Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 78
Found at i:3506507 original size:20 final size:18
Alignment explanation
Indices: 3506482--3506530 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 18
3506472 TCTTTTTTCA
3506482 TTTTTCATTTTTTCTTCCCT
1 TTTTTCATTTTTTCTT--CT
3506502 TTTTTCATTTTTTCTTCT
1 TTTTTCATTTTTTCTTCT
*
3506520 TTTTTCCTTTT
1 TTTTTCATTTT
3506531 CGTTTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 12 0.43
20 16 0.57
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCATTTTTTCTTCT
Found at i:3506523 original size:60 final size:58
Alignment explanation
Indices: 3506455--3506582 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 58
3506445 CCTTTTATTT
* * *
3506455 CTCTTTTTTCATTTTTC-TCTTTTT-TCATTTTTCATTTTTTCTTCCCTTTTTTCATTTTTTC
1 CTCTTTTTTC-CTTTTCGT-TTTTTCTCATTTTTC-TTTTTTC-T-CATTTTCTCATTTTTTC
*
3506516 TTCTTTTTTCCTTTTCGTTTTTTCCATCATTTTTCTTTTTTCTCATTTTCTCATTTTTTC
1 CTCTTTTTTCCTTTTCGTTTTTT-C-TCATTTTTCTTTTTTCTCATTTTCTCATTTTTTC
3506576 CTCTTTT
1 CTCTTTT
3506583 ATTTCTTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
60 31 0.53
61 11 0.19
62 7 0.12
63 9 0.16
ACGTcount: A:0.06, C:0.22, G:0.01, T:0.71
Consensus pattern (58 bp):
CTCTTTTTTCCTTTTCGTTTTTTCTCATTTTTCTTTTTTCTCATTTTCTCATTTTTTC
Found at i:3506526 original size:27 final size:26
Alignment explanation
Indices: 3506459--3506530 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
3506449 TTATTTCTCT
3506459 TTTTTCA-TTTTTC-T-CTTTTTTCA
1 TTTTTCATTTTTTCTTCCTTTTTTCA
3506482 TTTTTCATTTTTTCTTCCCTTTTTTCA
1 TTTTTCATTTTTTCTT-CCTTTTTTCA
3506509 TTTTTTC-TTCTTTT-TTCCTTTT
1 -TTTTTCATT-TTTTCTTCCTTTT
3506531 CGTTTTTTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.16
24 6 0.14
25 1 0.02
26 6 0.14
27 13 0.30
28 10 0.23
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTTCATTTTTTCTTCCTTTTTTCA
Found at i:3506531 original size:44 final size:43
Alignment explanation
Indices: 3506457--3506539 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 43
3506447 TTTTATTTCT
*
3506457 CTTTTTTCATTTTTCTCTTTTTTCATTTTTCATTTTTTCTTCC
1 CTTTTTTCATTTTTCTCTTTTTTCACTTTTCATTTTTTCTTCC
*
3506500 CTTTTTTCATTTTTTCTTCTTTTTTC-CTTTTCGTTTTTTC
1 CTTTTTTCA-TTTTTC-TCTTTTTTCACTTTTCATTTTTTC
3506540 CATCATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 9 0.25
44 18 0.50
45 9 0.25
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.73
Consensus pattern (43 bp):
CTTTTTTCATTTTTCTCTTTTTTCACTTTTCATTTTTTCTTCC
Found at i:3506549 original size:44 final size:45
Alignment explanation
Indices: 3506458--3506558 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 45
3506448 TTTATTTCTC
* * *
3506458 TTTTTTCA-TTTTTC-TCTTTTTTCATTTTTCATTTTTTCTTCCC
1 TTTTTTCATTTTTTCTTCTTTTTTCACTTTTCATTTTTTCATCCA
*
3506501 TTTTTTCATTTTTTCTTCTTTTTTC-CTTTTCGTTTTTTCCAT-CA
1 TTTTTTCATTTTTTCTTCTTTTTTCACTTTTCATTTTTT-CATCCA
3506545 -TTTTTC-TTTTTTCT
1 TTTTTTCATTTTTTCT
3506559 CATTTTCTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
42 8 0.16
43 14 0.27
44 18 0.35
45 11 0.22
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.73
Consensus pattern (45 bp):
TTTTTTCATTTTTTCTTCTTTTTTCACTTTTCATTTTTTCATCCA
Found at i:3516010 original size:44 final size:47
Alignment explanation
Indices: 3515946--3516042 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 47
3515936 TGTTATCCAT
3515946 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTATTC-
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
* *
3515991 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTCG
3516038 AAAAA
1 AAAAA
3516043 ACGAAAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
44 28 0.60
45 8 0.17
46 6 0.13
47 5 0.11
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:3520096 original size:3 final size:3
Alignment explanation
Indices: 3520088--3520173 Score: 84
Period size: 3 Copynumber: 28.7 Consensus size: 3
3520078 GTTTTATTTA
* * * * *
3520088 TAT TAT TAT TAT AAT TAT TAT AAT TGT TAT AAT AAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
3520136 TAT TA- TAT TTT TAT TAT TAT TAAT AAA TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
3520174 CATATTACAG
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.94
4 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:3520897 original size:12 final size:12
Alignment explanation
Indices: 3520880--3520912 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
3520870 TCTCTCCGAC
3520880 GAGAGAAACATA
1 GAGAGAAACATA
3520892 GAGAGAAACATA
1 GAGAGAAACATA
3520904 GAGAGAAAC
1 GAGAGAAAC
3520913 GGGAGAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.09, G:0.27, T:0.06
Consensus pattern (12 bp):
GAGAGAAACATA
Found at i:3521347 original size:21 final size:21
Alignment explanation
Indices: 3521310--3521349 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3521300 AATTAGAGTT
*
3521310 TTTTAATCTTTATATTTTATA
1 TTTTAATCTATATATTTTATA
3521331 TTTTAATC-ATATAATTTTA
1 TTTTAATCTATAT-ATTTTA
3521350 GTTTTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATCTATATATTTTATA
Found at i:3521469 original size:2 final size:2
Alignment explanation
Indices: 3521464--3521498 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3521454 TTATATTAGT
3521464 CA CA CA CA CA CA CA CA CA CA CA CA -A CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
3521499 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:3521503 original size:2 final size:2
Alignment explanation
Indices: 3521498--3521549 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
3521488 ACACACACAC
*
3521498 AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3521540 AT AT AT AT AT
1 AT AT AT AT AT
3521550 TTTGTTTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3522544 original size:26 final size:28
Alignment explanation
Indices: 3522483--3522545 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
3522473 TTCTTTTTAA
3522483 AATTTTTATATATACTTATTATTTTCAT
1 AATTTTTATATATACTTATTATTTTCAT
*
3522511 AATATTTATATGTATA-TTATT-TTTT-AT
1 AAT-TTT-TATATATACTTATTATTTTCAT
3522538 -ATTTTTAT
1 AATTTTTAT
3522546 TTTCAAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 3 0.09
25 3 0.09
26 2 0.06
27 2 0.06
28 7 0.22
29 8 0.25
30 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (28 bp):
AATTTTTATATATACTTATTATTTTCAT
Found at i:3523105 original size:46 final size:49
Alignment explanation
Indices: 3523015--3523105 Score: 116
Period size: 46 Copynumber: 1.9 Consensus size: 49
3523005 TTTATTTCAT
* * * * *
3523015 TTTTTCCTAAATAAATGCATGCGAACTAGTAATCATGCGGTTAGGTTAA
1 TTTTTCCTAAACAAATGCATGCGAAATAGAAAGCATGAGGTTAGGTTAA
3523064 TTTTTCC-AAACAAA-GCATG-GAAATAGAAAGCATGAGGTTAGG
1 TTTTTCCTAAACAAATGCATGCGAAATAGAAAGCATGAGGTTAGG
3523106 ATATATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 19 0.51
47 5 0.14
48 6 0.16
49 7 0.19
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (49 bp):
TTTTTCCTAAACAAATGCATGCGAAATAGAAAGCATGAGGTTAGGTTAA
Found at i:3523919 original size:43 final size:44
Alignment explanation
Indices: 3523856--3523938 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
3523846 TAACTTGGTT
* * *
3523856 TTAGGAAGGAAAGCTATCCCCTATATGT-AACGTTTTGTTGAAG
1 TTAGGAAGGAAAGATATCCCCTACATGTAAAAGTTTTGTTGAAG
* * *
3523899 TTAGGAATGAAAGATGTCCCCTGCATGTAAAAGTTTTGTT
1 TTAGGAAGGAAAGATATCCCCTACATGTAAAAGTTTTGTT
3523939 TGATGCAAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 23 0.70
44 10 0.30
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (44 bp):
TTAGGAAGGAAAGATATCCCCTACATGTAAAAGTTTTGTTGAAG
Found at i:3531546 original size:22 final size:22
Alignment explanation
Indices: 3531516--3531557 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3531506 TACATCTACA
*
3531516 CTCTCCAAAGATGATAGATTCT
1 CTCTCCAAAGATGAAAGATTCT
*
3531538 CTCTTCAAAGATGAAAGATT
1 CTCTCCAAAGATGAAAGATT
3531558 TATTGGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (22 bp):
CTCTCCAAAGATGAAAGATTCT
Found at i:3532191 original size:123 final size:122
Alignment explanation
Indices: 3532043--3532378 Score: 476
Period size: 123 Copynumber: 2.7 Consensus size: 122
3532033 ATCACTCGAT
* * * *
3532043 GCATCAACTTTTCCAGAGAAAGTTCATAATAAAAAGAACTTATCTGAAGAGGAAGAAAAAGTTAA
1 GCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCA
* *
3532108 TAACGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGAACA
66 TAATGAGAAGAACTTGTTCAACCTTTGCATGACTCTACCACAGAAGGAGATAGAACA
* *
3532165 GCATCAACTTTTCCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAGGAAGAAGAAGTTC
1 GCATCAACTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTC
* * * *
3532230 ATAATGAGAAGAACTTGTTCAACCTTTTGCTTGACTCTACCACAGAATGAGATCGATCA
65 ATAATGAGAAGAACTTGTTCAACC-TTTGCATGACTCTACCACAGAAGGAGATAGAACA
* * * * *
3532289 GCA-CTAACATTTCCAGATAAAGTTCATAATGAGAATAACTTATCTGAAAAAGAAGAAGAAGTTC
1 GCATC-AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTC
*
3532353 ATAATGAGAAGAACTTGTTCGACCTT
65 ATAATGAGAAGAACTTGTTCAACCTT
3532379 AGCTTGATTC
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
122 14 0.07
123 139 0.73
124 38 0.20
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (122 bp):
GCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTGCATGACTCTACCACAGAAGGAGATAGAACA
Found at i:3532439 original size:139 final size:139
Alignment explanation
Indices: 3532294--3532651 Score: 364
Period size: 139 Copynumber: 2.6 Consensus size: 139
3532284 GATCAGCACT
* * *
3532294 AACATTTCCAGATAAAGTTCATAATGAGAATAACTTATCTGAAAAAGAAGAAGAAGTTCATAATG
1 AACATTTCCAGATAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATG
* * * * *
3532359 AGAAGAACTTGTTCGACCTTAG-CTTGATTCATCACCTATGGAGTTGAATGAAAGAATAATCTCT
66 AGAAGAACTTGTTCAACCTT-GCCTTAATTCATCACATATGAAGCTGAATGAAAGAATAATCTCT
3532423 CTTGATGATC
130 CTTGATGATC
* * * * *
3532433 AACATTTTCAGATGAAGTTCATAATAAGAAGAACTCATCTGAATAGGAAGAAGAAGTTTATAATG
1 AACATTTCCAGATAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATG
* * * * *** *
3532498 AGAATAACTTGTTTAACCTTGCCTTAATTCATCACATATGAAGCTGAAT-CAACAA-CCCCTCTT
66 AGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGCTGAATGAAAGAATAATCTCTC
* *
3532561 TTAAAGATC
131 TTGATGATC
** * * * * * * *
3532570 GGCATTTCCAGA-AGCAGTTCAAAATGAGAAGAACTCATCTGAAAAAGGAGAAAAAATCCATAAT
1 AACATTTCCAGATA-AAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAAT
* *
3532634 AAGAAGAATTTGTTCAAC
65 GAGAAGAACTTGTTCAAC
3532652 TTTTTGCTAG
Statistics
Matches: 176, Mismatches: 41, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
137 74 0.42
138 5 0.03
139 97 0.55
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (139 bp):
AACATTTCCAGATAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGCTGAATGAAAGAATAATCTCTC
TTGATGATC
Found at i:3532902 original size:3 final size:3
Alignment explanation
Indices: 3532876--3532962 Score: 77
Period size: 3 Copynumber: 29.0 Consensus size: 3
3532866 TTGGCCCGTT
* * * * * *
3532876 TTA TTT TTA TTA TTT TTA TAA TTA TTA TAA TTG TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
3532924 TTA TTA -TA TTT TTA TTA TTA TTAA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
3532963 CATATTACAG
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
2 2 0.03
3 60 0.94
4 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:3534072 original size:2 final size:2
Alignment explanation
Indices: 3534065--3534105 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3534055 TCATTATCAG
