Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_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: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 30
Found at i:3416434 original size:14 final size:14
Alignment explanation
Indices: 3416388--3416434 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3416378 TCGATGGCTT
3416388 GGCTCAAGTCGATC
1 GGCTCAAGTCGATC
* * * *
3416402 GGCTCGA-TGGCTT
1 GGCTCAAGTCGATC
3416415 GGCTCAAGTCGATC
1 GGCTCAAGTCGATC
3416429 GGCTCA
1 GGCTCA
3416435 GCTAAAAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (14 bp):
GGCTCAAGTCGATC
Found at i:3416472 original size:23 final size:23
Alignment explanation
Indices: 3416445--3416490 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3416435 GCTAAAAAAT
3416445 GACTCAGCTCACAC-GACTCAAAC
1 GACTCAGCTCACACAG-CTCAAAC
*
3416468 GACTCAGCTTACACAGCTCAAAC
1 GACTCAGCTCACACAGCTCAAAC
3416491 TACTTGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.35, C:0.37, G:0.13, T:0.15
Consensus pattern (23 bp):
GACTCAGCTCACACAGCTCAAAC
Found at i:3416826 original size:60 final size:60
Alignment explanation
Indices: 3416732--3416854 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
3416722 TTTTTTAAAT
3416732 CAATCGAACTTTTTCCAACGATGGACAGTGGAGGTACGACAATGGAGTGACGACTTGGGA
1 CAATCGAACTTTTTCCAACGATGGACAGTGGAGGTACGACAATGGAGTGACGACTTGGGA
*
3416792 CAATCGAACTTTTTCCAACGATGGACAGTTGAGGTACGACAATGGAGTGACGACTTGGGA
1 CAATCGAACTTTTTCCAACGATGGACAGTGGAGGTACGACAATGGAGTGACGACTTGGGA
3416852 CAA
1 CAA
3416855 AATCAAACAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (60 bp):
CAATCGAACTTTTTCCAACGATGGACAGTGGAGGTACGACAATGGAGTGACGACTTGGGA
Found at i:3417264 original size:20 final size:21
Alignment explanation
Indices: 3417239--3417290 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3417229 TTTTCCCAAT
*
3417239 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3417259 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
3417280 TCGCAATGCGA
1 TCGCAATGCGA
3417291 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:3417304 original size:20 final size:20
Alignment explanation
Indices: 3417279--3417392 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 20
3417269 AATTGGGAAA
*
3417279 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
3417299 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
** * * * *
3417319 ATTTCAATGTGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
3417340 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
3417360 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
3417380 TTCGCAACGCGAT
1 ATCGCAACGCGAT
3417393 TTACATAGCG
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
19 2 0.03
20 61 0.80
21 11 0.14
22 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:3417393 original size:20 final size:20
Alignment explanation
Indices: 3417341--3417393 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3417331 TAATACAAAA
* *
3417341 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
3417361 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
3417381 TCGCAACGCGATT
1 TCGCAACGCGATT
3417394 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:3417978 original size:19 final size:19
Alignment explanation
Indices: 3417945--3417989 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
3417935 GCAACGAGAG
* * *
3417945 AATCGCAATGTGAAATAAA
1 AATCGCAACGCGAAACAAA
*
3417964 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
3417983 AATCGCA
1 AATCGCA
3417990 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:3418007 original size:19 final size:19
Alignment explanation
Indices: 3417985--3418130 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
3417975 GAAACCAAAA
*
3417985 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3418004 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3418023 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
3418037 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
3418056 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
3418070 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
3418089 TCCACGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
3418109 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
3418129 TC
1 TC
3418131 AACCAAAAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 19 0.19
16 4 0.04
17 5 0.05
19 41 0.41
20 31 0.31
21 1 0.01
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3418055 original size:33 final size:33
Alignment explanation
Indices: 3418018--3418105 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
3418008 GTTGCGATTT
3418018 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
3418051 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
3418084 TCATTTCCACGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
3418106 ATTATCTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 38 0.73
34 14 0.27
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:3418107 original size:20 final size:20
Alignment explanation
Indices: 3418073--3418130 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
3418063 GCGATTCTCT
**
3418073 CGTTGCGATAGTCATTTCCA
1 CGTTGCGATTCTCATTTCCA
*
3418093 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCA
*
3418113 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
3418131 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCA
Found at i:3419251 original size:16 final size:16
Alignment explanation
Indices: 3419230--3419265 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3419220 AATAGTAGAC
3419230 GTTTAACTTTGTTTGA
1 GTTTAACTTTGTTTGA
3419246 GTTTAACTTTGTTTGA
1 GTTTAACTTTGTTTGA
3419262 GTTT
1 GTTT
3419266 TTATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.58
Consensus pattern (16 bp):
GTTTAACTTTGTTTGA
Found at i:3420009 original size:91 final size:90
Alignment explanation
Indices: 3419833--3420015 Score: 264
Period size: 91 Copynumber: 2.0 Consensus size: 90
3419823 TAGATTGGTT
* *
3419833 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCAGTTGCTACCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
3419898 GTCTTTTTGTTTTGTCTTTTGGTTGA
66 GTC-TTTTGTTTTGTCTTTTGGTTGA
* *
3419924 AGTAAATTTATTCAGTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCAGTTGCTACCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
3419989 ATTTGTC-TTTGTTTT-T-TTTTGGTTGA
62 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
3420015 A
1 A
3420016 AGTTTGAAAT
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
91 44 0.52
92 1 0.01
93 11 0.13
94 2 0.02
95 26 0.31
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (90 bp):
AGTAAATTTATTCAGTTGCTACCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTGTTTTGTCTTTTGGTTGA
Found at i:3420313 original size:42 final size:42
Alignment explanation
Indices: 3420237--3420439 Score: 194
Period size: 42 Copynumber: 4.8 Consensus size: 42
3420227 GACTCGCCTG
* * * * * * *
3420237 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
3420279 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * * * * * *
3420321 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* *
3420363 TCATTCCTCGAGAGTCCCTTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
3420405 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
3420440 CCCTATTCAC
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
41 4 0.03
42 124 0.95
43 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:3420397 original size:21 final size:21
Alignment explanation
Indices: 3420373--3420443 Score: 51
Period size: 21 Copynumber: 3.4 Consensus size: 21
3420363 TCATTCCTCG
3420373 AGAGTCCCTTCCCACCGTTCA
1 AGAGTCCCTTCCCACCGTTCA
* * *
3420394 AGAGGCCACTGT--CATCGTTGA
1 AGAGTCC-CT-TCCCACCGTTCA
*
3420415 AGAGGTCCC-TCCCACCATTCA
1 AGA-GTCCCTTCCCACCGTTCA
3420436 AGAG-CCCT
1 AGAGTCCCT
3420444 ATTCACATGG
Statistics
Matches: 37, Mismatches: 7, Indels: 13
0.65 0.12 0.23
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 26 0.70
22 5 0.14
23 1 0.03
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.21
Consensus pattern (21 bp):
AGAGTCCCTTCCCACCGTTCA
Found at i:3420418 original size:84 final size:84
Alignment explanation
Indices: 3420234--3420409 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
3420224 CCCGACTCGC
3420234 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
3420299 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
*
3420318 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCTT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
3420383 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
3420402 CTGTCATC
1 CTGTCATC
3420410 GTTGAAGAGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:3420439 original size:84 final size:84
Alignment explanation
Indices: 3420234--3420439 Score: 288
Period size: 84 Copynumber: 2.5 Consensus size: 84
3420224 CCCGACTCGC
* * * *
3420234 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
3420299 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * * * *
3420318 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCTT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
3420383 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** *
3420402 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
3420440 CCCTATTCAC
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
84 109 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:3421806 original size:14 final size:14
Alignment explanation
Indices: 3421787--3421822 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3421777 ATTGTTTAAT
3421787 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3421801 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3421815 TGATTTGT
1 TGATTTGT
3421823 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3421953 original size:19 final size:19
Alignment explanation
Indices: 3421929--3421995 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
3421919 AAAAAGTACT
*
3421929 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
3421948 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
3421962 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
3421981 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
3421996 TAAATTCTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 25 0.61
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:3422044 original size:33 final size:32
Alignment explanation
Indices: 3422002--3422126 Score: 171
Period size: 33 Copynumber: 3.8 Consensus size: 32
3421992 AAATTAAATT
3422002 CTCGTTGCGATTTTCATTTCGCATTGCGATTCC
1 CTCGTTGCGATTTTCATTTCGCATTGCGATT-C
*
3422035 CTCGTTGCGATTTTCATTTCGCATTGCAAAATT-
1 CTCGTTGCGATTTTCATTTCGCATTGC--GATTC
** *
3422068 AGCGTTGCGATTTTCATTTCACATTGCGATTC
1 CTCGTTGCGATTTTCATTTCGCATTGCGATTC
3422100 TCTCGTTGCGATTTTCATTTCGCATTG
1 -CTCGTTGCGATTTTCATTTCGCATTG
3422127 TGATAGTAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
