 TATTCATTTTTAATTCATTTT
1 TATTCATTTTT-ATTAATTTT
* *
807081 TATTGTATTTTTATTTATTTT
1 TATT-CATTTTTATTAATTTT
807102 TA
1 TA
807104 AAAAATGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.18
21 25 0.66
22 6 0.16
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTCATTTTTATTAATTTT
Found at i:807641 original size:21 final size:21
Alignment explanation
Indices: 807604--807656 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
807594 ATTTTATTTT
** *
807604 TTAATATTTTT-GGTAAAATA
1 TTAATATTTTTACTTAAAACA
*
807624 TTATTATTTTTACTTAAAACA
1 TTAATATTTTTACTTAAAACA
807645 TTAATATTTTTA
1 TTAATATTTTTA
807657 ACATTTTCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TTAATATTTTTACTTAAAACA
Found at i:808216 original size:22 final size:22
Alignment explanation
Indices: 808173--808220 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
808163 GTTACATTTA
*
808173 TATTTTTTAAAAAATTTAAAAT
1 TATTTTTTAAAAAAGTTAAAAT
*
808195 TATTATTTTAAAAAAGTTAAATT
1 TATT-TTTTAAAAAAGTTAAAAT
808218 TAT
1 TAT
808221 ATAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTTTTTAAAAAAGTTAAAAT
Found at i:808910 original size:2 final size:2
Alignment explanation
Indices: 808903--808947 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
808893 TTTGTTTTAT
808903 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
808945 TA T
1 TA T
808948 TAAAGGGTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:808973 original size:23 final size:23
Alignment explanation
Indices: 808947--808994 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
808937 TATATATATA
808947 TTAAAGGGTCCCAATCTACTATT
1 TTAAAGGGTCCCAATCTACTATT
* *
808970 TTAAAGGGTCCCAGTTTACTATT
1 TTAAAGGGTCCCAATCTACTATT
808993 TT
1 TT
808995 GCCTTGTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (23 bp):
TTAAAGGGTCCCAATCTACTATT
Found at i:809369 original size:26 final size:26
Alignment explanation
Indices: 809340--809403 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
809330 ACTAATAGAT
*
809340 TACATTAAATTAG-AACAATTAACACC
1 TACATTACATTAGAAAC-ATTAACACC
* *
809366 TACATCACATTAGAAACATTAACTCC
1 TACATTACATTAGAAACATTAACACC
809392 TACATTACATTA
1 TACATTACATTA
809404 CAATACAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 30 0.91
27 3 0.09
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (26 bp):
TACATTACATTAGAAACATTAACACC
Found at i:813774 original size:29 final size:29
Alignment explanation
Indices: 813732--813796 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
813722 AAAGCCTCCA
* *
813732 AATTTTTTGTATTTATAATT-AGGACCCCT
1 AATTTTTTATATTTACAATTAAGG-CCCCT
*
813761 AATTTTTTATATTTACAATTAAGGCTCCT
1 AATTTTTTATATTTACAATTAAGGCCCCT
813790 AATTTTT
1 AATTTTT
813797 ATAATTTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (29 bp):
AATTTTTTATATTTACAATTAAGGCCCCT
Found at i:813918 original size:117 final size:118
Alignment explanation
Indices: 813763--813993 Score: 326
Period size: 118 Copynumber: 2.0 Consensus size: 118
813753 GGACCCCTAA
*
813763 TTTTTTATATTTACAATTAAGGCTCCTAATTTTTATAATTTCATAAAACT-TTTAG-TTTTGACC
1 TTTTTTATATTTACAATTAAGGCTCCTAATTTTTATAATTTCATAAAA-TGATTAGTTTTTGACC
**
813826 CTCTTTTTTAAGTTCTCTTATTAATTCATCCAATTTTGAATTAAATTTAACACT
65 CTCTTTTGCAAGTTCTCTTATTAATTCATCCAATTTTGAATTAAATTTAACACT
* *
813880 TTTTTTAATATTTATAATT-AGG-TCCCTAATTTTTATAATTTCATAAAATGATTAGTTTTTGGC
1 TTTTTT-ATATTTACAATTAAGGCT-CCTAATTTTTATAATTTCATAAAATGATTAGTTTTTGAC
* * * *
813943 CCTCTTTTGCCATTTCTCTTATTTATTCATTCAATTTTGAATTAAATTTAA
64 CCTCTTTTGCAAGTTCTCTTATTAATTCATCCAATTTTGAATTAAATTTAA
813994 TCATGTTTTT
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
116 2 0.02
117 37 0.37
118 62 0.61
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (118 bp):
TTTTTTATATTTACAATTAAGGCTCCTAATTTTTATAATTTCATAAAATGATTAGTTTTTGACCC
TCTTTTGCAAGTTCTCTTATTAATTCATCCAATTTTGAATTAAATTTAACACT
Found at i:816632 original size:34 final size:35
Alignment explanation
Indices: 816591--816687 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 35
816581 GCAACACAAT
*
816591 CATCAATTACATT-TTAACCCCAAATTCCAAAATA
1 CATCAATTACATTCTAAACCCCAAATTCCAAAATA
* * * **
816625 CTTCAATTATATTCTAAACCTCAAATTTTAAAATA
1 CATCAATTACATTCTAAACCCCAAATTCCAAAATA
* **
816660 CATCAATTACATACCCAACCCCAAATTC
1 CATCAATTACATTCTAAACCCCAAATTC
816688 ATAATCCATT
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
34 11 0.22
35 38 0.78
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (35 bp):
CATCAATTACATTCTAAACCCCAAATTCCAAAATA
Found at i:818497 original size:55 final size:55
Alignment explanation
Indices: 818408--818730 Score: 497
Period size: 55 Copynumber: 5.9 Consensus size: 55
818398 ATATGTGTAC
* *
818408 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATCG
1 TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* *
818463 TACAAGCACTATGTGTGCAAATTCACAGAATTCATCATGAGTTGATGAATAACCG
1 TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* *
818518 TAC-AGACACTATGTGTGCAAATCCATGGAATTAATCATGAGTTGATGAATAACCG
1 TACAAG-CACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
*
818573 TACATGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
1 TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * *
818628 TACAAGCACTATGTGTGCAAATCCACAGAATTTATCATGAGTTGATGAATAAACG
1 TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * *
818683 TACATGCACGATGTGTGC-AACCCACGGAATTCATCATGAGTTGGTGAA
1 TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA
818731 CTATCGTATA
Statistics
Matches: 245, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
54 28 0.11
55 216 0.88
56 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (55 bp):
TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