3534065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3534106 TTAGGGTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3534264 original size:21 final size:21
Alignment explanation
Indices: 3534227--3534266 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3534217 AATTAGAGTT
*
3534227 TTTTAATCTTTATATTTTATA
1 TTTTAATCTATATATTTTATA
3534248 TTTTAATC-ATATAATTTTA
1 TTTTAATCTATAT-ATTTTA
3534267 GTTTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATCTATATATTTTATA
Found at i:3534402 original size:2 final size:2
Alignment explanation
Indices: 3534383--3534420 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
3534373 TTATATAGTC
* *
3534383 AT AT AA AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3534421 TTGTTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3534700 original size:149 final size:149
Alignment explanation
Indices: 3534548--3534831 Score: 398
Period size: 149 Copynumber: 1.9 Consensus size: 149
3534538 AGAAAATACA
3534548 TATTTTAATTAAATTATTTTCT-TAGAAAAATAATCATATT-TTAATATTTATATA-TTTTTAAT
1 TATTTTAATTAAATTATTTT-TATAG--AAAT-AT--TATTATTAATATTTATATATTTTTTAAT
*
3534610 ATTAAGAAATG-GACTGTCTTAAAGCACCTAGAATTCATTTTCTGATA-TTCTTAAATAAATAAA
60 ATTAAGAAATGAG-CTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTC-TAAATAAATAAA
3534673 TATCATATTTTTATAAATTATATATAT
123 TATCATATTTTTATAAATTATATATAT
* * * * *
3534700 TATTTTATTTTAATTATTTTTATAGAAATATTTTTATTAATATTTATTTATTTTTTTATATTAAG
1 TATTTTAATTAAATTATTTTTATAGAAATATTATTATTAATATTTATATATTTTTTAATATTAAG
*
3534765 AAATGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTAT
66 AAATGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCATAT
3534830 TT
131 TT
3534832 ATAAAAATAA
Statistics
Matches: 120, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
147 3 0.03
148 13 0.11
149 74 0.62
150 8 0.07
151 1 0.01
152 21 0.17
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (149 bp):
TATTTTAATTAAATTATTTTTATAGAAATATTATTATTAATATTTATATATTTTTTAATATTAAG
AAATGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCATAT
TTTTATAAATTATATATAT
Found at i:3535853 original size:23 final size:23
Alignment explanation
Indices: 3535827--3535874 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3535817 ATAAAGTACA
*
3535827 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
3535850 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
3535873 AT
1 AT
3535875 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:3536295 original size:23 final size:23
Alignment explanation
Indices: 3536265--3536327 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3536255 AATATACCAC
3536265 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
3536288 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
3536311 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3536328 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3536776 original size:39 final size:39
Alignment explanation
Indices: 3536722--3536846 Score: 232
Period size: 39 Copynumber: 3.2 Consensus size: 39
3536712 CTCAAGTTGT
3536722 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGG
1 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGG
3536761 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGG
1 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGG
* *
3536800 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGG
3536839 ATTTTGAT
1 ATTTTGAT
3536847 GAGCATCGGA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGG
Found at i:3537416 original size:24 final size:25
Alignment explanation
Indices: 3537384--3537433 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
3537374 TTAATCCAAA
*
3537384 TAATGTA-CCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
3537408 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
3537433 T
1 T
3537434 GATTTGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:3537733 original size:23 final size:23
Alignment explanation
Indices: 3537707--3537769 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3537697 CAATAACCAC
3537707 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
3537730 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
3537753 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3537770 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3537948 original size:30 final size:29
Alignment explanation
Indices: 3537908--3537974 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
3537898 TAATTTGCAC
* * *
3537908 AAAAAATTATTT-GATTGTTTTATATTTTAT
1 AAAATATTATTTAGAAT-TTTTA-ATTTAAT
3537938 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
3537967 AATAATAT
1 AA-AATAT
3537975 ATACCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:3538141 original size:22 final size:22
Alignment explanation
Indices: 3538113--3538161 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
3538103 ACACTTTACA
3538113 ATATAACCACTA-CTATTACATT
1 ATATAACCA-TACCTATTACATT
*
3538135 ATATAACGATACCTATTACATT
1 ATATAACCATACCTATTACATT
3538157 ATATA
1 ATATA
3538162 GGGCTACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (22 bp):
ATATAACCATACCTATTACATT
Found at i:3538169 original size:22 final size:22
Alignment explanation
Indices: 3538125--3538177 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
3538115 ATAACCACTA
3538125 CTATTACATTATATAACGATAC
1 CTATTACATTATATAACGATAC
** *
3538147 CTATTACATTATATAGGGCTAC
1 CTATTACATTATATAACGATAC
3538169 CTATTACAT
1 CTATTACAT
3538178 ATGTTTACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (22 bp):
CTATTACATTATATAACGATAC
Found at i:3538573 original size:23 final size:22
Alignment explanation
Indices: 3538543--3538594 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
3538533 CCACTACCTA
3538543 ATTATATAAACGATACCTATTAC
1 ATTATAT-AACGATACCTATTAC
* *
3538566 ATTATATAAGGCTACCTATTAC
1 ATTATATAACGATACCTATTAC
*
3538588 ATCATAT
1 ATTATAT
3538595 GTTTACCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (22 bp):
ATTATATAACGATACCTATTAC
Found at i:3538736 original size:417 final size:422
Alignment explanation
Indices: 3537465--3539109 Score: 2786
Period size: 417 Copynumber: 4.0 Consensus size: 422
3537455 TTTGAATTAT
* *
3537465 TTGATTTAATAA-TTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
1 TTGATTTAATAATTTAATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATAATAT
* *
3537529 TTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTATACGCCTATA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATA
3537594 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
130 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
3537659 AAAGTATGGACACTTTTATAAAAAGGATAGACACTTTAC-A-ATAACCACTACCTATTACATTAT
195 AAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACC--TTACATTAT
3537722 ATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTG
258 ATAAACGATACCTATTACATTATATAA-GGCTACCTATTACATCATATGTTTACCTATTATATTG
3537787 -AAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
322 AAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
3537851 ATTTTTTTAACAGTGTTTCAT-TTTT--CC-ACAATA
387 A-TTTTTTAACAGTGTTTCATGTTTTCCCCTACAATA
*
3537884 TTGATTTAATAATTTAATTTGCACAAAAAATTATTTGATTG-TTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTAATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATAATAT
3537948 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAT-AATCATTAGACGCCTATAA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAA
3538012 TTACTAAATTAATATCTTAAAACTCACTCAAAAGAT-ACCTTAAATT-ATGTTTTCCACAGTGAA
131 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
*
3538075 AAGTAT-GACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACTATTACATTATAT
196 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTAC-CTTACATTATAT
*
3538139 -AACGATACCTATTACATTATATAGGGCTACCTATT--A-CATATGTTTACCTATTATA-TGAAA
260 AAACGATACCTATTACATTATATAAGGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
*
3538199 GTGTCCAT-CTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCATT
325 GTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAAT
3538263 TTTTTAACAGTG-TTCATGTTTTCCACCTACAATA
389 TTTTTAACAGTGTTTCATGTTTTCC-CCTACAATA
* *
3538297 TTGATTTAATAATTTCATTTGCAC-AAAAATTATTTGATT-TTTTTATATTTTATAAAATATTA-
1 TTGATTTAATAATTTAATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATAATAT
3538359 TTAG-ATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAA
3538423 TTACTAAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
131 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG--
3538487 AAAAGTATGGACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACC-TA-ATTATA
194 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTTACATTATA
3538549 TAAACGATACCTATTACATTATATAAGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
259 TAAACGATACCTATTACATTATATAAGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
3538614 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
324 AGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
3538679 TTTTTTAACAGTGTTTCATGTTTTCCCCTACAATA
388 TTTTTTAACAGTGTTTCATGTTTTCCCCTACAATA
*
3538714 TTAATTTAATAATTTAATTTGCACAAAAAATTATTTGATTGTTTTTATA-TTTATAAAATAATAT
1 TTGATTTAATAATTTAATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATAATAT
*
3538778 TTAGAATTTTTAATTTAATAATAATATATA---TAACGTAAGAATAAATCATTAGACGCCTATAA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAA
*
3538840 TTACTAAATTAATATC-TAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
131 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-A
3538904 AAAGTATGGACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTAT
195 AAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACC--TTACATTAT
*
3538968 ATAAACGATACCTATTACATTATATAAGGGTACCTATTACATCATATGTTTACCTATTATATTGA
258 ATAAACGATACCTATTACATTATATAAGGCTACCTATTACATCATATGTTTACCTATTATATTGA
3539033 AAGTGTCCATAC-TTTTATAAAAGGATCGATACTTTTTTTAAAACTTATGT-ATTTATGTTTCAA
323 AAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
3539096 TTTTTTAACAGTGT
388 TTTTTTAACAGTGT
3539110 ACTGTGAATT
Statistics
Matches: 1174, Mismatches: 18, Indels: 70
0.93 0.01 0.06
Matches are distributed among these distances:
408 5 0.00
409 27 0.02
410 120 0.10
411 70 0.06
412 90 0.08
413 40 0.03
414 96 0.08
415 65 0.06
416 101 0.09
417 258 0.22
418 78 0.07
419 91 0.08
420 133 0.11
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (422 bp):
TTGATTTAATAATTTAATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATAATAT
TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAA
TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTTACATTATATA
AACGATACCTATTACATTATATAAGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTT
TTTAACAGTGTTTCATGTTTTCCCCTACAATA
Found at i:3538979 original size:23 final size:22
Alignment explanation
Indices: 3538943--3539014 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
3538933 ACACTTTACA
*
3538943 ATATAACCACTACCTATTACATT
1 ATATAACGA-TACCTATTACATT
3538966 ATATAAACGATACCTATTACATT
1 ATAT-AACGATACCTATTACATT
* * *
3538989 ATATAAGGGTACCTATTACATC
1 ATATAACGATACCTATTACATT
3539011 ATAT
1 ATAT
3539015 GTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 19 0.43
23 21 0.48
24 4 0.09
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATAACGATACCTATTACATT
Found at i:3539004 original size:22 final size:23
Alignment explanation
Indices: 3538953--3539014 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
3538943 ATATAACCAC
3538953 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
3538976 TACCTATTACATTATAT-AAGGG
