Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 64
Found at i:6380087 original size:30 final size:30
Alignment explanation
Indices: 6380051--6380107 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
6380041 TTGCTACAGT
6380051 GACCTCCATAGGTCTCCAGGAGCACACGGC
1 GACCTCCATAGGTCTCCAGGAGCACACGGC
6380081 GACCTCCATAGGTCTCCAGGAGCACAC
1 GACCTCCATAGGTCTCCAGGAGCACAC
6380108 AACGACCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.37, G:0.25, T:0.14
Consensus pattern (30 bp):
GACCTCCATAGGTCTCCAGGAGCACACGGC
Found at i:6380114 original size:30 final size:30
Alignment explanation
Indices: 6380051--6380115 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
6380041 TTGCTACAGT
**
6380051 GACCTCCATAGGTCTCCAGGAGCACACGGC
1 GACCTCCATAGGTCTCCAGGAGCACACAAC
6380081 GACCTCCATAGGTCTCCAGGAGCACACAAC
1 GACCTCCATAGGTCTCCAGGAGCACACAAC
6380111 GACCT
1 GACCT
6380116 ACCTACAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.37, G:0.23, T:0.14
Consensus pattern (30 bp):
GACCTCCATAGGTCTCCAGGAGCACACAAC
Found at i:6380161 original size:30 final size:30
Alignment explanation
Indices: 6380120--6380189 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
6380110 CGACCTACCT
*
6380120 ACAGTGACCTCCATAGGTCTCCAGGAGAAC
1 ACAGCGACCTCCATAGGTCTCCAGGAGAAC
*
6380150 AC-GACGACCTCCATAGGTCTCCAGGAGCAC
1 ACAG-CGACCTCCATAGGTCTCCAGGAGAAC
6380180 ACAGCGACCT
1 ACAGCGACCT
6380190 ACTTAGCGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 1 0.03
30 34 0.94
31 1 0.03
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (30 bp):
ACAGCGACCTCCATAGGTCTCCAGGAGAAC
Found at i:6380165 original size:74 final size:74
Alignment explanation
Indices: 6380044--6380191 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
6380034 AGAGTGATTG
* *
6380044 CTACAGTGACCTCCATAGGTCTCCAGGAGCACACGGCGACCTCCATAGGTCTCCAGGAGCACACA
1 CTACAGTGACCTCCATAGGTCTCCAGGAGAACACGACGACCTCCATAGGTCTCCAGGAGCACACA
6380109 ACGACCTAC
66 ACGACCTAC
6380118 CTACAGTGACCTCCATAGGTCTCCAGGAGAACACGACGACCTCCATAGGTCTCCAGGAGCACACA
1 CTACAGTGACCTCCATAGGTCTCCAGGAGAACACGACGACCTCCATAGGTCTCCAGGAGCACACA
*
6380183 GCGACCTAC
66 ACGACCTAC
6380192 TTAGCGTGCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.28, C:0.36, G:0.22, T:0.15
Consensus pattern (74 bp):
CTACAGTGACCTCCATAGGTCTCCAGGAGAACACGACGACCTCCATAGGTCTCCAGGAGCACACA
ACGACCTAC
Found at i:6385126 original size:18 final size:17
Alignment explanation
Indices: 6385105--6385171 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 17
6385095 AGTATGTTGT
6385105 TTCATTCAA-TAAAGCAAG
1 TTCATT-AATTAAA-CAAG
*
6385123 TTCATTAATTAAACTAG
1 TTCATTAATTAAACAAG
*
6385140 TTCATTAATTTAAACTAG
1 TTCATTAA-TTAAACAAG
*
6385158 TTCATAAATTAAAC
1 TTCATTAATTAAAC
6385172 TAGCTCTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
17 19 0.42
18 26 0.58
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.37
Consensus pattern (17 bp):
TTCATTAATTAAACAAG
Found at i:6385143 original size:17 final size:17
Alignment explanation
Indices: 6385121--6385174 Score: 90
Period size: 17 Copynumber: 3.1 Consensus size: 17
6385111 CAATAAAGCA
6385121 AGTTCATTAATTAAACT
1 AGTTCATTAATTAAACT
6385138 AGTTCATTAATTTAAACT
1 AGTTCATTAA-TTAAACT
*
6385156 AGTTCATAAATTAAACT
1 AGTTCATTAATTAAACT
6385173 AG
1 AG
6385175 CTCTTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (17 bp):
AGTTCATTAATTAAACT
Found at i:6385183 original size:18 final size:17
Alignment explanation
Indices: 6385129--6385184 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
6385119 CAAGTTCATT
6385129 AATTAAACTAGTTCATTA
1 AATTAAACTAGTTC-TTA
* *
6385147 ATTTAAACTAGTTCATA
1 AATTAAACTAGTTCTTA
*
6385164 AATTAAACTAGCTCTTTA
1 AATTAAACTAGTTC-TTA
6385182 AAT
1 AAT
6385185 GTTTGCATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.39
Consensus pattern (17 bp):
AATTAAACTAGTTCTTA
Found at i:6392520 original size:44 final size:44
Alignment explanation
Indices: 6392465--6392597 Score: 203
Period size: 44 Copynumber: 3.0 Consensus size: 44
6392455 ATACCATGAG
* *
6392465 TGGCTCCTTTTTGCCAATAATGCACCGTTATGTATTTTCATTTA
1 TGGCACCTTTTTGCCAATAATGCACCGTTATGAATTTTCATTTA
* *
6392509 TGGCACCTTTTTGCCAATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTTTGCCAATAATGCACCGTTATGAATTTTCATTTA
** *
6392553 TGGCACCTTACTGCCAATAATGTACCGTTATGAATTTTCATTTA
1 TGGCACCTTTTTGCCAATAATGCACCGTTATGAATTTTCATTTA
6392597 T
1 T
6392598 TTCACTAACA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 81 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (44 bp):
TGGCACCTTTTTGCCAATAATGCACCGTTATGAATTTTCATTTA
Found at i:6408566 original size:44 final size:44
Alignment explanation
Indices: 6408529--6408694 Score: 253
Period size: 44 Copynumber: 3.8 Consensus size: 44
6408519 GGCATCTTTT
* *
6408529 TGCCAATAATTCA-TCATTATGCATTTTCATTTATGGCATATTTC
1 TGCCAATAATGCACT-ATTATGCATTTTCATTTATGGCACATTTC
* *
6408573 TACCAATAATGCACTGTTATGCATTTTCATTTATGGCACATTTC
1 TGCCAATAATGCACTATTATGCATTTTCATTTATGGCACATTTC
* *
6408617 TGCCAATAATGTACCATTATGCATTTTCATTTATGGCACATTTC
1 TGCCAATAATGCACTATTATGCATTTTCATTTATGGCACATTTC
*
6408661 TGCCAATAATGCACTGTTATGCATTTTCATTTAT
1 TGCCAATAATGCACTATTATGCATTTTCATTTAT
6408695 TTCGGTAACA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 109 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (44 bp):
TGCCAATAATGCACTATTATGCATTTTCATTTATGGCACATTTC
Found at i:6408667 original size:88 final size:88
Alignment explanation
Indices: 6408529--6408694 Score: 289
Period size: 88 Copynumber: 1.9 Consensus size: 88
6408519 GGCATCTTTT
* *
6408529 TGCCAATAATTCATCATTATGCATTTTCATTTATGGCATATTTCTACCAATAATGCACTGTTATG
1 TGCCAATAATTCACCATTATGCATTTTCATTTATGGCACATTTCTACCAATAATGCACTGTTATG
6408594 CATTTTCATTTATGGCACATTTC
66 CATTTTCATTTATGGCACATTTC
*
6408617 TGCCAATAATGT-ACCATTATGCATTTTCATTTATGGCACATTTCTGCCAATAATGCACTGTTAT
1 TGCCAATAAT-TCACCATTATGCATTTTCATTTATGGCACATTTCTACCAATAATGCACTGTTAT
6408681 GCATTTTCATTTAT
65 GCATTTTCATTTAT
6408695 TTCGGTAACA
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
88 73 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (88 bp):
TGCCAATAATTCACCATTATGCATTTTCATTTATGGCACATTTCTACCAATAATGCACTGTTATG
CATTTTCATTTATGGCACATTTC
Found at i:6409421 original size:20 final size:20
Alignment explanation
Indices: 6409375--6409421 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
6409365 CCCCTACCCA
*
6409375 GATTTTCCATTTTTCAGCTC
1 GATTTTTCATTTTTCAGCTC
6409395 GATTTTTCATTTTTCAGCTC
1 GATTTTTCATTTTTCAGCTC
6409415 GATTTTT
1 GATTTTT
6409422 ACCAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.19, G:0.11, T:0.55
Consensus pattern (20 bp):
GATTTTTCATTTTTCAGCTC
Found at i:6411109 original size:81 final size:81
Alignment explanation
Indices: 6410991--6411445 Score: 686
Period size: 81 Copynumber: 5.6 Consensus size: 81
6410981 TGTTTAACCA
* *
6410991 TTCATCTAACTAGCATAATTGGCACCTTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACT
1 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACT
6411056 CAACGGTATTAAACAG
66 CAACGGTATTAAACAG
6411072 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACT
1 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACT
* *
6411137 CAACAGTATTAAACTG
66 CAACGGTATTAAACAG
* * ** *
6411153 TTAATCTAACTAGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGATATTATTCTTTTACT
1 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACT
*
6411218 CAACAGTATTAAATC-G
66 CAACGGTATTAAA-CAG
* * *
6411234 TTCATCTAACTGGCATAATTGATACATTTCTACCAATTGCATAGTTAGGCCATTATTCCTTTACT
1 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACT
*
6411299 -AATGGTATTAAACCA-
66 CAACGGTATTAAA-CAG
* *
6411314 TTCATCTAACTGGCATAATTGGTACATTTCTACCAATTGCACAGTTAGGCCATTATTCTCTTT-G
1 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGCCATTATTC-CTTTAC
6411378 TCAACGGTATTAAA-ATG
65 TCAACGGTATTAAACA-G
*
6411395 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTACACAGTTAGGCC
1 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGCC
6411446 TCAAAGACAC
Statistics
Matches: 342, Mismatches: 26, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
79 1 0.00
80 68 0.20
81 272 0.80
82 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACT
CAACGGTATTAAACAG
Found at i:6411404 original size:242 final size:243
Alignment explanation
Indices: 6410967--6411443 Score: 753
Period size: 242 Copynumber: 2.0 Consensus size: 243
6410957 TAACCAGTCG
* * * * *
6410967 CTTTTATTCAACAGTGTTTAACCATTCATCTAACTAGCATAATTGGCACCTTTCTACCAATTGCA
1 CTTTTACTCAACAGTATTAAACCATTCATCTAACTAGCATAATTGACACATTTCTACCAATTGCA
6411032 CAGTTAGGCCATTATTCCTTTACTCAACGGTATTAAACAGTTCATCTAACTGGCATAATTGGTAC
66 CAGTTAGGCCATTATTCCTTTACTCAACGGTATTAAACAGTTCATCTAACTGGCATAATTGGTAC
* *
6411097 CTTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACTCAACAGTATTAAACTGTTAATCTAA
131 ATTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACTCAACAGTATTAAAATGTTAATCTAA
*
6411162 CTAGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGGATATTATT
196 CTAGCATAATTGGTACCTTTCTACCAATTACACAGTTAGGATATTATT
* * * *
6411210 CTTTTACTCAACAGTATTAAATCGTTCATCTAACTGGCATAATTGATACATTTCTACCAATTGCA
1 CTTTTACTCAACAGTATTAAACCATTCATCTAACTAGCATAATTGACACATTTCTACCAATTGCA
* *
6411275 TAGTTAGGCCATTATTCCTTTACT-AATGGTATTAAACCA-TTCATCTAACTGGCATAATTGGTA
66 CAGTTAGGCCATTATTCCTTTACTCAACGGTATTAAA-CAGTTCATCTAACTGGCATAATTGGTA
* * *
6411338 CATTTCTACCAATTGCACAGTTAGGCCATTATTCTCTTT-GTCAACGGTATTAAAATGTTCATCT
130 CATTTCTACCAATTGCACAGTTAGGCCATTATTC-CTTTACTCAACAGTATTAAAATGTTAATCT
*
6411402 AACTGGCATAATTGGTACCTTTCTACCAATTACACAGTTAGG
194 AACTAGCATAATTGGTACCTTTCTACCAATTACACAGTTAGG
6411444 CCTCAAAGAC
Statistics
Matches: 214, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
242 129 0.60
243 85 0.40
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (243 bp):
CTTTTACTCAACAGTATTAAACCATTCATCTAACTAGCATAATTGACACATTTCTACCAATTGCA
CAGTTAGGCCATTATTCCTTTACTCAACGGTATTAAACAGTTCATCTAACTGGCATAATTGGTAC
ATTTCTACCAATTGCACAGTTAGGCCATTATTCCTTTACTCAACAGTATTAAAATGTTAATCTAA
CTAGCATAATTGGTACCTTTCTACCAATTACACAGTTAGGATATTATT
Found at i:6411506 original size:68 final size:68
Alignment explanation
Indices: 6411395--6411651 Score: 424
Period size: 68 Copynumber: 3.8 Consensus size: 68
6411385 TATTAAAATG
* ** ** * *
6411395 TTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTACACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGACACTTAG
6411460 TCT
66 TCT
