Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 25
Found at i:6642962 original size:37 final size:37
Alignment explanation
Indices: 6642805--6642990 Score: 155
Period size: 37 Copynumber: 4.9 Consensus size: 37
6642795 TCTGAAAATA
* **
6642805 TTTTTGAAAACATATAATATATAGTTTTTAGAAAATGG
1 TTTTTGAAAACATATAATATATAG-TTTTAAAAAACAG
* * *
6642843 TTTTTGAAAACATCTAATATATA-TATATATATTAAAATCGG
1 TTTTTGAAAACATATAATATATAGT-T-T-TA--AAAAACAG
* * *
6642884 TTTTTGAAAACATAT-ATAATATGGTCTTGAAAACACA-
1 TTTTTGAAAACATATAAT-ATATAGT-TTTAAAAAACAG
**
6642921 TTTTTGAAAATGTATAATATATAGTTTTAAAAAACAG
1 TTTTTGAAAACATATAATATATAGTTTTAAAAAACAG
*
6642958 TTTTTGAAAACATAT-ATATTATAGTTTTGAAAA
1 TTTTTGAAAACATATAATA-TATAGTTTTAAAAA
6642991 CACACACACA
Statistics
Matches: 119, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
36 13 0.11
37 46 0.39
38 29 0.24
39 2 0.02
40 3 0.03
41 24 0.20
42 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (37 bp):
TTTTTGAAAACATATAATATATAGTTTTAAAAAACAG
Found at i:6643013 original size:2 final size:2
Alignment explanation
Indices: 6643008--6643032 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6642998 ACACACACAA
6643008 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
6643033 GTTTTTTAAA
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:6643144 original size:25 final size:25
Alignment explanation
Indices: 6643059--6643144 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 25
6643049 TTTGAAAACA
* *
6643059 TATATAATATATATAATTTTTG-AA
1 TATATAATATATATAGTTTTTGTAT
*
6643083 TACAT-AT-TATATAGTTTTT-TAGT
1 TATATAATATATATAGTTTTTGTA-T
* * *
6643106 TTTAAAATAAATATAGTTTTTGTAT
1 TATATAATATATATAGTTTTTGTAT
*
6643131 TATATTATATATAT
1 TATATAATATATAT
6643145 TATTATTTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 12 0.26
23 4 0.09
24 6 0.13
25 22 0.48
26 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (25 bp):
TATATAATATATATAGTTTTTGTAT
Found at i:6643197 original size:4 final size:4
Alignment explanation
Indices: 6643183--6643214 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
6643173 TTAGACTAGA
6643183 TTAT ATTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTA
6643215 ATTTCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:6645308 original size:35 final size:35
Alignment explanation
Indices: 6645231--6645417 Score: 248
Period size: 35 Copynumber: 5.3 Consensus size: 35
6645221 AGTTTGCATT
* * *
6645231 GATTCAAGTCAAATGGAATGAAGCATCACACCACTTTC
1 GATTCAAGTCGAACGGAAGGAAGCAT--CA-CACTTTC
*
6645269 GATTCAAGTCGAACGGAAGGAAGCATCGCACTTTC
1 GATTCAAGTCGAACGGAAGGAAGCATCACACTTTC
** * *
6645304 GATTCAAGAAGAACGGAATGAAGCATCACACTTTT
1 GATTCAAGTCGAACGGAAGGAAGCATCACACTTTC
* *
6645339 GATTCAAGTCGAATGGAAGGAAGCATCGCACTTTC
1 GATTCAAGTCGAACGGAAGGAAGCATCACACTTTC
*
6645374 GATTCAAGTCGAACGGAAGTAAGCATCACACTTTC
1 GATTCAAGTCGAACGGAAGGAAGCATCACACTTTC
6645409 GATTCAAGT
1 GATTCAAGT
6645418 GTTCATCTTT
Statistics
Matches: 131, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 107 0.82
36 1 0.01
38 23 0.18
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (35 bp):
GATTCAAGTCGAACGGAAGGAAGCATCACACTTTC
Found at i:6646349 original size:2 final size:2
Alignment explanation
Indices: 6646342--6646445 Score: 74
Period size: 2 Copynumber: 54.0 Consensus size: 2
6646332 TTTATGATAG
* * *
6646342 AT AT AT AT AT AT GAC AT AT -T TT GT 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
* * ** * *
6646384 AT -T TT TT GG AA AT AT AT A- AT -T TT A- 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
*
6646422 AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
6646446 TGTATGTAAC
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
1 5 0.06
2 78 0.93
3 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6649295 original size:44 final size:43
Alignment explanation
Indices: 6649210--6649483 Score: 433
Period size: 43 Copynumber: 6.3 Consensus size: 43
6649200 TTAATTACCG
6649210 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
6649253 TTACAGTTCCCCCAGGTCCCTTTTGCTATGTGCAAGGCTAAGCC
1 TTACAGTTCCCCCAGGTCCC-TTTGCTGTGTGCAAGGGTAAGCC
6649297 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
6649340 TTACAGTTCCCACAGGTCCCTTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCC-TTTGCTGTGTGCAAGGGTAAGCC
* *
6649384 TTACAGTTCCCCCATGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
6649427 TTACAGTT-TCCCAAGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
6649469 TTACAGTTTCCCCAG
1 TTACAGTTCCCCCAG
6649484 ACTCTTTTGC
Statistics
Matches: 214, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
42 40 0.19
43 94 0.44
44 80 0.37
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:6649356 original size:87 final size:87
Alignment explanation
Indices: 6649210--6649483 Score: 446
Period size: 87 Copynumber: 3.2 Consensus size: 87
6649200 TTAATTACCG
*
6649210 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCCTT
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCACAGGTCCCTT
* *
6649275 TTGCTATGTGCAAGGCTAAGCC
66 TTGCTGTGTGCAAGGGTAAGCC
6649297 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCACAGGTCCCTT
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCACAGGTCCCTT
*
6649362 TTGTTGTGTGCAAGGGTAAGCC
66 TTGCTGTGTGCAAGGGTAAGCC
* * *
6649384 TTACAGTTCCCCCATGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCA-A-GTTCC-
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTCCCACAGGTCCCT
6649446 TTTGCTGTGTGCAAGGGTAAGCC
65 TTTGCTGTGTGCAAGGGTAAGCC
*
6649469 TTACAGTTTCCCCAG
1 TTACAGTTCCCCCAG
6649484 ACTCTTTTGC
Statistics
Matches: 176, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
85 35 0.20
86 4 0.02
87 131 0.74
88 6 0.03
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (87 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCACAGGTCCCTT
TTGCTGTGTGCAAGGGTAAGCC
Found at i:6650188 original size:10 final size:10
Alignment explanation
Indices: 6650173--6650217 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
6650163 TAATAGTAGG
6650173 TATTATTAAA
1 TATTATTAAA
* *
6650183 TATTATTTAG
1 TATTATTAAA
*
6650193 TA-TATTAAT
1 TATTATTAAA
6650202 TATTATTAAA
1 TATTATTAAA
6650212 TATTAT
1 TATTAT
6650218 GTAGTATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
TATTATTAAA
Found at i:6650208 original size:29 final size:29
Alignment explanation
Indices: 6650173--6650246 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
6650163 TAATAGTAGG
6650173 TATTATTAAATATTATTTAGTATATTAAT
1 TATTATTAAATATTATTTAGTATATTAAT
* *
6650202 TATTATTAAATATTATGTAGTATATTTAT
1 TATTATTAAATATTATTTAGTATATTAAT
*
6650231 TATTATT-ATTATTATT
1 TATTATTAAATATTATT
6650247 ATTATTAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 7 0.17
29 34 0.83
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (29 bp):
TATTATTAAATATTATTTAGTATATTAAT
Found at i:6650264 original size:3 final size:3
Alignment explanation
Indices: 6650173--6650253 Score: 58
Period size: 3 Copynumber: 25.7 Consensus size: 3
6650163 TAATAGTAGG
* * * *
6650173 TAT TAT TAAA TAT TATT TAG TA- TAT TAAT TAT TAT TAAA TAT TAT GTAG
1 TAT TAT T-AT TAT TA-T TAT TAT TAT T-AT TAT TAT T-AT TAT TAT -TAT
6650222 TA- TATT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
6650254 ATGCTATTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 4 0.06
3 46 0.72
4 14 0.22
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:6650846 original size:16 final size:16
Alignment explanation
Indices: 6650807--6650856 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
6650797 TCTTAAACAT
6650807 GCAAGAATCGAATCAAA
1 GCAA-AATCGAATCAAA
6650824 G-AGAAATCGAATCAAA
1 GCA-AAATCGAATCAAA
*
6650840 GCAAAATGGCAATCAAA
1 GCAAAATCG-AATCAAA
6650857 ATCATATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.54, C:0.16, G:0.18, T:0.12
Consensus pattern (16 bp):
GCAAAATCGAATCAAA
Found at i:6651610 original size:4 final size:4
Alignment explanation
Indices: 6651601--6651636 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
6651591 TGTATTCAAA
*
6651601 TATT TATT TATT TATT TATT TATA T-TT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
6651637 TTCAGAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:6654658 original size:17 final size:17
Alignment explanation
Indices: 6654625--6654658 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6654615 TTTTGCCAGA
6654625 GCATTTTATTTTGTTTT
1 GCATTTTATTTTGTTTT
6654642 GCATATTTATTTT-TTTT
1 GCAT-TTTATTTTGTTTT
6654659 ATAGTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (17 bp):
GCATTTTATTTTGTTTT
Found at i:6660610 original size:21 final size:21
Alignment explanation
Indices: 6660586--6660630 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6660576 TAACTTTTTC
*
6660586 TTTT-ATCTTTCATTATTAATT
1 TTTTGATCTTTCATT-TTAACT
*
6660607 TTTTGCTCTTTCATTTTAACT
1 TTTTGATCTTTCATTTTAACT
6660628 TTT
1 TTT
6660631 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.18, C:0.13, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTGATCTTTCATTTTAACT
Found at i:6675588 original size:48 final size:46
Alignment explanation
Indices: 6675499--6675588 Score: 110
Period size: 48 Copynumber: 1.9 Consensus size: 46
6675489 TTAAGAGAAA
6675499 AATAGTCCAAAACCACATCAACTACGTACTCAATGCAGCTGCGTAC
1 AATAGTCCAAAACCACATCAACTACGTACTCAATGCAGCTGCGTAC
* * * *
6675545 AATAGTACCAAAATCACGTCATACTATGTACAT-AATGTAGCTGC
1 AATAGT-CCAAAACCACATCA-ACTACGTAC-TCAATGCAGCTGC
6675589 TAATACTCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 6 0.16
47 12 0.32
48 18 0.49
49 1 0.03
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (46 bp):
AATAGTCCAAAACCACATCAACTACGTACTCAATGCAGCTGCGTAC
Found at i:6684378 original size:29 final size:29
Alignment explanation
Indices: 6684227--6684411 Score: 160
Period size: 29 Copynumber: 6.4 Consensus size: 29
6684217 GAAAATTATA
* * *
6684227 AAAATATCACTTTTATTAAAAATAATTACC
1 AAAATGTCACCTTT-TTAAAAATAATTCCC
* * * *
6684257 AAAATATCA-TTATTTTACAAATAATTTCC
1 AAAATGTCACCT-TTTTAAAAATAATTCCC
* * *
6684286 AAAATGTCATCGTTTTAAAAATAATTACC
1 AAAATGTCACCTTTTTAAAAATAATTCCC
* * *
6684315 AGAATGTCA-TTGTTTTTAAAA-AATTCCC
1 AAAATGTCACCT-TTTTAAAAATAATTCCC
*
6684343 AAAATGTCACCTTTTTCAAAATAATTCCC
1 AAAATGTCACCTTTTTAAAAATAATTCCC
* * * *
6684372 AAAATGTCACATGTTTCAAAATAATTCCT
1 AAAATGTCACCTTTTTAAAAATAATTCCC
6684401 AAAATGTCACC
1 AAAATGTCACC
6684412 GGGTCGGGTC
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
28 22 0.17
29 98 0.75
30 11 0.08
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAATGTCACCTTTTTAAAAATAATTCCC
Found at i:6684408 original size:58 final size:55
Alignment explanation
Indices: 6684227--6684411 Score: 176
Period size: 57 Copynumber: 3.2 Consensus size: 55
6684217 GAAAATTATA
* * *
6684227 AAAATATCACTTTTATTAAAAATAATTACCAAAATATCATTAT-TTTACAAATAATTTCC
1 AAAATGTCACCTTT-TTAAAAATAATTACCAAAATGTCA--ATGTTTA-AAATAA-TTCC
* * * *
6684286 AAAATGTCATCGTTTTAAAAATAATTACCAGAATGTCATTGTTTTTAAAA-AATTCCC
1 AAAATGTCACCTTTTTAAAAATAATTACCAAAATGTCAATG--TTTAAAATAATT-CC
* *
6684343 AAAATGTCACCTTTTTCAAAATAATTCCCAAAATGTCACATGTTTCAAAATAATTCC
1 AAAATGTCACCTTTTTAAAAATAATTACCAAAATGTCA-ATGTTT-AAAATAATTCC
6684400 TAAAATGTCACC
1 -AAAATGTCACC
6684412 GGGTCGGGTC
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
56 6 0.06
57 43 0.41
58 42 0.40
59 14 0.13
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (55 bp):
AAAATGTCACCTTTTTAAAAATAATTACCAAAATGTCAATGTTTAAAATAATTCC
Found at i:6687208 original size:183 final size:184
Alignment explanation
Indices: 6686900--6687266 Score: 700
Period size: 183 Copynumber: 2.0 Consensus size: 184
6686890 CTTCAAGGTA
* *
6686900 AAAATCACTGCTGCTAACTCCAAATCATGAGTAGGATAATTACACTCATGTGGTCGTAGTTGACG
1 AAAATCACTGCTGCTAACTCCAAATCATGAGTAGGATAATTACACTCATGCGGTCGCAGTTGACG
6686965 TGACGCATAAGCCACTACCTTAGCCTCCTGCATTAGAACACAACCAAGTCCTGAATGTGAAGCAT
66 TGACGCATAAGCCACTACCTTAGCCTCCTGCATTAGAACACAACCAAGTCCTGAATGTGAAGCAT
6687030 CACTATACACTGTAAAATCTTTCCCGGACTCTGGTTGAATC-ACACTGGTGCTT
131 CACTATACACTGTAAAATCTTTCCCGGACTCTGGTTGAATCAACACTGGTGCTT
6687083 AAAATCACTGCTGCTAACTCCAAATCATGAGTAGGATAATTACACTCATGCGGTCGCAGTTGACG
1 AAAATCACTGCTGCTAACTCCAAATCATGAGTAGGATAATTACACTCATGCGGTCGCAGTTGACG
*
6687148 TGACGCATAAGCCACTACCTTAGCCTCCTGCATTAGAACTCAACCAAGTCCTGAATGTGAAGCAT
66 TGACGCATAAGCCACTACCTTAGCCTCCTGCATTAGAACACAACCAAGTCCTGAATGTGAAGCAT
6687213 CACTATACACTGTAAAATCTTTCCCGGACTCTGGTTGAATCAACACTGGTGCTT
131 CACTATACACTGTAAAATCTTTCCCGGACTCTGGTTGAATCAACACTGGTGCTT
6687267 GAGTCAAAAC
Statistics
Matches: 180, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
183 168 0.93
184 12 0.07
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (184 bp):
AAAATCACTGCTGCTAACTCCAAATCATGAGTAGGATAATTACACTCATGCGGTCGCAGTTGACG
TGACGCATAAGCCACTACCTTAGCCTCCTGCATTAGAACACAACCAAGTCCTGAATGTGAAGCAT
CACTATACACTGTAAAATCTTTCCCGGACTCTGGTTGAATCAACACTGGTGCTT
