Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_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: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 18
Found at i:3061778 original size:72 final size:73
Alignment explanation
Indices: 3061680--3061818 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 73
3061670 GATTTGCTCG
** * *
3061680 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATAGTCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCATTGCGATAGACA
3061744 TTTCCGCA
66 TTTCCGCA
*
3061752 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCGTTGCGATAGACA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCATTGCGATAGACA
3061817 TT
66 TT
3061819 AAGATGATTG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 45 0.74
73 16 0.26
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (73 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCATTGCGATAGACA
TTTCCGCA
Found at i:3061800 original size:33 final size:33
Alignment explanation
Indices: 3061645--3061791 Score: 206
Period size: 33 Copynumber: 4.3 Consensus size: 33
3061635 ACTAAATTCG
*
3061645 CGTTGCGATTTTCATTTCGCTTTGCGATT-TGCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCT-CT
3061678 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
3061711 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTT
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC-TCT
3061747 CCGCATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 -CG--TTGCGATTTTCATTTCGCATTGCGATTCTCT
3061783 CGTTGCGAT
1 CGTTGCGAT
3061792 AGTAATTTCC
Statistics
Matches: 104, Mismatches: 3, Indels: 14
0.86 0.02 0.12
Matches are distributed among these distances:
33 65 0.62
34 1 0.01
35 4 0.04
36 4 0.04
37 4 0.04
39 26 0.25
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:3064386 original size:24 final size:24
Alignment explanation
Indices: 3064335--3064386 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
3064325 ATCTGAGTAT
** *
3064335 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
3064359 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
3064383 TGAC
1 TGAC
3064387 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:3065284 original size:20 final size:20
Alignment explanation
Indices: 3065267--3065361 Score: 145
Period size: 20 Copynumber: 4.5 Consensus size: 20
3065257 AATACGTATC
3065267 CGCGTTGCGATTTACGTAAT
1 CGCGTTGCGATTTACGTAAT
3065287 CGCGTTGCGATTTACGTTACGTAAT
1 CGCGTTGCGA--T---TTACGTAAT
3065312 CGCGTTGCGATTTACGTAAT
1 CGCGTTGCGATTTACGTAAT
3065332 CGCGTTGCGATTTACGTAAT
1 CGCGTTGCGATTTACGTAAT
3065352 CGCGTTGCGA
1 CGCGTTGCGA
3065362 ATTAGGAAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
20 49 0.70
22 1 0.01
23 1 0.01
25 19 0.27
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGTAAT
Found at i:3065312 original size:25 final size:25
Alignment explanation
Indices: 3065278--3065348 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
3065268 GCGTTGCGAT
3065278 TTACGTAATCGCGTTGCGATTTACG
1 TTACGTAATCGCGTTGCGATTTACG
3065303 TTACGTAATCGCGTTGCGA--T---
1 TTACGTAATCGCGTTGCGATTTACG
3065323 TTACGTAATCGCGTTGCGATTTACG
1 TTACGTAATCGCGTTGCGATTTACG
3065348 T
1 T
3065349 AATCGCGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 19 0.46
22 1 0.02
23 1 0.02
25 20 0.49
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (25 bp):
TTACGTAATCGCGTTGCGATTTACG
Found at i:3065323 original size:45 final size:45
Alignment explanation
Indices: 3065259--3065348 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
3065249 GCAACGCGAA
3065259 TACGTATCCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
1 TACGTATCCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
3065304 TACGTAAT-CGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
1 TACGT-ATCCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
3065349 AATCGCGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (45 bp):
TACGTATCCGCGTTGCGATTTACGTAATCGCGTTGCGATTTACGT
Found at i:3065382 original size:21 final size:21
Alignment explanation
Indices: 3065358--3065403 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
3065348 TAATCGCGTT
*
3065358 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCACAAC
* * *
3065379 GCGAATTTGGGAAATCACAAT
1 GCGAATTAGGAAAATCACAAC
3065400 GCGA
1 GCGA
3065404 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCACAAC
Found at i:3066416 original size:2 final size:2
Alignment explanation
Indices: 3066409--3066444 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
3066399 CGATTTTTGA
*
3066409 AT AT AT AT AT AT AT AT AT AT TT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3066445 GTTTTTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3066541 original size:37 final size:37
Alignment explanation
Indices: 3066430--3066603 Score: 237
Period size: 38 Copynumber: 4.7 Consensus size: 37
3066420 TATATATATT
*
3066430 TATATATAATATATAGTTTTT-AAGACATTTTGAAAA
1 TATATATAATATATAGTTTTTGAAAACATTTTGAAAA
* *
3066466 CT-TATATAATATGTAGTTTTTAAAAAACATTTTGAAAA
1 -TATATATAATATATAGTTTTT-GAAAACATTTTGAAAA
* *
3066504 TATATACAATATATAGTTTTTGAAAACATTTTTAAAA
1 TATATATAATATATAGTTTTTGAAAACATTTTGAAAA
**
3066541 TATATATAATATATAGTTTTTGAAAACATTTTTTTAAA
1 TATATATAATATATAGTTTTTGAAAACA-TTTTGAAAA
3066579 TATATATAATATATAG-TTTTGAAAA
1 TATATATAATATATAGTTTTTGAAAA
3066604 TGTTTTTGAA
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
36 18 0.14
37 52 0.42
38 55 0.44
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (37 bp):
TATATATAATATATAGTTTTTGAAAACATTTTGAAAA
Found at i:3066558 original size:75 final size:75
Alignment explanation
Indices: 3066430--3066603 Score: 239
Period size: 75 Copynumber: 2.3 Consensus size: 75
3066420 TATATATATT
* *
3066430 TATATATAATATATAGTTTTT-AAGACATTTTGAAAACTTATATAATATGTAGTTTTTAAAAAAC
1 TATATATAATATATAGTTTTTGAAAACATTTTGAAAACTTATATAATATATAGTTTTT-AAAAAC
3066494 A-TTTTGAAAA
65 ATTTTTGAAAA
* * *
3066504 TATATACAATATATAGTTTTTGAAAACATTTTTAAAA-TATATATAATATATAGTTTTTGAAAAC
1 TATATATAATATATAGTTTTTGAAAACATTTTGAAAACT-TATATAATATATAGTTTTTAAAAAC
**
3066568 ATTTTTTTAAA
65 ATTTTTGAAAA
3066579 TATATATAATATATAG-TTTTGAAAA
1 TATATATAATATATAGTTTTTGAAAA
3066604 TGTTTTTGAA
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
74 36 0.40
75 53 0.60
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (75 bp):
TATATATAATATATAGTTTTTGAAAACATTTTGAAAACTTATATAATATATAGTTTTTAAAAACA
TTTTTGAAAA
Found at i:3066671 original size:4 final size:4
Alignment explanation
Indices: 3066647--3066694 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
3066637 ATATAATATA
* * *
3066647 TATT TGTT TTTT TAAT TATT TATT TA-T TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
3066694 T
1 T
3066695 TTTCCTTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:3066677 original size:11 final size:11
Alignment explanation
Indices: 3066661--3066694 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
3066651 TGTTTTTTTA
3066661 ATTATTTATTT
1 ATTATTTATTT
3066672 ATTATTTATTT
1 ATTATTTATTT
3066683 ATTTATTTATTT
1 A-TTATTTATTT
3066695 TTTCCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTATTTATTT
Found at i:3066679 original size:19 final size:19
Alignment explanation
Indices: 3066657--3066693 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3066647 TATTTGTTTT
3066657 TTTAATTATTTATTTATTA
1 TTTAATTATTTATTTATTA
*
3066676 TTTATTTATTTATTTATT
1 TTTAATTATTTATTTATT
3066694 TTTTCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTAATTATTTATTTATTA
Found at i:3067966 original size:25 final size:26
Alignment explanation
Indices: 3067903--3067968 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
3067893 AACTTTTTTA
3067903 ATTTTTAATTTATTTTCCCCTTTAATTT
1 ATTTTTAATTT-TTTT-CCCTTTAATTT
** *
3067931 A--TTTAATATTTTTTTTCTTTGATTT
1 ATTTTTAAT-TTTTTTCCCTTTAATTT
3067956 ATTTTTAATTTTT
1 ATTTTTAATTTTT
3067969 ATGTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 9 0.28
26 14 0.44
27 8 0.25
28 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.70
Consensus pattern (26 bp):
ATTTTTAATTTTTTTCCCTTTAATTT
Found at i:3068009 original size:25 final size:23
Alignment explanation
Indices: 3067906--3068013 Score: 64
Period size: 25 Copynumber: 4.7 Consensus size: 23
3067896 TTTTTTAATT
* * *
3067906 TTTAATTTA-TTTTCCCCTTTAA
1 TTTATTTTATTTTTTCCCTTTGA
**
3067928 TTTATTTAATATTTTTTTTCTTTGA
1 TTTATTT--TATTTTTTCCCTTTGA
* *
3067953 TTTATTTTTAATTTTT--ATGTT--
1 TTTA-TTTTATTTTTTCCCT-TTGA
3067974 TTTATTTTATTTTTTCCCTTTGA
1 TTTATTTTATTTTTTCCCTTTGA
3067997 TTTATTTAGTATTTTTT
1 TTTATTT--TATTTTTT
3068014 ATTATTTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
20 10 0.15
21 6 0.09
22 8 0.12
23 9 0.14
24 9 0.14
25 21 0.32
26 3 0.05
ACGTcount: A:0.19, C:0.07, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTATTTTATTTTTTCCCTTTGA
Found at i:3068045 original size:69 final size:69
Alignment explanation
Indices: 3067892--3068046 Score: 158
Period size: 69 Copynumber: 2.3 Consensus size: 69
3067882 TTTTAAAATT
*
3067892 TAAC-TTTTTTAATTTTTAATTTATTTTCCCCTTTAATTTATTTAATATTTTTTTTCTTTGATTT
1 TAACATTTTTTAATTTTTAATTTATTTTCCCCTTTAATTTATTTAATATTTTTTTTATTTGATTT
*
3067956 ATTT
66 ATTC
* * * * * * *
3067960 TTA-A-TTTTTATGTTTTTATTTTATTTTTTCCCTTTGATTTATTTAGTATTTTTTATTATTT-T
1 TAACATTTTTTA-ATTTTTAATTTA-TTTTCCCCTTTAATTTATTTAATATTTTTT-TTATTTGA
3068022 TTTA-TC
63 TTTATTC
*
3068028 TAACATTTTTTACTTTTTA
1 TAACATTTTTTAATTTTTA
3068047 GAGGAATTCC
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
67 6 0.09
68 15 0.21
69 38 0.54
70 11 0.16
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (69 bp):
TAACATTTTTTAATTTTTAATTTATTTTCCCCTTTAATTTATTTAATATTTTTTTTATTTGATTT
ATTC
Found at i:3068335 original size:16 final size:16
Alignment explanation
Indices: 3068314--3068351 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3068304 TTAAGTCGAA
*
3068314 GCCCAATTCTAGACCC
1 GCCCAATTCCAGACCC
3068330 GCCCAATTCCAGACCC
1 GCCCAATTCCAGACCC
*
3068346 ACCCAA
1 GCCCAA
3068352 AAGACGCCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.47, G:0.11, T:0.13
Consensus pattern (16 bp):
GCCCAATTCCAGACCC
Found at i:3069782 original size:22 final size:22
Alignment explanation
Indices: 3069757--3069798 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
3069747 TGTTGAATAG
3069757 TTCAACATTCAGCGCTGAATGA
1 TTCAACATTCAGCGCTGAATGA
3069779 TTCAACATTCAGCGCTGAAT
1 TTCAACATTCAGCGCTGAAT
3069799 AATTTCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (22 bp):
TTCAACATTCAGCGCTGAATGA
Found at i:3075092 original size:39 final size:41
Alignment explanation
Indices: 3074975--3075102 Score: 104
Period size: 40 Copynumber: 3.1 Consensus size: 41
3074965 GAGTAGGTTG
* * *
3074975 GATTATTTTAATGTTATAATAATGGGTAGTGGTAGGTTAAAGTA
1 GATTATTTTAATGTTATAATAGTGGATAGTGGTAGATT--A-TA
* * * *
3075019 GATTATTATAATG--AGTAATGGTAGATAATGGGTAGATT-TA
1 GATTATTTTAATGTTA-TAATAGTGGATAGT-GGTAGATTATA
*
3075059 -ATTATTTTAATGTTATAATAGTGGATAGTGGTAGATAATA
1 GATTATTTTAATGTTATAATAGTGGATAGTGGTAGATTATA
3075099 -ATTA
1 GATTA
3075103 ATAATAATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
39 18 0.27
40 19 0.28
41 1 0.01
42 1 0.01
43 9 0.13
44 19 0.28
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.41
Consensus pattern (41 bp):
GATTATTTTAATGTTATAATAGTGGATAGTGGTAGATTATA
Found at i:3075111 original size:13 final size:13
Alignment explanation
Indices: 3075093--3075121 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3075083 ATAGTGGTAG
3075093 ATAATAATTAATA
1 ATAATAATTAATA
3075106 ATAATAATTAATA
1 ATAATAATTAATA
3075119 ATA
