Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 309 of 427
Found at i:89839079 original size:15 final size:17
Alignment explanation
Indices: 89839059--89839090 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
89839049 CCTCTTAATC
89839059 GATAAAA-A-AAACTAT
1 GATAAAATACAAACTAT
89839074 GATAAAATACAAACTAT
1 GATAAAATACAAACTAT
89839091 TATTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (17 bp):
GATAAAATACAAACTAT
Found at i:89840842 original size:21 final size:21
Alignment explanation
Indices: 89840818--89840861 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
89840808 ATATTATATC
*
89840818 AATTTAGTCATAATTTTAAAA
1 AATTAAGTCATAATTTTAAAA
89840839 AATTAAGTCATAATTTTAAAA
1 AATTAAGTCATAATTTTAAAA
89840860 AA
1 AA
89840862 CTAACCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (21 bp):
AATTAAGTCATAATTTTAAAA
Found at i:89843086 original size:26 final size:25
Alignment explanation
Indices: 89843050--89843119 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
89843040 CGTATAAGTG
* *
89843050 AGCCTTTGTGGCTATCTCTGAAAGGA
1 AGCCTTTGTGGCGATCTCT-AAAGAA
* *
89843076 AGCCTTTGTGGCGATC-CTTACGAA
1 AGCCTTTGTGGCGATCTCTAAAGAA
89843100 AGCCTTTGTGGCGATCTCTA
1 AGCCTTTGTGGCGATCTCTA
89843120 TTATAAGGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 19 0.50
25 4 0.11
26 15 0.39
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (25 bp):
AGCCTTTGTGGCGATCTCTAAAGAA
Found at i:89843144 original size:29 final size:29
Alignment explanation
Indices: 89843099--89843158 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
89843089 ATCCTTACGA
*
89843099 AAGCCTTTGTGGCGATCTCTATTATAAGG
1 AAGCCTCTGTGGCGATCTCTATTATAAGG
*
89843128 AAGCCTCTGTGGTGATCTCTATTATAAGG
1 AAGCCTCTGTGGCGATCTCTATTATAAGG
89843157 AA
1 AA
89843159 AGTTTTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (29 bp):
AAGCCTCTGTGGCGATCTCTATTATAAGG
Found at i:89847415 original size:29 final size:29
Alignment explanation
Indices: 89847382--89847455 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
89847372 CCTTCAAGCT
*
89847382 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCA
* **
89847411 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCA
**
89847440 CGCACACTTAGTGCCA
1 CGCACACCCAGTGCCA
89847456 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (29 bp):
CGCACACCCAGTGCCATATATTTCCAGCA
Found at i:89851631 original size:40 final size:40
Alignment explanation
Indices: 89851537--89851681 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
89851527 TACTCGAATG
*
89851537 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
89851578 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
89851618 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
89851658 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
89851682 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:89859607 original size:40 final size:40
Alignment explanation
Indices: 89859513--89859657 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
89859503 TACTCGAATG
*
89859513 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
89859554 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
89859594 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
89859634 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
89859658 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:89871513 original size:15 final size:14
Alignment explanation
Indices: 89871484--89871531 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
89871474 CCTTCTTTTT
*
89871484 TTTTTATTTTTGTTC
1 TTTTT-TTTTCGTTC
89871499 TTTTTTTTGTCGTTC
1 TTTTTTTT-TCGTTC
* *
89871514 TTATTTTTTCCTTC
1 TTTTTTTTTCGTTC
89871528 TTTT
1 TTTT
89871532 CATTTTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTCGTTC
Found at i:89874152 original size:185 final size:185
Alignment explanation