6411463 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGACACTTAG
6411528 TCT
66 TCT
*
6411531 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGACACTTAG
6411596 TCT
66 TCT
* *
6411599 TTCATCTAACTGGCATAAATGACACATTTCTGTCATATGCACAGTTAGGCCTC
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTC
6411652 TTGATCTTTT
Statistics
Matches: 180, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 180 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGACACTTAG
TCT
Found at i:6412084 original size:58 final size:59
Alignment explanation
Indices: 6412016--6412179 Score: 172
Period size: 59 Copynumber: 2.8 Consensus size: 59
6412006 ACCCATACGG
* * *
6412016 AAATTCATACACTTAGTATGAATTCCTTATCCT-TTAGCACAC-AAGGTGCCCAATGCAA
1 AAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAA-GTACCCAATACAA
* * * ** **
6412074 AAATTCATACACTTAGAATGAATTTCTTATCATGTTAGCACACGAAGTATCCTTTACGG
1 AAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTACCCAATACAA
* * **
6412133 AAATTCATACAATTAGTATGAATTCCTTAACAT-TTTTCACACGAAGT
1 AAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGT
6412180 GCCATTTGGT
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
58 42 0.48
59 44 0.50
60 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTACCCAATACAA
Found at i:6412142 original size:59 final size:58
Alignment explanation
Indices: 6412005--6412179 Score: 192
Period size: 58 Copynumber: 3.0 Consensus size: 58
6411995 CTTATATTTA
*
6412005 TACCC-ATACGGAAATTCATACACTTAGTATGAATTCCTTATCCTTTAGCACAC-AAGG
1 TACCCAATACGGAAATTCATACACTTAGTATGAATTCCTTATCATTTAGCACACGAA-G
* * ** * *
6412062 TGCCCAATGCAAAAATTCATACACTTAGAATGAATTTCTTATCATGTTAGCACACGAAG
1 TACCCAATACGGAAATTCATACACTTAGTATGAATTCCTTATCAT-TTAGCACACGAAG
* ** * * **
6412121 TATCCTTTACGGAAATTCATACAATTAGTATGAATTCCTTAACATTTTTCACACGAAG
1 TACCCAATACGGAAATTCATACACTTAGTATGAATTCCTTATCATTTAGCACACGAAG
6412179 T
1 T
6412180 GCCATTTGGT
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
57 4 0.04
58 45 0.47
59 44 0.46
60 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (58 bp):
TACCCAATACGGAAATTCATACACTTAGTATGAATTCCTTATCATTTAGCACACGAAG
Found at i:6412622 original size:20 final size:20
Alignment explanation
Indices: 6412597--6412655 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
6412587 ATGTTGCCTA
*
6412597 GTATCGATACCCTTACTATG
1 GTATCGATACCCTTACTAGG
* *
6412617 GTATCGATACTACCCTATTAGG
1 GTATCGATAC--CCTTACTAGG
6412639 GTATCGATACCCCTTAC
1 GTATCGATA-CCCTTAC
6412656 CGGTATCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 10 0.32
21 4 0.13
22 16 0.52
23 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCTTACTAGG
Found at i:6412671 original size:95 final size:95
Alignment explanation
Indices: 6412537--6412725 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 95
6412527 AATATTTATA
* * * * *
6412537 TATTATGGTATCGATACCCTTTTCGGGTATCGATGCCAAAAATA-AGTTCGATGTTGCCTAGTAT
1 TATTAGGGTATCGATACCCCTTACCGGTATCGATACCAAAAATAGA-TTCGATGTTGCCTAGTAT
6412601 CGATACCCTTA-CTATGGTATCGATACTACCC
65 CGATACCCTTATC-ATGGTATCGATACTACCC
* * * * *
6412632 TATTAGGGTATCGATACCCCTTACCGGTATCTATACCAAAAATAGATTCGATGTTTCTTGGTATT
1 TATTAGGGTATCGATACCCCTTACCGGTATCGATACCAAAAATAGATTCGATGTTGCCTAGTATC
6412697 GATACCCTTATCATGGTATCGATACTACC
66 GATACCCTTATCATGGTATCGATACTACC
6412726 TCAATGGTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
95 80 0.98
96 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (95 bp):
TATTAGGGTATCGATACCCCTTACCGGTATCGATACCAAAAATAGATTCGATGTTGCCTAGTATC
GATACCCTTATCATGGTATCGATACTACCC
Found at i:6414533 original size:2 final size:2
Alignment explanation
Indices: 6414526--6414570 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6414516 TTAAAACCCA
6414526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6414568 AT A
1 AT A
6414571 AAAACCAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6415978 original size:15 final size:15
Alignment explanation
Indices: 6415945--6415998 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
6415935 TTCTATTCAA
* *
6415945 TTTTACA-TTTATGC
1 TTTTACATTTTTTCC
6415959 TTTTACATTTTTTCC
1 TTTTACATTTTTTCC
*
6415974 TTTTAAATTTTTGTCC
1 TTTTACATTTTT-TCC
6415990 TTTTA-ATTT
1 TTTTACATTT
6415999 AAGCATTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
14 7 0.20
15 20 0.57
16 8 0.23
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTTACATTTTTTCC
Found at i:6424497 original size:262 final size:261
Alignment explanation
Indices: 6424019--6424635 Score: 767
Period size: 262 Copynumber: 2.4 Consensus size: 261
6424009 TGCTTGAGTC
* *
6424019 AGTCCTTTGGGCCATCTATAAGACCTTAAGGCAAGATGCTTTCATGTGATGTTTGTG--GAAAAT
1 AGTCCTTTGGGCCATCTATAAGACCTT-AGGCAAGATGCTTTCATATGATGTTTGTGAAAAAAAT
* *
6424082 GAGAGAGCGATTTTCAAAGTTTCTCATTTAATATGTTCAGAAAATGAATTTTTTAAAAAGTAAGA
65 GAGAAAGCGATTTTCAAAGTTTCTCATTTAATATGTTCAGAAAATGAATTTTTGAAAAAGTAAGA
* * * * *
6424147 ATGCGATTTCTAAAGTTTCTTACCCAATAGACTATTTCCAAAATTGGTAAGTCCTCCGAGTCATC
130 AAGCCATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTCCGAGCCATC
* * *
6424212 AGTAAGTCCTTCGAGCGTGATGATTAAATCCTTCAAGTAATCTT-CCAGTCTTTCAAACAAGATG
195 AATAAATCCTTCGAGCATGATGATTAAATCCTTCAAGTAAT-TTGCCAGTCTTTCAAACAAGATG
6424276 ATA
259 ATA
*
6424279 AGTCCTTCGGGCCATCTATAAGACCTTCAGGCAAGATGCTTTCATATGATGTTTGTGAAAAAAAT
1 AGTCCTTTGGGCCATCTATAAGACCTT-AGGCAAGATGCTTTCATATGATGTTTGTGAAAAAAAT
* * *
6424344 GAGAAAACGATTTTCAAAGTTTCTCATTTAATATTTTTAGAAAATAGAATTTTTGAAAAA-TAAG
65 GAGAAAGCGATTTTCAAAGTTTCTCATTTAATATGTTCAGAAAAT-GAATTTTTGAAAAAGTAAG
* * * ** *
6424408 AAAGCCATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAGTTTGTAAGTCCTTTTGA-CCG
129 AAAGCCATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCC-TCCGAGCCA
** * * * * * **
6424472 TCAATAAATTTTTCGAGTATGATGATTAAATCCTTCAGGTCATTTGTCAGTCTTTCGAGTAAGAT
193 TCAATAAATCCTTCGAGCATGATGATTAAATCCTTCAAGTAATTTGCCAGTCTTTCAAACAAGAT
6424537 GATA
258 GATA
* * * * * * * *
6424541 AGTCATTTGGGTCATCTATAAAACCTTTGTGCATGATGTTTTAATATGATATTTGTGAAAAAAAT
1 AGTCCTTTGGGCCATCTATAAGACCTTAG-GCAAGATGCTTTCATATGATGTTTGTGAAAAAAAT
* * *
6424606 GTGAAAGTGGTTTTCAAAGTTTCTCATTTA
65 GAGAAAGCGATTTTCAAAGTTTCTCATTTA
6424636 GTACAAAAAA
Statistics
Matches: 306, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
260 54 0.18
261 3 0.01
262 233 0.76
263 16 0.05
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (261 bp):
AGTCCTTTGGGCCATCTATAAGACCTTAGGCAAGATGCTTTCATATGATGTTTGTGAAAAAAATG
AGAAAGCGATTTTCAAAGTTTCTCATTTAATATGTTCAGAAAATGAATTTTTGAAAAAGTAAGAA
AGCCATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTCCGAGCCATCA
ATAAATCCTTCGAGCATGATGATTAAATCCTTCAAGTAATTTGCCAGTCTTTCAAACAAGATGAT
A
Found at i:6424842 original size:29 final size:30
Alignment explanation
Indices: 6424793--6424853 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
6424783 TATGTCTCGC
* *
6424793 TTGAAATAGTTTTCTTTGAAAC-ACAAATT
1 TTGAAATAGTTTTATTCGAAACAACAAATT
* *
6424822 TTGAAATTGTTTTATTCGAAACAAGAAATT
1 TTGAAATAGTTTTATTCGAAACAACAAATT
6424852 TT
1 TT
6424854 TATCTCACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (30 bp):
TTGAAATAGTTTTATTCGAAACAACAAATT
Found at i:6432507 original size:2 final size:2
Alignment explanation
Indices: 6432502--6432531 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6432492 TTAAAAAATC
6432502 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6432532 TAGTTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6432907 original size:51 final size:49
Alignment explanation
Indices: 6432806--6432934 Score: 217
Period size: 51 Copynumber: 2.6 Consensus size: 49
6432796 TTCAATTAAA
6432806 TATAGTAGTTAGTGGGTTGTTT-A-ATATATATATATATATATATATAT
1 TATAGTAGTTAGTGGGTTGTTTAATATATATATATATATATATATATAT
6432853 TATAGTAGTTAGTGGGTTGTTTAATATAAATATATATATATATATATATAT
1 TATAGTAGTTAGTGGGTTGTTTAATAT--ATATATATATATATATATATAT
*
6432904 TATAGTAGTTAGTGGGTTGTTTAATGTATAT
1 TATAGTAGTTAGTGGGTTGTTTAATATATAT
6432935 GAACAAATTT
Statistics
Matches: 77, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
47 22 0.29
48 1 0.01
49 6 0.08
51 48 0.62
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (49 bp):
TATAGTAGTTAGTGGGTTGTTTAATATATATATATATATATATATATAT
Found at i:6434753 original size:2 final size:2
Alignment explanation
Indices: 6434746--6434770 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6434736 GTTGTCTGAT
6434746 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
6434771 TTTTGCTTTT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6435683 original size:42 final size:42
Alignment explanation
Indices: 6435624--6435713 Score: 180
Period size: 42 Copynumber: 2.1 Consensus size: 42
6435614 ACAAAGACTG
6435624 AGAAGATCTCATAAGATATAGATGTCAGTTAGATCGAGGACA
1 AGAAGATCTCATAAGATATAGATGTCAGTTAGATCGAGGACA
6435666 AGAAGATCTCATAAGATATAGATGTCAGTTAGATCGAGGACA
1 AGAAGATCTCATAAGATATAGATGTCAGTTAGATCGAGGACA
6435708 AGAAGA
1 AGAAGA
6435714 CTATTCAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (42 bp):
AGAAGATCTCATAAGATATAGATGTCAGTTAGATCGAGGACA
Found at i:6445552 original size:35 final size:36
Alignment explanation
Indices: 6445501--6445629 Score: 165
Period size: 35 Copynumber: 3.6 Consensus size: 36
6445491 GTTCAGTTCT
*
6445501 GATCAAGCTGGTAATTCCTTATATAGGTTCAACACC
1 GATCAAGCTGGTAATTCCTTATATAGGTTCAGCACC
* ** *
6445537 GATC-AGCTGGTAATTCCTTAT-TGCAAGTTCAGTTCT
1 GATCAAGCTGGTAATTCCTTATAT--AGGTTCAGCACC
*
6445573 AATCAAGCTGGTAATTCCTTATATAGGTTCAGCACC
1 GATCAAGCTGGTAATTCCTTATATAGGTTCAGCACC
6445609 GATCAA-CTGGTAATTCCTTAT
1 GATCAAGCTGGTAATTCCTTAT
6445630 GGACCTAAGA
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
34 1 0.01
35 32 0.41
36 27 0.35
37 17 0.22
38 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (36 bp):
GATCAAGCTGGTAATTCCTTATATAGGTTCAGCACC
Found at i:6445591 original size:37 final size:38
Alignment explanation
Indices: 6445486--6445629 Score: 158
Period size: 36 Copynumber: 4.0 Consensus size: 38
6445476 ATGAAGTCTC
6445486 TGCAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
1 TGCAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
*** *
6445524 T--AGGTTCAACACCGATC-AGCTGGTAATTCCTTAT-
1 TGCAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
* *
6445558 TGCAAGTTCAGTTCTAATCAAGCTGGTAATTCCTTATA
1 TGCAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
** *
6445596 T--AGGTTCAGCACCGATCAA-CTGGTAATTCCTTAT
1 TGCAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTAT
6445630 GGACCTAAGA
Statistics
Matches: 87, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
34 1 0.01
35 32 0.37
36 35 0.40
37 17 0.20
38 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (38 bp):
TGCAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
Found at i:6445609 original size:72 final size:72
Alignment explanation
Indices: 6445486--6445629 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
6445476 ATGAAGTCTC
* * *
6445486 TGCAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATATAGGTTCAACACCGATCAGCTGGTAAT
1 TGCAAGTTCAGTTCTAATCAAGCTGGTAATTCCTTATATAGGTTCAACACCGATCAACTGGTAAT
6445551 TCCTTAT
66 TCCTTAT
*
6445558 TGCAAGTTCAGTTCTAATCAAGCTGGTAATTCCTTATATAGGTTCAGCACCGATCAACTGGTAAT
1 TGCAAGTTCAGTTCTAATCAAGCTGGTAATTCCTTATATAGGTTCAACACCGATCAACTGGTAAT
6445623 TCCTTAT
66 TCCTTAT
6445630 GGACCTAAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (72 bp):
TGCAAGTTCAGTTCTAATCAAGCTGGTAATTCCTTATATAGGTTCAACACCGATCAACTGGTAAT
TCCTTAT
Found at i:6446791 original size:2 final size:2
Alignment explanation
Indices: 6446784--6446819 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6446774 TTCAAGGTGG
6446784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6446820 TAATAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6447668 original size:60 final size:60
Alignment explanation
Indices: 6447543--6447670 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
6447533 ATAGTCGATT
* ** * *
6447543 GACCATTTTATAACTTTTAATAGTTGAGGGACTCAACAAAGGAACTCAATATAGTTAAGG
1 GACCATTTTATAACTTTTAATAGCTGAGGGACTCAACAAAACAACACAATATAGTCAAGG
* * * * * *
6447603 AACCATTTTGTAACTTTTAATAGCTGGGGGACTCAATAAAACAACACCATATAGTCAGGG
1 GACCATTTTATAACTTTTAATAGCTGAGGGACTCAACAAAACAACACAATATAGTCAAGG
6447663 GACCATTT
1 GACCATTT
6447671 GTGTGCTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAGCTGAGGGACTCAACAAAACAACACAATATAGTCAAGG
Found at i:6449865 original size:281 final size:281
Alignment explanation
Indices: 6448878--6449991 Score: 2004
Period size: 280 Copynumber: 4.0 Consensus size: 281
6448868 ATGCAGTTGC
* *
6448878 TGGTGTTCGAACACATGACCTCTTAACCATTATTTTCTATATAAGTTAAATAAATTTTAGTTTGT
1 TGGTGTTCGAACTCGTGACCTCTTAACCATTATTTTCTATATAAGTTAAATAAATTTTAGTTTGT
*
6448943 ACAATCTTATTCATTTTTTAGGTATAATGCCAAAAATAGACCCAATATTTATCAAAATGGTCATT
66 ACAATCTTATTCATTTTTTAGGTATAATGCCAAAAATAGACCCAATGTTTATCAAAATGGTCATT
6449008 TTGACCTTTATT-TTTTTTATAGCATTTTGGCCCCCAACGTTTTACTTTGAGGCAAAAAGCTCCC
131 TTGACCTTTATTCTTTTTTATAGCATTTTGGCCCCCAACGTTTTACTTTGAGGCAAAAAGCTCCC
**
6449072 TCTATAGATGAAAACTATTAGTTAACACACGATTAACACTCCAAAATATGATAATTTTTTAAGCT
196 TCTATAGATGAAAACTATTAGTTAACACACGATTAACACTCCAAAATATGAGCATTTTTTAAGCT
6449137 AAAATGAAACATTGCAATCGT
261 AAAATGAAACATTGCAATCGT
* * *
6449158 TGGTGTTCGAACTCGTGACCTGTTAACCATTATTTTCAATATAAGTTAAATACATTTTAGTTTGT
1 TGGTGTTCGAACTCGTGACCTCTTAACCATTATTTTCTATATAAGTTAAATAAATTTTAGTTTGT
6449223 ACAATCTTATTCATTTTTTAGGTATAATGCCAAAAATAGACCCAATGTTTATCAAAATGGTCATT
66 ACAATCTTATTCATTTTTTAGGTATAATGCCAAAAATAGACCCAATGTTTATCAAAATGGTCATT
6449288 TTGACCTTTATTCTTTTTTATAGCATTTTGGCCCCCAACGTTTTACTTTGAGGCAAAAAGCTCCC
131 TTGACCTTTATTCTTTTTTATAGCATTTTGGCCCCCAACGTTTTACTTTGAGGCAAAAAGCTCCC
*
6449353 TCTATAGATGAAAACTGTTAGTTAACACACGATTAACACTCCAAAATATGAGCA-TTTTTAAGCT
196 TCTATAGATGAAAACTATTAGTTAACACACGATTAACACTCCAAAATATGAGCATTTTTTAAGCT
6449417 AAAATGAAACATTGCAATCGT
261 AAAATGAAACATTGCAATCGT
*
6449438 TGGTGTTCGAACTCGTGACCTCTTAACCATTATTTTCTATACAAGTTAAATAAATTTTAGTTTGT
1 TGGTGTTCGAACTCGTGACCTCTTAACCATTATTTTCTATATAAGTTAAATAAATTTTAGTTTGT
*
6449503 ACAATCTTATTCCTTTTTTAGGTATAATGCCAAAAATAGACCCAATGTTTATCAAAATGGTCATT
66 ACAATCTTATTCATTTTTTAGGTATAATGCCAAAAATAGACCCAATGTTTATCAAAATGGTCATT
6449568 TTGACCTTTATTCTTTTTTATAGCATTTTGGCCCCCAACGTTTTACTTTGAGGCAAAAAGCTCCC
131 TTGACCTTTATTCTTTTTTATAGCATTTTGGCCCCCAACGTTTTACTTTGAGGCAAAAAGCTCCC
6449633 TCTATAGATGAAAACTATTAGTTAACACACGATTAACACTCCAAAATATGAGCATTTTTTAAGCT
196 TCTATAGATGAAAACTATTAGTTAACACACGATTAACACTCCAAAATATGAGCATTTTTTAAGCT
*
6449698 AAAATGAAACATTACAATCGT
261 AAAATGAAACATTGCAATCGT
6449719 TGGTGTTCGAACTCGTGACCTCTTAACCATTATTTTCTATATAAGTTAAATAAATTTTAGTTTGT
1 TGGTGTTCGAACTCGTGACCTCTTAACCATTATTTTCTATATAAGTTAAATAAATTTTAGTTTGT
* *
6449784 ACAGTCTTATTCCTTTTTTAGGTATAATGCCAAAAATAGACCCAATGTTTATCAAAATGGTCATT
66 ACAATCTTATTCATTTTTTAGGTATAATGCCAAAAATAGACCCAATGTTTATCAAAATGGTCATT
* * *
6449849 TTGACCTTTATTC-TTTTTATAGCATTTTGG-CCCCAACGTTTCACTTTGGGGGCAAAAAGCTCT
131 TTGACCTTTATTCTTTTTTATAGCATTTTGGCCCCCAACGTTTTACTTT-GAGGCAAAAAGCTCC
*
6449912 CTCTATAGATGAAAACTATTAGTTAACACACGATTAACACTCCAAAATATGAGCATTTTTTTAAC
195 CTCTATAGATGAAAACTATTAGTTAACACACGATTAACACTCCAAAATATGAGCA-TTTTTTAAG
*
6449977 CTAAAAT-AATCATTG
259 CTAAAATGAAACATTG
6449992 AGGACTAAAA
Statistics
Matches: 806, Mismatches: 24, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
279 16 0.02
280 501 0.62
281 289 0.36
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (281 bp):
TGGTGTTCGAACTCGTGACCTCTTAACCATTATTTTCTATATAAGTTAAATAAATTTTAGTTTGT
ACAATCTTATTCATTTTTTAGGTATAATGCCAAAAATAGACCCAATGTTTATCAAAATGGTCATT
TTGACCTTTATTCTTTTTTATAGCATTTTGGCCCCCAACGTTTTACTTTGAGGCAAAAAGCTCCC
TCTATAGATGAAAACTATTAGTTAACACACGATTAACACTCCAAAATATGAGCATTTTTTAAGCT
AAAATGAAACATTGCAATCGT
Found at i:6452486 original size:18 final size:18
Alignment explanation
Indices: 6452465--6452504 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
6452455 AGGAAATTTG
6452465 AATCTGTGAAGGAATTGA
1 AATCTGTGAAGGAATTGA
*
6452483 AATC--TGAAGGAATTGT
1 AATCTGTGAAGGAATTGA
6452499 AATCTG
1 AATCTG
6452505 AATCTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 15 0.79
18 4 0.21
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (18 bp):
AATCTGTGAAGGAATTGA
Found at i:6452492 original size:16 final size:16
Alignment explanation
Indices: 6452471--6452506 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6452461 TTTGAATCTG
6452471 TGAAGGAATTGAAATC
1 TGAAGGAATTGAAATC
*
6452487 TGAAGGAATTGTAATC
1 TGAAGGAATTGAAATC
6452503 TGAA
1 TGAA
6452507 TCTAAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (16 bp):
TGAAGGAATTGAAATC
Found at i:6453243 original size:28 final size:28
Alignment explanation
Indices: 6453170--6453248 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 28
6453160 CGAATTTTTT
* *
6453170 TTAAAAAAA--CAACTCGAATATCACAC
1 TTAAAAAAACCCAACCCGAATATCAAAC
6453196 TTAAAAAAACCCGACCCAACCCGAATATCAAAC
1 TT-AAAAAA----ACCCAACCCGAATATCAAAC
6453229 TTAAAAAAACCCAACCCGAA
1 TTAAAAAAACCCAACCCGAA
6453249 CTCGAATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
26 2 0.05
27 6 0.14
28 12 0.27
31 1 0.02
32 6 0.14
33 17 0.39
ACGTcount: A:0.52, C:0.29, G:0.05, T:0.14
Consensus pattern (28 bp):
TTAAAAAAACCCAACCCGAATATCAAAC
Found at i:6453255 original size:34 final size:33
Alignment explanation
Indices: 6453179--6453255 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
6453169 TTTAAAAAAA
* *
6453179 CAACTCGAATATCACACTTAAAAAAACCCGACC
1 CAACTCGAATATCAAACTTAAAAAAACCCAACC
*
6453212 CAACCCGAATATCAAACTTAAAAAAACCCAACC
1 CAACTCGAATATCAAACTTAAAAAAACCCAACC
6453245 CGAACTCGAAT
1 C-AACTCGAAT
6453256 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 31 0.79
34 8 0.21
ACGTcount: A:0.47, C:0.32, G:0.06, T:0.14
Consensus pattern (33 bp):
CAACTCGAATATCAAACTTAAAAAAACCCAACC
Found at i:6455779 original size:20 final size:21
Alignment explanation
Indices: 6455756--6455796 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6455746 CAAACTGAAT
6455756 TGAGTCA-ACCTAAAT-CAAAC
1 TGAGTCAGACC-AAATCCAAAC
6455776 TGAGTCAGACCAAATCCAAAC
1 TGAGTCAGACCAAATCCAAAC
6455797 CGTTGACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.44, C:0.27, G:0.12, T:0.17
Consensus pattern (21 bp):
TGAGTCAGACCAAATCCAAAC
Found at i:6462304 original size:43 final size:42
Alignment explanation
Indices: 6462257--6462532 Score: 250
Period size: 43 Copynumber: 6.7 Consensus size: 42
6462247 CGGCGTTTGT
* * *
6462257 CGCTATTGAATGTGTATTTAGCGGCGTTTGTATATACAAACGC
1 CGCTATTGACTGTGTATTTAGCGGCATTTGTCT-TACAAACGC
*
6462300 CGCTATTGATTGTGTATTTAGC-G-----G---TACAAACGC
1 CGCTATTGACTGTGTATTTAGCGGCATTTGTCTTACAAACGC
* * * *
6462333 CGCTATTGACTGTGTATTTAACGACATTT-T-TTAACGAACAC
1 CGCTATTGACTGTGTATTTAGCGGCATTTGTCTT-ACAAACGC
* * * * *
6462374 CGCTATTGACTTTATATTTAGCGGCATTTTTCTTTCAAATGC
1 CGCTATTGACTGTGTATTTAGCGGCATTTGTCTTACAAACGC
* * * *
6462416 CGCCATTGTCTGTGTATTTAGCGGCATTTTTCTTTACAAATGC
1 CGCTATTGACTGTGTATTTAGCGGCATTTGTC-TTACAAACGC
* * *
6462459 CGCTATTGACTGTGTATTTAGTGACATTTTTCTTTACAAACGC
1 CGCTATTGACTGTGTATTTAGCGGCATTTGTC-TTACAAACGC
*
6462502 CGCTATTGACTGTGTATTTAGTGGCATTTGT
1 CGCTATTGACTGTGTATTTAGCGGCATTTGT
6462533 AATTAAAAAC
Statistics
Matches: 195, Mismatches: 26, Indels: 24
0.80 0.11 0.10
Matches are distributed among these distances:
33 29 0.15
37 1 0.01
40 1 0.01
41 31 0.16
42 34 0.17
43 99 0.51
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (42 bp):
CGCTATTGACTGTGTATTTAGCGGCATTTGTCTTACAAACGC
Found at i:6462392 original size:74 final size:76
Alignment explanation
Indices: 6462257--6462397 Score: 180
Period size: 74 Copynumber: 1.9 Consensus size: 76
6462247 CGGCGTTTGT
* * * * *
6462257 CGCTATTGAATGTGTATTTAGCGGCGTTTGTATATACAAACGCCGCTATTGATTGTGTATTTAGC
1 CGCTATTGAATGTGTATTTAACGACATTTGTATATACAAACACCGCTATTGATTGTATATTTAGC
6462322 GGTACAAACGC
66 GGTACAAACGC
* * *
6462333 CGCTATTGACTGTGTATTTAACGACATTT-TTTA-ACGAACACCGCTATTGACTT-TATATTTAG
1 CGCTATTGAATGTGTATTTAACGACATTTGTATATACAAACACCGCTATTGA-TTGTATATTTAG
6462395 CGG
65 CGG
6462398 CATTTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
74 26 0.46
75 5 0.09
76 25 0.45
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (76 bp):
CGCTATTGAATGTGTATTTAACGACATTTGTATATACAAACACCGCTATTGATTGTATATTTAGC
GGTACAAACGC
Found at i:6462436 original size:42 final size:43
Alignment explanation
Indices: 6462324--6462530 Score: 258
Period size: 43 Copynumber: 4.9 Consensus size: 43
6462314 TATTTAGCGG
* * *
6462324 TACAAACGCCGCTATTGACTGTGTATTTAACGACA-TTTT-TT
1 TACAAATGCCGCTATTGACTGTGTATTTAGCGGCATTTTTCTT
* * ** * *
6462365 AACGAACACCGCTATTGACTTTATATTTAGCGGCATTTTTCTT
1 TACAAATGCCGCTATTGACTGTGTATTTAGCGGCATTTTTCTT
* *
6462408 T-CAAATGCCGCCATTGTCTGTGTATTTAGCGGCATTTTTCTT
1 TACAAATGCCGCTATTGACTGTGTATTTAGCGGCATTTTTCTT
* *
6462450 TACAAATGCCGCTATTGACTGTGTATTTAGTGACATTTTTCTT
1 TACAAATGCCGCTATTGACTGTGTATTTAGCGGCATTTTTCTT
* *
