Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_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: 2700559
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 12
Found at i:286761 original size:16 final size:15
Alignment explanation
Indices: 286740--286782 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
286730 TTTGAAAATA
286740 TAATATTATATATTTT
1 TAATATTAT-TATTTT
286756 TAATATTATTA--TT
1 TAATATTATTATTTT
*
286769 TAATATTTTTATTT
1 TAATATTATTATTT
286783 ATTTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.50
15 3 0.12
16 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATATTATTATTTT
Found at i:286774 original size:24 final size:22
Alignment explanation
Indices: 286745--286791 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 22
286735 AAATATAATA
286745 TTATATATTTTTAATATTA-TTAT
1 TTATATATTTTT-AT-TTATTTAT
286768 TTA-ATATTTTTATTTATTTAT
1 TTATATATTTTTATTTATTTAT
286789 TTA
1 TTA
286792 ATTTCATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.13
21 9 0.39
22 8 0.35
23 3 0.13
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATATATTTTTATTTATTTAT
Found at i:288185 original size:15 final size:16
Alignment explanation
Indices: 288156--288186 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
288146 CTTCATTTTA
288156 TTTTATTTTACTTTGT
1 TTTTATTTTACTTTGT
288172 TTTTATTTTA-TTTGT
1 TTTTATTTTACTTTGT
288187 CTCTTTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.03, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTATTTTACTTTGT
Found at i:304308 original size:21 final size:22
Alignment explanation
Indices: 304273--304313 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
304263 TGAAAAATAT
*
304273 CAAGCAAAGCCGGTGTCCCCAC
1 CAAGCAAAGCCGGTGCCCCCAC
*
304295 CAAGC-AAGCTGGTGCCCCC
1 CAAGCAAAGCCGGTGCCCCC
304314 CTTTGACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.24, C:0.41, G:0.24, T:0.10
Consensus pattern (22 bp):
CAAGCAAAGCCGGTGCCCCCAC
Found at i:314721 original size:42 final size:40
Alignment explanation
Indices: 314642--314723 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 40
314632 TCGTACTATT
* * *
314642 ATAATAATATTTTTATTTTAATAAGTAATTGATATAATTA
1 ATAATAATATTTTTATTTTAATAAGAAATTAACATAATTA
314682 ATAATATACTATTTTTATTTTAATAA-AAACTTAACATAATTA
1 ATAATA-A-TATTTTTATTTTAATAAGAAA-TTAACATAATTA
314724 TACTATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 6 0.17
41 3 0.08
42 27 0.75
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (40 bp):
ATAATAATATTTTTATTTTAATAAGAAATTAACATAATTA
Found at i:320141 original size:16 final size:17
Alignment explanation
Indices: 320120--320152 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
320110 ACTATTCACA
320120 TGAATAGTG-AATTTCG
1 TGAATAGTGAAATTTCG
320136 TGAATAGTGAAATTTCG
1 TGAATAGTGAAATTTCG
320153 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (17 bp):
TGAATAGTGAAATTTCG
Found at i:320920 original size:15 final size:16
Alignment explanation
Indices: 320902--320934 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
320892 GTGGTATATC
320902 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
*
320917 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
320933 AA
1 AA
320935 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:333712 original size:39 final size:39
Alignment explanation
Indices: 333669--333754 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
333659 TCACTTGTAG
*
333669 TTGCGCCATTTCCTTTCTTGACGGTATTGACACTCGCAA
1 TTGCGCCATTTCCTTTCTTGACGGTATTGACACTCACAA
*
333708 TTGCGTCATTTCCTTTCTTGACGGTATTGACACTCACAA
1 TTGCGCCATTTCCTTTCTTGACGGTATTGACACTCACAA
333747 TTGCGCCA
1 TTGCGCCA
333755 AGTCTTCCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (39 bp):
TTGCGCCATTTCCTTTCTTGACGGTATTGACACTCACAA
Found at i:336376 original size:7 final size:7
Alignment explanation
Indices: 336364--336389 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
336354 CTGTAAACTT
336364 AAAAATA
1 AAAAATA
336371 AAAAATA
1 AAAAATA
336378 AAAAATA
1 AAAAATA
336385 AAAAA
1 AAAAA
336390 CAGAGAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:336739 original size:12 final size:12
Alignment explanation
Indices: 336724--336755 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
336714 TTTTTTATTT
336724 TTTTTAAATAAA
1 TTTTTAAATAAA
*
336736 TTTTAAAATAAA
1 TTTTTAAATAAA
336748 TTTTTAAA
1 TTTTTAAA
336756 AGATATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTTTAAATAAA
Found at i:337060 original size:6 final size:6
Alignment explanation
Indices: 337049--337074 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
337039 ATTAAAAATA
337049 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
337075 TATATTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:339163 original size:60 final size:60
Alignment explanation
Indices: 339070--339193 Score: 248
Period size: 60 Copynumber: 2.1 Consensus size: 60
339060 TGTGGCTTCC
339070 CCATCTTCACCAAACTCAACAACACGATTGATTGAAGACTGCATTGATTTAGCTGAATTT
1 CCATCTTCACCAAACTCAACAACACGATTGATTGAAGACTGCATTGATTTAGCTGAATTT
339130 CCATCTTCACCAAACTCAACAACACGATTGATTGAAGACTGCATTGATTTAGCTGAATTT
1 CCATCTTCACCAAACTCAACAACACGATTGATTGAAGACTGCATTGATTTAGCTGAATTT
339190 CCAT
1 CCAT
339194 TAAGCTCCTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (60 bp):
CCATCTTCACCAAACTCAACAACACGATTGATTGAAGACTGCATTGATTTAGCTGAATTT
Found at i:343693 original size:101 final size:100
Alignment explanation
Indices: 343555--343745 Score: 294
Period size: 101 Copynumber: 1.9 Consensus size: 100
343545 GAAAATATGC
* **
343555 AACTTCTAAACCTGCTTGCTATACACAAAAGTTCTTGGAACATGTAAATTTACTTGAGCATTTAC
1 AACTTCTAAACCTGCTTGCCATACACAAAAGTTCTTGGAACATGTAAATTTACTCAAGCATTTA-
* *
343620 TT-GGAATCATATTAGGACTATGGTACATACAGATA
65 TTCAGAATCATATTAGGACGATGGTACATACAGATA
*
343655 AACTTCTAAACCTGCTTTGCCATACACAACAGTTCTTGGAACATGTAAATTTACTCAAGCATTTA
1 AACTTCTAAACCTGC-TTGCCATACACAAAAGTTCTTGGAACATGTAAATTTACTCAAGCATTTA
*
343720 TTCATAATCATATTAGGACGATGGTA
65 TTCAGAATCATATTAGGACGATGGTA
343746 TATAGGTAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 17 0.21
101 65 0.79
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (100 bp):
AACTTCTAAACCTGCTTGCCATACACAAAAGTTCTTGGAACATGTAAATTTACTCAAGCATTTAT
TCAGAATCATATTAGGACGATGGTACATACAGATA
Found at i:350005 original size:20 final size:19
Alignment explanation
Indices: 349982--350028 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
349972 CGATATACCA
*
349982 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
350002 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
350022 GGTAAAA
1 GGTAAAA
350029 CGTTATCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:350106 original size:181 final size:182
Alignment explanation
Indices: 349770--350242 Score: 716
Period size: 181 Copynumber: 2.6 Consensus size: 182
349760 GATCCAAATT
* * * *
349770 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCA-AAATGAT
* * * * * *
349834 AAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTTGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATATCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
349899 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
349952 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
* *
350017 AAACCGGTAAAACGTTATCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATATCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
350081 GTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
350133 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
* *
350198 AAACCGGTAAAATGATATCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATATCGGATATATTAAAAGTGTCGATACTTT
350243 CGTAAATACG
Statistics
Matches: 266, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 168 0.63
182 97 0.36
183 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
AAACCGGTAAAACGATATCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:350186 original size:20 final size:19
Alignment explanation
Indices: 350163--350209 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
350153 CGATATAACA
*
350163 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
350183 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
350203 GGTAAAA
1 GGTAAAA
350210 TGATATCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:352449 original size:21 final size:21
Alignment explanation
Indices: 352423--352487 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
352413 AAGACAATCA
*
352423 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
352444 AGAGTCGAAGAGAAATTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
352465 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
352486 AG
1 AG
352488 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:352561 original size:33 final size:33
Alignment explanation
Indices: 352519--352583 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
352509 AAAAATAGAT
*
352519 GTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGAA
1 GTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAA
* *
352552 GTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 GTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
352584 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.49, T:0.23
Consensus pattern (33 bp):
GTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGAA
Found at i:354047 original size:20 final size:20
Alignment explanation
Indices: 354022--354114 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
354012 TTTTCCCAAT
354022 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
354042 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
354062 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
354083 TTGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
354104 TCGCAATGCGA
1 TCGCAATGCGA
354115 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:354064 original size:41 final size:41
Alignment explanation
Indices: 354019--354114 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
354009 CGATTTTCCC
354019 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
* *
354060 AATTCGCAATGCGAATAAGTAAATTGCAATGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
354101 AAATCGCAATGCGA
1 AATTCGCAATGCGA
354115 TACTGACTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:354068 original size:21 final size:21
Alignment explanation
Indices: 354019--354114 Score: 106
Period size: 20 Copynumber: 4.7 Consensus size: 21
354009 CGATTTTCCC
*
354019 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
* **
354040 AA-TCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGGA
*
354060 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
**
354081 AATT-GCAATGCGAATTGGGA
1 AATTCGCAATGCGAATAAGGA
*
354101 AAATCGCAATGCGA
1 AATTCGCAATGCGA
354115 TACTGACTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (21 bp):
AATTCGCAATGCGAATAAGGA
Found at i:354128 original size:20 final size:20
Alignment explanation
Indices: 354103--354197 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
354093 AATTGGGAAA
*
354103 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
354123 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
354144 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
354164 TTCGCAACGTGATACTGACT
1 ATCGCAACGCGATACTGACT
*
354184 TTCGCAACGCGATA
1 ATCGCAACGCGATA
354198 ATACATAATC
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:356069 original size:18 final size:18
Alignment explanation
Indices: 356048--356092 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
356038 TCCATTTCGG
*
356048 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
356066 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
356084 GAGCCATCA
1 GAGCCATCA
356093 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:356619 original size:19 final size:20
Alignment explanation
Indices: 356565--356631 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
356555 TAGTTTACTT
* *
356565 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
356585 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
356605 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
356624 TCGCAACG
1 TCGCAACG
356632 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:356639 original size:14 final size:14
Alignment explanation
Indices: 356620--356677 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
356610 ATGCGAAATG
356620 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
356634 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
356650 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
356666 AAAATCGCAACG
1 AAAATCGCAACG
356678 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:356662 original size:32 final size:33
Alignment explanation
Indices: 356604--356693 Score: 164
Period size: 32 Copynumber: 2.8 Consensus size: 33
356594 GGAAATGGCT
*
356604 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
356637 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
356669 ATCGCAACGCGAAATGAAAATCGCA
1 ATCGCAACGCGAAATGAAAATCGCA
356694 GTGCGATTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.58
33 23 0.42
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:356730 original size:14 final size:14
Alignment explanation
Indices: 356711--356800 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 14