1 ATA
3075122 TTTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATAATTAATA
Found at i:3086045 original size:27 final size:27
Alignment explanation
Indices: 3086010--3086063 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
3086000 TAATTTATGC
* *
3086010 GTATTTTATATTTAGGTCGCTGGTTTA
1 GTATTTTATATTTAGGTCACTGATTTA
*
3086037 GTATTTTATGTTTAGGTCACTGATTTA
1 GTATTTTATATTTAGGTCACTGATTTA
3086064 TTTCTGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.52
Consensus pattern (27 bp):
GTATTTTATATTTAGGTCACTGATTTA
Found at i:3088242 original size:55 final size:55
Alignment explanation
Indices: 3088176--3088288 Score: 183
Period size: 55 Copynumber: 2.1 Consensus size: 55
3088166 GCGTTCAGAT
*
3088176 GATTCATGAAGAAGAACATTCGATGAATGAAGAAATTT-AAACCTGATTGAAGAAC
1 GATTCATGAAGAAGAACATCCGATGAATGAAGAAATTTGAAA-CTGATTGAAGAAC
* *
3088231 GATTCATGAAGAAGGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGACC
1 GATTCATGAAGAAGAACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
3088286 GAT
1 GAT
3088289 CCACAAAGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 51 0.94
56 3 0.06
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (55 bp):
GATTCATGAAGAAGAACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
Found at i:3088298 original size:55 final size:55
Alignment explanation
Indices: 3088184--3088306 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 55
3088174 ATGATTCATG
* * * **
3088184 AAGAAGAACATTCGATGAATGAAGAAATTTAAACCTGATTGAAGAACGATTCATG
1 AAGAAGGACATCCGATGAATGAAGAAATTTAAACCTGATTGAAGAACGATCCACA
*
3088239 AAGAAGGACATCCGATGAATGAAGAAATTTGAAA-CTGATTGAAGACCGATCCACA
1 AAGAAGGACATCCGATGAATGAAGAAATTT-AAACCTGATTGAAGAACGATCCACA
*
3088294 AAGAAAGACATCC
1 AAGAAGGACATCC
3088307 TAAAGATGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 57 0.95
56 3 0.05
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (55 bp):
AAGAAGGACATCCGATGAATGAAGAAATTTAAACCTGATTGAAGAACGATCCACA
Found at i:3092504 original size:125 final size:125
Alignment explanation
Indices: 3092343--3092568 Score: 362
Period size: 125 Copynumber: 1.8 Consensus size: 125
3092333 ATACCCACAC
* ** * * * *
3092343 TGGGGCATGACTAAACCCCCATCATTTTGAGATGACATGATTCGGACGAAGAAGGCATTGAGAAT
1 TGGGGCATGACTAAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGAAT
3092408 GAGCCTTACAATTTGAGGTGTTGGGGAATTTTGAAGACTCGTACCAGTAAAAGATTATAT
66 GAGCCTTACAATTTGAGGTGTTGGGGAATTTTGAAGACTCGTACCAGTAAAAGATTATAT
* *
3092468 TGGGGCATGACTGAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCTTTGAGAAT
1 TGGGGCATGACTAAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGAAT
*
3092533 GAGCCTTACAATTTGAGGTGTTGGGGCATTTTGAAG
66 GAGCCTTACAATTTGAGGTGTTGGGGAATTTTGAAG
3092569 GCCCGTATCA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 91 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (125 bp):
TGGGGCATGACTAAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGAAT
GAGCCTTACAATTTGAGGTGTTGGGGAATTTTGAAGACTCGTACCAGTAAAAGATTATAT
Found at i:3092600 original size:125 final size:125
Alignment explanation
Indices: 3092346--3092600 Score: 350
Period size: 125 Copynumber: 2.0 Consensus size: 125
3092336 CCCACACTGG
* ** * * * *
3092346 GGCATGACTAAACCCCCATCATTTTGAGATGACATGATTCGGACGAAGAAGGCATTGAGAATGAG
1 GGCATGACTAAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGAATGAG
* * *
3092411 CCTTACAATTTGAGGTGTTGGGGAATTTTGAAGACTCGTACCAGTAAAAGATTATATTGG
66 CCTTACAATTTGAGGTGTTGGGGAATTTTGAAGACCCGTACCAGTAAAAGATAATATTGC
* *
3092471 GGCATGACTGAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCTTTGAGAATGAG
1 GGCATGACTAAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGAATGAG
* * * *
3092536 CCTTACAATTTGAGGTGTTGGGGCATTTTGAAGGCCCGTATCAG-AATAAGATAATGTTGC
66 CCTTACAATTTGAGGTGTTGGGGAATTTTGAAGACCCGTACCAGTAA-AAGATAATATTGC
3092596 GGCAT
1 GGCAT
3092601 TAGTGAAGGC
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
124 2 0.02
125 111 0.98
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (125 bp):
GGCATGACTAAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGAATGAG
CCTTACAATTTGAGGTGTTGGGGAATTTTGAAGACCCGTACCAGTAAAAGATAATATTGC
Found at i:3093770 original size:27 final size:27
Alignment explanation
Indices: 3093735--3093788 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
3093725 TAATTTATGC
* *
3093735 GTATTTTATATTTAGGTCGCTGGTTTA
1 GTATTTTATATTTAGGTCACTGATTTA
*
3093762 GTATTTTATGTTTAGGTCACTGATTTA
1 GTATTTTATATTTAGGTCACTGATTTA
3093789 TTTCTGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.52
Consensus pattern (27 bp):
GTATTTTATATTTAGGTCACTGATTTA
Found at i:3095827 original size:22 final size:22
Alignment explanation
Indices: 3095802--3095866 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
3095792 CTTAGTAATA
*
3095802 ATACTAAAGTGCCTCAGCACTG
1 ATACAAAAGTGCCTCAGCACTG
*
3095824 ATACAAAAGTGCATTC-GCACTG
1 ATACAAAAGTGC-CTCAGCACTG
3095846 ATACAAAAGTGCCAT-AGCACT
1 ATACAAAAGTGCC-TCAGCACT
3095867 AAGGAAAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (22 bp):
ATACAAAAGTGCCTCAGCACTG
Found at i:3096261 original size:17 final size:18
Alignment explanation
Indices: 3096218--3096268 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
3096208 AATTTCAGTT
3096218 TGAAAAG-ATGACTTAGTG
1 TGAAAAGTA-GACTTAGTG
3096236 TGAAAAGTAGACTTAGTG
1 TGAAAAGTAGACTTAGTG
*
3096254 TG-AAAGTAGCCTTAG
1 TGAAAAGTAGACTTAG
3096269 ACTTTCAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 12 0.39
18 18 0.58
19 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (18 bp):
TGAAAAGTAGACTTAGTG
Found at i:3102040 original size:29 final size:29
Alignment explanation
Indices: 3101985--3102051 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
3101975 GGAAAAAAGG
* *
3101985 TTTTAAAAATTGTAATAAAGTACAAAA-T
1 TTTTATAAATTATAATAAAGTACAAAACT
**
3102013 TGTTTATAAATTATAATAAAGTGTAAAACT
1 T-TTTATAAATTATAATAAAGTACAAAACT
3102043 TTTTATAAA
1 TTTTATAAA
3102052 ATAAAGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.03
29 30 0.91
30 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.40
Consensus pattern (29 bp):
TTTTATAAATTATAATAAAGTACAAAACT
Found at i:3102114 original size:28 final size:28
Alignment explanation
Indices: 3102063--3102116 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
3102053 TAAAGTATAC
* **
3102063 TTTTTTTTATAAATTATGACAAAGGACA
1 TTTTTTTTATAAAATACAACAAAGGACA
*
3102091 TTTTTTTTATAAAATACAATAAAGGA
1 TTTTTTTTATAAAATACAACAAAGGA
3102117 AAACTTCTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (28 bp):
TTTTTTTTATAAAATACAACAAAGGACA
Found at i:3103640 original size:12 final size:12
Alignment explanation
Indices: 3103620--3103651 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3103610 AAAAGACTCT
3103620 TAAATATACATA
1 TAAATATACATA
*
3103632 TACATATACATA
1 TAAATATACATA
3103644 TAAATATA
1 TAAATATA
3103652 TTTGAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAATATACATA
Found at i:3105366 original size:17 final size:17
Alignment explanation
Indices: 3105337--3105382 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
3105327 TCACAATCTC
*
3105337 GTTT-AAAAGCATTAAGT
1 GTTTGAAAA-CATTAAAT
3105354 GTTTGAAAACATTAAAT
1 GTTTGAAAACATTAAAT
3105371 GTTTGAAAACAT
1 GTTTGAAAACAT
3105383 GTTTCTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (17 bp):
GTTTGAAAACATTAAAT
Found at i:3106836 original size:16 final size:16
Alignment explanation
Indices: 3106817--3106857 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
3106807 TTTATAGATT
*
3106817 AATTAATAACTCTTTA
1 AATTAATAACTCTTGA
3106833 AATTAATAACTCTTGA
1 AATTAATAACTCTTGA
3106849 AATTAATAA
1 AATTAATAA
3106858 AATTACATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (16 bp):
AATTAATAACTCTTGA
Found at i:3124093 original size:113 final size:113
Alignment explanation
Indices: 3123893--3124379 Score: 688
Period size: 113 Copynumber: 4.2 Consensus size: 113
3123883 AACTTTCAAC
* *
3123893 AAAGTATCGATACATTTTTAT-AAAAAGTATCTATACTTTCAACATATCAGGCAAATTTTACCGG
1 AAAGTATCGATACATTTTTATAAAAAAG-ATCGATACTTTCAACATATCAGGTAAATTTTACCGG
*
3123957 TTTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
65 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * * * *
3124006 AAAGTGTCGATCCTTTTTTATAAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTATCGGT
1 AAAGTATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
*
3124071 TTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * *
3124119 AAAGTATCGATCCTTTTTATAAAAAAGATCGATAAAAAGATCGATACTTTCAACATATTATGTAA
1 AAAGTATCGATACATTTT-T-------AT--A-AAAAAGATCGATACTTTCAACATATCAGGTAA
* *
3124184 ATTTTACCGGTTTTGTCATAATGAAACTGATTTTGTCATAATTTTACCTGTTATATTGT
55 ATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
3124243 AAAGTATCGATACATTTTTATAAAAAAGATCGATGCTTTCAACATATCCGGTAAATTTTACCGAT
1 AAAGTATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
3124308 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
3124356 AAAGTATCGATACATTTTTATAAA
1 AAAGTATCGATACATTTTTATAAA
3124380 GTATCGATAC
Statistics
Matches: 335, Mismatches: 27, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
113 222 0.66
114 7 0.02
116 2 0.01
121 2 0.01
123 2 0.01
124 100 0.30
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (113 bp):
AAAGTATCGATACATTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:3124157 original size:12 final size:12
Alignment explanation
Indices: 3124140--3124164 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3124130 CCTTTTTATA
3124140 AAAAAGATCGAT
1 AAAAAGATCGAT
3124152 AAAAAGATCGAT
1 AAAAAGATCGAT
3124164 A
1 A
3124165 CTTTCAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (12 bp):
AAAAAGATCGAT
Found at i:3124340 original size:237 final size:239
Alignment explanation
Indices: 3123912--3124379 Score: 760
Period size: 237 Copynumber: 2.0 Consensus size: 239
3123902 ATACATTTTT
* *
3123912 ATAAAAAGTATCTATACTTTCAACATATCAGGCAAATTTTACCGGTTTTATCATAATGAAACTGG
1 ATAAAAAGTATCGATACTTTCAACATATCAGGCAAATTTTACCGGTTTTATCATAATGAAACTGA
* * * * *
3123977 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTGTCGATCCTTTTTTATAAAAAGGATCGATAC
66 TTTTGTCATAATTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATAC
* *
3124042 TTTCAACATATCAAGTAAATTTTATCGGTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTAC
131 TTTCAACATATCAAGTAAATTTTACCGATTTTGTCATAATGAAACTAGTTTTGTCATATTTTTAC
*
3124107 CTGTTATATTGTAAAGTATCGAT-CCTTTTTATAAAAAAGATCG
196 CTGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCG
* * * *
3124150 ATAAAAAG-ATCGATACTTTCAACATATTATGTAAATTTTACCGGTTTTGTCATAATGAAACTGA
1 ATAAAAAGTATCGATACTTTCAACATATCAGGCAAATTTTACCGGTTTTATCATAATGAAACTGA
*
3124214 TTTTGTCATAATTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATGC
66 TTTTGTCATAATTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATAC
** *
3124279 TTTCAACATATCCGGTAAATTTTACCGATTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
131 TTTCAACATATCAAGTAAATTTTACCGATTTTGTCATAATGAAACTAGTTTTGTCATATTTTTAC
3124344 CTGTTATATTGTAAAGTATCGATACATTTTTATAAA
196 CTGTTATATTGTAAAGTATCGATACATTTTTATAAA
3124380 GTATCGATAC
Statistics
Matches: 211, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
237 192 0.91
238 19 0.09
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (239 bp):
ATAAAAAGTATCGATACTTTCAACATATCAGGCAAATTTTACCGGTTTTATCATAATGAAACTGA
TTTTGTCATAATTTTACCTGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCGATAC
TTTCAACATATCAAGTAAATTTTACCGATTTTGTCATAATGAAACTAGTTTTGTCATATTTTTAC
CTGTTATATTGTAAAGTATCGATACATTTTTATAAAAAAGATCG
Found at i:3124750 original size:23 final size:23
Alignment explanation