6462493 TACAAACGCCGCTATTGACTGTGTATTTAGTGGCATTT
1 TACAAATGCCGCTATTGACTGTGTATTTAGCGGCATTT
6462531 GTAATTAAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
41 28 0.20
42 39 0.27
43 75 0.53
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (43 bp):
TACAAATGCCGCTATTGACTGTGTATTTAGCGGCATTTTTCTT
Found at i:6465281 original size:19 final size:19
Alignment explanation
Indices: 6465257--6465296 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
6465247 ACACTTCTCC
6465257 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
6465276 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
6465295 CA
1 CA
6465297 CTTACACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (19 bp):
CATTTATCATTTTAAAACA
Found at i:6475159 original size:17 final size:18
Alignment explanation
Indices: 6475137--6475171 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6475127 GTCAAATAAT
*
6475137 TATCTC-ATTGAATTTTA
1 TATCTCTATTAAATTTTA
6475154 TATCTCTATTAAATTTTA
1 TATCTCTATTAAATTTTA
6475172 AAAAGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (18 bp):
TATCTCTATTAAATTTTA
Found at i:6475511 original size:30 final size:29
Alignment explanation
Indices: 6475475--6475543 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 29
6475465 TTTTATTAGG
6475475 AAAAAAATAGAATGAATGGTGTTTTTGAGA
1 AAAAAAATAGAATGAATGGTGTTTTTGA-A
*
6475505 AAAAAAAAAGAATGAATGGTGTTTTTGAA
1 AAAAAAATAGAATGAATGGTGTTTTTGAA
6475534 AAAAATAATA
1 AAAAA-AATA
6475544 TAAAGGTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 6 0.17
30 30 0.83
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.28
Consensus pattern (29 bp):
AAAAAAATAGAATGAATGGTGTTTTTGAA
Found at i:6475836 original size:15 final size:15
Alignment explanation
Indices: 6475816--6475846 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6475806 CAACGGCTCG
6475816 ATTTTAAAATCTCTA
1 ATTTTAAAATCTCTA
6475831 ATTTTAAAATCTCTA
1 ATTTTAAAATCTCTA
6475846 A
1 A
6475847 GAAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTTAAAATCTCTA
Found at i:6480270 original size:21 final size:22
Alignment explanation
Indices: 6480234--6480274 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6480224 TTAAAAGTTA
6480234 TAAAGGAAGTACCGATACTCAT
1 TAAAGGAAGTACCGATACTCAT
*
6480256 TAAAGG-AGTATCGATACTC
1 TAAAGGAAGTACCGATACTC
6480275 CATGTCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (22 bp):
TAAAGGAAGTACCGATACTCAT
Found at i:6487596 original size:25 final size:26
Alignment explanation
Indices: 6487551--6487610 Score: 104
Period size: 25 Copynumber: 2.3 Consensus size: 26
6487541 TCTTCGAGTT
*
6487551 TGTTTGTTTGATTTTTAAGGTATTTA
1 TGTTCGTTTGATTTTTAAGGTATTTA
6487577 TGTTCGTTTG-TTTTTAAGGTATTTA
1 TGTTCGTTTGATTTTTAAGGTATTTA
6487602 TGTTCGTTT
1 TGTTCGTTT
6487611 AAATTTTCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.73
26 9 0.27
ACGTcount: A:0.15, C:0.03, G:0.20, T:0.62
Consensus pattern (26 bp):
TGTTCGTTTGATTTTTAAGGTATTTA
Found at i:6487624 original size:25 final size:25
Alignment explanation
Indices: 6487563--6487617 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
6487553 TTTGTTTGAT
**
6487563 TTTTAAGGTATTTATGTTCGTTTGT
1 TTTTAAGGTATTTATGTTCGTTTAA
6487588 TTTTAAGGTATTTATGTTCGTTTAAA
1 TTTTAAGGTATTTATGTTCGTTT-AA
6487614 TTTT
1 TTTT
6487618 CAGTATTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.60
Consensus pattern (25 bp):
TTTTAAGGTATTTATGTTCGTTTAA
Found at i:6487659 original size:30 final size:30
Alignment explanation
Indices: 6487602--6487660 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
6487592 AAGGTATTTA
* *
6487602 TGTTCGTTTAAATTTTCAGTATTGTGTTTG
1 TGTTCGTTTAAATTTTCAATATCGTGTTTG
*
6487632 TGTTCGTTTAAATTTTTAATATCGTGTTT
1 TGTTCGTTTAAATTTTCAATATCGTGTTT
6487661 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.07, G:0.17, T:0.58
Consensus pattern (30 bp):
TGTTCGTTTAAATTTTCAATATCGTGTTTG
Found at i:6496312 original size:18 final size:18
Alignment explanation
Indices: 6496289--6496324 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6496279 TAATGTTCCC
6496289 TCTTTATTCATAGAAACA
1 TCTTTATTCATAGAAACA
*
6496307 TCTTTATTCATATAAACA
1 TCTTTATTCATAGAAACA
6496325 AAATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTTTATTCATAGAAACA
Found at i:6497993 original size:4 final size:4
Alignment explanation
Indices: 6497986--6498014 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6497976 AATAAATTTC
6497986 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
6498015 CTTTGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:6503003 original size:35 final size:34
Alignment explanation
Indices: 6502918--6503004 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
6502908 AATATAATTT
*
6502918 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
*
6502952 TAAATGATAA-ACAAATTACAATAATTGATATTAAATGG
1 TAAAT-ACAACA-AAATTACAATAA--G-TATTAAATGG
6502990 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
6503005 ACCAAAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 4 0.09
38 11 0.24
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:6503063 original size:23 final size:21
Alignment explanation
Indices: 6503015--6503072 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
6503005 ACCAAAATAC
*
6503015 ATTAACAAA-AAGTCCAACAA
1 ATTAACAAATAAATCCAACAA
6503035 ATTTAACAAAATAAATCCAACCAA
1 A-TTAAC-AAATAAATCCAA-CAA
*
6503059 ATTAATGAAATAAA
1 ATTAA-CAAATAAA
6503073 GTAAGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 1 0.03
21 5 0.16
22 3 0.10
23 18 0.58
24 4 0.13
ACGTcount: A:0.60, C:0.16, G:0.03, T:0.21
Consensus pattern (21 bp):
ATTAACAAATAAATCCAACAA
Found at i:6503110 original size:14 final size:14
Alignment explanation
Indices: 6503093--6503125 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6503083 AATGATAAAT
6503093 AATAAAAAAAGTAC
1 AATAAAAAAAGTAC
*
6503107 AAT-AAAAAAGTCC
1 AATAAAAAAAGTAC
6503120 AATAAA
1 AATAAA
6503126 CAACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.70, C:0.09, G:0.06, T:0.15
Consensus pattern (14 bp):
AATAAAAAAAGTAC
Found at i:6503576 original size:33 final size:33
Alignment explanation
Indices: 6503534--6503597 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
6503524 TCCTCCAAGA
* *
6503534 GGGGTCATAAAACTC-TGTGACGGTGGCGGCGAC
1 GGGGTCATAAAAC-CAGGTGACGGCGGCGGCGAC
6503567 GGGGTCATAAAACCAGGTGACGGCGGCGGCG
1 GGGGTCATAAAACCAGGTGACGGCGGCGGCG
6503598 GCATCGGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.22, C:0.22, G:0.42, T:0.14
Consensus pattern (33 bp):
GGGGTCATAAAACCAGGTGACGGCGGCGGCGAC
Found at i:6505353 original size:17 final size:18
Alignment explanation
Indices: 6505331--6505385 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 18
6505321 TATATCTGCA
6505331 AAAATAATTAAATAAA-T
1 AAAATAATTAAATAAATT
6505348 AAAAT-ATTAAA-AAATT
1 AAAATAATTAAATAAATT
* *
6505364 TAAATACTTAAATAAATT
1 AAAATAATTAAATAAATT
6505382 AAAA
1 AAAA
6505386 ACAAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 3 0.09
16 11 0.34
17 10 0.31
18 8 0.25
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATAATTAAATAAATT
Found at i:6505375 original size:25 final size:26
Alignment explanation
Indices: 6505338--6505386 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
6505328 GCAAAAATAA
*
6505338 TTAAATAAATAAA-ATATTAAAAAAT
1 TTAAATAAATAAATAAATTAAAAAAT
**
6505363 TTAAATACTTAAATAAATTAAAAA
1 TTAAATAAATAAATAAATTAAAAA
6505387 CAAAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
TTAAATAAATAAATAAATTAAAAAAT
Found at i:6506992 original size:25 final size:25
Alignment explanation
Indices: 6506938--6506993 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
6506928 GGCTTGGCTA
* * *
6506938 GGGTCAAACTAGATTGGTTCAGTTC
1 GGGTCAAACTAGAATGATTCAATTC
* *
6506963 AGGTCAAACTAGAATGATTCAATTT
1 GGGTCAAACTAGAATGATTCAATTC
6506988 GGGTCA
1 GGGTCA
6506994 TAATGAACTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (25 bp):
GGGTCAAACTAGAATGATTCAATTC
Found at i:6507330 original size:57 final size:57
Alignment explanation
Indices: 6507261--6507622 Score: 584
Period size: 57 Copynumber: 6.4 Consensus size: 57
6507251 AACCAGATTT
*
6507261 TTCT-TTCT-CTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAATTAGGC
1 TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGC
* *
6507316 TTCTCTTCTCCTTCTGGTTTTAGCTTGTAGGTGTCTTGATTTGTGCCAAAAGTAGGC
1 TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGC
*
6507373 TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAATTAGGC
1 TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGC
6507430 TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGC
1 TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGC
* * *
6507487 TTCTTTTCTCCTCCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGAC
1 TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGC
* * *
6507544 TTCTTTTCTCCTTCTAGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGT
1 TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGC
* * * *
6507601 TTTTTTTCTCCTTATGGCTTTG
1 TTCTCTTCTCCTTCTGGTTTTG
6507623 CTCTAGGGCT
Statistics
Matches: 287, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
55 4 0.01
56 4 0.01
57 279 0.97
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (57 bp):
TTCTCTTCTCCTTCTGGTTTTGGCTTGTAGGTGTCTTGATTTGTGCCATAAGTAGGC
Found at i:6509301 original size:13 final size:13
Alignment explanation
Indices: 6509285--6509335 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
6509275 TAAATTTAAT
6509285 TATGATATGTATG
1 TATGATATGTATG
* *
6509298 TATGATATATATAC
1 TATGATATGTAT-G
*
6509312 CAT-ATATGTATG
1 TATGATATGTATG
*
6509324 TATGATGTGTAT
1 TATGATATGTAT
6509336 AATTTATTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (13 bp):
TATGATATGTATG
Found at i:6509360 original size:29 final size:29
Alignment explanation
Indices: 6509328--6509404 Score: 136
Period size: 29 Copynumber: 2.7 Consensus size: 29
6509318 TGTATGTATG
*
6509328 ATGTGTATAATTTATTAATGCATGCTTAT
1 ATGTGTATAATTTATTAATGCATGATTAT
6509357 ATGTGTATAATTTATTAATGCATGATTAT
1 ATGTGTATAATTTATTAATGCATGATTAT
*
6509386 ACGTGTATAATTTATTAAT
1 ATGTGTATAATTTATTAAT
6509405 ATATGCAGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (29 bp):
ATGTGTATAATTTATTAATGCATGATTAT
Found at i:6509482 original size:4 final size:4
Alignment explanation
Indices: 6509473--6509535 Score: 74
Period size: 4 Copynumber: 15.5 Consensus size: 4