Found at i:818771 original size:17 final size:17
Alignment explanation
Indices: 818749--818782 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
818739 TAGACACTAC
818749 GTGTGCATCTTAATAAA
1 GTGTGCATCTTAATAAA
818766 GTGTGCATCTTAATAAA
1 GTGTGCATCTTAATAAA
818783 TGAACATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
GTGTGCATCTTAATAAA
Found at i:819849 original size:33 final size:33
Alignment explanation
Indices: 819810--819877 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
819800 GGTTAGGCAT
**
819810 ATAATTGAAGTATTTTAGAATTTGAGGTTTAGA
1 ATAATTGAAACATTTTAGAATTTGAGGTTTAGA
* *
819843 ATAATTGAAACATTTTGGAATTTGGGGTTTAGA
1 ATAATTGAAACATTTTAGAATTTGAGGTTTAGA
819876 AT
1 AT
819878 GTAATTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.41
Consensus pattern (33 bp):
ATAATTGAAACATTTTAGAATTTGAGGTTTAGA
Found at i:820668 original size:216 final size:215
Alignment explanation
Indices: 820294--820729 Score: 845
Period size: 216 Copynumber: 2.0 Consensus size: 215
820284 GGCGTTGGCA
820294 GTTAAAAAGGGTAAAATACACAAATGGTCAGCCGATTACAGGGTGTTGTTCTGTTGAGTCTCATA
1 GTTAAAAAGGGTAAAATACACAAATGGTCAGCCGATTACAGGGTGTTGTTCTGTTGAGTCTCATA
820359 ATTATTAAAAGTTATAAAATGATTGATCGACCATAAGATGTTATTTTGTTGGATCCCTCAATATT
66 ATTATTAAAAGTTATAAAATGATTGATCGACCATAAGATGTTATTTTGTTGGATCCCTCAATATT
820424 AAAAATTACAAAATGATCATTCGAGTATTTATATGTTCCAAATCGTCATTTTCTGTTAAAAAAAA
131 AAAAATTACAAAATGATCATTCGAGTATTTATATGTTCCAAATCGTCATTTTCTGTT-AAAAAAA
820489 TGATGATCGTCTAAGTTGGAC
195 TGATGATCGTCTAAGTTGGAC
820510 GTTAAAAAGGGTAAAATACACAAATGGTCAGCCGATTACAGGGTGTTGTTCTGTTGAGTCTCATA
1 GTTAAAAAGGGTAAAATACACAAATGGTCAGCCGATTACAGGGTGTTGTTCTGTTGAGTCTCATA
*
820575 ATTATTAAAAGTTATAAAATGATTGATCGACCATAGGATGTTATTTTGTTGGATCCCTCAATATT
66 ATTATTAAAAGTTATAAAATGATTGATCGACCATAAGATGTTATTTTGTTGGATCCCTCAATATT
820640 AAAAATTACAAAATGATCATTCGAGTATTTATATGTTCCAAATCGTCATTTTCTGTTAAAAAAAT
131 AAAAATTACAAAATGATCATTCGAGTATTTATATGTTCCAAATCGTCATTTTCTGTTAAAAAAAT
*
820705 GATGATCGTCTAAGTTTGAC
196 GATGATCGTCTAAGTTGGAC
820725 GTTAA
1 GTTAA
820730 CATGCTGACT
Statistics
Matches: 218, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
215 32 0.15
216 186 0.85
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (215 bp):
GTTAAAAAGGGTAAAATACACAAATGGTCAGCCGATTACAGGGTGTTGTTCTGTTGAGTCTCATA
ATTATTAAAAGTTATAAAATGATTGATCGACCATAAGATGTTATTTTGTTGGATCCCTCAATATT
AAAAATTACAAAATGATCATTCGAGTATTTATATGTTCCAAATCGTCATTTTCTGTTAAAAAAAT
GATGATCGTCTAAGTTGGAC
Found at i:821635 original size:23 final size:22
Alignment explanation
Indices: 821587--821635 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
821577 ACAGAATGTC
821587 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
821608 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
821631 AAGGA
1 AAGGA
821636 AGAAATGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:823255 original size:23 final size:23
Alignment explanation
Indices: 823164--823247 Score: 159
Period size: 23 Copynumber: 3.7 Consensus size: 23
823154 ACATTTTATA
823164 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
823187 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
823210 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
823233 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
823248 TTTATACGAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:829740 original size:29 final size:29
Alignment explanation
Indices: 829659--829754 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
829649 GACTAAGATG
*
829659 GTAAAAATATAAAGTTTAGGGA-CTAAAGT
1 GTAAAAATCTAAAGTTTAGGGACCT-AAGT
* *
829688 GTAAAAGATCTAAAGTCTAAGGACCTAAGT
1 GTAAAA-ATCTAAAGTTTAGGGACCTAAGT
*
829718 GTAATAATCTAAAGTTTAGGGACCTAAGT
1 GTAAAAATCTAAAGTTTAGGGACCTAAGT
829747 GTAAAAAT
1 GTAAAAAT
829755 ATAATCCTAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
29 34 0.59
30 22 0.38
31 2 0.03
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (29 bp):
GTAAAAATCTAAAGTTTAGGGACCTAAGT
Found at i:831858 original size:17 final size:15
Alignment explanation
Indices: 831822--831852 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
831812 AAATTCTAAA
*
831822 TATTTATATAAAGAT
1 TATTTATATAAAAAT
831837 TATTTATATAAAAAT
1 TATTTATATAAAAAT
831852 T
1 T
831853 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATTTATATAAAAAT
Found at i:832149 original size:2 final size:2
Alignment explanation
Indices: 832142--832178 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
832132 AGCAAACTTC
832142 AT AT 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 AT AT A
832179 AATAAATGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:835779 original size:17 final size:16
Alignment explanation
Indices: 835759--835817 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
835749 TAACCCATTA
835759 AAAATCATAACCTCCAC
1 AAAATCATAACC-CCAC
* ***
835776 AAAATCAAAAAGACA-
1 AAAATCATAACCCCAC
835791 AAAATCATAACCCCAC
1 AAAATCATAACCCCAC
835807 AAAAATCATAA
1 -AAAATCATAA
835818 TCATGTTCTC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
17 19 0.59
ACGTcount: A:0.59, C:0.25, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAATCATAACCCCAC
Found at i:835780 original size:49 final size:50
Alignment explanation
Indices: 835682--835817 Score: 150
Period size: 49 Copynumber: 2.8 Consensus size: 50
835672 ACCTAAACTC
* * * * * ** *
835682 CAAAAACTCAAAAATTATAACCCCATTGAAAATTATAAGCTTGATAAAAT
1 CAAAAACACAAAAATCATAACCCCATTAAAAATCATAACCTCCACAAAAT
* *
835732 CAAAAACCCAAAAAGCATAA-CCCATTAAAAATCATAACCTCCACAAAAT
1 CAAAAACACAAAAATCATAACCCCATTAAAAATCATAACCTCCACAAAAT
* *
835781 CAAAAAGACAAAAATCATAACCCCA-CAAAAATCATAA
1 CAAAAACACAAAAATCATAACCCCATTAAAAATCATAA
835818 TCATGTTCTC