Indices: 89873840--89874214 Score: 642
Period size: 185 Copynumber: 2.0 Consensus size: 185
89873830 CTCACCTTAA
*
89873840 GTGAGCAAGCAATATTTATTTTTATTTTATTTTACATTTCTTACCCTCATGAGTTCGGGTTTATT
1 GTGAGCAAGCAATATTTATATTTATTTTATTTTACATTTCTTACCCTCATGAGTTCGGGTTTATT
* * *
89873905 TATGTGTGACCTAATGGAGAAACTCATTAAGTTCATTTGAACTTATAGCAGTTTGTCTGATGTTT
66 TATGTATGACCTAATGGAGAAACTCATTAAGCTCATTTGAACTTATAGCAGTTTGTCTGATGTTC
*
89873970 GCAAGATTTGAGAGATTGTTCGAGGACTTAGAGGAGAGACCAAGCCAGACAGAAT
131 GCAAGATTTGAGAGATTGTTCGAGGACTCAGAGGAGAGACCAAGCCAGACAGAAT
* * * *
89874025 GTGAGCAAGGAATATTTATATTTATTTTATTTTACATTTCTTACCCTCGTGAGTTTGGGTTTTTT
1 GTGAGCAAGCAATATTTATATTTATTTTATTTTACATTTCTTACCCTCATGAGTTCGGGTTTATT
* *
89874090 TATGTATGACCTAGTGGAGAAACTCATTAAGCTCATTTGAATTTATAGCAGTTTGTCTGATGTTC
66 TATGTATGACCTAATGGAGAAACTCATTAAGCTCATTTGAACTTATAGCAGTTTGTCTGATGTTC
*
89874155 GCAAGATTTGAGAGATTGTTCGAGGACTCAGAGGAGAGACCAAGCTAGACAGAAT
131 GCAAGATTTGAGAGATTGTTCGAGGACTCAGAGGAGAGACCAAGCCAGACAGAAT
89874210 GTGAG
1 GTGAG
89874215 ATCAGGGTTT
Statistics
Matches: 178, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
185 178 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (185 bp):
GTGAGCAAGCAATATTTATATTTATTTTATTTTACATTTCTTACCCTCATGAGTTCGGGTTTATT
TATGTATGACCTAATGGAGAAACTCATTAAGCTCATTTGAACTTATAGCAGTTTGTCTGATGTTC
GCAAGATTTGAGAGATTGTTCGAGGACTCAGAGGAGAGACCAAGCCAGACAGAAT
Found at i:89877176 original size:46 final size:48
Alignment explanation
Indices: 89877057--89877179 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 48
89877047 TGAGATCCAG
* * *
89877057 TGTAAGACCATGTCTGGGACATGGCATCCG-TATTGAGATGAGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTATCGAGAT-AGTGCCAA
*
89877105 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGAT-GTGTCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTATCGAGATAGTGCCAA
*
89877149 TGTAAGACCATGCCTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
89877180 ACAGATATGC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 12 0.18
45 13 0.19
46 19 0.28
47 16 0.24
48 7 0.10
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTATCGAGATAGTGCCAA
Found at i:89877202 original size:94 final size:94
Alignment explanation
Indices: 89877009--89877221 Score: 225
Period size: 94 Copynumber: 2.3 Consensus size: 94
89876999 TATGTGAGCT
* * *
89877009 AGTGTAAGACATGTCTGGGACATGAATCGGCCACATTATGAGATCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGAATCGGCCACATGATGAGATCCAATGTAAGACCATGCCTGG
* ** **
89877074 GACATGGCATCCGTATTGAGATGAGTGCC
66 GACATGGCATCCGCACAGAGATGAGAACC
* * *
89877103 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGTG-T-CAATGTAAGACCATGCCTG
1 AGTGTAAGACATGTCTGGGACATGAATCGGCCAC-ATGATGAGATCCAATGTAAGACCATGCCTG
* * *
89877165 GGACATGGCATCGGCACAGATATGCTAGAACT
65 GGACATGGCATCCGCACAGAGATG--AGAACC
* *
89877197 TGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
89877222 GTATCAGCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
92 36 0.36
93 1 0.01
94 47 0.47
95 15 0.15
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGAATCGGCCACATGATGAGATCCAATGTAAGACCATGCCTGG
GACATGGCATCCGCACAGAGATGAGAACC
Found at i:89879907 original size:40 final size:40
Alignment explanation
Indices: 89879845--89880102 Score: 353
Period size: 40 Copynumber: 6.5 Consensus size: 40
89879835 AAGCCAAGTA
* * * *
89879845 CCTTCGGGAGTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
89879884 CCTTCGGGACATAGCCCGGATATAGTAACTCGCATC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-CAAATG
*
89879924 CCTTCGGGACTTAGTCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
89879964 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
89880004 CCTTCGGGACTTAACCCGGATATAGTAACACGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
89880044 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
89880084 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