6509463 TGCATGTCTC
* * *
6509473 ATGT ATGT AT-T AATCT ATGAT ATGT ATGT ACGT ATGT ATGT ATGT ATTT
1 ATGT ATGT ATGT -ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT
6509522 ATGT ATGT ATGT AT
1 ATGT ATGT ATGT AT
6509536 AATTTATTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
3 1 0.02
4 45 0.88
5 5 0.10
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:6510216 original size:33 final size:33
Alignment explanation
Indices: 6510172--6510261 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
6510162 TAATTTACTC
6510172 CAAACCCTATAAATCACATCATAAACTTTATTT
1 CAAACCCTATAAATCACATCATAAACTTTATTT
*
6510205 CAAACCATATAAATCACATCATAAACTTTATTT
1 CAAACCCTATAAATCACATCATAAACTTTATTT
* * *
6510238 CAAGCCCTATAAATTATATCATAA
1 CAAACCCTATAAATCACATCATAA
6510262 TCTCCAAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.32
Consensus pattern (33 bp):
CAAACCCTATAAATCACATCATAAACTTTATTT
Found at i:6510354 original size:320 final size:318
Alignment explanation
Indices: 6509888--6510500 Score: 783
Period size: 320 Copynumber: 1.9 Consensus size: 318
6509878 AATTTACTCT
* * * *
6509888 AAACCCTATAAATCATATCATAAACTTCATTCAAACCATATAAATTATATCATAATTTCCAAACC
1 AAACCATATAAATCACATCATAAACTTCATTCAAACCATATAAATTATATCATAATCTCCAAACA
*
6509953 CCATAAACTTTTTTCACCAACTTTTCAAATGAATGCGATTTAGTCCATTCTGATATTAATTTCAA
66 CCATAAACTTTTTTCACCAACTTTTCAAATGAATGCAATTTAGTCCATTCTGATATTAATTTCAA
* * * *
6510018 CTTAACATTTTACAATTGTTTCAATTTGA-CTCATGTGTGTTGTTTAGTTTATTTAAATTTCAGT
131 CTTAACACTATACAATTATTTCAATTTGATC-CATGCGTGTTGTTTAGTTTA-TTAAATTTCAGT
*
6510082 TTGTAATTTCAT-TTT-TTCCAATTAAATAC-TAAAAATTATATTTTTATCTGAAATT-AACACA
194 TTGTAATTTCATGTTTGTT-CAATTAAAT-CTTAAAAATTATACTTTTATCTGAAATTGAAC-CA
* * * *
6510143 TAATTATTTCTATTTTTTTTAATTTACTCCAAACCCTATAAATCACATCATAAACTTTATTTC
256 TAATTATATATACTTTTTGTAATTTACTCCAAACCCTATAAATCACATCATAAACTTTATTTC
* * * *
6510206 AAACCATATAAATCACATCATAAACTTTATTTCAAGCCCTATAAATTATATCATAATCTCCAAAT
1 AAACCATATAAATCACATCATAAACTTCA-TTCAAACCATATAAATTATATCATAATCTCCAAAC
* * * *
6510271 ACTAT-AATTTTCTGTTCACCAACTTTGT-AAATGAATGCAATTTAGTCCATTTTTATATTAAGT
65 ACCATAAACTTT-T-TTCACCAACTTT-TCAAATGAATGCAATTTAGTCCATTCTGATATTAA-T
* * * *
6510334 TT-AGCTTTACACTATACAATTATTTCAGTTTGATCCTTGCGTGTTGTTTAGTTTATTAAATTTC
126 TTCAACTTAACACTATACAATTATTTCAATTTGATCCATGCGTGTTGTTTAGTTTATTAAATTTC
* * * * * *
6510398 AGTTTGTAATTTCATGTTTGTTCAATTTAGTCTTTAAAATTATACTTTTATTTGAAATTGGACCG
191 AGTTTGTAATTTCATGTTTGTTCAATTAAATCTTAAAAATTATACTTTTATCTGAAATTGAACCA
*
6510463 TAATTATATATACTTTTTGTAATTTACTCCAAATCCTA
256 TAATTATATATACTTTTTGTAATTTACTCCAAACCCTA
6510501 GACGTTTGTG
Statistics
Matches: 252, Mismatches: 33, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
318 31 0.12
319 60 0.24
320 152 0.60
321 9 0.04
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.44
Consensus pattern (318 bp):
AAACCATATAAATCACATCATAAACTTCATTCAAACCATATAAATTATATCATAATCTCCAAACA
CCATAAACTTTTTTCACCAACTTTTCAAATGAATGCAATTTAGTCCATTCTGATATTAATTTCAA
CTTAACACTATACAATTATTTCAATTTGATCCATGCGTGTTGTTTAGTTTATTAAATTTCAGTTT
GTAATTTCATGTTTGTTCAATTAAATCTTAAAAATTATACTTTTATCTGAAATTGAACCATAATT
ATATATACTTTTTGTAATTTACTCCAAACCCTATAAATCACATCATAAACTTTATTTC
Found at i:6511288 original size:5 final size:5
Alignment explanation
Indices: 6511278--6511550 Score: 519
Period size: 5 Copynumber: 54.6 Consensus size: 5
6511268 CAATACTTAG
6511278 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
6511328 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
6511378 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
* *
6511428 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AGATT AGATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
*
6511478 AGATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
6511528 ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATA
6511551 AGAATTTGTT
Statistics
Matches: 266, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 266 1.00
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:6511839 original size:21 final size:21
Alignment explanation
Indices: 6511801--6511841 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6511791 ATTGTAGTAT
*
6511801 TGATGTGAGAGTTAATTATAC
1 TGATGTGAGAATTAATTATAC
* *
6511822 TGATGTGATAATTCATTATA
1 TGATGTGAGAATTAATTATA
6511842 TTTACGTAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (21 bp):
TGATGTGAGAATTAATTATAC
Found at i:6514728 original size:16 final size:16
Alignment explanation
Indices: 6514707--6514739 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6514697 TAATAAATAA
6514707 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6514723 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6514739 A
1 A
6514740 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:6514827 original size:16 final size:16
Alignment explanation
Indices: 6514806--6514860 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
6514796 CATTTAATAA
6514806 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
6514822 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
* *
6514838 ATAAATGAACACGCAC
1 ATAAACGAACACGAAC
6514854 ATAAACG
1 ATAAACG
6514861 TTGGAGACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.55, C:0.24, G:0.13, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:6516877 original size:25 final size:25
Alignment explanation
Indices: 6516844--6516895 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6516834 CATCCATTCA
6516844 TCAATCCTACAACATCAATTTTATT
1 TCAATCCTACAACATCAATTTTATT
*
6516869 TCAATCCTACAACATCATTTTTATT
1 TCAATCCTACAACATCAATTTTATT
6516894 TC
1 TC
6516896 TATTGTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (25 bp):
TCAATCCTACAACATCAATTTTATT
Found at i:6516904 original size:25 final size:25
Alignment explanation
Indices: 6516847--6516922 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
6516837 CCATTCATCA
* *
6516847 ATCCTACAACATCAATTTTATTTCA
1 ATCCTACAACATCATTTTTATTTCT
6516872 ATCCTACAACATCATTTTTATTTCT
1 ATCCTACAACATCATTTTTATTTCT
** * * *
6516897 ATTGTACAATATCGTTTTTAATTCT
1 ATCCTACAACATCATTTTTATTTCT
6516922 A
1 A
6516923 CCCCTTTATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.46
Consensus pattern (25 bp):
ATCCTACAACATCATTTTTATTTCT
Found at i:6519053 original size:4 final size:4
Alignment explanation
Indices: 6519046--6519070 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6519036 ATTCTAACAA
6519046 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
6519071 GTTTCTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:6527720 original size:24 final size:23
Alignment explanation
Indices: 6527675--6527737 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
6527665 AGTTCGTATA
*
6527675 AATTGCACCGAAGTACCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
**
6527698 AATTTGCACCGAAGTGCTGCGTAG
1 AA-TTGCACCGAAGTGCCACGTAG
* *
6527722 AAATGCACCGTAGTGC
1 AATTGCACCGAAGTGC
6527738 AATATAAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 14 0.41
24 20 0.59
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:6528806 original size:20 final size:20
Alignment explanation
Indices: 6528781--6528818 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6528771 TTTTCATTTA
6528781 GGGGGAATCGATACCCCCCG
1 GGGGGAATCGATACCCCCCG
*
6528801 GGGGGAATCTATACCCCC
1 GGGGGAATCGATACCCCC
6528819 TGCACAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
GGGGGAATCGATACCCCCCG
Found at i:6533523 original size:23 final size:23
Alignment explanation
Indices: 6533491--6533571 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 23
6533481 CACAACAGCT
*
6533491 CGTATAAATTGCACTGAAGTGCCA
1 CGTA-AAATTGCACCGAAGTGCCA
* * *
6533515 CGTAGAATTTGTACCGAAGTGCCG
1 CGTA-AAATTGCACCGAAGTGCCA
* *
6533539 CGTAAAAATGCACCGTAGTGCCA
1 CGTAAAATTGCACCGAAGTGCCA
**
6533562 TATAAAATTG
1 CGTAAAATTG
6533572 TCCATAAGGA
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 21 0.48
24 23 0.52
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
CGTAAAATTGCACCGAAGTGCCA
Found at i:6534643 original size:18 final size:19
Alignment explanation
Indices: 6534608--6534644 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6534598 TTTTCATTTA
6534608 GGGGGAATCGATACCCCCG
1 GGGGGAATCGATACCCCCG
*
6534627 GGGGGAATCTATACCCCC
1 GGGGGAATCGATACCCCC
6534645 CTGCACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.14
Consensus pattern (19 bp):
GGGGGAATCGATACCCCCG
Found at i:6535622 original size:97 final size:96
Alignment explanation
Indices: 6535454--6535720 Score: 358
Period size: 96 Copynumber: 2.7 Consensus size: 96
6535444 GTTTATCTCG
* *** * * * *
6535454 AAACAAATTTCGTCTCGCTTGAGGCAGTT-TTCCCCAAATTTTAAAATTGTTTCATTTGAAACAA
1 AAACAAATTTCGTCTCGCTTGAGACAGTTGAAACACAAAATTTGAAATTGTTTCACTTGAAACAA
6535518 AATTGATAACATTTGAGATTTATTTTTCTTAA
66 AATTGATAACATTTGAGA-TTATTTTTCTTAA
6535550 AAACAAATTTCGTCTCGCTTGAGACAGTTGAAACACAAAATTTGAAATTGTTTCACTTGAAACAA
1 AAACAAATTTCGTCTCGCTTGAGACAGTTGAAACACAAAATTTGAAATTGTTTCACTTGAAACAA
6535615 AATTGATAACATTTGAGATTATTTTTCTTAA
66 AATTGATAACATTTGAGATTATTTTTCTTAA
* *
6535646 AAACAAATTTTGTCTCGCTTGAGACAGTTTCCCCTTGAAACACAAAATTTGAAA-TGTTTCACTC
1 AAACAAATTTCGTCTCGCTTGAGACAG-------TTGAAACACAAAATTTGAAATTGTTTCACTT
6535710 GAAACAAAATT
59 GAAACAAAATT
6535721 TTATCTCACA
Statistics
Matches: 153, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
96 67 0.44
97 46 0.30
102 20 0.13
103 20 0.13
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (96 bp):
AAACAAATTTCGTCTCGCTTGAGACAGTTGAAACACAAAATTTGAAATTGTTTCACTTGAAACAA
AATTGATAACATTTGAGATTATTTTTCTTAA
Found at i:6536184 original size:139 final size:139
Alignment explanation
Indices: 6535934--6536479 Score: 411
Period size: 139 Copynumber: 3.9 Consensus size: 139
6535924 AATTACCTCC
* * * * * *
6535934 AGATGACTAGACGTCCTCA-ACATGAAGGAACAATGTCATCCACT-GACGAGATCTCC-CTAACG
1 AGATGACTAGACGTCCTCATA-ACGTAGGAATAATATCACCCA-TAGACCAGATCTCCTC-AACG
* * ** ** * **
6535996 CGAAGGAGCAGCGTCTTCCTTAGACATCCATACTTCCTCATCACGTAGGAACCGTGCTGTCTCCA
63 CAAAGGAGCAACGTCACCCTTAGACAAACAGACTTCCTCATCACGTAGGAACCGTATTGTCTCCA
6536061 AATTATCCCTAA
128 AATTATCCCTAA
* * * * * * *
6536073 AGATGGCTAGACGTCCTCATAACTTATGAACT-ATTTCATCCATCGACCATATCTCCTCAACGCA
1 AGATGACTAGACGTCCTCATAACGTAGGAA-TAATATCACCCATAGACCAGATCTCCTCAACGCA
* * * * * * *
6536137 AAGGAGCAATGTCATCCTTAGATAAATAGACTTCCCCATCACGTAGGAACCATATTGTCTCTAAA