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 51 0.71
50 21 0.29
ACGTcount: A:0.56, C:0.23, G:0.04, T:0.18
Consensus pattern (50 bp):
CAAAAACACAAAAATCATAACCCCATTAAAAATCATAACCTCCACAAAAT
Found at i:837255 original size:18 final size:18
Alignment explanation
Indices: 837229--837272 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
837219 GTCAATGGAG
*
837229 TGTTTATCGGCTTTGCAT
1 TGTTCATCGGCTTTGCAT
837247 TGTTCATCGGCTTTGCAT
1 TGTTCATCGGCTTTGCAT
*
837265 TATTCATC
1 TGTTCATC
837273 CCAAACCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (18 bp):
TGTTCATCGGCTTTGCAT
Found at i:839775 original size:28 final size:29
Alignment explanation
Indices: 839734--839792 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 29
839724 ATCAGTGTTA
839734 TGATTTGTGGGGTTAT-TTTTTGGGTTTT
1 TGATTTGTGGGGTTATATTTTTGGGTTTT
839762 TGATTT-TGGAGGTTATGATTTTTGGGTTTT
1 TGATTTGTGG-GGTTAT-ATTTTTGGGTTTT
839792 T
1 T
839793 AATCTATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 3 0.11
28 12 0.43
30 13 0.46
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (29 bp):
TGATTTGTGGGGTTATATTTTTGGGTTTT
Found at i:839786 original size:30 final size:30
Alignment explanation
Indices: 839734--839814 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
839724 ATCAGTGTTA
839734 TGATTTGTGG-GGTTAT--TTTTTGGGTTTT
1 TGATTT-TGGAGGTTATGATTTTTGGGTTTT
839762 TGATTTTGGAGGTTATGATTTTTGGGTTTT
1 TGATTTTGGAGGTTATGATTTTTGGGTTTT
* * *
839792 TAATCTATGGAGCTTATGATTTT
1 TGAT-TTTGGAGGTTATGATTTT
839815 CAATGGGGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 3 0.07
28 12 0.26
30 15 0.33
31 16 0.35
ACGTcount: A:0.15, C:0.02, G:0.27, T:0.56
Consensus pattern (30 bp):
TGATTTTGGAGGTTATGATTTTTGGGTTTT
Found at i:840998 original size:41 final size:41
Alignment explanation
Indices: 840886--841011 Score: 135
Period size: 41 Copynumber: 3.0 Consensus size: 41
840876 TTAAAGGTAA
* * * *
840886 TAAAATAAAATAAGAAAAGACAAATAAATAAATAAATAAAAACAC
1 TAAAATTAAA-AAGAAAA-A-AAATGAATAACTAAAT-AAAATAC
* *
840931 TAAAATTAAAGAGAAAAAAAAAGAATAACTAAATAAAATAC
1 TAAAATTAAAAAGAAAAAAAATGAATAACTAAATAAAATAC
* * *
840972 TAAAATTAAAAAGGAACAAAATGAATAACTAAATGAAATA
1 TAAAATTAAAAAGAAAAAAAATGAATAACTAAATAAAATA
841012 AATTAAAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 41 0.59
42 13 0.19
43 1 0.01
44 6 0.09
45 9 0.13
ACGTcount: A:0.70, C:0.06, G:0.07, T:0.17
Consensus pattern (41 bp):
TAAAATTAAAAAGAAAAAAAATGAATAACTAAATAAAATAC
Found at i:841371 original size:3 final size:3
Alignment explanation
Indices: 841353--841429 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
841343 CCAGAAAATA
* * *
841353 TAT TATT TAT TCT TAT TAT TAT AAT ATAT TA- TAT TAT AATT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT TAT
* * *
841400 TAT TAC TAT TTT TAT TAT ATAT TTT TAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
841430 AAATTTATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
2 2 0.04
3 45 0.79
4 10 0.18
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:841389 original size:15 final size:16
Alignment explanation
Indices: 841365--841404 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
841355 TTATTTATTC
841365 TTATTATTATAATATA
1 TTATTATTATAATATA
*
841381 TTA-TATTATAATTTA
1 TTATTATTATAATATA
841396 TTATTATTA
1 TTATTATTA
841405 CTATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTATTATAATATA
Found at i:841396 original size:28 final size:28
Alignment explanation
Indices: 841349--841448 Score: 84
Period size: 28 Copynumber: 3.6 Consensus size: 28
841339 ATGACCAGAA
841349 AATATATTAT-TTAT--TCTTATTATTAT
1 AATATATTATATTATAAT-TTATTATTAT
841375 AATATATTATATTATAATTTATTATTATT
1 AATATATTATATTATAATTTATTATTA-T
* * *
841404 ACTAT-TTTTATTATATATTT-TTATTAA
1 AATATATTATATTATA-ATTTATTATTAT
*
841431 AATTTATTAAATATTATA
1 AATATATT--ATATTATA
841449 TATTACATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
26 10 0.17
27 7 0.12
28 26 0.43
29 10 0.17
30 7 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
AATATATTATATTATAATTTATTATTAT
Found at i:841574 original size:20 final size:19
Alignment explanation
Indices: 841539--841576 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
841529 GTATTGCTAT
841539 ATATTAATTATATTATTAC
1 ATATTAATTATATTATTAC
*
841558 ATATTTATTAGTATTATTA
1 ATATTAATTA-TATTATTA
841577 TATAGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
ATATTAATTATATTATTAC
Found at i:853710 original size:15 final size:14
Alignment explanation
Indices: 853692--853751 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 14
853682 TTTTAAAATA
853692 TTATTTTTTATATTT
1 TTATTTTTT-TATTT
853707 TTATTTTTTTATTTT
1 TTATTTTTTTA-TTT
*
853722 TTCCTTTTTTTATTT
1 TT-ATTTTTTTATTT
*
853737 AATATTTATTTTATT
1 -TTATTT-TTTTATT
853752 ATCTAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 2 0.05
15 20 0.53
16 16 0.42
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:853716 original size:16 final size:16
Alignment explanation
Indices: 853695--853736 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
853685 TAAAATATTA
853695 TTTTTTATATTTTT-AT
1 TTTTTTAT-TTTTTCAT
*
853711 TTTTTTATTTTTTCCT
1 TTTTTTATTTTTTCAT
853727 TTTTTTATTT
1 TTTTTTATTT
853737 AATATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTATTTTTTCAT
Found at i:853748 original size:19 final size:19
Alignment explanation
Indices: 853706--853762 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
853696 TTTTTATATT
853706 TTTATTTTTTTATTT--T-
1 TTTATTTTTTTATTTAATA
**
853722 TTCCTTTTTTTATTTAATA
1 TTTATTTTTTTATTTAATA
* *
853741 TTTATTTTATTATCTAATA
1 TTTATTTTTTTATTTAATA
853760 TTT
1 TTT
853763 TGAATTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.41
