Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 396 of 433
Found at i:122907450 original size:31 final size:31
Alignment explanation
Indices: 122907400--122907458 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
122907390 TAGAAGATTG
122907400 AAAGTAAAAGGACTAAAATTGAA-CAAATCGA
1 AAAGTAAAAGGACTAAAATT-AATCAAATCGA
* *
122907431 AAAGTAAAAGGATTGAAATTAATCAAAT
1 AAAGTAAAAGGACTAAAATTAATCAAAT
122907459 TAAAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.58, C:0.07, G:0.15, T:0.20
Consensus pattern (31 bp):
AAAGTAAAAGGACTAAAATTAATCAAATCGA
Found at i:122925402 original size:39 final size:39
Alignment explanation
Indices: 122925321--122925421 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
122925311 GCTCTGATGA
* * *
122925321 GCTTCAATTAGCCTTTGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
122925360 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
* ** *
122925399 GCTTTAGCTAGACTTCGGGCTTC
1 GCTTCAATTAGCCTTCGGGCTTC
122925422 AAATCACAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
Found at i:122928047 original size:8 final size:8
Alignment explanation
Indices: 122928034--122928074 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
122928024 ATTTAAGAAA
122928034 ATATTATT
1 ATATTATT
122928042 ATATTA-T
1 ATATTATT
122928049 -TA-TATT
1 ATATTATT
122928055 ATATTATT
1 ATATTATT
122928063 ATATTATT
1 ATATTATT
122928071 ATAT
1 ATAT
122928075 GATATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 2 0.07
6 3 0.10
7 3 0.10
8 22 0.73
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTATT
Found at i:122928056 original size:13 final size:13
Alignment explanation
Indices: 122928038--122928069 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
122928028 AAGAAAATAT
122928038 TATTATATTATTA
1 TATTATATTATTA
122928051 TATTATATTATTA
1 TATTATATTATTA
122928064 TATTAT
1 TATTAT
122928070 TATATGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:122928058 original size:21 final size:21
Alignment explanation
Indices: 122928034--122928081 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
122928024 ATTTAAGAAA
*
122928034 ATATTATTATATTATTATATT
1 ATATTATTATATTATTATATG
122928055 ATATTATTATATTATTATATG
1 ATATTATTATATTATTATATG
122928076 ATATTA
1 ATATTA
122928082 ATTAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATTATTATATTATTATATG
Found at i:122928079 original size:13 final size:12
Alignment explanation
Indices: 122928035--122928081 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
122928025 TTTAAGAAAA
122928035 TATTAT-TATAT
1 TATTATATATAT
122928046 TATTATAT-TA-
1 TATTATATATAT
122928056 TATTAT-TATAT
1 TATTATATATAT
122928067 TATTATATGATAT
1 TATTATAT-ATAT
122928080 TA
1 TA
122928082 ATTAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.03
10 8 0.26
11 14 0.45
12 2 0.06
13 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATATATAT
Found at i:122930361 original size:19 final size:20
Alignment explanation
Indices: 122930324--122930361 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
122930314 AGAAGGACAA
*
122930324 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
122930344 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
122930362 AAATGTTCGT
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:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:122934348 original size:2 final size:2
Alignment explanation
Indices: 122934341--122934373 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
122934331 GTGCTCAAAC
122934341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122934374 ATCCTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122945255 original size:26 final size:26
Alignment explanation
Indices: 122945219--122945328 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
122945209 CATGAAATTC
122945219 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
122945245 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
122945271 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
122945297 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
122945323 TTATCA
1 TTATCA
122945329 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:122951029 original size:26 final size:26
Alignment explanation
Indices: 122950993--122951102 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
122950983 CATGAAATTC
122950993 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
122951019 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
122951045 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
122951071 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
122951097 TTATCA
1 TTATCA
122951103 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:122951599 original size:12 final size:12
Alignment explanation
Indices: 122951539--122951605 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
122951529 ATAAATATAT
122951539 AATAAAATAAT-
1 AATAAAATAATA
* *
122951550 AATGAGAACAA-A
1 AAT-AAAATAATA
*
122951562 AACAAAATAA-A
1 AATAAAATAATA
*
122951573 AATGAAATAAATA
1 AATAAAAT-AATA
122951586 AATAAAATAATA
1 AATAAAATAATA
*
122951598 AAGAAAAT
1 AATAAAAT
122951606 TCTAATGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
11 15 0.35
12 20 0.47
13 8 0.19
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (12 bp):
AATAAAATAATA
Found at i:122951691 original size:3 final size:3
Alignment explanation
Indices: 122951683--122952034 Score: 342
Period size: 3 Copynumber: 117.7 Consensus size: 3
122951673 ATGGTTTAAA
* * * * *
122951683 AAT AAT AAT GAT AAT AAA AAT AAT AGT AAT AGT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
122951731 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
122951779 AAT AAT AGA- AAT CAT AAT AGT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
122951824 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT ACT AGT AA- AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** * *
122951869 GAT AAT AGT AAT AAA AAT AA- AA- AAT AGC AAT GAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
122951915 GAT AAT AAAT AAT AAT AGT AAGA AAT AAT AAT AAT AGAA AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AA-T AAT AAT AAT AAT A-AT AAT AAT AAT
* ** * *
122951963 AAT -AT ATT AAT AAT AAT AA- AAT CAGG AAT AAT AAT AAC AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
*
122952007 AAT -AT AAAT ACT AAT -AT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
122952035 GAAGAAGAAG
Statistics
Matches: 284, Mismatches: 51, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
2 15 0.05
3 255 0.90
4 14 0.05
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:122952039 original size:3 final size:3
Alignment explanation
Indices: 122952033--122952079 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
122952023 TAATAATAAT
122952033 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
122952080 ACAAAAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:122952895 original size:2 final size:2
Alignment explanation
Indices: 122952890--122952914 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
122952880 TCTTTTTTTA
122952890 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
122952915 AATAATCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122956478 original size:16 final size:15
Alignment explanation
Indices: 122956442--122956495 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
122956432 GAAAGATCAT
*
122956442 ATTTTCCATCTTTC-T
1 ATTTT-CATCTTTCAA
122956457 ATATTTCTATCATTTCAA
1 AT-TTTC-ATC-TTTCAA
122956475 ATTTTCATCTTTCAA
1 ATTTTCATCTTTCAA
122956490 ATTTTC
1 ATTTTC
122956496 TTTTCACTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 15 0.44
16 9 0.26
17 8 0.24
18 2 0.06
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTCATCTTTCAA
Found at i:122957609 original size:48 final size:47
Alignment explanation
Indices: 122957483--122957610 Score: 116
Period size: 47 Copynumber: 2.6 Consensus size: 47
122957473 CACGTTAGTA
* * * * *
122957483 TTTAATTATTTTTTAAAATTTAAAAAAATTCAAAAAATATAAAAATTATT
1 TTTAA-TATATTTT-AAATTTTAAAATATT-AAAAAATACAAAAAATATT
** *
122957533 TTTAA-A-ATTAAAAATCATTAAAATTATTAAAAAATACAAAAACATATT
1 TTTAATATATTTTAAAT-TTTAAAA-TATTAAAAAATACAAAAA-ATATT
122957581 TTTAATATATTTTAAATTTTAAAATATTAA
1 TTTAATATATTTTAAATTTTAAAATATTAA
122957611 TTAAATATTG
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
46 4 0.06
47 20 0.32
48 19 0.31
49 7 0.11
50 12 0.19
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (47 bp):
TTTAATATATTTTAAATTTTAAAATATTAAAAAATACAAAAAATATT
Found at i:122967235 original size:29 final size:29
Alignment explanation
Indices: 122967174--122967272 Score: 150
Period size: 28 Copynumber: 3.5 Consensus size: 29
122967164 ACAGTAAGTC
*
122967174 CGCACACTTAGTGCT-TA-ATATTCAAACC
1 CGCACACTTAGTGCTATACA-ATTCAAACT
122967202 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
*
122967231 TGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
122967259 CGCACACTTAGTGC
1 CGCACACTTAGTGC
122967273 CAATCTCATT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
28 33 0.50
29 32 0.48
30 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:122973091 original size:9 final size:9
Alignment explanation
Indices: 122973047--122973260 Score: 65
Period size: 9 Copynumber: 23.4 Consensus size: 9
122973037 ATAAATAGTA
*
122973047 AAAAATATT
1 AAAATTATT
122973056 AAAA-TATT
1 AAAATTATT
*
122973064 AAAATTGACAT
1 AAAATT-A-TT
*
122973075 AAATTTATT
1 AAAATTATT
122973084 AAAATTA-T