356701 TTGTGTTTCG
356711 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
356725 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
356741 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
356757 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
356773 CGCGTTGTGATTTTGT
1 --CGTTGCGATTTTGT
356789 CGTTGCGATTTT
1 CGTTGCGATTTT
356801 CATTTCGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
14 33 0.53
16 8 0.13
18 21 0.34
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:356745 original size:32 final size:32
Alignment explanation
Indices: 356706--356816 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
356696 GCGATTTGTG
356706 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
356738 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
*
356770 TTTCGCGTTGTGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
356803 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
356817 AGCCATTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 58 0.77
33 17 0.23
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:356815 original size:19 final size:19
Alignment explanation
Indices: 356789--356855 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
356779 GTGATTTTGT
**
356789 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
356808 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
356828 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
356847 CGTTGCGAT
1 CGTTGCGAT
356856 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:356835 original size:20 final size:19
Alignment explanation
Indices: 356801--356855 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
356791 TTGCGATTTT
*
356801 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
356820 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
356840 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
356856 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:358737 original size:14 final size:14
Alignment explanation
Indices: 358718--358753 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
358708 ATTGTTTAAT
358718 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
358732 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
358746 TGATTTGT
1 TGATTTGT
358754 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:358892 original size:19 final size:19
Alignment explanation
Indices: 358870--358937 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
358860 ATCGCAACGA
358870 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
358889 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
358908 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
358922 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
358938 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:358981 original size:20 final size:20
Alignment explanation
Indices: 358956--359012 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
358946 TCGCATTGCG
*
358956 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
358976 ATTTTCGCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
358996 ATTTTCGCATTGCGATA
1 ATTTTCGCGTTGCGATA
359013 GTCAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:359399 original size:14 final size:14
Alignment explanation
Indices: 359380--359415 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
359370 ATTGTTTAAT
359380 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
359394 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
359408 TGATTTGT
1 TGATTTGT
359416 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:359988 original size:14 final size:14
Alignment explanation
Indices: 359969--360004 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
359959 ATTGTTTAAT
359969 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
359983 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
359997 TGATTTGT
1 TGATTTGT
360005 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:360143 original size:19 final size:19
Alignment explanation
Indices: 360121--360188 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
360111 ATCGCAACGA
360121 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
360140 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
360159 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
360173 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
360189 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:360232 original size:20 final size:20
Alignment explanation
Indices: 360216--360283 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
360206 GATTTTCTCG
360216 TTGCGATAACCATTTTCGCA
1 TTGCGATAACCATTTTCGCA
360236 TTGCGATAACCATTTTCGCA
1 TTGCGATAACCATTTTCGCA
360256 TTGCGATAACCATTTTCGCA
1 TTGCGATAACCATTTTCGCA
360276 TTGCGATA
1 TTGCGATA
360284 GTCAAATGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (20 bp):
TTGCGATAACCATTTTCGCA
Found at i:360238 original size:34 final size:35
Alignment explanation
Indices: 360195--360283 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 35
360185 GCGATTTTCA
360195 TTTCGCATTGCGAT-TTTCTCG-TTGCGATAACCAT
1 TTTCGCATTGCGATATTT-TCGATTGCGATAACCAT
360229 TTTCGCATTGCGATAACCATTTTCGCATTGCGATAACCAT
1 TTTCGCATTGCGAT----ATTTTCG-ATTGCGATAACCAT
360269 TTTCGCATTGCGATA
1 TTTCGCATTGCGATA
360284 GTCAAATGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
34 14 0.29
36 1 0.02
38 3 0.06
39 3 0.06
40 27 0.56
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (35 bp):
TTTCGCATTGCGATATTTTCGATTGCGATAACCAT
Found at i:360252 original size:40 final size:40
Alignment explanation
Indices: 360207--360283 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
360197 TCGCATTGCG
* *
360207 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAACC
1 ATTTTCGCATTGCGATAACCATTTTCGCATTGCGATAACC
360247 ATTTTCGCATTGCGATAACCATTTTCGCATTGCGATA
1 ATTTTCGCATTGCGATAACCATTTTCGCATTGCGATA
360284 GTCAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (40 bp):
ATTTTCGCATTGCGATAACCATTTTCGCATTGCGATAACC
Found at i:360669 original size:14 final size:14
Alignment explanation
Indices: 360650--360685 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
360640 ATTGTTTAAT
360650 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
360664 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
360678 TGATTTGT
1 TGATTTGT
360686 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:361257 original size:14 final size:14
Alignment explanation
Indices: 361238--361273 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
361228 ATTGTTTAAT
361238 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
361252 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
361266 TGATTTGT
1 TGATTTGT
361274 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:361847 original size:14 final size:14
Alignment explanation
Indices: 361828--361863 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
361818 ATTGTTTAAT
361828 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
361842 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
361856 TGATTTGT
1 TGATTTGT
361864 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:361976 original size:590 final size:590
Alignment explanation
Indices: 360247--362239 Score: 3868
Period size: 590 Copynumber: 3.4 Consensus size: 590
360237 TGCGATAACC
* *
360247 ATTTTCGCATTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
360312 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
360377 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
360442 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTTAGATGTGTAGGAAGT
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGG-TTTTAGATGTGTAGGAAGT
360507 CTTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTA
260 CTTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTA
360572 CGGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTA--
325 CGGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATT
360635 TTTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTA
390 TTTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTA
360700 CATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAA
455 CATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAA
360765 AACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGC
520 AACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGC
360830 ATTGCG
585 ATTGCG
360836 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
360901 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
360966 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAAC--ATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
361029 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGATGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
* *
361094 TTGTTTGAGAAAATGTTTTGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
361159 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
361224 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
391 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
361289 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
456 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
361354 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
521 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
361419 TTGCG
586 TTGCG
361424 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
*
361489 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAATTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
361554 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
361619 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
361684 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
*
361749 GAGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
361814 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
391 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
361879 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
456 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
361944 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
521 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
362009 TTGCG
586 TTGCG
*
362014 ATTTTCTCGTTGCGATAACCATTTTCGCATTGTGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
362079 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
362144 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
362209 ATATTTGGTTAAGTACCTAGAATTCAATAAT
196 ATGTTTGGTTAAGTACCTAGAATTCAATAAT
362240 AATTGTTAAA
Statistics
Matches: 1387, Mismatches: 13, Indels: 7
0.99 0.01 0.00
Matches are distributed among these distances:
586 145 0.10
587 66 0.05
588 371 0.27
589 169 0.12
590 636 0.46
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (590 bp):
ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
TTGCG
Found at i:363160 original size:24 final size:24
Alignment explanation
Indices: 363104--363162 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
363094 AGTCAGTATT
* *
363104 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
363128 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
363152 CGAATTTTGAT
1 CGAAATTTGAT
363163 GATGTTTCAG
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:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:363354 original size:12 final size:12
Alignment explanation
Indices: 363337--363361 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
363327 ATATAATCCT
363337 GAAGAAGAAAAA
1 GAAGAAGAAAAA
363349 GAAGAAGAAAAA
1 GAAGAAGAAAAA
363361 G
1 G
363362 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:365673 original size:19 final size:19
Alignment explanation
Indices: 365651--365748 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
365641 GGAAATTACT
365651 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
365670 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
365684 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
365703 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
365717 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
365736 ATCGCAACGCGAA
1 ATCGCAATGCGAA
365749 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:365693 original size:33 final size:33
Alignment explanation
Indices: 365651--365744 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
365641 GGAAATTACT
365651 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
365684 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
365717 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
365745 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:365766 original size:19 final size:20
Alignment explanation
Indices: 365744--365786 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
365734 AAATCGCAAC
365744 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* * *
365763 GCGATTTTCATTTTTGCGTT
1 GCGAATTTCAATTTCGCGTT
365783 GCGA
1 GCGA
365787 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:365946 original size:14 final size:14
Alignment explanation
Indices: 365927--365963 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
365917 CATCAATTAA
365927 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
365941 ACAAATCACCTTTT
1 ACAAATCAACTTTT
365955 ACAAATCAA
1 ACAAATCAA
365964 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:367384 original size:21 final size:21