Indices: 3124700--3124744 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3124690 AACTTATTTT
*
3124700 ATTATATAAGCACTACCTACTAC
1 ATTATATAAGCACTACCTAATAC
**
3124723 ATTATATAAGCGGTACCTAATA
1 ATTATATAAGCACTACCTAATA
3124745 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:3124774 original size:87 final size:87
Alignment explanation
Indices: 3124636--3124820 Score: 325
Period size: 87 Copynumber: 2.1 Consensus size: 87
3124626 AACCTATTTT
*
3124636 ATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACTTATTTTA
1 ATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
3124701 TTATATAAGCACTACCTACTAC
66 TTATATAAGCACTACCTACTAC
* *
3124723 ATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCTATTTTA
1 ATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
* *
3124788 TTATATAAGCGCTACCTATTAC
66 TTATATAAGCACTACCTACTAC
3124810 ATTATATAAGC
1 ATTATATAAGC
3124821 ACTATCTATT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 93 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (87 bp):
ATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTA
TTATATAAGCACTACCTACTAC
Found at i:3124797 original size:64 final size:64
Alignment explanation
Indices: 3124714--3124938 Score: 222
Period size: 64 Copynumber: 3.4 Consensus size: 64
3124704 TATAAGCACT
* *
3124714 ACCTACTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTA
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTA
** * ** ** * * *
3124778 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCACT-ATCTAT-TACATTATA-T
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTAT-TGTGC-TTGAT-AATGT---TTCTAGT
*
3124840 AAGTGTT
60 AA-T-TA
* *
3124847 ATCTATTACATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTA
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTA
3124911 ACCTATTACATTATATAAGCGCTACCTA
1 ACCTATTACATTATATAAGCGCTACCTA
3124939 TTACAATATA
Statistics
Matches: 122, Mismatches: 28, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
64 57 0.47
65 11 0.09
66 6 0.05
67 6 0.05
68 11 0.09
69 31 0.25
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (64 bp):
ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTA
Found at i:3124813 original size:23 final size:23
Alignment explanation
Indices: 3124778--3124967 Score: 124
Period size: 23 Copynumber: 8.5 Consensus size: 23
3124768 CTAGTAATTA
**
3124778 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
3124801 ACCTATTACATTATATAAGCACT
1 ACCTATTACATTATATAAGCGCT
* * *
3124824 ATCTATTACATTATATAAGTGTT
1 ACCTATTACATTATATAAGCGCT
* *
3124847 ATCTATTACATTATATAAGCGAT
1 ACCTATTACATTATATAAGCGCT
* ** *
3124870 ACCTAATATGTTAT-T--GTGCT
1 ACCTATTACATTATATAAGCGCT
*** * ** * *
3124890 TGATAAT-GTTTCTAGTAA---TT
1 ACCTATTACATTATA-TAAGCGCT
3124910 AACCTATTACATTATATAAGCGCT
1 -ACCTATTACATTATATAAGCGCT
*
3124934 ACCTATTACAATATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
3124957 ACCTATTACAT
1 ACCTATTACAT
3124968 CATGTTTTTA
Statistics
Matches: 126, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
19 3 0.02
20 8 0.06
21 7 0.06
22 5 0.04
23 102 0.81
24 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:3124938 original size:133 final size:133
Alignment explanation
Indices: 3124720--3124967 Score: 442
Period size: 133 Copynumber: 1.9 Consensus size: 133
3124710 CACTACCTAC
*
3124720 TACATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCTATT
1 TACATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCTATT
** * *
3124785 TTATTATATAAGCGCTACCTATTACATTATATAAGCACTATCTATTACATTATATAAGTGTTATC
66 ACATTATATAAGCGCTACCTATTACAATATATAAGCACTACCTATTACATTATATAAGTGTTATC
3124850 TAT
131 TAT
3124853 TACATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCTATT
1 TACATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCTATT
*
3124918 ACATTATATAAGCGCTACCTATTACAATATATAAGCGCTACCTATTACAT
66 ACATTATATAAGCGCTACCTATTACAATATATAAGCACTACCTATTACAT
3124968 CATGTTTTTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 109 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (133 bp):
TACATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCTATT
ACATTATATAAGCGCTACCTATTACAATATATAAGCACTACCTATTACATTATATAAGTGTTATC
TAT
Found at i:3125175 original size:112 final size:112
Alignment explanation
Indices: 3124967--3125262 Score: 475
Period size: 112 Copynumber: 2.6 Consensus size: 112
3124957 ACCTATTACA
*
3124967 TCATGTTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAAAGATCGATACTTTCAA
1 TCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAAAGATCGATACTTTCAA
* *
3125032 CATATCAGGTAAATTTTACCGGTTTTATCATAATAAAAATGGTTTTG
66 CATATCAGGTAAATTTTACCGATTTTATCATAATAAAAATGATTTTG
* * *
3125079 TCATATTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGGATCGATAATTTCAA
1 TCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAAAGATCGATACTTTCAA
* * * *
3125144 CATATCAGGTACATTTTACCGATTTTGTCATAATGAAACTGATTTTG
66 CATATCAGGTAAATTTTACCGATTTTATCATAATAAAAATGATTTTG
* *
3125191 TCATATTTTTACCTGCTATATTGTAAAGTATCGATACATTTTTATAAAAATGATCGATACTTTCA
1 TCATATTTTTACCTGTTATATTGTAAAGTATCGAT-CATTTTTATAAAAAAGATCGATACTTTCA
3125256 ACATATC
65 ACATATC
3125263 TGTTGAAAAC
Statistics
Matches: 169, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
112 136 0.80
113 33 0.20
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (112 bp):
TCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAAAGATCGATACTTTCAA
CATATCAGGTAAATTTTACCGATTTTATCATAATAAAAATGATTTTG
Found at i:3127900 original size:14 final size:14
Alignment explanation
Indices: 3127865--3127898 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3127855 ACGGTCAACG
3127865 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3127879 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3127893 GATCGG
1 G-TCGG
3127899 TCAAACTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.09, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:3127918 original size:19 final size:19
Alignment explanation
Indices: 3127890--3127979 Score: 67
Period size: 19 Copynumber: 4.5 Consensus size: 19
3127880 TCGGGTCGGG
* *
3127890 TCAGATCGGTCAAACTGGT
1 TCAGACCGGTCAAACCGGT
3127909 TCAGACCGGTCAAACCGGTT
1 TCAGACCGGTCAAACCGG-T
* *
3127929 CGATCAGACCGGTCAAATCAGT
1 ---TCAGACCGGTCAAACCGGT
3127951 TC-GAACCGGTCGAAACCGG-
1 TCAG-ACCGGTC-AAACCGGT
*
3127970 TCAAACCGGT
1 TCAGACCGGT
3127980 TTCCAGCCGT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
18 1 0.02
19 33 0.58
20 6 0.11
22 1 0.02
23 16 0.28
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:3127927 original size:9 final size:9
Alignment explanation
Indices: 3127896--3127979 Score: 51
Period size: 10 Copynumber: 8.4 Consensus size: 9
3127886 CGGGTCAGAT
3127896 CGGTCAAAC
1 CGGTCAAAC
* *
3127905 TGGTTCAGAC
1 CGG-TCAAAC
3127915 CGGTCAAAC
1 CGGTCAAAC
3127924 CGGTTCGATCAGAC
1 CGG-TC-A--A-AC
3127938 CGGTCAAATC
1 CGGTCAAA-C
* * *
3127948 AGTTCGAAC
1 CGGTCAAAC
3127957 CGGTCGAAAC
1 CGGTC-AAAC
3127967 CGGTCAAAC
1 CGGTCAAAC
3127976 CGGT
1 CGGT
3127980 TTCCAGCCGT
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
9 23 0.40
10 24 0.42
11 1 0.02
12 1 0.02
13 3 0.05
14 5 0.09
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.18
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:3127939 original size:23 final size:23
Alignment explanation
Indices: 3127909--3127954 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3127899 TCAAACTGGT
*
3127909 TCAGACCGGTCAAACCGGTTCGA
1 TCAGACCGGTCAAACCAGTTCGA
*
3127932 TCAGACCGGTCAAATCAGTTCGA
1 TCAGACCGGTCAAACCAGTTCGA
3127955 ACCGGTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (23 bp):
TCAGACCGGTCAAACCAGTTCGA
Found at i:3134800 original size:213 final size:218
Alignment explanation
Indices: 3134433--3134865 Score: 781
Period size: 213 Copynumber: 2.0 Consensus size: 218
3134423 AAGTTTGAAT
3134433 TTTCAAAAATTCAGATTCTTGGTCAAAGTCAAAGTCAACCACTTTGACCGTCAATTTGGAGGCCT
1 TTTCAAAAATTCAGATTCTTGGTCAAAGTCAAAGTCAACCACTTTGACCGTCAATTTGGAGGCCT
3134498 TCGGGTTTGAATTTGACGAAACGGACTTCAGAAACGGATTCGGGATCGAAAACTATCAGAATAGG
66 TCGGGTTTGAATTTGACGAAACGGACTTCAGAAACGGATTCGGGATCGAAAACTATCAGAATAGG
3134563 TATACTCGGAAAAGATTTACGGTCGTTTAA-G-GGTCAAAG-CATTTTAAG-TTTGGTCAAAGGA
131 TATACTCGGAAAAGATTTACGGTCGTTTAAGGCGGTCAAAGCCATTTTAAGTTTTGGTCAAAGGA
3134624 AGTTAAC-GTCAACGGTCGGGTC
196 AGTTAACGGTCAACGGTCGGGTC
3134646 TTTCAAAAATTCAGATTCTTGGTCAAAGTCAAA-TCAACCACTTTGACCGTCAATTTGGAGGCCT
1 TTTCAAAAATTCAGATTCTTGGTCAAAGTCAAAGTCAACCACTTTGACCGTCAATTTGGAGGCCT
3134710 TCGGGTTTGAATTTGACGAAACGGACTTCAGAAACGGATTCGGGACATCG-AAACTATCAGAATA
66 TCGGGTTTGAATTTGACGAAACGGACTTCAGAAACGGATTCGGG--ATCGAAAACTATCAGAATA
3134774 GGTATACTCGGAAAAGATTTACGGTCGTTTAAGGGTCGGTCAAAGCCATTTTAAGTTTTGGTCAA
129 GGTATACTCGGAAAAGATTTACGGTCGTTTAA-GG-CGGTCAAAGCCATTTTAAGTTTTGGTCAA
3134839 AGGAAGTTAACGGTCAACGGTCGGGTC
192 AGGAAGTTAACGGTCAACGGTCGGGTC
3134866 GGTCAGTCGG
Statistics
Matches: 211, Mismatches: 0, Indels: 11
0.95 0.00 0.05
Matches are distributed among these distances:
212 75 0.36
213 79 0.37
214 4 0.02
215 1 0.00
217 8 0.04
218 9 0.04
219 20 0.09
220 15 0.07
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (218 bp):
TTTCAAAAATTCAGATTCTTGGTCAAAGTCAAAGTCAACCACTTTGACCGTCAATTTGGAGGCCT
TCGGGTTTGAATTTGACGAAACGGACTTCAGAAACGGATTCGGGATCGAAAACTATCAGAATAGG
TATACTCGGAAAAGATTTACGGTCGTTTAAGGCGGTCAAAGCCATTTTAAGTTTTGGTCAAAGGA
AGTTAACGGTCAACGGTCGGGTC
Found at i:3134930 original size:23 final size:23
Alignment explanation
Indices: 3134900--3134945 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3134890 TCAAACTGGT
*
3134900 TCAGACCGGTCAAACCGGTTCGA
1 TCAGACCGGTCAAACCAGTTCGA
*
3134923 TCAGACCGGTCAAATCAGTTCGA
1 TCAGACCGGTCAAACCAGTTCGA
3134946 ACCGGTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (23 bp):
TCAGACCGGTCAAACCAGTTCGA
Found at i:3141699 original size:14 final size:14
Alignment explanation
Indices: 3141664--3141697 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3141654 ACGGTCAACG
3141664 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3141678 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3141692 GATCGG
1 G-TCGG
3141698 TCAAACTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.09, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:3141717 original size:19 final size:19
Alignment explanation
Indices: 3141689--3141778 Score: 67
Period size: 19 Copynumber: 4.5 Consensus size: 19
3141679 TCGGGTCGGG
* *
3141689 TCAGATCGGTCAAACTGGT
1 TCAGACCGGTCAAACCGGT
3141708 TCAGACCGGTCAAACCGGTT
1 TCAGACCGGTCAAACCGG-T
* *
3141728 CGATCAGACCGGTCAAATCAGT
1 ---TCAGACCGGTCAAACCGGT
3141750 TC-GAACCGGTCGAAACCGG-
1 TCAG-ACCGGTC-AAACCGGT
*
3141769 TCAAACCGGT
1 TCAGACCGGT
3141779 TTCCAGCCGT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
18 1 0.02
19 33 0.58
20 6 0.11
22 1 0.02
23 16 0.28
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:3141726 original size:9 final size:9
Alignment explanation
Indices: 3141695--3141778 Score: 51
Period size: 10 Copynumber: 8.4 Consensus size: 9
3141685 CGGGTCAGAT
3141695 CGGTCAAAC
1 CGGTCAAAC
* *
3141704 TGGTTCAGAC
1 CGG-TCAAAC
3141714 CGGTCAAAC
1 CGGTCAAAC
3141723 CGGTTCGATCAGAC
1 CGG-TC-A--A-AC
3141737 CGGTCAAATC
1 CGGTCAAA-C
* * *
3141747 AGTTCGAAC
1 CGGTCAAAC
3141756 CGGTCGAAAC
1 CGGTC-AAAC
3141766 CGGTCAAAC
1 CGGTCAAAC
3141775 CGGT
1 CGGT
3141779 TTCCAGCCGT
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
9 23 0.40
10 24 0.42
11 1 0.02
12 1 0.02
13 3 0.05
14 5 0.09
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.18