Found at i:6691927 original size:29 final size:29
Alignment explanation
Indices: 6691867--6692077 Score: 117
Period size: 29 Copynumber: 7.3 Consensus size: 29
6691857 AAAAATTACA
* * * *
6691867 AAAATATCACCTTTATTAAAAATAATTACC
1 AAAATGTCACCGTT-TTACAAATAATTCCC
*
6691897 AAAATATCACCGTTTTACAAATAATTCCC
1 AAAATGTCACCGTTTTACAAATAATTCCC
* * * * *
6691926 AAAATGTTATCGTTTTAAAAATAATTTCT
1 AAAATGTCACCGTTTTACAAATAATTCCC
* ** *
6691955 AGAATGTCATTGTTTTA-AAA-AAATCCC
1 AAAATGTCACCGTTTTACAAATAATTCCC
** * **
6691982 -AAATGTCACTTTTTTTCAAAATAATTATC
1 AAAATGTCACCGTTTTAC-AAATAATTCCC
* * * * *
6692011 AAAATATCACC-TTTTTCAAAAAAAATCTC
1 AAAATGTCACCGTTTTAC-AAATAATTCCC
* *
6692040 AAAATGTCA-CTTTTTTCAAAATAATTCCC
1 AAAATGTCACCGTTTTAC-AAATAATTCCC
6692069 AAAATGTCA
1 AAAATGTCA
6692078 ATGGGTCGGG
Statistics
Matches: 145, Mismatches: 31, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
26 12 0.08
27 4 0.03
28 7 0.05
29 101 0.70
30 21 0.14
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAATGTCACCGTTTTACAAATAATTCCC
Found at i:6692096 original size:13 final size:13
Alignment explanation
Indices: 6692074--6692115 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
6692064 TTCCCAAAAT
*
6692074 GTCAATGGGTCGG
1 GTCAACGGGTCGG
6692087 GTCAACGGGTCGG
1 GTCAACGGGTCGG
6692100 GTCAACGGGTCGG
1 GTCAACGGGTCGG
6692113 GTC
1 GTC
6692116 GGTCAACGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.19
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:6692121 original size:17 final size:18
Alignment explanation
Indices: 6692092--6692126 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
6692082 GTCGGGTCAA
6692092 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
6692110 CGGGTC-GGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
6692127 GACGTCGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.11, C:0.23, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:6698754 original size:19 final size:19
Alignment explanation
Indices: 6698726--6698766 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6698716 AGCGACATGG
*
6698726 AAATTTCATTTTTGGGA-T
1 AAATTTCATTTATGGGACT
6698744 AAATATTCATTTATGGGACT
1 AAAT-TTCATTTATGGGACT
6698764 AAA
1 AAA
6698767 ATACATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (19 bp):
AAATTTCATTTATGGGACT
Found at i:6706948 original size:44 final size:44
Alignment explanation
Indices: 6706893--6706998 Score: 167
Period size: 44 Copynumber: 2.4 Consensus size: 44
6706883 AACCGAATTA
*
6706893 ATAAATAAAATGCATAATGGTGCATTAAGGCATGAAAGGAAACC
1 ATAACTAAAATGCATAATGGTGCATTAAGGCATGAAAGGAAACC
* **
6706937 ATAACTAAAATGCATAATGGTTCATTAAGGCATGAAAGGATGCC
1 ATAACTAAAATGCATAATGGTGCATTAAGGCATGAAAGGAAACC
*
6706981 ATAACTGAAATGCATAAT
1 ATAACTAAAATGCATAAT
6706999 AACTGAAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (44 bp):
ATAACTAAAATGCATAATGGTGCATTAAGGCATGAAAGGAAACC
Found at i:6707002 original size:16 final size:16
Alignment explanation
Indices: 6706981--6707014 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6706971 AAAGGATGCC
6706981 ATAACTGAAATGCATA
1 ATAACTGAAATGCATA
6706997 ATAACTGAAATGCATA
1 ATAACTGAAATGCATA
6707013 AT
1 AT
6707015 GGTGCATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (16 bp):
ATAACTGAAATGCATA
Found at i:6707044 original size:60 final size:60
Alignment explanation
Indices: 6706937--6707058 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 60
6706927 AAAGGAAACC
* *
6706937 ATAACTAAAATGCATAATGGTTCATTAAGGCATGAAAGGATGCCATAACTGAAATGCATA
1 ATAACTAAAATGCATAATGGTGCATTAAGGCATGAAAGGATACCATAACTGAAATGCATA
* * * * *
6706997 ATAACTGAAATGCATAATGGTGCATTAAGGTATTAAATGATATCATAACTGAAATGCATA
1 ATAACTAAAATGCATAATGGTGCATTAAGGCATGAAAGGATACCATAACTGAAATGCATA
6707057 AT
1 AT
6707059 GGCGCATTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (60 bp):
ATAACTAAAATGCATAATGGTGCATTAAGGCATGAAAGGATACCATAACTGAAATGCATA
Found at i:6707050 original size:44 final size:44
Alignment explanation
Indices: 6706997--6707402 Score: 560
Period size: 44 Copynumber: 9.2 Consensus size: 44
6706987 GAAATGCATA
* * * **
6706997 ATAACTGAAATGCATAATGGTGCATTAAGGTATTAAATGATATC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
* *
6707041 ATAACTGAAATGCATAATGGCGCATTAAAGCATGAAAGGATGCC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
6707085 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
* *
6707129 ATAATTGAAATGCATAATGGTGTATTAAGGCATGAAAGGATGCC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
6707173 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
* * * * *
6707217 ATAACTAAAATCCATAATGGTACATTAAGGCATTAAAAGATGCC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
* * * **
6707261 ATAACTGAAATGCATAAGGGTGCGTTAAGGCATGGAAGGACACC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
* *
6707305 ATAATTGAAATGCATAATGGTGCATTAATGCATGAAAGGATGCC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
* * * * * *
6707349 ATAAATGAAATGCATAACGGTGCAATAAGGCATTAGATGATGCC
1 ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
*
6707393 ATAAATGAAA
1 ATAACTGAAA
6707403 ATAATAAATA
Statistics
Matches: 320, Mismatches: 42, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 320 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (44 bp):
ATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGCC
Found at i:6707074 original size:104 final size:104
Alignment explanation
Indices: 6706891--6707102 Score: 325
Period size: 104 Copynumber: 2.0 Consensus size: 104
6706881 TAAACCGAAT
6706891 TAATAAATAAAATGCATAATGGTGCATTAAGGCATGAAAGGAAACCATAACTAAAATGCATAATG
1 TAATAAATAAAATGCATAATGGTGCATTAAGGCATGAAAGGAAACCATAACTAAAATGCATAATG
** *
6706956 GTTCATTAAGGCATGAAAGGATGCCATAACTGAAATGCA
66 GCGCATTAAAGCATGAAAGGATGCCATAACTGAAATGCA
* * * * * * * *
6706995 TAATAACTGAAATGCATAATGGTGCATTAAGGTATTAAATGATATCATAACTGAAATGCATAATG
1 TAATAAATAAAATGCATAATGGTGCATTAAGGCATGAAAGGAAACCATAACTAAAATGCATAATG
6707060 GCGCATTAAAGCATGAAAGGATGCCATAACTGAAATGCA
66 GCGCATTAAAGCATGAAAGGATGCCATAACTGAAATGCA
6707099 TAAT
1 TAAT
6707103 GGTGCATTAA
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 97 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (104 bp):
TAATAAATAAAATGCATAATGGTGCATTAAGGCATGAAAGGAAACCATAACTAAAATGCATAATG
GCGCATTAAAGCATGAAAGGATGCCATAACTGAAATGCA
Found at i:6712479 original size:54 final size:53
Alignment explanation
Indices: 6712334--6712711 Score: 241
Period size: 54 Copynumber: 7.0 Consensus size: 53
6712324 TTTCTTGATA
* * * * *
6712334 TGATGTTTTCAAACGAA-TATGAAAGAAGCTAAGACTGATTTTCAGGGGTTTCT
1 TGATATTTTCAAA-GAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * *
6712387 TGATATTTTCAACA-AATTTAG-AAGAAGTTAAGCCTAATTTTTAGGAGTCTCT
1 TGATATTTTCAA-AGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
6712439 TGATATTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
1 TGATATTTTCAAA-GAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *** * * * ** * * *
6712493 TGATATTTTCAAAAGAGTTTTTTTATAAACTATGTATGATTTTCAGAGGTTTCT
1 TGATATTTTC-AAAGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* ** * *
6712547 TGACATGAT--GA-AATTTT-AAAGAAGCTAAGCCTAATTTTTAGGGCTTTCTT
1 TGATATTTTCAAAGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTC-T
* * * * * * * **
6712597 GGTGATTATTTCCAATGATTTTTTTAAAGAAACTAAGCCTGATTTTCAATGGTTTCTT
1 --TGA-TATTTTCAAAGA-ATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTC-T
* *
6712655 GATGATTATTTTCAAAGAAGTTTT-AAAGAAACTAAGCCTAATTTTAAGGGGTTTCT
1 --TGA-TATTTTCAAAGAA-TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
6712711 T
1 T
6712712 CATGATATCT
Statistics
Matches: 247, Mismatches: 62, Indels: 31
0.73 0.18 0.09
Matches are distributed among these distances:
49 20 0.08
50 6 0.02
51 2 0.01
52 42 0.17
53 21 0.09
54 74 0.30
55 3 0.01
56 2 0.01
57 31 0.13
58 46 0.19
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.40
Consensus pattern (53 bp):
TGATATTTTCAAAGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
Found at i:6712666 original size:103 final size:102
Alignment explanation
Indices: 6712454--6712674 Score: 245
Period size: 103 Copynumber: 2.1 Consensus size: 102
6712444 TTTTCAAATG
* * *
6712454 AATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATATTTTCAAAAGAGTTTTTTTAT
1 AATTTTCAAAGAAGCTAAGCCTAATTTTTAGGGCTTTCTTGATATTTTCAAAAGAGTTTTTTTAG
* *
6712519 AAACTATGTATGATTTTCAGAGGTTTCTTGACATGATGA
66 AAACTAAGCATGATTTTCAGAGGTTTCTTGA-ATGAT-A
* * *
6712558 AATTTT-AAAGAAGCTAAGCCTAATTTTTAGGGCTTTCTTGGTGATTATTTCCAATGA-TTTTTT
1 AATTTTCAAAGAAGCTAAGCCTAATTTTTAGGGCTTTCTTGAT-A-T-TTTCAAAAGAGTTTTTT
*
6712621 TAAAGAAACTAAGCCTGATTTTCA-ATGGTTTCTTG-ATGAT-
63 T--AGAAACTAAGCATGATTTTCAGA-GGTTTCTTGAATGATA
*
6712661 TATTTTCAAAGAAG
1 AATTTTCAAAGAAG
6712675 TTTTAAAGAA
Statistics
Matches: 101, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
103 39 0.39
104 14 0.14
105 13 0.13
106 9 0.09
107 26 0.26
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (102 bp):
AATTTTCAAAGAAGCTAAGCCTAATTTTTAGGGCTTTCTTGATATTTTCAAAAGAGTTTTTTTAG
AAACTAAGCATGATTTTCAGAGGTTTCTTGAATGATA
Found at i:6712699 original size:57 final size:57
Alignment explanation
Indices: 6712560--6712772 Score: 205
Period size: 58 Copynumber: 3.7 Consensus size: 57
6712550 CATGATGAAA
* * * * **
6712560 TTTTAAAGAAGCTAAGCCTAATTTTTAGGGCTTTCTTGGTGATTATTTCCAATGATTT
1 TTTTAAAGAAACTAAGCCTAATTTTAAGGG-TTTCTTGATGATTATTTCCAAAGATAG
* * *
6712618 TTTTAAAGAAACTAAGCCTGATTTTCAATGGTTTCTTGATGATTATTTTCAAAGA-AG
1 TTTTAAAGAAACTAAGCCTAATTTT-AAGGGTTTCTTGATGATTATTTCCAAAGATAG
* * ** * *
6712675 TTTTAAAGAAACTAAGCCTAATTTTAAGGGGTTTCTTCATGA-TATCTGTAAATGAAAT
1 TTTTAAAGAAACTAAGCCTAATTTTAA-GGGTTTCTTGATGATTATTTCCAAA-GATAG
* * *
6712733 TTTTTAAGAAACTAAGCTTGATATTTAAGGGTTTCTTGAT
1 TTTTAAAGAAACTAAGCCTAAT-TTTAAGGGTTTCTTGAT
6712773 TAATAAGTCC
Statistics
Matches: 130, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
56 9 0.07
57 38 0.29
58 75 0.58
59 8 0.06
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (57 bp):
TTTTAAAGAAACTAAGCCTAATTTTAAGGGTTTCTTGATGATTATTTCCAAAGATAG
Found at i:6712766 original size:115 final size:115
Alignment explanation
Indices: 6712560--6712772 Score: 281
Period size: 115 Copynumber: 1.9 Consensus size: 115
6712550 CATGATGAAA
* * ** * *
6712560 TTTTAAAGAAGCTAAGCCTAATTTTTAGGGCTTTCTTGGTGATTATTTCCAATGATTTTTTTAAA
1 TTTTAAAGAAACTAAGCCTAATTTTAAGGGCTTTCTTCATGATTATTTCAAATGAATTTTTTAAA
*
6712625 GAAACTAAGCCTGATTTTCAATGGTTTCTTGATGATTATTTTCAAAGAAG
66 GAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATTATTTTCAAAGAAG
*
6712675 TTTTAAAGAAACTAAGCCTAATTTTAAGGGGTTTCTTCATGA-TATCTGT-AAATGAAATTTTTT
1 TTTTAAAGAAACTAAGCCTAATTTTAAGGGCTTTCTTCATGATTAT-T-TCAAATG-AATTTTTT
*
6712738 -AAGAAACTAAGCTTGATATTT-AAGGGTTTCTTGAT
63 AAAGAAACTAAGCCTGAT-TTTCAAGGGTTTCTTGAT
6712773 TAATAAGTCC
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
114 3 0.04
115 71 0.84
116 11 0.13
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (115 bp):
TTTTAAAGAAACTAAGCCTAATTTTAAGGGCTTTCTTCATGATTATTTCAAATGAATTTTTTAAA
GAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATTATTTTCAAAGAAG
Found at i:6713281 original size:241 final size:243
Alignment explanation
Indices: 6712776--6713352 Score: 876
Period size: 241 Copynumber: 2.4 Consensus size: 243
6712766 TCTTGATTAA
* * * *
6712776 TAAGTCCTTCGGGTCATCAGCAAGTCTTTCAAGCATGATGTTTAAATCCTTCGAGTCATCTATAA
1 TAAGTCCTTCGGGTCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * *
6712841 GTCTTTTGAGTAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGGATGTTTTAAC
66 GTCTTTTGAGTAAGATGATAAGTCCTTCAAGCCATCCATAAGACATACGGGTAGGATGTTTTAAC
* * * * *
6712906 ATGATTTTTGAACAAAATGATAAAGTGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAATT
131 ATGATTTTCGAACAAAATAAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAAAT
* *
6712971 GACTTTTCTTGAAAAGTCAGAAAACGATTTCCAAAGTTTCTTACTTAG
196 GACTTTTCTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTGAG
* * *
6713019 TAAGTTCTTCGGG-CAATCAGTAAGTCTTTTGAGCTTGATGCTTAAATCCTTCGGGTCATCTATA
1 TAAGTCCTTCGGGTC-ATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCGGGTCATCTATA
6713083 AGTCTTTTGAGTAAGATGATAAGTCCTTCAAGCCATCCATAAGACATACGGGT-GGATGTTTTAA
65 AGTCTTTTGAGTAAGATGATAAGTCCTTCAAGCCATCCATAAGACATACGGGTAGGATGTTTTAA
*
6713147 CATTG-TTTTCGAA-AAAATAAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAA
130 CA-TGATTTTCGAACAAAATAAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAA
*
6713210 ATGA-TTTCTCTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTGAG
194 ATGACTTT-TCTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTGAG
* *
6713260 TAAGTCCTTCGGGTCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCAGGTCATGTATAA
1 TAAGTCCTTCGGGTCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* **
6713325 GTCTTTCGAACAAGATGATAAGTCCTTC