18 1 0.03
19 18 0.56
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTTTTTATTTAATA
Found at i:855007 original size:14 final size:14
Alignment explanation
Indices: 854988--855014 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
854978 CGTCAAATAA
854988 GGATCATAATCTAT
1 GGATCATAATCTAT
855002 GGATCATAATCTA
1 GGATCATAATCTA
855015 AACCCTAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
GGATCATAATCTAT
Found at i:856905 original size:65 final size:67
Alignment explanation
Indices: 856798--856932 Score: 211
Period size: 65 Copynumber: 2.0 Consensus size: 67
856788 TCAGGGTCGT
* * *
856798 GGCTAGGTTGTCGGGGGCCATGTGCAAATTCTTAT-AAGGGCCCTGTTTTCTAG-ATATTCGATT
1 GGCTAGGTTGTCAGGGGCCATGTGCAAATTCTTATAAAGGCCCCTATTTTCTAGAATATTCGATT
856861 TC
66 TC
*
856863 GGCTAGGTTGTCAGGGGCCCTGTGCAAATTCTTATAAAGGCCCCTATTTTCTAGATATATTCGAT
1 GGCTAGGTTGTCAGGGGCCATGTGCAAATTCTTATAAAGGCCCCTATTTTCTAGA-ATATTCGAT
856928 TTC
65 TTC
856931 GG
1 GG
856933 GATCCCTATT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 33 0.52
66 16 0.25
68 14 0.22
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (67 bp):
GGCTAGGTTGTCAGGGGCCATGTGCAAATTCTTATAAAGGCCCCTATTTTCTAGAATATTCGATT
TC
Found at i:863535 original size:24 final size:24
Alignment explanation
Indices: 863508--863555 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
863498 AAATACTTTC
*
863508 GAAAATGAATTAATTTTTTTTAAA
1 GAAAATGAATAAATTTTTTTTAAA
* *
863532 GAAAATTAGTAAATTTTTTTTAAA
1 GAAAATGAATAAATTTTTTTTAAA
863556 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (24 bp):
GAAAATGAATAAATTTTTTTTAAA
Found at i:863641 original size:2 final size:2
Alignment explanation
Indices: 863634--863689 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
863624 TTGTATATCA
863634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
863676 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
863690 TACTTTCACG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:870656 original size:15 final size:15
Alignment explanation
Indices: 870618--870696 Score: 90
Period size: 15 Copynumber: 5.4 Consensus size: 15
870608 TTCGGAAATA
* *
870618 AATTACTGCAATTTG
1 AATTACTGGAAATTG
*
870633 AATTACTGGAATTTG
1 AATTACTGGAAATTG
*
870648 AATTACTGGAAAATG
1 AATTACTGGAAATTG
*
870663 AATTATTGG-AATTG
1 AATTACTGGAAATTG
*
870677 AATT-CTGGAAAATG
1 AATTACTGGAAATTG
870691 AATTAC
1 AATTAC
870697 ATTTCTGGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
13 3 0.05
14 16 0.29
15 36 0.65
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (15 bp):
AATTACTGGAAATTG
Found at i:870693 original size:28 final size:30
Alignment explanation
Indices: 870631--870696 Score: 109
Period size: 28 Copynumber: 2.3 Consensus size: 30
870621 TACTGCAATT
870631 TGAATTACTGGAATTTGAATTACTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGGAAAA
*
870661 TGAATTATTGGAA-TTGAATT-CTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGGAAAA
870689 TGAATTAC
1 TGAATTAC
870697 ATTTCTGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 15 0.44
29 7 0.21
30 12 0.35
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAATTTGAATTACTGGAAAA
Found at i:870704 original size:20 final size:21
Alignment explanation
Indices: 870679--870730 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
870669 TGGAATTGAA
870679 TTCTGGAAAATGAATT-ACAT
1 TTCTGGAAAATGAATTAACAT
870699 TTCTGGAAAATGAATTACACAT
1 TTCTGGAAAATGAATTA-ACAT
870721 TTCTGGAAAA
1 TTCTGGAAAA
870731 CGTTTTATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 16 0.53
22 14 0.47
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (21 bp):
TTCTGGAAAATGAATTAACAT
Found at i:870816 original size:16 final size:16
Alignment explanation
Indices: 870790--870840 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 16
870780 GAAGAGTTTT
870790 TTAAAAA-ATTATTTA
1 TTAAAAATATTATTTA
*
870805 TTAAAAATATTAAATATA
1 TTAAAAATATT--ATTTA
*
870823 ATAAATAATATTATTTA
1 TTAAA-AATATTATTTA
870840 T
1 T
870841 CATAAAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 7 0.25
16 3 0.11
17 4 0.14
18 8 0.29
19 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAAATATTATTTA
Found at i:870845 original size:19 final size:17
Alignment explanation
Indices: 870791--870847 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 17
870781 AAGAGTTTTT
870791 TAAAAA-ATTATTTAT-
1 TAAAAATATTATTTATA
**
870806 TAAAAATATTAAATATAA
1 TAAAAATATTATTTAT-A
870824 TAAATAATATTATTTATCA
1 TAAA-AATATTATTTAT-A
870843 TAAAA
1 TAAAA
870848 CTTAATATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
18 5 0.15
19 15 0.45
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAAATATTATTTATA
Found at i:870913 original size:48 final size:49
Alignment explanation
Indices: 870794--870931 Score: 124
Period size: 48 Copynumber: 2.8 Consensus size: 49
870784 AGTTTTTTAA
* *
870794 AAAATTATTTATTAAAAATATT-AAATATAATAAATAATATTATTTATCAT
1 AAAATTATTT-TT-ATAATTTTAAAATATAATAAATAATATTATTTATCAT
* * * * *
870844 AAAACTTAATATTATTATTTTAAAATATTA-AAATAAT-TTATTTATTATT
1 AAAA-TTATTTTTATAATTTTAAAATATAATAAATAATATTATTTATCA-T
*
870893 AAAATTATTTTTATAATTTTATTAATA-AA-AAATAATATT
1 AAAATTATTTTTATAATTTTA-AAATATAATAAATAATATT
870932 GGTATTTTAG
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
48 31 0.44
49 23 0.32
50 13 0.18
51 4 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (49 bp):
AAAATTATTTTTATAATTTTAAAATATAATAAATAATATTATTTATCAT
Found at i:871092 original size:24 final size:27
Alignment explanation
Indices: 871065--871126 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
871055 AATGTTATTC
871065 ATTATTAAATAAAAA-A-AT-TATTAT
1 ATTATTAAATAAAAATATATATATTAT
*
871089 ATTATTAAA-AAAAATATATATCTTAT