Alignment explanation
Indices: 367318--367384 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
367308 GTGAATCGGG
*
367318 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
367338 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
367360 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
367381 CTCT
1 CTCT
367385 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:367403 original size:42 final size:41
Alignment explanation
Indices: 367318--367440 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
367308 GTGAATCGGG
* * * * *
367318 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
367360 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
367402 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
367441 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:369480 original size:20 final size:19
Alignment explanation
Indices: 369435--369594 Score: 115
Period size: 19 Copynumber: 8.8 Consensus size: 19
369425 TCTTTTGGTT
369435 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* * *
369454 GATAATGAGAATTGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
369475 GAAATGACTATCGCAATGA
1 GAAATGAAAATCGCAACGA
*
369494 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
369508 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
369527 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
369541 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
369560 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
369579 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
369595 TGCGATTTTG
Statistics
Matches: 112, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
14 18 0.16
16 4 0.04
17 4 0.04
19 58 0.52
20 26 0.23
21 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:369517 original size:33 final size:33
Alignment explanation
Indices: 369460--369594 Score: 144
Period size: 33 Copynumber: 3.9 Consensus size: 33
369450 ACGAGATAAT
* *
369460 GAGAATTGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
369494 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
369527 GAGAATCGCAACGCGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA--CG--A
* **
369564 TGAAAATCGCAACGCGAAATGAAAATCGCAA
1 -GAGAATCGCAACGCGAAATGACTATCGCAA
369595 TGCGATTTTG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
33 44 0.49
34 13 0.15
35 2 0.02
37 1 0.01
38 29 0.33
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:369552 original size:19 final size:19
Alignment explanation
Indices: 369530--369599 Score: 131
Period size: 19 Copynumber: 3.7 Consensus size: 19
369520 GCGACGAGAG
369530 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
369549 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
369568 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
369587 AATCGCAATGCGA
1 AATCGCAACGCGA
369600 TTTTGGTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:369617 original size:19 final size:19
Alignment explanation
Indices: 369595--369638 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
369585 AAAATCGCAA
*
369595 TGCGATTTTGGTTTCACGT
1 TGCGATTTTGATTTCACGT
* *
369614 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCACGT
369633 TGCGAT
1 TGCGAT
369639 AGTTATTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGATTTCACGT
Found at i:369657 original size:20 final size:19
Alignment explanation
Indices: 369606--369658 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
369596 GCGATTTTGG
* **
369606 TTTCACGTTGCGATTTTTA
1 TTTCGCGTTGCGATAGTTA
369625 TTTCGCGTTGCGATAGTTA
1 TTTCGCGTTGCGATAGTTA
*
369644 TTTCCGCTTTGCGAT
1 TTT-CGCGTTGCGAT
369659 TTTCATTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTTA
Found at i:370200 original size:18 final size:19
Alignment explanation
Indices: 370177--370214 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
370167 GAATGGCGCT
370177 AAGTAA-ATCGCGTTGCGA
1 AAGTAAGATCGCGTTGCGA
*
370195 AAGTAAGTATCTCGTTGCGA
1 AAGTAAG-ATCGCGTTGCGA
370215 TTTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
AAGTAAGATCGCGTTGCGA
Found at i:370233 original size:21 final size:21
Alignment explanation
Indices: 370200--370259 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
370190 TGCGAAAGTA
* * *
370200 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
370221 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
370241 AGTATCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
370260 CCCAATTCGC
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:370275 original size:41 final size:41
Alignment explanation
Indices: 370183--370277 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
370173 CGCTAAGTAA
* * * ** *
370183 ATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
* *
370224 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
370266 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
370278 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:371101 original size:19 final size:19
Alignment explanation
Indices: 371077--371125 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
371067 AATGTAGGGT
371077 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
371096 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
371115 TAATTTTGTAT
1 TAATTTTGTAT
371126 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:371592 original size:200 final size:200
Alignment explanation
Indices: 371244--372318 Score: 2008
Period size: 200 Copynumber: 5.4 Consensus size: 200
371234 CAATATGGCC
* * *
371244 AACATGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
371309 CCAAAAGTATAATGTTATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
371374 GAATATGTCTAAATAATGTGTCGACACTTTTTCAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
371439 TGGAA
196 TGGAA
371444 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
371509 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCTGTACAAGTATACCTGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
371574 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
371639 TGGAA
196 TGGAA
* *
371644 AACATGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
371708 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
371773 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCATAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
371838 TGGAA
196 TGGAA
* *
371843 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
371908 CCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
371973 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
372038 TGGAA
196 TGGAA
372043 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
372108 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
372173 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
372238 TGAAA
196 TGGAA
372243 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
372308 CCAAAAGTATA
66 CCAAAAGTATA
372319 GGCGTCTAAT
Statistics
Matches: 854, Mismatches: 20, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
199 194 0.23
200 660 0.77
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:372018 original size:399 final size:400
Alignment explanation
Indices: 371244--372318 Score: 2017
Period size: 399 Copynumber: 2.7 Consensus size: 400
371234 CAATATGGCC
* *
371244 AACATGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
371309 CCAAAAGTATAATGTTATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
371374 GAATATGTCTAAATAATGTGTCGACACTTTTTCAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
371439 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
* * *
371504 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCTGTACAAGTATACCTGTTTTA
261 GAAAACCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
371569 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
371634 ATGAATGGAA
391 ATGAATGGAA
*
371644 AACATGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
371708 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
371773 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCATAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
371838 TGGAAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
*
371903 GAAACCCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAAACCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
371968 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
372033 ATGAATGGAA
391 ATGAATGGAA
*
372043 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
372108 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
372173 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
372238 TGAAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
372303 GAAAACCAAAAGTATA
261 GAAAACCAAAAGTATA
372319 GGCGTCTAAT
Statistics
Matches: 656, Mismatches: 18, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
399 388 0.59
400 268 0.41
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (400 bp):
AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
GAAAACCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
ATGAATGGAA
Found at i:372659 original size:23 final size:23
Alignment explanation
Indices: 372629--372696 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
372619 TAAAAAAATG
*
372629 ATGTAATAGGTAACGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
372652 ATGTAATAGGTAGCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
372675 ATGTAATAGGTAGTGCTTATAT
1 ATGTAATAGGTAGCGCTTATAT
372697 TGTAAAGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:373141 original size:23 final size:23
Alignment explanation
Indices: 373110--373168 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
373100 ATATGTAAAA
* *
373110 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAAGTAGCGCTT
* *
373133 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAAGTAGCGCTT
373156 ATATAATGTAATA
1 ATATAATGTAATA
373169 TGTAATGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAAGTAGCGCTT
Found at i:373180 original size:23 final size:23
Alignment explanation
Indices: 373110--373182 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
373100 ATATGTAAAA
* * * *
373110 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAAGTATCGGTT
*
373133 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAAGTATCGGTT
*
373156 ATATAATGTAATATGTAAT-GGTT
1 ATATAATGTAATAAGT-ATCGGTT
373179 ATAT
1 ATAT
373183 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAAGTATCGGTT
Found at i:373299 original size:486 final size:485
Alignment explanation
Indices: 372315--373336 Score: 1778
Period size: 486 Copynumber: 2.1 Consensus size: 485
372305 AAACCAAAAG
372315 TATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAA
1 TATAGGCGTCTAATGATTTATTTTTTACGTTACGG--TATA-TATTATTAAATTAAAAACAATAA
372380 ACATATATATTACATATTTATTATTATAATTGGTTAATATTGTTAAATTTAAATTCTAAATATTA
63 ACA-ATATATTACATATTTATTATTATAATTGGTTAATATTGTTAAATTTAAATTCTAAATATTA
372445 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGC
127 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGC
*
372510 AGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
192 AGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTA
* *
372575 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAAATGATGTAATAGGT
257 TCGATCATTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAAAATGATGTAATAGGT
* *
372640 AACGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGT
322 AACGCTTATATAATGTAATAAGTAGCGTTTATATAATGTAATAGGTAATGCTTATATTGTAAAGT
372705 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
387 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
372770 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
452 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
372804 TATAGGCGTCTAATGATTTATTTTTTTACGTTACGGTATATATTATTAAATTAAAAACAATAAAC
1 TATAGGCGTCTAATGATTTA-TTTTTTACGTTACGGTATATATTATTAAATTAAAAACAATAAAC
* **
372869 -ATATA-TACATATTTATTGTTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTT
65 AATATATTACATATTTATTATTATAATTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTT
*
372932 TATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGG
130 TATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGCAGG
*
372997 TGGAAAACATGAAACACTATTAAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAATTAT
195 TGGAAAACATGAAACACTATT--AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTAT
* * * *
373062 CGATTATTTTTATAAAAAGTATGAACATTTTCAATATAATATGTAAAAATATGATGTAATAGGTA
258 CGATCATTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAAAATGATGTAATAGGTA
* * * *
373127 GCGCTTATATAATGTAATAAGTATCGTTTATATAATGTAATATGTAATGGTTATATTGTAAAGTA
323 ACGCTTATATAATGTAATAAGTAGCGTTTATATAATGTAATAGGTAATGCTTATATTGTAAAGTA
*
373192 TCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
388 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
373257 TTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
453 TTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
**
373290 TATAGGCGTCTAATGATTTATTTTTTACGTTACAATATATATTATTA
1 TATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
373337 TTAAATTAAA
Statistics
Matches: 509, Mismatches: 21, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
484 140 0.28
485 30 0.06
486 275 0.54
487 25 0.05
488 4 0.01
489 20 0.04
490 15 0.03
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (485 bp):
TATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTAAATTAAAAACAATAAACA
ATATATTACATATTTATTATTATAATTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTT
ATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGCAGGT
GGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGA
TCATTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAAAATGATGTAATAGGTAACG
CTTATATAATGTAATAAGTAGCGTTTATATAATGTAATAGGTAATGCTTATATTGTAAAGTATCT
ATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTT
GAGTGAGTTTTAAGATATTAATTTAGTAAT
Found at i:373572 original size:23 final size:23
Alignment explanation
Indices: 373541--373613 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
373531 ATAGGTAAAA
*
373541 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
373564 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
373587 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
373610 ATAT
1 ATAT
373614 TGTAAAGTAT
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:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:380803 original size:16 final size:16
Alignment explanation
Indices: 380779--380826 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
380769 ATTCAAATAT
*
380779 TATACTTTATTTTTAA
1 TATACTTTATTTATAA
*
380795 TATATTTTATTTATAA
1 TATACTTTATTTATAA
380811 TAATAACTTTATTTAT
1 T-AT-ACTTTATTTAT
380827 CATTTGCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 15 0.56
17 2 0.07
18 10 0.37
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TATACTTTATTTATAA
Found at i:381633 original size:31 final size:31
Alignment explanation
Indices: 381573--381633 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
381563 GTATGTAGTG
* **
381573 ATTGATAATATAAGTGATTAAAATTTAATAA
1 ATTGATAATATAAGTGACTAAAACATAATAA
*
381604 ATTGATAATGTAAGTGACTAAAACATAATA
1 ATTGATAATATAAGTGACTAAAACATAATA
381634 TTTCTAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (31 bp):
ATTGATAATATAAGTGACTAAAACATAATAA
Found at i:394515 original size:35 final size:35
Alignment explanation
Indices: 394469--394544 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
394459 AAAACAGTCC
* *
394469 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
394504 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
394539 TCAATT
1 TCAATT
394545 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:395087 original size:130 final size:130
Alignment explanation
Indices: 394941--395188 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
394931 TATTTATATA
* **
394941 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
395006 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
395071 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
395136 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
395189 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:395219 original size:130 final size:129
Alignment explanation
Indices: 394955--395219 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
394945 ATTTGGTCCT
* ** *
394955 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
395020 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
395085 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
395150 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
395214 -A
128 CA
395215 AAATT
1 AAATT
395220 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:395679 original size:16 final size:18
Alignment explanation
Indices: 395658--395691 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
395648 ATTTCTTATT
395658 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
395674 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
395692 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:397164 original size:15 final size:15
Alignment explanation
Indices: 397146--397201 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
397136 TAACCGGTTT
397146 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
397161 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
397178 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
397193 CGATTTTAA
1 CGGTTTTAA
397202 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:397174 original size:17 final size:17
Alignment explanation
Indices: 397149--397199 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
397139 CCGGTTTCGG
397149 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
397166 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
397181 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
397198 TT
1 TT
397200 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:397394 original size:21 final size:21
Alignment explanation
Indices: 397370--397422 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
397360 ACACTTAGGG
397370 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
397391 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
397412 TACCGATTCCC
1 AACCGATTCCC
397423 CCACGCTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:397639 original size:13 final size:13
Alignment explanation
Indices: 397618--397672 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
397608 AAGTTCGATA
*
397618 AATTCAAATACTT
1 AATTGAAATACTT
397631 AATTGAAATACTT
1 AATTGAAATACTT
* *
397644 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
397658 AATTGAAATACTT
1 AATTGAAATACTT
397671 AA
1 AA
397673 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:397754 original size:32 final size:33
Alignment explanation
Indices: 397658--397756 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
397648 AACTCAACAT
* * *
397658 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
397691 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
397724 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
397756 A
1 A
397757 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:401501 original size:22 final size:22
Alignment explanation
Indices: 401476--401539 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
401466 GGTACACACA
401476 CATACATGTATACAAATTATAT
1 CATACATGTATACAAATTATAT
* * *
401498 CATACAAAG-GTACACA--A-A-
1 CATAC-ATGTATACAAATTATAT
401516 CATACATGTATACAAATTATAT
1 CATACATGTATACAAATTATAT
401538 CA
1 CA
401540 AATTCATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
17 2 0.07
18 10 0.33
19 1 0.03
20 2 0.07
21 1 0.03
22 12 0.40
23 2 0.07
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.28
Consensus pattern (22 bp):
CATACATGTATACAAATTATAT
Found at i:401549 original size:46 final size:40
Alignment explanation
Indices: 401444--401539 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
401434 ATCTCCATTA
* * * *
401444 TATATAAATTATATCATGCATAGGTACACACACATACATG
1 TATACAAATTATATCATACAAAGGTACACAAACATACATG
401484 TATACAAATTATATCATACAAAGGTACACAAACATACATG
1 TATACAAATTATATCATACAAAGGTACACAAACATACATG
401524 TATACAAATTATATCA
1 TATACAAATTATATCA
401540 AATTCATACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (40 bp):
TATACAAATTATATCATACAAAGGTACACAAACATACATG
Found at i:402282 original size:21 final size:22
Alignment explanation
Indices: 402244--402284 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
402234 CACCAACGGC
*
402244 ATACAAATTATTTCATACATGT
1 ATACAAATTATATCATACATGT
402266 ATACAAA-TATATCATACAT
1 ATACAAATTATATCATACAT
402285 AGGAACACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (22 bp):
ATACAAATTATATCATACATGT
Found at i:402333 original size:40 final size:40
Alignment explanation
Indices: 402257--402356 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 40
402247 CAAATTATTT
* * *
402257 CATACATGTATACAAA-TATATCATACATAGGAACACACA
1 CATACATGTATACAAATTATAACATACATAGCAACACAAA
* *
402296 CATACATTTATACAAATTATAACATACATAGCTACACAAA
1 CATACATGTATACAAATTATAACATACATAGCAACACAAA
402336 CATACATGTATACAAATTATA
1 CATACATGTATACAAATTATA
402357 TCAAATTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
39 15 0.28
40 39 0.72
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (40 bp):
CATACATGTATACAAATTATAACATACATAGCAACACAAA
Found at i:403811 original size:24 final size:24
Alignment explanation
Indices: 403779--403829 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
403769 GTGTTTTAAC
403779 ATAATTTTTAGATGGACTAATGTG
1 ATAATTTTTAGATGGACTAATGTG
403803 ATAATTTTTAGATGGACTAATGTG
1 ATAATTTTTAGATGGACTAATGTG
403827 ATA
1 ATA
403830 GGTGATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (24 bp):
ATAATTTTTAGATGGACTAATGTG
Found at i:404271 original size:40 final size:40
Alignment explanation
Indices: 404216--404313 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
404206 AGATCTCCAT
* *
404216 TGTATATAAATTATATCATGCATAGGTACA-AACACATACA
1 TGTATACAAATTATATCATACATAGGTACACAA-ACATACA
*
404256 TGTATACAAATTATATCATACATAGGTACACAAACATAGA
1 TGTATACAAATTATATCATACATAGGTACACAAACATACA
404296 TGTATACAAATTATATCA
1 TGTATACAAATTATATCA
404314 AATTCATACA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 52 0.96
41 2 0.04
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (40 bp):
TGTATACAAATTATATCATACATAGGTACACAAACATACA
Found at i:404285 original size:22 final size:22
Alignment explanation
Indices: 404223--404285 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
404213 CATTGTATAT
*
404223 AAATTATATCATGCATAGGTAC
1 AAATTATATCATACATAGGTAC
* *
404245 -AA--ACA-CATACAT-GTATAC
1 AAATTATATCATACATAG-GTAC
404263 AAATTATATCATACATAGGTAC
1 AAATTATATCATACATAGGTAC
404285 A
1 A
404286 CAAACATAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
17 1 0.03
18 9 0.30
19 4 0.13
21 4 0.13
22 11 0.37
23 1 0.03
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATTATATCATACATAGGTAC
Found at i:409127 original size:22 final size:22
Alignment explanation
Indices: 409080--409127 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
409070 AAATTACACA
*
409080 ACTTTTTTAAAAAATATCGATC
1 ACTTTTTTAAAAAATATAGATC
*
409102 -CTTTTTATAAAAAGTATAGA-C
1 ACTTTTT-TAAAAAATATAGATC
409123 ACTTT
1 ACTTT
409128 CAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (22 bp):
ACTTTTTTAAAAAATATAGATC
Found at i:409176 original size:23 final size:23
Alignment explanation
Indices: 409145--409217 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
409135 ATAGGTAAAA
* *
409145 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
409168 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
409191 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
409214 ATAT
1 ATAT
409218 TGTAAAGTAT
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:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:409641 original size:489 final size:489
Alignment explanation
Indices: 408723--410016 Score: 2331
Period size: 489 Copynumber: 2.6 Consensus size: 489
408713 TTTTTACCTG
* * *
408723 TTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
408788 AATTTAAGGTTATCTTTTGTGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
408853 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAAATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
408918 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATA-TTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
408982 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* * *
409047 CACTGTTAAAAAAATTGAAACATAAATTACACAACTTTTTTAAAAAATATCGATCCTTTTTATAA
326 CACTATTAAAAAAATTGAAACATAAATTACACAAC-TTTTAAAAAAATATCGATCATTTTTATAA
*
409112 AAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGT
390 AAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACACTTATATAATGT
409177 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
455 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
409212 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
409277 AATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATAAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
409342 TTATTTTTTATGTTGCGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
409407 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
409472 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
409537 CATTATTAAAAAAATTGAAACATAAATTACATAAC-TTTAAAAAAAGTATCGATCATTTTTATAA
326 CACTATTAAAAAAATTGAAACATAAATTACACAACTTTTAAAAAAA-TATCGATCATTTTTATAA
* *
409601 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGT
390 AAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACACTTATATAATGT
409666 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
455 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
409701 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
409766 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
409831 TTATTTTTTACGTTACAGTATATATTATTATTAAATTAAAAAAAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* *
409896 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTTTAAATAACATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
409961 ACAATCAAATAATTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAA
410017 TATAATACTT
Statistics
Matches: 774, Mismatches: 29, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
488 9 0.01
489 652 0.84
490 113 0.15
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (489 bp):
TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAATTGAAACATAAATTACACAACTTTTAAAAAAATATCGATCATTTTTATAAA
AAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACACTTATATAATGTA
ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:409665 original size:23 final size:23