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:3141738 original size:23 final size:23
Alignment explanation
Indices: 3141708--3141753 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3141698 TCAAACTGGT
*
3141708 TCAGACCGGTCAAACCGGTTCGA
1 TCAGACCGGTCAAACCAGTTCGA
*
3141731 TCAGACCGGTCAAATCAGTTCGA
1 TCAGACCGGTCAAACCAGTTCGA
3141754 ACCGGTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (23 bp):
TCAGACCGGTCAAACCAGTTCGA
Found at i:3148485 original size:5 final size:5
Alignment explanation
Indices: 3148475--3148521 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
3148465 AACGGTCAAC
* *
3148475 GGTCG GGTCG GGTC- AGTCG GGTCG GGTCG GGTC- AGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
3148522 AGATCGGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 6 0.17
5 30 0.83
ACGTcount: A:0.04, C:0.21, G:0.53, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:3148495 original size:9 final size:9
Alignment explanation
Indices: 3148481--3148516 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
3148471 CAACGGTCGG
3148481 GTCGGGTCA
1 GTCGGGTCA
*
3148490 GTCGGGTCGG
1 GTCGGGTC-A
3148500 GTCGGGTCA
1 GTCGGGTCA
3148509 GTCGGGTC
1 GTCGGGTC
3148517 GGGTCAGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.06, C:0.22, G:0.50, T:0.22
Consensus pattern (9 bp):
GTCGGGTCA
Found at i:3148499 original size:19 final size:19
Alignment explanation
Indices: 3148475--3148521 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
3148465 AACGGTCAAC
3148475 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
3148494 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
3148513 GGTCGGGTC
1 GGTCGGGTC
3148522 AGATCGGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.04, C:0.21, G:0.53, T:0.21
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGTCG
Found at i:3148530 original size:14 final size:14
Alignment explanation
Indices: 3148495--3148528 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3148485 GGTCAGTCGG
3148495 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3148509 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3148523 GATCGG
1 G-TCGG
3148529 TCAAACTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.09, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:3148548 original size:19 final size:19
Alignment explanation
Indices: 3148520--3148609 Score: 85
Period size: 19 Copynumber: 4.5 Consensus size: 19
3148510 TCGGGTCGGG
* *
3148520 TCAGATCGGTCAAACTGGT
1 TCAGACCGGTCAAACCGGT
3148539 TCAGACCGGTCAAACCGGTT
1 TCAGACCGGTCAAACCGG-T
3148559 CGATCAGACCGGTCAAACCGGT
1 ---TCAGACCGGTCAAACCGGT
3148581 TC-GAACCGGTCGAAACCGG-
1 TCAG-ACCGGTC-AAACCGGT
*
3148600 TCAAACCGGT
1 TCAGACCGGT
3148610 TTCCAGCCCT
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
18 1 0.02
19 33 0.54
20 8 0.13
22 1 0.02
23 18 0.30
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:3148557 original size:9 final size:9
Alignment explanation
Indices: 3148526--3148609 Score: 69
Period size: 10 Copynumber: 8.4 Consensus size: 9
3148516 CGGGTCAGAT
3148526 CGGTCAAAC
1 CGGTCAAAC
* *
3148535 TGGTTCAGAC
1 CGG-TCAAAC
3148545 CGGTCAAAC
1 CGGTCAAAC
3148554 CGGTTCGATCAGAC
1 CGG-TC-A--A-AC
3148568 CGGTCAAAC
1 CGGTCAAAC
*
3148577 CGGTTCGAAC
1 CGG-TCAAAC
3148587 CGGTCGAAAC
1 CGGTC-AAAC
3148597 CGGTCAAAC
1 CGGTCAAAC
3148606 CGGT
1 CGGT
3148610 TTCCAGCCCT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
9 25 0.41
10 26 0.43
11 1 0.02
12 1 0.02
13 3 0.05
14 5 0.08
ACGTcount: A:0.26, C:0.30, G:0.27, T:0.17
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:3148566 original size:42 final size:43
Alignment explanation
Indices: 3148520--3148600 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
3148510 TCGGGTCGGG
* *
3148520 TCAGATCGGTCAAACTGGTTC-AGACCGGTC-AAACCGGTTCGA
1 TCAGACCGGTCAAACCGGTTCGA-ACCGGTCGAAACCGGTTCGA
3148562 TCAGACCGGTCAAACCGGTTCGAACCGGTCGAAACCGGT
1 TCAGACCGGTCAAACCGGTTCGAACCGGTCGAAACCGGT
3148601 CAAACCGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.26, C:0.28, G:0.27, T:0.19
Consensus pattern (43 bp):
TCAGACCGGTCAAACCGGTTCGAACCGGTCGAAACCGGTTCGA
Found at i:3148569 original size:23 final size:23
Alignment explanation
Indices: 3148539--3148584 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3148529 TCAAACTGGT
3148539 TCAGACCGGTCAAACCGGTTCGA
1 TCAGACCGGTCAAACCGGTTCGA
3148562 TCAGACCGGTCAAACCGGTTCGA
1 TCAGACCGGTCAAACCGGTTCGA
3148585 ACCGGTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.17
Consensus pattern (23 bp):
TCAGACCGGTCAAACCGGTTCGA
Found at i:3151064 original size:7 final size:7
Alignment explanation
Indices: 3151052--3151088 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
3151042 GTCAAAGGAA
3151052 GTCAACG
1 GTCAACG
*
3151059 GTCAACA
1 GTCAACG
3151066 GTC-ACG
1 GTCAACG
3151072 GTCAACG
1 GTCAACG
3151079 GTCAACG
1 GTCAACG
3151086 GTC
1 GTC
3151089 GGGTCAGTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:3151074 original size:13 final size:14
Alignment explanation
Indices: 3151051--3151088 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
3151041 GGTCAAAGGA
3151051 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
3151065 AGTC-ACGGTCAAC
1 AGTCAACGGTCAAC
*
3151078 GGTCAACGGTC
1 AGTCAACGGTC
3151089 GGGTCAGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (14 bp):
AGTCAACGGTCAAC
Found at i:3151102 original size:14 final size:14
Alignment explanation
Indices: 3151085--3151123 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
3151075 AACGGTCAAC
3151085 GGTCGGGTCAGTCG
1 GGTCGGGTCAGTCG
3151099 GGTCGGGTCAGTCG
1 GGTCGGGTCAGTCG
3151113 GGTCGGGTCAG
1 GGTCGGGTCAG
3151124 ACCAGTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.08, C:0.21, G:0.51, T:0.21
Consensus pattern (14 bp):
GGTCGGGTCAGTCG
Found at i:3151142 original size:19 final size:21
Alignment explanation
Indices: 3151120--3151159 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
3151110 TCGGGTCGGG
3151120 TCAGACCAG-TC-AAACCGGT
1 TCAGACCAGTTCGAAACCGGT
*
3151139 TCAGACCGGTTCGAAACCGGT
1 TCAGACCAGTTCGAAACCGGT
3151160 CATAACCGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (21 bp):
TCAGACCAGTTCGAAACCGGT
Found at i:3151186 original size:20 final size:20
Alignment explanation
Indices: 3151131--3151190 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
3151121 CAGACCAGTC
*
3151131 AAACCGGTTCAGACCGGTTCG
1 AAACCGG-TCAAACCGGTTCG
3151152 AAACCGGTCATAACCGGTT-G
1 AAACCGGTCA-AACCGGTTCG
3151172 AAAACCGGTCAAACCGGTT
1 -AAACCGGTCAAACCGGTT
3151191 TCCAGCCCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 12 0.33
21 24 0.67
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (20 bp):
AAACCGGTCAAACCGGTTCG
Found at i:3151187 original size:9 final size:9
Alignment explanation
Indices: 3151118--3151189 Score: 54
Period size: 10 Copynumber: 7.3 Consensus size: 9
3151108 AGTCGGGTCG
*
3151118 GGTCAGACC
1 GGTCAAACC
*
3151127 AGTCAAACC
1 GGTCAAACC
*
3151136 GGTTCAGACC
1 GG-TCAAACC
3151146 GGTTCGAAACC
1 GG-TC-AAACC
3151157 GGTCATAACC
1 GGTCA-AACC
*
3151167 GGTTGAAAACC
1 GG-T-CAAACC
3151178 GGTCAAACC
1 GGTCAAACC
3151187 GGT
1 GGT
3151190 TTCCAGCCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
9 17 0.33
10 20 0.39
11 13 0.25
12 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.26, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:3152223 original size:20 final size:20
Alignment explanation
Indices: 3152194--3152231 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3152184 TTTCAAAGTG
3152194 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
3152214 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
3152232 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:3152283 original size:64 final size:64
Alignment explanation
Indices: 3152194--3152336 Score: 234
Period size: 64 Copynumber: 2.2 Consensus size: 64
3152184 TTTCAAAGTG
*
3152194 ATGCACCGATGCACCAATCCATGCATCGATGCACCAATTAATTTTTCAAACATCAAATGTATTTT
1 ATGCATCGATGCA-CAATCCATGCATCGATGCACCAATTAATTTTTCAAACATCAAATGTATTTT
* *
3152259 TTGCATCGATGCAC-ATGCCATGCATCGATGCACCAATTAATTTTTCAAACATCGAATGTATTTT
1 ATGCATCGATGCACAAT-CCATGCATCGATGCACCAATTAATTTTTCAAACATCAAATGTATTTT
3152323 ATGCATCGATGCAC
1 ATGCATCGATGCAC
3152337 TCAGTTCATT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
63 2 0.03
64 60 0.82
65 11 0.15
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (64 bp):
ATGCATCGATGCACAATCCATGCATCGATGCACCAATTAATTTTTCAAACATCAAATGTATTTT
Found at i:3152374 original size:91 final size:90
Alignment explanation
Indices: 3152260--3152429 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 90
3152250 ATGTATTTTT
* * *
3152260 TGCATCGATGCACATGCCATGCATCGATGCAC-CAATTAATTTTTC-AAACATCGAATGTATTTT
1 TGCATCGATGCACAAGCCATGCATCGATGCACTC-A-GAATTTTTCAAAACATCGAATGCATTTT
3152323 ATGCATCGATGCACTCAGTTCATTTGA
64 ATGCATCGATGCACTCAGTTCATTTGA
**
3152350 TGCATCGATGCACAAGACCATGCATCGATGCACTCAGGCTTTTTCAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAG-CCATGCATCGATGCACTCAGAATTTTTCAAAACATCGAATGCATTTTA
3152415 TGCATCGATGCACTC
65 TGCATCGATGCACTC
3152430 TTAGTGCACC
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
90 21 0.29
91 50 0.69
92 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (90 bp):
TGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATTTTTCAAAACATCGAATGCATTTTAT
GCATCGATGCACTCAGTTCATTTGA
Found at i:3159034 original size:20 final size:20
Alignment explanation
Indices: 3159005--3159042 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3158995 TTTCAAAGTG
3159005 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
3159025 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
3159043 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:3159111 original size:45 final size:46
Alignment explanation
Indices: 3159062--3159152 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
3159052 AAACATCGAA
* * *
3159062 TGCATTTTATGCATCGATGCAC-ATACTATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
3159107 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
3159153 GCTTTTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:3159209 original size:110 final size:110
Alignment explanation
Indices: 3159003--3159213 Score: 279
Period size: 110 Copynumber: 1.9 Consensus size: 110
3158993 ATTTTCAAAG
* *
3159003 TGATGCACCGATGCACCAATCCATGCATCGATGCACCAATTAATTTTTCAAACATCGAATGCATT
1 TGATGCACCGATGCACCAAACCATGCATCGATGCACCAATGAATTTTTCAAACATCGAATGCATT
* *
3159068 TTATGCATCGATGCACATACTATGCATCGATGCACTCAGTGCATT
66 TTATGCATCAATGCACATACTATGCACCGATGCACTCAGTGCATT
* **
3159113 TGATGCATCGATGCA-CAAGACCATGCATCGATGCACTC-A-GGCTTTTTCAAAACATCGAATGC
1 TGATGCACCGATGCACCAA-ACCATGCATCGATGCAC-CAATGAATTTTTC-AAACATCGAATGC
3159175 ATTTTATGCATCAATGCAC-T-CTTAGTGCACCGATGCACT
63 ATTTTATGCATCAATGCACATAC-TA-TGCACCGATGCACT
3159214 GAGATTCCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
108 1 0.01
109 12 0.13
110 75 0.84
111 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (110 bp):
TGATGCACCGATGCACCAAACCATGCATCGATGCACCAATGAATTTTTCAAACATCGAATGCATT
TTATGCATCAATGCACATACTATGCACCGATGCACTCAGTGCATT
Found at i:3159455 original size:21 final size:21
Alignment explanation
Indices: 3159431--3159476 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
3159421 CAAGAGAGAA
3159431 TCAAAGAGAAAGCATCAAACC
1 TCAAAGAGAAAGCATCAAACC
3159452 TCAAAGAGAAAGCATCAAACC
1 TCAAAGAGAAAGCATCAAACC
3159473 TCAA
1 TCAA
3159477 GTTTGAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.13, T:0.11
Consensus pattern (21 bp):
TCAAAGAGAAAGCATCAAACC