31 3 0.04
33 74 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (32 bp):
CTCGTTGCGATTTTCATTTCGCATTGCGATTC
Found at i:3424105 original size:20 final size:20
Alignment explanation
Indices: 3424058--3424107 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
3424048 GAGATAATAC
3424058 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
3424078 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
3424098 AAAATCGCAA
1 AAAATCGCAA
3424108 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:3424396 original size:20 final size:20
Alignment explanation
Indices: 3424321--3424388 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
3424311 CAACAGGGAA
3424321 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
3424341 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
3424361 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
3424381 ATCGCAAC
1 ATCGCAAC
3424389 TAGAAAATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:3424400 original size:34 final size:34
Alignment explanation
Indices: 3424305--3424408 Score: 111
Period size: 40 Copynumber: 2.9 Consensus size: 34
3424295 ATTCATTTGA
*
3424305 CTATCGCAACAGGGAAATCGCAACGCGAAAATGG
1 CTATCGCAACAGGAAAATCGCAACGCGAAAATGG
*
3424339 CTATCGCAATTCGAAATGAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C---A-GGAAAATCGCAACGCGAAAATGG
*
3424379 CTATCGCAACTA-GAAAATCGCAATGCGAAA
1 CTATCGCAAC-AGGAAAATCGCAACGCGAAA
3424409 TGAATCGCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
34 25 0.42
36 2 0.03
38 1 0.02
39 1 0.02
40 30 0.51
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.15
Consensus pattern (34 bp):
CTATCGCAACAGGAAAATCGCAACGCGAAAATGG
Found at i:3424584 original size:14 final size:14
Alignment explanation
Indices: 3424565--3424601 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3424555 CATCAATTAA
3424565 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
3424579 ACAAATCATCTTTT
1 ACAAATCAACATTT
3424593 ACAAATCAA
1 ACAAATCAA
3424602 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:3426492 original size:20 final size:20
Alignment explanation
Indices: 3426469--3426542 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
3426459 GAAACTTAAA
3426469 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCAAAAATGACT
* ** *
3426489 ATCGCAATGCGGAAATGGCT
1 ATCGCAACGCAAAAATGACT
* * **
3426509 ATCGCAATGC-GAAATGAAA
1 ATCGCAACGCAAAAATGACT
3426528 ATCGCAACGACAAAA
1 ATCGCAACG-CAAAA
3426543 TCGCAATGCG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.33
20 27 0.63
21 2 0.05
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCAAAAATGACT
Found at i:3426524 original size:19 final size:20
Alignment explanation
Indices: 3426481--3426525 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3426471 CGCAACGCAA
3426481 AAATGACTATCGCAATGCGG
1 AAATGACTATCGCAATGCGG
*
3426501 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAATGCGG
3426520 AAATGA
1 AAATGA
3426526 AAATCGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:3426544 original size:14 final size:14
Alignment explanation
Indices: 3426525--3426615 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
3426515 ATGCGAAATG
3426525 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3426539 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
*
3426558 AAAATCGCAACGAG
1 AAAATCGCAACGAC
*
3426572 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
3426588 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
3426604 AAAATCGCAACG
1 AAAATCGCAACG
3426616 CGAAACACAA
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
14 32 0.49
15 1 0.02
16 10 0.15
17 2 0.03
18 10 0.15
19 10 0.15
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3426546 original size:33 final size:33
Alignment explanation
Indices: 3426509--3426620 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
3426499 GGAAATGGCT
3426509 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
3426542 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
3426575 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
3426607 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
3426621 CACAAATCGC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 28 0.37
33 48 0.63
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:3426628 original size:65 final size:66
Alignment explanation
Indices: 3426509--3426631 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 66
3426499 GGAAATGGCT
* *
3426509 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGAGAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGAGAA
3426574 A
66 A
3426575 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
3426632 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 1 0.02
65 37 0.69
66 16 0.30
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGAGAA
A
Found at i:3426669 original size:14 final size:14
Alignment explanation
Indices: 3426650--3426706 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
3426640 TTCATTTCGA
3426650 GTTGCGATTTTGTC
1 GTTGCGATTTTGTC
*
3426664 GTTGCGATTTCATTTC
1 GTTGCGATTT--TGTC
3426680 GCATTGCGATTTTGTC
1 G--TTGCGATTTTGTC
3426696 GTTGCGATTTT
1 GTTGCGATTTT
3426707 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.49
Consensus pattern (14 bp):
GTTGCGATTTTGTC
Found at i:3426713 original size:33 final size:33
Alignment explanation
Indices: 3426632--3426718 Score: 151
Period size: 32 Copynumber: 2.7 Consensus size: 33
3426622 ACAAATCGCA
3426632 TTGCGATTTTCATTTCG-AGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCA-TTGCGATTTTGTCG
3426665 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
3426697 TTGCGATTTTCATTTCGCATTG
1 TTGCGATTTTCATTTCGCATTG
3426719 AGATAGCCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
32 30 0.58
33 22 0.42
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:3426749 original size:20 final size:19
Alignment explanation
Indices: 3426695--3426761 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
3426685 GCGATTTTGT
**
3426695 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* * *
3426714 CATTGAGATAGCCATTTACG
1 CGTTGCGATAGTCATTT-CG
3426734 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
3426754 TGTTGCGA
1 CGTTGCGA
3426762 AAGTAAACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 12 0.32
20 22 0.59
21 3 0.08
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:3427263 original size:18 final size:18
Alignment explanation
Indices: 3427237--3427281 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3427227 GTCGATCGGA
* *
3427237 TGATGGCTCTGGGTGAGG
1 TGATAGCTCTGGGCGAGG
3427255 TGATAGCTCTGGGCGAGG
1 TGATAGCTCTGGGCGAGG
3427273 TGATAGCTC
1 TGATAGCTC
3427282 CCGAAGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATAGCTCTGGGCGAGG
Found at i:3428627 original size:20 final size:20
Alignment explanation
Indices: 3428602--3428644 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3428592 AATAGTTTCT
3428602 GAAAATAAAAATCGCAACAC
1 GAAAATAAAAATCGCAACAC
* * *
3428622 GAAAATGACAATCGCAACGC
1 GAAAATAAAAATCGCAACAC
3428642 GAA
1 GAA
3428645 TTTGACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.09
Consensus pattern (20 bp):
GAAAATAAAAATCGCAACAC
Found at i:3428650 original size:20 final size:20
Alignment explanation
Indices: 3428611--3428660 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3428601 TGAAAATAAA
*
3428611 AATCGCAACACGAAAATGAC
1 AATCGCAACGCGAAAATGAC
**
3428631 AATCGCAACGCGAATTTGAC
1 AATCGCAACGCGAAAATGAC
*
3428651 TATCGCAACG
1 AATCGCAACG
3428661 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (20 bp):
AATCGCAACGCGAAAATGAC
Found at i:3429178 original size:20 final size:20
Alignment explanation
Indices: 3429153--3429204 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
3429143 ATTATGTATT
3429153 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
3429173 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
3429193 ATCTCGTTGCGA
1 ATCGCGTTGCGA
3429205 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:3429238 original size:20 final size:20
Alignment explanation
Indices: 3429213--3429266 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
3429203 GATTTTGTAT
3429213 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
3429233 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
3429253 TATCGCATTGCGAT
1 TATCGCATTGCGAT
3429267 TTTCTCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:3429238 original size:61 final size:61
Alignment explanation
Indices: 3429136--3429269 Score: 187
Period size: 61 Copynumber: 2.2 Consensus size: 61
3429126 TTGAAAATCA
* * * * *
3429136 CATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCT
1 CATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCG
* * * *
3429197 CGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCG
1 CATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCG
3429258 CATTGCGATTTT
1 CATTGCGATTTT
3429270 CTCAATTCGC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
CATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCG
Found at i:3430117 original size:28 final size:31
Alignment explanation
Indices: 3430084--3430145 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
3430074 ATTAAAATAT
*
3430084 TAATAAAAT-A-TGATAT-ATTATATAAAAA
1 TAATAAAATAATTCATATAATTATATAAAAA
*
3430112 TAATAAAATAATTCATATAATTGTATAAAAA
1 TAATAAAATAATTCATATAATTATATAAAAA
3430143 TAA
1 TAA
3430146 AGTTAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.31
29 1 0.03
30 5 0.17
31 14 0.48
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (31 bp):
TAATAAAATAATTCATATAATTATATAAAAA
Found at i:3433128 original size:15 final size:15
Alignment explanation
Indices: 3433108--3433137 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3433098 TACTTTCGGT
*
3433108 ATTACACTAATTTGG
1 ATTACACCAATTTGG
3433123 ATTACACCAATTTGG
1 ATTACACCAATTTGG
3433138 GTGTACGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (15 bp):
ATTACACCAATTTGG
Found at i:3434350 original size:31 final size:30
Alignment explanation
Indices: 3434300--3434367 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
3434290 CAAAGATTGG
* ** *
3434300 AAAAGTTTAGGGATTAAAAGGGTAAGTTTCC
1 AAAAGTTTAGAGACCAAAAGGATAA-TTTCC
* *
3434331 AAAAGTTTAGAGACCAAAAGTATAATTTTC
1 AAAAGTTTAGAGACCAAAAGGATAATTTCC
3434361 AAAAGTT
1 AAAAGTT
3434368 ATATATTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.29
Consensus pattern (30 bp):
AAAAGTTTAGAGACCAAAAGGATAATTTCC
Found at i:3434363 original size:15 final size:17
Alignment explanation
Indices: 3434345--3434376 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3434335 GTTTAGAGAC
3434345 CAAAAG-TATA-ATTTT
1 CAAAAGTTATATATTTT
3434360 CAAAAGTTATATATTTT
1 CAAAAGTTATATATTTT
3434377 AGCTGGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
CAAAAGTTATATATTTT
Found at i:3434899 original size:31 final size:30