65 AAGGAGCAACGTCACCCTTAGACAAACAGACTTCCTCATCACGTAGGAACCGTATTGTCTCCAAA
*
6536202 TTATGCCTAA
130 TTATCCCTAA
* * * * * *
6536212 AGACGACTAAACGTCCTCATCACGTAGGCATAATATCGCCCTTAGACCAGATCTCCTCAACGCAA
1 AGATGACTAGACGTCCTCATAACGTAGGAATAATATCACCCATAGACCAGATCTCCTCAACGCAA
* * * * * * *
6536277 AGGAGCAACGTTACCCTTAGACAACCAGACTTTCTCATCACGTAGAAACTGTTTTGTCTACAAAT
66 AGGAGCAACGTCACCCTTAGACAAACAGACTTCCTCATCACGTAGGAACCGTATTGTCTCCAAAT
6536342 TATCCCTAA
131 TATCCCTAA
* * * * * * * * ** * *
6536351 A-ATGACTAGGCTTTCTCA-ACATGAAGGAACAATGTCATCCACCGACCAGATATCCTCAACGCG
1 AGATGACTAGACGTCCTCATA-ACGTAGGAATAATATCACCCATAGACCAGATCTCCTCAACGCA
* * * ** * * * * * *
6536414 AAGGAGCAGCGTCATCCATAGACAATTAGATTTCCTCAACATGAAGGAACTGCATTGTCTCCAAA
65 AAGGAGCAACGTCACCCTTAGACAAACAGACTTCCTCATCACGTAGGAACCGTATTGTCTCCAAA
6536479 T
130 T
6536480 GACCAAAATA
Statistics
Matches: 316, Mismatches: 85, Indels: 13
0.76 0.21 0.03
Matches are distributed among these distances:
138 96 0.30
139 218 0.69
140 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (139 bp):
AGATGACTAGACGTCCTCATAACGTAGGAATAATATCACCCATAGACCAGATCTCCTCAACGCAA
AGGAGCAACGTCACCCTTAGACAAACAGACTTCCTCATCACGTAGGAACCGTATTGTCTCCAAAT
TATCCCTAA
Found at i:6536723 original size:122 final size:121
Alignment explanation
Indices: 6536499--6536893 Score: 454
Period size: 122 Copynumber: 3.2 Consensus size: 121
6536489 ACTTCTAGAA
* *
6536499 CATCTTCAACACCAAATTATCTCTAGATTGAC-CTGATTTTCTCAACGAGAAGGAACACCATCAT
1 CATCTTCAACACCGAATTATCTCTAGATTGACTC-GA-TTTCTCAACGAGAAGGAACAACATCAT
* ** * *
6536563 CTTCAGTAAACAATTTACCTGAAAGT-AGCTAGAACTCTTCAACATGGATGAGCAGAGT
64 CTTCAATAAACAATTTATTTGAAAGTGA-CTAGATCTCTTCAACATGGATGAGCAGAGC
** * * * * **
6536621 TGTCTTCAACACCGTATCATCTCTGGATGGACTCGATTTCATCAACGAGAAGGAACAATGTCATC
1 CATCTTCAACACCGAATTATCTCTAGATTGACTCGATTTC-TCAACGAGAAGGAACAACATCATC
*
6536686 TTCAACAAACAATTTATTTGAAAGTGACTAGATCTCTTCAACATGGATGAGCAGAGC
65 TTCAATAAACAATTTATTTGAAAGTGACTAGATCTCTTCAACATGGATGAGCAGAGC
* * * *
6536743 CATCTTCAACACCGAATTATCTCCAGATTGACTTGATTTCCCCAACGAGAAAGAACAACATCATC
1 CATCTTCAACACCGAATTATCTCTAGATTGACTCGATTT-CTCAACGAGAAGGAACAACATCATC
* * * * *
6536808 TTCAATAAACAATTTATTTGAAAGAGGCCAAATCTCTTCAACATGGATGAACA-ATGC
65 TTCAATAAACAATTTATTTGAAAGTGACTAGATCTCTTCAACATGGATGAGCAGA-GC
* ** *
6536865 CATTTTCAACACTTAATTATATCTAGATT
1 CATCTTCAACACCGAATTATCTCTAGATT
6536894 AACCCGAAAT
Statistics
Matches: 229, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
121 5 0.02
122 221 0.97
123 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (121 bp):
CATCTTCAACACCGAATTATCTCTAGATTGACTCGATTTCTCAACGAGAAGGAACAACATCATCT
TCAATAAACAATTTATTTGAAAGTGACTAGATCTCTTCAACATGGATGAGCAGAGC
Found at i:6537351 original size:13 final size:13
Alignment explanation
Indices: 6537335--6537366 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6537325 GGTTTTGTTC
*
6537335 GTCAGTTTAGGGT
1 GTCAGTTTAGAGT
6537348 GTCAGTTTAGAGT
1 GTCAGTTTAGAGT
6537361 GTCAGT
1 GTCAGT
6537367 GTGTGTTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.09, G:0.34, T:0.38
Consensus pattern (13 bp):
GTCAGTTTAGAGT
Found at i:6540639 original size:2 final size:2
Alignment explanation
Indices: 6540622--6540902 Score: 142
Period size: 2 Copynumber: 146.0 Consensus size: 2
6540612 GTTATGTAGC
*
6540622 AT AT AT TT AT AT -T AT AT AT -T AT A- AT AT AGT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* * *
6540663 AT AT -T AT AA AGT AT AT AT AT A- AT AT GGT AT A- AT AT TT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
6540704 AT AT -T AT AT AT A- AT AT AT AT -T AT CAT AT AGT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A-T AT AT A-T AT
* * * *
6540744 TT AT AT -T AT AT AGT AT AT AT AT AGT AT TT GT AT A- AT AT AT TT
1 AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
6540786 AT AGT AT -T TT AT AT TT AT AT TT AGT AT -T A- AT AT AT -T AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
6540826 AT A- AT AT AT AGT AT TT AT AGT TT AT AT GT A- AT AT AT AT A- AT
1 AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
*
6540867 AT -T AT -T AT AT -T AT -T AT AT AT -T AT TT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6540903 TATTAATATT
Statistics
Matches: 214, Mismatches: 28, Indels: 74
0.68 0.09 0.23
Matches are distributed among these distances:
1 24 0.11
2 167 0.78
3 23 0.11
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6540641 original size:7 final size:7
Alignment explanation
Indices: 6540622--6540918 Score: 145
Period size: 7 Copynumber: 43.0 Consensus size: 7
6540612 GTTATGTAGC
6540622 ATATATT
1 ATATATT
6540629 -TATATT
1 ATATATT
6540635 ATATATT
1 ATATATT
6540642 ATAATATAGT
1 AT-ATAT--T
6540652 ATATAGTAT
1 ATATA-T-T
6540661 ATATATT
1 ATATATT
* *
6540668 ATAAAGT
1 ATATATT
6540675 ATATA-T
1 ATATATT
*
6540681 ATAATATG
1 AT-ATATT
* *
6540689 GTATAAT
1 ATATATT
*
6540696 ATTTA-T
1 ATATATT
6540702 ATATATT
1 ATATATT
*
6540709 ATATATA
1 ATATATT
6540716 ATATA-T
1 ATATATT
*
6540722 AT-TATC
1 ATATATT
6540728 ATATAGTAT
1 ATATA-T-T
6540737 ATAGTATT
1 ATA-TATT
6540745 -TATATT
1 ATATATT
*
6540751 ATATAGT
1 ATATATT
6540758 ATATA-T
1 ATATATT
6540764 ATAGTATT
1 ATA-TATT
* *
6540772 -TGTATA
1 ATATATT
6540778 ATATATTT
1 ATATA-TT
6540786 ATAGTATT
1 ATA-TATT
*
6540794 TTATATT
1 ATATATT
6540801 -TATATT
1 ATATATT
6540807 -TAGTATT
1 ATA-TATT
6540814 AATATATT
1 -ATATATT
6540822 ATATA-T
1 ATATATT
6540828 A-ATA-T
1 ATATATT
6540833 ATAGTATT
1 ATA-TATT
6540841 -TATAGTT
1 ATATA-TT
6540848 -TATATGT
1 ATATAT-T
6540855 A-ATA-T
1 ATATATT
*
6540860 ATATAAT
1 ATATATT
6540867 AT-TATT
1 ATATATT
6540873 ATATTATT
1 ATA-TATT
6540881 ATATA-T
1 ATATATT
6540887 -TAT-TT
1 ATATATT
6540892 ATATATT
1 ATATATT
6540899 ATATTATT
1 ATA-TATT
6540907 A-ATATT
1 ATATATT
6540913 AT-TATT
1 ATATATT
6540919 TTTGGTTTTA
Statistics
Matches: 231, Mismatches: 22, Indels: 75
0.70 0.07 0.23
Matches are distributed among these distances:
5 13 0.06
6 64 0.28
7 97 0.42
8 34 0.15
9 17 0.07
10 6 0.03
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:6540670 original size:16 final size:16
Alignment explanation
Indices: 6540629--6540902 Score: 177
Period size: 16 Copynumber: 16.6 Consensus size: 16
6540619 AGCATATATT
*
6540629 TATATTATATATTATAA
1 TATATTATATAGTAT-A
*
6540646 TATAGTATATAGTATA
1 TATATTATATAGTATA
*
6540662 TATATTATAAAGTATA
1 TATATTATATAGTATA
* *
6540678 TATATAATATGGTATAA
1 TATATTATATAGTAT-A
* *
6540695 TATTTATATATATTATA
1 TATAT-TATATAGTATA
* *
6540712 TATAATATATATTATCA
1 TATATTATATAGTAT-A
* *
6540729 TATAGTATATAGTATT
1 TATATTATATAGTATA
6540745 TATATTATATAGTATA
1 TATATTATATAGTATA
*
6540761 TATA-TAGTATTTGTATAA
1 TATATTA-TA-TAGTAT-A
*
6540779 TATATT-TATAGTATTT
1 TATATTATATAGTA-TA
6540795 TATATT-TATA-T-T-
1 TATATTATATAGTATA
*
6540807 TAGTATTAATATATTATA
1 TA-TATT-ATATAGTATA
* *
6540825 TATAATATATAGTATT
1 TATATTATATAGTATA
6540841 TATAGTT-TATATGTAATA
1 TATA-TTATATA-GT-ATA
* *
6540859 TATATAATATTATTATA
1 TATATTATA-TAGTATA
*
6540876 T-TATTATATATTATTTA
1 TATATTATATAGTA--TA
6540893 TATATTATAT
1 TATATTATAT
6540903 TATTAATATT
Statistics
Matches: 206, Mismatches: 29, Indels: 43
0.74 0.10 0.15
Matches are distributed among these distances:
12 2 0.01
13 5 0.02
15 12 0.06
16 94 0.46
17 59 0.29
18 31 0.15
19 3 0.01
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
TATATTATATAGTATA
Found at i:6540841 original size:40 final size:40
Alignment explanation
Indices: 6540660--6540914 Score: 141
Period size: 41 Copynumber: 6.2 Consensus size: 40
6540650 GTATATAGTA
* * ** *
6540660 TATATATTATAAAGTATATATATAATA-TGGTATAATATTT
1 TATATATTATATAGTA-ATATATAGTATTTATATAATATAT
* *
6540700 ATATATATTATATA-TAATATATATTATCATATAGTATATAGTAT
1 -TATATATTATATAGTAATATATAGTAT-TTATA-TA-ATA-TAT
*
6540744 T-TATATTATATAGTATATATATAGTATTTGTATAATATATT
1 TATATATTATATAGTA-ATATATAGTATTTATATAATATA-T
* * * * *
6540785 TATAGTATTTTATATTTATATTTAGTATTAATAT-AT-TA-
1 TATA-TATTATATAGTAATATATAGTATTTATATAATATAT
* * *
6540823 TATATAATATATAGT-ATTTATAGT-TTATATGTAATATA-
1 TATATATTATATAGTAATATATAGTATT-TATATAATATAT
* * * *
6540861 TATAATATTATTATATTATTATATATTATTTATATATTATAT
1 TAT-ATATTA-TATAGTAATATATAGTATTTATATAATATAT
6540903 TATTAATATTAT
1 TA-T-ATATTAT
6540915 TATTTTTGGT
Statistics
Matches: 166, Mismatches: 29, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
35 2 0.01
36 10 0.06
37 10 0.06
38 9 0.05
39 14 0.08
40 11 0.07
41 36 0.22
42 36 0.22
43 26 0.16
44 12 0.07
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (40 bp):
TATATATTATATAGTAATATATAGTATTTATATAATATAT
Found at i:6540869 original size:69 final size:68
Alignment explanation
Indices: 6540633--6540917 Score: 216
Period size: 69 Copynumber: 4.2 Consensus size: 68
6540623 TATATTTATA
* * * * *
6540633 TTATATATTATAATATAGTATATAGTATATATATTATAAAGTA-TATATA-TA-ATATGGTATA-
1 TTATATATTAT-AT-TAATATATATTATATTTA-TATATAGTATTATATATTATATAT-ATATAT
6540694 ATA-T-T
62 ATAGTAT
*
6540699 TATATATATTATATATAATATATATTATCATATAGTATATAGTATT-TATATTATATAGTATATA
1 T-TATATATTATAT-TAATATATATTAT-ATTTA-TATATAGTATTATATATTATATA-TATATA
6540763 TATAGTAT
61 TATAGTAT
* * * * *
6540771 TTGTATAATATATTTATAGTATTTTATATTTATATTTAGTATTAATATATTATATATA-ATATAT
1 TTATATATTATATTAATA-TATATTATATTTATATATAGTATT-ATATATTATATATATATATAT
6540835 AGTAT
64 AGTAT
* * *
6540840 TTATAGT-TTATATGTAATATATATAATA-TTAT-TATATTATTATATATTATTTATATAT-TAT
1 TTATA-TATTATAT-TAATATATATTATATTTATATATAGTATTATATATTATATATATATATAT
*
6540901 ATTAT
64 AGTAT
*
6540906 TAATATTATTAT
1 TTATA-TATTAT
6540918 TTTTGGTTTT
Statistics
Matches: 181, Mismatches: 22, Indels: 31
0.77 0.09 0.13
Matches are distributed among these distances:
66 40 0.22
67 40 0.22
68 7 0.04
69 44 0.24
70 19 0.10
71 29 0.16
72 2 0.01
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (68 bp):
TTATATATTATATTAATATATATTATATTTATATATAGTATTATATATTATATATATATATATAG
TAT
Found at i:6540874 original size:3 final size:3
Alignment explanation
Indices: 6540866--6540918 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
6540856 ATATATATAA
*
6540866 TAT TAT TA- TAT TAT TAT ATAT TATT TAT ATAT TA- TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT -TAT TA-T TAT -TAT TAT TAT TAT TAT TAT
6540912 TAT TAT T
1 TAT TAT T
6540919 TTTGGTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
2 4 0.09
3 30 0.70
4 9 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6545824 original size:2 final size:2
Alignment explanation