1 TACCTATTACATTATATAAACGA
*
3538998 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3539015 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3542420 original size:181 final size:183
Alignment explanation
Indices: 3542116--3542617 Score: 803
Period size: 181 Copynumber: 2.8 Consensus size: 183
3542106 AGGTCGACAC
3542116 ATTTTTATA-CGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
*
3542180 TGTCGACACTTTTTTAAATGGTATCGACACA-TTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
3542244 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
*
3542297 ATTTTTATACCGGTTATATTAC-AAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
3542361 TGTCGACAC-TTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCG----
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
*
3542421 -A-ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
* *
3542472 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTT
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGT
* * * *
3542537 CAA--TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTTCATTCTGGACATAAAGTACAGA
63 AAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGA
*
3542600 CACAATATTAAAAAGTGT
128 CACAATATTAGAAAGTGT
3542618 GAAAACTTTG
Statistics
Matches: 297, Mismatches: 11, Indels: 23
0.90 0.03 0.07
Matches are distributed among these distances:
175 70 0.24
176 36 0.12
177 7 0.02
178 48 0.16
179 4 0.01
180 21 0.07
181 87 0.29
182 12 0.04
183 1 0.00
184 11 0.04
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (183 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
Found at i:3543723 original size:3 final size:3
Alignment explanation
Indices: 3543715--3543786 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
3543705 ACTTGTTTGG
* * * **
3543715 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
3543763 AAC TTC ATC GTC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC
3543787 TGTTAAAAAA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.26, C:0.35, G:0.04, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:3545928 original size:392 final size:395
Alignment explanation
Indices: 3545206--3546557 Score: 2518
Period size: 392 Copynumber: 3.4 Consensus size: 395
3545196 TATTTAAATT
3545206 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGA-ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
3545271 TAATTGTACCGGTTAGATTGAAAAATT--ATATTACATTATACTTTTGGGTTGGATGATTTTGGG
65 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3545334 ATCGACACTTTTTATATATGGATCG--AC-TTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGGA
3545396 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACC
194 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
3545460 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
259 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
3545525 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTG
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTG
3545590 GG-AAAA
389 GGAAAAA
3545596 AGTATCG-ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 AGTATCGAACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
3545660 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
66 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
3545725 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGG-AA
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAAA
3545789 AAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
3545854 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
3545919 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGG
3545984 AAAAA
391 AAAAA
*
3545989 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTG
1 AGTATCGA-ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3546054 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
65 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3546119 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3546183 AAAAGTATCGACA-AAAC--TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
3546245 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
260 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
3546310 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGG
3546375 GAAAAA
390 GAAAAA
3546381 AGTATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGA-ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3546444 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
65 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* *
3546509 ATTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 ATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
3546558 GGCCATATTG
Statistics
Matches: 945, Mismatches: 5, Indels: 22
0.97 0.01 0.02
Matches are distributed among these distances:
388 83 0.09
390 186 0.20
391 59 0.06
392 390 0.41
393 27 0.03
394 58 0.06
395 142 0.15
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (395 bp):
AGTATCGAACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAAA
AAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGG
AAAAA
Found at i:3545938 original size:197 final size:198
Alignment explanation
Indices: 3545206--3546557 Score: 2538
Period size: 197 Copynumber: 6.9 Consensus size: 198
3545196 TATTTAAATT
3545206 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
3545271 TAATTGTACCGGTTAGATTGAAAAATT--ATATTACATTATACTTTTGGGTTGGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3545334 ATCGACACTTTTTATATATGGATCG--AC-TTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGGA
3545396 AAAA
195 AAAA
3545400 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3545464 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3545529 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGG-A
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3545593 AAA
196 AAA
3545596 AGTATCG--ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3545659 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3545724 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGG-A
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3545788 AAA
196 AAA
3545791 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3545856 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3545921 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3545986 AAA
196 AAA
*
3545989 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTG
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3546054 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3546119 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3546183 AAA
196 AAA
3546186 AGTATCGACA-AAAC--TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3546248 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3546313 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3546378 AAA
196 AAA
3546381 AGTATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3546444 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* *
3546509 ATTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 ATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
3546558 GGCCATATTG
Statistics
Matches: 1141, Mismatches: 5, Indels: 21
0.98 0.00 0.02
Matches are distributed among these distances:
193 36 0.03
194 221 0.19
195 277 0.24
196 139 0.12
197 311 0.27
198 157 0.14
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (198 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
AAA
Found at i:3546318 original size:589 final size:589
Alignment explanation
Indices: 3545206--3546557 Score: 2544
Period size: 589 Copynumber: 2.3 Consensus size: 589
3545196 TATTTAAATT
3545206 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
3545271 TAATTGTACCGGTTAGATTGAAAAATT--ATATTACATTATACTTTTGGGTTGGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3545334 ATCGACACTTTTTATATATGGATCG--AC-TTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGGA
3545396 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAACCG
195 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAACCG
3545461 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
260 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
3545526 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGG
3545591 GAAAAAGTATCGACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
390 GAAAAAGTATCGACAAAC-ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
3545656 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
454 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
3545721 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGG
519 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGG
3545786 G-AAAA
584 GAAAAA
3545791 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3545856 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3545921 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3545986 AAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCG
*
3546051 GTGTAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
260 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
3546116 GGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGG
3546180 GAAAAAAGTATCGACAAA-ACTATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
390 G-AAAAAGTATCGACAAACA-TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
3546244 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
453 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
3546309 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTG
518 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTG
3546374 GGAAAAA
583 GGAAAAA
3546381 AGTATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3546444 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* *
3546509 ATTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 ATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
3546558 GGCCATATTG
Statistics
Matches: 753, Mismatches: 4, Indels: 16
0.97 0.01 0.02
Matches are distributed among these distances:
585 92 0.12
587 60 0.08
588 121 0.16
589 348 0.46
590 132 0.18
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (589 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
AAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGG
AAAAAGTATCGACAAACATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGA
AAAA
Found at i:3546692 original size:18 final size:18
Alignment explanation
Indices: 3546669--3546712 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3546659 AATTATATTC
3546669 ATACAAAAAATAAATCGT
1 ATACAAAAAATAAATCGT
** *
3546687 ATACAAATTATAAATCTT
1 ATACAAAAAATAAATCGT
3546705 ATACAAAA
1 ATACAAAA
3546713 TTACTCGACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (18 bp):
ATACAAAAAATAAATCGT
Found at i:3548626 original size:21 final size:21
Alignment explanation
Indices: 3548586--3548627 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3548576 CCCCTTATTC
*
3548586 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTGTATCTACGACT
* *
3548607 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTGTATCTACGACT
3548628 TGATCAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.38
Consensus pattern (21 bp):
CTCTCGAGTGTATCTACGACT
Found at i:3550897 original size:19 final size:19
Alignment explanation
Indices: 3550852--3550898 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
3550842 ATCCGGTATC
3550852 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
*
3550871 TTTGTTACCGG-TTTATCAT
1 ATT-TTACCGGTTTTATCAT
3550890 AATTTTACC
1 -ATTTTACC