Alignment explanation
Indices: 3434849--3434916 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
3434839 CAAAGATTGG
* ** *
3434849 AAAATTTTAGGGATTAAAAGGGTAAGTTTCC
1 AAAAGTTTAGGGACCAAAAGGATAA-TTTCC
* *
3434880 AAAAGTTTAGGGACCAAAAGTATAATTTTC
1 AAAAGTTTAGGGACCAAAAGGATAATTTCC
3434910 AAAAGTT
1 AAAAGTT
3434917 ATATATTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (30 bp):
AAAAGTTTAGGGACCAAAAGGATAATTTCC
Found at i:3434912 original size:15 final size:17
Alignment explanation
Indices: 3434894--3434925 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3434884 GTTTAGGGAC
3434894 CAAAAG-TATA-ATTTT
1 CAAAAGTTATATATTTT
3434909 CAAAAGTTATATATTTT
1 CAAAAGTTATATATTTT
3434926 AGCTGGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
CAAAAGTTATATATTTT
Found at i:3435132 original size:549 final size:549
Alignment explanation
Indices: 3434094--3435742 Score: 3127
Period size: 549 Copynumber: 3.0 Consensus size: 549
3434084 ATCAGCCCAC
* * *
3434094 TGCACACTTATTAGTTTTGGTATTCAAATTTTATTTTTATTATTTTCGTTTTAGCACTTAAATTA
1 TGCACACTTGTTAGTTTTGGTATTCAAACTTTAGTTTTATTATTTTCGTTTTAGCACTTAAATTA
3434159 TATTTTTAAAAGTATATCTAACATTTAATTTAGATTTTAGTTTTGTACTTCGTTGTAAAAAAATG
66 TATTTTTAAAAGTATATCTAACATTTAATTTAGATTTTAGTTTTGTACTTCGTTGTAAAAAAATG
3434224 AATGTAATACCCCAAACTTTAGTTAGTGATCAAAATGTAAATTTTGAAAGTTTGGTGGCCAAAGT
131 AATGTAATACCCCAAACTTTAGTTAGTGATCAAAATGTAAATTTTGAAAGTTTGGTGGCCAAAGT
* *
3434289 ACAAAGATTGGAAAAGTTTAGGGATTAAAAGGGTAAGTTTCCAAAAGTTTAGAGACCAAAAGTAT
196 ACAAAGATTGGAAAAATTTAGGGATTAAAAGGGTAAGTTTCCAAAAGTTTAGGGACCAAAAGTAT
3434354 AATTTTCAAAAGTTATATATTTTAGCTGGTAAATGAATAGTTCACCCCAAGAATGAAGTTCGGGT
261 AATTTTCAAAAGTTATATATTTTAGCTGGTAAATGAATAGTTCACCCCAAGAATGAAGTTCGGGT
3434419 AGAAATTAGATTCTTGATCCGAAAATTGTGTTAAAAGCTACAAAGTGTTAAAGTTCGGTAAAAAT
326 AGAAATTAGATTCTTGATCCGAAAATTGTGTTAAAAGCTACAAAGTGTTAAAGTTCGGTAAAAAT
3434484 TCGATAAATCGGATCGAATAGAAATTCATGAAAAAACTAAAGGTTATTAAATCAAACTTATAAAT
391 TCGATAAATCGGATCGAATAGAAATTCATGAAAAAACTAAAGGTTATTAAATCAAACTTATAAAT
*
3434549 ACTATTTACACATGTTAAAATGATAAAAAAATAATGGTAACAATTGGATTTGAGAATTTATCTTC
456 ACTATTTACACATGTTAAAATGATAAAAAAATAATGGTAACCATTGGATTTGAGAATTTATCTTC
3434614 ATGTTCATTTTGGATCATTGGATGAAAAA
521 ATGTTCATTTTGGATCATTGGATGAAAAA
3434643 TGCACACTTGTTAGTTTTGGTATTCAAACTTTAGTTTTATTATTTTCGTTTTAGCACTTAAATTA
1 TGCACACTTGTTAGTTTTGGTATTCAAACTTTAGTTTTATTATTTTCGTTTTAGCACTTAAATTA
3434708 TATTTTTAAAAGTATATCTAACATTTAATTTAGATTTTAGTTTTGTACTTCGTTGTAAAAAAATG
66 TATTTTTAAAAGTATATCTAACATTTAATTTAGATTTTAGTTTTGTACTTCGTTGTAAAAAAATG
3434773 AATGTAATACCCCAAACTTTAGTTAGTGATCAAAATGTAAATTTTGAAAGTTTGGTGGCCAAAGT
131 AATGTAATACCCCAAACTTTAGTTAGTGATCAAAATGTAAATTTTGAAAGTTTGGTGGCCAAAGT
*
3434838 ACAAAGATTGGAAAATTTTAGGGATTAAAAGGGTAAGTTTCCAAAAGTTTAGGGACCAAAAGTAT
196 ACAAAGATTGGAAAAATTTAGGGATTAAAAGGGTAAGTTTCCAAAAGTTTAGGGACCAAAAGTAT
*
3434903 AATTTTCAAAAGTTATATATTTTAGCTGGTAAATGAATAGTTCACCCCAATAATGAAGTTCGGGT
261 AATTTTCAAAAGTTATATATTTTAGCTGGTAAATGAATAGTTCACCCCAAGAATGAAGTTCGGGT
*
3434968 AGAAATTAGATTCTTGATCCGAAAATTGTGTTAAAAGCTACAAAGTGTTAAAGTTCGATAAAAAT
326 AGAAATTAGATTCTTGATCCGAAAATTGTGTTAAAAGCTACAAAGTGTTAAAGTTCGGTAAAAAT
*
3435033 TCGATAAATCGAATCGAATAGAAATTCATGAAAAAACTAAAGGTTATTAAATCAAACTTATAAAT
391 TCGATAAATCGGATCGAATAGAAATTCATGAAAAAACTAAAGGTTATTAAATCAAACTTATAAAT
3435098 ACTATTTACACATGTTAAAATGATAAAAAAATAATGGTAACCATTGGATTTGAGAATTTATCTTC
456 ACTATTTACACATGTTAAAATGATAAAAAAATAATGGTAACCATTGGATTTGAGAATTTATCTTC
3435163 ATGTTCATTTTGGATCATTGGATGAAAAA
521 ATGTTCATTTTGGATCATTGGATGAAAAA
3435192 TGCACACTTGTTAGTTTTGGTATTCAAACTTTAGTTTTATTATTTTCGTTTTAGCACTTAAATTA
1 TGCACACTTGTTAGTTTTGGTATTCAAACTTTAGTTTTATTATTTTCGTTTTAGCACTTAAATTA
3435257 TATTTTTAAAAGTATATCTAACATTTAATTTAGATTTTAGTTTTGTACTTCGTTGTAAAAAAATG
66 TATTTTTAAAAGTATATCTAACATTTAATTTAGATTTTAGTTTTGTACTTCGTTGTAAAAAAATG
3435322 AATGTAATACCCCAAACTTTAGTTAGTGATCAAAATGTAAATTTTGAAAGTTTGGTGGCCAAAGT
131 AATGTAATACCCCAAACTTTAGTTAGTGATCAAAATGTAAATTTTGAAAGTTTGGTGGCCAAAGT
3435387 ACAAAGATTGGAAAAATTTAGGGATTAAAAGGGTAAGTTTCCAAAAGTTTAGGGACCAAAAGTAT
196 ACAAAGATTGGAAAAATTTAGGGATTAAAAGGGTAAGTTTCCAAAAGTTTAGGGACCAAAAGTAT
3435452 AATTTTCAAAAGTTATATATTTTAGCTGGTAAATGAATAGTTCACCCCAAGAATGAAGTTCGGGT
261 AATTTTCAAAAGTTATATATTTTAGCTGGTAAATGAATAGTTCACCCCAAGAATGAAGTTCGGGT
*
3435517 AGAAATTAGATTCTTGATCCGAAAATTATGTTAAAAGCTACAAAGTGTTAAAGTTCGGTAAAAAT
326 AGAAATTAGATTCTTGATCCGAAAATTGTGTTAAAAGCTACAAAGTGTTAAAGTTCGGTAAAAAT
* * * *
3435582 TCGATAAATCGGATCGAATAGAAATTCAGGAAAAAATTAAAGGTTATTAAATCAAGCTTAAAAAT
391 TCGATAAATCGGATCGAATAGAAATTCATGAAAAAACTAAAGGTTATTAAATCAAACTTATAAAT
* * *
3435647 ATTATTTACACATGTTAAAATGATAAAAAAAATAATGGTGACCATTAGATTTGAGAATTTATCTT
456 ACTATTTACACATGTTAAAATGAT-AAAAAAATAATGGTAACCATTGGATTTGAGAATTTATCTT
3435712 CATGTTCATTTTGGATCATTGGATGAAAAA
520 CATGTTCATTTTGGATCATTGGATGAAAAA
3435742 T
1 T
3435743 AGAAGGATTG
Statistics
Matches: 1078, Mismatches: 21, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
549 1009 0.94
550 69 0.06
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (549 bp):
TGCACACTTGTTAGTTTTGGTATTCAAACTTTAGTTTTATTATTTTCGTTTTAGCACTTAAATTA
TATTTTTAAAAGTATATCTAACATTTAATTTAGATTTTAGTTTTGTACTTCGTTGTAAAAAAATG
AATGTAATACCCCAAACTTTAGTTAGTGATCAAAATGTAAATTTTGAAAGTTTGGTGGCCAAAGT
ACAAAGATTGGAAAAATTTAGGGATTAAAAGGGTAAGTTTCCAAAAGTTTAGGGACCAAAAGTAT
AATTTTCAAAAGTTATATATTTTAGCTGGTAAATGAATAGTTCACCCCAAGAATGAAGTTCGGGT
AGAAATTAGATTCTTGATCCGAAAATTGTGTTAAAAGCTACAAAGTGTTAAAGTTCGGTAAAAAT
TCGATAAATCGGATCGAATAGAAATTCATGAAAAAACTAAAGGTTATTAAATCAAACTTATAAAT
ACTATTTACACATGTTAAAATGATAAAAAAATAATGGTAACCATTGGATTTGAGAATTTATCTTC
ATGTTCATTTTGGATCATTGGATGAAAAA
Found at i:3435448 original size:31 final size:30
Alignment explanation
Indices: 3435398--3435465 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
3435388 CAAAGATTGG
* ** *
3435398 AAAAATTTAGGGATTAAAAGGGTAAGTTTCC
1 AAAAGTTTAGGGACCAAAAGGATAA-TTTCC
* *
3435429 AAAAGTTTAGGGACCAAAAGTATAATTTTC
1 AAAAGTTTAGGGACCAAAAGGATAATTTCC
3435459 AAAAGTT
1 AAAAGTT
3435466 ATATATTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.29
Consensus pattern (30 bp):
AAAAGTTTAGGGACCAAAAGGATAATTTCC
Found at i:3435461 original size:15 final size:17
Alignment explanation
Indices: 3435443--3435474 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3435433 GTTTAGGGAC
3435443 CAAAAG-TATA-ATTTT
1 CAAAAGTTATATATTTT
3435458 CAAAAGTTATATATTTT
1 CAAAAGTTATATATTTT
3435475 AGCTGGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
CAAAAGTTATATATTTT
Found at i:3443969 original size:19 final size:20
Alignment explanation
Indices: 3443945--3443990 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
3443935 CAAAATAACC
*
3443945 CAATTTC-ACATTATAACAT
1 CAATTTCAACACTATAACAT
*
3443964 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTATAACAT
*
3443984 AAATTTC
1 CAATTTC
3443991 CATCATAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (20 bp):
CAATTTCAACACTATAACAT
Found at i:3445838 original size:31 final size:31
Alignment explanation
Indices: 3445803--3445863 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
3445793 TAAATATTAG
*
3445803 AAAAGTTTAGGGACTAAAAAG-GTAATTTTCC
1 AAAAGTTTAGGAACT-AAAAGTGTAATTTTCC
*
3445834 AAAAGTTTTGGAACTAAAAGTGTAATTTTC
1 AAAAGTTTAGGAACTAAAAGTGTAATTTTC
3445864 AAACGCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (31 bp):
AAAAGTTTAGGAACTAAAAGTGTAATTTTCC
Found at i:3446466 original size:22 final size:23
Alignment explanation
Indices: 3446425--3446467 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3446415 GAACAAGGTG
*
3446425 AGAAATTTCATTTTGCATTTTAA
1 AGAAATTTCACTTTGCATTTTAA
*
3446448 AGAAATTTC-CTTTGGATTTT
1 AGAAATTTCACTTTGCATTTT
3446468 GGATCAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (23 bp):
AGAAATTTCACTTTGCATTTTAA
Found at i:3450562 original size:22 final size:23
Alignment explanation
Indices: 3450517--3450564 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
3450507 CTAAAATATG
3450517 TTTTATTTTTTTAGTATTAGTAAA
1 TTTTATTTTTTTAG-ATTAGTAAA
3450541 TTTTACTTTTTTTAG-TTA-TAAA
1 TTTTA-TTTTTTTAGATTAGTAAA
3450563 TT
1 TT
3450565 ATTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 3 0.13
24 5 0.22
25 9 0.39
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (23 bp):
TTTTATTTTTTTAGATTAGTAAA
Found at i:3454778 original size:23 final size:23
Alignment explanation
Indices: 3454748--3454807 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
3454738 TAAGGCGAAC
*
3454748 CTTGGGTAGGCTCTGAG-ATCTTT
1 CTTGGGTAGGCTCTAAGAAT-TTT
* *
3454771 CTTGGGTAGGCCCCAAGAATTTT
1 CTTGGGTAGGCTCTAAGAATTTT
3454794 CTTGGGTAGGCTCT
1 CTTGGGTAGGCTCT
3454808 TAGGCCCCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (23 bp):
CTTGGGTAGGCTCTAAGAATTTT
Found at i:3456239 original size:19 final size:20
Alignment explanation
Indices: 3456196--3456240 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
3456186 TATTATGCTG
3456196 GAAATTAATATTAGAGTGTT
1 GAAATTAATATTAGAGTGTT
* * *
3456216 GAAATTTATGTTAGATTG-T
1 GAAATTAATATTAGAGTGTT
3456235 GAAATT
1 GAAATT
3456241 GGCTCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
GAAATTAATATTAGAGTGTT
Found at i:3459068 original size:65 final size:64
Alignment explanation
Indices: 3458992--3459112 Score: 190
Period size: 65 Copynumber: 1.9 Consensus size: 64
3458982 ACACACCTAA
3458992 TTTTATTAAACATCGAATAC-TTTTGATGTACCGATGAACAAACCATGCATCGATGCACTACAAG
1 TTTTATTAAACATCGAATACATTTT-ATGTACCGATGAACAAACCATGCATCGATGCACTACAAG
* * *
3459056 TTTTATTGAAACATCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGC
1 TTTTATT-AAACATCGAATACATTTTATGTACCGATGAACAAACCATGCATCGATGC
3459113 GCTCATGGCT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 7 0.13
65 41 0.79
66 4 0.08
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (64 bp):
TTTTATTAAACATCGAATACATTTTATGTACCGATGAACAAACCATGCATCGATGCACTACAAG
Found at i:3459152 original size:65 final size:65
Alignment explanation
Indices: 3458994--3459160 Score: 164
Period size: 65 Copynumber: 2.6 Consensus size: 65
3458984 ACACCTAATT
* * *
3458994 TTATT-AAACATCGAATAC-TTTTGATGTACCGATGAACAAACCATGCATCGATGCACTACAAGT
1 TTATTGAAACATCGAATGCATATT-ATGTACCGATGCACAAACCATGCATCGATGCACTACAAGT
*
3459057 T
65 C
* * * *
3459058 TTATTGAAACATCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCGCT-CATGGC
1 TTATTGAAACATCGAATGCATATTATGTACCGATGCACAAACCATGCATCGATGCACTACA-AG-
3459122 TC
64 TC
* * *
3459124 TT-TTGAAACATTGAATGTA-ATTAGTGTACTGATGCAC
1 TTATTGAAACATCGAATGCATATTA-TGTACCGATGCAC
3459161 CCTAGGTGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
64 10 0.11
65 71 0.81
66 7 0.08
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (65 bp):
TTATTGAAACATCGAATGCATATTATGTACCGATGCACAAACCATGCATCGATGCACTACAAGTC
Found at i:3467696 original size:65 final size:65
Alignment explanation
Indices: 3467486--3467656 Score: 281
Period size: 65 Copynumber: 2.6 Consensus size: 65
3467476 TGAAACAATT
*
3467486 CATTTTGATGTACCGATGCACAGACCATGCATCGATGCACTACAGGTTTTATTGAAACATCAAAT