Found at i:3160290 original size:113 final size:113
Alignment explanation
Indices: 3159912--3160786 Score: 1325
Period size: 113 Copynumber: 7.8 Consensus size: 113
3159902 ATCGATTAAC
* *
3159912 TCAACAATATCCGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTGTTGTCATATTTTTACC
1 TCAAC-ATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACC
*
3159977 TGTTATATTGTAAAGTATCGAT-CCTTTTTATAAAAAGGATCGATACTT
65 TGTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTT
* * * * *
3160025 TCAACATATCAGGTAATTTTTAACGGTTTTATCATAATGAAAATGGTTTTGTCATATTTGTACCT
1 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
*
3160090 GTTATATTGTAAAGTATCGAT-CTTTTTTATAAAAAGGATCGATACTT
66 GTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTT
* *
3160137 TCAACATATCAGGTAAATTTTACAGGTTTTGTCATAATGAAACTGGTTTTGTCATAGTTTTACCT
1 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
*
3160202 GTTATATTGTAAAGTATCGATATATTTTTATAAAAAGGATCGATACTT
66 GTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTT
* * * *
3160250 TTAACATAT-ACGGTAATTTTTATCGGTTGTGTCATAATGAAACTGGTTTTGTCATATTTTTACC
1 TCAACATATCA-GGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACC
* *
3160314 TGTTATATTGCAAAGTATCGATACATTTTTATAAAAATGATCGATACTT
65 TGTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTT
* *
3160363 TTAACATATCCGGTAAATTTTA-CGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
1 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
* * *
3160427 GCTATATTGTAAAGTATCGAT-CCTTTTTATAAAAAAAGATCGAT-CTT
66 GTTATATTGTAAAGTATCGATACATTTTTAT-AAAAAGGATCGATACTT
* * *
3160474 TCAACATATCAGGTAAATTTTACCGATTTTATCATAATGAAACTTGTTTTGTCATATTTTTACCT
1 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
*
3160539 GTTATATTGTAAAGTATCGAT-CTTTTTTTATAAAAAGGATCGATACTT
66 GTTATATTGTAAAGTATCGATAC-ATTTTTATAAAAAGGATCGATACTT
* *
3160587 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTTAT-TGTTTTACT
1 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATAT-TTTTACC
* *
3160651 TGTTATATTATAAAGTATTGATACATTTTTATAAAAAGGATCGATACTT
65 TGTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTT
* * * *
3160700 TCAACATATCCGGTAAATTTTATCGGTTTTGTCATAATGAAATTGGTTTTGTCATATTTTTACTT
1 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
*
3160765 GTTATATTATAAAGTATCGATA
66 GTTATATTGTAAAGTATCGATA
3160787 TACTTTATAG
Statistics
Matches: 698, Mismatches: 54, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
111 31 0.04
112 324 0.46
113 341 0.49
114 2 0.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (113 bp):
TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
GTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTT
Found at i:3160517 original size:337 final size:336
Alignment explanation
Indices: 3159912--3160785 Score: 1376
Period size: 337 Copynumber: 2.6 Consensus size: 336
3159902 ATCGATTAAC
*
3159912 TCAACAATATCCGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTGTTGTCATATTTTTACC
1 TCAAC-ATAT-CGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACC
* *
3159977 TGTTATATTGTAAAGTATCGAT-CCTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAA
64 TGTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCCGGTAA
* * *
3160041 TTTTTAACGGTTTTATCATAATGAAAATGGTTTTGTCATATTTGTACCTGTTATATTGTAAAGTA
129 ATTTT-ACGGTTTTGTCATAATGAAAATGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTA
* * * *
3160106 TCGATCTTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACAGGTTTTGTCA
193 TCGATCCTTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACAGATTTTATCA
3160171 TAATGAAACTGGTTTTGTCATAGTTTTACCTGTTATATTGTAAAGTATCGATATATTTTTATAAA
258 TAATGAAACTGGTTTTGTCATAGTTTTACCTGTTATATTGTAAAGTATCGATATATTTTTATAAA
3160236 AAGGATCGATACTT
323 AAGGATCGATACTT
* * * *
3160250 TTAACATATACGGTAATTTTTATCGGTTGTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
1 TCAACATAT-CGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
* * *
3160315 GTTATATTGCAAAGTATCGATACATTTTTATAAAAATGATCGATACTTTTAACATATCCGGTAAA
65 GTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCCGGTAAA
* *
3160380 TTTTACGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGCTATATTGTAAAGTATC
130 TTTTACGGTTTTGTCATAATGAAAATGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATC
*
3160445 GATCCTTTTTATAAAAAAAGATCGAT-CTTTCAACATATCAGGTAAATTTTACCGATTTTATCAT
195 GATCCTTTTTAT-AAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACAGATTTTATCAT
* * * *
3160509 AATGAAACTTGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCTTTTTTTATAAAA
259 AATGAAACTGGTTTTGTCATAGTTTTACCTGTTATATTGTAAAGTATCGATATATTTTTATAAAA
3160574 AGGATCGATACTT
324 AGGATCGATACTT
* *
3160587 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTTAT-TGTTTTACT
1 TCAACATATC-GGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATAT-TTTTACC
* *
3160651 TGTTATATTATAAAGTATTGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCCGGTAA
64 TGTTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCCGGTAA
* * *
3160716 ATTTTATCGGTTTTGTCATAATGAAATTGGTTTTGTCATATTTTTACTTGTTATATTATAAAGTA
129 ATTTTA-CGGTTTTGTCATAATGAAAATGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTA
3160781 TCGAT
193 TCGAT
3160786 ATACTTTATA
Statistics
Matches: 491, Mismatches: 40, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
336 2 0.00
337 372 0.76
338 117 0.24
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (336 bp):
TCAACATATCGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTG
TTATATTGTAAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCCGGTAAAT
TTTACGGTTTTGTCATAATGAAAATGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCG
ATCCTTTTTATAAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACAGATTTTATCATAA
TGAAACTGGTTTTGTCATAGTTTTACCTGTTATATTGTAAAGTATCGATATATTTTTATAAAAAG
GATCGATACTT
Found at i:3161298 original size:20 final size:21
Alignment explanation
Indices: 3161254--3161309 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
3161244 CAATTTCCAA
* *
3161254 ATTCGCAACGCGAATATCCAG
1 ATTCGCAACGCGATTATCAAG
*
3161275 ATTCGCAACGCGATTGT-AAG
1 ATTCGCAACGCGATTATCAAG
*
3161295 ATTCGTAACGCGATT
1 ATTCGCAACGCGATT
3161310 TTGAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (21 bp):
ATTCGCAACGCGATTATCAAG
Found at i:3161363 original size:22 final size:22
Alignment explanation
Indices: 3161309--3161365 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
3161299 GTAACGCGAT
* *
3161309 TTTGAAAAATGTGTTACGATAG
1 TTTGAAAAATGTGTTGCGAAAG
3161331 -TT--AAAATGTGTTGCGAAAG
1 TTTGAAAAATGTGTTGCGAAAG
*
3161350 TTTGAAAAACGTGTTG
1 TTTGAAAAATGTGTTG
3161366 TTGCGATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 15 0.52
20 2 0.07
21 2 0.07
22 10 0.34
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (22 bp):
TTTGAAAAATGTGTTGCGAAAG
Found at i:3161694 original size:6 final size:6
Alignment explanation
Indices: 3161678--3161709 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
3161668 TCCCGTCTCG
3161678 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
3161710 AATATGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:3161849 original size:20 final size:20
Alignment explanation
Indices: 3161824--3161976 Score: 107
Period size: 20 Copynumber: 7.7 Consensus size: 20
3161814 AAATTTGGAA
*
3161824 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
3161844 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * *
3161864 AATTGCGTTGCGAT-TTACAT
1 AATCGCGTTGCGATAGT-CAG
* ** *
3161884 ATTCGTATTGCGATAGTCAA
1 AATCGCGTTGCGATAGTCAG
*
3161904 AATCGCGTTGCGA-A-TCTG
1 AATCGCGTTGCGATAGTCAG
* ** * *
3161922 AAAACTGATTTGCGATACT-GG
1 -AATC-GCGTTGCGATAGTCAG
*
3161943 AGATCGCGTTGCGATAGTCAA
1 A-ATCGCGTTGCGATAGTCAG
3161964 AATCGCGTTGCGA
1 AATCGCGTTGCGA
3161977 ATCTGGAAAC
Statistics
Matches: 100, Mismatches: 25, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
18 2 0.02
19 5 0.05
20 86 0.86
21 6 0.06
22 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:3161935 original size:60 final size:60
Alignment explanation
Indices: 3161825--3162017 Score: 203
Period size: 60 Copynumber: 3.2 Consensus size: 60
3161815 AATTTGGAAA
* * * ** * *
3161825 ATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTC--AGAATTGCGTTGCGAT-TTACAT
1 ATCGCATTGCGATAGTCAAAATCGCGTTGCGA-A-TCTGAAAACTGATTTGCGATACTACAG
* **
3161884 ATTCGTATTGCGATAGTCAAAATCGCGTTGCGAATCTGAAAACTGATTTGCGATACTGGAG
1 A-TCGCATTGCGATAGTCAAAATCGCGTTGCGAATCTGAAAACTGATTTGCGATACTACAG
* * **
3161945 ATCGCGTTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAG
1 ATCGCATTGCGATAGTCAAAATCGCGTTGCGAATCTGAAAACTGATTTGCGATACTACAG
*
3162005 ATCGCGTTGCGAT
1 ATCGCATTGCGAT
3162018 TTAGAGATCG
Statistics
Matches: 117, Mismatches: 13, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
58 2 0.02
59 2 0.02
60 110 0.94
61 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (60 bp):
ATCGCATTGCGATAGTCAAAATCGCGTTGCGAATCTGAAAACTGATTTGCGATACTACAG
Found at i:3162014 original size:20 final size:20
Alignment explanation
Indices: 3161931--3162036 Score: 83
Period size: 20 Copynumber: 5.3 Consensus size: 20
3161921 GAAAACTGAT
3161931 TTGCGATACTGGAGATCGCG
1 TTGCGATACTGGAGATCGCG
* ** *
3161951 TTGCGATAGTCAAAATCGCG
1 TTGCGATACTGGAGATCGCG
* **
3161971 TTGCGA-ATCTGGA-AACTGAT
1 TTGCGATA-CTGGAGATC-GCG
3161991 TTGCGATACTGGAGATCGCG
1 TTGCGATACTGGAGATCGCG
* * *
3162011 TTGCGAT-TTAGAGATCGCA
1 TTGCGATACTGGAGATCGCG
3162030 TTGCGAT
1 TTGCGAT
3162037 TTTGTTGGTC
Statistics
Matches: 66, Mismatches: 16, Indels: 9
0.73 0.18 0.10
Matches are distributed among these distances:
19 19 0.29
20 44 0.67
21 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (20 bp):
TTGCGATACTGGAGATCGCG
Found at i:3162026 original size:19 final size:19
Alignment explanation
Indices: 3162002--3162038 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3161992 TGCGATACTG
*
3162002 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
3162021 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
3162039 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:3162920 original size:3 final size:3
Alignment explanation
Indices: 3162914--3163008 Score: 154
Period size: 3 Copynumber: 31.7 Consensus size: 3
3162904 TTTTTATCCA
3162914 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
3162962 CAT TAT TAA TAT TAT TAT TAA TAT TAT TAT TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3163009 AATATATTAA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3163422 original size:20 final size:20
Alignment explanation
Indices: 3163397--3163470 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
3163387 CCTGAAAAAA
3163397 AAAAAAGAAAAAAGACAGAG
1 AAAAAAGAAAAAAGACAGAG
** *
3163417 AAAAAAGAAACTAGACAAAG
1 AAAAAAGAAAAAAGACAGAG
3163437 AAAGAAA-AAAAGAAGA-AGAG
1 AAA-AAAGAAAA-AAGACAGAG
*
3163457 ATAGAAAGAAAAAA
1 A-AAAAAGAAAAAA
3163471 AAACAGAGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 32 0.74
21 11 0.26
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (20 bp):
AAAAAAGAAAAAAGACAGAG
Found at i:3164271 original size:20 final size:20
Alignment explanation
Indices: 3164242--3164283 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3164232 TAGTAATTAG
* *
3164242 TAATTAAGTTTTTATTTTTA
1 TAATTAAGTTATTAATTTTA
*
3164262 TAATTTAGTTATTAATTTTA
1 TAATTAAGTTATTAATTTTA
3164282 TA
1 TA
3164284 TGTCTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TAATTAAGTTATTAATTTTA
Found at i:3165139 original size:13 final size:15
Alignment explanation
Indices: 3165108--3165144 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3165098 ATATATGTTT