1 AAAATTATT
122973092 AAAAGCTTA-T
1 AAAA--TTATT
*
122973102 AAATATTATA
1 AAA-ATTATT
**
122973112 AAAATATAAA
1 AAAAT-TATT
*
122973122 AAAATCTACT
1 AAAAT-TATT
*
122973132 -AAATTATAA
1 AAAATTAT-T
122973141 AAAATTATT
1 AAAATTATT
*
122973150 -AAATTAAT
1 AAAATTATT
122973158 AAAATCTATTT
1 AAAAT-TA-TT
*
122973169 AAAATAATT
1 AAAATTATT
122973178 AAAA-TA--
1 AAAATTATT
122973184 AAAATGTATT
1 AAAAT-TATT
* *
122973194 AGAATTCTT
1 AAAATTATT
* *
122973203 AAAA-AAAT
1 AAAATTATT
*
122973211 AAATAATATT
1 AAA-ATTATT
122973221 AAAA-TATT
1 AAAATTATT
122973229 AAAATTGATAT
1 AAAATT-AT-T
*
122973240 AAACTTA-T
1 AAAATTATT
122973248 AAAACTTA-T
1 AAAA-TTATT
122973257 AAAA
1 AAAA
122973261 AAATTATACA
Statistics
Matches: 156, Mismatches: 26, Indels: 46
0.68 0.11 0.20
Matches are distributed among these distances:
6 4 0.03
8 41 0.26
9 48 0.31
10 44 0.28
11 19 0.12
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAATTATT
Found at i:122973170 original size:19 final size:18
Alignment explanation
Indices: 122973122--122973182 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
122973112 AAAATATAAA
* *
122973122 AAAATCTACTAAATTATAA
1 AAAATCTATTAAATTA-AT
122973141 AAAAT-TATTAAATTAAT
1 AAAATCTATTAAATTAAT
*
122973158 AAAATCTATTTAAAATAATT
1 AAAATCTA-TTAAATTAA-T
122973178 AAAAT
1 AAAAT
122973183 AAAAATGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.17
18 11 0.31
19 13 0.36
20 6 0.17
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATCTATTAAATTAAT
Found at i:122973838 original size:7 final size:7
Alignment explanation
Indices: 122973826--122973856 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
122973816 TTTTATATAT
122973826 TTTCATA
1 TTTCATA
122973833 TTTCATA
1 TTTCATA
122973840 TTTCATA
1 TTTCATA
*
122973847 TTTAATA
1 TTTCATA
122973854 TTT
1 TTT
122973857 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTCATA
Found at i:122979552 original size:19 final size:21
Alignment explanation
Indices: 122979515--122979565 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
122979505 ATTTTTTAAA
*
122979515 ATTTTAAAAAAATTCAAAAATT
1 ATTTT-AAAAAATTCAAAAAAT
122979537 ATTTTAAAAAA-T-AAAAAAT
1 ATTTTAAAAAATTCAAAAAAT
*
122979556 AATTTAAAAA
1 ATTTTAAAAA
122979566 GTATAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 15 0.56
20 1 0.04
21 6 0.22
22 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTTTAAAAAATTCAAAAAAT
Found at i:122979595 original size:14 final size:13
Alignment explanation
Indices: 122979548--122979602 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 13
122979538 TTTTAAAAAA
122979548 TAAAAAATAA-TT
1 TAAAAAATAATTT
122979560 TAAAAAGTATAATTT
1 TAAAAA--ATAATTT
122979575 TAAAAAAAATTAATTT
1 T--AAAAAA-TAATTT
122979591 TAAAAAATAATT
1 TAAAAAATAATT
122979603 AATTGCTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
12 6 0.16
13 5 0.14
14 10 0.27
15 4 0.11
16 7 0.19
17 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
TAAAAAATAATTT
Found at i:122979602 original size:17 final size:17
Alignment explanation
Indices: 122979533--122979606 Score: 75
Period size: 16 Copynumber: 4.5 Consensus size: 17
122979523 AAAATTCAAA
122979533 AATT-ATTTTAAAAAAT
1 AATTAATTTTAAAAAAT
** *
122979549 AAAAAATAATTTAAAAAGT
1 AATTAAT--TTTAAAAAAT
122979568 -A-TAATTTTAAAAAA-
1 AATTAATTTTAAAAAAT
122979582 AATTAATTTTAAAAAAT
1 AATTAATTTTAAAAAAT
122979599 AATTAATT
1 AATTAATT
122979607 GCTAACATGG
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
15 9 0.19
16 15 0.32
17 13 0.28
18 1 0.02
19 9 0.19
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
AATTAATTTTAAAAAAT
Found at i:122980486 original size:2 final size:2
Alignment explanation
Indices: 122980479--122980514 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
122980469 TCTTATTAGC
122980479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
122980515 TGATTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122980735 original size:15 final size:16
Alignment explanation
Indices: 122980710--122980743 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
122980700 AAAATATAAT
122980710 TTTATTATTTTAATAG
1 TTTATTATTTTAATAG
*
122980726 TTTA-TATTTTTATAG
1 TTTATTATTTTAATAG
122980741 TTT
1 TTT
122980744 TTAGAGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAG
Found at i:122980800 original size:28 final size:29
Alignment explanation
Indices: 122980742--122980800 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 29
122980732 TTTTTATAGT
* * **
122980742 TTTTAGAGGATTAAATTAAAATTTTTTTA
1 TTTTAGAGAATTAAAGTAAAATTTTACTA
*
122980771 TTTTAGA-AATTAAAGTACAATTTTACTA
1 TTTTAGAGAATTAAAGTAAAATTTTACTA
122980799 TT
1 TT
122980801 ACTAATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.49
Consensus pattern (29 bp):
TTTTAGAGAATTAAAGTAAAATTTTACTA
Found at i:122982363 original size:19 final size:17
Alignment explanation
Indices: 122982330--122982364 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
122982320 ATGCCAACAA
122982330 TATTTATTTAATATAAT
1 TATTTATTTAATATAAT
122982347 TATTGTATTTAAATATAA
1 TATT-TATTT-AATATAA
122982365 ATTAAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATTTATTTAATATAAT
Found at i:122982465 original size:23 final size:23
Alignment explanation
Indices: 122982435--122982481 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
122982425 ATCCACACTC
* *
122982435 GGATTATAAGTGTGGGTTTGAAT
1 GGATTATAAGTCTAGGTTTGAAT
122982458 GGATTATAAGTCTAGGTTTGAAT
1 GGATTATAAGTCTAGGTTTGAAT
122982481 G
1 G
122982482 TGTAGTGCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.02, G:0.32, T:0.38
Consensus pattern (23 bp):
GGATTATAAGTCTAGGTTTGAAT
Found at i:122982658 original size:2 final size:2
Alignment explanation
Indices: 122982651--122982678 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
122982641 CTATTTTGTT
122982651 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
122982679 AAGAATACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122990638 original size:51 final size:51
Alignment explanation
Indices: 122990503--122990638 Score: 159
Period size: 51 Copynumber: 2.7 Consensus size: 51
122990493 CTACAATCAA
* * *
122990503 ATCTCTAAGAATATAAAATCATATC-TTCTAAGATTACCTATCTTATCTAAG
1 ATCTCTAAGATTATAAAATCATATCTTTC-AAGATTACATATCATATCTAAG
* * ** *
122990554 ATATGTAATCTTATAAAATAATATCTTAT-AAGATTACATATCATATCTAAG
1 ATCTCTAAGATTATAAAATCATATCTT-TCAAGATTACATATCATATCTAAG
*
122990605 ATCTCCAAGATTATAAAATCATATCTTTCAAGAT
1 ATCTCTAAGATTATAAAATCATATCTTTCAAGAT
122990639 CATGTTTCCA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
50 1 0.01
51 65 0.96
52 1 0.01
53 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.38
Consensus pattern (51 bp):
ATCTCTAAGATTATAAAATCATATCTTTCAAGATTACATATCATATCTAAG
Found at i:122995813 original size:51 final size:51
Alignment explanation
Indices: 122995703--122995818 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
122995693 TCAAATCTAT
* * * * * **
122995703 AAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATATGT
1 AAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATATCC
** *
122995754 AATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATCTCC
1 AAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATATCC
122995805 AAGATTATAAAATA
1 AAGATTATAAAATA
122995819 TCTCTTTCAA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (51 bp):
AAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATATCC
Found at i:122996441 original size:38 final size:37
Alignment explanation
Indices: 122996370--122996443 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 37
122996360 AAAGTTATTT
*
122996370 TTTCTTGTTTTTATATTTTAAGTATGCTTTTATTTTTC
1 TTTCTTGTTTATATATTTTAAGTAT-CTTTTATTTTTC
122996408 TTTCTTAGTTTATATATTTTTAA-TAT-TTCTTATTTT
1 TTTCTT-GTTTATATA-TTTTAAGTATCTT-TTATTTT
122996444 GTTAGTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 2 0.06
38 13 0.41
39 11 0.34
40 6 0.19
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (37 bp):
TTTCTTGTTTATATATTTTAAGTATCTTTTATTTTTC
Found at i:123007298 original size:25 final size:25
Alignment explanation
Indices: 123007270--123007320 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
123007260 ATTTAATTTG
*
123007270 GATTGCCATGTAGGACATCCAAGTT
1 GATTGCCATGTAGAACATCCAAGTT
*
123007295 GATTGCCATTTAGAACATCCAAGTT
1 GATTGCCATGTAGAACATCCAAGTT
123007320 G
1 G
123007321 GCATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (25 bp):
GATTGCCATGTAGAACATCCAAGTT
Found at i:123008852 original size:15 final size:16
Alignment explanation
Indices: 123008832--123008867 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
123008822 TCTATTACAT
123008832 TTTTTACTCT-TTCAA
1 TTTTTACTCTCTTCAA
*
123008847 TTTTTACTCTCTTTAA
1 TTTTTACTCTCTTCAA
123008863 TTTTT
1 TTTTT
123008868 TCCCCTCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTACTCTCTTCAA
Found at i:123009642 original size:14 final size:14
Alignment explanation
Indices: 123009623--123009651 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
123009613 GCCAATGATA
123009623 CTTTCCTGTTGTCC
1 CTTTCCTGTTGTCC
123009637 CTTTCCTGTTGTCC
1 CTTTCCTGTTGTCC
123009651 C
1 C
123009652 CCGTCTCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.38, G:0.14, T:0.48
Consensus pattern (14 bp):
CTTTCCTGTTGTCC
Found at i:123009834 original size:19 final size:20
Alignment explanation
Indices: 123009802--123009839 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
123009792 AGATTCCTAG
*
123009802 CTTTCGAAATTTGT-AACTT