1 CATTTT-ATGTACCGATGCACAAACCATGCATCGATGCACTACAGGTTTTATTGAAACATCAAAT
3467551 G
65 G
* *
3467552 CATTTTATGTACCAATGCACAAAACC-TGCATCGCTGCACTACAGGTTTTATTGAAACATCAAAT
1 CATTTTATGTACCGATGCAC-AAACCATGCATCGATGCACTACAGGTTTTATTGAAACATCAAAT
3467616 G
65 G
*
3467617 CATTTTATGTACCGATGCACATACCATGCATCGATGCACT
1 CATTTTATGTACCGATGCACAAACCATGCATCGATGCACT
3467657 CCTGGCTCTT
Statistics
Matches: 97, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
64 4 0.04
65 83 0.86
66 10 0.10
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (65 bp):
CATTTTATGTACCGATGCACAAACCATGCATCGATGCACTACAGGTTTTATTGAAACATCAAATG
Found at i:3473088 original size:18 final size:17
Alignment explanation
Indices: 3473055--3473088 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3473045 TAGAAGTATA
*
3473055 TTTATTTATTAAACCAT
1 TTTATTTATGAAACCAT
3473072 TTTATTTAATGAAACCA
1 TTTATTT-ATGAAACCA
3473089 AATTTTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTATTTATGAAACCAT
Found at i:3474316 original size:20 final size:20
Alignment explanation
Indices: 3474291--3474340 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
3474281 ATTACCTCAC
*
3474291 AAAACCGGTAGAACCGGTTG
1 AAAACCGGTAGAACCGGCTG
*
3474311 AAAACCGGTAGAATCGGCTG
1 AAAACCGGTAGAACCGGCTG
3474331 AAAACCGGTA
1 AAAACCGGTA
3474341 AAACTGGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (20 bp):
AAAACCGGTAGAACCGGCTG
Found at i:3474384 original size:30 final size:29
Alignment explanation
Indices: 3474311--3474386 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
3474301 GAACCGGTTG
* * *
3474311 AAAACCGGTAGAATCGGCTGAAAACCGGT
1 AAAACCGGTTGAACCGGCTGAAAACCGGC
* * *
3474340 AAAACTGGGGTGAACCGGCTGAAAATCGGC
1 AAAAC-CGGTTGAACCGGCTGAAAACCGGC
3474370 AAAACCGGTTTGAACCG
1 AAAACCGG-TTGAACCG
3474387 CCGGTTCACT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 7 0.19
30 30 0.81
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (29 bp):
AAAACCGGTTGAACCGGCTGAAAACCGGC
Found at i:3481345 original size:5 final size:5
Alignment explanation
Indices: 3481337--3481373 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
3481327 AAAGAAAGGA
*
3481337 AAGAG AAGAG AAGAG AAGAG AAAAG AAGAG AAG-G AAG
1 AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAG
3481374 TTAACCTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:3483882 original size:39 final size:39
Alignment explanation
Indices: 3483828--3483919 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 39
3483818 TAAGGACCTG
* *
3483828 CGGTAAGGACTTACCCTGTGCACAAAGCAGATGAGCCTA
1 CGGTAAGGACTTACCCTGAGAACAAAGCAGATGAGCCTA
* *
3483867 CGGTAAGGACTTACCCTGAGAACAAAGCCGATGAGCTTA
1 CGGTAAGGACTTACCCTGAGAACAAAGCAGATGAGCCTA
* *
3483906 CGATAATGACTTAC
1 CGGTAAGGACTTAC
3483920 AAGTCATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGTAAGGACTTACCCTGAGAACAAAGCAGATGAGCCTA
Found at i:3485444 original size:15 final size:15
Alignment explanation
Indices: 3485424--3485453 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3485414 TTTGAATATT
*
3485424 TTTTATATAAAGATA
1 TTTTATAAAAAGATA
3485439 TTTTATAAAAAGATA
1 TTTTATAAAAAGATA
3485454 CTATAAGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
TTTTATAAAAAGATA
Found at i:3486348 original size:8 final size:8
Alignment explanation
Indices: 3486335--3487120 Score: 1216
Period size: 8 Copynumber: 98.5 Consensus size: 8
3486325 CATGTAAAAC
3486335 ATGTATGT
1 ATGTATGT
3486343 ATGTATGT
1 ATGTATGT
3486351 ATGTATGT
1 ATGTATGT
3486359 ATGTATGT
1 ATGTATGT
3486367 ATGTATGT
1 ATGTATGT
3486375 ATGTATGT
1 ATGTATGT
3486383 ATGTATGT
1 ATGTATGT
3486391 ATGTATGT
1 ATGTATGT
3486399 ATGTATGT
1 ATGTATGT
3486407 ATGTATGT
1 ATGTATGT
3486415 ATGTATGT
1 ATGTATGT
3486423 ATGTATGT
1 ATGTATGT
3486431 ATGTATGT
1 ATGTATGT
3486439 ATGTATGT
1 ATGTATGT
3486447 ATGTATGT
1 ATGTATGT
3486455 ATGTATGT
1 ATGTATGT
3486463 ATGTATGT
1 ATGTATGT
3486471 ATGTATGT
1 ATGTATGT
3486479 ATGTATGT
1 ATGTATGT
3486487 ATGTATGT
1 ATGTATGT
3486495 ATGTATGT
1 ATGTATGT
3486503 ATGTATGT
1 ATGTATGT
3486511 ATGTATGT
1 ATGTATGT
3486519 ATGTATGT
1 ATGTATGT
3486527 ATGTATGT
1 ATGTATGT
3486535 ATGTATGT
1 ATGTATGT
3486543 ATGTATGT
1 ATGTATGT
3486551 ATGTATGT
1 ATGTATGT
3486559 ATGTATGT
1 ATGTATGT
3486567 ATGTATGT
1 ATGTATGT
3486575 ATGTATGT
1 ATGTATGT
3486583 ATGTATGT
1 ATGTATGT
3486591 ATGTATGT
1 ATGTATGT
3486599 ATGTATGT
1 ATGTATGT
3486607 ATGTATGT
1 ATGTATGT
3486615 ATGTATGT
1 ATGTATGT
3486623 ATGTATGT
1 ATGTATGT
3486631 ATGTATGT
1 ATGTATGT
3486639 ATGTATGT
1 ATGTATGT
3486647 ATGTATGT
1 ATGTATGT
3486655 ATGTATGT
1 ATGTATGT
3486663 ATGTATGT
1 ATGTATGT
3486671 ATGTATGT
1 ATGTATGT
3486679 ATGTATGT
1 ATGTATGT
3486687 ATGTATGT
1 ATGTATGT
3486695 ATGTATGT
1 ATGTATGT
3486703 ATGTATGT
1 ATGTATGT
3486711 ATGTATGT
1 ATGTATGT
3486719 ATGTATGT
1 ATGTATGT
*
3486727 ATGTATGC
1 ATGTATGT
3486735 ATGTATGT
1 ATGTATGT
*
3486743 ATGTATGC
1 ATGTATGT
*
3486751 ATGTATGC
1 ATGTATGT
*
3486759 ATGTATGC
1 ATGTATGT
*
3486767 ATGTATGC
1 ATGTATGT
*
3486775 ATGTATGC
1 ATGTATGT
*
3486783 ATGTATGC
1 ATGTATGT
*
3486791 ATGTATGC
1 ATGTATGT
*
3486799 ATGTATGC
1 ATGTATGT
*
3486807 ATGTATGC
1 ATGTATGT
*
3486815 ATGTATGC
1 ATGTATGT
*
3486823 ATGTATGC
1 ATGTATGT
*
3486831 ATGTATGC
1 ATGTATGT
*
3486839 ATGTATGC
1 ATGTATGT
*
3486847 ATGTATGC
1 ATGTATGT
*
3486855 ATGTATGC
1 ATGTATGT
*
3486863 ATGTATGC
1 ATGTATGT
*
3486871 ATGTATGC
1 ATGTATGT
3486879 ATGTATGT
1 ATGTATGT
* *
3486887 ATGCATGC
1 ATGTATGT
*
3486895 ATGTATGC
1 ATGTATGT
*
3486903 ATGTATGC
1 ATGTATGT
*
3486911 ATGTATGC
1 ATGTATGT
*
3486919 ATGTATGC
1 ATGTATGT
*
3486927 ATGTATGC
1 ATGTATGT
*
3486935 ATGTATGC
1 ATGTATGT
*
3486943 ATGTATGC
1 ATGTATGT
*
3486951 ATGTATGC
1 ATGTATGT
*
3486959 ATGTATGC
1 ATGTATGT
*
3486967 ATGTATGC
1 ATGTATGT
3486975 ATGTATGT
1 ATGTATGT
3486983 ATGTATGT
1 ATGTATGT
3486991 ATGTATGT
1 ATGTATGT
3486999 ATGTATGT
1 ATGTATGT
3487007 ATGTATGT
1 ATGTATGT
3487015 ATGTATGT
1 ATGTATGT
3487023 ATGTATGT
1 ATGTATGT
3487031 ATG--TGT
1 ATGTATGT
* *
3487037 GTGTGTGT
1 ATGTATGT
* *
3487045 GTGTGTGT
1 ATGTATGT
3487053 ATGTATGT
1 ATGTATGT
3487061 ATGTATGT
1 ATGTATGT
*
3487069 ATGTGTGT
1 ATGTATGT
3487077 ATGTATGT
1 ATGTATGT
3487085 ATGTATGT
1 ATGTATGT
3487093 ATGTATGT
1 ATGTATGT
*
3487101 ATGTATAT
1 ATGTATGT
* *
3487109 ATATATGC
1 ATGTATGT
3487117 ATGT
1 ATGT
3487121 CTTCATGTAG
Statistics
Matches: 758, Mismatches: 18, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
6 5 0.01
8 753 0.99
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (8 bp):
ATGTATGT
Found at i:3487182 original size:30 final size:30
Alignment explanation
Indices: 3487126--3487215 Score: 117
Period size: 30 Copynumber: 2.9 Consensus size: 30
3487116 CATGTCTTCA
* *
3487126 TGTAGAACATACATGTATGATATATGTAGAT
1 TGTAGAACAT-GATGTATGATGTATGTAGAT
*
3487157 TGTAGAACATGATTTATGATGTATGTAGAT
1 TGTAGAACATGATGTATGATGTATGTAGAT
*
3487187 TATAGAACATGTATGTATGTATGTATGTA
1 TGTAGAACATG-ATGTATG-ATGTATGTA
3487216 TAATATATGC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
30 27 0.52
31 16 0.31
32 9 0.17
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (30 bp):
TGTAGAACATGATGTATGATGTATGTAGAT
Found at i:3487202 original size:4 final size:4
Alignment explanation
Indices: 3487195--3487292 Score: 60
Period size: 4 Copynumber: 24.8 Consensus size: 4
3487185 ATTATAGAAC
* * * *
3487195 ATGT ATGT ATGT ATGT ATGT AT-A ATAT ATGC ATGT ATGT ATG- ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
** * * *
3487241 ATGT AT-T ACATAC ATGT ATGT ATGT ATAT ATAT ATGT -TGAC ATGT ATGT
1 ATGT ATGT --ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT
3487290 ATG
1 ATG
3487293 CATATCATAC
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
3 8 0.11
4 62 0.84
5 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:3489605 original size:2 final size:2
Alignment explanation
Indices: 3489598--3489631 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3489588 TTTACTTTTG
3489598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3489632 CTTAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3492975 original size:105 final size:105
Alignment explanation
Indices: 3492783--3493506 Score: 1149
Period size: 105 Copynumber: 7.0 Consensus size: 105
3492773 GCATTGTCCA
* * **
3492783 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
3492843 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
3492883 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
3492948 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
3492988 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
3493053 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
3493093 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
3493158 CAGAGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** * *
3493198 AAGTCCAATATCCTTTATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
3493260 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
3493300 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
3493365 CAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3493405 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* ** * *
3493470 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
3493507 CCTCGAGTGC
Statistics
Matches: 584, Mismatches: 31, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
100 36 0.06
101 1 0.00
102 100 0.17
103 2 0.00
104 2 0.00
105 403 0.69
106 40 0.07
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:3493301 original size:207 final size:208
Alignment explanation
Indices: 3492783--3493506 Score: 1141
Period size: 207 Copynumber: 3.5 Consensus size: 208
3492773 GCATTGTCCA
* * ** *
3492783 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AATTTTGTTGACAAGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
*
3492845 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
* *
3492910 GAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
3492975 CTTGCATTGTCTG
196 CTTGCGTTGTCTG
** *
3492988 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAG
3493053 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
*
3493118 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGAGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
3493183 AACTTGCGTTGTCTG
194 AACTTGCGTTGTCTG
* ** * *
3493198 AAGTCCAATATCCTTTATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
*
3493262 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
* *
3493327 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCTCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
3493392 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
3493405 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TG-TTGTTGACAA
* ** * *
3493470 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
3493507 CCTCGAGTGC
Statistics
Matches: 476, Mismatches: 34, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