66 GTCTTTTGAGTAAGATGATAAGTCCTTC
6713353 GGGCCATCAG
Statistics
Matches: 303, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
240 3 0.01
241 171 0.56
242 22 0.07
243 107 0.35
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (243 bp):
TAAGTCCTTCGGGTCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
GTCTTTTGAGTAAGATGATAAGTCCTTCAAGCCATCCATAAGACATACGGGTAGGATGTTTTAAC
ATGATTTTCGAACAAAATAAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAAAT
GACTTTTCTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTGAG
Found at i:6713362 original size:83 final size:83
Alignment explanation
Indices: 6713260--6713442 Score: 294
Period size: 83 Copynumber: 2.2 Consensus size: 83
6713250 TCTTACTGAG
* * *
6713260 TAAGTCCTTCGGGTCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCAGGTCATGTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATACTTCAGGTCATGTATAA
6713325 GTCTTTCGAACAAGATGA
66 GTCTTTCGAACAAGATGA
* *
6713343 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATGTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATACTTCAGGTCATGTATAA
**
6713408 GTCTTTCGGGCAAGATGA
66 GTCTTTCGAACAAGATGA
*
6713426 TAAGTCCTTCAGGCCAT
1 TAAGTCCTTCGGGCCAT
6713443 TTATAAGATT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 92 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (83 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATACTTCAGGTCATGTATAA
GTCTTTCGAACAAGATGA
Found at i:6713415 original size:42 final size:42
Alignment explanation
Indices: 6713264--6713424 Score: 166
Period size: 42 Copynumber: 3.9 Consensus size: 42
6713254 ACTGAGTAAG
** *
6713264 TCCTTCGGGTCATCAGTAAGTCTTTTAAGCATGATGCTTAAA
1 TCCTTCGGGTCATCAGTAAGTCTTTCGAGCAAGATGCTTAAA
* * * * *
6713306 TCCTTCAGGTCATGTA-TAAGTCTTTCGAACAAGATG-ATAAG
1 TCCTTCGGGTCAT-CAGTAAGTCTTTCGAGCAAGATGCTTAAA
* *
6713347 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGTCATCAGTAAGTCTTTCGAGCAAGATGCTTAAA
* * *
6713389 TACTTCGGGTCATGTA-TAAGTCTTTCGGGCAAGATG
1 TCCTTCGGGTCAT-CAGTAAGTCTTTCGAGCAAGATG
6713425 ATAAGTCCTT
Statistics
Matches: 95, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 1 0.01
41 32 0.34
42 60 0.63
43 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGTCATCAGTAAGTCTTTCGAGCAAGATGCTTAAA
Found at i:6713614 original size:325 final size:324
Alignment explanation
Indices: 6713019--6713707 Score: 936
Period size: 325 Copynumber: 2.1 Consensus size: 324
6713009 TCTTACTTAG
* * * * *
6713019 TAAGTTCTTCGGGCAATCAGTAAGTCTTTTGAGCTTGATGCTTAAATCCTTCGGGTCATCTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATCTATAA
* *
6713084 GTCTTTTGAGTAAGATGATAAGTCCTTCAAGCCATCCATAAGACATACGGGTGGATGTTTTAACA
66 GTCTTTCGAGCAAGATGATAAGTCCTTCAAGCCATCCATAAGACATACGGGTGGATGTTTTAACA
* * *
6713149 TTGTTTTCGAAAAAATAAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAAATGA
131 TTGTTTTCAAAAAAATAAGAAAGCGATTTACAAAGTTTCTCATTTAAATATTTTCTGAAAAATGA
* ** *
6713214 TTTCTCTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTGAGTAAGTCCTTCGGGTCATCA
196 TTTCTCTTAAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACTGAGTAAGTCCTTCGGGCCATCA
*
6713279 GTAAGTCTTTTAAGCATGATGCTTAAATCCTTCAGGTCATGTATAAGTCTTTCGAACAAGATGA
261 GTAAGTCTTTTAAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAACAAGATGA
*
6713343 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATGTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATCTATAA
* * ** ** ** *
6713408 GTCTTTCGGGCAAGATGATAAGTCCTTCAGGCCATTTATAAGATTTTTGGGCAT-GATGTTTTCA
66 GTCTTTCGAGCAAGATGATAAGTCCTTCAAGCCATCCATAAGACATACGGG--TGGATGTTTTAA
* * * * *
6713472 CA-TGATTTTCAAAAAAATGATAAAGCGATTTACAAAGTTTCTCATTTAAATATTTTTTGACAAT
129 CATTG-TTTTCAAAAAAATAAGAAAGCGATTTACAAAGTTTCTCATTTAAATATTTTCTGAAAAA
* * * *
6713536 TTATTTTTCTTAAAAAGTGAGAAAGCAATTTCCAAAGTTTCTTACTGAGTAAGTCCTTCGGGCCA
193 TGATTTCTCTTAAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACTGAGTAAGTCCTTCGGGCCA
* * * * *
6713601 TCAGTAAGTCTTTTGAGCTTGATGTTTAAATCTTTCAGGTCATCTATAAGTCTTTCGAGCAAGAT
258 TCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAACAAGAT
*
6713666 GG
323 GA
*
6713668 TAAGTCCTTCGGGCCATTCA-TAAGAT-TTTCGGGCATGATG
1 TAAGTCCTTCGGGCCA-TCAGTAAG-TCTTTCGAGCATGATG
6713708 TTTCCACATG
Statistics
Matches: 319, Mismatches: 41, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
324 102 0.32
325 212 0.66
326 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (324 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATCTATAA
GTCTTTCGAGCAAGATGATAAGTCCTTCAAGCCATCCATAAGACATACGGGTGGATGTTTTAACA
TTGTTTTCAAAAAAATAAGAAAGCGATTTACAAAGTTTCTCATTTAAATATTTTCTGAAAAATGA
TTTCTCTTAAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACTGAGTAAGTCCTTCGGGCCATCA
GTAAGTCTTTTAAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAACAAGATGA
Found at i:6722281 original size:16 final size:15
Alignment explanation
Indices: 6722232--6722284 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
6722222 CCCGAATCAA
6722232 AACTAAAAATAACCTG
1 AACT-AAAATAACCTG
* *
6722248 AACCAAAACAACCTG
1 AACTAAAATAACCTG
*
6722263 AACTAAAATTAACCCG
1 AACTAAAA-TAACCTG
6722279 AACTAA
1 AACTAA
6722285 CAGAAACTCG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 17 0.55
16 14 0.45
ACGTcount: A:0.55, C:0.25, G:0.06, T:0.15
Consensus pattern (15 bp):
AACTAAAATAACCTG
Found at i:6722446 original size:18 final size:19
Alignment explanation
Indices: 6722407--6722462 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
6722397 TAATAAATTA
*
6722407 ATTTA-AATAAAATTGATA-
1 ATTTATAATAAAA-TAATAG
* *
6722425 ATTTATTA-AAAATATTAG
1 ATTTATAATAAAATAATAG
6722443 ATTTATAATAAAATAATAG
1 ATTTATAATAAAATAATAG
6722462 A
1 A
6722463 AAGTTTAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.10
18 16 0.53
19 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTTATAATAAAATAATAG
Found at i:6723240 original size:5 final size:4
Alignment explanation
Indices: 6723189--6723356 Score: 60
Period size: 4 Copynumber: 40.8 Consensus size: 4
6723179 AAGGTAGTGA
* * * *
6723189 AAAT AAAT AAGAT AAAA AAAC AATT AAA- AAAC AAAT GAAAT AAAT AAGAT
1 AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AA-AT
* * *
6723239 AAAAT AAAG AAAGT AAA- AAAT AAAAT GAAGAT AGAT AGGAT AAAT ATAAT
1 -AAAT AAAT AAA-T AAAT AAAT -AAAT -AA-AT AAAT A-AAT AAAT A-AAT
* * * ** * * *
6723289 -AAT AAAA AAAT -AAG AAAG AAGC AAAG AGAA- AACT ATAT A-AT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT
6723334 AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
6723357 AACTAGAAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 32
0.71 0.12 0.18
Matches are distributed among these distances:
3 15 0.12
4 77 0.61
5 31 0.24
6 4 0.03
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:6723384 original size:53 final size:54
Alignment explanation
Indices: 6723278--6723385 Score: 121
Period size: 53 Copynumber: 2.0 Consensus size: 54
6723268 GATAGATAGG
* * * ** *
6723278 ATAAATATAATAATAAAAAAATAAGAAAGAAGCAAAGAGAAAACTATATAATAA
1 ATAAATATAATAATAAAAAAATAAGAAACAAGAAAAAAGAAAAAAATACAATAA
* *
6723332 ATAAATA-AATAAATAAATAAATAA-AAACTAGAAAAAAGAAAAAAATACAATAA
1 ATAAATATAAT-AATAAAAAAATAAGAAACAAGAAAAAAGAAAAAAATACAATAA
6723385 A
1 A
6723386 GATAAAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
53 26 0.58
54 19 0.42
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.18
Consensus pattern (54 bp):
ATAAATATAATAATAAAAAAATAAGAAACAAGAAAAAAGAAAAAAATACAATAA
Found at i:6723432 original size:23 final size:23
Alignment explanation
Indices: 6723374--6723434 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
6723364 AAAAAGAAAA
6723374 AAATACAAT-AAAGATAAAAAAGG
1 AAATACAATGAAA-ATAAAAAAGG
* *
6723397 AAATA-AAAG-AAATAAAAAAGT
1 AAATACAATGAAAATAAAAAAGG
*
6723418 ATATACAATGAAAATAA
1 AAATACAATGAAAATAA
6723435 TAATATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 13 0.42
22 7 0.23
23 11 0.35
ACGTcount: A:0.70, C:0.03, G:0.10, T:0.16
Consensus pattern (23 bp):
AAATACAATGAAAATAAAAAAGG
Found at i:6723449 original size:18 final size:18
Alignment explanation
Indices: 6723406--6723451 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6723396 GAAATAAAAG
6723406 AAATAAAA-AAGTATATA
1 AAATAAAATAAGTATATA
*
6723423 CAATGAAAATAA-TAATATA
1 AAAT-AAAATAAGT-ATATA
6723442 AAATAAAATA
1 AAATAAAATA
6723452 TATATGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (18 bp):
AAATAAAATAAGTATATA
Found at i:6723466 original size:30 final size:30
Alignment explanation
Indices: 6723430--6723486 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6723420 ATACAATGAA
6723430 AATAATAAT-ATAAAATAAAATATATATGTT
1 AATAATAATGA-AAAATAAAATATATATGTT
*
6723460 AATAATAATGAAAAATAATATATATAT
1 AATAATAATGAAAAATAAAATATATAT
6723487 ATATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (30 bp):
AATAATAATGAAAAATAAAATATATATGTT
Found at i:6724076 original size:30 final size:33
Alignment explanation
Indices: 6724011--6724079 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 33
6724001 GCTGCTTTTG
* *
6724011 GTTTTTCAGTGTTGTATTTGGTTTTTGCTTACT
1 GTTTTTCAGTGTTGTATTTGGTTGTGGCTTACT
6724044 GTTTTTC-GTG-T-TATTTGGTTGTGGCTCT-CT
1 GTTTTTCAGTGTTGTATTTGGTTGTGGCT-TACT
6724074 GTTTTT
1 GTTTTT
6724080 TTATGTTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 21 0.64
31 2 0.06
32 3 0.09
33 7 0.21
ACGTcount: A:0.06, C:0.10, G:0.23, T:0.61
Consensus pattern (33 bp):
GTTTTTCAGTGTTGTATTTGGTTGTGGCTTACT
Found at i:6724730 original size:34 final size:31
Alignment explanation
Indices: 6724692--6724773 Score: 78
Period size: 34 Copynumber: 2.5 Consensus size: 31
6724682 TTTTTTAAAA
6724692 ATTATATAATTTCAAAA-GCATTTTCAAACTATAT
1 ATTATATAATTTCAAAATG--TTTTCAAA--ATAT
* *
6724726 ATTATATATGTTTAAAAATGTTTTCAAAATAT
1 ATTATATA-ATTTCAAAATGTTTTCAAAATAT
*
6724758 A-TATATATTTTCAAAA
1 ATTATATAATTTCAAAA
6724774 AATATTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
30 7 0.17
31 6 0.14
32 5 0.12
34 16 0.38
35 7 0.17
36 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (31 bp):
ATTATATAATTTCAAAATGTTTTCAAAATAT
Found at i:6724770 original size:19 final size:19
Alignment explanation
Indices: 6724746--6724805 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
6724736 TTTAAAAATG
6724746 TTTTCAAAATATATATATA
1 TTTTCAAAATATATATATA
* *
6724765 TTTTCAAAAAATAT-TTTA
1 TTTTCAAAATATATATATA
*
6724783 TTTTAAAAAACTATATAGTATA
1 TTTT-CAAAA-TATATA-TATA
6724805 T
1 T
6724806 ATATGGTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.22
19 17 0.53
20 4 0.12
22 4 0.12
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTTCAAAATATATATATA
Found at i:6724968 original size:37 final size:35
Alignment explanation
Indices: 6724717--6725076 Score: 246
Period size: 37 Copynumber: 9.5 Consensus size: 35
6724707 AAGCATTTTC
*
6724717 AAACTATATATTATATATGTTT-AAAAATGTTTT-C
1 AAACTATATATTATATAT-TTTCAAAAATGTTTTAA
*
6724751 AAA--ATATA-TATATATTTTCAAAAAATATTTTATTTTAAA
1 AAACTATATATTATATATTTTC--AAAA-A---TGTTTT-AA
6724790 AAACTATATAGTATATATATGGTTTCAAAAAAATGGTTTTCTCAA
1 AAACTATATA-T-TATATAT--TTTC--AAAAAT-G-TTT-T-AA
**** *
6724835 AAACTATATATTATATATTTTTTCAAAAAAAAAAATTCA
1 AAACTATATATTATATA--TTTTC--AAAAATGTTTTAA
* *
6724874 AAACTATATATTATATGTTTTCAAAAATATTTTTTTTTAA
1 AAACTATATATTATATATTTTC-AAAA-A---TGTTTTAA
*
6724914 AAACTATATATTATATATTTTC-AAAATGATTTCGAA
1 AAACTATATATTATATATTTTCAAAAATG-TTT-TAA
* *
6724950 AATAATATATATTATATATTTTCTAAAATGTTTTAA
1 AA-ACTATATATTATATATTTTCAAAAATGTTTTAA
6724986 AAACTATATATTATATAATTTTCAAAAATGTTTTAA
1 AAACTATATATTATAT-ATTTTCAAAAATGTTTTAA
*
6725022 AAACTATATAATATATATTTTTTCAAAAATGTTTTAAA
1 AAACTATAT-AT-TATATATTTTCAAAAATGTTTT-AA
*
6725060 AAACTATATGTTATATA
1 AAACTATATATTATATA
6725077 CTTATTTTCC
Statistics
Matches: 268, Mismatches: 25, Indels: 64
0.75 0.07 0.18
Matches are distributed among these distances:
30 3 0.01
31 7 0.03
32 5 0.02
33 4 0.01
34 5 0.02
35 16 0.06
36 45 0.17
37 53 0.20
38 25 0.09
39 20 0.07
40 25 0.09
41 6 0.02
42 1 0.00
43 17 0.06
44 11 0.04
45 15 0.06
46 10 0.04
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (35 bp):
AAACTATATATTATATATTTTCAAAAATGTTTTAA
Found at i:6725115 original size:2 final size:2
Alignment explanation
Indices: 6725104--6725167 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
6725094 ATTTGCAAAC
6725104 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
6725145 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
6725168 GTAAAAAATG
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6725823 original size:84 final size:84
Alignment explanation
Indices: 6725680--6726665 Score: 852
Period size: 84 Copynumber: 11.9 Consensus size: 84
6725670 TTATTGATAA
* * * * * * * ** *
6725680 ATAACCCTTCTTGCCTTGAGCTATACTATAAATGATGTGCCTCAGAGCTGAGCGTAGTCGATCTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
*
6725745 AAAGGTCTTTTGTTGGCAG