3165108 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
3165123 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
3165136 TA-TTTATTT
1 TATTTTATTT
3165145 TTTATGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:3175699 original size:1 final size:1
Alignment explanation
Indices: 3175693--3175745 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
3175683 ATGCTTGAAG
** * * * *
3175693 AAAAAAAAAAAAAAAAAAAAAAAGGAAAAAGAAGAAAAAAGAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3175746 GGGGTCAAGG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:3175746 original size:7 final size:7
Alignment explanation
Indices: 3175690--3175746 Score: 59
Period size: 6 Copynumber: 8.4 Consensus size: 7
3175680 ATTATGCTTG
3175690 AAGAAAA
1 AAGAAAA
3175697 AA-AAAA
1 AAGAAAA
3175703 AA-AAAA
1 AAGAAAA
3175709 AA-AAAA
1 AAGAAAA
*
3175715 AGGAAAAA
1 AAG-AAAA
3175723 GAAGAAAA
1 -AAGAAAA
3175731 AAG-AAA
1 AAGAAAA
3175737 AAGAAAA
1 AAGAAAA
3175744 AAG
1 AAG
3175747 GGGTCAAGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 23 0.52
7 11 0.25
8 8 0.18
9 2 0.05
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:3176761 original size:52 final size:52
Alignment explanation
Indices: 3176683--3177081 Score: 680
Period size: 52 Copynumber: 7.7 Consensus size: 52
3176673 TATGTGCTCA
3176683 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
3176735 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
3176787 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
3176839 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
3176890 ATATCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
3176942 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTA--TGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
3176992 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GTTTGATCATAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAAC
*
3177044 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
3177082 CGAAGAAGTG
Statistics
Matches: 330, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
50 49 0.15
51 53 0.16
52 228 0.69
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.39
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:3177059 original size:205 final size:206
Alignment explanation
Indices: 3176687--3177081 Score: 713
Period size: 205 Copynumber: 1.9 Consensus size: 206
3176677 TGCTCAATAG
* *
3176687 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATTTTCTGGAAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTGGAAG
3176752 TGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTT
66 TGTTCTTTGAGTTA-CTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTT
3176817 ATCTGATCTGATTAGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
130 ATCTGATCTGATTAGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
3176882 AGAAGAACATAT
195 AGAAGAACATAT
3176894 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTGGAAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTGGAAG
3176959 TGTTCTTTGAGTTA-TGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
66 TGTTCTTTGAGTTACTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
* * *
3177023 TCTGATCTG-TTTGATCATAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
131 TCTGATCTGATTAGA-CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
3177082 CGAAGAAGTG
Statistics
Matches: 182, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
204 4 0.02
205 101 0.55
207 77 0.42
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.39
Consensus pattern (206 bp):
CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACATAGCATCTTCTGGAAG
TGTTCTTTGAGTTACTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
TCTGATCTGATTAGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTA
GAAGAACATAT
Found at i:3178074 original size:232 final size:232
Alignment explanation
Indices: 3177636--3178312 Score: 1115
Period size: 232 Copynumber: 2.9 Consensus size: 232
3177626 GATTCAAATT
* *
3177636 CATCATTTGATGGATCATCATTACCAGAGAAG-GTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
3177700 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATC
66 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATC
* * *
3177765 AACATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGAAAGAAGAAGTTC
131 AACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTC
*
3177830 ATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATC
196 ATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATC
* * * *
3177867 CGTCATTTGATGGATCAGCTTTTCCAAAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * *
3177932 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATGGATC
66 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATC
3177997 AACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTC
131 AACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTC
* *
3178062 ATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
196 ATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATC
* *
3178099 CATCACTTGATGGATCATTCTTTTCCAGAGAA-AGTTCATAATGAGAAAAACTCGTCATCTGAAG
1 CATCATTTGATGGATCA-TCTTTTCCAGAGAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAG
3178163 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATG
62 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATG
* * *
3178228 GATCATTCTTTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAAA
127 GATCA-ACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGA
3178293 AGTTCATAATGAGAAGAACT
191 AGTTCATAATGAGAAGAACT
3178313 CATCAAAAGC
Statistics
Matches: 413, Mismatches: 27, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
231 27 0.07
232 220 0.53
233 12 0.03
234 1 0.00
235 77 0.19
236 76 0.18
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (232 bp):
CATCATTTGATGGATCATCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATC
AACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATC
Found at i:3178208 original size:117 final size:117
Alignment explanation
Indices: 3177632--3178312 Score: 1063
Period size: 118 Copynumber: 5.8 Consensus size: 117
3177622 CAAAGATTCA
* *
3177632 AATTCATCATTTGATGGATCATCATTACCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTG
1 AATTCATCACTTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTG
3177693 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* *
3177745 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCATCATCT
1 AATTCATCACTTGATGGATCATCATTTCCAGAG-AAGAGTTCATAATGAGAAGAACTCGTCATCT
* * *
3177810 GAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * * * * * *
3177863 AATCCGTCATTTGATGGATCAGCTTTTCCAAAGAAGAGTTCATAATAAGAAGAA--C-TCATCTG
1 AATTCATCACTTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTG
*
3177925 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTG
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * *
3177977 AATCCATCATTTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AATTCATCACTTGATGGATCATCATTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCGTCATCT
3178042 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* *
3178095 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAA-AGTTCATAATGAGAAAAACTCGTCATCT
1 AATTCATCACTTGATGGATCA-TCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCT
3178159 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
*
3178212 AATTCATCACTTGATGGATCATTCTTTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 AATTCATCACTTGATGGATCA-TCATTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCGTCATC
*
3178277 TGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
3178313 CATCAAAAGC
Statistics
Matches: 526, Mismatches: 30, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
113 30 0.06
114 86 0.16
115 39 0.07
117 135 0.26
118 166 0.32
119 70 0.13
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (117 bp):
AATTCATCACTTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTG
AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:3178564 original size:3 final size:3
Alignment explanation
Indices: 3178558--3178650 Score: 138
Period size: 3 Copynumber: 32.0 Consensus size: 3
3178548 TTTTTATCCA
3178558 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
3178605 TA- TAT TAA TAT TAT TAT TAA TA- TAT TAT TAT TAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3178651 AAATATAAAT
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
2 6 0.07
3 76 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3178651 original size:23 final size:23
Alignment explanation
Indices: 3178557--3178651 Score: 138
Period size: 23 Copynumber: 4.1 Consensus size: 23
3178547 TTTTTTATCC
3178557 ATATTATTATTATTATTATTATT
1 ATATTATTATTATTATTATTATT
*
3178580 ATTTTATTATTATTATTATTATT
1 ATATTATTATTATTATTATTATT
* *
3178603 AT-TATATTAATATTATTATTAAT
1 ATAT-TATTATTATTATTATTATT
*
3178626 ATATTATTATTATTTTTATTATT
1 ATATTATTATTATTATTATTATT
3178649 ATA
1 ATA
3178652 AATATAAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
22 1 0.02
23 62 0.97
24 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATTATTATTATTATTATTATT
Found at i:3179061 original size:20 final size:20
Alignment explanation
Indices: 3179036--3179109 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
3179026 GCCTGAAAAA
3179036 AAAAAAGAAAAAAGACAGAG
1 AAAAAAGAAAAAAGACAGAG
** *
3179056 AAAAAAGAAACTAGACAAAG
1 AAAAAAGAAAAAAGACAGAG
3179076 AAAGAAA-AAAAGAAGA-AGAG
1 AAA-AAAGAAAA-AAGACAGAG
*
3179096 ATAGAAAGAAAAAA
1 A-AAAAAGAAAAAA
3179110 AAACAGAGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 32 0.74
21 11 0.26
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (20 bp):
AAAAAAGAAAAAAGACAGAG
Found at i:3183945 original size:11 final size:11
Alignment explanation
Indices: 3183931--3184044 Score: 67
Period size: 11 Copynumber: 10.7 Consensus size: 11
3183921 AACTATAGTT
*
3183931 TATATATAAAG
1 TATATATAAAC
*
3183942 TATATAT--AT
1 TATATATAAAC
3183951 TATATATAAAC
1 TATATATAAAC
*
3183962 AATATATATAAC
1 TATATATA-AAC
**
3183974 TATATAT--TT
1 TATATATAAAC
* * * *
3183983 TATGTTTATAT
1 TATATATAAAC
*
3183994 TAT-TATATAC
1 TATATATAAAC
3184004 TATATATAAAC
1 TATATATAAAC
* *
3184015 TATATATATAT
1 TATATATAAAC
*
3184026 TATGTATAAAC
1 TATATATAAAC
3184037 TATATATA
1 TATATATA
3184045 TCATGTATAA
Statistics
Matches: 79, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
9 13 0.16
10 8 0.10
11 49 0.62
12 9 0.11
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (11 bp):
TATATATAAAC
Found at i:3184170 original size:17 final size:17
Alignment explanation
Indices: 3184150--3184205 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
3184140 ATATACAACT
* * *
3184150 TATATTTATATATTATG
1 TATAATTATAAATTATA
3184167 TATAATTATAAATTATA
1 TATAATTATAAATTATA
3184184 TATACTATGTATAAATTATA
1 TATA--AT-TATAAATTATA
3184204 TA
1 TA
3184206 GTTTATATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 18 0.55
19 2 0.06
20 13 0.39
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
TATAATTATAAATTATA
Found at i:3184472 original size:53 final size:56
Alignment explanation
Indices: 3184398--3184549 Score: 181
Period size: 53 Copynumber: 2.8 Consensus size: 56
3184388 TAAAGTATAT
* * *
3184398 AAGTATATAATATAAAATATATAAGTATTAAATATACATA-TATACTT-TATA-A-TA
1 AAGTATATAATATAAAGTATATAAGTATTAAATATA-A-AGTATAATTATAAAGACTA
* *
3184452 TA-TGTATAATATAAAGTATATAAGTATTAAATATAAAGTATAATTATAAAGACTA
1 AAGTATATAATATAAAGTATATAAGTATTAAATATAAAGTATAATTATAAAGACTA
* *
3184507 AAGTATATAATATAAAGTATATAAGTA-TATATATAAATTATAA
1 AAGTATATAATATAAAGTATATAAGTATTAAATATAAAGTATAA