1 CTTTCGAAACTTGTCAACTT
*
123009821 CTTTCGAACCTTGTCAACT
1 CTTTCGAAACTTGTCAACT
123009840 ATAAACCATA
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:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (20 bp):
CTTTCGAAACTTGTCAACTT
Found at i:123010575 original size:15 final size:15
Alignment explanation
Indices: 123010557--123010585 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
123010547 ATATTTATAA
123010557 AATTATTATTATTAT
1 AATTATTATTATTAT
123010572 AATTATTATTATTA
1 AATTATTATTATTA
123010586 GATAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:123013121 original size:60 final size:59
Alignment explanation
Indices: 123012997--123013135 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 59
123012987 TCCAACTGCG
* *
123012997 CTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 CTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
* *
123013056 CTGATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTATGGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAATATATCTC-GACT--TGTATAGGGCTACGGCCCAGATTAATA
*
123013116 TTGATATGGGCTAAGGCCCA
1 CTGATATGGGCT-AGGCCCA
123013136 GTTAACTTTG
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
58 4 0.06
59 25 0.35
60 35 0.49
61 7 0.10
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (59 bp):
CTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:123013133 original size:28 final size:28
Alignment explanation
Indices: 123013035--123013140 Score: 85
Period size: 28 Copynumber: 3.7 Consensus size: 28
123013025 GACTTGTATA
* *
123013035 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
123013063 GGGCT-AGGCCCA-ATATACTCTGATACTG-TAT
1 GGGCTAAGGCCCAGAT-TA-----ATACTGATAT
* *
123013094 GGGGCTATGGCCCAGATTAATATTGATAT
1 -GGGCTAAGGCCCAGATTAATACTGATAT
123013123 GGGCTAAGGCCCAG-TTAA
1 GGGCTAAGGCCCAGATTAA
123013141 CTTTGATTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 21
0.71 0.06 0.24
Matches are distributed among these distances:
26 2 0.03
27 11 0.17
28 23 0.37
29 3 0.05
31 3 0.05
32 11 0.17
33 8 0.13
34 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATAT
Found at i:123027092 original size:30 final size:30
Alignment explanation
Indices: 123027058--123027115 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
123027048 CATGGCCATG
*
123027058 ACACACGGGCATGTGG-TCTACCTGTGTGTC
1 ACACACGGACATGTGGATC-ACCTGTGTGTC
*
123027088 ACACACGGACGTGTGGATCACCTGTGTG
1 ACACACGGACATGTGGATCACCTGTGTG
123027116 GAAGTCCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (30 bp):
ACACACGGACATGTGGATCACCTGTGTGTC
Found at i:123037003 original size:15 final size:16
Alignment explanation
Indices: 123036972--123037008 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
123036962 TTTGTACTTC
*
123036972 AACCCCTATGTATGTG
1 AACCCCTATGTAGGTG
123036988 AACCCC-ATGTAGGTG
1 AACCCCTATGTAGGTG
123037003 AACCCC
1 AACCCC
123037009 CCTGTGAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (16 bp):
AACCCCTATGTAGGTG
Found at i:123037025 original size:11 final size:11
Alignment explanation
Indices: 123037000--123037146 Score: 55
Period size: 11 Copynumber: 12.9 Consensus size: 11
123036990 CCCCATGTAG
*
123037000 GTGAACCCCCCT
1 GTGAA-CCCCTT
123037012 GTGAACCCCTT
1 GTGAACCCCTT
*
123037023 GTGAATCCCTT
1 GTGAACCCCTT
* *
123037034 GCGAACTCCCAT
1 GTGAAC-CCCTT
*
123037046 GCGAACCCCTT
1 GTGAACCCCTT
** *
123037057 ACGATCCCCTAT
1 GTGAACCCCT-T
* *
123037069 GCGAACCCTTT
1 GTGAACCCCTT
*
123037080 GCGAA-CCCTT
1 GTGAACCCCTT
* *
123037090 ATACGAACCCCCAT
1 GT--GAA-CCCCTT
*
123037104 GTGAA-CCCAT
1 GTGAACCCCTT
* *
123037114 GTGAACATCCAT
1 GTGAAC-CCCTT
* *
123037126 GCGAACCCCTG
1 GTGAACCCCTT
123037137 GTGAACCCCT
1 GTGAACCCCT
123037147 CCTTGAACCA
Statistics
Matches: 105, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
10 14 0.13
11 48 0.46
12 38 0.36
14 5 0.05
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.21
Consensus pattern (11 bp):
GTGAACCCCTT
Found at i:123037055 original size:23 final size:23
Alignment explanation
Indices: 123037014--123037100 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
123037004 ACCCCCCTGT
* *
123037014 GAACCCCT-TGTGAATCCCTTGC
1 GAACCCCTATGCGAACCCCTTGC
*
123037036 GAACTCCC-ATGCGAACCCCTTAC
1 GAAC-CCCTATGCGAACCCCTTGC
* *
123037059 GATCCCCTATGCGAACCCTTTGC
1 GAACCCCTATGCGAACCCCTTGC
* *
123037082 GAACCCTTATACGAACCCC
1 GAACCCCTATGCGAACCCC
123037101 CATGTGAACC
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
22 7 0.13
23 45 0.87
ACGTcount: A:0.23, C:0.40, G:0.15, T:0.22
Consensus pattern (23 bp):
GAACCCCTATGCGAACCCCTTGC
Found at i:123037125 original size:22 final size:23
Alignment explanation
Indices: 123037100--123037142 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
123037090 ATACGAACCC
*
123037100 CCATGTGAACCCAT-GTGAACAT
1 CCATGCGAACCCATGGTGAACAT
*
123037122 CCATGCGAACCCCTGGTGAAC
1 CCATGCGAACCCATGGTGAAC
123037143 CCCTCCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.19
Consensus pattern (23 bp):
CCATGCGAACCCATGGTGAACAT
Found at i:123040705 original size:16 final size:16
Alignment explanation
Indices: 123040681--123040711 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
123040671 TGTTAAGATT
*
123040681 TATGTAAATTTTTTAA
1 TATGCAAATTTTTTAA
123040697 TATGCAAATTTTTTA
1 TATGCAAATTTTTTA
123040712 TCAAATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (16 bp):
TATGCAAATTTTTTAA
Found at i:123042440 original size:21 final size:20
Alignment explanation
Indices: 123042416--123042469 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
123042406 AATAAAGTTT
* *
123042416 AAATTTATTAAATTTAAAATA
1 AAATTTAATAAAATT-AAATA
* *
123042437 AAATTAAATAAAATTAAATC
1 AAATTTAATAAAATTAAATA
123042457 AAATTTAAATAAA
1 AAATTT-AATAAA
123042470 TTATTTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTTAATAAAATTAAATA
Found at i:123042470 original size:10 final size:10
Alignment explanation
Indices: 123042415--123042471 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
123042405 CAATAAAGTT
*
123042415 TAAATTT-AT
1 TAAATTTAAA
123042424 TAAATTTAAAA
1 TAAATTT-AAA
*
123042435 TAAAATTAAA
1 TAAATTTAAA
*
123042445 TAAAATTAAA
1 TAAATTTAAA
123042455 TCAAATTTAAA
1 T-AAATTTAAA
123042466 TAAATT
1 TAAATT
123042472 ATTTAATTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
9 7 0.17
10 19 0.45
11 16 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:123044576 original size:19 final size:19
Alignment explanation
Indices: 123044552--123044597 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
123044542 ATGTAGGAGG
*
123044552 TCGTGTGAGGGGTCTTAGA
1 TCGTGTGAGGGGTCCTAGA
*
123044571 TCGTGTGAGGGGTCCTAGG
1 TCGTGTGAGGGGTCCTAGA
123044590 TCGTGTGA
1 TCGTGTGA
123044598 AAGTAGAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.43, T:0.30
Consensus pattern (19 bp):
TCGTGTGAGGGGTCCTAGA
Found at i:123047636 original size:28 final size:32
Alignment explanation
Indices: 123047576--123047636 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 32
123047566 CAAATTTAAA
*
123047576 TATTTAAATTAAATCTTATTTTTTTCTAATAT
1 TATTTAAATTAAATCTTAGTTTTTTCTAATAT
123047608 TATTTAAA-T-AAT-TTAGTTTTTT-TAATAT
1 TATTTAAATTAAATCTTAGTTTTTTCTAATAT
123047636 T
1 T
123047637 CAAAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 7 0.25
29 9 0.32
30 3 0.11
31 1 0.04
32 8 0.29
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (32 bp):
TATTTAAATTAAATCTTAGTTTTTTCTAATAT
Found at i:123048658 original size:14 final size:14
Alignment explanation
Indices: 123048639--123048689 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
123048629 GTTTGCCAGT
*
123048639 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
123048653 AAAATGATTTCTGG
1 AAAATGATTTCCGG
* *
123048667 AAAATGATTTACTG
1 AAAATGATTTCCGG
123048681 AAAAT-ATTT
1 AAAATGATTT
123048690 TCTGGTGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 4 0.12
14 28 0.88
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:123053106 original size:137 final size:137
Alignment explanation
Indices: 123052860--123053147 Score: 540
Period size: 137 Copynumber: 2.1 Consensus size: 137
123052850 CTATTGGGCC
**
123052860 TAAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
1 TAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
123052925 TAACCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
66 TAACCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
123052990 ACATATG
131 ACATATG
123052997 TAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
1 TAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
*
123053062 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
66 TAACCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
123053127 ACATATG
131 ACATATG
*
123053134 CAAGCCCATTTGGG
1 TAAGCCCATTTGGG
123053148 GAGACTACTC
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
TAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
TAACCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
ACATATG
Found at i:123053432 original size:25 final size:27
Alignment explanation
Indices: 123053395--123053448 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
123053385 TCAAACATGC
123053395 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
123053421 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
123053447 AT
1 AT
123053449 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:123053456 original size:26 final size:27
Alignment explanation