89880103 TTATCATCCG
Statistics
Matches: 200, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 14 0.07
40 185 0.93
41 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:89887071 original size:68 final size:67
Alignment explanation
Indices: 89887025--89887182 Score: 271
Period size: 68 Copynumber: 2.3 Consensus size: 67
89887015 ATACTATATA
89887025 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
89887090 AAT
65 AAT
* *
89887093 GTAGCTAGGTCACATGTGTGATATGGGATGTATCCCATGTAGACAAGAGAGTTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
89887158 AAT
65 AAT
*
89887161 GTAGCTAGGTCACATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
89887183 TCCAAGTGAA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:89896351 original size:23 final size:23
Alignment explanation
Indices: 89896324--89896367 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
89896314 CACGATGTAA
89896324 GACCATAGATGAAAAATGCTACG
1 GACCATAGATGAAAAATGCTACG
*
89896347 GACCATTGATGAAAAATGCTA
1 GACCATAGATGAAAAATGCTA
89896368 TGATAGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (23 bp):
GACCATAGATGAAAAATGCTACG
Found at i:89897776 original size:12 final size:12
Alignment explanation
Indices: 89897759--89897785 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
89897749 ATCACATATA
89897759 CATAATATATGC
1 CATAATATATGC
89897771 CATAATATATGC
1 CATAATATATGC
89897783 CAT
1 CAT
89897786 TCCACTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (12 bp):
CATAATATATGC
Found at i:89901334 original size:20 final size:20
Alignment explanation
Indices: 89901309--89901348 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
89901299 TGTACGGGAC
*
89901309 TTGCACTTCGGTGGCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
89901329 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
89901349 ATACACTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.25, G:0.28, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:89901355 original size:20 final size:20
Alignment explanation
Indices: 89901312--89901357 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
89901302 ACGGGACTTG
* * * *
89901312 CACTTCGGTGGCTCTGTTTG
1 CACTTTGGTGCCTCTGTATA
89901332 CACTTTGGTGCCTCTGTATA
1 CACTTTGGTGCCTCTGTATA
89901352 CACTTT
1 CACTTT
89901358 AGTGTCTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.41
Consensus pattern (20 bp):
CACTTTGGTGCCTCTGTATA
Found at i:89903854 original size:17 final size:18
Alignment explanation
Indices: 89903832--89903865 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89903822 ATTGAATTCA
*
89903832 TATC-AATTTAGCTCAAT
1 TATCAAATTCAGCTCAAT
89903849 TATCAAATTCAGCTCAA
1 TATCAAATTCAGCTCAA
89903866 CTCATATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (18 bp):
TATCAAATTCAGCTCAAT
Found at i:89906673 original size:28 final size:28
Alignment explanation
Indices: 89906619--89906673 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
89906609 ACTTTATAAA
*
89906619 ATTTTATAAATTTTTTATGTTTCTATAT
1 ATTTTATAAACTTTTTATGTTTCTATAT
*
89906647 ATTTTAT-AACTTTTTATGATTTTTATA
1 ATTTTATAAACTTTTTATG-TTTCTATA
89906674 AAAAATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (28 bp):
ATTTTATAAACTTTTTATGTTTCTATAT
Found at i:89907488 original size:19 final size:19
Alignment explanation
Indices: 89907464--89907504 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
89907454 TGAGTGGTAA
89907464 ATTATAGTTTTGCATGCGT
1 ATTATAGTTTTGCATGCGT
*
89907483 ATTATAGTTTTGTATGCGT
1 ATTATAGTTTTGCATGCGT
89907502 ATT
1 ATT
89907505 TTCAGCTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (19 bp):
ATTATAGTTTTGCATGCGT
Found at i:89912679 original size:57 final size:57
Alignment explanation
Indices: 89912591--89912707 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
89912581 CTAAAGAATA