205 36 0.08
206 1 0.00
207 200 0.42
208 2 0.00
210 196 0.41
211 41 0.09
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (208 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTG
Found at i:3493400 original size:312 final size:313
Alignment explanation
Indices: 3492784--3493506 Score: 1143
Period size: 312 Copynumber: 2.3 Consensus size: 313
3492774 CATTGTCCAG
* * **
3492784 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* * *
3492844 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGAGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* *
3492909 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
* * ** *
3492974 ACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAG
194 ACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
3493039 TTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
259 TTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
3493094 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
3493159 AGAGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTTATTGTGAAGT
66 AGAGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* *
3493224 TGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 TGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
3493288 TTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
196 TTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
* * *
3493353 GTTGTTGACAGGCAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
261 GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
*
3493406 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
** * *
3493471 CAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGAGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
3493507 CCTCGAGTGC
Statistics
Matches: 381, Mismatches: 26, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
310 35 0.09
311 2 0.01
312 204 0.54
313 44 0.12
314 2 0.01
315 94 0.25
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (313 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGAGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
TGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
Found at i:3494270 original size:67 final size:66
Alignment explanation
Indices: 3494147--3494304 Score: 194
Period size: 68 Copynumber: 2.4 Consensus size: 66
3494137 AAGATATCTG
* * * ** *
3494147 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAAATATGTTTTAAGGGAAATAAATTCAAAG-G
3494212 TT
65 TT
* *
3494214 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGAA-AAAAAT-TGTTTTAGGGGAAATAAATTCAAAG
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGA-AACAAAAATATGTTTTAAGGGAAATAAATTCAAAG
3494277 GTT
64 GTT
*
3494280 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
3494305 ATAGACGAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 23 0.29
68 29 0.37
69 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAAATATGTTTTAAGGGAAATAAATTCAAAGGT
T
Found at i:3494316 original size:65 final size:67
Alignment explanation
Indices: 3494148--3494330 Score: 185
Period size: 65 Copynumber: 2.7 Consensus size: 67
3494138 AGATATCTGT
* * **
3494148 TGTTTCATGAGAAACGGTCTCAAG-G-GAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAAA-AAAA-T-TGTTTTAAGGGAAATAAATTCAAAGA
*
3494211 TTTTG
63 GTTTG
* * *
3494216 TGTTTCAAGAGTAACTGTCTCAAGGGAGAAAAAAATTGTTTTAGGGGAAATAAATTCAAAG-GTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAAATTGTTTTAAGGGAAATAAATTCAAAGAGTT
3494280 T-
66 TG
* * ** * *
3494281 TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAATTGTTTCAAGAGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAAATTGTTTTAAGGGAAA
3494331 CTGTCTTAGA
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
65 41 0.42
66 3 0.03
67 22 0.23
68 22 0.23
69 5 0.05
70 4 0.04
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAAATTGTTTTAAGGGAAATAAATTCAAAGAGTT
TG
Found at i:3494331 original size:36 final size:36
Alignment explanation
Indices: 3494280--3494402 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
3494270 TTCAAAGGTT
*
3494280 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* *
3494316 TTGTTTCAAGAGAAACTGTCT-TAGAGAGAC-AAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* * *
3494350 CTTAGTTCCAAGGGAAACTATCTCAAGAGAGACGAAAT
1 -TT-GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
*
3494388 TTATTTCAAGGGAAA
1 TTGTTTCAAGGGAAA
3494403 TGTTTTCAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
34 4 0.05
35 9 0.12
36 47 0.64
37 10 0.14
38 3 0.04
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
Found at i:3494912 original size:17 final size:17
Alignment explanation
Indices: 3494892--3494925 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3494882 GTTGAATCCC
*
3494892 CAAAGATGCCCCAATAT
1 CAAAAATGCCCCAATAT
3494909 CAAAAATGCCCCAATAT
1 CAAAAATGCCCCAATAT
3494926 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.29, G:0.09, T:0.18
Consensus pattern (17 bp):
CAAAAATGCCCCAATAT
Found at i:3496034 original size:15 final size:15
Alignment explanation
Indices: 3495979--3496034 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
3495969 TTTTATCCCT
*
3495979 TTTTATTTTTTGTTC
1 TTTTCTTTTTTGTTC
*
3495994 -TTTC-TTTTTGTTT
1 TTTTCTTTTTTGTTC
*
3496007 TTCTTCTTTTTTGCTC
1 TT-TTCTTTTTTGTTC
3496023 TTTTCTTTTTTG
1 TTTTCTTTTTTG
3496035 GTTTTTGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 8 0.24
14 4 0.12
15 13 0.38
16 9 0.26
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTTTGTTC
Found at i:3500019 original size:17 final size:17
Alignment explanation
Indices: 3499976--3500026 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
3499966 TAGACTTAAG
3499976 TAAAATATTAA-AGAAATA
1 TAAAATA-TAATA-AAATA
*
3499994 TATATATATAATAAAATA
1 TA-AAATATAATAAAATA
*
3500012 TAAAATATAGTAAAA
1 TAAAATATAATAAAA
3500027 AATCAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 11 0.39
18 12 0.43
19 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
TAAAATATAATAAAATA
Found at i:3500438 original size:76 final size:76
Alignment explanation
Indices: 3500312--3500463 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
3500302 AAAAAGAAAA
*
3500312 TGCTACCTTTTTTTCCTTTTCGAATCCTTTACAATAGCTTGCCTTTGTATCTTTCCCGTGCTTTC
1 TGCTACCTTTATTTCCTTTTCGAATCCTTTACAATAGCTTGCCTTTGTATCTTTCCCGTGCTTTC
3500377 CTCTATGTTTT
66 CTCTATGTTTT
3500388 TGCTACCTTTATTTCCTTTTCGAATCCTTTAC-ATAGCTTTGCCTTTGTATCTTTCCCGTGCTTT
1 TGCTACCTTTATTTCCTTTTCGAATCCTTTACAATAGC-TTGCCTTTGTATCTTTCCCGTGCTTT
3500452 CCTCTATGTTTT
65 CCTCTATGTTTT
3500464 GTGTATAAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
75 5 0.07
76 69 0.93
ACGTcount: A:0.12, C:0.26, G:0.11, T:0.51
Consensus pattern (76 bp):
TGCTACCTTTATTTCCTTTTCGAATCCTTTACAATAGCTTGCCTTTGTATCTTTCCCGTGCTTTC
CTCTATGTTTT
Found at i:3503775 original size:29 final size:28
Alignment explanation
Indices: 3503715--3503775 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
3503705 AATATGTTTT
** *
3503715 TTATTTTATTTAATTTGGCCATGTAATT
1 TTATTTTATTTAATTTGGCCATAAAATC
3503743 TTATTTTATTTTAATTTGGCC-TAAAATGC
1 TTATTTTA-TTTAATTTGGCCATAAAAT-C
3503772 TTAT
1 TTAT
3503776 ATTTTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (28 bp):
TTATTTTATTTAATTTGGCCATAAAATC
Found at i:3503813 original size:23 final size:23
Alignment explanation
Indices: 3503782--3503836 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
3503772 TTATATTTTG
*
3503782 AAATAAAATTACATGGCCAAATT
1 AAATTAAATTACATGGCCAAATT
3503805 AAATTAAATTACATGGCCAAATT
1 AAATTAAATTACATGGCCAAATT
3503828 AAATTAAAT
1 AAATTAAAT
3503837 AAAAAACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (23 bp):
AAATTAAATTACATGGCCAAATT
Found at i:3507393 original size:27 final size:28
Alignment explanation
Indices: 3507339--3507393 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
3507329 CAGATTGGCC
3507339 ACATCAGATTTTTCAATAAATAATAAATT
1 ACATCAGA-TTTTCAATAAATAATAAATT
3507368 ACATCAGA-TTT-AATGAAATAATAAAT
1 ACATCAGATTTTCAAT-AAATAATAAAT
3507394 AATAAAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.12
27 14 0.56
29 8 0.32
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (28 bp):
ACATCAGATTTTCAATAAATAATAAATT
Found at i:3514233 original size:68 final size:71
Alignment explanation
Indices: 3514076--3514258 Score: 216
Period size: 73 Copynumber: 2.6 Consensus size: 71
3514066 TTTAAACGTT
* * * *
3514076 GTATTTTAGTTTAAATAGGTTTTAGTA-TTTAATTAAGGTTTAGGATTTTTTTTATATTTTATCT
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATTTATTTTATA---TATCA
3514140 TTGTTTTAG
63 TTGTTTTAG
*
3514149 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAAATAAGATTTAGAATATTATTTTA-A-AT-ATT
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAAT-TTATTTTATATATCATT
3514211 -TTTTAG
65 GTTTTAG
* * *
3514217 GTATTTTAGTTTAAATA-GTTTAAGTGTTTTAATTAGGATTTA
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
3514259 AAATGTTTTA
Statistics
Matches: 99, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
67 21 0.21
68 23 0.23
69 2 0.02
70 2 0.02
73 27 0.27
74 17 0.17
75 7 0.07
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (71 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATTTATTTTATATATCATTG
TTTTAG
Found at i:3521139 original size:23 final size:22
Alignment explanation
Indices: 3521081--3521163 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 22
3521071 TCCCATACGA
*
3521081 TTATTTTACTATT-TTTGTTTT
1 TTATTTTACTATTATTTATTTT
* *
3521102 TTA-TTTATTACTATTTATTTT
1 TTATTTTACTATTATTTATTTT
3521123 TTATTTTAACTATTA-TTATTATT
1 TTATTTT-ACTATTATTTATT-TT
*
3521146 ATTATTATTATTATTATT
1 -TTATT-TTACTATTATT
3521164 AAAGTTAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 7 0.14
21 13 0.27
22 8 0.16
23 7 0.14
24 11 0.22
25 3 0.06
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (22 bp):
TTATTTTACTATTATTTATTTT
Found at i:3521181 original size:3 final size:3
Alignment explanation
Indices: 3521133--3521164 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3521123 TTATTTTAAC
3521133 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3521165 AAGTTAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3521206 original size:8 final size:7
Alignment explanation
Indices: 3521187--3521236 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
3521177 TTATTCCTTA
3521187 TTATTTT
1 TTATTTT
3521194 TTATTTGT
1 TTATTT-T
3521202 TTA-TTT
1 TTATTTT
*
3521208 TTA-TTC
1 TTATTTT
3521214 TTATTTT
1 TTATTTT
*
3521221 ATTACTTT
1 -TTATTTT
3521229 TTATTTT
1 TTATTTT
3521236 T
1 T
3521237 GTGTTCAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 9 0.25
7 17 0.47
8 10 0.28
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (7 bp):
TTATTTT
Found at i:3521212 original size:21 final size:22
Alignment explanation
Indices: 3521188--3521236 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
3521178 TATTCCTTAT
3521188 TATTTTTTATTTGT-TTA-TTTT
1 TATTTTTTATTT-TATTACTTTT
*