Indices: 123053412--123053487 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
123053402 TCAATTTAAC
* * *
123053412 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
123053438 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
123053466 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
123053488 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:123054970 original size:26 final size:26
Alignment explanation
Indices: 123054934--123055069 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
123054924 CATGAAATTC
*
123054934 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
123054960 TTATCATGAAAGATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
123054986 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
123055012 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
123055038 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
123055064 TTATCA
1 TTATCA
123055070 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:123055981 original size:16 final size:16
Alignment explanation
Indices: 123055937--123056048 Score: 84
Period size: 16 Copynumber: 6.9 Consensus size: 16
123055927 TGCATATTTT
123055937 CACAGCTCACACATTA
1 CACAGCTCACACATTA
* **
123055953 CATAGCTTGCACATTA
1 CACAGCTCACACATTA
*
123055969 CACAACTCACACATTA
1 CACAGCTCACACATTA
***
123055985 TTGTAGCTCACACATTA
1 -CACAGCTCACACATTA
*
123056002 CACAGCACACACA-T-
1 CACAGCTCACACATTA
* *
123056016 CACTATGACTCGCAAATTA
1 CAC-A-G-CTCACACATTA
123056035 CACAGCTCACACAT
1 CACAGCTCACACAT
123056049 CAATACGACT
Statistics
Matches: 70, Mismatches: 20, Indels: 12
0.69 0.20 0.12
Matches are distributed among these distances:
14 3 0.04
15 2 0.03
16 42 0.60
17 18 0.26
18 2 0.03
19 3 0.04
ACGTcount: A:0.37, C:0.33, G:0.08, T:0.22
Consensus pattern (16 bp):
CACAGCTCACACATTA
Found at i:123056049 original size:33 final size:34
Alignment explanation
Indices: 123055937--123056066 Score: 128
Period size: 33 Copynumber: 4.0 Consensus size: 34
123055927 TGCATATTTT
* *
123055937 CACAGCTCACACATTAC-AT-AGCTTGCACATTA
1 CACAGCTCACACATCACTATGAGCTCGCACATTA
* * *
123055969 CACAACTCACACATTA-T-TGTAGCTCACACATTA
1 CACAGCTCACACATCACTATG-AGCTCGCACATTA
* *
123056002 CACAGCACACACATCACTATGA-CTCGCAAATTA
1 CACAGCTCACACATCACTATGAGCTCGCACATTA
* *
123056035 CACAGCTCACACATCAATACGA-CTCGCACATT
1 CACAGCTCACACATCACTATGAGCTCGCACATT
123056067 GATATATACA
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
31 1 0.01
32 15 0.19
33 61 0.75
34 2 0.02
35 2 0.02
ACGTcount: A:0.36, C:0.33, G:0.08, T:0.22
Consensus pattern (34 bp):
CACAGCTCACACATCACTATGAGCTCGCACATTA
Found at i:123059246 original size:46 final size:46
Alignment explanation
Indices: 123059193--123059365 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
123059183 TAACCCGCCC
**
123059193 ATAAGTGAACTCGGACTCAACTCAATAAGCTCGGGTGTTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCT
* * *
123059239 ATAAGTGAACTTGGACTCAAATCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G--T-GTTCGCATCT
* * *
123059289 -CAA--GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCT
* * * *
123059332 ATAAGTGAACTTGGAATCAACTTAACGAGTTCGG
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
123059366 AACTCAAATA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 1 0.01
46 54 0.53
47 26 0.25
48 1 0.01
49 2 0.02
50 6 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCT
Found at i:123065081 original size:22 final size:22
Alignment explanation
Indices: 123065056--123065100 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
123065046 GGAGGGAGTA
123065056 AGCATAAATGCTTACTAAGTTC
1 AGCATAAATGCTTACTAAGTTC
123065078 AGCATAAATGCTTACTAAGTTC
1 AGCATAAATGCTTACTAAGTTC
123065100 A
1 A
123065101 CATGTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (22 bp):
AGCATAAATGCTTACTAAGTTC
Found at i:123065522 original size:46 final size:47
Alignment explanation
Indices: 123065452--123065579 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 47
123065442 TGTAACCCGC
* *
123065452 CCATAAGTGAACTCAGACTTAACTCAACGAGCTCGGGA-GTTCCCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGACGTTCCCAT
* *
123065498 CCATAAGTGAACTCGGACTCAACTCAACAAGCTC-GGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGACGTTCCCAT
*
123065544 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
123065580 AACTCAAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 3 0.04
46 70 0.95
47 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGACGTTCCCAT
Found at i:123071980 original size:13 final size:13
Alignment explanation
Indices: 123071962--123071988 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
123071952 CTAAGGTTGC
123071962 ACTATGGTAAGTG
1 ACTATGGTAAGTG
123071975 ACTATGGTAAGTG
1 ACTATGGTAAGTG
123071988 A
1 A
123071989 ATTTAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (13 bp):
ACTATGGTAAGTG
Found at i:123073673 original size:17 final size:17
Alignment explanation
Indices: 123073651--123073683 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
123073641 CTAATATAGG
123073651 GCTTAACAAAACTATCA
1 GCTTAACAAAACTATCA
123073668 GCTTAACAAAACTATC
1 GCTTAACAAAACTATC
123073684 TGACCCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (17 bp):
GCTTAACAAAACTATCA
Found at i:123082971 original size:3 final size:3
Alignment explanation
Indices: 123082963--123082992 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
123082953 TATATATAAA
123082963 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
123082993 TTAAGAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:123086169 original size:20 final size:20
Alignment explanation
Indices: 123086144--123086194 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
123086134 TCACTTCTCC
123086144 CACGCCCGTGTGATATCCCA
1 CACGCCCGTGTGATATCCCA
*
123086164 CACGCCCGTTTGATATCCCA
1 CACGCCCGTGTGATATCCCA
123086184 CACGCCCGTGT
1 CACGCCCGTGT
123086195 ATACGAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.41, G:0.20, T:0.22
Consensus pattern (20 bp):
CACGCCCGTGTGATATCCCA
Found at i:123093511 original size:27 final size:27
Alignment explanation
Indices: 123093473--123093528 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
123093463 TCGATAATTG
123093473 ATCGCGAGGTTTCATGATAGGTTTTAA
1 ATCGCGAGGTTTCATGATAGGTTTTAA
*
123093500 ATCGCGAGGTTTCGTGATAGGTTTTAA
1 ATCGCGAGGTTTCATGATAGGTTTTAA
123093527 AT
1 AT
123093529 ATTTATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.38
Consensus pattern (27 bp):
ATCGCGAGGTTTCATGATAGGTTTTAA
Found at i:123121477 original size:21 final size:21
Alignment explanation
Indices: 123121448--123121498 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
123121438 GTAACTATAT
*
123121448 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
123121469 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
123121490 TAGTCAGTT
1 TAGTCAGTT
123121499 GCTAATCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
TAGTCAGTTAGTATTTTGTTA
Found at i:123127851 original size:35 final size:35
Alignment explanation
Indices: 123127805--123127875 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
123127795 GTAAAATTTT
123127805 CAATATGCTAAAAAGTAAATTATATTTCACACTAA
1 CAATATGCTAAAAAGTAAATTATATTTCACACTAA
123127840 CAATATGCTAAAAAGTAAATTATATTTCACACTAA
1 CAATATGCTAAAAAGTAAATTATATTTCACACTAA
123127875 C
1 C
123127876 TTTCTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (35 bp):
CAATATGCTAAAAAGTAAATTATATTTCACACTAA
Found at i:123133161 original size:25 final size:25
Alignment explanation
Indices: 123133131--123133188 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
123133121 ATCAAATTAG
*
123133131 AATGACATGTCACTTTCAGAATCAA
1 AATGACATGTCACTTTCAAAATCAA
* *
123133156 AATGACATTTCATTTTCAAAATCAA
1 AATGACATGTCACTTTCAAAATCAA
*
123133181 AATAACAT
1 AATGACAT
123133189 ATCCATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (25 bp):
AATGACATGTCACTTTCAAAATCAA
Found at i:123136370 original size:40 final size:40
Alignment explanation
Indices: 123136315--123136518 Score: 196
Period size: 40 Copynumber: 5.1 Consensus size: 40
123136305 TGAATGATAC
* * * *
123136315 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* *
123136355 CCGGGCTAAGACCCGAAGG-TATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* ** *
123136395 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* * ** *
123136435 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* * ** *
123136475 TCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
123136515 CCGG
1 CCGG
123136519 TTGAATCCCG
Statistics
Matches: 139, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 131 0.94
41 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
Found at i:123136517 original size:80 final size:80
Alignment explanation
Indices: 123136315--123136518 Score: 221
Period size: 80 Copynumber: 2.5 Consensus size: 80
123136305 TGAATGATAC
* * * *
123136315 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGTATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGAATTCG
* *** *
123136380 TGCGAGTTGTTATAT
66 TGCAAGTTACCAAAT
* * ** * *
123136395 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGG-AATTC
123136459 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* * * *
123136475 TCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGG
123136519 TTGAATCCCG
Statistics
Matches: 99, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
80 96 0.97
81 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGAATTCG
TGCAAGTTACCAAAT