Alignment explanation
Indices: 409634--409706 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
409624 ATAGGTAAAA
* *
409634 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
409657 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
409680 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
409703 ATAT
1 ATAT
409707 TGTAAAGTAT
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:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:410243 original size:281 final size:281
Alignment explanation
Indices: 409740--410297 Score: 1017
Period size: 281 Copynumber: 2.0 Consensus size: 281
409730 AAAAGTGTCC
409740 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
*
409805 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACAGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACAGTATATATTATTATTAAATTAA
*
409870 AAAAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTT
131 AAAAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
*
409935 TAAATAACATTTTATAAAATATCAAAACAATCAAATAATTTTTTTTGTAAATGAAATTATTAAAT
196 TAAATAACATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
410000 TAATATTGTAGGTGGAATATA
261 TAATATTGTAGGTGGAATATA
* * *
410021 ATACTTTTTTTACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGGGTTTTAATATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
* *
410086 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTGCGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACAGTATATATTATTATTAAATTAA
*
410151 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAAAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
* *
410216 TAAATAATATTTTATAAAATATCAAAACAATCAAATGATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAACATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
410281 TAATATTGTAGGTGGAA
261 TAATATTGTAGGTGGAA
410298 AACATGAAAC
Statistics
Matches: 266, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
281 266 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (281 bp):
ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACAGTATATATTATTATTAAATTAA
AAAAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
TAAATAACATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
TAATATTGTAGGTGGAATATA
Found at i:410435 original size:23 final size:23
Alignment explanation
Indices: 410404--410476 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
410394 ATAGGTAAAA
* *
410404 ATATGATGTAATAGGTGGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
410427 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
410450 ATATAATGTAATAAGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
410473 ATAT
1 ATAT
410477 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:411013 original size:280 final size:281
Alignment explanation
Indices: 410512--411066 Score: 1040
Period size: 280 Copynumber: 2.0 Consensus size: 281
410502 AAGTGTCCAA
410512 ACTTTTTTCACTGTGAAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATT
1 ACTTTTTTCACTGTGAAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATT
410577 TAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATAGATTATTATTAAATTAAAA
66 TAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATAGATTATTATTAAATTAAAA
410642 AAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTATTAAATTTAAATTCTA
131 AAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTATTAAATTTAAATTCTA
410707 AATAATATTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGTAAATGAAATTATTAAATTA
196 AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
410771 ATATTGTAGGTGGAATATAAT
261 ATATTGTAGGTGGAATATAAT
* * *
410792 ACTTTTTTCACTGTGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATT
1 ACTTTTTTCACTGTGAAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATT
* *
410857 TAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAAAA
66 TAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATAGATTATTATTAAATTAAAA
* *
410922 ACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
131 AAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTATTAAATTTAAATTCTA
410987 AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
196 AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
411052 ATATTGTAGGTGGAA
261 ATATTGTAGGTGGAA
411067 AACATGAAAC
Statistics
Matches: 267, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
280 224 0.84
281 43 0.16
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (281 bp):
ACTTTTTTCACTGTGAAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATT
TAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATAGATTATTATTAAATTAAAA
AAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTATTAAATTTAAATTCTA
AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
ATATTGTAGGTGGAATATAAT
Found at i:411028 original size:769 final size:770
Alignment explanation
Indices: 409251--413994 Score: 4669
Period size: 769 Copynumber: 6.0 Consensus size: 770
409241 AAAAGTGTCC
*
409251 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
* *
409316 TTTAGTAATTATAGGCGTCTAATAATTTATTTTTTATGTTGCGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
409381 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
409446 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
*
409511 TAATATTGTAGGTGGAAAACATGAAACATTATTAAAAAAATTGAAACATAAATTACATAACTTTA
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
*
409576 AAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
326 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
*
409641 GTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
391 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
* *
409706 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
456 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCACTGTGAAAAACATTAATTT
*
409771 AAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
521 AAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
*
409836 TTTTACGTTACAGTATATATTATTATTAAATTAAAAAAAATAAACATATATATTACATATTTATT
586 TTTTACGTTACAGTATAGATTATTATTAAATTAAAAAAAATAAACATATATATTACATATTTATT
* *
409901 ATTATCTTTGGTTAATATTGTTAAATTTAAATTTTAAATAACATTTTATAAAATATCAAAACAAT
651 ATTATCTTTGGTTAATATTATTAAATTTAAATTCTAAATAACATTTTATAAAATATCAAAACAAT
*
409966 CAAATAATTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAATATA
716 CAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAATATA
* * *
410021 ATACTTTTTTTACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGGGTTTTAATATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
*
410086 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTGCGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
410151 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
*
410216 TAAATAATATTTTATAAAATATCAAAACAATCAAATGATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
*
410281 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTGAAACATAAATTACATAACTTTA
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
410346 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
326 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
* *
410411 GTAATAGGTGGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAAGTAGTGCTTATA
391 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
410476 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCACTGTGAAAAACATTAATTT
456 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCACTGTGAAAAACATTAATTT
410541 AAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
521 AAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
*
410606 TTTTACGTTACGGTATAGATTATTATTAAATTAAAAAAAATAAACATATATATTACATATTTATT
586 TTTTACGTTACAGTATAGATTATTATTAAATTAAAAAAAATAAACATATATATTACATATTTATT
*
410671 ATTATCTTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAAT
651 ATTATCTTTGGTTAATATTATTAAATTTAAATTCTAAATAACATTTTATAAAATATCAAAACAAT
410736 CAAATAA-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAATATA
716 CAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAATATA
*
410790 ATACTTTTTTCACTGTGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
410855 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
410920 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
410985 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
411050 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
*
411115 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGATACTTTCAATATAATAGGTAAAAATATGAT
326 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
*
411180 GTAATAGGTAGCGCTTATATAATGTAATATGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
391 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
* * * * * * **
411245 TTGTAAAGTATCTAT-C-ATTT-T----GT-T--AAACTATGTTTCAATAT-AACAA-TTTAAGG
456 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACT-TTTTTCACTGTGAAAAACATTAATT
* * ** * * * ** * ** * *
411298 CAAAATGGT-TTTTGGACTTGA-ATTGAATTTA-CAAAATGGT--TT-TTGGAC-T-TGAATTGA
520 TAAGATTATCTTTT-GA-GTGAGTTTTAAGATATTAATTTAGTAATTATAGG-CGTCT-AA-TG-
*
411355 ATTTACAAAATGTTTTTA-GACTTA-A-T-T-GAAT-TTATTCAAAATTTACAAAAATAATTCAA
579 ATTT-----AT-TTTTTACG--TTACAGTATAGATTATTATT--AAA-TTA-AAAAA-AA-T-AA
* * * * ** ** * * * * *
411414 AGTTCTTTTA-ATTTA-AAATTGAGCACAAAAATGTTT-TTATGAATAGTAATTTACTATTTGAA
629 A---CATATATA-TTACATATT---TATTATTATCTTTGGT-T-AATA-TTA-TTA-AATTTAAA
*** * * *** * ** * ** *
411476 CAGTAAATTACTATTTGA-ACTGTTCATCAGCCCAACGGTC--ATAA-TATTTGAATATTATGAA
682 TTCTAAATAAC-ATTTTATA-AAAT-ATCA---AAACAATCAAATAATTTTTTGTGTA-AATGAA
** ** ** * *
411537 GGGGTA-TCGATTCCCTA-TGAAGG-GGTACCGAT-TC
740 --ATTATTAAATT-AATATTGTAGGTGG-A---ATATA
* * *** * * * * * * ****
411571 CTCCCATTCTGGGCAACCTTTTTGAGTAGAAA-AATCATTCCCAAACGGCTCCAAAACATCCCCA
1 AT-AC-TT-TTTTC-A-C--TGTG-G-A-AAACATTAATT---TAA-GG-T---TATC-T-TTTG
* * ** *** * * *
411635 ACG-GCTAGATATGACTTCAAACACATTCCAAGCTA-TAA--ATACAAG-CTAAGGA--CACTTG
46 A-GTG--AG-T-T---TT--AAGATATT--AATTTAGTAATTATAGGCGTCTAATGATTTA-TTT
*** * * * * * * * * * * * * * *
411693 AAGAAGTAAG-AGAACA-ACTATCCAATCAATCAAACACAAGAGA-ATAGT-T-TTTCA-ATCTT
98 TTTACGT-TGCGGTATATATTAT-TATTAAATTAAAAACAATAAACATA-TATATTACATAT-TT
* * * * * ** * * * *
411752 ATTTCATCTTTCTCTT-GTAAATATT-TT---GTT--CTTGTGAGCTCA-ATCTTGT-AAACA-C
159 A-TT-AT-TATCT-TTGGTTAATATTGTTAAATTTAAATTCT-AAATAATATTTTATAAAATATC
** * * * * * * ** *
411807 -CTAC-CTTAGAGAGGTTTTCTTGT-T---T-ACACTTATT--A-TCCTTTTGTAAAGG-GGAAA
219 AAAACAATCAAATA-ATTTT-TTGTGTAAATGA-AATTATTAAATTAATATTGT--AGGTGGAAA
** ** * ** ** ** ** * *
411861 AGTTCTAGCTTAGCCCGTGTAAAAGCTAGGGAAAGGTTC-TAGTTTAGCCCGGAAAAAC--TAGG
279 ACATGAAAC--A--CTAT-TAAAA-AAATTGAAA----CATAAATTA---C---ATAACTTTA-A
* *** ** ** * * * * * * ** *
411923 GAGTTGTAAGGTTATCTCTTTGTCCTCAAAAGAAAGAACAAATTAGTGAAT-TTGTTGG--AAAA
327 AAAAAGTATCG--ATC-CTTT-TTATAAAAAGTATGGAC-ACTT--TCAATATAATAGGTAAAAA
* * * ** * * * * ** * * ** ** * * *
411985 TCCTTGGTG-AGGAGCTAAGGTAGTGGATGTAGACTTTGGTTGATAAAGTCGA-ACCACTCTAAA
385 T--ATGATGTA--A--T-AGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATA-TAATGT-AA
* * * * * * *** * *
412048 TCGCT-GTGCAATTTTCTATCTTTCAA-TCTCCTTACTCCTTAAACACAAAACCATTCCGACCCC
441 TAGGTAGTGC----TTATAT-TGTAAAGTAT-C-TA-TCCTT-TTTA-TAAA--AGT--G-----
* * *
412111 TCTTTGCAAACCGTTTCGGTTGTCGATTCGAGCTTCCGAAAATCCTAACACCTT-TTTATAAAAG
487 TC----CAAA-C-TTT---TT-TC-A--C-TG--T--G-AAA----AACA--TTAATT-TAAGA-
412175 TGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
525 T-T--AT-C----TT---T-T-G---------A------------------GTGAGTTTTAAGAT
* *
412240 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAA
550 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACAGTATAGATTATTATTAA
* * *
412305 ATTAAAACAAATAAACATATATATTACATATTTATTGTTATCTTTGGTTAATATTGTTAAATTTA
615 ATTAAAAAAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTATTAAATTTA
412370 AATTCTAAATAACATTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGTAAATGAAATTAT
680 AATTCTAAATAACATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTAT
412434 TAAATTAATATTGTAGGTGGAATATA
745 TAAATTAATATTGTAGGTGGAATATA
*
412460 ATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
*
412525 TTTAGTAATTATAGGCTTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
412590 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
* *
412655 TAAATAATATTTTATAAAATATCAAAACAATTAAATATTTTTTTTGTGTAAATGAAATTATTAAA
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATA-ATTTTTTGTGTAAATGAAATTATTAAA
*
412720 TTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTT
260 TTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTT
* * *
412785 AAAAAAAATATCGATCCTTTTTATAAAAAATATAGACACTTTCAATATAATAGGTAAAAATATGA
325 AAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGA
*
412850 TGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAAGTAGTGCTTAT
390 TGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTAT
*
412915 ATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAA-ATTAATT
455 ATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCACTGTGAAAAACATTAATT
* *
412979 TAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATTATTTAT
520 TAAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
*
413044 TTTTTACGTTAC-GATATATATTATTATTAAATT-AAAAAAATAAACATATATATTACATATTTA
585 TTTTTACGTTACAG-TATAGATTATTATTAAATTAAAAAAAATAAACATATATATTACATATTTA
*
413107 TTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAACATTTTATAAAATATCAAAACA
649 TTATTATCTTTGGTTAATATTATTAAATTTAAATTCTAAATAACATTTTATAAAATATCAAAACA
*
413172 ATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAATATA
714 ATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAATATA
* *
413229 ATACTTTTTTCACTGTGGAAAATATTAGTTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
413294 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
* *
413359 AAACAATAAACATATATATTACATATTTATTATTATATTTTGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
*
413424 TAAATAATATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
413489 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
413554 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
326 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
*
413619 GTAATAGGTAGCGCTTATATTATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
391 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
* *
413684 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
456 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCACTGTGAAAAACATTAATTT
*
413749 AAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
521 AAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
* * * *
413814 TTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTATATATTTATT
586 TTTTACGTTACAGTATAGATTATTATTAAATTAAAAAAAATAAACATATATATTACATATTTATT
* *
413879 ATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAAT
651 ATTATCTTTGGTTAATATTATTAAATTTAAATTCTAAATAACATTTTATAAAATATCAAAACAAT
*
413944 CAAATGATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAA
716 CAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAA
413995 AACATGAAAC
Statistics
Matches: 3222, Mismatches: 453, Indels: 598
0.75 0.11 0.14
Matches are distributed among these distances:
753 1 0.00
754 6 0.00
755 5 0.00
756 4 0.00
757 9 0.00
758 22 0.01
759 15 0.00
760 12 0.00
761 8 0.00
762 13 0.00
763 5 0.00
764 1 0.00
765 3 0.00
766 1 0.00
767 8 0.00
768 381 0.12
769 960 0.30
770 852 0.26
771 4 0.00
772 2 0.00
773 3 0.00
774 13 0.00
775 6 0.00
776 4 0.00
777 11 0.00
778 7 0.00
779 15 0.00
780 4 0.00
781 2 0.00
782 3 0.00
783 2 0.00
784 2 0.00
785 1 0.00
786 1 0.00
787 1 0.00
788 3 0.00
789 1 0.00
790 6 0.00
791 3 0.00
792 6 0.00
793 12 0.00
794 6 0.00
795 9 0.00
796 1 0.00
797 7 0.00
798 15 0.00
799 11 0.00
800 6 0.00
801 11 0.00
802 10 0.00
803 6 0.00
804 8 0.00
805 13 0.00
806 31 0.01
807 26 0.01
808 11 0.00
809 10 0.00
810 12 0.00
811 21 0.01
812 5 0.00
813 10 0.00
814 5 0.00
816 2 0.00
817 29 0.01
818 6 0.00
820 1 0.00
821 7 0.00
822 6 0.00
823 3 0.00
824 1 0.00
825 2 0.00
826 2 0.00
827 2 0.00
830 3 0.00
831 1 0.00
832 3 0.00
835 1 0.00
836 2 0.00
841 1 0.00
843 3 0.00
845 3 0.00
846 1 0.00
847 5 0.00
848 2 0.00
849 8 0.00
850 9 0.00
851 1 0.00
853 6 0.00
854 29 0.01
855 3 0.00
857 5 0.00
858 8 0.00
859 8 0.00
860 18 0.01
861 10 0.00
862 8 0.00
863 25 0.01
864 33 0.01
865 13 0.00
866 9 0.00
867 5 0.00
868 8 0.00
869 14 0.00
870 6 0.00
871 8 0.00
872 14 0.00
873 15 0.00
874 2 0.00
875 2 0.00
876 10 0.00
877 6 0.00
878 9 0.00
879 9 0.00
880 6 0.00
881 3 0.00
882 3 0.00
884 2 0.00
885 4 0.00
886 2 0.00
887 2 0.00
888 2 0.00
889 2 0.00
890 4 0.00
891 15 0.00
892 7 0.00
893 11 0.00
894 5 0.00
895 6 0.00
896 14 0.00
897 3 0.00
898 1 0.00
899 4 0.00
900 7 0.00
901 1 0.00
902 7 0.00
903 5 0.00
905 3 0.00
906 1 0.00
907 5 0.00
908 10 0.00
909 7 0.00
910 4 0.00
911 5 0.00
912 11 0.00
913 5 0.00
914 4 0.00
915 5 0.00
916 6 0.00
917 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (770 bp):
ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAAACTTTTTTCACTGTGAAAAACATTAATTT
AAGATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
TTTTACGTTACAGTATAGATTATTATTAAATTAAAAAAAATAAACATATATATTACATATTTATT
ATTATCTTTGGTTAATATTATTAAATTTAAATTCTAAATAACATTTTATAAAATATCAAAACAAT
CAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAATATA
Found at i:411136 original size:22 final size:22
Alignment explanation
Indices: 411111--411155 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
411101 ATTACATAAC
*
411111 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGATACTT
* *
411133 TTTATAAAAAGTATGGATACTT
1 TTTAAAAAAAGTATCGATACTT
411155 T
1 T
411156 CAATATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGATACTT
Found at i:411204 original size:23 final size:23
Alignment explanation
Indices: 411173--411245 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
411163 ATAGGTAAAA
*
411173 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
411196 ATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
411219 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
411242 ATAT
1 ATAT
411246 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:411396 original size:31 final size:31
Alignment explanation
Indices: 411298--411388 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
411288 CAATTTAAGG
411298 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
411329 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
*
411360 CAAAAT-GTTTTTAGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
411389 TTCAAAATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 11 0.19
30 11 0.19
31 37 0.63
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:411480 original size:19 final size:19
Alignment explanation
Indices: 411453--411495 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
411443 AATGTTTTTA
* *
411453 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
411472 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
411491 TGAAC
1 TGAAC
411496 TGTTCATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:411557 original size:21 final size:21
Alignment explanation
Indices: 411531--411571 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
411521 ATTTGAATAT
*
411531 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
411552 TATGAAGGGGTACCGATTCC
1 TATGAAGGGGTACCGATTCC
411572 TCCCATTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:411634 original size:21 final size:21
Alignment explanation
Indices: 411601--411640 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
411591 TTTGAGTAGA
*
411601 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
411623 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
411641 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:411894 original size:34 final size:32
Alignment explanation
Indices: 411855--411924 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
411845 TTTTGTAAAG
*
411855 GGGAAAAGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAAGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
411889 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAAGTTCTAGCTTAGCCCGGAAAAACTA
411921 GGGA
1 GGGA
411925 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (32 bp):
GGGAAAAGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:412685 original size:280 final size:281
Alignment explanation
Indices: 412184--412734 Score: 1016
Period size: 280 Copynumber: 2.0 Consensus size: 281
412174 GTGTCCATAC
412184 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA
1 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA
412249 GTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAACA
66 GTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAACA
*
412314 AATAAACATATATATTACATATTTATTGTTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAA
131 AATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAA
412379 TAACATTTTATAAAATATCAAAACAATCAAATA-ATTTTTGTGTAAATGAAATTATTAAATTAAT
196 TAACATTTTATAAAATATCAAAACAATCAAATATATTTTTGTGTAAATGAAATTATTAAATTAAT
412443 ATTGTAGGTGGAATATAATAT
261 ATTGTAGGTGGAATATAATAT
412464 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA
1 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA
* *
412529 GTAATTATAGGCTTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAAAA-A
66 GTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAACA
412593 CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
131 -AATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAA
* * *
412658 ATAATATTTTATAAAATATCAAAACAATTAAATATTTTTTTTGTGTAAATGAAATTATTAAATTA
195 ATAACATTTTATAAAATATCAAAACAATCAAATA-TATTTTTGTGTAAATGAAATTATTAAATTA
412723 ATATTGTAGGTG
259 ATATTGTAGGTG
412735 AAAAACATGA
Statistics
Matches: 262, Mismatches: 6, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
279 1 0.00
280 221 0.84
282 40 0.15
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (281 bp):
TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA
GTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAACA
AATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAA
TAACATTTTATAAAATATCAAAACAATCAAATATATTTTTGTGTAAATGAAATTATTAAATTAAT
ATTGTAGGTGGAATATAATAT
Found at i:412875 original size:23 final size:23
Alignment explanation
Indices: 412844--412916 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
412834 ATAGGTAAAA
*
412844 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
412867 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
412890 ATATAATGTAATAAGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
412913 ATAT
1 ATAT
412917 TGTAAAGTAT
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:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:413479 original size:281 final size:279
Alignment explanation
Indices: 412950--413505 Score: 1004
Period size: 281 Copynumber: 2.0 Consensus size: 279
412940 AAAAGTGTCC
412950 ATACTTTTTTCACTGTGAAAAAATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
1 ATACTTTTTTCACTGTGAAAAAATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
*
413015 TTAGTAATTATAGGCGTCTAATTATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
66 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
*
413080 AAAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
131 AAAATAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTA
*
413145 AATAACATTTTATAAAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTA
196 AATAACATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
413210 ATATTGTAGGTGGAATATA
261 ATATTGTAGGTGGAATATA
* *
413229 ATACTTTTTTCACTGTGGAAAATATTAGTTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGT-GAAAAAATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
* *
413294 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
65 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
*
413359 AAACAATAAACATATATATTACATATTTATTATTATATTTTGTTAATATTGTTAAATTTAAATTC
130 AAA-AATAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTC
* *
413424 TAAATAATATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAAT
194 TAAATAACATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
413489 TAATATTGTAGGTGGAA
259 TAATATTGTAGGTGGAA
413506 AACATGAAAC
Statistics
Matches: 265, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
279 16 0.06
280 111 0.42
281 138 0.52
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.45
Consensus pattern (279 bp):
ATACTTTTTTCACTGTGAAAAAATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
AAAATAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTA
AATAACATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
ATATTGTAGGTGGAATATA
Found at i:413643 original size:23 final size:23
Alignment explanation
Indices: 413612--413685 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
413602 ATAGGTAAAA
*
413612 ATATGATGTAATAGGTAGCGCTT
1 ATATTATGTAATAGGTAGCGCTT
*
413635 ATATTATGTAATAGGTAGCGTTT
1 ATATTATGTAATAGGTAGCGCTT
* *
413658 ATATAATGTAATAGGTAGTGCTT
1 ATATTATGTAATAGGTAGCGCTT
413681 ATATT
1 ATATT
413686 GTAAAGTATC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATTATGTAATAGGTAGCGCTT
Found at i:414132 original size:23 final size:23
Alignment explanation
Indices: 414101--414173 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
414091 ATAGGTAAAA
*
414101 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
414124 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
414147 ATATAATCTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
414170 ATAT
1 ATAT
414174 TGTAAAGTAT
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:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:414622 original size:23 final size:23
Alignment explanation
Indices: 414591--414663 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
414581 ATAGGTAAAA
*
414591 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
**
414614 ATATAATGTAATAGGTAGCATTT
1 ATATAATGTAATAGGTAGCGCTT
*
414637 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
414660 ATAT
1 ATAT
414664 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:414773 original size:490 final size:489
Alignment explanation
Indices: 413229--415060 Score: 3307
Period size: 489 Copynumber: 3.8 Consensus size: 489
413219 GTGGAATATA
* *
413229 ATACTTTTTTCACTGTGGAAAATATTAGTTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
* *
413294 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
* *
413359 AAACAATAAACATATATATTACATATTTATTATTATATTTTGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
*
413424 TAAATAATATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
413489 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