66 GAAGGTCTTTTGTTGGCAG
* * * * *
6725764 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATACCTTGGAGCTAAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
6725829 GAAGGTC-TTTGGTGACAG
66 GAAGGTCTTTTGTTGGCAG
* * * * * * * * * *
6725847 ATAACCCTTCGAGCCTTGAGTTATACTGTAAATGATATGCCCTCGAAGCTGAGTGCAATCAAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACT
**
6725912 CGGGGGTCTTTTG-T---AG
65 CGAAGGTCTTTTGTTGGCAG
* * * * *
6725928 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
*
6725993 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTTGTTGGCAG
* * ** *
6726012 ATAACCCTTCTCGACTTAAGTTATGCTATAAAAAATATGCCTTGGAGCTGAGCATAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
6726077 GAAGGTCTTTTGGTGACAG
66 GAAGGTCTTTTGTTGGCAG
* * * * * * * * *
6726096 ATAACCCTTCTAGCCTTGAGTTATGCTGTATATGATGTTCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGAT-ATGCCTTGGAGCTGAGCGTAGTCGAACT
** *
6726161 CGGGGGTC---T-TTGGTAG
65 CGAAGGTCTTTTGTTGGCAG
* * * * * * * *
6726177 ATAGCCCTTCTCGACTTAAGCTGTGCTGCAAATGATGTGCCTTGGACCTGAGCGTAGTCAAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
6726242 GAAGGTCTTTGGTTGCCAG
66 GAAGGTCTTTTGTTGGCAG
* * * * * * * * *
6726261 ATAACCCTTCTCGACTTGAGTTATGCTATAAATGATATGCCCTCGAAGTTGAGTGTAATTGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACT
*** *
6726326 ---AGGGGGTAT-TTGGCAG
65 CGAAGGTCTTTTGTTGGCAG
* * * * *
6726342 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACT
* ** *
6726406 CAAATCTCTTGTGTTGGCAG
65 CGAAGGTCTTTTGTTGGCAG
* * ** * *
6726426 ACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* **
6726491 GAAGGTCTTTTGGTCACAG
66 GAAGGTCTTTTGTTGGCAG
* * * *
6726510 ATAACCCTTCTAGCCTTGAGTTATGCTGTGAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* **
6726575 GAAGGTC--TTGGTCACAG
66 GAAGGTCTTTTGTTGGCAG
* * * * *
6726592 ATAACCCTTCTAGCCTTGAGTTATGCTGTGAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
6726657 GAAGGTCTT
66 GAAGGTCTT
6726666 GACTGACAGA
Statistics
Matches: 712, Mismatches: 170, Indels: 40
0.77 0.18 0.04
Matches are distributed among these distances:
80 72 0.10
81 105 0.15
82 86 0.12
83 45 0.06
84 356 0.50
85 48 0.07
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (84 bp):
ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTTGTTGGCAG
Found at i:6726206 original size:249 final size:248
Alignment explanation
Indices: 6725709--6726632 Score: 1095
Period size: 249 Copynumber: 3.7 Consensus size: 248
6725699 GCTATACTAT
** * * * * *
6725709 AAATGATGTGCCTCAGAGCTGAGCGTAGTCGATCTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
* ** * *
6725774 TAGACTTAAGTTGTGCTGCAAATGATATACCTTGGAGCTAAGCGTAGTCGAACTCGAAGGTCTTT
66 TAGACTTAAGTTATGCTATAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
* * * *
6725839 GGTGACAGATAACCCTTCGAGCCTTGAGTTATACTGTAAATGATATGCCCTCGAAGCTGAGTGCA
131 GGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTA
* * *
6725904 ATCAAACTCGGGGGTCTTTTGTAGATAGCCCTTCTCGACTTAAGCTATGCTGC
196 ATCGAACTCGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAGCTGTGCTGC
*
6725957 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
* ** *
6726022 TCGACTTAAGTTATGCTATAAAAAATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTT
66 TAGACTTAAGTTATGCTATAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT
* *
6726087 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTATATGATGTTCCCTCGAAGCTGAGTGT
130 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGT
6726152 AATCGAACTCGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAGCTGTGCTGC
195 AATCGAACTCGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAGCTGTGCTGC
* *
6726206 AAATGATGTGCCTTGGACCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGCCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
* * * * * * * * * ** *
6726271 TCGACTTGAGTTATGCTATAAATGATATGCCCTCGAAGTTGAGTGTAATTGAACTAGGGGGTATT
66 TAGACTTAAGTTATGCTATAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
* * * * * * * * *
6726336 T-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGT
130 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGT
* ***** * * * * * *
6726397 AGTCGAACTCAAATCTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTAC
195 AATCGAACTCGGGGGTC---T-TTGGTAGATAGCCCTTCTCGACTTAAGCTGTGCTGC
* * **
6726455 AAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCGAAGGTCTTTTGG-TCACAGATAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTT
* * * * *
6726519 CTAGCCTTGAGTTATGCTGTGAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-T
65 CTAGACTTAAGTTATGCTATAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
* *
6726583 TGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTGAATGATGTGCC
130 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
6726633 TTGGAGCTGA
Statistics
Matches: 574, Mismatches: 92, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
245 20 0.03
246 38 0.07
247 3 0.01
248 138 0.24
249 311 0.54
250 64 0.11
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (248 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
TAGACTTAAGTTATGCTATAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
GGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTA
ATCGAACTCGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAGCTGTGCTGC
Found at i:6726243 original size:165 final size:165
Alignment explanation
Indices: 6725680--6726665 Score: 779
Period size: 165 Copynumber: 6.0 Consensus size: 165
6725670 TTATTGATAA
* * * * ** ** *
6725680 ATAACCCTTCTTGCCTTGAGCTATACTATAAATGATGTGCCTCAGAGCTGAGCGTAGTCGATCTC
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * * * ** * * * *
6725745 AAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGAT-ATACCTTGG
66 GAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTATAAATGATGTTCCCTCGA
* *
6725809 AGCTAAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAG
130 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGT--CAG
** * * * * * * * * * * * *
6725847 ATAACCCTTCGAGCCTTGAGTTATACTGTAAATGATATGCCCTCGAAGCTGAGTGCAATCAAACT
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
** * * * * * ** * * *
6725912 CGGGGGTCTTT--TG-TAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG-TGCCTTGG
65 CGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTATAAATGATGTTCCCTCGA
*
6725973 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
130 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGG-T--CAG
* ** ** * *
6726012 ATAACCCTTCTCGACTTAAGTTATGCTATAAAAAATATGCCTTGGAGCTGAGCATAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * *
6726077 GAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTATATGATGTTCCCTCGA
66 GAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTATAAATGATGTTCCCTCGA
* **
6726142 AGCTGAGTGTAATCGAACTCGGGGGTCTTTGGT-AG
130 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTCAG
* * * *
6726177 ATAGCCCTTCTCGACTTAAGCTGTGCTGCAAATGATGTGCCTTGGACCTGAGCGTAGTCAAACTC
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * *
6726242 GAAGGTCTTTGGTTGCCAGATAACCCTTCTCGACTTGAGTTATGCTATAAATGATATGCCCTCGA
66 GAAGGTCTTTGG-TGACAGATAACCCTTCTAGACTTGAGTTATGCTATAAATGATGTTCCCTCGA
* * * * ** *
6726307 AGTTGAGTGTAATTGAACTAGGGGGTATTTGG-CAG
130 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTCAG
*
6726342 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* ** * * * * * * * * *
6726406 CAAATCTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGAT-ATGCCTTG
65 CGAAGGTCTT-TGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTATAAATGATGTTCCCTCG
* * * *
6726470 GAGCTAAGCGTAGTCAAACTCGAAGGTCTTTTGGTCACAG
129 AAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGT--CAG
* * * * **
6726510 ATAACCCTTCTAGCCTTGAGTTATGCTGTGAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * * * *
6726575 GAAGGTC-TTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTGAATGATG-TGCCTTGGA
66 GAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTATAAATGATGTTCCCTCGAA
* *
6726638 GCTGAGCATAGTCGAACTCGAAGGTCTT
131 GCTGAGCGTAATCGAACTCGAAGGTCTT
6726666 GACTGACAGA
Statistics
Matches: 672, Mismatches: 129, Indels: 38
0.80 0.15 0.05
Matches are distributed among these distances:
164 121 0.18
165 287 0.43
166 71 0.11
167 42 0.06
168 118 0.18
169 33 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTATAAATGATGTTCCCTCGAA
GCTGAGCGTAATCGAACTCGAAGGTCTTTGGTCAG
Found at i:6732204 original size:3 final size:3
Alignment explanation
Indices: 6732196--6732231 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
6732186 ATATATATGT
6732196 TAA TAA TAA TGAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
6732232 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6732213 original size:25 final size:23
Alignment explanation
Indices: 6732185--6732242 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
6732175 TATAAAATGA
*
6732185 AATATATATGTTAATAATAATGAAT
1 AATATATAT-ATAATAATAAT-AAT
6732210 AATA-ATA-ATAATAATAATAAT
1 AATATATATATAATAATAATAAT
6732231 -ATATATATATAA
1 AATATATATATAA
6732243 ATATATAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.10
21 6 0.20
22 14 0.47
24 3 0.10
25 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
AATATATATATAATAATAATAAT
Found at i:6732823 original size:30 final size:33
Alignment explanation
Indices: 6732758--6732826 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 33
6732748 GTTGCTTTTG
* *
6732758 GTTTTTCAGTGTTGTATTTGGTTTTTGCTTACT
1 GTTTTTCAGTGTTGTATTTGGTTGTGGCTTACT
6732791 GTTTTTC-GTG-T-TATTTGGTTGTGGCTCT-CT
1 GTTTTTCAGTGTTGTATTTGGTTGTGGCT-TACT
6732821 GTTTTT
1 GTTTTT
6732827 TTATGTTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 21 0.64
31 2 0.06
32 3 0.09
33 7 0.21
ACGTcount: A:0.06, C:0.10, G:0.23, T:0.61
Consensus pattern (33 bp):
GTTTTTCAGTGTTGTATTTGGTTGTGGCTTACT
Found at i:6733522 original size:33 final size:34
Alignment explanation
Indices: 6733438--6733783 Score: 96
Period size: 32 Copynumber: 9.4 Consensus size: 34
6733428 TTTTTTTAAA
* *
6733438 ATTATATAATTTCAAAAGCATTTTCAAACTATAT
1 ATTATATATTTTCAAAAACATTTTCAAACTATAT
**
6733472 ATTATATATGTTT-AAAAATGTTTTC-AA-TATAT
1 ATTATATAT-TTTCAAAAACATTTTCAAACTATAT
* *
6733504 ATATATATATTTTCAAAAAATATTTTATTTTAAAAAAACTATAT
1 AT-TATATATTTTC--AAAA-A---CATTTT---CAAACTATAT
*
6733548 AGTATATATATGTTTTCAAAAAAATGGTTTTCTCAAAAACTATAT
1 A-T-TATATA--TTTTCAAAAACA----TTT-TC--AAACTATAT
**
6733593 ATTATATATATTTTCAAAAA-AAATTCAAAACTATAT
1 A-T-TATATATTTTCAAAAACATTTTC-AAACTATAT
* * *
6733629 ATTATATGTTTTCAAAAATATTTTTTTAAAAACCTATAT
1 ATTATATATTTTCAAAAACA---TTTT-CAAA-CTATAT
** *
6733668 ATTATATATTTTCAAAATGA-TTTCGAAAATAATATAT
1 ATTATATATTTTCAAAAACATTTTC---AA-ACTATAT
* ** *
6733705 ATTATATATTTTCTAAAATGTTTTAAAAACTATAT
1 ATTATATATTTTCAAAAACATTTT-CAAACTATAT
* ** *
6733740 A-T-TA-ATTTTCCAAAATGTTTTAAAAACTATAT
1 ATTATATATTTTCAAAAACATTTT-CAAACTATAT
*
6733772 AATATATATTTT
1 ATTATATATTTT
6733784 TTTCAAAAAT
Statistics
Matches: 246, Mismatches: 27, Indels: 77
0.70 0.08 0.22
Matches are distributed among these distances:
32 38 0.15
33 12 0.05
34 35 0.14
35 24 0.10
36 14 0.06
37 25 0.10
38 10 0.04
39 28 0.11
41 1 0.00
42 1 0.00
43 12 0.05
44 7 0.03
45 33 0.13
46 1 0.00
47 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (34 bp):
ATTATATATTTTCAAAAACATTTTCAAACTATAT
Found at i:6733523 original size:34 final size:34
Alignment explanation
Indices: 6733457--6733529 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 34
6733447 TTTCAAAAGC
6733457 ATTTTCAAACTATATATTATATATGTTTAAAAAT
1 ATTTTCAAACTATATATTATATATGTTTAAAAAT
*
6733491 GTTTTC-AA-TATATATATATATAT-TTTCAAAAAAT
1 ATTTTCAAACTATATAT-TATATATGTTT--AAAAAT
6733525 ATTTT
1 ATTTT
6733530 ATTTTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 10 0.29
33 9 0.26
34 15 0.44
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (34 bp):
ATTTTCAAACTATATATTATATATGTTTAAAAAT
Found at i:6733526 original size:21 final size:21
Alignment explanation
Indices: 6733492--6733554 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 21
6733482 TTTAAAAATG
* *
6733492 TTTTCAATATATATATATATA
1 TTTTCAAAAAATATATATATA
6733513 TTTTCAAAAAATAT-T-T-TA
1 TTTTCAAAAAATATATATATA
*
6733531 TTTTAAAAAAACTATATAGTATA
1 TTTTCAAAAAA-TATATA-TATA
6733554 T
1 T
6733555 ATATGTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
18 12 0.35
19 4 0.12
20 2 0.06
21 12 0.35
22 1 0.03
23 3 0.09
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTCAAAAAATATATATATA
Found at i:6733586 original size:45 final size:45
Alignment explanation
Indices: 6733498--6733614 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 45
6733488 AATGTTTTCA
* *
6733498 ATATATATATATATATTTTCAAAAAATATTTTATTTTAAAAAAACT
1 ATATATATATATATATTTTCAAAAAA-ATGTTATTCTAAAAAAACT
* *
6733544 ATATAGTATATATATGTTTTCAAAAAAATGGTT-TTCT-CAAAAACT
1 ATATA-TATATATATATTTTCAAAAAAAT-GTTATTCTAAAAAAACT