Found at i:123144413 original size:40 final size:40
Alignment explanation
Indices: 123144358--123144561 Score: 223
Period size: 40 Copynumber: 5.1 Consensus size: 40
123144348 TGAATGATAC
* * * *
123144358 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
*
123144398 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* ** *
123144438 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* * * *
123144478 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* ** *
123144518 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
123144558 CCGG
1 CCGG
123144562 TTGAATCCCG
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 135 0.94
41 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
Found at i:123144560 original size:80 final size:80
Alignment explanation
Indices: 123144358--123144561 Score: 248
Period size: 80 Copynumber: 2.5 Consensus size: 80
123144348 TGAATGATAC
* * *
123144358 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
* ** *
123144423 TGCGAGTTGTTATAT
66 TGCAAGTTACTAAAT
* * ** * *
123144438 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
123144502 GTGCAAGTTACTAAAT
65 GTGCAAGTTACTAAAT
* * *
123144518 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGG
123144562 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
80 99 0.97
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACTAAAT
Found at i:123152932 original size:20 final size:20
Alignment explanation
Indices: 123152895--123152932 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
123152885 TGATGAGGAG
*
123152895 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
123152915 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
123152933 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:123154883 original size:46 final size:46
Alignment explanation
Indices: 123154831--123155058 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
123154821 AGTGTGCTCT
*
123154831 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
123154877 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
123154923 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
123154969 GTGATATGAAATGAACAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
123155015 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
123155059 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:123158862 original size:21 final size:19
Alignment explanation
Indices: 123158820--123158864 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
123158810 TTTCTTTAAA
**
123158820 AATAATAAAAATTTAATTT
1 AATAATAAAAATTTAAAAT
123158839 AATAATTAAAAATTTCAAAAT
1 AATAA-TAAAAATTT-AAAAT
123158860 AATAA
1 AATAA
123158865 ATTTACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 9 0.41
21 8 0.36
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAATAAAAATTTAAAAT
Found at i:123161560 original size:19 final size:19
Alignment explanation
Indices: 123161536--123161573 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
123161526 GAAATGAATA
*
123161536 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
123161555 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
123161574 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:123161888 original size:2 final size:2
Alignment explanation
Indices: 123161841--123161870 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
123161831 GTAGCTAAAT
123161841 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
123161871 CATAAACAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123162496 original size:19 final size:20
Alignment explanation
Indices: 123162463--123162502 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
123162453 ATATATATAT
123162463 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
123162482 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
123162502 A
1 A
123162503 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:123164912 original size:22 final size:23
Alignment explanation
Indices: 123164882--123164926 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
123164872 TACAATATTC
123164882 AAACTATAACAACAAAATAGTAG
1 AAACTATAACAACAAAATAGTAG
* **
123164905 AAAC-ATAATAGTAAAATAGTAG
1 AAACTATAACAACAAAATAGTAG
123164927 TAAAATAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (23 bp):
AAACTATAACAACAAAATAGTAG
Found at i:123164929 original size:11 final size:11
Alignment explanation
Indices: 123164895--123164934 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
123164885 CTATAACAAC
123164895 AAAATAGTAG-
1 AAAATAGTAGT
*
123164905 AAACATAATAGT
1 AAA-ATAGTAGT
123164917 AAAATAGTAGT
1 AAAATAGTAGT
123164928 AAAATAG
1 AAAATAG
123164935 AGAGAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 3 0.12
11 20 0.77
12 3 0.12
ACGTcount: A:0.60, C:0.03, G:0.15, T:0.23
Consensus pattern (11 bp):
AAAATAGTAGT
Found at i:123164942 original size:22 final size:22
Alignment explanation
Indices: 123164895--123164942 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
123164885 CTATAACAAC
*
123164895 AAAATAGTAGAAACATAATAGT
1 AAAATAGTAGAAACATAAGAGT
123164917 AAAATAGTAGTAAA-ATAGAGAG-
1 AAAATAGTAG-AAACATA-AGAGT
123164939 AAAA
1 AAAA
123164943 CAACAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.17, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGAAACATAAGAGT
Found at i:123165371 original size:24 final size:23
Alignment explanation
Indices: 123165339--123165389 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
123165329 TTATTTGAGT
123165339 ATTAAAAAT-TATAAACTTTTAAAA
1 ATTAAAAATGT-TAAA-TTTTAAAA
* *
123165363 ATTATAAATGTTAAATTTTAAAT
1 ATTAAAAATGTTAAATTTTAAAA
123165386 ATTA
1 ATTA
123165390 GGTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
24 12 0.50
25 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTAAAAATGTTAAATTTTAAAA
Found at i:123166324 original size:6 final size:6
Alignment explanation
Indices: 123166313--123166338 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
123166303 ATTTTATTCG
123166313 ATTAAT ATTAAT ATTAAT ATTAAT AT
1 ATTAAT ATTAAT ATTAAT ATTAAT AT
123166339 AGAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTAAT
Found at i:123167138 original size:15 final size:15
Alignment explanation
Indices: 123167106--123167144 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
123167096 CGTAAATTAC
**
123167106 TAAAATAT-AATATT
1 TAAAATATAAATAGA
123167120 TAAAATATAAATAGA
1 TAAAATATAAATAGA
123167135 TAAAATATAA
1 TAAAATATAA
123167145 TTTAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TAAAATATAAATAGA
Found at i:123171798 original size:22 final size:22
Alignment explanation
Indices: 123171758--123171813 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
123171748 AATAAAATTG
*
123171758 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
123171778 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
123171800 TATTAATAATTTAT
1 AAATAATAAATTAT
123171814 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:123172453 original size:19 final size:19
Alignment explanation
Indices: 123172431--123172471 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
123172421 AATTTAGGTA
* *
123172431 TAGCATGTAAATTTGATTC
1 TAGCATATAAATATGATTC
123172450 TAGCATATAAATATGATTC
1 TAGCATATAAATATGATTC
123172469 TAG
1 TAG
123172472 TATGATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (19 bp):
TAGCATATAAATATGATTC
Found at i:123173181 original size:41 final size:41
Alignment explanation
Indices: 123173130--123173348 Score: 269
Period size: 41 Copynumber: 5.3 Consensus size: 41
123173120 TGTAAAACAC
* * * *
123173130 AAACGCCGCTAAAAAATAGAGCAATAGCGGCGCTTTCGGTA
1 AAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTCAGTA
* *
123173171 AAACACCGCTAAAAACTAGAGAATTAGCGGCGTTTTCAGTA
1 AAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTCAGTA
* * * * *
123173212 AAATGCCGCTAAAAACTAGAGCATTAGCGGTGCTTTCGGTC
1 AAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTCAGTA
* * *
123173253 AAACGCCGCT-AAAACCAGAGCATTAGCGACGTTTTCAGCA
1 AAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTCAGTA
* * *
123173293 AAACGCCACTAAAAACCAGAGCATTAGCGTCGATTTTCAGTA
1 AAACGCCGCTAAAAACTAGAGCATTAGCGGCG-TTTTCAGTA
123173335 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
123173349 GTCATATAAC
Statistics
Matches: 151, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 32 0.21
41 98 0.65
42 21 0.14
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (41 bp):
AAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTCAGTA
Found at i:123174079 original size:12 final size:12
Alignment explanation
Indices: 123174062--123174086 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123174052 GTTGCAACTC
123174062 TTTTTTTGTTTT
1 TTTTTTTGTTTT
123174074 TTTTTTTGTTTT
1 TTTTTTTGTTTT
123174086 T
1 T
123174087 AAATAAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:123174591 original size:14 final size:14
Alignment explanation
Indices: 123174590--123174618 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
123174580 AATAAAAATT
123174590 TAAAAATTTAAAAA
1 TAAAAATTTAAAAA
123174604 TAAAAATTTAAAAA
1 TAAAAATTTAAAAA
123174618 T
1 T
123174619 TTAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAATTTAAAAA
Found at i:123174595 original size:8 final size:8
Alignment explanation
Indices: 123174572--123174622 Score: 74
Period size: 8 Copynumber: 6.9 Consensus size: 8
123174562 GTTTTCATTT
123174572 AATTTAAA
1 AATTTAAA
123174580 AA--TAAA
1 AATTTAAA
123174586 AATTTAAA
1 AATTTAAA