Indices: 6545817--6545875 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
6545807 CATATGATTT
6545817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6545859 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
6545876 TGAGTCTGGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6550173 original size:2 final size:2
Alignment explanation
Indices: 6550166--6550198 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6550156 TAAAATTTTA
6550166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6550199 ATAATTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6554255 original size:21 final size:21
Alignment explanation
Indices: 6554229--6554270 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6554219 CGTCACCCAA
*
6554229 TTGACCAGATTGAACATTAGG
1 TTGACCAGATTGAACACTAGG
6554250 TTGACCAGATTGAACACTAGG
1 TTGACCAGATTGAACACTAGG
6554271 ACCCAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (21 bp):
TTGACCAGATTGAACACTAGG
Found at i:6558784 original size:37 final size:37
Alignment explanation
Indices: 6558703--6558803 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
6558693 TTCGTCCTAT
* * * * **
6558703 TAGGATTCAAACTCTTAAAAATAGGATATAATTTTGT
1 TAGGATTTAAACTCCTAAAAATAGGATAGAATTCTAC
*
6558740 TAGGATTTAAACTCCTAAAAATAGGATAGAGTTCTAC
1 TAGGATTTAAACTCCTAAAAATAGGATAGAATTCTAC
* * *
6558777 TATGATTTAAATTCCTAAAGATAGGAT
1 TAGGATTTAAACTCCTAAAAATAGGAT
6558804 CCACAAGCAC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
TAGGATTTAAACTCCTAAAAATAGGATAGAATTCTAC
Found at i:6559385 original size:24 final size:23
Alignment explanation
Indices: 6559358--6559465 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 23
6559348 CTTTGCATTT
6559358 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTA-TA
* *
6559382 TTATTTTTACTATTATATTT-TCC
1 TTATTATTACTATTATATTTAT-A
*
6559405 TT-TTATT-CTACT-TATTTATA
1 TTATTATTACTATTATATTTATA
6559425 TTATATATGTA-TATT-T-TTTATA
1 TTAT-TAT-TACTATTATATTTATA
*
6559447 TT-TTATTATTATTATATTT
1 TTATTATTACTATTATATTT
6559466 TTTACTTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
19 2 0.03
20 14 0.20
21 8 0.12
22 19 0.28
23 7 0.10
24 19 0.28
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.66
Consensus pattern (23 bp):
TTATTATTACTATTATATTTATA
Found at i:6559507 original size:12 final size:11
Alignment explanation
Indices: 6559485--6559525 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
6559475 TCTTTCTTTT
6559485 TATTATTCTTG
1 TATTATTCTTG
6559496 TATTATTACTTG
1 TATTATT-CTTG
* *
6559508 TATTATTTTTA
1 TATTATTCTTG
6559519 TATTATT
1 TATTATT
6559526 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:6559541 original size:2 final size:2
Alignment explanation
Indices: 6559534--6559562 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6559524 TTTATTTTGT
6559534 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6559563 GTATGTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6560163 original size:20 final size:19
Alignment explanation
Indices: 6560127--6560189 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
6560117 TATATATATT
* *
6560127 TTATTATTTGTGTTTTTTAC
1 TTATTATTT-TATCTTTTAC
6560147 TTATTATTTTATCTTTT-C
1 TTATTATTTTATCTTTTAC
*
6560165 TTTCTTCATTTTATCATTTTAC
1 -TTATT-ATTTTATC-TTTTAC
6560187 TTA
1 TTA
6560190 ATTTGTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 1 0.03
19 10 0.29
20 17 0.49
21 6 0.17
22 1 0.03
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.68
Consensus pattern (19 bp):
TTATTATTTTATCTTTTAC
Found at i:6566214 original size:22 final size:18
Alignment explanation
Indices: 6566171--6566210 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
6566161 TTTAGAGCAT
6566171 CATATTTATCATTTTCCA
1 CATATTTATCATTTTCCA
6566189 CATATTTATCATTTTCCA
1 CATATTTATCATTTTCCA
6566207 CATA
1 CATA
6566211 CATAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (18 bp):
CATATTTATCATTTTCCA
Found at i:6566673 original size:106 final size:106
Alignment explanation
Indices: 6566465--6568269 Score: 2894
Period size: 106 Copynumber: 17.0 Consensus size: 106
6566455 ATATCGTGCT
* * * * * * *
6566465 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
6566529 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** * * *
6566570 ACTTTAGACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGTGAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
6566635 AATTTCATATCTAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
6566676 ACTCCAGACAACACAAGTTCAACTTCACTATGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
**
6566741 AATTTCAGAGCCAATTTCAACTTCACAGGGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
6566782 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
6566847 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
6566888 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
6566953 AATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
6566994 ACTCCAGACAACGCAAGTTCAATTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
6567059 AATTTCAGAGCCAATTTCAACTTAACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
6567100 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
6567165 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
6567206 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
6567271 AATTTCGGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
6567312 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
6567377 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
6567418 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
6567483 AATTTCAGAGCCAATTTCAACTTAACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
6567524 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
6567589 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
6567630 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTAGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
6567695 AATTTCGGAGCCAATTTCAACTTCACAACGAAAGATATTGT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
6567736 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
6567801 AATTTCGGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
6567842 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
6567907 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
6567948 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
6568013 AATTTCAGAGCCAATTTCAACTTCA-AAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAA-CGAAGGATATTGG
* * *
6568054 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
6568119 AATTTCGGAGCCAATTTCAATTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
6568160 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
6568225 GATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
6568266 ACTC
1 ACTC
6568270 GGAACAATGC
Statistics
Matches: 1579, Mismatches: 118, Indels: 5
0.93 0.07 0.00
Matches are distributed among these distances:
105 47 0.03
106 1530 0.97
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:6569006 original size:37 final size:37
Alignment explanation
Indices: 6568953--6569057 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
6568943 CCTTTTTGTC
*
6568953 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
6568990 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
6569027 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
6569058 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:6569634 original size:15 final size:15
Alignment explanation
Indices: 6569614--6569657 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6569604 TGCATTTTTA
6569614 TTATTACTATTATAT
1 TTATTACTATTATAT
*
6569629 TTATTATTA-T-TAT
1 TTATTACTATTATAT
6569642 TT-TTACTATTATAT
1 TTATTACTATTATAT
6569656 TT
1 TT
6569658 TCCTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 6 0.24
15 8 0.32
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTACTATTATAT
Found at i:6569787 original size:2 final size:2
Alignment explanation
Indices: 6569780--6569815 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6569770 TTTATTTTGT
6569780 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
6569816 CACACATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6569958 original size:31 final size:31
Alignment explanation
Indices: 6569923--6569985 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
6569913 ACATATTTTC
6569923 TATTA-ATTTTCTATATTTTTTATT-ATCATTA
1 TATTATATTTTCTAT-TTTTTTATTGAT-ATTA
* *
6569954 TATTATATTTTTTCTTTTTTTATTGATATTA
1 TATTATATTTTCTATTTTTTTATTGATATTA
6569985 T
1 T
6569986 TGTTGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (31 bp):
TATTATATTTTCTATTTTTTTATTGATATTA
Found at i:6570021 original size:2 final size:2
Alignment explanation
Indices: 6570014--6570058 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6570004 TTACTATTAT
6570014 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6570056 TA T
1 TA T
6570059 CTACACAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6570334 original size:27 final size:25
Alignment explanation
Indices: 6570288--6570342 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
6570278 TCGTCATTTA
*
6570288 ATTTATTAATTTATATATATTTACTT
1 ATTTATTAATTTATATATATATA-TT
*
6570314 ATTTATTTATTTTATATATATATATT
1 ATTTA-TTAATTTATATATATATATT
6570340 ATT
1 ATT
6570343 CGTACTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTATTAATTTATATATATATATT
Found at i:6570432 original size:15 final size:15
Alignment explanation
Indices: 6570352--6570435 Score: 56
Period size: 15 Copynumber: 5.9 Consensus size: 15
6570342 TCGTACTTTG
*
6570352 TTATTA-TTATTTTG
1 TTATTATTTATTTTT
6570366 TT-TTATTTATTTTCT
1 TTATTATTTATTTT-T
* *
6570381 TT-TTCTTT-TTCTT
1 TTATTATTTATTTTT
* *
6570394 TT-TTATATA-TATT
1 TTATTATTTATTTTT
6570407 TTATTATTTATTTTT
1 TTATTATTTATTTTT
6570422 TTACTTA-TTATTTT
1 TTA-TTATTTATTTT
6570436 ATCTTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
13 15 0.27
14 18 0.32
15 20 0.36
16 3 0.05
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (15 bp):
TTATTATTTATTTTT
Found at i:6574343 original size:57 final size:56
Alignment explanation
Indices: 6574182--6574368 Score: 153
Period size: 57 Copynumber: 3.3 Consensus size: 56
6574172 TTTTCGTTTG
* * *
6574182 CTTCTGGTTTTGGCTTGTAGGTGCCTTGATTTGTGCCATAATTAGGCTTGTCTTCGC
1 CTTCTGGTTTTGGCTTGTAGGCGCCTTGATTTGTGCCATAATTAGGCTTCTCTTC-T
* ** * ** ** * * * * * * *