6733589 ATATAT-TATATATATTTTCAAAAAAA
1 ATATATATATATATATTTTCAAAAAAA
6733615 ATTCAAAACT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
43 19 0.30
44 1 0.02
45 12 0.19
46 10 0.16
47 22 0.34
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (45 bp):
ATATATATATATATATTTTCAAAAAAATGTTATTCTAAAAAAACT
Found at i:6733711 original size:35 final size:34
Alignment explanation
Indices: 6733663--6733783 Score: 138
Period size: 32 Copynumber: 3.5 Consensus size: 34
6733653 TTTAAAAACC
6733663 TATATATTATATATTTTCAAAATGATTTCGAAAATAA
1 TATATATTATATATTTTCAAAATG-TTT-GAAAA-AA
* *
6733700 TATATATTATATATTTTCTAAAATGTTTTAAAAAC
1 TATATATTATATATTTTC-AAAATGTTTGAAAAAA
* * *
6733735 TATATATTA-AT-TTTCCAAAATGTTTTAAAAAC
1 TATATATTATATATTTTCAAAATGTTTGAAAAAA
*
6733767 TATATAATATATATTTT
1 TATATATTATATATTTT
6733784 TTTCAAAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
32 24 0.32
33 6 0.08
34 5 0.07
35 10 0.13
36 4 0.05
37 21 0.28
38 6 0.08
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (34 bp):
TATATATTATATATTTTCAAAATGTTTGAAAAAA
Found at i:6733713 original size:37 final size:34
Alignment explanation
Indices: 6733582--6733803 Score: 196
Period size: 37 Copynumber: 6.1 Consensus size: 34
6733572 TGGTTTTCTC
****
6733582 AAAAACTATATATTATATATATTTTCAAAAAAAATT
1 AAAAACTATATA-T-TATATATTTTCAAAATGTTTT
* * *
6733618 CAAAACTATATATTATATGTTTTCAAAAATATTTTTTT
1 AAAAACTATATATTATATATTTTC--AAA-A-TGTTTT
*
6733656 AAAAACCTATATATTATATATTTTCAAAATGATTTCG
1 AAAAA-CTATATATTATATATTTTCAAAATG-TTT-T
*
6733693 AAAATAATATATATTATATATTTTCTAAAATGTTTT
1 AAAA-ACTATATATTATATATTTTC-AAAATGTTTT
*
6733729 AAAAACTATATATTA-AT-TTTCCAAAATGTTTT
1 AAAAACTATATATTATATATTTTCAAAATGTTTT
*
6733761 AAAAACTATATAATATATATTTTTTTCAAAAATGTTTT
1 AAAAACTATAT-AT-TATA-TATTTTC-AAAATGTTTT
6733799 AAAAA
1 AAAAA
6733804 AAACTATATG
Statistics
Matches: 156, Mismatches: 15, Indels: 28
0.78 0.08 0.14
Matches are distributed among these distances:
32 21 0.13
33 6 0.04
34 14 0.09
35 13 0.08
36 23 0.15
37 33 0.21
38 28 0.18
39 18 0.12
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (34 bp):
AAAAACTATATATTATATATTTTCAAAATGTTTT
Found at i:6733755 original size:32 final size:33
Alignment explanation
Indices: 6733619--6733803 Score: 147
Period size: 38 Copynumber: 5.1 Consensus size: 33
6733609 AAAAAAATTC
* *
6733619 AAAACTATATATTATATGTTTTCAAAAATATTTTTTTA
1 AAAACTATATATTATA--TTTTC-CAAA-A-TGTTTTA
* *
6733657 AAAACCTATATATTATATATTTTCAAAATGATTTCGA
1 AAAA-CTATATATTATAT-TTTCCAAAATG-TTT-TA
* *
6733694 AAATAATATATATTATATATTTTCTAAAATGTTTTA
1 AAA-ACTATATA-T-TATATTTTCCAAAATGTTTTA
6733730 AAAACTATATATTA-ATTTTCCAAAATGTTTTA
1 AAAACTATATATTATATTTTCCAAAATGTTTTA
*
6733762 AAAACTATATAATATATATTTTTTTCAAAAATGTTTTA
1 AAAACTATAT-AT-TATA---TTTTCCAAAATGTTTTA
6733800 AAAA
1 AAAA
6733804 AAACTATATG
Statistics
Matches: 123, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
32 27 0.22
33 4 0.03
34 3 0.02
35 9 0.07
36 8 0.07
37 17 0.14
38 38 0.31
39 17 0.14
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (33 bp):
AAAACTATATATTATATTTTCCAAAATGTTTTA
Found at i:6733812 original size:32 final size:32
Alignment explanation
Indices: 6733712--6733812 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 32
6733702 TATATTATAT
* **
6733712 ATTTTCTAAAATGTTTTAAAAACTATATATTA
1 ATTTTCAAAAATGTTTTAAAAAAAATATATTA
* *
6733744 ATTTTCCAAAATGTTTTAAAAACTATATAATATATATT
1 ATTTTCAAAAATGTTTT-AAAA--A-A-AATATAT-TA
*
6733782 TTTTTCAAAAATGTTTTAAAAAAAACTATAT
1 ATTTTCAAAAATGTTTTAAAAAAAA-TATAT
6733813 GTTATATACG
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
32 16 0.29
33 6 0.11
34 6 0.11
35 2 0.04
37 10 0.18
38 16 0.29
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (32 bp):
ATTTTCAAAAATGTTTTAAAAAAAATATATTA
Found at i:6737299 original size:22 final size:22
Alignment explanation
Indices: 6737219--6737300 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 22
6737209 TCGAGTAATG
* *
6737219 AAAGTGCCTTAACACTAATACT
1 AAAGTGCCTTAGCACTAATACA
* * * ** *
6737241 GAAGTGCCATAGTACTGGTACG
1 AAAGTGCCTTAGCACTAATACA
**
6737263 AAAGTGAGGTT-GCACTAATACA
1 AAAGTG-CCTTAGCACTAATACA
6737285 AAAGTGCCTTAGCACT
1 AAAGTGCCTTAGCACT
6737301 GTTAGGAAAA
Statistics
Matches: 41, Mismatches: 17, Indels: 4
0.66 0.27 0.06
Matches are distributed among these distances:
21 2 0.05
22 38 0.93
23 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (22 bp):
AAAGTGCCTTAGCACTAATACA
Found at i:6739913 original size:14 final size:14
Alignment explanation
Indices: 6739894--6739926 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6739884 GGACATTCTA
*
6739894 ATGAATTCATCATT
1 ATGAATTCATCATG
6739908 ATGAATTCATCATG
1 ATGAATTCATCATG
6739922 ATGAA
1 ATGAA
6739927 CTTGCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (14 bp):
ATGAATTCATCATG
Found at i:6744307 original size:71 final size:69
Alignment explanation
Indices: 6744159--6744399 Score: 259
Period size: 71 Copynumber: 3.3 Consensus size: 69
6744149 AAAAAATATT
* * *
6744159 CTTGAGATAGTTTTCCTTAAAATAAGTTTTGTCTCACTCAAGACATTTTCTCTCGAACCAAAAAT
1 CTTGAGATAGTTTTCCTTAAAACAAG--TT-TCACACTCAAGACAATTTCTCTCGAA--AAAAAT
*
6744224 TTTATCCCA
61 TTTATCTCA
* * * *
6744233 CTTGAGATAGTTTTCCTTAAAACAAGTTTCAGACTCGAGACAATTTCTCTCTAAGGAAAAAATTT
1 CTTGAGATAGTTTTCCTTAAAACAAGTTTCACACTCAAGACAATTTCTCTCGAA--AAAAATTTT
*
6744298 ATCTAA
64 ATCTCA
* * *
6744304 CTTGATATAGTTTTCCTTAAAACAAGTTTCATCTCACTCAAGACAGTTTCTCTCGAAACAAATTT
1 CTTGAGATAGTTTTCCTTAAAACAAGTTTCA---CACTCAAGACAATTTCTCTCGAAAAAAATTT
6744369 TATCTCA
63 TATCTCA
6744376 CTTGAGATA-TTTTCTCTTGAAAAC
1 CTTGAGATAGTTTTC-CTT-AAAAC
6744400 TTTTATGTCA
Statistics
Matches: 142, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
71 68 0.48
72 25 0.18
73 5 0.04
74 44 0.31
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (69 bp):
CTTGAGATAGTTTTCCTTAAAACAAGTTTCACACTCAAGACAATTTCTCTCGAAAAAAATTTTAT
CTCA
Found at i:6744390 original size:36 final size:36
Alignment explanation
Indices: 6744288--6744397 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 36
6744278 TCTCTCTAAG
* *
6744288 GAAA-AAA-TTTATCTAACTTGATATAGTTTTC-CTT
1 GAAACAAATTTTATCTCACTTGAGATA-TTTTCTCTT
* * * ** * * *
6744322 AAAACAAGTTTCATCTCACTCAAGACAGTTTCTCTC
1 GAAACAAATTTTATCTCACTTGAGATATTTTCTCTT
6744358 GAAACAAATTTTATCTCACTTGAGATATTTTCTCTT
1 GAAACAAATTTTATCTCACTTGAGATATTTTCTCTT
6744394 GAAA
1 GAAA
6744398 ACTTTTATGT
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
34 3 0.05
35 6 0.11
36 46 0.84
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (36 bp):
GAAACAAATTTTATCTCACTTGAGATATTTTCTCTT
Found at i:6744882 original size:12 final size:12
Alignment explanation
Indices: 6744867--6744917 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
6744857 ATTTTTTTTC
6744867 ATTTTACCATTT
1 ATTTTACCATTT
* *
6744879 ATTTTATCAGTTAA
1 ATTTTACCA-TT-T
*
6744893 ACTTT-CCATTT
1 ATTTTACCATTT
6744904 ATTTTACCATTT
1 ATTTTACCATTT
6744916 AT
1 AT
6744918 GTTCGTTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
11 4 0.13
12 18 0.60
13 4 0.13
14 4 0.13
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.55
Consensus pattern (12 bp):
ATTTTACCATTT
Found at i:6745173 original size:16 final size:16
Alignment explanation
Indices: 6745154--6745203 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
6745144 ATGACATATT
6745154 TTATTTATTTATTTTA
1 TTATTTATTTATTTTA
6745170 TTATTT-TTTAATTTTA
1 TTATTTATTT-ATTTTA
* *
6745186 TTATTGAATTATTTTA
1 TTATTTATTTATTTTA
6745202 TT
1 TT
6745204 CTATGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 3 0.10
16 25 0.83
17 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTATTTATTTATTTTA
Found at i:6745183 original size:24 final size:23
Alignment explanation
Indices: 6745152--6745200 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
6745142 TGATGACATA
**
6745152 TTTTA-TTTATTTATTTTATTATT
1 TTTTATTTTA-TTATTGAATTATT
6745175 TTTTAATTTTATTATTGAATTATT
1 TTTT-ATTTTATTATTGAATTATT
6745199 TT
1 TT
6745201 ATTCTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTATTTTATTATTGAATTATT
Found at i:6748903 original size:29 final size:30
Alignment explanation
Indices: 6748800--6748903 Score: 110
Period size: 29 Copynumber: 3.6 Consensus size: 30
6748790 ACAGTTGACC
6748800 GGGTGCTATTTC-AGTAATTAATTCAAAATA
1 GGGTGCTATTTCTAGTAATTAATTCAAAA-A
* *
6748830 -GGTGTTA-TTCTAGTAATTAATTCAAAAT
1 GGGTGCTATTTCTAGTAATTAATTCAAAAA
** * *
6748858 GGGTATTATTT-TAGTAATTATTTTAAAAA
1 GGGTGCTATTTCTAGTAATTAATTCAAAAA
6748887 GGGTGCTATTTCT-GTAA
1 GGGTGCTATTTCTAGTAA
6748904 AATGGTTGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
28 3 0.05
29 56 0.90
30 3 0.05
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (30 bp):
GGGTGCTATTTCTAGTAATTAATTCAAAAA
Found at i:6750036 original size:117 final size:117
Alignment explanation
Indices: 6749825--6750116 Score: 444
Period size: 117 Copynumber: 2.5 Consensus size: 117
6749815 GGAGGTATTT
* * *
6749825 CAGGCTCCTTTGCTGTGTGCTCAGCGTAAGTCCTTACTGGTATGCAGGTGGGTGCATGGTTCTGG
1 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
*
6749890 GGAACCTACACATTGTAGTGATTGGAGTGACTGGATGGGGAAGTTATTACTG
66 GGAACCTACACATTGTAGTGATTGGAGTGACTGGATGGAGAAGTTATTACTG
6749942 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
1 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
*
6750007 GGAACCTACACATTGTAGTGA-TGGAAGTGACTGGATGGAGACGTTATTACTG
66 GGAACCTACACATTGTAGTGATTGG-AGTGACTGGATGGAGAAGTTATTACTG
** * * * * *
6750059 CAGGCTCCTCGGCT-TCATTCTTAGGGTATGTCCTTACTGGTGTGCAAGTGGGTGTATG
1 CAGGCTCCTTTGCTGT-GTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
6750117 TTTCGGGAAA
Statistics
Matches: 161, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
116 4 0.02
117 157 0.98
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.32
Consensus pattern (117 bp):
CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
GGAACCTACACATTGTAGTGATTGGAGTGACTGGATGGAGAAGTTATTACTG
Found at i:6750153 original size:117 final size:116
Alignment explanation
Indices: 6749825--6750153 Score: 268
Period size: 117 Copynumber: 2.8 Consensus size: 116
6749815 GGAGGTATTT
** * * * * * *
6749825 CAGGCTCCTTTGCTGTGTGCTCAGCGTAAGTCCTTACTGGTATGCAGGTGGGTGCATGGTTCTGG
1 CAGGCTCCTCGGCTGTATGCTCAGGGTAAGTCCTTACTGGTGTGCAAGTGGGTGTATGGTTCTCG
** * ** * * * *
6749890 GGAACCTACACATTGTAGTGATTGGAGTGACTGGATGGGGAAGTTATTACTG
66 GGAAAATACAAAAAGTAG-AAATAGAGTGACTGGATGGAGAAGTTATTACTG
** * * *
6749942 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
1 CAGGCTCCTCGGCTGTATGCTCAGGGTAAGTCCTTACTGGTGTGCAAGTGGGTGTATGGTTCTCG
** * ** ** * *
6750007 GGAACCTACACATTGTAGTGATGGAAGTGACTGGATGGAGACGTTATTACTG
66 GGAAAATACAAAAAGTAGAAATAG-AGTGACTGGATGGAGAAGTTATTACTG
* * *
6750059 CAGGCTCCTCGGCT-TCATTCTTAGGGTATGTCCTTACTGGTGTGCAAGTGGGTGTAT-GTT-TC
1 CAGGCTCCTCGGCTGT-ATGCTCAGGGTAAGTCCTTACTGGTGTGCAAGTGGGTGTATGGTTCTC
*
6750121 GGGAAAATATATAAAAGATAGAAACTAGAGTGA
65 GGGAAAATACA-AAAAG-TAGAAA-TAGAGTGA
6750154 TTAAATGAAA
Statistics
Matches: 182, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
115 9 0.05
116 9 0.05
117 162 0.89
118 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (116 bp):
CAGGCTCCTCGGCTGTATGCTCAGGGTAAGTCCTTACTGGTGTGCAAGTGGGTGTATGGTTCTCG
GGAAAATACAAAAAGTAGAAATAGAGTGACTGGATGGAGAAGTTATTACTG
Found at i:6756623 original size:56 final size:56
Alignment explanation
Indices: 6756535--6756644 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 56
6756525 TAAGTATAAC
* * * *
6756535 TAGTGCATATGGTGGGCACGACCTTATGTGTCATACTCGAGATTGCACTAAAGTAT
1 TAGTGCATATGGTGGGCACGACCGTATCTGTCATACTCGAGACTACACTAAAGTAT
* * *
6756591 TAGTGCATATGGTGGGCACTACCGTATCTGTCATATTCGGGACTACACTAAAGT
1 TAGTGCATATGGTGGGCACGACCGTATCTGTCATACTCGAGACTACACTAAAGT
6756645 GTAACTACTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (56 bp):
TAGTGCATATGGTGGGCACGACCGTATCTGTCATACTCGAGACTACACTAAAGTAT
Found at i:6756682 original size:59 final size:59
Alignment explanation
Indices: 6756507--6756689 Score: 201
Period size: 59 Copynumber: 3.2 Consensus size: 59
6756497 CAGCATGTTG
* * * * *
6756507 CATATTCGGGATTACACTTAAGTATAACTAGTGCATATGGTGGGCACGACCTTATGTGT
1 CATACTCGGGATTACACTAAAGTGTAACTAGTGCATATGGTGGGCACAACCTTATATGT
* * * * * *
6756566 CATACTCGAGATTGCACTAAA--GT-ATTAGTGCATATGGTGGGCACTACCGTATCTGT
1 CATACTCGGGATTACACTAAAGTGTAACTAGTGCATATGGTGGGCACAACCTTATATGT
* * * * *
6756622 CATATTCGGGACTACACTAAAGTGTAACTACTACAGATGGTGGGCACAACCTTATATGT
1 CATACTCGGGATTACACTAAAGTGTAACTAGTGCATATGGTGGGCACAACCTTATATGT
6756681 CATACTCGG
1 CATACTCGG
6756690 TTAGCACTAC
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
56 46 0.46
57 1 0.01
58 2 0.02
59 51 0.51
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (59 bp):
CATACTCGGGATTACACTAAAGTGTAACTAGTGCATATGGTGGGCACAACCTTATATGT
Found at i:6758623 original size:6 final size:6