3521209 TA-TTCTTATTTTATTACTTTT
1 TATTTTTTATTTTATTACTTTT
3521230 TATTTTT
1 TATTTTT
3521237 GTGTTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.48
21 8 0.35
22 3 0.13
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (22 bp):
TATTTTTTATTTTATTACTTTT
Found at i:3521395 original size:9 final size:9
Alignment explanation
Indices: 3521378--3521470 Score: 53
Period size: 9 Copynumber: 9.8 Consensus size: 9
3521368 TTTTCCCATG
*
3521378 TTTTATTTA
1 TTTTCTTTA
3521387 TTTTCTTTA
1 TTTTCTTTA
3521396 TTTTATTCTTTCCA
1 --TT-TTCTTT--A
* *
3521410 GTTTGTTTA
1 TTTTCTTTA
*
3521419 TTTTATTTA
1 TTTTCTTTA
* *
3521428 GTTTATTTCA
1 TTTTCTTT-A
*
3521438 TTTAC-TTA
1 TTTTCTTTA
3521446 TTTTCTTTA
1 TTTTCTTTA
3521455 TTTTCTTTA
1 TTTTCTTTA
*
3521464 TTCTCTT
1 TTTTCTT
3521471 ATTCTTGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
8 5 0.08
9 43 0.65
10 3 0.05
11 7 0.11
12 7 0.11
14 1 0.02
ACGTcount: A:0.15, C:0.11, G:0.03, T:0.71
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:3521399 original size:18 final size:18
Alignment explanation
Indices: 3521378--3521470 Score: 62
Period size: 18 Copynumber: 4.9 Consensus size: 18
3521368 TTTTCCCATG
3521378 TTTTATTTATTTTCTTTA
1 TTTTATTTATTTTCTTTA
* *
3521396 TTTTATTCTTTCCAGTTTGTTTA
1 TTTTA---TTT--ATTTTCTTTA
* *
3521419 TTTTATTTAGTTTATTTCA
1 TTTTATTTATTTTCTTT-A
*
3521438 -TTTACTTATTTTCTTTA
1 TTTTATTTATTTTCTTTA
* *
3521455 TTTTCTTTATTCTCTT
1 TTTTATTTATTTTCTT
3521471 ATTCTTGTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
17 1 0.02
18 38 0.64
19 1 0.02
20 3 0.05
21 3 0.05
23 13 0.22
ACGTcount: A:0.15, C:0.11, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTATTTATTTTCTTTA
Found at i:3521455 original size:68 final size:68
Alignment explanation
Indices: 3521378--3521543 Score: 169
Period size: 68 Copynumber: 2.4 Consensus size: 68
3521368 TTTTCCCATG
* * *
3521378 TTTTATTTATTTTCTTTATTTTATTCTTTCCAGTTTGTTTATTTT-ATTTAGTTTAT-TTCATTT
1 TTTTCTTTATTTTCTTTATTTT-TTCTTTCCAGTTTCTTTATTTTCATTTAGTTTATGTT-ACTT
3521441 ACTTA
64 ACTTA
* * ** *
3521446 TTTTCTTTATTTTCTTTATTCTCTT-ATTCTTGTTTCTTTATTTTCATTTTGTTTATGTTACTTA
1 TTTTCTTTATTTTCTTTATT-TTTTCTTTCCAGTTTCTTTATTTTCATTTAGTTTATGTTACTTA
*
3521510 CTTG
65 CTTA
* *
3521514 TTATCTTTATCTTTATTT-TTTTTTCTTTCC
1 TTTTCTTTAT-TTTCTTTATTTTTTCTTTCC
3521544 TTTATCTTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
67 18 0.23
68 52 0.66
69 9 0.11
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.70
Consensus pattern (68 bp):
TTTTCTTTATTTTCTTTATTTTTTCTTTCCAGTTTCTTTATTTTCATTTAGTTTATGTTACTTAC
TTA
Found at i:3533352 original size:102 final size:103
Alignment explanation
Indices: 3533230--3533436 Score: 398
Period size: 102 Copynumber: 2.0 Consensus size: 103
3533220 ACACGCATGG
3533230 ACGAGAAAAACATATTAAAATGAATCAGCACATTTTTAGGAGGTGCAAGGATTCATTCAAAGGCT
1 ACGAGAAAAACATATTAAAATGAATCAGCACATTTTTAGGAGGTGCAAGGATTCATTCAAAGGCT
3533295 TTTAAGTTTATCCATGCATGG-ATTCATGCAAGAAGCC
66 TTTAAGTTTATCCATGCATGGAATTCATGCAAGAAGCC
3533332 ACGAGAAAAACATATTAAAATGAATCAGCACATTTTTAGGAGGTGCAAGGATTCATTCAAAGGCT
1 ACGAGAAAAACATATTAAAATGAATCAGCACATTTTTAGGAGGTGCAAGGATTCATTCAAAGGCT
3533397 TTTAAGTTTATCCATGCATGGATATTCATGCAAGAAGCC
66 TTTAAGTTTATCCATGCATGGA-ATTCATGCAAGAAGCC
3533436 A
1 A
3533437 AATAGTCATG
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 86 0.83
104 17 0.17
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (103 bp):
ACGAGAAAAACATATTAAAATGAATCAGCACATTTTTAGGAGGTGCAAGGATTCATTCAAAGGCT
TTTAAGTTTATCCATGCATGGAATTCATGCAAGAAGCC
Found at i:3533649 original size:185 final size:184
Alignment explanation
Indices: 3533332--3533693 Score: 670
Period size: 185 Copynumber: 2.0 Consensus size: 184
3533322 GCAAGAAGCC
3533332 ACGAGAAAAACATATTAAAATGAATCAGCACATTTTTAGGAGGTGCAAGGATTCATTCAAAGGCT
1 ACGAGAAAAACATATTAAAATGAATCAGCACATTTTTAGGAGGTGCAAGGATTCATTCAAAGGCT
3533397 TTTAAGTTTATCCATGCATGGATATTCATGCAAGAAGCCAAATAGTCATGTTCACACAAGGGGGA
66 TTTAAGTTTATCCATGCATGGATATTCATGCAAGAAGCCAAATAGTCATGTTCACACAAGGGGGA
*
3533462 AGAATTTCAGCCAAGATAAATTCCTGAACATTCATCCATAGAAGACATGCATGG
131 AGAATTTCAGCCAAGATAAATTCATGAACATTCATCCATAGAAGACATGCATGG
*
3533516 ACGAGTAAAACATATTAAAATGAATCAGCACATTTTTGAGGAGGTGCAAGGATTCATTCAAAGGC
1 ACGAGAAAAACATATTAAAATGAATCAGCACATTTTT-AGGAGGTGCAAGGATTCATTCAAAGGC
3533581 TTTTAAGTTTATCCATGCATGGATATTCATGCAAGAAGCCAAATAGTCATGTTCACACAAGGGGG
65 TTTTAAGTTTATCCATGCATGGATATTCATGCAAGAAGCCAAATAGTCATGTTCACACAAGGGGG
* * *
3533646 AAGAATTTCGGCCAAGATACATTCATGAACATTCATCCATAGAGGACA
130 AAGAATTTCAGCCAAGATAAATTCATGAACATTCATCCATAGAAGACA
3533694 AATCAACAAG
Statistics
Matches: 172, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
184 36 0.21
185 136 0.79
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (184 bp):
ACGAGAAAAACATATTAAAATGAATCAGCACATTTTTAGGAGGTGCAAGGATTCATTCAAAGGCT
TTTAAGTTTATCCATGCATGGATATTCATGCAAGAAGCCAAATAGTCATGTTCACACAAGGGGGA
AGAATTTCAGCCAAGATAAATTCATGAACATTCATCCATAGAAGACATGCATGG
Found at i:3534439 original size:23 final size:22
Alignment explanation
Indices: 3534385--3534439 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
3534375 AGAAACGTGT
* *
3534385 AAAAAGAAAGCAAAAGGAAAGA
1 AAAAACAAAGCAAAAGAAAAGA
3534407 AAAAATCAAAGCAAGAAAGAAAAG-
1 AAAAA-CAAAGC-A-AAAGAAAAGA
3534431 AAAAACAAA
1 AAAAACAAA
3534440 TTTAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.18
23 9 0.32
24 6 0.21
25 8 0.29
ACGTcount: A:0.75, C:0.07, G:0.16, T:0.02
Consensus pattern (22 bp):
AAAAACAAAGCAAAAGAAAAGA
Found at i:3537841 original size:2 final size:2
Alignment explanation
Indices: 3537834--3537858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3537824 TGGCAACGAA
3537834 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3537859 AGTTGGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3547970 original size:34 final size:34
Alignment explanation
Indices: 3547931--3548038 Score: 207
Period size: 34 Copynumber: 3.2 Consensus size: 34
3547921 TAACAAAGAG
3547931 AAACAATAACAATTTTCTCTTGATAAAAAGGAGA
1 AAACAATAACAATTTTCTCTTGATAAAAAGGAGA
3547965 AAACAATAACAATTTTCTCTTGATAAAAAGGAGA
1 AAACAATAACAATTTTCTCTTGATAAAAAGGAGA
*
3547999 AAACAATAACAATTTTCTCTTGATAAAAATGAGA
1 AAACAATAACAATTTTCTCTTGATAAAAAGGAGA
3548033 AAACAA
1 AAACAA
3548039 CTCTAAAAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 73 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (34 bp):
AAACAATAACAATTTTCTCTTGATAAAAAGGAGA
Found at i:3552632 original size:34 final size:34
Alignment explanation
Indices: 3552583--3552653 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
3552573 GGAAAATAGG
*
3552583 AATTACAACTTCTCTC-GATCTAAAAGGGAGAAAAC
1 AATTACAACTTCTCTCTGA--TAAAAAGGAGAAAAC
*
3552618 AATTAC-ATTTCTCTCTTGATAAAAAGGAGAAAAC
1 AATTACAACTTCTCTC-TGATAAAAAGGAGAAAAC
3552652 AA
1 AA
3552654 CTCTCAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 24 0.75
35 6 0.19
36 2 0.06
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (34 bp):
AATTACAACTTCTCTCTGATAAAAAGGAGAAAAC
Found at i:3556414 original size:538 final size:538
Alignment explanation
Indices: 3555397--3556472 Score: 1945
Period size: 538 Copynumber: 2.0 Consensus size: 538
3555387 TAAAAAAAGT
*
3555397 GTTACAACTGAATACAAAGATCCATAAATAGTACATGCCCTATAAGAATGACTCAAGACGTACTC
1 GTTACAACTGAATACAAAGATCCATAAATAGTACATGCCCTATAAAAATGACTCAAGACGTACTC
3555462 TAAATACTCTGGCTGGTCTGGAACTACTACACTAGAATATCTGATGACGATAACCCCCACGAACG
66 TAAATACTCTGGCTGGTCTGGAACTACTACACTAGAATATCTGATGACGATAACCCCCACGAACG
* *
3555527 ACCTGCTAAGTGATGAAAGGTACTTATACCTTCAATTGATTGTGGATCTAGGAAAGAAGAAAAAA
131 AACTGCTAAGTGATGAAAGGTACTTATACCTTCAATTGATTGTGCATCTAGGAAAGAAGAAAAAA
*
3555592 AACCTGCAAATAAGTAAATGGTTGATATGGCAATGTTTTGGGCTTATGAAACAAAGGAAATTGGT
196 AACCTGCAAATAAGTAAATGGTTGATATGGCAATGTTTTGGGCTTATGAAACAAAGGAAATCGGT
*
3555657 AGCATAATATCTTAATAGACTAAGGAAGAACCAGTGCTACAAGAGAGCAAAGACCCAGCTTTATA
261 AGCATAATATCTTAATAGACTAAGGAAGAACCAGTGCTACAAGAGAGCAAAGACCCAACTTTATA
*
3555722 AGTCTAATTAAGGGGTGGTAGAGAGGACTTGGACCCACTAGATAATAATCTAGGAACCAAAAGTA
326 AGTATAATTAAGGGGTGGTAGAGAGGACTTGGACCCACTAGATAATAATCTAGGAACCAAAAGTA
*
3555787 TCAAACAGAAAATGATAGACGCAAGAAGTATAGAAATACTTGATAAGTCGATAAAAGTCACCAAG
391 TCAAACAGAAAATGATAGACGCAAGAAGTATAAAAATACTTGATAAGTCGATAAAAGTCACCAAG
* * *
3555852 GACTTGAAAAAGAGAGAAATCTCACTAGAATAAAATATATGAAAACTGTGTTTCCAAATAAAAAG
456 GACTTGAAAAAGAGAGAAATCTCACTAGAATAAAATATATGAAAACTATCTTTACAAATAAAAAG
3555917 GACTAGCCTATTTATAGA
521 GACTAGCCTATTTATAGA
*
3555935 GTTACAACTGAATTCAAAGATCCATAAATAGTACATGCCCTATAAAAATGACTCAAGACGTACTC
1 GTTACAACTGAATACAAAGATCCATAAATAGTACATGCCCTATAAAAATGACTCAAGACGTACTC
* *
3556000 TAAATACTCTGGCTGGTTTGGAACTACTACACTAGAATATCTGATGACGATAACCCCCATGAACG
66 TAAATACTCTGGCTGGTCTGGAACTACTACACTAGAATATCTGATGACGATAACCCCCACGAACG
* *
3556065 AACTGCTAAGTGATGAAAGGTACTTATACCTTCAATTGATTGTGCATCTAGGAAGGAAGAAAAAC
131 AACTGCTAAGTGATGAAAGGTACTTATACCTTCAATTGATTGTGCATCTAGGAAAGAAGAAAAAA
3556130 AACCTGCAAATAAGTAAATGGTTGATATGGCAATGTTTTGGGCTTATGAAACAAAGGAAATCGGT
196 AACCTGCAAATAAGTAAATGGTTGATATGGCAATGTTTTGGGCTTATGAAACAAAGGAAATCGGT
* *
3556195 AGGATAATATCTTAATAGACTAAGGAAGAACCAGTGCTACAAGAGATCAAAGACCCAACTTTATA
261 AGCATAATATCTTAATAGACTAAGGAAGAACCAGTGCTACAAGAGAGCAAAGACCCAACTTTATA
3556260 AGTATAATTAAGGGGTGGTAGAGAGGACTTGGACCCACTAGATAATAATCTAGGAACCAAAAGTA
326 AGTATAATTAAGGGGTGGTAGAGAGGACTTGGACCCACTAGATAATAATCTAGGAACCAAAAGTA
*
3556325 TCAAACGGAAAATGATAGACGCAAGAAGTATAAAAATACTTGATAAGTCGATAAAAGTCACCAAG
391 TCAAACAGAAAATGATAGACGCAAGAAGTATAAAAATACTTGATAAGTCGATAAAAGTCACCAAG
* * ***
3556390 GACTTGAGAAAGAGAGAAATCTCACTTGAATAAAATATATGAAGGTTATCTTTACAAATAAAAAG
456 GACTTGAAAAAGAGAGAAATCTCACTAGAATAAAATATATGAAAACTATCTTTACAAATAAAAAG
3556455 GACTAGCCTATTTATAGA
521 GACTAGCCTATTTATAGA
3556473 AATGAAGGGA
Statistics
Matches: 515, Mismatches: 23, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
538 515 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (538 bp):
GTTACAACTGAATACAAAGATCCATAAATAGTACATGCCCTATAAAAATGACTCAAGACGTACTC
TAAATACTCTGGCTGGTCTGGAACTACTACACTAGAATATCTGATGACGATAACCCCCACGAACG
AACTGCTAAGTGATGAAAGGTACTTATACCTTCAATTGATTGTGCATCTAGGAAAGAAGAAAAAA
AACCTGCAAATAAGTAAATGGTTGATATGGCAATGTTTTGGGCTTATGAAACAAAGGAAATCGGT
AGCATAATATCTTAATAGACTAAGGAAGAACCAGTGCTACAAGAGAGCAAAGACCCAACTTTATA
AGTATAATTAAGGGGTGGTAGAGAGGACTTGGACCCACTAGATAATAATCTAGGAACCAAAAGTA
TCAAACAGAAAATGATAGACGCAAGAAGTATAAAAATACTTGATAAGTCGATAAAAGTCACCAAG
GACTTGAAAAAGAGAGAAATCTCACTAGAATAAAATATATGAAAACTATCTTTACAAATAAAAAG
GACTAGCCTATTTATAGA
Found at i:3558825 original size:24 final size:26
Alignment explanation
Indices: 3558798--3558848 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
3558788 AAAAGAGATG
*
3558798 AATGATTTATTTAA-GATTTAA-GAA
1 AATGATTTATTAAATGATTTAATGAA
*
3558822 AATGGTTTATTAAATGATTTAATGAA
1 AATGATTTATTAAATGATTTAATGAA
3558848 A
1 A
3558849 TATAGTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 12 0.52
25 7 0.30
26 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (26 bp):