413554 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
326 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
*
413619 GTAATAGGTAGCGCTTATATTATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
391 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
413684 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
456 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
413718 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
*
413783 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
*
413848 AAACAATAAACATATATATTATATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
*
413913 TAAATAATATTTTATAAAATATCAAAACAATCAAATGATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
413978 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
414043 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
326 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
*
414108 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATCTAATAGGTAGTGCTTATA
391 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
414173 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
456 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
414207 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
*
414272 TTTAGTAATTATATGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
*
414337 AAACAATAAACATATATATTACATATTTATTGTTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
*
414402 TAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
* *
414467 TAATATTGTAGGTGGAAAACATGAAATACTATTAAAAAATATTGAAACATAAATTACTTAACTTT
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA-ATTGAAACATAAATTACATAACTTT
414532 AAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGA
325 AAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGA
*
414597 TGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCATTTATATAATGTAATAGGTAGTGCTTAT
390 TGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTAT
* *
414662 ATTGTAAAGTATTTAACCTTTTTATAAAAGTGTCC
455 ATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
* *
414697 ATACTTTTTTCACTATGGAAAACATTAATTTAAGGATATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
*
414762 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACTATATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
* *
414827 AAACAAAAAACATATATATTATATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
* * **
414892 ----TAA-ATTTTATAAAATATCAAAATAATCAAATAAATTTTTGTACAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
* *
414952 TAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAATATAAATTACATAACTTTT
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
* *
415016 AAAAAAGTACCGATCCTTTTTATAAAAAAGTATGAACACTTTCAA
326 AAAAAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAA
415061 CATATTATAA
Statistics
Matches: 1301, Mismatches: 40, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
483 45 0.03
484 25 0.02
485 85 0.07
486 2 0.00
489 771 0.59
490 373 0.29
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (489 bp):
ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
Found at i:414797 original size:979 final size:973
Alignment explanation
Indices: 413229--415060 Score: 3324
Period size: 979 Copynumber: 1.9 Consensus size: 973
413219 GTGGAATATA
* *
413229 ATACTTTTTTCACTGTGGAAAATATTAGTTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
* *
413294 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
*
413359 AAACAATAAACATATATATTACATATTTATTATTATATTTTGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTC
*
413424 TAAATAATATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
413489 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
413554 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
326 AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
* *
413619 GTAATAGGTAGCGCTTATATTATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
391 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCATTTATATAATGTAATAGGTAGTGCTTATA
* *
413684 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
456 TTGTAAAGTATCTAACCTTTTTATAAAAGTGTCCATACTTTTTTCACTATGGAAAACATTAATTT
*
413749 AAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
521 AAGGATATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
* *
413814 TTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTATATATTTATT
586 TTTTACGTTACGATATATATTATTATTAAATTAAAAACAAAAAACATATATATTATATATTTATT
413879 ATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAAT
651 ATTATCTTTGGTTAATATTGTTAAATTTAAATTC----TAA-ATTTTATAAAATATCAAAACAAT
* * **
413944 CAAATGATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
711 CAAATAAATTTTTGTACAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
*
414009 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGT
776 TT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTACCGATCCTTTTTATAAAAAAGT
*
414073 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
840 ATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
414138 GTAGCGTTTATATAATCTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
905 GTAGCGTTTATATAATCTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
414203 GTCC
970 GTCC
414207 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
1 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
*
414272 TTTAGTAATTATATGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
66 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
* *
414337 AAACAATAAACATATATATTACATATTTATTGTTATCTTTGGTTAATATTGTTAAATTTAAATTC
131 AAACAATAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTC
*
414402 TAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
196 TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
* *
414467 TAATATTGTAGGTGGAAAACATGAAATACTATTAAAAAATATTGAAACATAAATTACTTAACTTT
261 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA-ATTGAAACATAAATTACATAACTTT
414532 AAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGA
325 AAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGA
414597 TGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCATTTATATAATGTAATAGGTAGTGCTTAT
390 TGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCATTTATATAATGTAATAGGTAGTGCTTAT
*
414662 ATTGTAAAGTATTTAACCTTTTTATAAAAGTGTCCATACTTTTTTCACTATGGAAAACATTAATT
455 ATTGTAAAGTATCTAACCTTTTTATAAAAGTGTCCATACTTTTTTCACTATGGAAAACATTAATT
414727 TAAGGATATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
520 TAAGGATATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
*
414792 TTTTTACGTTACTATATATATTATTATTAAATTAAAAACAAAAAACATATATATTATATATTTAT
585 TTTTTACGTTACGATATATATTATTATTAAATTAAAAACAAAAAACATATATATTATATATTTAT
*
414857 TATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATTTTATAAAATATCAAAATAATCAAA
650 TATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATTTTATAAAATATCAAAACAATCAAA
414922 TAAATTTTTGTACAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
715 TAAATTTTTGTACAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
* *
414987 AAAATTGAAATATAAATTACATAACTTTTAAAAAAGTACCGATCCTTTTTATAAAAAAGTATGAA
780 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTACCGATCCTTTTTATAAAAAAGTATGAA
415052 CACTTTCAA
845 CACTTTCAA
415061 CATATTATAA
Statistics
Matches: 822, Mismatches: 30, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
973 51 0.06
974 105 0.13
975 3 0.00
978 288 0.35
979 375 0.46
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (973 bp):
ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
AAACAATAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTC
TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAAT
TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTA
AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCATTTATATAATGTAATAGGTAGTGCTTATA
TTGTAAAGTATCTAACCTTTTTATAAAAGTGTCCATACTTTTTTCACTATGGAAAACATTAATTT
AAGGATATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
TTTTACGTTACGATATATATTATTATTAAATTAAAAACAAAAAACATATATATTATATATTTATT
ATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATTTTATAAAATATCAAAACAATCAAAT
AAATTTTTGTACAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTACCGATCCTTTTTATAAAAAAGTATGAAC
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
TTTATATAATCTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
Found at i:415469 original size:53 final size:53
Alignment explanation
Indices: 415401--415509 Score: 164
Period size: 53 Copynumber: 2.1 Consensus size: 53
415391 AACTTATTTT
* * * *
415401 TCAAATATTTTCGAATGCACAACTTATTTTCCAAATGTAACCTATCAATATTA
1 TCAAATATTTTCGAATGCACAACATATTTTCCAAATGCAACATATCAACATTA
* *
415454 TCAAGTATTTTCGAATGCACAACATATTTTTCAAATGCAACATATCAACATTA
1 TCAAATATTTTCGAATGCACAACATATTTTCCAAATGCAACATATCAACATTA
415507 TCA
1 TCA
415510 GATAACATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (53 bp):
TCAAATATTTTCGAATGCACAACATATTTTCCAAATGCAACATATCAACATTA
Found at i:417099 original size:81 final size:81
Alignment explanation
Indices: 417001--418009 Score: 1527
Period size: 81 Copynumber: 12.5 Consensus size: 81
416991 TGAATAATTA
* * * *
417001 TTTGAGTAAAAGATTAATGGCCAAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
*
417066 TGAAATGTTAAATACC
66 TGAAAGGTTAAATACC
* * *
417082 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGACAATTATGTCAATTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
417147 TGAAAGGTTAAATACC
66 TGAAAGGTTAAATACC
* * * *
417163 TTTGAGTAAAATATTAATGGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
417228 TGAAAGGTTAAATACC
66 TGAAAGGTTAAATACC
* *
417244 TTTGAGTAAAATATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
*
417309 TGAAAGTTTAAATACC
66 TGAAAGGTTAAATACC
* * *
417325 TTTGAGTAAAAGATTAATGGTCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCGAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
* *
417390 TGAAATGTTAAATACA
66 TGAAAGGTTAAATACC
* * *
417406 TTTGAGTAAAATATTAATGGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
*
417471 TGAAAGGTTAAATATC
66 TGAAAGGTTAAATACC
* * * * *
417487 TTTGAGTAAAATATTAATGACATTGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
417552 TGAAAGGTTAAATACC
66 TGAAAGGTTAAATACC
* * * *
417568 TTTGAGTAAAATATTAATGGCCTAGCTATGCGTTTGATAGAAATGTGTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
417633 TGAAAGGTTAAATACC
66 TGAAAGGTTAAATACC
* * * * *
417649 TTGGAGTAAAAGATTAATGGCCTAGTTGT-CATTTGACAGAAAAGTGTCAATTATGCCAATTAAA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
*
417713 TGAAAAGTTAAATACC
66 TGAAAGGTTAAATACC
*** *
417729 TTTGAGTAAAAGATTAATGAATTAGCTATGCATTTGACAGAAATG-GTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
417793 TGAAAGGTTAAATACC
66 TGAAAGGTTAAATACC
* * *
417809 ATTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
417874 TGAAAGGTTAAATACC
66 TGAAAGGTTAAATACC
* * * * *
417890 TTTGAGTAAAAGATTAATGACCTTGTTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
417955 TGAAAGGTTAAATACC
66 TGAAAGGTTAAATACC
* *
417971 TTTGAGTAAAAGATTAATGACCTAGTTGTGCATTTGACA
1 TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACA
418010 TAAGGGTTAA
Statistics
Matches: 846, Mismatches: 80, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
80 138 0.16
81 708 0.84
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (81 bp):
TTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
TGAAAGGTTAAATACC
Found at i:417438 original size:243 final size:243
Alignment explanation
Indices: 417001--418659 Score: 1807
Period size: 243 Copynumber: 7.1 Consensus size: 243
416991 TGAATAATTA
* * * * *
417001 TTTGAGTAAAAGATTAATGGCCAAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGA
1 TTTGAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
* * *
417066 TGAAATGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGAC
66 TGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAATGTGTC
* * * * *
417131 AATTATGTCAATTAGATGAAAGGTTAAATACCTTTGAGTAAAATATTAATGGTCTAGCTGTGCAT
131 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCAT
417196 TTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
196 TTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
*
417244 TTTGAGTAAAATATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
* *
417309 TGAAAGTTTAAATACCTTTGAGTAAAAGATTAATGGTCTAACTGTGCATTTGACAGAAATGTGTC
66 TGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAATGTGTC
* * * *
417374 AATTATGCGAGTTAGATGAAATGTTAAATACATTTGAGTAAAATATTAATGGCCTAGATGTGCAT
131 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCAT
* *
417439 TTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATATC
196 TTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
* * * *
417487 TTTGAGTAAAATATTAATGACATTGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
* * * * *
417552 TGAAAGGTTAAATACCTTTGAGTAAAATATTAATGGCCTAGCTATGCGTTTGATAGAAATGTGTC
66 TGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAATGTGTC
* *
417617 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTGGAGTAAAAGATTAATGGCCTAGTTGT-CAT
131 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCAT
* * * * *
417681 TTGACAGAAAAGTGTCAATTATGCCAATTAAATGAAAAGTTAAATACC
196 TTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
** *
417729 TTTGAGTAAAAGATTAATGAATTAGCTATGCATTTGACAGAAATG-GTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
* *
417793 TGAAAGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAAGGTGTC
66 TGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAATGTGTC
* * *
417858 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGACCTTGTTGTGCAT
131 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCAT
417923 TTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
196 TTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
* * * * *
417971 TTTGAGTAAAAGATTAATGACCTAGTTGTGCATTTGACA-TAA-GGGTTAA--ATACC--TT---
1 TTTGAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
* * * *
418027 TG--A-G-TAAA-A-----GA-T-TAA-T-----GGCCTAATTGTGCATTTGACAGAAAGGTGTC
66 TGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAATGTGTC
* * *
418074 AATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCAT
131 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCAT
* * * * * * * * * *
418139 TTGACAGAAAGGT-T-AAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCA
196 TTGACAGAAAGGTGTCAATTA--TGTCAGT--TAGATGAAAGG-TTAA--ATACC
* * * * * * *
418192 TTTGACCG-AAATG-TGT--CGA-TTA--TGT-CAGTTAGA-TGAAA-G-GTTAA--ATACC---
1 TTTGA--GTAAAAGAT-TAATGACCTAGCTGTGCA-TTTGACAGAAATGTGTCAATTATGCCAGT
** * **
418241 T-G-TG--A-G-TAAA-A-GATT-AAT-----------GGCCTAGTTGTGCATTTGACAGAAATG
62 TAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAATG
*
418286 TGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCATAGATGT
127 TGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGT
* * ** * *
418351 CCATTTGGCAGAAAAATGTCAATTATTTTAGTTAGATGAAAGGTTAAATACC
192 GCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
* * * *
418403 TTTGAGTAAAAGATTAATGGCCTAGCTATGCATTTTACAGAAAGGTGTCAATTATGCCAGTTAGA
1 TTTGAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
* * * *
418468 TGAAAGGTTAAATATCTTTGAGTAAAAGATTAATGGCGTAGCTGTGCATTTGACAGAAAGGTGTC
66 TGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAATGTGTC
**
418533 AATTATGCTTGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCAT
131 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCAT
* * * * *
418598 TTGACAGAAATGTATCAATTATGCCCGTTAGATGAAAGATTAAATA-C
196 TTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
418645 TTCTGATGTAAAAGA
1 TT-TGA-GTAAAAGA
418660 CTAAATGATT
Statistics
Matches: 1215, Mismatches: 141, Indels: 119
0.82 0.10 0.08
Matches are distributed among these distances:
209 1 0.00
210 5 0.00
211 8 0.01
212 1 0.00
213 5 0.00
214 12 0.01
215 7 0.01
216 241 0.20
217 12 0.01
218 16 0.01
219 6 0.00
220 7 0.01
221 8 0.01
222 7 0.01
223 3 0.00
224 3 0.00
225 2 0.00
227 1 0.00
228 1 0.00
229 5 0.00
230 5 0.00
231 3 0.00
232 3 0.00
234 2 0.00
237 2 0.00
239 4 0.00
240 1 0.00
241 141 0.12
242 168 0.14
243 527 0.43
244 8 0.01
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (243 bp):
TTTGAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGA
TGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAATGTGTC
AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCAT
TTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACC
Found at i:418024 original size:54 final size:54
Alignment explanation
Indices: 417960--418063 Score: 190
Period size: 54 Copynumber: 1.9 Consensus size: 54
417950 TTAGATGAAA
*
417960 GGTTAAATACCTTTGAGTAAAAGATTAATGACCTAGTTGTGCATTTGACATAAG
1 GGTTAAATACCTTTGAGTAAAAGATTAATGACCTAATTGTGCATTTGACATAAG
*
418014 GGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACA
1 GGTTAAATACCTTTGAGTAAAAGATTAATGACCTAATTGTGCATTTGACA
418064 GAAAGGTGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.34
Consensus pattern (54 bp):
GGTTAAATACCTTTGAGTAAAAGATTAATGACCTAATTGTGCATTTGACATAAG
Found at i:418063 original size:135 final size:134
Alignment explanation
Indices: 417875--418283 Score: 710
Period size: 135 Copynumber: 3.0 Consensus size: 134
417865 CCAGTTAGAT
* **
417875 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGACCTTGTTGTGCATTTGACAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCA
417940 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGACCTAGTTGTGCATT
66 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATG-CCTAGTTGTGCATT
418005 TGACA
130 TGACA
* *
418010 TAAGGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCA
418075 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATT
66 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAA-TGCCTAGTTGTGCATT
418140 TGACA
130 TGACA
* * *
418145 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACCGAAATGTGTCG
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCA
*
418210 ATTATGTCAGTTAGATGAAAGGTTAAATACCTGTGAGTAAAAGATTAATGGCCTAGTTGTGCATT
66 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAAT-GCCTAGTTGTGCATT
418275 TGACA
130 TGACA
418280 GAAA
1 GAAA
418284 TGTGTCAATT
Statistics
Matches: 261, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
134 1 0.00
135 258 0.99
136 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (134 bp):
GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCA
ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGCCTAGTTGTGCATTT
GACA
Found at i:418155 original size:54 final size:54
Alignment explanation
Indices: 418091--418202 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
418081 TCAGTTAGAT
* *
418091 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGACA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACA
*
418145 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACC
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACA
418199 GAAA
1 GAAA
418203 TGTGTCGATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (54 bp):
GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACA
Found at i:418230 original size:81 final size:80
Alignment explanation
Indices: 418145--418659 Score: 717
Period size: 81 Copynumber: 6.3 Consensus size: 80
418135 GCATTTGACA
* *
418145 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACCGAAATGTGTCG
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAA-TGTGCATTTGACAGAAATGTGTCA
*
418210 ATTATGTCAGTTAGAT
65 ATTATGCCAGTTAGAT
* *
418226 GAAAGGTTAAATACCTGTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA-ATGTGCATTTGACAGAAATGTGTCA
418291 ATTATGCCAGTTAGAT
65 ATTATGCCAGTTAGAT
* * * **
418307 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCATAGATGTCCATTTGGCAGAAAAATGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA-ATGTGCATTTGACAGAAATGTGTCA
***
418372 ATTATTTTAGTTAGAT
65 ATTATGCCAGTTAGAT
* * * *
418388 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTATGCATTTTACAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA-ATGTGCATTTGACAGAAATGTGTCA
418453 ATTATGCCAGTTAGAT
65 ATTATGCCAGTTAGAT
* * * *
418469 GAAAGGTTAAATATCTTTGAGTAAAAGATTAATGGCGTAGCTGTGCATTTGACAGAAAGGTGTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA-ATGTGCATTTGACAGAAATGTGTCA
**
418534 ATTATGCTTGTTAGAT
65 ATTATGCCAGTTAGAT
*
418550 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATGTATCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA-ATGTGCATTTGACAGAAATGTGTCA
*
418615 ATTATGCCCGTTAGAT
65 ATTATGCCAGTTAGAT
*
418631 GAAAGATTAAATA-CTTCTGATGTAAAAGA
1 GAAAGGTTAAATACCTT-TGA-GTAAAAGA
418660 CTAAATGATT
Statistics
Matches: 391, Mismatches: 40, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
80 3 0.01
81 380 0.97
82 8 0.02
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (80 bp):
GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATGTGCATTTGACAGAAATGTGTCAA
TTATGCCAGTTAGAT
Found at i:418236 original size:216 final size:213
Alignment explanation
Indices: 417714--418364 Score: 773
Period size: 216 Copynumber: 3.0 Consensus size: 213
417704 CCAATTAAAT
* * * *
417714 GAAAAGTTAAATACCTTTGAGTAAAAGATTAATGAATTAGCTATGCATTTGACAGAAATG-GTCA
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATG-GTTA-ATATGCATTTGAC-GAAATGTGTCG
* * *
417778 ATTATGCCAGTTAGATGAAAGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAACTGTGCATT
63 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATT
417843 TGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAA-
128 TGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAAT
*
417907 TGACCTTGTTGTGCATTTGACA
193 TG-CCTAGTTGTGCATTTGACA
* * * * * * * * *
417929 GAAAGGTGTCAATTA--TGTCAGT--TAGATGAAAGGTTAA-ATACCTTTGA-GTAAAAGAT-TA
1 GAAAGGT-T-AAATACCTTTGAGTAAAAGATTAATGGTTAATATGCATTTGACG-AAATG-TGT-
* * * * *
417987 ATGACCTAGTTGTGCATTTGACAT-AAGGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAAT
61 -CGA-TTA--TGT-CAGTT-AGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAAT
*
418051 TGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
120 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
418116 AGATTAATTGCCTAGTTGTGCATTTGACA
185 AGATTAATTGCCTAGTTGTGCATTTGACA
* *
418145 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACCGAAATGTGTCG
1 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGG-TTAA-TATGCATTTGA-CGAAATGTGTCG
* *
418210 ATTATGTCAGTTAGATGAAAGGTTAAATACCTGTGAGTAAAAGATTAATGGCCTAGTTGTGCATT
63 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATT
*
418275 TGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAAT
128 TGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAAT
* * * * *
418340 GGCATAGATGTCCATTTGGCA
193 TGCCTAGTTGTGCATTTGACA
418361 GAAA
1 GAAA
418365 AATGTCAATT
Statistics
Matches: 364, Mismatches: 48, Indels: 47
0.79 0.10 0.10
Matches are distributed among these distances:
208 1 0.00
209 4 0.01
210 9 0.02
212 4 0.01
213 9 0.02
214 4 0.01
215 17 0.05
216 275 0.76
217 12 0.03
218 8 0.02
219 5 0.01
220 2 0.01
221 8 0.02
222 5 0.01
223 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (213 bp):
GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGTTAATATGCATTTGACGAAATGTGTCGATT
ATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGA
CAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGC
CTAGTTGTGCATTTGACA
Found at i:418448 original size:216 final size:215
Alignment explanation
Indices: 417794--418448 Score: 788
Period size: 216 Copynumber: 3.0 Consensus size: 215
417784 CCAGTTAGAT
*
417794 GAAAGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAACTGTGCATTTGACAGAAAGGTGTCA
1 GAAAGGTTAAATACC-TTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCA
* *
417859 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGACCTTGTTGTGCATT
65 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTGTGCATT
** * *
417924 TGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAAT
130 TGACAGAAAAATGTCAATTATTTTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAAT
* * *
417989 GACCTAGTTGTGCATTTGACA
195 GGCCTAGTTATGCATTTTACA
* *
418010 TAAGGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCA
1 GAAAGGTTAAATACC-TTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCA
* *
418075 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATT
65 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTGTGCATT
* * * * * * * * * ***
418140 TGACAG--AAAGGTTAAATACCTTT-G--AG-TAAAAGATT-AATGGCCTAATTGTGCATTTGAC
130 TGACAGAAAAATGTCAATTA-TTTTAGTTAGATGAAAGGTTAAAT-ACCT--TTGAGTAAAAGA-
** * * * *
418198 CGAAATGTGTCGA-TTATGTCA-GTTAGA
190 -TTAATG-GCCTAGTTATG-CATTTTACA
* *
418225 TGAAAGGTTAAATACCTGTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAATGTGTC
1 -GAAAGGTTAAATACCT-TGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTC
* * *
418290 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCATAGATGTCCAT
64 AATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTGTGCAT
*
418355 TTGGCAGAAAAATGTCAATTATTTTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAA
129 TTGACAGAAAAATGTCAATTATTTTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAA
*
418420 TGGCCTAGCTATGCATTTTACA
194 TGGCCTAGTTATGCATTTTACA
418442 GAAAGGT
1 GAAAGGT
418449 GTCAATTATG
Statistics
Matches: 358, Mismatches: 62, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
210 3 0.01
211 10 0.03
212 2 0.01
213 7 0.02
214 8 0.02
215 13 0.04
216 268 0.75
217 15 0.04
218 10 0.03
219 7 0.02
220 2 0.01
221 10 0.03
222 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (215 bp):
GAAAGGTTAAATACCTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGACAGAAAGGTGTCAA
TTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTT
GACAGAAAAATGTCAATTATTTTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATG
GCCTAGTTATGCATTTTACA
Found at i:419745 original size:23 final size:23
Alignment explanation
Indices: 419719--419787 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
419709 CACCACAACT
*
419719 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
419742 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
419765 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
419788 TATAAGGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:432696 original size:12 final size:12
Alignment explanation
Indices: 432679--432706 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
432669 AATGGTCAAC
432679 GGTCAACGGTCG
1 GGTCAACGGTCG
432691 GGTCAACGGTCG
1 GGTCAACGGTCG
432703 GGTC
1 GGTC
432707 GGGTAAGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:433640 original size:2 final size:2
Alignment explanation
Indices: 433633--433671 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
433623 TGTTGTCATA
433633 AT 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 AT A
433672 GTTTTTCTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.