Alignment explanation
Indices: 6758609--6758651 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
6758599 TGAATTGGAT
6758609 TTTTAAA TTTTAA TTTTAA TTTTAA TTTTAAA TTTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTT-AA -TTTTAA TTTT
6758652 CGCAATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 22 0.65
7 8 0.24
8 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:6758629 original size:25 final size:26
Alignment explanation
Indices: 6758594--6758651 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
6758584 CAGAGGTAAG
* *
6758594 TAATTTGAATTGGATTTTTAAA-TTT
1 TAATTTTAATTGGAATTTTAAATTTT
**
6758619 TAATTTTAATTTTAATTTTAAATTTT
1 TAATTTTAATTGGAATTTTAAATTTT
6758645 TAATTTT
1 TAATTTT
6758652 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TAATTTTAATTGGAATTTTAAATTTT
Found at i:6758631 original size:12 final size:13
Alignment explanation
Indices: 6758609--6758651 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
6758599 TGAATTGGAT
6758609 TTTTAAATTTTAA
1 TTTTAAATTTTAA
6758622 TTTT-AATTTTAA
1 TTTTAAATTTTAA
6758634 TTTTAAATTTTTAA
1 TTTTAAA-TTTTAA
6758648 TTTT
1 TTTT
6758652 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 6 0.21
14 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:6762435 original size:211 final size:211
Alignment explanation
Indices: 6762066--6763660 Score: 3003
Period size: 211 Copynumber: 7.6 Consensus size: 211
6762056 TACAGCCTTT
*
6762066 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6762131 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
*
6762196 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6762261 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6762277 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6762342 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
*
6762407 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6762472 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6762488 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6762553 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
6762618 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6762683 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6762699 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6762764 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
6762829 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6762894 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6762910 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6762975 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
6763040 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6763105 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6763121 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6763186 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
6763251 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6763316 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6763332 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
6763397 CGAAGGGACCGCTGGTTGTCAACAAACATTTTTCGATTTCAGAGTCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
* *
6763462 AGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
* *
6763527 AC-ATTTCCCAATTTC
196 ACAATTTCTCGATTTC
* ** *
6763542 AGAGCCAATTTTGACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTTAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
** * * *
6763607 CGAAGGGACCGCTGGTTGTCATTAAACAACTTCCCAATTTCAGAACCAATTTCA
66 CGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCA
6763661 GATAGGTTCG
Statistics
Matches: 1362, Mismatches: 21, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
210 97 0.07
211 1265 0.93
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (211 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
ACAATTTCTCGATTTC
Found at i:6764113 original size:84 final size:84
Alignment explanation
Indices: 6763995--6764293 Score: 393
Period size: 84 Copynumber: 3.6 Consensus size: 84
6763985 CAGCTTCGAG
* * * * * *
6763995 GGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTTGAGT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTC-ACCAAAAGACCTTTGAGT
6764059 TCGACTACGCTCAGCTCCAA
65 TCGACTACGCTCAGCTCCAA
* * *
6764079 GGCACATTATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
*
6764144 CGACTACGTTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
* * * *
6764163 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTCTCTGTCACCAAAAGACCTTCGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
*
6764228 CGATTACGCTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
* * * * * *
6764247 GGCACATCATTTACAGCATAGCCCAAAGAAAAAAGGGTTATATGTCA
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCA
6764294 ATAAAATTAT
Statistics
Matches: 188, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
83 3 0.02
84 185 0.98
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (84 bp):
GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
CGACTACGCTCAGCTCCAA
Found at i:6764229 original size:168 final size:161
Alignment explanation
Indices: 6763925--6764293 Score: 427
Period size: 168 Copynumber: 2.2 Consensus size: 161
6763915 AAAAACAAAC
* * * *
6763925 TATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATATGCCACAAAGACCTTCGATTACACTCAGCT
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCACAAAGACCTTCGATTACACTCAGCT
* * * * * * *
6763990 TCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTT
66 TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
6764055 GAGTTCGACTACGCTCAGCTCCAAGGCACAT
131 GAGTTCGACTACGCTCAGCTCCAAGGCACAT
* *
6764086 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTAC
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCA-C-AAAGACCTTCGA-TT--AC-AC
* * * *
6764151 GTTCAGC-TCCAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTCTCTGTC-ACCAA
60 --TCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACC-A
*
6764214 AAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACAT
122 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * * * *
6764254 CATTTACAGCATAGCCCAAAGAAAAAAGGGTTATATGTCA
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCA
6764294 ATAAAATTAT
Statistics
Matches: 174, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
161 35 0.20
162 1 0.01
163 11 0.06
164 2 0.01
166 2 0.01
167 5 0.03
168 113 0.65
169 5 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (161 bp):
TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCACAAAGACCTTCGATTACACTCAGCT
TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
GAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:6766009 original size:6 final size:6
Alignment explanation
Indices: 6765995--6766037 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
6765985 TGAATTGGAT
6765995 TTTTAAA TTTTAA TTTTAA TTTTAA TTTTAAA TTTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTT-AA -TTTTAA TTTT
6766038 CGCAATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 22 0.65
7 8 0.24
8 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:6766015 original size:25 final size:26
Alignment explanation
Indices: 6765980--6766037 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
6765970 CAGAGGTAAG
* *
6765980 TAATTTGAATTGGATTTTTAAA-TTT
1 TAATTTTAATTGGAATTTTAAATTTT
**
6766005 TAATTTTAATTTTAATTTTAAATTTT
1 TAATTTTAATTGGAATTTTAAATTTT
6766031 TAATTTT
1 TAATTTT
6766038 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TAATTTTAATTGGAATTTTAAATTTT
Found at i:6766017 original size:12 final size:13
Alignment explanation
Indices: 6765995--6766037 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
6765985 TGAATTGGAT
6765995 TTTTAAATTTTAA
1 TTTTAAATTTTAA
6766008 TTTT-AATTTTAA
1 TTTTAAATTTTAA
6766020 TTTTAAATTTTTAA
1 TTTTAAA-TTTTAA
6766034 TTTT
1 TTTT
6766038 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 6 0.21
14 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:6769819 original size:211 final size:211
Alignment explanation
Indices: 6769450--6771044 Score: 3003
Period size: 211 Copynumber: 7.6 Consensus size: 211
6769440 TACAGCCTTT
*
6769450 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6769515 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
*
6769580 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6769645 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6769661 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6769726 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
*
6769791 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6769856 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6769872 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6769937 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
6770002 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6770067 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6770083 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6770148 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
6770213 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6770278 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6770294 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6770359 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
6770424 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6770489 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6770505 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
6770570 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
6770635 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
6770700 ACAATTTCTCGATTTC
196 ACAATTTCTCGATTTC
6770716 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
6770781 CGAAGGGACCGCTGGTTGTCAACAAACATTTTTCGATTTCAGAGTCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
* *
6770846 AGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
* *
6770911 AC-ATTTCCCAATTTC
196 ACAATTTCTCGATTTC
* ** *
6770926 AGAGCCAATTTTGACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTTAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
** * * *
6770991 CGAAGGGACCGCTGGTTGTCATTAAACAACTTCCCAATTTCAGAACCAATTTCA
66 CGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCA
6771045 GATAGGTTCG
Statistics
Matches: 1362, Mismatches: 21, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
210 97 0.07
211 1265 0.93
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (211 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
ACAATTTCTCGATTTC
Found at i:6771497 original size:84 final size:84
Alignment explanation
Indices: 6771379--6771677 Score: 393
Period size: 84 Copynumber: 3.6 Consensus size: 84
6771369 CAGCTTCGAG
* * * * * *
6771379 GGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTTGAGT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTC-ACCAAAAGACCTTTGAGT
6771443 TCGACTACGCTCAGCTCCAA
65 TCGACTACGCTCAGCTCCAA
* * *
6771463 GGCACATTATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
*
6771528 CGACTACGTTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
* * * *
6771547 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTCTCTGTCACCAAAAGACCTTCGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
*
6771612 CGATTACGCTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
* * * * * *
6771631 GGCACATCATTTACAGCATAGCCCAAAGAAAAAAGGGTTATATGTCA
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCA
6771678 ATAAAATTAT
Statistics
Matches: 188, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
83 3 0.02
84 185 0.98
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (84 bp):
GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
CGACTACGCTCAGCTCCAA
Found at i:6771613 original size:168 final size:161
Alignment explanation
Indices: 6771309--6771677 Score: 427
Period size: 168 Copynumber: 2.2 Consensus size: 161
6771299 AAAAACAAAC
* * * *
6771309 TATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATATGCCACAAAGACCTTCGATTACACTCAGCT
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCACAAAGACCTTCGATTACACTCAGCT
* * * * * * *
6771374 TCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTT
66 TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
6771439 GAGTTCGACTACGCTCAGCTCCAAGGCACAT
131 GAGTTCGACTACGCTCAGCTCCAAGGCACAT
* *
6771470 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTAC
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCA-C-AAAGACCTTCGA-TT--AC-AC
* * * *
6771535 GTTCAGC-TCCAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTCTCTGTC-ACCAA
60 --TCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACC-A
*
6771598 AAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACAT
122 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * * * *
6771638 CATTTACAGCATAGCCCAAAGAAAAAAGGGTTATATGTCA
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCA
6771678 ATAAAATTAT
Statistics
Matches: 174, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
161 35 0.20
162 1 0.01
163 11 0.06
164 2 0.01
166 2 0.01
167 5 0.03
168 113 0.65
169 5 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (161 bp):
TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCACAAAGACCTTCGATTACACTCAGCT
TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
GAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:6773392 original size:6 final size:6
Alignment explanation
Indices: 6773378--6773420 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
6773368 TGAATTGGAT
6773378 TTTTAAA TTTTAA TTTTAA TTTTAA TTTTAAA TTTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTT-AA -TTTTAA TTTT
6773421 CGCAATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 22 0.65
7 8 0.24
8 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:6773398 original size:25 final size:26
Alignment explanation
Indices: 6773363--6773420 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
6773353 CAGAGGTAAG
* *
6773363 TAATTTGAATTGGATTTTTAAA-TTT
1 TAATTTTAATTGGAATTTTAAATTTT
**
6773388 TAATTTTAATTTTAATTTTAAATTTT
1 TAATTTTAATTGGAATTTTAAATTTT
6773414 TAATTTT
1 TAATTTT
6773421 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TAATTTTAATTGGAATTTTAAATTTT
Found at i:6773400 original size:12 final size:13
Alignment explanation
Indices: 6773378--6773420 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
6773368 TGAATTGGAT
6773378 TTTTAAATTTTAA
1 TTTTAAATTTTAA
6773391 TTTT-AATTTTAA
1 TTTTAAATTTTAA
6773403 TTTTAAATTTTTAA
1 TTTTAAA-TTTTAA
6773417 TTTT
1 TTTT
6773421 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 6 0.21
14 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:6777228 original size:19 final size:19
Alignment explanation
Indices: 6777200--6777249 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
6777190 TTGAAAAAGT
6777200 TATTCGAAAAAGAGAACAA
1 TATTCGAAAAAGAGAACAA
*
6777219 TATTCTAAAAAGAGAACAA
1 TATTCGAAAAAGAGAACAA
6777238 TATAT-GAAAAAG
1 TAT-TCGAAAAAG
6777250 CAATATCCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.20
Consensus pattern (19 bp):
TATTCGAAAAAGAGAACAA
Found at i:6780187 original size:59 final size:59
Alignment explanation
Indices: 6780052--6780188 Score: 195
Period size: 59 Copynumber: 2.3 Consensus size: 59
6780042 CAGCATGTTG
*
6780052 CATATTCGGGATTGCACTAAAGTATAACTAGTACATATGGTGGGCACAACCTTATGTGC
1 CATATTCGGGATTGCACTAAAGTATAACTAGTACAGATGGTGGGCACAACCTTATGTGC
* * ** *
6780111 CATATTCGGGACTGCACTAAAGTATAACTAGTGCAGATGGTGGGCATGACCTTATGTGT
1 CATATTCGGGATTGCACTAAAGTATAACTAGTACAGATGGTGGGCACAACCTTATGTGC
*
6780170 CATACTCGGG-TTAGCACTA
1 CATATTCGGGATT-GCACTA
6780189 CGGTGCATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 1 0.01
59 68 0.99
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (59 bp):
CATATTCGGGATTGCACTAAAGTATAACTAGTACAGATGGTGGGCACAACCTTATGTGC
Found at i:6782338 original size:18 final size:18
Alignment explanation
Indices: 6782315--6782383 Score: 85
Period size: 18 Copynumber: 4.1 Consensus size: 18
6782305 ACCGGTCACA
*
6782315 ACCCGACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
6782333 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
6782350 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
6782364 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
6782382 AC
1 AC
6782384 TCAACCCGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 12 0.28
18 31 0.72
ACGTcount: A:0.17, C:0.48, G:0.20, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:6782354 original size:13 final size:13
Alignment explanation
Indices: 6782337--6782373 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
6782327 CTGTTGACCC
6782337 GACCCGACCCGTT
1 GACCCGACCCGTT
*
6782350 TACCCGACCCGTT
1 GACCCGACCCGTT
6782363 GACCCGACCCG
1 GACCCGACCCG
6782374 ACCCGTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:6782358 original size:31 final size:31
Alignment explanation
Indices: 6782319--6782399 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
6782309 GTCACAACCC
*
6782319 GACCCGACCTGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
6782350 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
6782381 GACTCAACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
6782400 TTGACCGTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:6782390 original size:18 final size:18
Alignment explanation
Indices: 6782315--6782405 Score: 66
Period size: 18 Copynumber: 5.2 Consensus size: 18
6782305 ACCGGTCACA
* *
6782315 ACCCGACCCGACCTGTTG
1 ACCCAACCCGACCCGTTG
*
6782333 ACCCGACCCGACCCGTT-
1 ACCCAACCCGACCCGTTG
*
6782350 ----TACCCGACCCGTTG
1 ACCCAACCCGACCCGTTG
*
6782364 ACCCGACCCGACCCGTTG
1 ACCCAACCCGACCCGTTG
*
6782382 ACTCAACCCGTTGACCCGTTG
1 ACCCAACCC---GACCCGTTG
6782403 ACC
1 ACC
6782406 GTCGTTGACC
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
13 12 0.20
18 36 0.61
21 11 0.19
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (18 bp):
ACCCAACCCGACCCGTTG
Found at i:6795326 original size:29 final size:29
Alignment explanation
Indices: 6795268--6795326 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
6795258 CAACTTCATG
* *
6795268 ATAACAAGTATTGAGAAAAATAAGTCTTA
1 ATAACAAGTATTGAAAAAAATAAATCTTA
*
6795297 ATAACAAGTATT-AAAAAAAGTAAATTTTA
1 ATAACAAGTATTGAAAAAAA-TAAATCTTA
6795326 A
1 A
6795327 GAGTATGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (29 bp):
ATAACAAGTATTGAAAAAAATAAATCTTA
Found at i:6795416 original size:14 final size:14
Alignment explanation
Indices: 6795397--6795426 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6795387 GTTTGGACTC
*
6795397 ATATTAACAAATAA
1 ATATTAAAAAATAA
6795411 ATATTAAAAAATAA
1 ATATTAAAAAATAA
6795425 AT
1 AT
6795427 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
ATATTAAAAAATAA
Found at i:6799159 original size:12 final size:13
Alignment explanation
Indices: 6799142--6799170 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6799132 TTTCATTGCG
6799142 AAAATTAAAATT-
1 AAAATTAAAATTC
6799154 AAAATTAAAATTC
1 AAAATTAAAATTC
6799167 AAAA
1 AAAA
6799171 ATTCAATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAAATTC
Found at i:6800596 original size:19 final size:21
Alignment explanation
Indices: 6800572--6800619 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
6800562 GGGCTTGAAT
6800572 TAAAATAAAATAAA-AT-TAA
1 TAAAATAAAATAAACATATAA
6800591 TAAAAT-AAATAAACATATAA
1 TAAAATAAAATAAACATATAA
6800611 -AAAATAAAA
1 TAAAATAAAA
6800620 AATATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.27
19 13 0.50
20 6 0.23
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAATAAAATAAACATATAA
Found at i:6800815 original size:37 final size:36
Alignment explanation
Indices: 6800661--6800938 Score: 307
Period size: 36 Copynumber: 7.6 Consensus size: 36
6800651 AATATTTCTA
* **
6800661 AAAACTATATA--ATATATATTTTCAAAAACATTTT-
1 AAAACTATATATTATATATATTTT-TAAAATGTTTTC
* *
6800695 AAAACTATATA-T-TATATATTTTAAAAATGATTTC
1 AAAACTATATATTATATATATTTTTAAAATGTTTTC
** * *
6800729 AAAACTATATATTATATACGTTTTCAAAATGATTTC
1 AAAACTATATATTATATATATTTTTAAAATGTTTTC
*
6800765 AAAACTATATATTATATA-AGTTTTTAAGATGTTTTC
1 AAAACTATATATTATATATA-TTTTTAAAATGTTTTC
6800801 AAAAACTATATATTATATATATTTTTTCAAAATGTTTTC
1 -AAAACTATATATTATATATA-TTTTT-AAAATGTTTTC
*
6800840 AAAAACTGTATATTATATATATTTTTTCAAAATGTTTTC
1 -AAAACTATATATTATATATA-TTTTT-AAAATGTTTTC
*
6800879 AAAAACTATATATTATATATATTTTCAAAATGTTTTC
1 -AAAACTATATATTATATATATTTTTAAAATGTTTTC
**
6800916 AAAACTATATAAAATATATATTT
1 AAAACTATATATTATATATATTT
6800939 CAAAAATGAT
Statistics
Matches: 219, Mismatches: 17, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
33 8 0.04
34 32 0.15
35 1 0.00
36 71 0.32
37 29 0.13
38 10 0.05
39 68 0.31
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
AAAACTATATATTATATATATTTTTAAAATGTTTTC
Found at i:6800836 original size:39 final size:37
Alignment explanation
Indices: 6800661--6800938 Score: 317
Period size: 39 Copynumber: 7.6 Consensus size: 37
6800651 AATATTTCTA
**
6800661 AAAACTATATA--ATATATA-TTTTCAAAAACATTTT-
1 AAAACTATATATTATATATATTTTTC-AAAATGTTTTC
* *
6800695 AAAACTATATA-T-TATATA-TTTTAAAAATGATTTC
1 AAAACTATATATTATATATATTTTTCAAAATGTTTTC
** *
6800729 AAAACTATATATTATATA-CGTTTTCAAAATGATTTC
1 AAAACTATATATTATATATATTTTTCAAAATGTTTTC
*
6800765 AAAACTATATATTATATA-AGTTTTT-AAGATGTTTTC
1 AAAACTATATATTATATATA-TTTTTCAAAATGTTTTC
6800801 AAAAACTATATATTATATATATTTTTTCAAAATGTTTTC
1 -AAAACTATATATTATATATA-TTTTTCAAAATGTTTTC
*
6800840 AAAAACTGTATATTATATATATTTTTTCAAAATGTTTTC
1 -AAAACTATATATTATATATA-TTTTTCAAAATGTTTTC
6800879 AAAAACTATATATTATATATA-TTTTCAAAATGTTTTC
1 -AAAACTATATATTATATATATTTTTCAAAATGTTTTC
**
6800916 AAAACTATATAAAATATATATTT
1 AAAACTATATATTATATATATTT
6800939 CAAAAATGAT
Statistics
Matches: 218, Mismatches: 16, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
33 7 0.03
34 32 0.15
35 1 0.00
36 64 0.29
37 40 0.18
38 6 0.03
39 68 0.31
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (37 bp):
AAAACTATATATTATATATATTTTTCAAAATGTTTTC
Found at i:6802248 original size:36 final size:36
Alignment explanation
Indices: 6802208--6802298 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
6802198 CTTACTAATG
6802208 ATGATTATATGTATGATATACATGTGCTTGCCACTA
1 ATGATTATATGTATGATATACATGTGCTTGCCACTA
* * * * *
6802244 ATGATTATTTGCATGATATACATGTGTTTGTCACTG
1 ATGATTATATGTATGATATACATGTGCTTGCCACTA
*
6802280 ATGATTATATCTATGATAT
1 ATGATTATATGTATGATAT
6802299 TTTACCCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (36 bp):
ATGATTATATGTATGATATACATGTGCTTGCCACTA
Found at i:6802412 original size:26 final size:26
Alignment explanation
Indices: 6802383--6802471 Score: 63
Period size: 26 Copynumber: 3.2 Consensus size: 26
6802373 ACTATTATGA
6802383 TGGGAAATACTTTAAATATCTTAGAG
1 TGGGAAATACTTTAAATATCTTAGAG
** * *
6802409 TGGGATTAATGGTTAATAGTAAGACTATTATGA-
1 TGGGA--AATACTT--TA--AATA-TCTTA-GAG
6802442 TGGGAAATACTTTAAATATCTTAGAG
1 TGGGAAATACTTTAAATATCTTAGAG
6802468 TGGG
1 TGGG
6802472 TAATTATTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 2 0.04
26 13 0.28
27 3 0.07
28 5 0.11
29 2 0.04
30 2 0.04
31 5 0.11
32 3 0.07
33 9 0.20
34 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGGGAAATACTTTAAATATCTTAGAG
Found at i:6802444 original size:59 final size:59
Alignment explanation
Indices: 6802352--6802471 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
6802342 GACCATTGTC
6802352 GGATTAATGGTTAATAGTAAGACTATTATGATGGGAAATACTTTAAATATCTTAGAGTG
1 GGATTAATGGTTAATAGTAAGACTATTATGATGGGAAATACTTTAAATATCTTAGAGTG
6802411 GGATTAATGGTTAATAGTAAGACTATTATGATGGGAAATACTTTAAATATCTTAGAGTG
1 GGATTAATGGTTAATAGTAAGACTATTATGATGGGAAATACTTTAAATATCTTAGAGTG
6802470 GG
1 GG
6802472 TAATTATTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (59 bp):
GGATTAATGGTTAATAGTAAGACTATTATGATGGGAAATACTTTAAATATCTTAGAGTG
Found at i:6811736 original size:65 final size:64
Alignment explanation
Indices: 6811664--6811819 Score: 163
Period size: 65 Copynumber: 2.4 Consensus size: 64
6811654 TACACTAGGG
* *
6811664 GTGCATCGGTACACT-AAGTACATTCGATGTTCCAA-AAGAGCCAAAAGTGCATCGATGCATGGT
1 GTGCATCGGTACA-TAAAATACATTCGATGTTCCAATAA-AGCCAAAAGTGCATCGATGCATAG-
6811727 CC
63 CC
* * * ** * *
6811729 GTGCATCGTTACATAAAATGCATTCGATGTTTCAATAAATTCAATAGTGCATCGATGCATAGCT
1 GTGCATCGGTACATAAAATACATTCGATGTTCCAATAAAGCCAAAAGTGCATCGATGCATAGCC
* * *
6811793 GTGCATCGGTGCACAAAATGCATTCGA
1 GTGCATCGGTACATAAAATACATTCGA
6811820 AATAGGGCGT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 26 0.34
65 49 0.64
66 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (64 bp):
GTGCATCGGTACATAAAATACATTCGATGTTCCAATAAAGCCAAAAGTGCATCGATGCATAGCC
Found at i:6813938 original size:13 final size:13
Alignment explanation
Indices: 6813920--6813953 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
6813910 AATGGGCAAT
*
6813920 TTTGAAAACTATG
1 TTTGAAAACGATG
6813933 TTTGAAAACGATG
1 TTTGAAAACGATG
6813946 TTTGAAAA
1 TTTGAAAA
6813954 TCAATATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (13 bp):
TTTGAAAACGATG
Found at i:6814509 original size:44 final size:43
Alignment explanation
Indices: 6814422--6814537 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 43
6814412 CGACGAGTGT
* * * * *
6814422 ATCGATGCACTATATAGCGTATCGATACACATTCAAAGAATGC
1 ATCGATACACCATCTAGTGTATCGATGCACATTCAAAGAATGC
* * * *
6814465 ATCGGTACACCATCATTGTGTATCGATGCACATTCAAGGGATGC
1 ATCGATACACCATC-TAGTGTATCGATGCACATTCAAAGAATGC
**
6814509 ATCGATACACTTTCTAGTGTATCGATGCA
1 ATCGATACACCATCTAGTGTATCGATGCA
6814538 TTTTGCATAA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
43 24 0.41
44 35 0.59
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
ATCGATACACCATCTAGTGTATCGATGCACATTCAAAGAATGC
Found at i:6822023 original size:65 final size:65