AATGATTTATTAAATGATTTAATGAA
Found at i:3561013 original size:2 final size:2
Alignment explanation
Indices: 3561008--3561040 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3560998 TTTTTGTGTG
3561008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3561041 TTATTAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3563374 original size:2 final size:2
Alignment explanation
Indices: 3563369--3563415 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3563359 GTGTAATGTG
3563369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3563411 TA TA T
1 TA TA T
3563416 TTGTTTTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3566677 original size:99 final size:99
Alignment explanation
Indices: 3566499--3566683 Score: 291
Period size: 99 Copynumber: 1.9 Consensus size: 99
3566489 ATATTTTATG
*
3566499 TATACAATAAAGCTTGAGTTGTCACTCTAAAGCAATTAGTTAAACGCCCTGGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGCTGTCACTCTAAAGCAATTAGTTAAACGCCCTGGCTTTATGGATAAG
*
3566564 ATTCAACTATCCTGATAAAGGTGATTATAATATA
66 ATTCAACTAGCCTGATAAAGGTGATTATAATATA
* * * *
3566598 TATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAATGCTCC-GGCTTTATGGATAA
1 TATACAATAAAGCTTGAGCTGTCACTCTAAAGCAATTAGTTAAACGC-CCTGGCTTTATGGATAA
*
3566662 GATTCATCTAGCCTGATAAAGG
65 GATTCAACTAGCCTGATAAAGG
3566684 CAAATTACAA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 76 0.97
100 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (99 bp):
TATACAATAAAGCTTGAGCTGTCACTCTAAAGCAATTAGTTAAACGCCCTGGCTTTATGGATAAG
ATTCAACTAGCCTGATAAAGGTGATTATAATATA
Found at i:3568495 original size:45 final size:45
Alignment explanation
Indices: 3568420--3568585 Score: 140
Period size: 45 Copynumber: 3.7 Consensus size: 45
3568410 ACAAATTGAT
* * * * *
3568420 AGAAAATTTGACCTTTTACTGGTGTTATTCTTGACTTTCTAATGGA
1 AGAAAATTCGATCTTTTAGTGTTGTCATTCTTGACTTTCTAAT-GA
* **
3568466 A-AAAATTCGATCTTTTAGTGTTGTCATTCTTGACTCTCTCGTGA
1 AGAAAATTCGATCTTTTAGTGTTGTCATTCTTGACTTTCTAATGA
* * * * *
3568510 AGAGAATTCAATCTCTTAGTGTTGTGATTCTTGACTTTCTTA-GAA
1 AGAAAATTCGATCTTTTAGTGTTGTCATTCTTGACTTTCTAATG-A
* * *
3568555 AGGGAAA-TCAATCTTTTAGTGATGTCATTCT
1 A-GAAAATTCGATCTTTTAGTGTTGTCATTCT
3568586 CAATTTGACT
Statistics
Matches: 97, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
44 4 0.04
45 89 0.92
46 4 0.04
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (45 bp):
AGAAAATTCGATCTTTTAGTGTTGTCATTCTTGACTTTCTAATGA
Found at i:3569528 original size:82 final size:81
Alignment explanation
Indices: 3569323--3570494 Score: 963
Period size: 81 Copynumber: 14.4 Consensus size: 81
3569313 TAAAGATTTT
* * * *
3569323 TCCAGTCTGATTTCCCCTGAATGAATAGTGGAGCAGACACGCCTTCCAAAATAT-ATTTGTCTA-
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACAT-TGATATGTCTAC
* * * * *
3569386 CAAAAAACATGTACATA
65 CGAAAAAGAGGCACAAA
* * * * * * * * *
3569403 TCCAATTTGATTT-CCCTGAAAGAATAGTGGAGCATAAACGTCTTCCAAAATAGATTTGTCTATC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTA-C
3569467 CGAAAAAGAGGCACAAA
65 CGAAAAAGAGGCACAAA
* * * *
3569484 TCCAGTTTGATTTCCCTTGAATTAATGGTGGAGCATACACGTCTTCCAACATTGATATGTCTACC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTA-C
* *
3569549 CGAAAAAGAAGCACAGA
65 CGAAAAAGAGGCACAAA
* *
3569566 TCCAGTCTGATTTACCCTGAATGAATGGTGGAGCAAACACGTCTTCCAACATTGATATGTCTATC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTA-C
* *
3569631 C-AAAAATCAGGCACAGA
65 CGAAAAA-GAGGCACAAA
* * * * *
3569648 TCTAGTTTTATTTCCCCTAAATGAATGGTGGAGCAGACACATCTTCCAACATTGATATGTCTACC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTA-C
*
3569713 CGAAAAAGAGGCACACA
65 CGAAAAAGAGGCACAAA
* * * * *
3569730 TCCAGTTTGATTTCCCTTAAATGAATGGTGGAGAATACACGTCTTCCAACATTGATATGTCTACA
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTAC-
*
3569795 C-AAAAA-AGGCATAAA
65 CGAAAAAGAGGCACAAA
* * * * * *
3569810 TCCAGTCTAATTTCTCCTGAATGAATGGTGGAGTAGACACATCTTTCAACATTGATTTGTCTACC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTACC
** *
3569875 -AGAATTGAGGCACAGA
66 GA-AAAAGAGGCACAAA
* * * * * *
3569891 TCTAGTCTGATTTCCCCTGAATGAGTGTTAGAGCAGACAAGTCTTCCAATATTGATATGTCTACC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTACC
3569956 TGAAAAAGAGGCACAAA
66 -GAAAAAGAGGCACAAA
** * * *
3569973 TATAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAATATTGATCTATCTACC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTACC
*
3570038 TAAAAAGAGGCACAAA
66 GAAAAAGAGGCACAAA
* * * * * *
3570054 TCCAGTCTTATTTCCCATAAATTAATGGTGGAGCAAACACGTCTTCCAACATTGATCTGTCTACC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTA-C
*
3570119 CGAAAAAGAGGCA-AGTA
65 CGAAAAAGAGGCACA-AA
* * * * * * * * * * *
3570136 TCGAGTCTTATCT-CCTTGATTGAATAGTGGAGTAGAGACATCTTCCAA-AGTTGATATATTTAC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACA-TTGATATGTCTAC
3570199 CTGAAAAAGAGGCACAAA
65 C-GAAAAAGAGGCACAAA
* * * * * * * * * * **
3570217 TCAAGTCTTATCT-CCCTAAATGAATAGTAGAGTAGACACATTTTCCAAAATTGAGCTGTCTACC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTA-C
*
3570281 CGAAAAAGAGGCACAGA
65 CGAAAAAGAGGCACAAA
** * * * * ** * * * * *
3570298 TTGAGTCTTATAT-CCCTGATTGAATAGCAGAGCATAGATGCCTTCCAA-AGTTGATCTGTCTAC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACA-TTGATATGTCTAC
* *
3570361 ACGAAAAAAAGGCACATA
65 -CGAAAAAGAGGCACAAA
** * * * * * * *
3570379 TCGTGTCTTATCT-CCCTGAATGAATAGTGGAGCATACAAGTCTTTCAA-AGTTGATATGTGTAC
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACA-TTGATATGTCTA-
*
3570442 CCGAAAAAGAGGCACATA
64 CCGAAAAAGAGGCACAAA
* * * * * *
3570460 TCAAGTTTTATCT-CCCTAAATGAATAGTGGAGCAG
1 TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAG
3570495 CGAACCTTTC
Statistics
Matches: 912, Mismatches: 159, Indels: 41
0.82 0.14 0.04
Matches are distributed among these distances:
79 45 0.05
80 79 0.09
81 434 0.48
82 348 0.38
83 6 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (81 bp):
TCCAGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATATGTCTACC
GAAAAAGAGGCACAAA
Found at i:3569937 original size:325 final size:324
Alignment explanation
Indices: 3569326--3570455 Score: 1024
Period size: 325 Copynumber: 3.5 Consensus size: 324
3569316 AGATTTTTCC
* * *
3569326 AGTCTGATTTCCCCTGAATGAATAGTGGAGCAGACACGCCTTCCAAAATAT-ATTTGTCTA-CAA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAAAAT-TGATATGTCTACCAA
* * * * * * * * * *
3569389 AAAACATGTACATATCCAATTTGATTTCCCTGAAA-GAATAGTGGAGCATAAACGTCTTCCAAAA
65 AAAAGAGGCACAAATCCAGTTTGATTTCCCTTAAATGAATGGTGGAGAATACACGTCTTCCAACA
* * * *
3569453 TAGATTTGTCTATCCGAAAAAGAGGCACAAATCCAGTTTGATTTC-CCTTGAATTAATGGTGGAG
130 TTGATATGTCTA-CCGAAAAAGAGGCA-AAATCCAGTCT-ATTTCTCCTTGAATGAATGGTGGAG
* * * *
3569517 CATACACGTCTTCCAACATTGATATGTCTACCCGAAAAAGAAGCACAGATCCAGTCTGATTTACC
192 TAGACACATCTTCCAACATTGATATGTCTACCAGAAAAAGAAGCACAGATCCAGTCTGATTTACC
* *
3569582 CTGAATGAATGGTGGAGCAAACACGTCTTCCAACATTGATATGTCTATCC-AAAAATCAGGCACA
257 CTGAATGAATGGTAGAGCAAACAAGTCTTCCAACATTGATATGTCTA-CCGAAAAA-CAGGCACA
* *
3569646 GATCT
320 AATAT
* * * * * *
3569651 AGTTTTATTTCCCCTAAATGAATGGTGGAGCAGACACATCTTCCAACATTGATATGTCTACCCGA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTA-CCAA
*
3569716 AAAAGAGGCACACATCCAGTTTGATTTCCCTTAAATGAATGGTGGAGAATACACGTCTTCCAACA
65 AAAAGAGGCACAAATCCAGTTTGATTTCCCTTAAATGAATGGTGGAGAATACACGTCTTCCAACA
3569781 TTGATATGTCTACAC-AAAAA-AGGCATAAATCCAGTCTAATTTCTCC-TGAATGAATGGTGGAG
130 TTGATATGTCTAC-CGAAAAAGAGGCA-AAATCCAGTCT-ATTTCTCCTTGAATGAATGGTGGAG
* * ** * * *
3569843 TAGACACATCTTTCAACATTGATTTGTCTACCAG-AATTGAGGCACAGATCTAGTCTGATTTCCC
192 TAGACACATCTTCCAACATTGATATGTCTACCAGAAAAAGAAGCACAGATCCAGTCTGATTTACC
* * * * *
3569907 CTGAATGAGTGTTAGAGCAGACAAGTCTTCCAATATTGATATGTCTACCTGAAAAAGAGGCACAA
257 CTGAATGAATGGTAGAGCAAACAAGTCTTCCAACATTGATATGTCTACC-GAAAAACAGGCACAA
3569972 ATAT
321 ATAT
* * * *
3569976 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAATATTGATCTATCTACCTAA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTACCAAA
* *
3570041 AAAGAGGCACAAATCCAGTCTT-ATTTCCCATAAATTAATGGTGGAGCAA-ACACGTCTTCCAAC
66 AAAGAGGCACAAATCCAGT-TTGATTTCCCTTAAATGAATGGTGGAG-AATACACGTCTTCCAAC
* * * * * *
3570104 ATTGATCTGTCTACCCGAAAAAGAGGCAAGTATCGAGTCT-TATCTCCTTGATTGAATAGTGGAG
129 ATTGATATGTCTA-CCGAAAAAGAGGCAA-AATCCAGTCTATTTCTCCTTGAATGAATGGTGGAG
* * * * * * * * *
3570168 TAGAGACATCTTCCAA-AGTTGATATATTTACCTGAAAAAGAGGCACAAATCAAGTCTTATCT-C
192 TAGACACATCTTCCAACA-TTGATATGTCTACCAGAAAAAGAAGCACAGATCCAGTCTGATTTAC
* * * * * * ** *
3570231 CCTAAATGAATAGTAGAGTAGACACA-TTTTCCAAAATTGAGCTGTCTACCCGAAAAAGAGGCAC
256 CCTGAATGAATGGTAGAGCAAACA-AGTCTTCCAACATTGATATGTCTA-CCGAAAAACAGGCAC
*
3570295 AGAT-T
319 AAATAT
* * * * ** * * * * * *
3570300 GAGTCTTATAT-CCCTGATTGAATAGCAGAGCATAGATGCCTTCCAAAGTTGATCTGTCTACACG
1 -AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTAC-C-
* ** * * * * * *
3570364 AAAAAA-AGGCACATATCGTGTCTT-ATCTCCC-TGAATGAATAGTGGAGCATACAAGTCTTTCA
63 AAAAAAGAGGCACAAATCCAGT-TTGATTTCCCTTAAATGAATGGTGGAGAATACACGTCTTCCA
*
3570426 A-AGTTGATATGTGTACCCGAAAAAGAGGCA
127 ACA-TTGATATGTCTA-CCGAAAAAGAGGCA
3570456 CATATCAAGT
Statistics
Matches: 671, Mismatches: 110, Indels: 49
0.81 0.13 0.06
Matches are distributed among these distances:
323 2 0.00
324 170 0.25
325 314 0.47
326 110 0.16
327 39 0.06
328 36 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (324 bp):
AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTACCAAA
AAAGAGGCACAAATCCAGTTTGATTTCCCTTAAATGAATGGTGGAGAATACACGTCTTCCAACAT
TGATATGTCTACCGAAAAAGAGGCAAAATCCAGTCTATTTCTCCTTGAATGAATGGTGGAGTAGA
CACATCTTCCAACATTGATATGTCTACCAGAAAAAGAAGCACAGATCCAGTCTGATTTACCCTGA
ATGAATGGTAGAGCAAACAAGTCTTCCAACATTGATATGTCTACCGAAAAACAGGCACAAATAT
Found at i:3571469 original size:2 final size:2
Alignment explanation
Indices: 3571462--3571502 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3571452 ACAAAAACAA
3571462 AT 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 AT A
3571503 CACACGCAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3573256 original size:19 final size:20
Alignment explanation
Indices: 3573219--3573258 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
3573209 CGAAAGAAAA
3573219 TAATTTAATATTATTATATT
1 TAATTTAATATTATTATATT
3573239 TAATTATAA-ATT-TTATATT
1 TAATT-TAATATTATTATATT
3573258 T
1 T
3573259 TGGTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 8 0.42
21 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTTAATATTATTATATT
Found at i:3588218 original size:12 final size:12
Alignment explanation
Indices: 3588201--3588228 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3588191 GTCCTAAATA
3588201 AAAATATTTTTT
1 AAAATATTTTTT
3588213 AAAATATTTTTT
1 AAAATATTTTTT
3588225 AAAA
1 AAAA
3588229 ACTTGCTAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AAAATATTTTTT
Found at i:3598226 original size:23 final size:23
Alignment explanation
Indices: 3598200--3598269 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
3598190 GGTTCTACGC