89912591 TATTATCACCAAACTCAACAGTAGGTCTCTTCAACATACTCATTTCCTACTTCTATC
1 TATTATCACCAAACTCAACAGTAGGTCTCTTCAACATACTCATTTCCTACTTCTATC
* * *
89912648 TATTATCATCAAACTCAACAGTAGGTCTCTTCAACATACTCATTTCCTAGTTCTTTC
1 TATTATCACCAAACTCAACAGTAGGTCTCTTCAACATACTCATTTCCTACTTCTATC
89912705 TAT
1 TAT
89912708 AAGATATAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (57 bp):
TATTATCACCAAACTCAACAGTAGGTCTCTTCAACATACTCATTTCCTACTTCTATC
Found at i:89919068 original size:35 final size:35
Alignment explanation
Indices: 89919022--89919092 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
89919012 ATTAAATAGA
*
89919022 TATTAATTTATAAAATTTAACATGGATAATCAATT
1 TATTAATTTATAAAATTTAACATAGATAATCAATT
*
89919057 TATTAATTTATAAAATTTAACATAGATAATCGATT
1 TATTAATTTATAAAATTTAACATAGATAATCAATT
89919092 T
1 T
89919093 TATTGTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (35 bp):
TATTAATTTATAAAATTTAACATAGATAATCAATT
Found at i:89920900 original size:17 final size:16
Alignment explanation
Indices: 89920874--89920914 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
89920864 AACTTGTAAA
*
89920874 TAAATTTTTTTATTTT
1 TAAATTTTTTCATTTT
89920890 TAAAGTTTTTTCATTTT
1 TAAA-TTTTTTCATTTT
89920907 T-AATTTTT
1 TAAATTTTT
89920915 AAATATCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 6 0.26
17 12 0.52
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TAAATTTTTTCATTTT
Found at i:89921743 original size:23 final size:25
Alignment explanation
Indices: 89921717--89921763 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
89921707 TATCATTCAT
*
89921717 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
89921740 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
89921764 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:89922084 original size:46 final size:46
Alignment explanation
Indices: 89922024--89922197 Score: 222
Period size: 46 Copynumber: 4.0 Consensus size: 46
89922014 TTTGACGTGA
* * * * * *
89922024 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
89922070 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89922116 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89922154 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
89922198 AGAGCACACT
Statistics
Matches: 113, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
38 33 0.29
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 5 0.04
46 66 0.58
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:89922162 original size:38 final size:38
Alignment explanation
Indices: 89922111--89922186 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
89922101 CATTTCATAT
89922111 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
89922149 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
89922187 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:89928949 original size:28 final size:30
Alignment explanation
Indices: 89928909--89928983 Score: 120
Period size: 29 Copynumber: 2.6 Consensus size: 30
89928899 AATTGTGACA
*
89928909 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAGTTTGAATACATAT
89928937 AGCACTAAGTGTGCGAG-TTGAATACATAT
1 AGCACTAAGTGTGCGAGTTTGAATACATAT
89928966 AGCACTAAGTGTGCGAGT
1 AGCACTAAGTGTGCGAGT
89928984 ATAAATGGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 3 0.07
28 19 0.44
29 21 0.49
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (30 bp):
AGCACTAAGTGTGCGAGTTTGAATACATAT
Found at i:89936900 original size:28 final size:28
Alignment explanation
Indices: 89936831--89936931 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
89936821 ATTGGTCTCG
* * * *
89936831 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
89936861 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
89936889 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
89936918 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