Alignment explanation
Indices: 6821947--6822102 Score: 185
Period size: 65 Copynumber: 2.4 Consensus size: 65
6821937 TACACTAGGG
* *
6821947 GTGCATCGGTACACTA-ATTACATTCGATGTTTCAA-AAGAGCCAGGAGTGCATCGATGCATGGT
1 GTGCATCGGTACACTAGAATACATTCGATGTTTCAATAA-AGCCAAGAGTGCATCGATGCATGGT
6822010 CT
65 -T
* * **
6822012 GTGTATCGGTACA-TAGAATGCATTCGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGTT
1 GTGCATCGGTACACTAGAATACATTCGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGTT
* * *
6822076 GTGCATGGGTACAC-AAAATGCATTCGA
1 GTGCATCGGTACACTAGAATACATTCGA
6822103 AATTGGGTGT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
64 26 0.33
65 51 0.65
66 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACACTAGAATACATTCGATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGTT
Found at i:6830823 original size:111 final size:110
Alignment explanation
Indices: 6830629--6831388 Score: 624
Period size: 111 Copynumber: 7.0 Consensus size: 110
6830619 ATTACTGAAT
*
6830629 GACACTTTGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCCGTATGAGCACTTTGT
1 GACACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG-GCACTTTGT
* *
6830694 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAACTTCCATATG
65 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
6830740 GACACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGT
1 GACACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT-GGCACTTTGT
*
6830805 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATAG
65 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT-G
6830852 G-CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGT
1 GACACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT-GGCACTTTGT
6830916 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
65 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
** ** * * * * ***** * *
6830962 G--ACTAAGAAATTCATAA-T--G-AGTTTATGAATTTCCGTATGGACACTTT--GTGT-GCAAA
1 GACACTTTG-TGTGCAAAACTAAGAAATTCAT-AATAAGTTTAT-GA-A-TTTCCGTATGGC-AC
** ** ** * * * ** * * * * **
6831018 ACT-AAT--AAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGCGTACA
60 TTTGTGTGCAAAAAC-TAAGAAATTCAT-AA--TAAGTTTATG-AATTTCCGTATG
* * ** * * * * **
6831071 AAAAC----TAAG--AAATTCA-TAA-T-A-AGT----TTATGAATTTATGTATGGACACTTTGT
1 GACACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGG-CACTTTGT
6831122 GTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
65 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * *
6831167 GGCACTTTGTATTCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
1 GACACTTTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT-GGCACTTTG
* *
6831232 TGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
64 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
6831279 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTG
1 GACACTTTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT-GGCACTTTG
* *
6831344 TGGGC-AAAACTAAGAAATTAATAATAAGTTTATGAATTTCCGTAT
64 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
6831389 TGGTAGTAGG
Statistics
Matches: 522, Mismatches: 84, Indels: 86
0.75 0.12 0.12
Matches are distributed among these distances:
96 13 0.02
97 7 0.01
98 5 0.01
99 8 0.02
100 13 0.02
101 3 0.01
103 7 0.01
104 8 0.02
105 12 0.02
106 13 0.02
107 12 0.02
108 11 0.02
109 14 0.03
110 10 0.02
111 276 0.53
112 110 0.21
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (110 bp):
GACACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGCACTTTGTG
TGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:6830962 original size:56 final size:55
Alignment explanation
Indices: 6830631--6830962 Score: 565
Period size: 56 Copynumber: 6.0 Consensus size: 55
6830621 TACTGAATGA
* *
6830631 CACTTTGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCCGTATGAG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* * *
6830686 CACTTTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAACTTCCATATGGA
1 CACTTTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
6830742 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* *
6830797 CACTTTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATAGG
1 CACTTTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
6830853 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
6830908 CACTTTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGG
1 CACTTTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGG
6830963 ACTAAGAAAT
Statistics
Matches: 262, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
55 116 0.44
56 146 0.56
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (55 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
Found at i:6830978 original size:39 final size:39
Alignment explanation
Indices: 6830924--6831003 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
6830914 GTGTGCAAAA
6830924 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGG
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGG
*
6830963 ACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGG
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGG
6831002 AC
1 AC
6831004 ACTTTGTGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (39 bp):
ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGG
Found at i:6831101 original size:56 final size:56
Alignment explanation
Indices: 6830963--6831388 Score: 669
Period size: 56 Copynumber: 7.7 Consensus size: 56
6830953 TTCCGTATGG
* *
6830963 ACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGACACTTTGTGTGC-AAA
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
* * * *
6831018 ACTAATAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGCGTACAAAA
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
** *
6831074 ACTAAGAAATTCATAATAAGTTTATGAATTTATGTATGGACACTTTGTGTGC-AAA
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
* *
6831129 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATTCAAAA
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
*
6831185 ACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAA
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
* *
6831241 GCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
* * *
6831297 ACTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTGTGGGC-AAA
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
*
6831352 ACTAAGAAATTAATAATAAGTTTATGAATTTCCGTAT
1 ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
6831389 TGGTAGTAGG
Statistics
Matches: 339, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
55 133 0.39
56 206 0.61
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (56 bp):
ACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
Found at i:6831166 original size:261 final size:266
Alignment explanation
Indices: 6830631--6831382 Score: 1052
Period size: 261 Copynumber: 2.8 Consensus size: 266
6830621 TACTGAATGA
* *
6830631 CACTTTGTGTGC-AAAACTAAAAAATTCATAATAAGTTTATGAATTTCCGTATGAGCACTTTGTG
1 CACTTTGTATGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCG-AT--G-A---T-TG
* * *
6830695 TGCAAAAACTAAGAAATTCATAATAAGTTTATGAACTTCCATATGGACACTTTGTGTGCAAAACT
58 TG----AACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGACACTTTGTGTGCAAAACT
6830760 AAGAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAACTAAGAAATTC
119 AAGAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAACTAAGAAATTC
*
6830825 ATAATAAGTTTATGAATTTCTGTATAGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTT
184 ATAATAAGTTTATGAATTTATGTATAGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTT
6830890 TATGAATTTCCGTATGGG
249 TATGAATTTCCGTATGGG
*
6830908 CACTTTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCG-T-A-TG-G-ACTAA
1 CACTTTGTATGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGATGATTGTGAACTAA
*
6830968 GAAATTCATAATGAGTTTATGAATTTCCGTATGGACACTTTGTGTGCAAAACTAATAAATTCATA
66 GAAATTCATAATGAGTTTATGAATTTCCGTATGGACACTTTGTGTGCAAAACTAAGAAATTCATA
* *
6831033 ATAAGTTTATGAATTTCCGTATAGGCACTTTGCGTACAAAAACTAAGAAATTCATAATAAGTTTA
131 ATAAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTA
6831098 TGAATTTATGTAT-GGACACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
196 TGAATTTATGTATAGG-CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
6831162 GTATGGG
260 GTATGGG
* *
6831169 CACTTTGTATTCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTG
1 CACTTTGTATGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCG-AT--G-A---T-TG
*
6831234 TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
58 TG---AA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGACACTTTGTGTGC-AAAAC
* * * *
6831299 TAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTGTGGGC-AAAACTAAGAAATT
118 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAACTAAGAAATT
*
6831363 AATAATAAGTTTATGAATTT
183 CATAATAAGTTTATGAATTT
6831383 CCGTATTGGT
Statistics
Matches: 435, Mismatches: 20, Indels: 39
0.88 0.04 0.08
Matches are distributed among these distances:
260 2 0.00
261 243 0.56
263 1 0.00
266 1 0.00
267 3 0.01
272 3 0.01
273 1 0.00
276 1 0.00
277 13 0.03
278 119 0.27
279 48 0.11
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (266 bp):
CACTTTGTATGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGATGATTGTGAACTAA
GAAATTCATAATGAGTTTATGAATTTCCGTATGGACACTTTGTGTGCAAAACTAAGAAATTCATA
ATAAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTA
TGAATTTATGTATAGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCG
TATGGG
Found at i:6831730 original size:46 final size:46
Alignment explanation
Indices: 6831679--6831766 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
6831669 TTAGATGAAG
* * *
6831679 AACAATGCATAATTGGCATGAAAGGATGTCATAAATGAAAATGTAT
1 AACAATGCATAATTGACATAAAAGGATGTCACAAATGAAAATGTAT
*
6831725 AACAATGCATAATTGACATAAAAGGATGTGACAAATGAAAAT
1 AACAATGCATAATTGACATAAAAGGATGTCACAAATGAAAAT
6831767 ACATAGCGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.24
Consensus pattern (46 bp):
AACAATGCATAATTGACATAAAAGGATGTCACAAATGAAAATGTAT
Found at i:6833090 original size:13 final size:13
Alignment explanation
Indices: 6833072--6833112 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
6833062 CAATCTAATA
6833072 AAATAATAAAAAT
1 AAATAATAAAAAT
*
6833085 AAATAAAAAAAAT
1 AAATAATAAAAAT
6833098 -AA-AATAAATAAT
1 AAATAATAAA-AAT
6833110 AAA
1 AAA
6833113 ATAAAACTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 14 0.58
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAATAAAAAT
Found at i:6833091 original size:18 final size:17
Alignment explanation
Indices: 6833068--6833118 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 17
6833058 TCACCAATCT
6833068 AATAAAATAATAAAAATA
1 AATAAAA-AATAAAAATA
*
6833086 AATAAAAAAAATAAAATA
1 AATAAAAAATA-AAAATA
6833104 AATAATAAAATAAAA
1 AATAA-AAAATAAAA
6833119 CTGAAATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 21 0.72
19 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AATAAAAAATAAAAATA
Found at i:6833110 original size:12 final size:11
Alignment explanation
Indices: 6833076--6833118 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
6833066 CTAATAAAAT
6833076 AATAAAAATAAA
1 AATAAAAAT-AA
*
6833088 TAAAAAAAATAA
1 -AATAAAAATAA
6833100 AATAAATAATAA
1 AATAAA-AATAA
6833112 AATAAAA
1 AATAAAA
6833119 CTGAAATCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.22
12 13 0.48
13 8 0.30
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:6836763 original size:17 final size:17
Alignment explanation
Indices: 6836728--6836765 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
6836718 TTTAGTTCGA
*
6836728 TTTTATTTTATCATTTT
1 TTTTACTTTATCATTTT
*
6836745 TTTTACTTT-TCATTAT
1 TTTTACTTTATCATTTT
6836761 TTTTA
1 TTTTA
6836766 AACTCAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTACTTTATCATTTT
Found at i:6838171 original size:13 final size:13
Alignment explanation
Indices: 6838153--6838190 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6838143 GGTAAACAGT
6838153 TGAGCCGAGCCAC
1 TGAGCCGAGCCAC
**
6838166 TGAGCCGAGCCGT
1 TGAGCCGAGCCAC
6838179 TGAGCCGAGCCA
1 TGAGCCGAGCCA
6838191 AGCCGATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.21, C:0.34, G:0.34, T:0.11
Consensus pattern (13 bp):
TGAGCCGAGCCAC
Found at i:6838294 original size:37 final size:37
Alignment explanation
Indices: 6838250--6838323 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
6838240 TGGGTTAACT
6838250 CGTTGACTTTGACCGAGTCAACCCA-TTGACCGTTGAC
1 CGTTGACTTTGACCGAGTCAA-CCAGTTGACCGTTGAC
*
6838287 CGTTGACTTTGACCGAGTCAACCAGTTGACTGTTGAC
1 CGTTGACTTTGACCGAGTCAACCAGTTGACCGTTGAC
6838324 TTTGACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 3 0.09
37 32 0.91
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (37 bp):
CGTTGACTTTGACCGAGTCAACCAGTTGACCGTTGAC
Done.