3550899 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:3551046 original size:20 final size:20
Alignment explanation
Indices: 3551020--3551065 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
3551010 CACTTTTAAA
3551020 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
3551039 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
3551060 TTTACC
1 TTTACC
3551066 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:3552017 original size:14 final size:14
Alignment explanation
Indices: 3552000--3552050 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
3551990 CTAGAGAGAA
3552000 AAGAAATGAAAAAG
1 AAGAAATGAAAAAG
*
3552014 AAGAAA-GAGAAAAA
1 AAGAAATGA-AAAAG
3552028 AAGAAAATGAAAGAATG
1 AAG-AAATGAAA-AA-G
3552045 AAGAAA
1 AAGAAA
3552051 AAGGTGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.07
14 13 0.43
15 5 0.17
16 7 0.23
17 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.06
Consensus pattern (14 bp):
AAGAAATGAAAAAG
Found at i:3555787 original size:20 final size:20
Alignment explanation
Indices: 3555762--3555799 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3555752 CCTGAATTTC
*
3555762 CTATAACTTTCTAAAACTGA
1 CTATAAATTTCTAAAACTGA
3555782 CTATAAATTTCTAAAACT
1 CTATAAATTTCTAAAACT
3555800 TATAATTTAA
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:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (20 bp):
CTATAAATTTCTAAAACTGA
Found at i:3562106 original size:18 final size:17
Alignment explanation
Indices: 3562073--3562106 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3562063 GAATAATTAA
3562073 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
3562090 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
3562107 AAATAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:3570123 original size:18 final size:17
Alignment explanation
Indices: 3570090--3570123 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3570080 GAATAATTAA
3570090 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
3570107 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
3570124 AAACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:3577610 original size:23 final size:23
Alignment explanation
Indices: 3577567--3577626 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
3577557 ATAATTTGCA
3577567 CCGAAGTG-CCACATA--TTTGTC
1 CCGAAG-GACCACATAGTTTTGTC
*
3577588 CCGAAGGACCATATAGTTTTGTC
1 CCGAAGGACCACATAGTTTTGTC
*
3577611 CCGAATGACCACATAG
1 CCGAAGGACCACATAG
3577627 AACCCTCGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 12 0.36
23 20 0.61
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (23 bp):
CCGAAGGACCACATAGTTTTGTC
Found at i:3578363 original size:16 final size:16
Alignment explanation
Indices: 3578342--3578373 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3578332 AATAGTATCG
3578342 GTACTCTTCCTGTAGT
1 GTACTCTTCCTGTAGT
3578358 GTACTCTTCCTGTAGT
1 GTACTCTTCCTGTAGT
3578374 ACTGATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (16 bp):
GTACTCTTCCTGTAGT
Found at i:3587681 original size:7 final size:7
Alignment explanation
Indices: 3587669--3587698 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
3587659 ATTCTATCAG
3587669 ATACAAC
1 ATACAAC
3587676 ATACAAC
1 ATACAAC
3587683 ATACAAC
1 ATACAAC
3587690 ATACAAC
1 ATACAAC
3587697 AT
1 AT
3587699 TGTTACACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (7 bp):
ATACAAC
Found at i:3590229 original size:21 final size:21
Alignment explanation
Indices: 3590166--3590231 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
3590156 CTGCGGGTTG
3590166 TAACTTGGAGAGGTAGGGCTA
1 TAACTTGGAGAGGTAGGGCTA
* * * *
3590187 TAGCTTGGTGATGTGGGGCTA
1 TAACTTGGAGAGGTAGGGCTA
* *
3590208 TAACTTGGAGAGGTTGGACTA
1 TAACTTGGAGAGGTAGGGCTA
3590229 TAA
1 TAA
3590232 GCAGGTGAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.26, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
TAACTTGGAGAGGTAGGGCTA
Found at i:3590290 original size:42 final size:42
Alignment explanation
Indices: 3590235--3590379 Score: 157
Period size: 42 Copynumber: 3.5 Consensus size: 42
3590225 ACTATAAGCA
* * *
3590235 GGTGAAGTAAGGCTGTATGATGGCGATGTGGGGCTATAGGAG
1 GGTGAAGTTAGGCTGTATGATGGAGATGTGGGGCTATACGAG
* * * * *
3590277 GGTGAGGTTAGGCTGTATGAAGGAGATGTTGGGCTGTACGAT
1 GGTGAAGTTAGGCTGTATGATGGAGATGTGGGGCTATACGAG
* * *
3590319 GGTGATGTTGGGCTGTATGATGGAGAAGTGGGGCTATACGCA-
1 GGTGAAGTTAGGCTGTATGATGGAGATGTGGGGCTATACG-AG
* *
3590361 GGTGAAGTTGGGCTATATG
1 GGTGAAGTTAGGCTGTATG
3590380 CAGGTGAACT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 85 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.08, G:0.43, T:0.27
Consensus pattern (42 bp):
GGTGAAGTTAGGCTGTATGATGGAGATGTGGGGCTATACGAG
Found at i:3590313 original size:21 final size:21
Alignment explanation
Indices: 3590220--3590437 Score: 132
Period size: 21 Copynumber: 10.4 Consensus size: 21
3590210 ACTTGGAGAG
* * *
3590220 GTTGGACTATAAGCAGGTGAA
1 GTTGGGCTATATGAAGGTGAA
** * * * *
3590241 GTAAGGCTGTATGATGGCGAT
1 GTTGGGCTATATGAAGGTGAA
* * * *
3590262 GTGGGGCTATAGGAGGGTGAG
1 GTTGGGCTATATGAAGGTGAA
* * * *
3590283 GTTAGGCTGTATGAAGGAGAT
1 GTTGGGCTATATGAAGGTGAA
* * * *
3590304 GTTGGGCTGTACGATGGTGAT
1 GTTGGGCTATATGAAGGTGAA
* * *
3590325 GTTGGGCTGTATGATGGAGAA
1 GTTGGGCTATATGAAGGTGAA
* * *
3590346 GTGGGGCTATACGCAGGTGAA
1 GTTGGGCTATATGAAGGTGAA
*
3590367 GTTGGGCTATATGCAGGTGAA
1 GTTGGGCTATATGAAGGTGAA
* *
3590388 CTTGGGCTATATGCAGGTGAA
1 GTTGGGCTATATGAAGGTGAA
*
3590409 GTTGGGCTATAT-ACGGGTGAA
1 GTTGGGCTATATGA-AGGTGAA
*
3590430 GTGGGGCT
1 GTTGGGCT
3590438 GTAGCTCGGG
Statistics
Matches: 153, Mismatches: 43, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
21 153 1.00
ACGTcount: A:0.23, C:0.09, G:0.41, T:0.27
Consensus pattern (21 bp):
GTTGGGCTATATGAAGGTGAA
Found at i:3590407 original size:84 final size:84
Alignment explanation
Indices: 3590221--3590442 Score: 207
Period size: 84 Copynumber: 2.6 Consensus size: 84
3590211 CTTGGAGAGG
* ** * * * *
3590221 TTGGACTATAAGCAGGTGAAGTAAGGCTGTATGATGGCGATGTGGGGCTATAGGAGGGTGAGGTT
1 TTGGGCTATAAGCAGGTGAAGTTGGGCTGTATGATGGAGAAGTGGGGCTATAGCAGGGTGAAGTT
* **
3590286 AGGCTGTATGAAGGAGATG
66 AGGCTATATGAAGGAGAAC
* * *
3590305 TTGGGCTGTACG-ATGGTGATGTTGGGCTGTATGATGGAGAAGTGGGGCTATACGCA-GGTGAAG
1 TTGGGCTATAAGCA-GGTGAAGTTGGGCTGTATGATGGAGAAGTGGGGCTATA-GCAGGGTGAAG
* * *
3590368 TTGGGCTATATGCAGGTGAAC
64 TTAGGCTATATGAAGGAGAAC
* * * * *
3590389 TTGGGCTATATGCAGGTGAAGTTGGGCTATAT-ACGGGTGAAGTGGGGCTGTAGC
1 TTGGGCTATAAGCAGGTGAAGTTGGGCTGTATGA-TGGAGAAGTGGGGCTATAGC
3590443 TCGGGGATGT
Statistics
Matches: 111, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
83 4 0.04
84 104 0.94
85 3 0.03
ACGTcount: A:0.23, C:0.09, G:0.41, T:0.27
Consensus pattern (84 bp):
TTGGGCTATAAGCAGGTGAAGTTGGGCTGTATGATGGAGAAGTGGGGCTATAGCAGGGTGAAGTT
AGGCTATATGAAGGAGAAC
Found at i:3590473 original size:42 final size:42
Alignment explanation
Indices: 3590427--3590509 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
3590417 ATATACGGGT
* * * * *
3590427 GAAGTGGGGCTGTAGCTCGGGGATGTGGGGCTATAACTTGGA
1 GAAGTAGGACTGTAACTCGGAGATGTAGGGCTATAACTTGGA
* * *
3590469 GAAGTAGGACTGTAACTTGGAGATGTAGGGCTGTAGCTTGG
1 GAAGTAGGACTGTAACTCGGAGATGTAGGGCTATAACTTGG
3590510 TGAGGTTGGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.22, C:0.11, G:0.42, T:0.25
Consensus pattern (42 bp):
GAAGTAGGACTGTAACTCGGAGATGTAGGGCTATAACTTGGA
Found at i:3590486 original size:21 final size:21
Alignment explanation
Indices: 3590460--3590509 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
3590450 TGTGGGGCTA
3590460 TAACTTGGAGAAGTAGGACTG
1 TAACTTGGAGAAGTAGGACTG
* *
3590481 TAACTTGGAGATGTAGGGCTG
1 TAACTTGGAGAAGTAGGACTG
*
3590502 TAGCTTGG
1 TAACTTGG
3590510 TGAGGTTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.28
Consensus pattern (21 bp):
TAACTTGGAGAAGTAGGACTG
Found at i:3590622 original size:21 final size:21
Alignment explanation
Indices: 3590598--3590656 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
3590588 AGTAGGTGAC
*
3590598 GTGGGGCTGTACCCAGGAGAG
1 GTGGGGCTGTAACCAGGAGAG
*
3590619 GTGGGGCTGTAACCAGGGGAG
1 GTGGGGCTGTAACCAGGAGAG
* * *
3590640 GTAGGACTGTAGCCAGG
1 GTGGGGCTGTAACCAGG
3590657 TGATGAAGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.17, G:0.47, T:0.15
Consensus pattern (21 bp):
GTGGGGCTGTAACCAGGAGAG
Found at i:3590666 original size:21 final size:21
Alignment explanation
Indices: 3590625--3590704 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
3590615 AGAGGTGGGG
* * *
3590625 CTGTAACCAGGGGAGGTAGGA
1 CTGTAACCAGGAGATGAAGGA
* *
3590646 CTGTAGCCAGGTGATGAAGGA
1 CTGTAACCAGGAGATGAAGGA
* * * *
3590667 CTGTATCCTGGAGATGATGGG
1 CTGTAACCAGGAGATGAAGGA
*
3590688 CTGTAACCAGGGGATGA
1 CTGTAACCAGGAGATGA
3590705 CGTAGGGGAG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.39, T:0.20
Consensus pattern (21 bp):
CTGTAACCAGGAGATGAAGGA
Found at i:3595904 original size:29 final size:29
Alignment explanation
Indices: 3595857--3595976 Score: 197
Period size: 29 Copynumber: 4.1 Consensus size: 29
3595847 CATGGTAAAG
*
3595857 TCCACCTTTAAGGTG-AACTATATTCATAA
1 TCCATCTTTAAGG-GAAACTATATTCATAA
*
3595886 TCCATCATTAAGGGAAACTATATTCATAA
1 TCCATCTTTAAGGGAAACTATATTCATAA
3595915 TCCATCTTTAAGGGAAACTATATTCATAA
1 TCCATCTTTAAGGGAAACTATATTCATAA
*
3595944 TCCATCTTTAAGGGAAACTATATCCATAA
1 TCCATCTTTAAGGGAAACTATATTCATAA
3595973 TCCA
1 TCCA
3595977 ACACAATTGT
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
28 1 0.01
29 85 0.99
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (29 bp):
TCCATCTTTAAGGGAAACTATATTCATAA
Found at i:3597412 original size:16 final size:16
Alignment explanation
Indices: 3597376--3597413 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3597366 TATAATATGT
* *
3597376 ATAAAAAATTAATTTT
1 ATAAAAAATTAAATTG
3597392 A-AAAAAATTAAATTG
1 ATAAAAAATTAAATTG
3597407 ATAAAAA
1 ATAAAAA
3597414 TAGTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAAATTAAATTG
Found at i:3599556 original size:21 final size:21
Alignment explanation
Indices: 3599532--3599571 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3599522 TTTTCAAAGG
*
3599532 CATGTACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
3599553 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
3599572 GAATAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:3599621 original size:19 final size:19
Alignment explanation
Indices: 3599597--3599635 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3599587 TCGAATGCAT
3599597 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
3599616 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
3599635 T
1 T
3599636 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:3599660 original size:64 final size:64
Alignment explanation
Indices: 3599552--3599761 Score: 216
Period size: 64 Copynumber: 3.3 Consensus size: 64
3599542 TGCATCAATA
* * * *
3599552 CCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCATTCCATGCACCGATGCACTC
1 CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGCATT-CATGCATCGATGCACTC
3599616 T
64 T
* **
3599617 CCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATTTGATGCATCGATGCACAAT
1 CCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-TTCATGCATCGATGCACTCT
* *
3599681 CCATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCACTTCATGCATCGATGCACT
1 CCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA-TTCATGCATCGATGCACT
3599743 CT
63 CT
* *