1 ATTATTAAATAAAAATATATATATTAT
871115 ATTATTATAATA
1 ATTATTA-AATA
871127 TAATTGATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.16
24 10 0.31
25 2 0.06
26 12 0.38
27 2 0.06
28 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTATTAAATAAAAATATATATATTAT
Found at i:871151 original size:15 final size:16
Alignment explanation
Indices: 871113--871171 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 16
871103 TATATATCTT
871113 ATATTATTATAATATA
1 ATATTATTATAATATA
*
871129 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
871146 ATATTA--AAAATATA
1 ATATTATTATAATATA
871160 ATATTATTATAA
1 ATATTATTATAA
871172 ATATTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 11 0.32
15 4 0.12
16 5 0.15
17 8 0.24
18 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:871174 original size:26 final size:27
Alignment explanation
Indices: 871135--871185 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
871125 TATAATTGAT
871135 TATTTTATATAATATTAA-AAATATAA
1 TATTTTATATAATATTAATAAATATAA
871161 TATTATTATA-AATATTAATAAATAT
1 TATT-TTATATAATATTAATAAATAT
871186 TTTAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TATTTTATATAATATTAATAAATATAA
Found at i:871182 original size:29 final size:31
Alignment explanation
Indices: 871123--871182 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
871113 ATATTATTAT
* * *
871123 AATATAATTGATTATTTTATATAATATTAAA
1 AATATAATTGATTATTATAAATAATAATAAA
*
871154 AATATAA-T-ATTATTATAAATATTAATAAA
1 AATATAATTGATTATTATAAATAATAATAAA
871183 TATTTTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.68
30 1 0.04
31 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
AATATAATTGATTATTATAAATAATAATAAA
Found at i:871185 original size:22 final size:23
Alignment explanation
Indices: 871154--871196 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
871144 TAATATTAAA
871154 AATATAATATTATT-ATAAATATT
1 AATATAATATT-TTAATAAATATT
871177 AATA-AATATTTTAATAAATA
1 AATATAATATTTTAATAAATA
871197 ATATTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AATATAATATTTTAATAAATATT
Found at i:879149 original size:21 final size:21
Alignment explanation
Indices: 879125--879169 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
879115 ACATATGTAC
*
879125 AATTTGATTGTACATGAATAA
1 AATTTGATTGTACATAAATAA
879146 AATTTGATTGTACATAAATAA
1 AATTTGATTGTACATAAATAA
879167 AAT
1 AAT
879170 GTGTAGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (21 bp):
AATTTGATTGTACATAAATAA
Found at i:879186 original size:2 final size:2
Alignment explanation
Indices: 879179--879203 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
879169 TGTGTAGTTA
879179 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 A
879204 CGAGGAATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:881305 original size:22 final size:24
Alignment explanation
Indices: 881275--881320 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
881265 TTTTCTAAAA
*
881275 ATTATTTTAAAAAAT-T-AAAATT
1 ATTAATTTAAAAAATATGAAAATT
881297 ATTAATTTAAAAAATATGAAAATT
1 ATTAATTTAAAAAATATGAAAATT
881321 CTCTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 1 0.05
24 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATTAATTTAAAAAATATGAAAATT
Found at i:894515 original size:3 final size:3
Alignment explanation
Indices: 894507--894573 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
894497 ACCAATTATG
* * *
894507 ATA ATA ATAA ATA ATA ATA TTT AT- ATA ATAA ATA ATA ATA A-A AGA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
894552 ATA TATA AT- ATA ATA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA ATA A
894574 AATTAAATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 6 0.11
3 39 0.72
4 9 0.17
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:895606 original size:23 final size:23
Alignment explanation
Indices: 895575--895646 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
895565 ATAGGTAAAA
*
895575 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
895598 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
895621 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
895644 ATA
1 ATA
895647 GGCGTAAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:896092 original size:490 final size:475
Alignment explanation
Indices: 895160--896918 Score: 2789
Period size: 490 Copynumber: 3.7 Consensus size: 475
895150 CTGTTATATT
*
895160 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCTCTGTGGAAAACATTAATTTAA
1 GTAAAGTATCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
*
895225 GGTTATCTTTTAAGTGAATTTTAAGATATTAATTTACTAATTATAGGCGTCTAATGATTTATTTT
65 GG-------TT-A--G--TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
*
895290 TGACGTTACGGTATATATTATTATTAAATTAAAAACAAT-AACATATATATTACATATTTATTAT
118 TTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
895354 TATCTTTGGTTAATATT-GTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATC
183 TATCTTTGGTTAATATTGGTT-AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATC
895418 AAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
247 AAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
895483 TAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGA-TCTTTTTTATAAAAAGT
312 TAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATTC-TTTTTATAAAAAGT
* *
895547 ATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
376 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATAG
895612 GTAGCGTTTATATAATGTAATAGGTAGTGCTTATAGGC
441 GTAGCGTTTATATAATGTAATA-GTAGTGCTTATA--C
*
895650 GTAAAGTATCTATCCTTTTAATAAAAGTGTCCATACTTTTTTCACTGAGGAAAACATTAATTTAA
1 GTAAAGTATCTATCCTTTT-ATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
*