3598200 GGTCCTTCGGGATAATTCTATGT
1 GGTCCTTCGGGATAATTCTATGT
* *
3598223 GGTCCTTTGGGACAATTCTATGT
1 GGTCCTTCGGGATAATTCTATGT
* *
3598246 GGTCTTTCGGGATAAATCTATGT
1 GGTCCTTCGGGATAATTCTATGT
3598269 G
1 G
3598270 TCACTTCAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.39
Consensus pattern (23 bp):
GGTCCTTCGGGATAATTCTATGT
Found at i:3598299 original size:24 final size:24
Alignment explanation
Indices: 3598262--3598313 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3598252 TCGGGATAAA
*
3598262 TCTATGTGTCACTTCAGAGCATAT
1 TCTATGTGTCACTTCAGAGCAAAT
*
3598286 TCTATGTTGT-ACTTCAGTGCAAAT
1 TCTATG-TGTCACTTCAGAGCAAAT
3598310 TCTA
1 TCTA
3598314 CGTGGCAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (24 bp):
TCTATGTGTCACTTCAGAGCAAAT
Found at i:3604007 original size:81 final size:81
Alignment explanation
Indices: 3603871--3604530 Score: 908
Period size: 81 Copynumber: 8.2 Consensus size: 81
3603861 TGTTTTAAAA
* * * *
3603871 TAAAAGATTAAATGCCTAGTTGTGCATTTGATAGAAAGTTGTCAATCTTGTCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
3603936 GTTAAATACCTTTAAG
66 GTTAAATACCTTTGAG
* * *
3603952 CAAAAGATTAAATGCCTAGTTGTACATTTGACAGAAAGGTGTTAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
3604017 GTTAACTACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
3604033 TAAAAGATTAAATGCCTAGTTGTGCATTTTACAAAAAGGTGTCAATCATACCATTTAGATTAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
3604098 GTTAAATATCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
3604114 CAAAAGATTAAATGCCTAGCTATGCATTTGACAGAAATGTGTCAATCATGTCAGTTAGATGAAAA
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
3604179 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
3604195 TAAAAGATTAAATGCCTAGTTGTGCATTTGACA-AAAAGTGTTAATCATGTCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
3604259 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
3604275 TAAAAGATTAAATGCCTAGATGTGTATTTGACATAAAGGTGTCAATCATGCCAGTTAGATGAAAT
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
3604340 GTTAAATACCTTTAAG
66 GTTAAATACCTTTGAG
* * * *
3604356 CAAAAGATTAAATGCCTAGTTGTGCATTTAACATAATGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
3604421 ATTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
3604437 TAAAAGATTAAATGTCTAGCTATGCATTTGGCAGAAAGGTGTGATTCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* * *
3604502 GCTAAATGCCTTTGGG
66 GTTAAATACCTTTGAG
* *
3604518 TGAAAGACTAAAT
1 TAAAAGATTAAAT
3604531 CCTTATGTCA
Statistics
Matches: 510, Mismatches: 68, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
80 75 0.15
81 435 0.85
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:3608454 original size:3 final size:3
Alignment explanation
Indices: 3608446--3608504 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
3608436 TGTGAAGTTG
3608446 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3608494 ATT ATT ATT AT
1 ATT ATT ATT AT
3608505 AATATGGAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3613813 original size:19 final size:17
Alignment explanation
Indices: 3613789--3613823 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
3613779 AAGTAACCTC
3613789 AATGACTTAGGACTAAGTG
1 AATGACTT-GGA-TAAGTG
3613808 AATGACTTGGATAAGT
1 AATGACTTGGATAAGT
3613824 CAGGAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.29
Consensus pattern (17 bp):
AATGACTTGGATAAGTG
Found at i:3615117 original size:18 final size:18
Alignment explanation
Indices: 3615094--3615129 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3615084 CTTAGGTTGG
3615094 CTCCCTTTGTTGTGTGCT
1 CTCCCTTTGTTGTGTGCT
3615112 CTCCCTTTGTTGTGTGCT
1 CTCCCTTTGTTGTGTGCT
3615130 TAGGGTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.22, T:0.50
Consensus pattern (18 bp):
CTCCCTTTGTTGTGTGCT
Found at i:3623754 original size:22 final size:22
Alignment explanation
Indices: 3623729--3623772 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
3623719 TGAAGTTGTA
3623729 GATTCATTTTCAAGCTTGATTG
1 GATTCATTTTCAAGCTTGATTG
3623751 GATTCATTTTCAAGCTTGATTG
1 GATTCATTTTCAAGCTTGATTG
3623773 ATGATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (22 bp):
GATTCATTTTCAAGCTTGATTG
Found at i:3625225 original size:31 final size:31
Alignment explanation
Indices: 3625155--3625232 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
3625145 CTTTTAAAAC
**
3625155 TTGCAATACAGTCCCCCAACATTTAGTCCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCGT
*
3625186 TTGCAATATGGTCCCCCAACATTTAGTTCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCGT
3625217 TTGCAATATGGTCCCC
1 TTGCAATATGGTCCCC
3625233 AAAGTAACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTCCGT
Found at i:3628062 original size:31 final size:31
Alignment explanation
Indices: 3628027--3628094 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
3628017 TTGCAATGCA
3628027 GTCCCCCAACATTTAGTCCGTTTGCAATATG
1 GTCCCCCAACATTTAGTCCGTTTGCAATATG
*
3628058 GTCCCCCAACATTTAGTCTGTTTGCAATATG
1 GTCCCCCAACATTTAGTCCGTTTGCAATATG
3628089 GTCCCC
1 GTCCCC
3628095 GAAGTAACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.32
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCCGTTTGCAATATG
Found at i:3628586 original size:3 final size:3
Alignment explanation
Indices: 3628578--3628608 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3628568 TATGAACCAG
3628578 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3628609 TTGAGTAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3628633 original size:2 final size:2
Alignment explanation
Indices: 3628626--3628663 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3628616 GACGTATTTA
3628626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3628664 TAAATATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3629810 original size:19 final size:19
Alignment explanation
Indices: 3629782--3629823 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
3629772 GTGGAGAGAG
3629782 ATGTTAACGTGGTAAGTCT
1 ATGTTAACGTGGTAAGTCT
*
3629801 ATGTTGACGTGGTAAGTCT
1 ATGTTAACGTGGTAAGTCT
3629820 ATGT
1 ATGT
3629824 GGACTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.38
Consensus pattern (19 bp):
ATGTTAACGTGGTAAGTCT
Found at i:3630656 original size:19 final size:18
Alignment explanation
Indices: 3630625--3630663 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
3630615 AATTTATAAA
*
3630625 TTTAAAATTAATTAAAAT
1 TTTAAAATGAATTAAAAT
*
3630643 TTTAAATATGAATTTAAAT
1 TTTAAA-ATGAATTAAAAT
3630662 TT
1 TT
3630664 GCTCAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTAAAATGAATTAAAAT
Found at i:3631379 original size:56 final size:56
Alignment explanation
Indices: 3631308--3631544 Score: 281
Period size: 56 Copynumber: 4.3 Consensus size: 56
3631298 AAATAATATC
* * *
3631308 TTTAAAATTTTCTGTTTCGGAATTAATTTTTAAAATGTCATGGTTCCA-AATTAAGT
1 TTTAAAATATCCTGTTTCGGAATTAATTTTTAAAATGTC-TGGTTTCAGAATTAAGT
*
3631364 TTTAAAATATCCTGTTACGGAATTAATTTTTAAAATGTCTGG-----GAATTAAGT
1 TTTAAAATATCCTGTTTCGGAATTAATTTTTAAAATGTCTGGTTTCAGAATTAAGT
* * *
3631415 TTTAAAATATCATGTTTCGGAATTAATTTTTAAAATGTCTTGTTTCAGAATTAATT
1 TTTAAAATATCCTGTTTCGGAATTAATTTTTAAAATGTCTGGTTTCAGAATTAAGT
* * * * *
3631471 TTTAAAATGTCCTGTTTCAGAATTAACTTTTAAATTGTCCT-GTTTCAGAATTAACT
1 TTTAAAATATCCTGTTTCGGAATTAATTTTTAAAATGT-CTGGTTTCAGAATTAAGT
* *
3631527 TTTAAATTGTCCTGTTTC
1 TTTAAAATATCCTGTTTC
3631545 AAAGCTAATT
Statistics
Matches: 160, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
51 47 0.29
55 3 0.02
56 108 0.68
57 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (56 bp):
TTTAAAATATCCTGTTTCGGAATTAATTTTTAAAATGTCTGGTTTCAGAATTAAGT
Found at i:3631466 original size:79 final size:81
Alignment explanation
Indices: 3631326--3631545 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 81
3631316 TTTCTGTTTC
* * * * * *
3631326 GGAATTAATTTTTAAAATGTCATGGTTCCA-AATTAAGTTTTAAAATATCCTGTTACGGAATTAA
1 GGAATTAACTTTTAAAATGTCAT-GTTTCAGAATTAACTTTTAAAATGTCCTGTTTCAGAATTAA
3631390 TTTTTAAAATGT-CTG-
65 TTTTTAAAATGTCCTGT
* * * * *
3631405 GGAATTAAGTTTTAAAATATCATGTTTCGGAATTAATTTTTAAAATGTCTTGTTTCAGAATTAAT
1 GGAATTAACTTTTAAAATGTCATGTTTCAGAATTAACTTTTAAAATGTCCTGTTTCAGAATTAAT
3631470 TTTTAAAATGTCCTGTTT
66 TTTTAAAATGTCCTG--T
* * * *
3631488 CAGAATTAACTTTTAAATTGTCCTGTTTCAGAATTAACTTTTAAATTGTCCTGTTTCA
1 -GGAATTAACTTTTAAAATGTCATGTTTCAGAATTAACTTTTAAAATGTCCTGTTTCA
3631546 AAGCTAATTC
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
78 4 0.03
79 62 0.53
80 3 0.03
84 48 0.41
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (81 bp):
GGAATTAACTTTTAAAATGTCATGTTTCAGAATTAACTTTTAAAATGTCCTGTTTCAGAATTAAT
TTTTAAAATGTCCTGT
Found at i:3631533 original size:28 final size:28
Alignment explanation
Indices: 3631308--3631545 Score: 254
Period size: 28 Copynumber: 8.7 Consensus size: 28
3631298 AAATAATATC
* * *
3631308 TTTAAAATTTTCTGTTTCGGAATTAATT
1 TTTAAAATGTCCTGTTTCAGAATTAATT
* * *
3631336 TTTAAAATGTCATGGTTCCA-AATTAAGT
1 TTTAAAATGTCCT-GTTTCAGAATTAATT
* * *
3631364 TTTAAAATATCCTGTTACGGAATTAATT
1 TTTAAAATGTCCTGTTTCAGAATTAATT
* *
3631392 TTTAAAATGT-CTG----GGAATTAAGT
1 TTTAAAATGTCCTGTTTCAGAATTAATT
* * *
3631415 TTTAAAATATCATGTTTCGGAATTAATT
1 TTTAAAATGTCCTGTTTCAGAATTAATT
*
3631443 TTTAAAATGTCTTGTTTCAGAATTAATT
1 TTTAAAATGTCCTGTTTCAGAATTAATT
*
3631471 TTTAAAATGTCCTGTTTCAGAATTAACT
1 TTTAAAATGTCCTGTTTCAGAATTAATT
* *
3631499 TTTAAATTGTCCTGTTTCAGAATTAACT
1 TTTAAAATGTCCTGTTTCAGAATTAATT
*
3631527 TTTAAATTGTCCTGTTTCA
1 TTTAAAATGTCCTGTTTCA
3631546 AAGCTAATTC
Statistics
Matches: 181, Mismatches: 22, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
23 18 0.10
24 2 0.01
27 7 0.04
28 150 0.83
29 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (28 bp):
TTTAAAATGTCCTGTTTCAGAATTAATT
Found at i:3631739 original size:28 final size:28
Alignment explanation
Indices: 3631697--3631963 Score: 142
Period size: 28 Copynumber: 9.4 Consensus size: 28
3631687 AATAATATTT
* * **
3631697 TTAAAATTTCTTGTTTCGGCTTTAATTA
1 TTAAAATGTCCTGTTTCGGAATTAATTA
* *
3631725 TTAAAATGTCCTG-TTCTGGAAATAATTT
1 TTAAAATGTCCTGTTTC-GGAATTAATTA
* * * *
3631753 TTAACATATACTGTTTCTGGCATTAATTA
1 TTAAAATGTCCTGTTTC-GGAATTAATTA
* * *
3631782 TTCAAACGTCCCGTTT-GGAAATTAATTA
1 TTAAAATGTCCTGTTTCGG-AATTAATTA
* * * * *
3631810 TTAAAATGTTCTATTCCCGAATTCATTA
1 TTAAAATGTCCTGTTTCGGAATTAATTA
* *
3631838 TGAAAATGTCCTGTTTTGGAATTAATTA
1 TTAAAATGTCCTGTTTCGGAATTAATTA
** ** * **
3631866 TTACTATACCCTGTGCTCTTAATTAATTA
1 TTAAAATGTCCTGT-TTCGGAATTAATTA
* * * * **
3631895 CTGAGATCTCCTGTGTTATGAATTAATTA
1 TTAAAATGTCCTGT-TTCGGAATTAATTA
* *
3631924 TTAAAATGTCATGTGTTCGGAATTAAATA
1 TTAAAATGTCCTGT-TTCGGAATTAATTA
*
3631953 TTGAAATGTCC
1 TTAAAATGTCC
3631964 AGTGTTATAT
Statistics
Matches: 172, Mismatches: 62, Indels: 9
0.71 0.26 0.04
Matches are distributed among these distances:
27 5 0.03
28 84 0.49
29 83 0.48
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (28 bp):
TTAAAATGTCCTGTTTCGGAATTAATTA
Done.