3599745 -TAGTGCACCGATGCACT
1 CCA-TGCATCGATGCACT
3599762 AGGAGTCTAA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
63 2 0.02
64 98 0.80
65 17 0.14
66 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (64 bp):
CCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTCATGCATCGATGCACTCT
Found at i:3599741 original size:17 final size:19
Alignment explanation
Indices: 3599713--3599761 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3599703 ATTTTTCAAA
3599713 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
3599731 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
3599750 CACCGATGCACT
1 CATCGATGCACT
3599762 AGGAGTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:3608129 original size:21 final size:21
Alignment explanation
Indices: 3608105--3608144 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3608095 TTTTCAAAGG
3608105 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
3608126 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
3608145 GAATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:3608194 original size:19 final size:19
Alignment explanation
Indices: 3608170--3608208 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3608160 TCGAATGCAT
3608170 TCCATGCACCGATACACTC
1 TCCATGCACCGATACACTC
* *
3608189 TCCATGCATCGATGCACTC
1 TCCATGCACCGATACACTC
3608208 T
1 T
3608209 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATACACTC
Found at i:3608230 original size:64 final size:65
Alignment explanation
Indices: 3608105--3608269 Score: 199
Period size: 64 Copynumber: 2.5 Consensus size: 65
3608095 TTTTCAAAGG
*
3608105 CATGCACCGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTAAAACATCGAATGCA
1 CATGCACCGATACA-CAAT-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAATGCA
3608169 TTC
63 TTC
** * * * *
3608172 CATGCACCGATACACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATTGAATGCATTT
1 CATGCACCGATACACAATCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
* * *
3608236 GATGCATCGATGCACAATCCATGCATCGATGCAC
1 CATGCACCGATACACAATCCATGCATCGATGCAC
3608270 CAGGCTATTT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 53 0.62
65 15 0.18
66 4 0.05
67 13 0.15
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (65 bp):
CATGCACCGATACACAATCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
Found at i:3608314 original size:17 final size:19
Alignment explanation
Indices: 3608286--3608334 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3608276 ATTTTTCAAA
3608286 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
3608304 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
3608323 CACCGATGCACT
1 CATCGATGCACT
3608335 AAGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:3615580 original size:17 final size:17
Alignment explanation
Indices: 3615558--3615612 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 17
3615548 CATTGTAAGA
3615558 CATGCATCTCTCCCCTGCATG
1 CATGCATCTCT-CCC--C-TG
3615579 CATGCATCTCTCCCCTG
1 CATGCATCTCTCCCCTG
*
3615596 CATGCATGCGCTCCCCT
1 CATGCAT-CTCTCCCCT
3615613 CCCCCCGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 9 0.28
18 9 0.28
20 3 0.09
21 11 0.34
ACGTcount: A:0.13, C:0.45, G:0.15, T:0.27
Consensus pattern (17 bp):
CATGCATCTCTCCCCTG
Found at i:3615584 original size:21 final size:21
Alignment explanation
Indices: 3615558--3615604 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
3615548 CATTGTAAGA
3615558 CATGCATCTCTCCCCTGCATG
1 CATGCATCTCTCCCCTGCATG
3615579 CATGCATCTCTCCCCTGCATG
1 CATGCATCTCTCCCCTGCATG
3615600 CATGC
1 CATGC
3615605 GCTCCCCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.43, G:0.15, T:0.28
Consensus pattern (21 bp):
CATGCATCTCTCCCCTGCATG
Found at i:3616586 original size:23 final size:23
Alignment explanation
Indices: 3616568--3616697 Score: 172
Period size: 23 Copynumber: 5.7 Consensus size: 23
3616558 CTCGTATAAA
*
3616568 TGCACCGAAGTGCCACGTATAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
3616591 TACACTGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
3616614 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
3616637 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
3616660 TGCACC-ATAGTGACACGTAGAAA
1 TGCACCGA-AGTGCCACGTAGAAT
*
3616683 TACACCGAAGTGCCA
1 TGCACCGAAGTGCCA
3616698 TATAAGGTTG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 93 0.99
24 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:3616943 original size:25 final size:25
Alignment explanation
Indices: 3616909--3616958 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3616899 CATGTCACAT
3616909 ATTCACATGTACACTTTCATATCAC
1 ATTCACATGTACACTTTCATATCAC
3616934 ATTCACATGTACACTTTCATATCAC
1 ATTCACATGTACACTTTCATATCAC
3616959 GTCATATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (25 bp):
ATTCACATGTACACTTTCATATCAC
Found at i:3617593 original size:64 final size:63
Alignment explanation
Indices: 3617483--3617624 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 63
3617473 TTCCCCTTGA
** * * * *
3617483 AGTGCATCGATGCACTAC-CCATGCATCGATACACAAATTACCTTCGATGTTT-TTATTTTAAGG
1 AGTGCATCGATGCACT-CTTTATTCATCGATACACAAATTACATTCGATGTTTCTT-CTTTAAAG
* * * *
3617546 GGATGCATCGATGCACTCTTTATTCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAG
1 AG-TGCATCGATGCACTCTTTATTCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAG
3617610 AGTGCATCGATGCAC
1 AGTGCATCGATGCAC
3617625 ATTGAATATG
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
63 15 0.23
64 48 0.74
65 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (63 bp):
AGTGCATCGATGCACTCTTTATTCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAG
Found at i:3618111 original size:7 final size:7
Alignment explanation
Indices: 3618102--3618160 Score: 93
Period size: 7 Copynumber: 8.6 Consensus size: 7
3618092 GAGATACGGG
*
3618102 AGAAGGG
1 AGAAGGA
3618109 AGAAGGA
1 AGAAGGA
3618116 AGAAGGA
1 AGAAGGA
3618123 AGAAGGA
1 AGAAGGA
3618130 AGAAGGA
1 AGAAGGA
3618137 AGAAGGA
1 AGAAGGA
*
3618144 AGAATGA
1 AGAAGGA
3618151 AGAA-GA
1 AGAAGGA
3618157 AGAA
1 AGAA
3618161 TAAAGAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 6 0.12
7 44 0.88
ACGTcount: A:0.58, C:0.00, G:0.41, T:0.02
Consensus pattern (7 bp):
AGAAGGA
Found at i:3618449 original size:15 final size:15
Alignment explanation
Indices: 3618431--3618506 Score: 55
Period size: 15 Copynumber: 4.8 Consensus size: 15
3618421 AAAAGAGAAG
3618431 GAATAAAGAAATGAA
1 GAATAAAGAAATGAA
* *
3618446 GAATAAAAAAAGAAGAA
1 GAAT-AAAGAA-ATGAA
*
3618463 GAAGAAGACGGAAATGAA
1 GAATAA-A--GAAATGAA
**
3618481 GAAGGAAGAAATGAA
1 GAATAAAGAAATGAA
3618496 GAAT-AAGAAAT
1 GAATAAAGAAAT
3618507 AAAAGAAGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
15 15 0.31
16 7 0.14
17 9 0.18
18 9 0.18
19 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.25, T:0.09
Consensus pattern (15 bp):
GAATAAAGAAATGAA
Found at i:3621295 original size:121 final size:121
Alignment explanation
Indices: 3621081--3621324 Score: 391
Period size: 121 Copynumber: 2.0 Consensus size: 121
3621071 ATTCAAAGAT
* * ** *
3621081 TAAATTAATTTTAATTTATGAAAATTAGGACTAAATTGATAGAATATGTAAGTAAAAGTGACCAA
1 TAAATTAATTTTAATTTATGAAAATTACGACTAAATTGATAAAATATAAAAGTAAAAGTGACAAA
*
3621146 ATTTGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGATGAGATAAAATATA
66 ATGTGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGATGAGATAAAATATA
* * *
3621202 TAAATTAATTTTAATTT-TTAAACATTACGACTAAATTTATAAAATATAAAAGTATAAGTGACAA
1 TAAATTAATTTTAATTTATGAAA-ATTACGACTAAATTGATAAAATATAAAAGTAAAAGTGACAA
3621266 AATGTGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGATGAGATAAAATATA
65 AATGTGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGATGAGATAAAATATA
3621323 TA
1 TA
3621325 TTTTTATGTT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 4 0.04
121 109 0.96
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.39
Consensus pattern (121 bp):
TAAATTAATTTTAATTTATGAAAATTACGACTAAATTGATAAAATATAAAAGTAAAAGTGACAAA
ATGTGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGATGAGATAAAATATA
Found at i:3621347 original size:30 final size:29
Alignment explanation
Indices: 3621313--3621387 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
3621303 TTAAGATGAG
** * *
3621313 ATAAAATATATATTTTTATGTTATATAAGA
1 ATAAAATATATATTTTT-TAATAAATAAAA
*
3621343 ATAAAAAATTATATTTTTTAATAAATAAAA
1 ATAAAATA-TATATTTTTTAATAAATAAAA
3621373 ATAAAATATATATTT
1 ATAAAATATATATTT
3621388 AATTTAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 7 0.18
30 22 0.58
31 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (29 bp):
ATAAAATATATATTTTTTAATAAATAAAA
Found at i:3621437 original size:30 final size:28
Alignment explanation
Indices: 3621367--3621445 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 28
3621357 TTTTTAATAA
* *
3621367 ATAAAAATAAAATATATATTTAATTTAAT
1 ATAAAAATAAAATATAT-TTTAAGTTAAG
* * *
3621396 TTGATAATAAAATATATTTAATAAGTTAAG
1 ATAAAAATAAAATATATTT--TAAGTTAAG
3621426 ATAAAAATAAAATATATTTT
1 ATAAAAATAAAATATATTTT
3621446 TAAATTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
28 3 0.08
29 14 0.35
30 23 0.57
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (28 bp):
ATAAAAATAAAATATATTTTAAGTTAAG
Found at i:3626664 original size:20 final size:20
Alignment explanation
Indices: 3626641--3626707 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
3626631 ACCAAAACTG
3626641 ATAGTTTAGGTACTAAACGC
1 ATAGTTTAGGTACTAAACGC
* ** *
3626661 ATAGTCTACCCTACCAAAACTG-
1 ATAGTTTA-GGTA-CTAAAC-GC
3626683 ATAGTTTAGGTACTAAACGC
1 ATAGTTTAGGTACTAAACGC
3626703 ATAGT
1 ATAGT
3626708 CTACCCTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 17 0.49
21 4 0.11
22 12 0.34
23 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (20 bp):
ATAGTTTAGGTACTAAACGC
Found at i:3626690 original size:42 final size:42
Alignment explanation
Indices: 3626631--3626715 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
3626621 ACTAAAACGG
3626631 ACCAAAACTGATAGTTTAGGTACTAAACGCATAGTCTACCCT
1 ACCAAAACTGATAGTTTAGGTACTAAACGCATAGTCTACCCT
3626673 ACCAAAACTGATAGTTTAGGTACTAAACGCATAGTCTACCCT
1 ACCAAAACTGATAGTTTAGGTACTAAACGCATAGTCTACCCT
3626715 A
1 A
3626716 ATAACTATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (42 bp):
ACCAAAACTGATAGTTTAGGTACTAAACGCATAGTCTACCCT
Found at i:3626903 original size:17 final size:17
Alignment explanation
Indices: 3626881--3626916 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3626871 AAATTTATAA
*
3626881 TTTATTTTGTAAATGAT
1 TTTATTTTATAAATGAT
*
3626898 TTTATTTTATGAATGAT
1 TTTATTTTATAAATGAT
3626915 TT
1 TT
3626917 GTTTCTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTATTTTATAAATGAT
Found at i:3643735 original size:3 final size:3
Alignment explanation
Indices: 3643614--3643715 Score: 177
Period size: 3 Copynumber: 33.7 Consensus size: 3
3643604 TTTTTACCCA
3643614 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
* *
3643662 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3643710 ATAT TA
1 -TAT TA
3643716 AATACATAAT
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
3 91 0.97
4 3 0.03
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3645111 original size:18 final size:18
Alignment explanation
Indices: 3645080--3645114 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3645070 ATTTTATTTG
**
3645080 TTTATATTTTTAAATATT
1 TTTATATTCATAAATATT
3645098 TTTATATTCATAAATAT
1 TTTATATTCATAAATAT