6574239 CTTCCGACTTTGGTTTG-ACAACGGATGGCTTTTTGCTATAGTCAGGCTTTTCCTTCT
1 CTTCTGGTTTTGGCTTGTA-GGCGCCTTGATTTGTGCCATAATTAGGCTTCT-CTTCT
*
6574296 CTTCTGGTTTTGGCTTGTAGGCGTCTTGATTTGTGCCATAATTAGGCTTCTCTTCT
1 CTTCTGGTTTTGGCTTGTAGGCGCCTTGATTTGTGCCATAATTAGGCTTCTCTTCT
6574352 CCTTCTGGTTTT-GCTTG
1 -CTTCTGGTTTTGGCTTG
6574369 AGGGCTGTCA
Statistics
Matches: 94, Mismatches: 32, Indels: 9
0.70 0.24 0.07
Matches are distributed among these distances:
56 11 0.12
57 78 0.83
58 5 0.05
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.45
Consensus pattern (56 bp):
CTTCTGGTTTTGGCTTGTAGGCGCCTTGATTTGTGCCATAATTAGGCTTCTCTTCT
Found at i:6575714 original size:6 final size:6
Alignment explanation
Indices: 6575703--6575742 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
6575693 CCATAGTCTT
* * *
6575703 ATAGCC ATAGCC ATAGCC ATAACC ATAACC ATAACC ATAG
1 ATAGCC ATAGCC ATAGCC ATAGCC ATAGCC ATAGCC ATAG
6575743 AGTACATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.42, C:0.30, G:0.10, T:0.17
Consensus pattern (6 bp):
ATAGCC
Found at i:6575720 original size:12 final size:12
Alignment explanation
Indices: 6575703--6575742 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
6575693 CCATAGTCTT
*
6575703 ATAGCCATAGCC
1 ATAGCCATAACC
6575715 ATAGCCATAACC
1 ATAGCCATAACC
*
6575727 ATAACCATAACC
1 ATAGCCATAACC
6575739 ATAG
1 ATAG
6575743 AGTACATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.42, C:0.30, G:0.10, T:0.17
Consensus pattern (12 bp):
ATAGCCATAACC
Found at i:6579392 original size:90 final size:91
Alignment explanation
Indices: 6579238--6579419 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 91
6579228 CCTAGAACAC
* * *
6579238 CCATGTGCCTTGCATATGACCAGCCCCTATGTGCCTTGCATGTGGATCATTTAGGCACCAAGATG
1 CCATGTGCCTTGCATATGAACAACCCCTATGTACCTTGCATGTGGATCATTTAGGCACCAAGATG
*
6579303 AAGAGTTCTCTCCCTATTCGGCCAAG
66 AAGAGCTCTCTCCCTATTCGGCCAAG
** * * *
6579329 CCATGTGTTTTGCATGTGAACAACCCC-ATGTACCTTGCATGTGGTTCATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGAACAACCCCTATGTACCTTGCATGTGGATCATTTAGGCACCAAGATG
6579393 AAGAGCTCTCTCCCTATTCGGCCAAG
66 AAGAGCTCTCTCCCTATTCGGCCAAG
6579419 C
1 C
6579420 ATCATTTCCC
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 60 0.73
91 22 0.27
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (91 bp):
CCATGTGCCTTGCATATGAACAACCCCTATGTACCTTGCATGTGGATCATTTAGGCACCAAGATG
AAGAGCTCTCTCCCTATTCGGCCAAG
Found at i:6585007 original size:22 final size:22
Alignment explanation
Indices: 6584981--6585023 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6584971 TTTGGTGAAA
*
6584981 TATCATGCAATTCAATGAAAAC
1 TATCATGCAATCCAATGAAAAC
6585003 TATCATGCAATCCAATGAAAA
1 TATCATGCAATCCAATGAAAA
6585024 ATAACAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.26
Consensus pattern (22 bp):
TATCATGCAATCCAATGAAAAC
Found at i:6585550 original size:2 final size:2
Alignment explanation
Indices: 6585543--6585567 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6585533 GTACTAATTA
6585543 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
6585568 AATTAAGTTA
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:6586294 original size:24 final size:25
Alignment explanation
Indices: 6586265--6586323 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
6586255 GACATGACAG
6586265 TTTCTAGAAGGTTC-AGTCAGCAGT
1 TTTCTAGAAGGTTCTAGTCAGCAGT
* *
6586289 TTTCTAGAA-GATCTAGTCAGCCGT
1 TTTCTAGAAGGTTCTAGTCAGCAGT
*
6586313 TTT-TGGAAGGT
1 TTTCTAGAAGGT
6586324 GGACGAGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (25 bp):
TTTCTAGAAGGTTCTAGTCAGCAGT
Found at i:6590341 original size:23 final size:23
Alignment explanation
Indices: 6590314--6590363 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
6590304 TTTTCCCATA
6590314 TTTCAAAATTATATGCTAAGTAT
1 TTTCAAAATTATATGCTAAGTAT
*
6590337 TTTCAAAATTGTATGCTAAGTAT
1 TTTCAAAATTATATGCTAAGTAT
6590360 TTTC
1 TTTC
6590364 TCTGACTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (23 bp):
TTTCAAAATTATATGCTAAGTAT
Found at i:6607193 original size:13 final size:13
Alignment explanation
Indices: 6607173--6607261 Score: 79
Period size: 13 Copynumber: 6.7 Consensus size: 13
6607163 CACAATGAGC
*
6607173 GTCATAAATGTGT
1 GTCATAAATGCGT
* *
6607186 GTCGTAAATGCGC
1 GTCATAAATGCGT
6607199 GTCATAAATGCGT
1 GTCATAAATGCGT
* *
6607212 GTCATAAATACGC
1 GTCATAAATGCGT
* *
6607225 GTCATAAATTCAT
1 GTCATAAATGCGT
* *
6607238 GACGCATAATTGCGT
1 G--TCATAAATGCGT
6607253 GTCATAAAT
1 GTCATAAAT
6607262 TTATGACGCA
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
13 49 0.84
15 9 0.16
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (13 bp):
GTCATAAATGCGT
Found at i:6607195 original size:26 final size:26
Alignment explanation
Indices: 6607166--6607233 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
6607156 AATGATGCAC
* *
6607166 AATGAGCGTCATAAATGTGTGTCGTA
1 AATGAGCGTCATAAATGCGTGTCATA
*
6607192 AATGCGCGTCATAAATGCGTGTCATA
1 AATGAGCGTCATAAATGCGTGTCATA
6607218 AAT-ACGCGTCATAAAT
1 AATGA-GCGTCATAAAT
6607234 TCATGACGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (26 bp):
AATGAGCGTCATAAATGCGTGTCATA
Found at i:6607256 original size:28 final size:28
Alignment explanation
Indices: 6607225--6607285 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
6607215 ATAAATACGC
*
6607225 GTCATAAATTCATGACGCATAATTGCGT
1 GTCATAAATTCATGACGCACAATTGCGT
*
6607253 GTCATAAATTTATGACGCACAATTGCGT
1 GTCATAAATTCATGACGCACAATTGCGT
6607281 GTCAT
1 GTCAT
6607286 CTGAGATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (28 bp):
GTCATAAATTCATGACGCACAATTGCGT
Found at i:6610474 original size:19 final size:19
Alignment explanation
Indices: 6610446--6610483 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
6610436 AAAGCATATC
6610446 CAAAAAAGGAA-AAGAAAA
1 CAAAAAAGGAAGAAGAAAA
6610464 CAAAAACAGGAAGAAGAAAA
1 CAAAAA-AGGAAGAAGAAAA
6610484 AGGGAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.74, C:0.08, G:0.18, T:0.00
Consensus pattern (19 bp):
CAAAAAAGGAAGAAGAAAA
Found at i:6611237 original size:15 final size:16
Alignment explanation
Indices: 6611217--6611253 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
6611207 GACACATGGG
6611217 CATGATTATGG-ATGA
1 CATGATTATGGCATGA
*
6611232 CATGATTCTGGCATGA
1 CATGATTATGGCATGA
6611248 CATGAT
1 CATGAT
6611254 CTGACATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (16 bp):
CATGATTATGGCATGA
Found at i:6615194 original size:65 final size:63
Alignment explanation
Indices: 6615075--6615284 Score: 230
Period size: 65 Copynumber: 3.3 Consensus size: 63
6615065 TTTTTCAGAG
* *
6615075 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
6615137 ATT
61 ATT
* * *
6615140 TCATGCATCGATGCACATACCATGCATCGGTGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
6615204 T
63 T
* * * *
6615205 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
6615269 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
6615285 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 12, Indels: 18
0.81 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 47 0.38
65 69 0.55
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:6615284 original size:17 final size:19
Alignment explanation
Indices: 6615256--6615304 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
6615246 TATTTTGAAA
6615256 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
6615274 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
6615293 CATCGATGCACT
1 CATCGATGCACT
6615305 AAGGGTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.25
18 7 0.25
19 14 0.50
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:6615295 original size:64 final size:63
Alignment explanation
Indices: 6615125--6615304 Score: 197
Period size: 65 Copynumber: 2.8 Consensus size: 63
6615115 AATTAAATTG
* * *
6615125 AACATCGAATGCATTTCATGCATCGATGCACATACCA-TGCATCGGTGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCAC-T--CAGTGCATCGATGCACTCAGGATTTTATGA
6615189 A
63 A
* *
6615190 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACTCAG---TGCATCGATGCACTCAGGAT-TTTATG
6615253 -A
62 AA
*
6615254 AACATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCATCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACTC--AGTGCATCGATGCACT
6615305 AAGGGTCCAA
Statistics
Matches: 101, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
61 2 0.02
64 45 0.45
65 49 0.49
66 3 0.03
67 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCAGTGCATCGATGCACTCAGGATTTTATGAA
Found at i:6620996 original size:20 final size:21
Alignment explanation
Indices: 6620971--6621070 Score: 80
Period size: 23 Copynumber: 4.7 Consensus size: 21
6620961 TTGTGCTTCA
6620971 TGCATCGATACACA-T-AATAG
1 TGCATCGATACACATTGAAT-G
*
6620991 TGCATCGATGCATCATTGAATG
1 TGCATCGATACA-CATTGAATG
*
6621013 TGCATCGATACACCA-TGAAGG
1 TGCATCGATACA-CATTGAATG
* * *
6621034 TGCACCGATGCATGCCTTGAATG
1 TGCATCGATACA--CATTGAATG
*
6621057 TGCATCGATGCACA
1 TGCATCGATACACA
6621071 GGGTCATGCA
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
20 11 0.17
21 18 0.28
22 16 0.25
23 19 0.30
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACATTGAATG
Found at i:6621059 original size:23 final size:22
Alignment explanation
Indices: 6620990--6621068 Score: 97
Period size: 23 Copynumber: 3.6 Consensus size: 22
6620980 ACACATAATA
*
6620990 GTGCATCGATGCATCATTGAAT
1 GTGCATCGATGCATCCTTGAAT
* * *
6621012 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
6621033 GTGCACCGATGCATGCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
6621056 GTGCATCGATGCA
1 GTGCATCGATGCA
6621069 CAGGGTCATG
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 16 0.35
22 12 0.26
23 18 0.39
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:6621062 original size:44 final size:42
Alignment explanation
Indices: 6620971--6621070 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 42
6620961 TTGTGCTTCA
*
6620971 TGCATCGATACACATAATAGTGCATCGATGCATCATTGAATG
1 TGCATCGATACACATAATAGTGCACCGATGCATCATTGAATG
* *
6621013 TGCATCGATACACCATGAA-GGTGCACCGATGCATGCCTTGAATG
1 TGCATCGATACA-CAT-AATAGTGCACCGATGCAT-CATTGAATG
*
6621057 TGCATCGATGCACA
1 TGCATCGATACACA
6621071 GGGTCATGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 12 0.24
43 18 0.35
44 21 0.41
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (42 bp):
TGCATCGATACACATAATAGTGCACCGATGCATCATTGAATG
Done.