3184550 ATGTGTATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
51 1 0.01
52 7 0.08
53 34 0.40
54 2 0.02
55 17 0.20
56 23 0.27
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (56 bp):
AAGTATATAATATAAAGTATATAAGTATTAAATATAAAGTATAATTATAAAGACTA
Found at i:3185000 original size:2 final size:2
Alignment explanation
Indices: 3183850--3184992 Score: 264
Period size: 2 Copynumber: 578.0 Consensus size: 2
3183840 TTAAAACAAT
3183850 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
* * * *
3183892 TA CTA TA -A AA TA -A CTA TA TA T- TA TG TA TA AA CTA TA GTT TA
1 TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA -TA TA
* * *
3183933 TA TA TA AA GTA TA TA TA T- TA TA TA TA AA CA -A TA TA TA TA -A
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
3183973 CTA TA TA T- TT TA TG TT TA TA T- TA T- TA TA TA CTA TA TA TA AA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
3184014 CTA TA TA TA TA T- TA TG TA TA AA CTA TA TA TA TCA TG TA TA AA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T-A TA TA TA TA
* * *
3184056 CTA TA GA GTT TA TA TA TGA -A T- TA T- TGA -A CTA TA TA TA AA CTA
1 -TA TA TA -TA TA TA TA T-A TA TA TA TA T-A TA -TA TA TA TA TA -TA
* * * * *
3184098 TA TA GTT TA T- TA -A TG TA AA T- TA TA TG TGA -A T- TA TA TT TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * *
3184137 AA TA TA TA CA -A CT- TA TA TT TA TA TA T- TA TG TA TA -A T- TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
3184175 TA AA T- TA TA TA TA CTA TG TA TA AA T- TA TA TA GTT TA TA TA GTT
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
* * *
3184218 TA AA TA TA AA GTA TA TA -A GTA TA TA TA TA TA TA TA AA CTA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
* * *
3184260 AA GTA -A AA GTA TA TA TA TA CTA TA AA GTA 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
* * * * *
3184303 TA AA GT- TC TA -A TA TA AA GTA TA TA TA CA TG TA T- 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
* * * * *
3184344 TA TA TA -A TA TA -A T- TA TA AA GA -A TA AA GTT TA TA -A GCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* *
3184383 TA -A TA TA AA GTA TA TA -A GTA TA TA -A TA TA -A AA TA TA TA -A
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
3184422 GTA T- TA AA TA TA CA TA TA TA CTT TA TA -A TA TA TG TA TA -A TA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
3184463 TA AA GTA TA TA -A GTA T- TA AA TA TA AA GTA TA -A T- TA TA AA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * *
3184502 GA CTA AA GTA TA TA -A TA TA AA GTA TA TA -A GTA TA TA TA TA AA
1 TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA
* * * *
3184544 T- TA TA AA TG TG TA TA TA TA TA TA TA TA TA TA CA CT- 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
* * * * * * *
3184585 CTT TA TA TA TA TA TA TA TA TG TG TG TG TG TA TA TA CTT TA TA T-
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
3184628 TA TA TA TG TA TA TA CTT TA TA T- TA T- TA TA TA CA TA CA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
3184669 TA TA TA TA TA TA TA CA CA TA TA CA TA CTT TA TA TT TA -A TA CT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * *
3184711 TA TA TA CTT TA TA T- TA TA TA CTT TA TA T- TA T- TA TA TA TG TA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
3184752 TA TA TA CTT TC TA CTA -A AA T- TA TA TA TA TA TA CA CTCA CA CTT
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -T-A TA -TA
* * * *
3184795 TA CA GTT TA TA TA TA TA -A T- TA TA T- TC T- TA TA TA CTT TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
3184835 TT TA -A TA CT- TA TA TA GT- TA TA TA -A TA CT- TA TA TA CTT TA
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA
*
3184874 TA T- TA TC TA CT- TA TA TA -A T- TA TA T- TA TA T- 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
3184911 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
*
3184953 TA TA TA TA TA TA TA TA TA TA TA TA TA CTT TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
3184993 CTTATATACT
Statistics
Matches: 829, Mismatches: 169, Indels: 286
0.65 0.13 0.22
Matches are distributed among these distances:
1 78 0.09
2 690 0.83
3 60 0.07
4 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:3185080 original size:22 final size:21
Alignment explanation
Indices: 3184614--3185082 Score: 174
Period size: 22 Copynumber: 22.4 Consensus size: 21
3184604 TGTGTGTGTG
*
3184614 TATATACTTTATATTATATATG
1 TATATA-TTTATATTATATATA
3184636 TATATACTTTATATTAT-TATA
1 TATATA-TTTATATTATATATA
* *
3184657 TACATA--CATA-TATATATA
1 TATATATTTATATTATATATA
** * *
3184675 TATATATACACA-TATACATA
1 TATATATTTATATTATATATA
*
3184695 CTTTATATTTAATACTTATATACT-
1 -TATATATTT-ATA-TTATATA-TA
3184719 T-TATATTATATACTT-TATATTA
1 TATATATT-TATA-TTATATA-TA
* * *
3184741 TTATATATGTATA-TATACTTTC
1 -TATATATTTATATTATA-TATA
* *
3184763 TACTAAAATTATA-TATATATA
1 TA-TATATTTATATTATATATA
* * *
3184784 CACTCACACTTTACAGTT-TATATA
1 TA-T-ATA-TTTATA-TTATATATA
*
3184808 TATA-A-TTATATTCTTATATA
1 TATATATTTATATT-ATATATA
*
3184828 CTTTATATTTAATACTTATATAGT-
1 -TATATATTT-ATA-TTATATA-TA
*
3184852 TATATA---ATACTTATATACTT
1 TATATATTTATA-TTATATA-TA
* *
3184872 TATATTATCTA-CTTATATA-A
1 TATA-TATTTATATTATATATA
3184892 T-TATAT-TATATTATATATA
1 TATATATTTATATTATATATA
*
3184911 TATATATATATA-TATATATA
1 TATATATTTATATTATATATA
*
3184931 TATATATATATA-TATATATA
1 TATATATTTATATTATATATA
*
3184951 TATATATATATATATATATATA
1 TATATATTTATAT-TATATATA
3184973 TATATACTTTATATTATATACT-
1 TATATA-TTTATATTATATA-TA
*
3184995 TATATACTTTAGTCTT-TATA-A
1 TATATA-TTTA-TATTATATATA
*
3185016 T-TATATTT-T-TTATATAGA
1 TATATATTTATATTATATATA
* *
3185034 TAATATACTTATA-CATATACT-
1 T-ATATATTTATATTATATA-TA
*
3185055 TATA-CTTTATATTATATATA
1 TATATATTTATATTATATATA
3185075 TATATATT
1 TATATATT
3185083 GTCACACCCC
Statistics
Matches: 353, Mismatches: 42, Indels: 105
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.01
17 10 0.03
18 26 0.07
19 29 0.08
20 88 0.25
21 47 0.13
22 91 0.26
23 30 0.08
24 25 0.07
25 5 0.01
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (21 bp):
TATATATTTATATTATATATA
Found at i:3185843 original size:22 final size:22
Alignment explanation
Indices: 3185814--3185892 Score: 90
Period size: 22 Copynumber: 3.6 Consensus size: 22
3185804 TGACGGTCTC
3185814 ACCGTTGACTTTGACTGGTCAG
1 ACCGTTGACTTTGACTGGTCAG
* * * *
3185836 ACCATTGATTTTGACCGGTCAT
1 ACCGTTGACTTTGACTGGTCAG
*
3185858 ACCGTTGA-TTTGA-TCGGTCTG
1 ACCGTTGACTTTGACT-GGTCAG
3185879 ACCGTTGACTTTGA
1 ACCGTTGACTTTGA
3185893 TTCGACGTCC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
21 17 0.36
22 30 0.64
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (22 bp):
ACCGTTGACTTTGACTGGTCAG
Found at i:3190476 original size:22 final size:22
Alignment explanation
Indices: 3190446--3190516 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
3190436 ATCTAAGTCG
*
3190446 TTGACCGGTCAGACCGTTGACA
1 TTGACCGGTCAGACCGTTGACT
* * *
3190468 TTGATCGGTCACATCGTTGACT
1 TTGACCGGTCAGACCGTTGACT
*
3190490 TTGACCGGTCTGACCGTTGACT
1 TTGACCGGTCAGACCGTTGACT
3190512 TTGAC
1 TTGAC
3190517 TGAAAAGTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.31
Consensus pattern (22 bp):
TTGACCGGTCAGACCGTTGACT
Found at i:3192677 original size:31 final size:31
Alignment explanation
Indices: 3192639--3192725 Score: 106
Period size: 32 Copynumber: 2.7 Consensus size: 31
3192629 TCTAATCAAG
*
3192639 TTGGGTAGGCTCCGAGGCCCCAAG-ATCTTTC
1 TTGGGTAGGCTCCG-GGCCCCAAGTAACTTTC
3192670 TTGGGTAGGC-CCTGTGGCCCCAAGTAACTTTC
1 TTGGGTAGGCTCC-G-GGCCCCAAGTAACTTTC
*
3192702 CTGGGTAGGCTCTCGGGCCCCAAG
1 TTGGGTAGGCTC-CGGGCCCCAAG
3192726 GCATTCCCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.04
31 20 0.41
32 24 0.49
33 2 0.04
34 1 0.02
ACGTcount: A:0.15, C:0.30, G:0.31, T:0.24
Consensus pattern (31 bp):
TTGGGTAGGCTCCGGGCCCCAAGTAACTTTC
Found at i:3193545 original size:2 final size:2
Alignment explanation
Indices: 3193538--3194244 Score: 189
Period size: 2 Copynumber: 356.5 Consensus size: 2
3193528 TTATAATTGT
3193538 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
*
3193580 TA TA TA TA TA TA TA -A TA CT- TA TA -A T- TA TA CTT TA TA T- TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * *
3193619 -A T- TA TA TA TG TA TA TA TA -A TT TA TA CTA AA CTT TT 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
* * *
3193660 TA TA TA TA TA TA TA CT- TA TA TA CTT TA TA T- TG TA TA TT TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * ** * *
3193702 TA CTT TA TA T- TA T- TA TT TA CC TA TA TA CA CTT TA TA CTA -A
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
*
3193742 AA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
3193784 TA CT- TA TA TA GTT TA GTC TT TA TA -A T- TA TA CTT TA TA T- TA
1 TA -TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
3193824 TA TA TG TA TA TA TA CTT TA TA CTA -A AA CT- 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
* * * * *
3193865 TA -A GTA TA -A TA TA -A TG CA TA AA TA TA TA TA AA GT- TT TA GTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
3193906 TA AA GTA TA TA TA CTA TA TA GTT TA TA TA TA CT- TA TA CTT TA TA
1 TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA
* * * *
3193950 GTT TA TA TA TA TA TT TA TA CTT TA T- TA CA CT- TA TA CT- TA TA
1 -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA
* * * * * *
3193991 CTT TA T- TT TA TA TG TA TA TT TA AA TA -A GTG 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
* * *
3194033 CTA TA TG TA TA TA CT- TT TA TA T- TA -A TA TA TA TA CT- TG TA
1 -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
3194072 TT TA TA TA TA -A GTG TA TA TA TA TA TA -A CTA TA -A CTA TA -A
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * *
3194111 CTA TA TA CT- TA TA -A TG TA T- TA -A TC TA TG CA TA -A GTA TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
3194149 -A TG TA CA T- TA TA TA TA CA TA CA TCA TA T- TA TCA TA -A CA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA
3194188 TCA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3194230 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
3194245 TATTTTCCCC
Statistics
Matches: 514, Mismatches: 99, Indels: 184
0.64 0.12 0.23
Matches are distributed among these distances:
1 49 0.10
2 420 0.82
3 45 0.09
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3193835 original size:8 final size:7
Alignment explanation
Indices: 3193491--3193836 Score: 112
Period size: 8 Copynumber: 48.1 Consensus size: 7
3193481 TATATAAATT
3193491 TTATATA
1 TTATATA
3193498 CTT-TATA
1 -TTATATA
3193505 TTATATA
1 TTATATA
3193512 TTTATATA
1 -TTATATA
*
3193520 CTTAGTCT-
1 -TTA-TATA
3193528 TTATA-A
1 TTATATA
*
3193534 TTGT-TA
1 TTATATA
3193540 TATATATA
1 T-TATATA
3193548 TATATATA
1 T-TATATA
3193556 TATATATA
1 T-TATATA
3193564 TATATATA
1 T-TATATA
3193572 TATATATA
1 T-TATATA
3193580 TATATATA
1 T-TATATA
3193588 TATATAATA
1 T-TAT-ATA
3193597 CTTATA-A
1 -TTATATA
3193604 TTATACT-
1 TTATA-TA
3193611 TTATATTAA
1 TTATA-T-A
3193620 TTATATA
1 TTATATA
3193627 TGTATATA
1 T-TATATA
3193635 -TA-AT-
1 TTATATA
3193639 TTATACTA
1 TTATA-TA
* *
3193647 -AACT-TT
1 TTA-TATA
3193653 TTATATA
1 TTATATA
3193660 -TATATA
1 TTATATA
3193666 TATATATA
1 T-TATATA
3193674 CTTATATA
1 -TTATATA
3193682 CTT-TATA
1 -TTATATA
*
3193689 TTGTATA
1 TTATATA
3193696 TTTATATA
1 -TTATATA
3193704 CTT-TATA
1 -TTATATA
3193711 TTAT-TA
1 TTATATA
3193717 TT-TACCTA
1 TTATA--TA
*
3193725 -TATACA
1 TTATATA
3193731 CTT-TATA
1 -TTATATA
* *
3193738 CTA-AAA
1 TTATATA