3645115 ATATAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATTCATAAATATT
Found at i:3645823 original size:15 final size:15
Alignment explanation
Indices: 3645796--3645842 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
3645786 CTTCTGTCAA
*
3645796 ATTTTTATT-TATTT
1 ATTTTTTTTATATTT
3645810 ATTTTTTTTATATTT
1 ATTTTTTTTATATTT
* *
3645825 ATATGTTTTAT-TTT
1 ATTTTTTTTATATTT
3645839 ATTT
1 ATTT
3645843 GCAAGTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 14 0.50
15 14 0.50
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
ATTTTTTTTATATTT
Found at i:3645825 original size:19 final size:20
Alignment explanation
Indices: 3645796--3645840 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
3645786 CTTCTGTCAA
*
3645796 ATTTT-TATTTATTTATTTT
1 ATTTTATATTTATATATTTT
*
3645815 -TTTTATATTTATATGTTTT
1 ATTTTATATTTATATATTTT
3645834 ATTTTAT
1 ATTTTAT
3645841 TTGCAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 12 0.55
20 6 0.27
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
ATTTTATATTTATATATTTT
Found at i:3655154 original size:83 final size:83
Alignment explanation
Indices: 3654945--3655730 Score: 1373
Period size: 83 Copynumber: 9.5 Consensus size: 83
3654935 GAATTTGCCA
* * *
3654945 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAACAAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
3655010 TGGAAGATGAA--TGTTC
66 TGGAAGATGAATGTGTTC
3655026 ATAGCATCTTCTGGAA--GTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
*
3655089 TGGAAGATGAATGTGCTC
66 TGGAAGATGAATGTGTTC
*
3655107 ATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
3655172 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
3655190 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
3655255 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* * *
3655273 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAACAAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
3655338 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
3655356 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
3655421 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* * *
3655439 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAAACAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
3655504 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* * *
3655522 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAACAAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
* *
3655587 TAGAAAATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
*
3655605 ATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
3655670 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* *
3655688 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATTTGGTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
3655731 TGGTAAGAAC
Statistics
Matches: 672, Mismatches: 29, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
79 55 0.08
81 35 0.05
83 582 0.87
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
TGGAAGATGAATGTGTTC
Found at i:3656655 original size:113 final size:113
Alignment explanation
Indices: 3656474--3657104 Score: 1124
Period size: 113 Copynumber: 5.6 Consensus size: 113
3656464 ATTGACATTT
3656474 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
3656539 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
3656587 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
3656652 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
*
3656700 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
3656765 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
3656813 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
3656878 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATT-TTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
*
3656925 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * * * *
3656990 ATTTGTTCAACCTTTT-TGCTCAAATCTATTACTTGATGGGTTATTTTTT
66 ATTTGTTCAACCTTTTGT-CTGAATTC-ATCACTTGATGGATTATTTTTG
* * *
3657039 TCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG-AGAAAGTTCATAATGAGAAG
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAG
3657103 AA
65 AA
3657105 CTCATCAAAA
Statistics
Matches: 504, Mismatches: 10, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
111 1 0.00
112 92 0.18
113 345 0.68
114 66 0.13
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (113 bp):
CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
Found at i:3657358 original size:3 final size:3
Alignment explanation
Indices: 3657350--3657415 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
3657340 TTTTTACCCA
3657350 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
3657396 TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
3657416 ATATATTAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 4 0.07
3 55 0.93
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3658871 original size:19 final size:20
Alignment explanation
Indices: 3658839--3658876 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
3658829 ATTTTATTTG
**
3658839 TTTATATTTTTAAA-ATATT
1 TTTATATTCATAAATATATT
3658858 TTTATATTCATAAATATAT
1 TTTATATTCATAAATATAT
3658877 ATATAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTATATTCATAAATATATT
Found at i:3667130 original size:2 final size:2
Alignment explanation
Indices: 3667123--3667153 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3667113 ATTAAGATTT
3667123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3667154 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3682082 original size:2 final size:2
Alignment explanation
Indices: 3682071--3682176 Score: 205
Period size: 2 Copynumber: 53.5 Consensus size: 2
3682061 AGAAAGATAC
3682071 TA TA -A 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
3682112 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
3682154 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
3682177 CCACATAACT
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 102 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3684183 original size:26 final size:26
Alignment explanation
Indices: 3684125--3684183 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
3684115 TCCTTCCAAT
*
3684125 TTTAAAACACAAAAATATATCATTAA
1 TTTAAAACACAAAAATATATCAATAA
** *
3684151 TAGAAAACATCTAAAATATAT-AATAA
1 TTTAAAACA-CAAAAATATATCAATAA
3684177 TTTAAAA
1 TTTAAAA
3684184 TTTTTAAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (26 bp):
TTTAAAACACAAAAATATATCAATAA
Found at i:3689688 original size:56 final size:56
Alignment explanation
Indices: 3689621--3689739 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 56
3689611 TATGAATGCG
3689621 GTAGAAAATAGGTAACTGAATATGGCTCAGATGACTATTATAAGAATTGAAGGACA
1 GTAGAAAATAGGTAACTGAATATGGCTCAGATGACTATTATAAGAATTGAAGGACA
*
3689677 GTAGAAAATAGGTAACTGAATATGGCTCAGATGACTATTATAAGAATTGGAGGACA
1 GTAGAAAATAGGTAACTGAATATGGCTCAGATGACTATTATAAGAATTGAAGGACA
*
3689733 GTTGAAA
1 GTAGAAA
3689740 TTAAATTTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.25
Consensus pattern (56 bp):
GTAGAAAATAGGTAACTGAATATGGCTCAGATGACTATTATAAGAATTGAAGGACA
Found at i:3702304 original size:25 final size:25
Alignment explanation
Indices: 3702270--3702322 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
3702260 TCCGCTGAGT
*
3702270 AACAAGTAGGCCTTACCTAAACTGC
1 AACAAGTAGGCCTTACCCAAACTGC
3702295 AACAAGTAGGCCTTACCCAAACTGC
1 AACAAGTAGGCCTTACCCAAACTGC
3702320 AAC
1 AAC
3702323 TCGCACAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (25 bp):
AACAAGTAGGCCTTACCCAAACTGC
Found at i:3710004 original size:30 final size:30
Alignment explanation
Indices: 3709978--3710271 Score: 353
Period size: 30 Copynumber: 9.8 Consensus size: 30
3709968 AAAAGTGGTG
* *
3709978 GTGTAG-AAGTGGATAATGCTGAAA-GTGGTG
1 GTGTAGAAAG-GGACAATGCTGAAATG-GGTA
* * *
3710008 GTGTAGAAATGGATAATGCTGAAA-GTGGTG
1 GTGTAGAAAGGGACAATGCTGAAATG-GGTA
* * * *
3710038 GTGCAGAAATGGATATTGCTGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
*
3710068 GTGTAGAAAGGGACAATGTTGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
* *
3710098 GTGTTGAAAGGGACAATGCTGAAA-GTGGTG
1 GTGTAGAAAGGGACAATGCTGAAATG-GGTA
* * * *
3710128 GTGTATAAATGGATAATGATGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
*
3710158 GTGTAGAAAGAGACAATGCTGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
3710188 GTGTAGAAAGGGACAATGCTGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
3710218 GTGTAGAAAGGGACAATGCTGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
* *
3710248 GTGTTGAAAGGGACAATGTTGAAA
1 GTGTAGAAAGGGACAATGCTGAAA
3710272 GGGATAATGT
Statistics
Matches: 234, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
29 1 0.00
30 229 0.98
31 4 0.02
ACGTcount: A:0.35, C:0.05, G:0.36, T:0.24
Consensus pattern (30 bp):
GTGTAGAAAGGGACAATGCTGAAATGGGTA
Found at i:3710287 original size:90 final size:90
Alignment explanation
Indices: 3709978--3710287 Score: 394
Period size: 90 Copynumber: 3.4 Consensus size: 90
3709968 AAAAGTGGTG
* * * * * *
3709978 GTGTAG-AAGTGGATAATGCTGAAA-GTGGTGGTGTAGAAATGGATAATGCTGAAAGTGGTGGTG
1 GTGTAGAAAG-GGACAATGTTGAAATG-GGTAGTGTTGAAAGGGACAATGCTGAAAGTGGTGGTG
* *
3710041 CAGAAATGGATATTGCTGAAATGGGTA
64 TAGAAATGGATAATGCTGAAATGGGTA
3710068 GTGTAGAAAGGGACAATGTTGAAATGGGTAGTGTTGAAAGGGACAATGCTGAAAGTGGTGGTGTA
1 GTGTAGAAAGGGACAATGTTGAAATGGGTAGTGTTGAAAGGGACAATGCTGAAAGTGGTGGTGTA
* *
3710133 TAAATGGATAATGATGAAATGGGTA
66 GAAATGGATAATGCTGAAATGGGTA
* * * *
3710158 GTGTAGAAAGAGACAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAA-TGGGTAGTGT
1 GTGTAGAAAGGGACAATGTTGAAATGGGTAGTGTTGAAAGGGACAATGCTGAAAGT-GGTGGTGT
* *
3710222 AGAAAGGGACAATGCTGAAATGGGTA
65 AGAAATGGATAATGCTGAAATGGGTA
* *
3710248 GTGTTGAAAGGGACAATGTTGAAA-GGGATAATGTTGAAAG
1 GTGTAGAAAGGGACAATGTTGAAATGGG-TAGTGTTGAAAG
3710288 TGTTGGTGTA
Statistics
Matches: 193, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
89 4 0.02
90 185 0.96
91 4 0.02
ACGTcount: A:0.35, C:0.05, G:0.36, T:0.24
Consensus pattern (90 bp):
GTGTAGAAAGGGACAATGTTGAAATGGGTAGTGTTGAAAGGGACAATGCTGAAAGTGGTGGTGTA
GAAATGGATAATGCTGAAATGGGTA
Found at i:3713424 original size:21 final size:21
Alignment explanation
Indices: 3713398--3713437 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3713388 CTTGCAGTTC
3713398 AATGCA-AATGAAGAAAAATTA
1 AATGCACAATGAA-AAAAATTA
*
3713419 AATGCACAATGCAAAAAAT
1 AATGCACAATGAAAAAAAT
3713438 CAAAGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.17
Consensus pattern (21 bp):
AATGCACAATGAAAAAAATTA
Found at i:3716448 original size:15 final size:15
Alignment explanation
Indices: 3716418--3716457 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
3716408 TGAATCACAC
3716418 GCTTTATGG-GTGTA
1 GCTTTATGGCGTGTA
*
3716432 GCTTTATGGCTTGTA
1 GCTTTATGGCGTGTA
3716447 GCTTTATGGCG
1 GCTTTATGGCG
3716458 CCAATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.12, C:0.12, G:0.33, T:0.42
Consensus pattern (15 bp):
GCTTTATGGCGTGTA
Found at i:3717408 original size:3 final size:3
Alignment explanation
Indices: 3717400--3717425 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3717390 AAGGAAAAAT
3717400 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
3717426 ACCTTGTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3718434 original size:200 final size:199
Alignment explanation
Indices: 3717992--3718483 Score: 569
Period size: 200 Copynumber: 2.5 Consensus size: 199
3717982 TAAACCGGTT
* * ** * *
3717992 TATTTATACCTGTAACATTGCAAATTTACCTATTACATTATAATTATCGTTTTCGATGTTTTTGG