123174594 AATTTAAA
1 AATTTAAA
123174602 AA--TAAA
1 AATTTAAA
123174608 AATTTAAA
1 AATTTAAA
123174616 AATTTAA
1 AATTTAA
123174623 TATTTAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 12 0.31
8 27 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:123174599 original size:22 final size:22
Alignment explanation
Indices: 123174572--123174622 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
123174562 GTTTTCATTT
123174572 AATTTAAAAATAAAAATTTAAA
1 AATTTAAAAATAAAAATTTAAA
123174594 AATTTAAAAATAAAAATTTAAA
1 AATTTAAAAATAAAAATTTAAA
123174616 AATTTAA
1 AATTTAA
123174623 TATTTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTTAAAAATAAAAATTTAAA
Found at i:123176607 original size:44 final size:45
Alignment explanation
Indices: 123176517--123176645 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
123176507 GACAGAACGA
*
123176517 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
123176563 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
123176607 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
123176646 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:123179834 original size:12 final size:11
Alignment explanation
Indices: 123179809--123179874 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
123179799 TTCATTTAAT
* *
123179809 TTAATATGTAA
1 TTAATATTTTA
123179820 TTACATATTTTA
1 TTA-ATATTTTA
*
123179832 TTAATTTTTTA
1 TTAATATTTTA
*
123179843 TGAAT-TTTTA
1 TTAATATTTTA
*
123179853 TTAAATATTATA
1 TT-AATATTTTA
*
123179865 TTATTATTTT
1 TTAATATTTT
123179875 TATATAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 6 0.14
11 23 0.52
12 15 0.34
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (11 bp):
TTAATATTTTA
Found at i:123180729 original size:23 final size:23
Alignment explanation
Indices: 123180699--123180914 Score: 167
Period size: 23 Copynumber: 9.4 Consensus size: 23
123180689 TGGTTGTTGT
123180699 TGTTTAAATGCTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
**
123180722 TGTTTAAATGCTATAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* * *
123180745 CGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* *
123180768 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
** *
123180791 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGCAAATTGAAG
*
123180813 ATGTTT-TAT-C-GCTATAATTG-AG
1 -TGTTTAAATGCTGC-A-AATTGAAG
* * **
123180835 TTGTATAAATGTTGTTAATTG-AG
1 -TGTTTAAATGCTGCAAATTGAAG
*
123180858 ATG-TTAAAGTGCTGCAAAATGAAG
1 -TGTTTAAA-TGCTGCAAATTGAAG
*
123180882 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
*
123180905 TGCTTAAATG
1 TGTTTAAATG
123180915 TTATACAAGA
Statistics
Matches: 152, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.01
21 2 0.01
22 18 0.12
23 123 0.81
24 7 0.05
25 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
TGTTTAAATGCTGCAAATTGAAG
Found at i:123180752 original size:46 final size:46
Alignment explanation
Indices: 123180699--123180919 Score: 184
Period size: 46 Copynumber: 4.8 Consensus size: 46
123180689 TGGTTGTTGT
*
123180699 TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTATAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTATAAATTGAAG
* * * * **
123180745 CGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTATAAATTGAAG
** * *
123180791 TGTTTAGTTGCTGGAAATTG-AGATGTTT-TATCGCTAT-AATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG-TGTTTAAAT-GCTATAAATTGAAG
* * * ** *
123180835 TTGTATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAAATGAAG
1 -TGTTTAAATGCTGTAAATTGAAG-TGTTTAAA-TGCTATAAATTGAAG
* *
123180882 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTATA
1 TGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTATA
123180920 CAAGATATTA
Statistics
Matches: 133, Mismatches: 33, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
44 4 0.03
45 31 0.23
46 89 0.67
47 9 0.07
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (46 bp):
TGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTATAAATTGAAG
Found at i:123181882 original size:23 final size:23
Alignment explanation
Indices: 123181852--123183152 Score: 827
Period size: 23 Copynumber: 56.8 Consensus size: 23
123181842 TAAATGTTGC
*
123181852 AAATTGAAGTGTTTAAGTACTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123181875 AAATTGAAGTGTTTAATTGCTGG
1 AAATTGAAGTGTTTAAGTGCTGT
*
123181898 AAATTG-AGATGTTTTA-TCGCTGT
1 AAATTGAAG-TGTTTAAGT-GCTGT
* * * *
123181921 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
123181943 TAATTGAAATGTTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
123181966 AAATTGAAGTGTTTTAA-TGCTGT
1 AAATTGAAGTG-TTTAAGTGCTGT
* * **
123181989 AAATTGAAGTGTTAAACTGCTAC
1 AAATTGAAGTGTTTAAGTGCTGT
123182012 AAATTGAAGTGTTTGAA-TGCTGT
1 AAATTGAAGTGTTT-AAGTGCTGT
* *
123182035 AAATTGAAGTGTTTAAATGCTTT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
123182058 AAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123182081 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123182104 AAATTGAAGTATTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGT
* * *
123182127 ACATTG-AGATGTTTTA-TCGTTGT
1 AAATTGAAG-TGTTTAAGT-GCTGT
* * *
123182150 -AATT-AAGGTGTATAAATGTTGT
1 AAATTGAA-GTGTTTAAGTGCTGT
* * * *
123182172 TAATTGAGGTGTTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
123182195 AAATTGAAGTGTTTTAA-TGTTGT
1 AAATTGAAGTG-TTTAAGTGCTGT
* * *
123182218 AAATTGAAGTGTTAAACTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
123182241 AAATTGAAGTGTTTGAA-TGCTGT
1 AAATTGAAGTGTTT-AAGTGCTGT
* * *
123182264 AAATTGAAATGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * * *
123182287 AAATTGAAATGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123182310 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
123182333 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGT
* * *
123182356 ACATTG-AGATGTTTTA-TCGCTAT
1 AAATTGAAG-TGTTTAAGT-GCTGT
* * * *
123182379 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
123182401 TAATTGAGGTGTTAAAAGTGCTGG
1 AAATTGAAGTGTT-TAAGTGCTGT
123182425 AAATTGAAGTGTTTGAA-TGCTGT
1 AAATTGAAGTGTTT-AAGTGCTGT
* * *
123182448 AAATTGAAGTGTTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* * *
123182471 AAATTGAATTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
123182494 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGT
* * *
123182517 ACATTGACA-TGTTTTA-TCGTTGT
1 AAATTGA-AGTGTTTAAGT-GCTGT
* * * * *
123182540 -AATTGAGGTGTATAAATGTTTT
1 AAATTGAAGTGTTTAAGTGCTGT
* * *
123182562 TAATTG-AGATGTTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAGTGCTGT
* * *
123182585 AAATTGAAGTGCTTAAATACTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123182608 AAATTGAAGTGTTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123182631 AAATTGAACTGTTTGAA-TGTTGT
1 AAATTGAAGTGTTT-AAGTGCTGT
*
123182654 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * * *
123182677 AAATTGAAATGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123182700 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
123182723 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGT
* *
123182746 ACATTG-AGATGTTTTA-TCGCTGT
1 AAATTGAAG-TGTTTAAGT-GCTGT
* * * *
123182769 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * *
123182791 TAATTG-AGATGTTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAGTGCTGT
* *
123182814 AAATTGAAGTGCTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123182837 AAATTGAAGTGTTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123182860 AAATTGAACTGTTTGAA-TTCTGT
1 AAATTGAAGTGTTT-AAGTGCTGT
* * *
123182883 AAATTGAAGTGTTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
123182906 AAATTGAAGTGCTTAAATACTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
123182929 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGT
* * *
123182952 ACATTG-AGATGTTTTA-TCACTGT
1 AAATTGAAG-TGTTTAAGT-GCTGT
* * * **
123182975 -AATTGAGGTGTATAAATATTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * *
123182997 TAATTG-AGATGTTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAGTGCTGT
*
123183020 AAATTGAAGTGTTAAAGTGCTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* *
123183043 AAATTGAAGTGTTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
123183066 AAATTGAAGTGTTTGAA-TGCTGC
1 AAATTGAAGTGTTT-AAGTGCTGT
* *
123183089 AAATTCAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
123183112 AAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
123183135 AAATTGAAGTGTTTAAGT
1 AAATTGAAGTGTTTAAGT
123183153 ACTTATTTTG
Statistics
Matches: 1007, Mismatches: 206, Indels: 130
0.75 0.15 0.10
Matches are distributed among these distances:
22 128 0.13
23 829 0.82
24 50 0.05
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAGTGCTGT
Found at i:123182224 original size:206 final size:206
Alignment explanation
Indices: 123181983--123183149 Score: 1252
Period size: 206 Copynumber: 5.7 Consensus size: 206
123181973 AGTGTTTTAA
* * ** * *
123181983 TGCTGTAAATTGAAGTGTTAAACTGCTACAAATTGAAGTGTTTGAA-TGCTGTAAATTGAAGTGT
1 TGCTGCAAATTGAAGTGTTAAAGTGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGT
* * * *
123182047 TTAAATGCTTTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAA
65 TTAAATGCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGAA
* * *
123182112 GTATTTAGTTGCTGGACATTGAGATGTTTTATCGTTGTAATTAAGGTGTATAAATGTTGTTAATT
130 GTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATT
123182177 GAGGTGTTAAAG
195 GAGGTGTTAAAG
* * *