3193744 TTATATA
1 TTATATA
3193751 -TATATA
1 TTATATA
3193757 -TATATA
1 TTATATA
3193763 TATATATA
1 T-TATATA
3193771 TATATATA
1 T-TATATA
*
3193779 CTATATA
1 TTATATA
3193786 CTTATATA
1 -TTATATA
*
3193794 GTT-TAGTC
1 -TTATA-TA
3193802 TT-TATAA
1 TTATAT-A
*
3193809 TTATA-C
1 TTATATA
3193815 TT-TATA
1 TTATATA
3193821 TTATATA
1 TTATATA
3193828 TGTATATA
1 T-TATATA
3193836 T
1 T
3193837 ACTTTATACT
Statistics
Matches: 269, Mismatches: 25, Indels: 88
0.70 0.07 0.23
Matches are distributed among these distances:
5 7 0.03
6 55 0.20
7 64 0.24
8 128 0.48
9 14 0.05
10 1 0.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (7 bp):
TTATATA
Found at i:3194687 original size:6 final size:6
Alignment explanation
Indices: 3194680--3195402 Score: 1322
Period size: 6 Copynumber: 121.5 Consensus size: 6
3194670 AAACTATAAA
* *
3194680 GTATAA GTATAA GTATATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATA--T GTATAT GTATAT GTATAT GTATAT GTATAT
3194730 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3194778 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTA-AT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3194825 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3194873 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3194921 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3194969 GTATAT G--TAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3195013 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3195061 GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3195107 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3195155 GTATAT GTATAT GTATAT GTATA- GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3195202 GTATAT GTAT-T GTATAT GTATATGT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATA--T GTATAT GTATAT GTATAT GTATAT
3195251 GTATAT GTATA- GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3195298 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3195346 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
3195394 GTATAT GTA
1 GTATAT GTA
3195403 CATGCATCAT
Statistics
Matches: 702, Mismatches: 1, Indels: 28
0.96 0.00 0.04
Matches are distributed among these distances:
4 12 0.02
5 20 0.03
6 659 0.94
8 11 0.02
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:3195917 original size:36 final size:35
Alignment explanation
Indices: 3195870--3195942 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 35
3195860 TTTAGTACTT
3195870 TATATACATATATAAACTATAAAGTATAAGTATATA
1 TATATACATATATAAACTATAAAGTA-AAGTATATA
* * * *
3195906 TATATATATATATAAAGTATAATGTAAATTATATA
1 TATATACATATATAAACTATAAAGTAAAGTATATA
3195941 TA
1 TA
3195943 CATGCATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 10 0.30
36 23 0.70
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (35 bp):
TATATACATATATAAACTATAAAGTAAAGTATATA
Found at i:3196379 original size:21 final size:21
Alignment explanation
Indices: 3196327--3196381 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
3196317 AGTTTCCAAT
3196327 TTCGCAACGCGATTCTGACTA
1 TTCGCAACGCGATTCTGACTA
** *
3196348 -TCGCATTGCGATTTTG-CTAA
1 TTCGCAACGCGATTCTGACT-A
3196368 TTCGCAACGCGATT
1 TTCGCAACGCGATT
3196382 ACGTAAGTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.52
21 11 0.41
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (21 bp):
TTCGCAACGCGATTCTGACTA
Found at i:3196434 original size:21 final size:20
Alignment explanation
Indices: 3196410--3196503 Score: 116
Period size: 21 Copynumber: 4.5 Consensus size: 20
3196400 ATTAGGAAAA
3196410 TCGCATTGCGAGATTACGTAT
1 TCGCATTGCGA-ATTACGTAT
3196431 TCGCATTGCGAGATTACGTAT
1 TCGCATTGCGA-ATTACGTAT
* * *
3196452 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGAATTACGT-AT
*
3196473 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGAATTACGTAT
*
3196493 TCGCGTTGCGA
1 TCGCATTGCGA
3196504 TTTTCATAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.24
21 50 0.76
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGAATTACGTAT
Found at i:3196456 original size:42 final size:41
Alignment explanation
Indices: 3196410--3196531 Score: 122
Period size: 41 Copynumber: 3.0 Consensus size: 41
3196400 ATTAGGAAAA
*
3196410 TCGCATTGCGAGATTACGT-ATTCGCATTGCGAGATTACGTAT
1 TCGCATTGCGA-ATTACCTAATTCGCATTGCGA-ATTACGTAT
* * *
3196452 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGAATTACCTAATTCGCATTGCGAATTACGTAT
* * * * * *
3196493 TCGCGTTGCGATTTTCATAATTCGTAATGCGAA-TACGTA
1 TCGCATTGCGAATTACCTAATTCGCATTGCGAATTACGTA
3196532 AATCGCAACG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 6 0.09
41 40 0.57
42 24 0.34
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (41 bp):
TCGCATTGCGAATTACCTAATTCGCATTGCGAATTACGTAT
Found at i:3196502 original size:41 final size:42
Alignment explanation
Indices: 3196429--3196516 Score: 142
Period size: 41 Copynumber: 2.1 Consensus size: 42
3196419 GAGATTACGT
*
3196429 ATTCGCATTGCGAGATTACGTATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGAGATTACGTATTCGCATTGCGATTTTCATA
* *
3196471 ATTCGCATTGCGA-TTTACGTATTCGCGTTGCGATTTTCATA
1 ATTCGCATTGCGAGATTACGTATTCGCATTGCGATTTTCATA
3196512 ATTCG
1 ATTCG
3196517 TAATGCGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
41 30 0.70
42 13 0.30
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (42 bp):
ATTCGCATTGCGAGATTACGTATTCGCATTGCGATTTTCATA
Found at i:3196524 original size:21 final size:21
Alignment explanation
Indices: 3196450--3196516 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
3196440 GAGATTACGT
*
3196450 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTTCATA
* *
3196471 ATTCGCATTGCGATTTACGT-
1 ATTCGCATTGCGATTTTCATA
*
3196491 ATTCGCGTTGCGATTTTCATA
1 ATTCGCATTGCGATTTTCATA
3196512 ATTCG
1 ATTCG
3196517 TAATGCGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (21 bp):
ATTCGCATTGCGATTTTCATA
Found at i:3196576 original size:41 final size:41
Alignment explanation
Indices: 3196518--3196607 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
3196508 CATAATTCGT
* *
3196518 AATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAATCGC
1 AATGCGAATTACGAAAATCGCAACGCGAATAAGTAAATCGC
* * *
3196558 AATGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGC
1 AATGCGAATTACGAAAATCGCAACGCGAATAAGTAAATCGC
3196599 AATGCGAAT
1 AATGCGAAT
3196608 CTGACTATCG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 8 0.18
41 36 0.82
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (41 bp):
AATGCGAATTACGAAAATCGCAACGCGAATAAGTAAATCGC
Found at i:3196606 original size:20 final size:20
Alignment explanation
Indices: 3196518--3196607 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
3196508 CATAATTCGT
3196518 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
* * *
3196538 AACGCGATTAAGTAAATCGC
1 AATGCGAATACGTAAATCGC
* *
3196558 AATGCGAATTAGGAAAATCGC
1 AATGCGAA-TACGTAAATCGC
3196579 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
3196599 AATGCGAAT
1 AATGCGAAT
3196608 CTGACTATCG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
20 42 0.70
21 18 0.30
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (20 bp):
AATGCGAATACGTAAATCGC
Found at i:3197196 original size:14 final size:14
Alignment explanation
Indices: 3197177--3197237 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
3197167 GGAAATGACT
*
3197177 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
3197191 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
3197210 ATCGCAACGAGATA
1 ATCGCAACGAGAAA
*
3197224 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
3197238 CCAAAATCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:3197214 original size:33 final size:33
Alignment explanation
Indices: 3197156--3197248 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
3197146 CGAGAATGAA
**
3197156 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
*
3197190 AATCGCAACGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
**
3197223 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
3197249 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 43 0.80
34 11 0.20
ACGTcount: A:0.43, C:0.25, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:3197266 original size:19 final size:19
Alignment explanation
Indices: 3197244--3197389 Score: 141
Period size: 19 Copynumber: 8.1 Consensus size: 19
3197234 GAAACCAAAA
*
3197244 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
3197263 TCGCGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3197282 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
3197296 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3197315 TCGCGTTGCGA--TT-A--
1 TCGCGTTGCGATTTTCATT
* **
3197329 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
3197348 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
3197368 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
3197388 TC
1 TC
3197390 AACCAAAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.19
16 5 0.05
17 6 0.06
19 40 0.38
20 32 0.31
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3197313 original size:33 final size:33
Alignment explanation
Indices: 3197266--3197389 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
3197256 TTTCATTTCG
*
3197266 CGTTACGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
3197299 CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
**
3197332 CGTTGCGATAGTCATTTCCGCGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATTT-CGCGTTGCG------ATTCTCT
3197372 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
3197390 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
33 46 0.60
34 9 0.12
39 1 0.01
40 21 0.27
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:3197327 original size:52 final size:53
Alignment explanation
Indices: 3197249--3197389 Score: 157
Period size: 52 Copynumber: 2.7 Consensus size: 53
3197239 CAAAATCGCA
* * *
3197249 TTGCGATTTTCATTTCGCGTTACGATTTTCATTTCGCG-TTG-CGA-TTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGATAGTC-ATTTC-CGCG
*
3197301 TTGCGATTTTCATTTCGCGTTGCGATTATCTC-GTT-GCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-T-TCATTTCGCGATAGTCATTTCCGCG
*
3197354 TTGCGATTTTCATTCTCTCGTTGCGATTTTCATTTC
1 TTGCGATTTTCATT-TCGCGTTGCGATTTTCATTTC
3197390 AACCAAAAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
52 31 0.41
53 26 0.35
54 18 0.24
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (53 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGATAGTCATTTCCGCG
Found at i:3199269 original size:94 final size:93
Alignment explanation
Indices: 3199082--3199457 Score: 616
Period size: 94 Copynumber: 4.1 Consensus size: 93
3199072 TAGATTGCTT
* *
3199082 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-T-TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3199143 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
3199172 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3199237 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
3199266 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTAAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
3199331 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * *
3199360 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
3199425 ATTTGTCTTTGTTTTGTCTTTTTGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
3199453 AGTAA
1 AGTAA
3199458 TGCAATCCAT
Statistics
Matches: 272, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
90 34 0.12
91 1 0.00
92 3 0.01
93 28 0.10
94 206 0.76
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Done.