895715 GGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGACGTCTAATGATTTATTTT
65 GG-------TT-A--G--TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
*
895780 TTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
118 TTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
*
895845 TATCTTTGGTTAATATT-GTTAAATTTAAATTCTAAATAATATTTT-TAAAATGTCAAAACAATC
183 TATCTTTGGTTAATATTGGTT-AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATC
895908 AAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
247 AAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
895973 T-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATTCTTTTTATAAAAAGT
312 TAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATTCTTTTTATAAAAAGT
*
896037 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATATGTAGCGTTTATATAATGTAATAG
376 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATAG
*
896102 GTAGTGTTTATAT--TGTAA-AGTA-T-C-TAT-C
441 GTAGCGTTTATATAATGTAATAGTAGTGCTTATAC
896130 ---------C--T--TTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
1 GTAAAGTATCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
* * * *
896182 GTTAGTTTTAAGATATTAATTTAGTAATTATATGCGTTTAATTATTTATTTTTTATGTTACGGTA
66 GTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTA
896247 TATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAA
131 TATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAA
896312 TATTGGTTAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
196 TATTGGTTAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
*
896377 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATAAATGA
261 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA-AATTGA
* * *
896442 AATATAAATTACATAACTTTAAATAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
325 AACATAAATTACATAACTTTAAAAAAAGTATCGATTCTTTTTATAAAAAGTATGGACACTTTCAA
*
896507 TATAATAGGTAAAAATATGATGTAATATGTAGTGCTTATATAATGTAATAGGTAGCGTTTATATA
390 TATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
*
896572 ATGTAATAAGTAGTGCTTATATT
455 ATGTAAT-AGTAGTGCTTATA-C
896595 GTAAAGTATCTATCCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
1 GTAAAGTATCTAT-CCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA
896660 GGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGT
65 GGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGT
*
896725 ATTTATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTA
130 ATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTA
896790 ATATTGGTTAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
195 ATATTGGTTAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
896855 TGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
260 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
896919 TTGGTTTGAC
Statistics
Matches: 1203, Mismatches: 35, Indels: 75
0.92 0.03 0.06
Matches are distributed among these distances:
454 147 0.12
455 86 0.07
456 110 0.09
457 24 0.02
458 6 0.00
459 2 0.00
460 4 0.00
461 1 0.00
462 1 0.00
463 3 0.00
466 46 0.04
467 4 0.00
469 1 0.00
471 1 0.00
474 1 0.00
476 1 0.00
477 5 0.00
478 5 0.00
479 291 0.24
480 1 0.00
483 3 0.00
484 1 0.00
485 1 0.00
486 3 0.00
487 1 0.00
488 5 0.00
489 35 0.03
490 342 0.28
491 72 0.06
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (475 bp):
GTAAAGTATCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
GTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTA
TATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAA
TATTGGTTAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
ACATAAATTACATAACTTTAAAAAAAGTATCGATTCTTTTTATAAAAAGTATGGACACTTTCAAT
ATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
TGTAATAGTAGTGCTTATAC
Found at i:896096 original size:23 final size:23
Alignment explanation
Indices: 896065--896114 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
896055 ATAGGTAAAA
* *
896065 ATATGATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
896088 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
896111 ATAT
1 ATAT
896115 TGTAAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:896552 original size:23 final size:23
Alignment explanation
Indices: 896521--896593 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
896511 ATAGGTAAAA
* *
896521 ATATGATGTAATATGTAGTGCTT
1 ATATAATGTAATAAGTAGTGCTT
* * *
896544 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAAGTAGTGCTT
896567 ATATAATGTAATAAGTAGTGCTT
1 ATATAATGTAATAAGTAGTGCTT
896590 ATAT
1 ATAT
896594 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAAGTAGTGCTT
Found at i:897186 original size:21 final size:23
Alignment explanation
Indices: 897161--897299 Score: 176
Period size: 23 Copynumber: 6.2 Consensus size: 23
897151 ATACTTTACA
* *
897161 ATATAAGCACTATCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
897184 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
897207 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
***
897230 ATAT---TTTTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
897250 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
897273 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
897296 ATAT
1 ATAT
897300 TTTTACCTAT
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
20 16 0.16
23 83 0.84
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:897246 original size:66 final size:66
Alignment explanation
Indices: 897174--897311 Score: 276
Period size: 66 Copynumber: 2.1 Consensus size: 66
897164 TAAGCACTAT
897174 CTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
1 CTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
897239 C
66 C
897240 CTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