123182189 TGCTGCAAATTGAAGTGTTTTAA-TGTTGTAAATTGAAGTGTTAAACTGCTGCAAATTGAAGTGT
1 TGCTGCAAATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGT
* * * * **
123182253 TTGAATGCTGTAAATTGAAATGTTTAAATGTTGTAAATTGAAATGCTTAAATGTTGCAAATTGAA
65 TTAAATGCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGAA
* * * * * * ** * *
123182318 GTGTTTAAG-TACTGCAAATTGA-A-GTGTTTAGTTGCTGGACATTGAGATGT-TTTATCGCT-A
130 GTGTTT-AGTTGCTGGACATTGAGATGT-TTTA-TCGCTGTA-ATTGAGGTGTATAAAT-GTTGT
123182378 TAATTGAGGTGTATAAA-
190 TAATTGAGGTGT-TAAAG
* ** * * * *
123182395 TGTTGTTAATTGAGGTGTTAAAAGTGCTGGAAATTGAAGTGTTTGAA-TGCTGTAAATTGAAGTG
1 TGCTGCAAATTGAAGTGTT-AAAGTGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTG
* * * * ** * ** * * *
123182459 TTTAAATGTTGCAAATTGAATTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGA
64 TTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGA
* * * * ** * * * *
123182524 CA-TGTTTTA-TCGTTGTA-ATTGAGGTGTATAAAT-GTTTTTAATTGAGATGT-TAAAGTGCTG
129 -AGTG-TTTAGTTGCTGGACATTGAGATGT-TTTATCG-CTGTAATTGAGGTGTATAAA-TGTTG
** *
123182584 CAAATTGAAGTGCTTAAA-
189 TTAATTGAGGTG-TTAAAG
* * * * * * *
123182602 TACTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAACTGTTTGAA-TGTTGTAAATTGAAGTGT
1 TGCTGCAAATTGAAGTGTTAAAGTGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGT
* * * *
123182666 TTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAA
65 TTAAATGCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGAA
123182731 GTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATT
130 GTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATT
*
123182796 GAGATGTTAAAG
195 GAGGTGTTAAAG
*
123182808 TGCTGCAAATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAACTGT
1 TGCTGCAAATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGT
* *
123182872 TTGAATTCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGAA
65 TTAAATGCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGAA
* *
123182937 GTGTTTAGTTGCTGGACATTGAGATGTTTTATCACTGTAATTGAGGTGTATAAATATTGTTAATT
130 GTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATT
*
123183002 GAGATGTTAAAG
195 GAGGTGTTAAAG
123183014 TGCTGCAAATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTT
1 TGCTGCAAATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTT
* * * * * **
123183079 TGAATGCTGCAAATTCAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAG
66 TAAATGCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGAAG
123183144 TGTTTA
131 TGTTTA
123183150 AGTACTTATT
Statistics
Matches: 805, Mismatches: 127, Indels: 58
0.81 0.13 0.06
Matches are distributed among these distances:
204 2 0.00
205 30 0.04
206 602 0.75
207 158 0.20
208 13 0.02
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (206 bp):
TGCTGCAAATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTT
TAAATGCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGAAG
TGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTG
AGGTGTTAAAG
Found at i:123182246 original size:229 final size:229
Alignment explanation
Indices: 123181842--123182508 Score: 1106
Period size: 229 Copynumber: 2.9 Consensus size: 229
123181832 ATATTACTGG
* * *
123181842 TAAATGTTGCAAATTGAAGTGTTTAAGTACTGTAAATTGAAGTGTTTAATTGCTGGAAATTGAGA
1 TAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGA
**
123181907 TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTG
66 TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGGTGTTAAAGTGCTGCAAATTG
*
123181972 AAGTGTTTTAATGCTGTAAATTGAAGTGTTAAACTGCTACAAATTGAAGTGTTTGAATGCTGTAA
131 AAGTGTTTTAATGCTGTAAATTGAAGTGTTAAACTGCTGCAAATTGAAGTGTTTGAATGCTGTAA
*
123182037 ATTGAAGTGTTTAAATGCTT-TAAATTGAAGTGCT
196 ATTGAAGTGTTTAAATG-TTGTAAATTGAAATGCT
*
123182071 TAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTATTTAGTTGCTGGACATTGAGA
1 TAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGA
* *
123182136 TGTTTTATCGTTGTAATTAAGGTGTATAAATGTTGTTAATTGAGGTGTTAAAGTGCTGCAAATTG
66 TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGGTGTTAAAGTGCTGCAAATTG
*
123182201 AAGTGTTTTAATGTTGTAAATTGAAGTGTTAAACTGCTGCAAATTGAAGTGTTTGAATGCTGTAA
131 AAGTGTTTTAATGCTGTAAATTGAAGTGTTAAACTGCTGCAAATTGAAGTGTTTGAATGCTGTAA
*
123182266 ATTGAAATGTTTAAATGTTGTAAATTGAAATGCT
196 ATTGAAGTGTTTAAATGTTGTAAATTGAAATGCT
123182300 TAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGA
1 TAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGA
* *
123182365 TGTTTTATCGCTATAATTGAGGTGTATAAATGTTGTTAATTGAGGTGTTAAAAGTGCTGGAAATT
66 TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGGTGTT-AAAGTGCTGCAAATT
* * * *
123182430 GAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAA-TGTTGCAAATTGAATTGTTT-AAGTACTG
130 GAAGTGTTTTAATGCTGTAAATTGAAGTG-TTAAACTGCTGCAAATTGAAGTGTTTGAA-TGCTG
*
123182493 CAAATTGAAGTGTTTA
193 TAAATTGAAGTGTTTA
123182509 GTTGCTGGAC
Statistics
Matches: 410, Mismatches: 24, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
228 2 0.00
229 326 0.80
230 77 0.19
231 5 0.01
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (229 bp):
TAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGA
TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGGTGTTAAAGTGCTGCAAATTG
AAGTGTTTTAATGCTGTAAATTGAAGTGTTAAACTGCTGCAAATTGAAGTGTTTGAATGCTGTAA
ATTGAAGTGTTTAAATGTTGTAAATTGAAATGCT
Found at i:123182614 original size:91 final size:91
Alignment explanation
Indices: 123182449--123182614 Score: 199
Period size: 91 Copynumber: 1.8 Consensus size: 91
123182439 GAATGCTGTA
* * * ** *
123182449 AATTGAAGTGTTTAAATGTTGCAAATTGAATTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGC
1 AATTGAAGTGTATAAATGTTGCAAATTGAATTGTTAAAGTACTGCAAATTGAAGTGCTTAAATAC
*
123182514 TGGACATTGACATGTTTTATCGTTGT
66 TGGAAATTGACATGTTTTATCGTTGT
* *** *
123182540 AATTGAGGTGTATAAATGTTTTTAATTGAGA-TGTTAAAGTGCTGCAAATTGAAGTGCTTAAATA
1 AATTGAAGTGTATAAATGTTGCAAATTGA-ATTGTTAAAGTACTGCAAATTGAAGTGCTTAAATA
*
123182604 CTGTAAATTGA
65 CTGGAAATTGA
123182615 AGTGTTAAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
91 60 0.98
92 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (91 bp):
AATTGAAGTGTATAAATGTTGCAAATTGAATTGTTAAAGTACTGCAAATTGAAGTGCTTAAATAC
TGGAAATTGACATGTTTTATCGTTGT
Found at i:123182826 original size:229 final size:228
Alignment explanation
Indices: 123182425--123183150 Score: 950
Period size: 229 Copynumber: 3.2 Consensus size: 228
123182415 AAAGTGCTGG
* * * *
123182425 AAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAATTGTTTAAGTA
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTA
*
123182490 CTGCAAATTGAAGTGTTTAGTTGCTGGACATTGACATGTTTTATCGTTGTAATTGAGGTGTATAA
66 CTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCG-TGTAATTGAGGTGTATAA
* *
123182555 ATGTTTTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATACTGTAAATTGAAGTGT
130 ATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGT
123182620 TAAAGTGCTGCAAATTGAACTGTTTGAATGTTGT
195 TAAAGTGCTGCAAATTGAACTGTTTGAATGTTGT
* *
123182654 AAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAAGTA
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTA
123182719 CTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAA
66 CTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCG-TGTAATTGAGGTGTATAA
123182784 ATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGT
130 ATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGT
123182849 TAAAGTGCTGCAAATTGAACTGTTTGAAT-TCTGT
195 TAAAGTGCTGCAAATTGAACTGTTTGAATGT-TGT
* **
123182883 AAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGCTTAAATACTGCAAATTGAAGTGTTT-AGTT
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAG-T
* * * ** * * * * *
123182947 GCTGGACATTG-AGATGTTTTA-TCACTGTA-ATTGAGGTGTATAAATATTGT-TAATTGAGATG
65 ACTGCAAATTGAAG-TG-TTTAGTTGCTGGACATTGAGATGT-T--TTATCGTGTAATTGAGGTG
* ** * *
123183008 T-TAAAGTGCTGCAAATTGA-AGTGTTAAAGTGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAAT
125 TATAAA-TGTTGTTAATTGAGA-TGTTAAAGTGCTGCAAATTGAAGTGCTTAAA-TGCTGTAAAT
* * * * *
123183070 TGAAGTGTTTGAA-TGCTGCAAATTCAAGTGTTTAAATGCTGT
187 TGAAGTG-TTAAAGTGCTGCAAATTGAACTGTTTGAATGTTGT
* * *
123183112 AAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGCTTAA
123183151 GTACTTATTT
Statistics
Matches: 450, Mismatches: 35, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
228 24 0.05
229 413 0.92
230 9 0.02
231 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (228 bp):
AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTA
CTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGTGTAATTGAGGTGTATAAA
TGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTT
AAAGTGCTGCAAATTGAACTGTTTGAATGTTGT
Found at i:123183962 original size:42 final size:43
Alignment explanation
Indices: 123183872--123183968 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
123183862 TAAATTTTTT
* * ** *
123183872 TTAAAGGTTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
1 TTAAAGGTTATGTTCTATAGCGACGTTTGTAAGAAAAGCGCCA
* *
123183915 CTAAAGGTCTAT-TT-TATAGCGACGTTTGTAAGAAAAGTGCCA
1 TTAAAGGT-TATGTTCTATAGCGACGTTTGTAAGAAAAGCGCCA
123183957 TTAAAGGTTATG
1 TTAAAGGTTATG
123183969 ACTTTTAGCG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.07
42 29 0.66
43 9 0.20
44 3 0.07
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (43 bp):
TTAAAGGTTATGTTCTATAGCGACGTTTGTAAGAAAAGCGCCA
Found at i:123186792 original size:25 final size:26
Alignment explanation
Indices: 123186725--123186793 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
123186715 TTTTATTAGG
123186725 TATTTTAAATTAGATTTTAGAAATTA