1 TATTTATACCGGTTACATTATAAATTTACATATTACATTATAATTATCGATTTCGATGTTTTTGG
** * * * * *
3718057 GATCGATACAATT--TAAATGTATCGATATTTTATGCGTGCACTTCGTTGGGCACTCATTTTGGA
66 GATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTAGGCACTCATTCTGGA
* * * * *
3718120 AAAAAGTATCGACACATATTTAAAAAGTGTCGATACATTATGTTGATCTATTCTATCATAAAATC
131 AAAAAGTATCAACACAAATTCAAAAAGTGTCGATACATTATGTTGACCTATTCTATAATAAAATC
3718185 AGTA
196 AGTA
* * *
3718189 TATTTATACCGGTTACATTATAAATTTACCTATTACATCATAATTATCGATTTCGATGTTTTTAG
1 TATTTATACCGGTTACATTATAAATTTACATATTACATTATAATTATCGATTTCGATGTTTTTGG
*
3718254 GATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTAGGCATTCATTCTGG
66 GATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCG-TTAGGCACTCATTCTGG
* * * * * * * * *
3718319 ACAATAAGTATCAACACAAATTCCACAAGTGTCGATACATTATGTTTACCTGTTTTGTAATTAAC
130 A-AAAAAGTATCAACACAAATTCAAAAAGTGTCGATACATTATGTTGACCTATTCTATAATAAAA
*
3718384 TGA-TA
194 TCAGTA
* * * * *
3718389 TATTTATACCGAG-TACATTGTTAATTTATATATTACATTATAATTATTGGTTTCGATGTTTTTG
1 TATTTATACCG-GTTACATTATAAATTTACATATTACATTATAATTATCGATTTCGATGTTTTTG
* * *
3718453 GGGTCGATACTTTTAAAAAATGCATCGACAC
65 GGATCGATACTTTTAATAAATGTATCGACAC
3718484 ATCTTTTTAC
Statistics
Matches: 249, Mismatches: 41, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
197 69 0.28
199 29 0.12
200 99 0.40
201 52 0.21
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (199 bp):
TATTTATACCGGTTACATTATAAATTTACATATTACATTATAATTATCGATTTCGATGTTTTTGG
GATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTAGGCACTCATTCTGGA
AAAAAGTATCAACACAAATTCAAAAAGTGTCGATACATTATGTTGACCTATTCTATAATAAAATC
AGTA
Found at i:3719546 original size:18 final size:18
Alignment explanation
Indices: 3719503--3719540 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
3719493 TGATCTCGGG
*
3719503 TTCTACATCGAGATCAGA
1 TTCTACATCGAGATAAGA
3719521 TTCTACATCGAGATAAGA
1 TTCTACATCGAGATAAGA
3719539 TT
1 TT
3719541 ACACATGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (18 bp):
TTCTACATCGAGATAAGA
Found at i:3722599 original size:9 final size:9
Alignment explanation
Indices: 3722555--3722624 Score: 59
Period size: 10 Copynumber: 7.3 Consensus size: 9
3722545 CCGGTTTTCA
3722555 ACCGGTTCTG
1 ACCGGTT-TG
*
3722565 ACCGGTTTCA
1 ACCGGTTT-G
* *
3722575 ATCGGTCTG
1 ACCGGTTTG
3722584 AACCGGTTTG
1 -ACCGGTTTG
*
3722594 ACCGGTCTG
1 ACCGGTTTG
3722603 AACCGGTTTG
1 -ACCGGTTTG
*
3722613 ACCGGTCTG
1 ACCGGTTTG
3722622 ACC
1 ACC
3722625 CGACCCGACC
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
9 20 0.42
10 28 0.58
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:3722599 original size:19 final size:19
Alignment explanation
Indices: 3722555--3722622 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 19
3722545 CCGGTTTTCA
*
3722555 ACCGGTTCTG-ACCGGTTTCA
1 ACCGG-TCTGAACCGGTTT-G
*
3722575 ATCGGTCTGAACCGGTTTG
1 ACCGGTCTGAACCGGTTTG
3722594 ACCGGTCTGAACCGGTTTG
1 ACCGGTCTGAACCGGTTTG
3722613 ACCGGTCTGA
1 ACCGGTCTGA
3722623 CCCGACCCGA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 32 0.73
20 12 0.27
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.28
Consensus pattern (19 bp):
ACCGGTCTGAACCGGTTTG
Found at i:3722642 original size:17 final size:17
Alignment explanation
Indices: 3722620--3722658 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
3722610 TTGACCGGTC
3722620 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
3722637 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
3722654 TGACC
1 TGACC
3722659 GTTGAACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:3729886 original size:20 final size:19
Alignment explanation
Indices: 3729841--3729918 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 19
3729831 GGGTGCTGGA
* *
3729841 AACCGGTTCTAACCGGTTTG
1 AACCGGTT-TAACCGATCTG
* *
3729861 -ACCGGTTTCAATCGGTCTG
1 AACCGGTTT-AACCGATCTG
*
3729880 AACCGGTTTGACCGATCTG
1 AACCGGTTTAACCGATCTG
* *
3729899 AACCGGTTTGACCGGTCTG
1 AACCGGTTTAACCGATCTG
3729918 A
1 A
3729919 CCCGACCCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.02
19 41 0.82
20 8 0.16
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.28
Consensus pattern (19 bp):
AACCGGTTTAACCGATCTG
Found at i:3729900 original size:19 final size:19
Alignment explanation
Indices: 3729876--3729918 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3729866 TTTCAATCGG
3729876 TCTGAACCGGTTTGACCGA
1 TCTGAACCGGTTTGACCGA
*
3729895 TCTGAACCGGTTTGACCGG
1 TCTGAACCGGTTTGACCGA
3729914 TCTGA
1 TCTGA
3729919 CCCGACCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (19 bp):
TCTGAACCGGTTTGACCGA
Found at i:3729905 original size:29 final size:29
Alignment explanation
Indices: 3729841--3729920 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
3729831 GGGTGCTGGA
* *
3729841 AACCGGTTCT-AACCGGTTTGACCGGTTTC
1 AACCGG-TCTGAACCGGTTTGACCGATCTC
* *
3729870 AATCGGTCTGAACCGGTTTGACCGATCTG
1 AACCGGTCTGAACCGGTTTGACCGATCTC
* *
3729899 AACCGGTTTG-ACCGGTCTGACC
1 AACCGGTCTGAACCGGTTTGACC
3729921 CGACCCGACC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 14 0.33
29 29 0.67
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (29 bp):
AACCGGTCTGAACCGGTTTGACCGATCTC
Found at i:3731974 original size:21 final size:21
Alignment explanation
Indices: 3731945--3732089 Score: 141
Period size: 21 Copynumber: 6.9 Consensus size: 21
3731935 AGGGTGTCAA
* **
3731945 AGTGTATCCATGCACTCCTAT
1 AGTGCATCCATGCACTCCTGC
3731966 AGTGCATCCATGCACTCCTGC
1 AGTGCATCCATGCACTCCTGC
*
3731987 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACTCCTGC
*
3732008 AGTGCATCCATACACTCCTGC
1 AGTGCATCCATGCACTCCTGC
* * * *
3732029 AATGCATCTATGAACCTGCC-AC
1 AGTGCATCCATGCA-CT-CCTGC
* *
3732051 TAGTGCATCGATGCAC-CATGC
1 -AGTGCATCCATGCACTCCTGC
*
3732072 AGTACATCCATGCACTCC
1 AGTGCATCCATGCACTCC
3732090 ATTTTGAATG
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
20 14 0.14
21 69 0.69
22 4 0.04
23 13 0.13
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCACTCCTGC
Found at i:3733415 original size:19 final size:20
Alignment explanation
Indices: 3733391--3733438 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
3733381 AACAATTTTC
* *
3733391 TTTTGAAAGCAAAAATG-GA
1 TTTTGAAAACAAAAATGAAA
*
3733410 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
3733430 TTTTGAAAA
1 TTTTGAAAA
3733439 AAAGGATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:3734794 original size:21 final size:21
Alignment explanation
Indices: 3734765--3734864 Score: 89
Period size: 21 Copynumber: 4.7 Consensus size: 21
3734755 AGGGTGTCAA
*
3734765 AGTGTATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* *
3734786 AGTGCATCCATGCACTCCTTC
1 AGTGCATCCATGCACCCCTGC
3734807 AGTGCATCCATGCATCTGCCACT--
1 AGTGCATCCATGCA-C--CC-CTGC
* * *
3734830 AGTTCATCGATGCA-CCTTGC
1 AGTGCATCCATGCACCCCTGC
3734850 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
3734865 TCCATTTCGA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.02
19 2 0.03
20 12 0.19
21 32 0.51
22 1 0.02
23 12 0.19
24 1 0.02
25 2 0.03
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:3736728 original size:198 final size:199
Alignment explanation
Indices: 3736223--3737419 Score: 1622
Period size: 198 Copynumber: 6.1 Consensus size: 199
3736213 TACCCCGTTG
* * * *
3736223 GGCATTCTTTCTGGTCAAAACGTATCGTCACAAATTTAAAAAGTGTCT-ATACATTATGTAGACC
1 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGT-TGATACATTATGTAGACC
*
3736287 TATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTTCCTATTACATTATAATT
65 TATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATT
*
3736352 ATCGGTTTCGATGTTTTTGGGATCGATACAATTT-TAAATGTATCAACACTTTATGCGTGCACTC
130 ATCGGTTTCGATGTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTC
3736416 T-TTA
195 TGTTA
* ** * * *
3736420 GGCATTCATTCTGGACAAAACGTATCGACACAAATTCCACAAGTGTCGATACATAATGTAGACCT
1 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGACCT
*
3736485 ATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTA
66 ATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTA
* *
3736550 TCGATTTCGATGTTTTTGAGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACTCT
131 TCGGTTTCGATGTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTCT
*
3736614 TTTA
196 GTTA
* * *
3736618 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTTCACAAGTGTTGATACATGATGTAGACCT
1 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGACCT
*
3736683 ATTTTCTAATTAACCGATATATTTCTACCGGTTACATTATAAAGTTACCTATTACATTATAATTA
66 ATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTA
*
3736748 TCGGTTTCGATGTTTTTGGGATCGATACAATTT-GAAATGTATCGACACTTTATGCGTGCACTCT
131 TCGGTTTCGATGTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTCT
*
3736812 TTTA
196 GTTA
** * *
3736816 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCACAAGT-TTCGATACATGATGTAGACC
1 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTT-GATACATTATGTAGACC
* * *
3736880 TATTCTCTAATTAACCGGTATATTTCTACCGGTTACATTG----G-TACCTATTACATTATATTT
65 TATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATT
* ** *
3736940 ATTGGTTTCGATGTTTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCAC-C
130 ATCGGTTTCGATGTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTC
*
3737004 TCGTTG
195 T-GTTA
* * * *
3737010 GGCATTCATTCTGGTCAAAATGTATCGACGCAAATTTAAAAAGTGTCGATACATTATGTAGACCT
1 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGACCT
* * *
3737075 ATTTTCTAATTAACCGGTACATTTCTACCGGTTACATTG-AAAATTGACCTATTACATTATAATT
66 ATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTT-ACCTATTACATTATAATT
* ** *
3737139 ATC-TTATTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC-TTATTCGTGCACT
130 ATCGGT-TTCGATGTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCAC-
*
3737202 TCGGTT-
193 TCTGTTA
* * *
3737208 GGTCATTCATTATGGACAAAAAGTATCGACAC-AATTTAAAAAGTGTAGATATATTATGTAGACC
1 GG-CATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGACC
* * * * *
3737272 TATTTTCTAATTAACCGATACATATCTACCAGTTACATTGTAAATTTACTTATTACATTATAATT
65 TATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATT
* * * * *
3737337 ATC-TTATTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCAACACTTTATTCTTGCAC
130 ATCGGT-TTCGATGTTTTTGGGATCGATACAATTT-ATAAATGTATCGACACTTTATGCGTGCAC
* *
3737400 ATCGGTTG
193 -TCTGTTA
3737408 GGCATTCATTCT
1 GGCATTCATTCT
3737420 AGAGATTACT
Statistics
Matches: 916, Mismatches: 65, Indels: 36
0.90 0.06 0.04
Matches are distributed among these distances:
193 51 0.06
194 121 0.13
195 1 0.00
197 186 0.20
198 433 0.47
199 121 0.13
200 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (199 bp):
GGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGACCT
ATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTA
TCGGTTTCGATGTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTCT
GTTA
Found at i:3737127 original size:392 final size:390
Alignment explanation
Indices: 3736219--3737419 Score: 1657
Period size: 392 Copynumber: 3.0 Consensus size: 390
3736209 CATATACCCC
* * * *
3736219 GTTGGGCATTCTTTCTGGTCAAAACGTATCGTCACAAATTTAAAAAGTGTCTATACATTATGTAG
1 GTTGGGCATTCATTCTGGTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAG
* *
3736284 ACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTTCCTATTACATTATA
66 ACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTG-AAAATTACCTATTACATTATA
*
3736349 ATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAACACTTTATGCGTGCAC
130 ATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAC
*
3736414 TCTTTAGGCATTCATTCTGGACAAAACGTATCGACACAAATTCCACAAGTGTCGATACATAATGT
195 TCTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATAATGT
3736479 AGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTA
260 AGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTG---AG-TACCTATTACATTA
* * * *
3736544 TAATTATCGATTTCGATGTTTTTGAGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTG
321 TAATTATTG-TTTCGATGTTTTTGGGATCGATAC-TTTTATAAATGTATCGACACTTTATTCGTG
*
3736608 CA-CTCT
384 CACCTCG
* * * * * * *
3736614 TTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTCACAAGTGTTGATACATGATGTAG
1 GTTGGGCATTCATTCTGGTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAG
3736679 ACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATT-ATAAAGTTACCTATTACATTAT
66 ACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGA-AAA-TTACCTATTACATTAT
*
3736743 AATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTGAAATGTATCGACACTTTATGCGTGCA
129 AATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCA
* *
3736808 CTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCACAAGTTTCGATACATGAT
194 CTC-TTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATAAT
*
3736873 GTAGACCTATTCTCTAATTAACCGGTATATTTCTACCGGTTACATTG-GTACCTATTACATTATA
258 GTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGAGTACCTATTACATTATA
*
3736937 TTTATTGGTTTCGATGTTTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCA
323 ATTATT-GTTTCGATGTTTTTGGGATCGATAC-TTTTATAAATGTATCGACACTTTATTCGTGCA
3737002 CCTC-
386 CCTCG
* *
3737006 GTTGGGCATTCATTCTGGTCAAAATGTATCGACGCAAATTTAAAAAGTGTCGATACATTATGTAG
1 GTTGGGCATTCATTCTGGTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAG
* *
3737071 ACCTATTTTCTAATTAACCGGTACATTTCTACCGGTTACATTGAAAATTGACCTATTACATTATA
66 ACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGAAAATT-ACCTATTACATTATA
* ** *
3737136 ATTATC-TTATTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC-TTATTCGTGC
130 ATTATCGGT-TTCGATGTTTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGC
* * ** * * *
3737199 ACTTCGGTT-GGTCATTCATTATGGACAAAAAGTATCGACAC-AATTTAAAAAGTGTAGATATAT
193 AC-TC-TTTAGG-CATTCATTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACAT
* * * * * * *
3737262 TATGTAGACCTATTTTCTAATTAACCGATACATATCTACCAGTTACATTGTAAATTTACTTATTA
255 AATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTG---A-GTACCTATTA
*
3737327 CATTATAATTATCT-TATTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCAACACTTTA
316 CATTATAATTAT-TGT-TTCGATGTTTTTGGGATCGATACTTTT-ATAAATGTATCGACACTTTA
* *
3737391 TTCTTGCACATCG
378 TTCGTGCACCTCG
3737404 GTTGGGCATTCATTCT
1 GTTGGGCATTCATTCT
3737420 AGAGATTACT
Statistics
Matches: 723, Mismatches: 62, Indels: 39
0.88 0.08 0.05
Matches are distributed among these distances:
391 49 0.07
392 247 0.34
393 51 0.07
394 2 0.00
395 177 0.24
396 109 0.15
397 71 0.10
398 17 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (390 bp):
GTTGGGCATTCATTCTGGTCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAG
ACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGAAAATTACCTATTACATTATAA
TTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACT
CTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATAATGTA
GACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGAGTACCTATTACATTATAATT
ATTGTTTCGATGTTTTTGGGATCGATACTTTTATAAATGTATCGACACTTTATTCGTGCACCTCG
Found at i:3737165 original size:590 final size:591
Alignment explanation
Indices: 3736223--3737419 Score: 1685
Period size: 590 Copynumber: 2.0 Consensus size: 591
3736213 TACCCCGTTG
* * * * * * *
3736223 GGCATTCTTTCTGGTCAAAACGTATCGTCACAAATTTAAAAAGTGTCTATACATTATGTAGACCT
1 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATGATGTAGACCT
* *
3736288 ATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAAGTTTCCTATTACATTATAATTA
66 ATTCTCTAATTAACCGATATATTTCTACCGGTTACATTG---AGTTACCTATTACATTATAATTA
*
3736353 TCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAACACTTTATGCGTGCACTCTT
128 TCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAACACTTTATGCGTGCACTCGT
* *
3736418 TAGGCATTCATTCTGGACAAAACGTATCGACACAAATTCCACAAGTGTCGATACATAATGTAGAC
193 TAGGCATTCATTCTGGACAAAACGTATCGACACAAATTCAAAAAGTGTCGATACATAATGTAGAC
* *
3736483 CTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAAT
258 CTATTTTCTAATTAACCGGTACATTTCTACCGGTTACATTGTAAAATTACCTATTACATTATAAT
3736548 TATCGATTTCGATGTTTTTGAGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCAC-
323 TATCGATTTCGATGTTTTTGAGATCGATACAATTTATAAATGTATCGACAC-TTATGCGTGCACT
** * * * *
3736611 TCTTTTAGG-CATTCATTCTGGACAAAAAGTATCGACACAAATTTCACAAGTGTTGATACATGAT
387 TCGGTT-GGTCATTCATTATGGACAAAAAGTATCGACAC-AATTTAAAAAGTGTAGATACATGAT
* * *
3736675 GTAGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTATAAAGTTACCTATTACAT
450 GTAGACCTATTTTCTAATTAACCGATACATATCTACCAGTTACATTATAAAGTTACCTATTACAT
*
3736740 TATAATTATCGGT-TTCGATGTTTTTGGGATCGATACAATTT-GAAATGTATCGACACTTTATGC
515 TATAATTATC-GTATTCGATGTTTTTGGGATCGATAC-ATTTAGAAATGTATCAACACTTTATGC
**
3736803 GTGCAC-TCTTTTA
578 GTGCACATCGGTTA
* * *
3736816 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCACAAGTTTCGATACATGATGTAGACCT
1 GGCATTCATTCTGGACAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATGATGTAGACCT
* * *
3736881 ATTCTCTAATTAACCGGTATATTTCTACCGGTTACATTG-G-TACCTATTACATTATATTTATTG
66 ATTCTCTAATTAACCGATATATTTCTACCGGTTACATTGAGTTACCTATTACATTATAATTATCG
** * *
3736944 GTTTCGATGTTTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTT
131 GTTTCGATGTTTTTGGGATCGATACAATTT-TAAATGTATCAACACTTTATGCGTGCA-CTCGTT
* * * * * *
3737009 GGGCATTCATTCTGGTCAAAATGTATCGACGCAAATTTAAAAAGTGTCGATACATTATGTAGACC
194 AGGCATTCATTCTGGACAAAACGTATCGACACAAATTCAAAAAGTGTCGATACATAATGTAGACC
3737074 TATTTTCTAATTAACCGGTACATTTCTACCGGTTACATTG-AAAATTGACCTATTACATTATAAT
259 TATTTTCTAATTAACCGGTACATTTCTACCGGTTACATTGTAAAATT-ACCTATTACATTATAAT
* * ** *
3737138 TATC-TTATTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTATTCGTGCACT
323 TATCGAT-TTCGATGTTTTTGAGATCGATACAATTTATAAATGTATCGACACTTATGCGTGCACT
* *
3737202 TCGGTTGGTCATTCATTATGGACAAAAAGTATCGACACAATTTAAAAAGTGTAGATATATTATGT
387 TCGGTTGGTCATTCATTATGGACAAAAAGTATCGACACAATTTAAAAAGTGTAGATACATGATGT
* * *
3737267 AGACCTATTTTCTAATTAACCGATACATATCTACCAGTTACATTGTAAATTTACTTATTACATTA
452 AGACCTATTTTCTAATTAACCGATACATATCTACCAGTTACATTATAAAGTTACCTATTACATTA
* * * * *
3737332 TAATTATCTTATTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCAACACTTTATTCTTG
517 TAATTATCGTATTCGATGTTTTTGGGATCGATACATTT-AGAAATGTATCAACACTTTATGCGTG
*
3737397 CACATCGGTTG
581 CACATCGGTTA
3737408 GGCATTCATTCT
1 GGCATTCATTCT
3737420 AGAGATTACT
Statistics
Matches: 535, Mismatches: 58, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
588 48 0.09
589 36 0.07
590 272 0.51
591 71 0.13
592 16 0.03
593 92 0.17
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (591 bp):
GGCATTCATTCTGGACAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATGATGTAGACCT
ATTCTCTAATTAACCGATATATTTCTACCGGTTACATTGAGTTACCTATTACATTATAATTATCG
GTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAACACTTTATGCGTGCACTCGTTAG
GCATTCATTCTGGACAAAACGTATCGACACAAATTCAAAAAGTGTCGATACATAATGTAGACCTA
TTTTCTAATTAACCGGTACATTTCTACCGGTTACATTGTAAAATTACCTATTACATTATAATTAT
CGATTTCGATGTTTTTGAGATCGATACAATTTATAAATGTATCGACACTTATGCGTGCACTTCGG
TTGGTCATTCATTATGGACAAAAAGTATCGACACAATTTAAAAAGTGTAGATACATGATGTAGAC
CTATTTTCTAATTAACCGATACATATCTACCAGTTACATTATAAAGTTACCTATTACATTATAAT
TATCGTATTCGATGTTTTTGGGATCGATACATTTAGAAATGTATCAACACTTTATGCGTGCACAT
CGGTTA
Found at i:3738504 original size:19 final size:19
Alignment explanation
Indices: 3738480--3738528 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3738470 TTACATTCAC
3738480 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
3738499 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
3738518 ATACAAAATTA
1 ATACAAAATTA
3738529 ACCATACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:3740321 original size:33 final size:33
Alignment explanation
Indices: 3740284--3740350 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
3740274 CCATCTTAAG
*
3740284 TTCACCCCTCAACATCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
3740317 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
3740350 T
1 T
3740351 CCATCTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:3740819 original size:22 final size:23
Alignment explanation
Indices: 3740791--3740846 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
3740781 AACCTGTATT
*
3740791 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
3740813 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
*
3740837 TATAAAAAAA
1 TATAATAAAA
3740847 CAAAAACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:3744206 original size:32 final size:31
Alignment explanation
Indices: 3744156--3744251 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 31
3744146 CTGTTATGTC
* * * *
3744156 ATAACTTTAGACACATAACATTTATCACATC
1 ATAATTTTAGACATATAACATATATCACATA
* * *
3744187 ATCATTTATATACATATAACATATGTCACATA
1 ATAATTT-TAGACATATAACATATATCACATA
** *
3744219 ATAATTTTAGACATATCGCATATGTCACATA
1 ATAATTTTAGACATATAACATATATCACATA
3744250 AT
1 AT
3744252 TACTTATGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 28 0.53
32 25 0.47
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (31 bp):
ATAATTTTAGACATATAACATATATCACATA
Found at i:3744759 original size:7 final size:7
Alignment explanation
Indices: 3744747--3744779 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
3744737 TTTATTCTGA
3744747 TTTTTAT
1 TTTTTAT
3744754 TTTTTAT
1 TTTTTAT
3744761 TTTTTAT
1 TTTTTAT
3744768 TTTTTAT
1 TTTTTAT
3744775 TTTTT
1 TTTTT
3744780 GATCGAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:3744965 original size:23 final size:23
Alignment explanation
Indices: 3744935--3744981 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
3744925 AGAGTCGTTC
3744935 TCCAAAACATAAAGACAATGCCA
1 TCCAAAACATAAAGACAATGCCA
*
3744958 TCCAAAACGTAAAGACAATGCCA
1 TCCAAAACATAAAGACAATGCCA
3744981 T
1 T
3744982 AGACTTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.15
Consensus pattern (23 bp):
TCCAAAACATAAAGACAATGCCA
Found at i:3745687 original size:46 final size:46
Alignment explanation
Indices: 3745610--3745929 Score: 340
Period size: 46 Copynumber: 6.9 Consensus size: 46
3745600 TATGACTACC
* *
3745610 CGGTAATTGGACATTACCATCATG-TAAGGATGCACCAACCTGTAATA
1 CGGTAATTGGA-ATTACCATC-CGCTAAGGATGCACCAGCCTGTAATA
* * * * *
3745657 CGATAATTGGGATTACCATCCGTTATGGATGCACCAACCTGTAATA
1 CGGTAATTGGAATTACCATCCGCTAAGGATGCACCAGCCTGTAATA
* *
3745703 CGGTAATAGGAATTACCATCCGCTAAGGATGCACCAGCCTGAAATA
1 CGGTAATTGGAATTACCATCCGCTAAGGATGCACCAGCCTGTAATA
* * * *
3745749 CGGTAATTGGAATTATCATCCGCTAAGGATGCACCGGCCTATCATA
1 CGGTAATTGGAATTACCATCCGCTAAGGATGCACCAGCCTGTAATA
* * * * *
3745795 CGGTAATT-GAGGTTAACGTCCACTAAGGATGCACTAGCCTGTAATA
1 CGGTAATTGGA-ATTACCATCCGCTAAGGATGCACCAGCCTGTAATA
* * ** *
3745841 TGGTAATTGGGATTACCATCCAATAAGGATGCACCATCCTGTAAGT-
1 CGGTAATTGGAATTACCATCCGCTAAGGATGCACCAGCCTGTAA-TA
* * * *
3745887 CGATAATTGGAATTACCATCCGATAAGAATGCATCAGCCTGTA
1 CGGTAATTGGAATTACCATCCGCTAAGGATGCACCAGCCTGTA
3745930 TTTCAATTAT
Statistics
Matches: 229, Mismatches: 40, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
45 3 0.01
46 215 0.94
47 11 0.05
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (46 bp):
CGGTAATTGGAATTACCATCCGCTAAGGATGCACCAGCCTGTAATA
Done.