1 CTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
897305 C
66 C
897306 CTATTA
1 CTATTA
897312 TATTGAAAGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 72 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (66 bp):
CTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
C
Found at i:897253 original size:43 final size:43
Alignment explanation
Indices: 897194--897276 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
897184 ATATAAACGC
*
897194 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTT
1 TACCTATTACATTATATAAACGCTACCTATTACATCATATTTT
*
897237 TACCTATTACATTATATAAACGCTACCTATTACATTATAT
1 TACCTATTACATTATATAAACGCTACCTATTACATCATAT
897277 AAGCGCTACC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (43 bp):
TACCTATTACATTATATAAACGCTACCTATTACATCATATTTT
Found at i:897739 original size:23 final size:23
Alignment explanation
Indices: 897704--897776 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
897694 ATACTTTACA
* *
897704 ATATAAGCACTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
897727 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
897750 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
897773 ATAT
1 ATAT
897777 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:898228 original size:23 final size:23
Alignment explanation
Indices: 898193--898265 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
898183 ATACTTTACA
* *
898193 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
898216 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
898239 ATATAAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
898262 ATAT
1 ATAT
898266 TTTTACCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:898705 original size:23 final size:23
Alignment explanation
Indices: 898679--898742 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
898669 AATATAAGTA
898679 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
*
898702 CTACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
* *
898725 CTACTTATTACATCATAT
1 CTACCTATTACATTATAT
898743 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:899182 original size:23 final size:23
Alignment explanation
Indices: 899147--899219 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
899137 ATACTTTACA
*
899147 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
899170 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
899193 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
899216 ATAT
1 ATAT
899220 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:899657 original size:23 final size:23
Alignment explanation
Indices: 899627--899678 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
899617 ATACTTTACA
899627 ATATAAACACTACCTATTACATT
1 ATATAAACACTACCTATTACATT
* *
899650 ATATAAACGCTTCCTATTACATT
1 ATATAAACACTACCTATTACATT
899673 ATATAA
1 ATATAA
899679 GAGCTAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATAAACACTACCTATTACATT
Found at i:899689 original size:23 final size:23
Alignment explanation
Indices: 899627--899699 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
899617 ATACTTTACA
* *
899627 ATATAAACACTACCTATTACATT
1 ATATAAACGCTAACTATTACATT
**
899650 ATATAAACGCTTCCTATTACATT
1 ATATAAACGCTAACTATTACATT
*
899673 ATATAAGA-GCTAACTATTACATC
1 ATATAA-ACGCTAACTATTACATT
899696 ATAT
1 ATAT
899700 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTAACTATTACATT
Found at i:899761 original size:479 final size:477
Alignment explanation
Indices: 897237--900118 Score: 4909
Period size: 477 Copynumber: 6.0 Consensus size: 477
897227 ATCATATTTT
897237 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
1 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
*
897302 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACATTTTTTAAAGTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTAT
897367 GTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
131 GTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
897432 TTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAA
196 TTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAA
897497 TTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAA
261 TTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAA
* *
897562 TAATAATAAATACAGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
326 TAATAATAAATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
* *
897627 TAAAACTAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATGGACACTTTTATAAAAGGGAT
391 TAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
897692 AGATACTTTACAATATAAGCAC
456 AGATACTTTACAATATAAGCAC
*
897714 TACTTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
1 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
897779 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGGATCGATACTTTTTTTAAAGTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAAGGATCGATACTTTTTTTAAAGTTA
*
897844 TGAAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT
130 TGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT
* * *
897909 AATTTCATTTACAC-AAAAATTATTTTATTGTTTTGACATTTTA-AAAATATTATTTAGAATTTA
194 AATTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTA
897972 AATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTT
259 AATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTT
* *
898037 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
324 AATAATAATAAATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
* * *
898102 CTTAAAATTCACTCAAAAGATAACCTTAAATTAATTTTTTCAACTGTGAAAAAAGTATGGACACT
389 CTT-AAA---A--C------TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
898167 TTTATTAAAAGGATAGATACTTTACAATATAAGCAC