1 TATTTTAAATTAGATTTTAGAAATTA
* * * ** *
123186751 TATATT-AATTGGTTTTTAG-GGTTC
1 TATTTTAAATTAGATTTTAGAAATTA
123186775 TATTTTAAATTAGATTTTA
1 TATTTTAAATTAGATTTTA
123186794 AGATTGCTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
24 7 0.21
25 21 0.64
26 5 0.15
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (26 bp):
TATTTTAAATTAGATTTTAGAAATTA
Found at i:123188747 original size:18 final size:19
Alignment explanation
Indices: 123188706--123188747 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
123188696 AACTGTATGA
* *
123188706 TTTTTTTTTCATTTTCATC
1 TTTTTTTTTAAATTTCATC
*
123188725 ATTTTTTTTAAATTT-ATC
1 TTTTTTTTTAAATTTCATC
123188743 TTTTT
1 TTTTT
123188748 AGCTATAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTTTAAATTTCATC
Found at i:123195849 original size:98 final size:98
Alignment explanation
Indices: 123195717--123195927 Score: 368
Period size: 98 Copynumber: 2.1 Consensus size: 98
123195707 AAATAAACAT
* *
123195717 ATATTAAATATATAATACTACTCTAATGTGAACATTAAAATAATGTTAAGATGATTATATAAAAA
1 ATATTAAAT-TTTAATACTACTCTAATGTGAACATTAAAATAATGTTAAGATAATTATATAAAAA
123195782 ATTTCAATAAATAAAAAAAATACAAAAGTATTAA
65 ATTTCAATAAATAAAAAAAATACAAAAGTATTAA
123195816 ATATTAAATTTTAATACTACTCTAATGTGAACATTAAAATAATGTTAAGATAATTATATAAAAAA
1 ATATTAAATTTTAATACTACTCTAATGTGAACATTAAAATAATGTTAAGATAATTATATAAAAAA
* *
123195881 TTTCAATAAATAAAAAATATACAAAATTATTAA
66 TTTCAATAAATAAAAAAAATACAAAAGTATTAA
*
123195914 ATTTTAAATTTTAA
1 ATATTAAATTTTAA
123195928 AATAATATAA
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 98 0.92
99 9 0.08
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.36
Consensus pattern (98 bp):
ATATTAAATTTTAATACTACTCTAATGTGAACATTAAAATAATGTTAAGATAATTATATAAAAAA
TTTCAATAAATAAAAAAAATACAAAAGTATTAA
Found at i:123196298 original size:19 final size:19
Alignment explanation
Indices: 123196274--123196311 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
123196264 ATGTGTATGA
*
123196274 TTAAATCTAAATTAAAATT
1 TTAAATATAAATTAAAATT
*
123196293 TTAAATATAAATTTAAATT
1 TTAAATATAAATTAAAATT
123196312 AAAATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAAATATAAATTAAAATT
Found at i:123196307 original size:12 final size:11
Alignment explanation
Indices: 123196273--123196320 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
123196263 AATGTGTATG
*
123196273 ATTAAATCTAA
1 ATTAAATTTAA
123196284 ATTAAAATTTTAA
1 ATT-AAA-TTTAA
123196297 ATATAAATTTAA
1 AT-TAAATTTAA
*
123196309 ATTAAAATTAA
1 ATTAAATTTAA
123196320 A
1 A
123196321 ATTTTACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 12 0.38
12 10 0.31
13 9 0.28
14 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:123196317 original size:31 final size:30
Alignment explanation
Indices: 123196274--123196375 Score: 102
Period size: 31 Copynumber: 3.3 Consensus size: 30
123196264 ATGTGTATGA
123196274 TTAAATCTAAATTAAAATTTTAAATATAAAT
1 TTAAAT-TAAATTAAAATTTTAAATATAAAT
*
123196305 TTAAATTAAAATTAAAATTTTACATATATAA-
1 TTAAATT-AAATTAAAATTTTAAATATA-AAT
*
123196336 TTACATTAAATT-AAATTATTATACAT-TAAAT
1 TTAAATTAAATTAAAATT-TTA-A-ATATAAAT
*
123196367 TAAAATTAA
1 TTAAATTAA
123196376 TGGCAAGTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
29 5 0.08
30 11 0.18
31 40 0.67
32 4 0.07
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (30 bp):
TTAAATTAAATTAAAATTTTAAATATAAAT
Found at i:123196322 original size:12 final size:12
Alignment explanation
Indices: 123196276--123196323 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
123196266 GTGTATGATT
*
123196276 AAATCTAAATTA
1 AAATTTAAATTA
123196288 AAATTTTAAA-TA
1 AAA-TTTAAATTA
123196300 TAAATTTAAATTA
1 -AAATTTAAATTA
*
123196313 AAATTAAAATT
1 AAATTTAAATT
123196324 TTACATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTAAATTA
Found at i:123211018 original size:4 final size:4
Alignment explanation
Indices: 123211009--123211047 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
123210999 TATTCACATA
123211009 TTTC TTTC -TTC TTTC -TTC TTTC TTT- TTT- TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
123211048 TTCTTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 12 0.38
4 20 0.62
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:123211022 original size:7 final size:7
Alignment explanation
Indices: 123211010--123211052 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
123211000 ATTCACATAT
123211010 TTCTTTC
1 TTCTTTC
123211017 TTCTTTC
1 TTCTTTC
123211024 TTCTTTC
1 TTCTTTC
* *
123211031 TTTTTTT
1 TTCTTTC
123211038 TTCTTTC
1 TTCTTTC
123211045 TT-TTTC
1 TTCTTTC
123211051 TT
1 TT
123211053 TTTTAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTCTTTC
Found at i:123211043 original size:21 final size:20
Alignment explanation
Indices: 123211017--123211056 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 20
123211007 TATTTCTTTC
123211017 TTCTTTCTTCTTTCTTTTTTT
1 TTCTTTCTT-TTTCTTTTTTT
123211038 TTCTTTCTTTTTCTTTTTT
1 TTCTTTCTTTTTCTTTTTT
123211057 AATTTTAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCTTTCTTTTTCTTTTTTT
Found at i:123217754 original size:29 final size:28
Alignment explanation
Indices: 123217687--123217754 Score: 66
Period size: 30 Copynumber: 2.3 Consensus size: 28
123217677 GTACTTCGTG
123217687 ATTTATAAAAATTAAATCAAATCAAAATT
1 ATTTAT-AAAATTAAATCAAATCAAAATT
* *
123217716 ATGTGTATAAAATTACA-CAAAATCAAAGTT
1 AT-T-TATAAAATTAAATC-AAATCAAAATT
123217746 CATTTATAA
1 -ATTTATAA
123217755 CTTTAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
29 8 0.24
30 20 0.61
31 5 0.15
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (28 bp):
ATTTATAAAATTAAATCAAATCAAAATT
Found at i:123218274 original size:30 final size:31
Alignment explanation
Indices: 123218240--123218297 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
123218230 AATTTATTAT
*
123218240 ATAAACTTTTAATTT-AA-TATAATTATATAA
1 ATAAAATTTTAATTTCAATTAT-ATTATATAA
123218270 ATAAAATTTTAATTTCAATTATATTATA
1 ATAAAATTTTAATTTCAATTATATTATA
123218298 CACATTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 14 0.56
31 8 0.32
32 3 0.12
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAAAATTTTAATTTCAATTATATTATATAA
Found at i:123218591 original size:19 final size:19
Alignment explanation
Indices: 123218554--123218590 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
123218544 GTAAAATTTG
123218554 AAAAAAAATTCAATTTTTT
1 AAAAAAAATTCAATTTTTT
*
123218573 AAAAATAATT-AATTTTTT
1 AAAAAAAATTCAATTTTTT
123218591 TTTCAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAAAAAATTCAATTTTTT
Found at i:123227690 original size:31 final size:31
Alignment explanation
Indices: 123227655--123227714 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
123227645 CAAAATGTTG
*
123227655 ATATTACCTTTTAATC-GAGTCTCAACTCATA
1 ATATTACCTTTCAATCGGA-TCTCAACTCATA
*
123227686 ATATTATCTTTCAATCGGATCTCAACTCA
1 ATATTACCTTTCAATCGGATCTCAACTCA
123227715 ATTAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (31 bp):
ATATTACCTTTCAATCGGATCTCAACTCATA
Found at i:123227841 original size:2 final size:2
Alignment explanation
Indices: 123227834--123227858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
123227824 AAAATTTATT
123227834 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 T
123227859 GTTTATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123228086 original size:17 final size:17
Alignment explanation
Indices: 123228060--123228103 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
123228050 TTTATAAAAA
* *
123228060 ATTTATTTTAGTTATTT
1 ATTTAATTTAGTTATAT
*
123228077 ATTTAATTTATTTATAT
1 ATTTAATTTAGTTATAT
123228094 ATTTTAATTT
1 A-TTTAATTT
123228104 TTGAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
ATTTAATTTAGTTATAT
Found at i:123228255 original size:12 final size:11
Alignment explanation
Indices: 123228236--123228269 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
123228226 ATTAATTTAT
123228236 ATATTTTTAAA
1 ATATTTTTAAA
123228247 ATAATTTTTAAA
1 AT-ATTTTTAAA
123228259 AT-TTTTTAAA
1 ATATTTTTAAA
123228269 A
1 A
123228270 GTAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 2 0.09
12 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:123228262 original size:21 final size:22
Alignment explanation
Indices: 123228221--123228269 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
123228211 AATTAAAACG
*
123228221 TTAAAATTAATTTATATA-TTT
1 TTAAAATTAATTTATAAATTTT
*
123228242 TTAAAA-TAATTTTTAAAATTTT
1 TTAAAATTAATTTAT-AAATTTT
123228264 TTAAAA
1 TTAAAA
123228270 GTAAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 8 0.33
22 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAAATTAATTTATAAATTTT
Found at i:123228263 original size:20 final size:21
Alignment explanation
Indices: 123228221--123228263 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
123228211 AATTAAAACG
* *
123228221 TTAAAATTAATTTATATATTT
1 TTAAAATTAATTTATAAAATT
*
123228242 TTAAAA-TAATTTTTAAAATT
1 TTAAAATTAATTTATAAAATT
123228262 TT
1 TT
123228264 TTAAAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAAAATTAATTTATAAAATT
Found at i:123229394 original size:14 final size:14
Alignment explanation
Indices: 123229375--123229408 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
123229365 GAAAATAAAC
123229375 CATTTTTCAAAAGT
1 CATTTTTCAAAAGT
* *
123229389 CATTTTTTAGAAGT
1 CATTTTTCAAAAGT
123229403 CATTTT
1 CATTTT
123229409 CAATGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (14 bp):
CATTTTTCAAAAGT
Done.