442 TTTATAAAAAGGATAGATACTTTACAATATAAGCAC
*
898203 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTT
1 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
* *
898268 TTACCTATTATATTGAAAGTGCCCATACTTTTTATAAAAAGGATCGATACCTTTTTTAAAGTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTAT
898333 GTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
131 GTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
* *
898398 TTTCATATACACACAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAA
196 TTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAA
898463 TTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAA
261 TTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAA
* *
898528 TAATAATAAAAACCGTAACGTAAAAAATAAATCATTAGTCGCCTATAATTACTAAATTAATATCT
326 TAATAATAAATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
*
898593 TAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGAT
391 TAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
898658 AGATACTTTACAATATAAGTAC
456 AGATACTTTACAATATAAGCAC
*
898680 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACTTATTACATCATATTT
1 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
** *
898745 TTACCTATTATATTGAAAGTG-CCTATACTTTTTATAAAAAAATATCGATACCTTTTTTAAAGTT
66 TTACCTATTATATTGAAAGTGTCC-ATACTTTTTAT-AAAAAGGATCGATACTTTTTTTAAAGTT
898809 ATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAA
129 ATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAA
898874 TAATTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTT
193 TAATTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTT
898939 AAATTTAACAATATTAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATT
258 AAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATT
899002 TAATAATAATAAATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
323 TAATAATAATAAATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
* *
899067 TCTTAAAACTAACCTTAAATTAATGTTTTCTACACTGAAAAAAGTATGGACACTTTTATAAAAAG
388 TCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAG
899132 GATAGATACTTTACAATATAAGCAC
453 GATAGATACTTTACAATATAAGCAC
899157 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
1 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
* * *
899222 TTACCTATTATATTGAAATTGTCCATACTTTTTATAAAAATGATCGATACTTTATTTAAAGTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTAT
* *
899287 GTAATTTATATTTCATTTATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT
131 GTAATTTATGTTTCA-AT-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT
* * *
899352 AATTTCATTTACACAGAAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGAATTTA
194 AATTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTA
899417 AA-TTAACCAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATT
259 AATTTAA-CAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATT
* * *
899481 TAATAATAATATATACCGTAACATAAAAAATAAATAATTAGACGCCTATAATTACTAAATTAATA
323 TAATAATAATAAATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
* *
899546 TCTTAAAACTAACCTTAACTTAATGTTTTCCACAGTGAAAAAAGTATGCACACTTTTATAAAAAA
388 TCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAA
* *
899611 TGATAGATACTTTACAATATAAACAC
452 GGATAGATACTTTACAATATAAGCAC
* * *
899637 TACCTATTACATTATATAAACGCTTCCTATTACATTATATAAGAGCTAACTATTACATCATATTT
1 TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
*
899702 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCTATA-TTTTTTTAAAGTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTAT
899766 GTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
131 GTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
* *
899831 TTTCATTTACACAAAAAATTATTTGATTGTTTTGACATTTTA-AAAATATTATTTAGAATTTAAA
196 TTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAA
899895 TTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAA
261 TTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAA
*
899960 TAATAATATATACCGTAACGTAAAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATCT
326 TAATAATAAATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
*
900024 TAAAACTCACTTAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTT
391 T-AAA---AC--------TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
*
900089 TATAAAAATGATAGATACTTTACAATATAA
444 TATAAAAAGGATAGATACTTTACAATATAA
900119 CAGGTAAAAT
Statistics
Matches: 2281, Mismatches: 85, Indels: 69
0.94 0.03 0.03
Matches are distributed among these distances:
475 37 0.02
476 158 0.07
477 917 0.40
478 122 0.05
479 379 0.17
480 137 0.06
481 1 0.00
483 2 0.00
485 1 0.00
486 27 0.01
487 107 0.05
488 72 0.03
489 321 0.14
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (477 bp):
TACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTAT
GTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
TTTCATTTACACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAA
TTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAA
TAATAATAAATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
TAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCAC
Found at i:906214 original size:3 final size:3
Alignment explanation
Indices: 906206--906305 Score: 100
Period size: 3 Copynumber: 34.0 Consensus size: 3
906196 AACCTATTTG
* * *
906206 TAA TAA TAA TAC TAA TAC TAC TAA TAA TAA TAA TAAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * *
906251 TAA TAA TAA TAA TAG T-A TAAA TAA -AA TAA TAC TAA T-A TAA TAT
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
906294 TAA TAA TAA TAA
1 TAA TAA TAA TAA
906306 AAACAAATGG
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
2 7 0.09
3 69 0.85
4 5 0.06
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Done.