89936932 GGTATAAATG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:89938840 original size:24 final size:24
Alignment explanation
Indices: 89938813--89938863 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
89938803 ATGACAATTA
89938813 TATGGTATTGATATTGTACAAATG
1 TATGGTATTGATATTGTACAAATG
89938837 TATGGTATTGATATTGTACAAATG
1 TATGGTATTGATATTGTACAAATG
89938861 TAT
1 TAT
89938864 AAAAATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (24 bp):
TATGGTATTGATATTGTACAAATG
Found at i:89939071 original size:3 final size:3
Alignment explanation
Indices: 89939063--89939109 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
89939053 TATTTATTAA
*
89939063 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
89939110 CAAATAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:89942865 original size:178 final size:177
Alignment explanation
Indices: 89942609--89943003 Score: 553
Period size: 178 Copynumber: 2.2 Consensus size: 177
89942599 AACTGTTTAA
* *
89942609 GGAGACAAGATCCTT-AATCTTCAGTCTGCTTCCTTGCTACTTCAAGAAGATAAGACCAATTTCT
1 GGAGATAAGAT-CTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACCAA-TTCT
*
89942673 TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTAGCTTAAATCTGCTCCATTGCCAA
64 TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTAGCTTAAAACTGCTCCATTGCCAA
* *
89942738 TACATGGAAATAAGATTCACCATC-TTCGATCTGCTCCGCTGCAACTTTAG
129 TACATGGAAATAAGATTCACC-TCTTTCGATCTGCTCCACTACAAC-TTAG
* * *
89942788 GGAGATAATATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAA-TCTT
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGAC-CAATTCTT
* * * * *
89942852 TAACCTTCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGCTTAAAACTGCTCCATTGTCGAT
65 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTAGCTTAAAACTGCTCCATTGCCAAT
* * **
89942917 ACATGGATATAAGATTCGCCTCTTTCGATCTGCTCCACTACTGCTTAG
130 ACATGGAAATAAGATTCACCTCTTTCGATCTGCTCCACTACAACTTAG
* *
89942965 GGAGATAAGATCTTTAATCTTCAGTCTGCTTCTTTGCTA
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTA
89943004 AAGATCTTTA
Statistics
Matches: 192, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
177 41 0.21
178 101 0.53
179 47 0.24
180 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (177 bp):
GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACCAATTCTTC
AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTAGCTTAAAACTGCTCCATTGCCAATA
CATGGAAATAAGATTCACCTCTTTCGATCTGCTCCACTACAACTTAG
Found at i:89943030 original size:33 final size:33
Alignment explanation
Indices: 89942971--89943036 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
89942961 TTAGGGAGAT
89942971 AAGATCTTTAATCTTCAGTCTGCTTCTTTGCTA
1 AAGATCTTTAATCTTCAGTCTGCTTCTTTGCTA
89943004 AAGATCTTTAATCTTCAGTCTGCTTCTTTGCTA
1 AAGATCTTTAATCTTCAGTCTGCTTCTTTGCTA
89943037 CCTCAGGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (33 bp):
AAGATCTTTAATCTTCAGTCTGCTTCTTTGCTA
Found at i:89943177 original size:210 final size:210
Alignment explanation
Indices: 89942797--89943187 Score: 613
Period size: 210 Copynumber: 1.9 Consensus size: 210
89942787 GGGAGATAAT
* * *
89942797 ATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTTAACCTTCTC
1 ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTACTC
* * * *
89942862 TCTTGCTACCTCAGAGAGATAAGGCTTGGTGGCTTAAAACTGCTCCATTGTCGATACATGGATAT
66 TCTTGCTACCTCAGAAAGATAAGGCTTGGTGGCTTAAAACTACTCCATTGCCGATACATGGAGAT
* * *
89942927 AAGATTCGCCTCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTTAATCTTCAGTCT
131 AAGATTCGCATCTTTCGATCTGCTCCACCACTGATTAGGGAGATAAGATCTTTAATCTTCAGTCT
89942992 GCTTCTTTGCTAAAG
196 GCTTCTTTGCTAAAG
* *
89943007 ATCTTTAATCTTCAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTACTC
1 ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTACTC
* * *
89943072 TCTTGCTACCTCAGAAAGATAAGGCTTGGTGGCTTAGATCTACTCCATTGCCGATATATGGAGAT
66 TCTTGCTACCTCAGAAAGATAAGGCTTGGTGGCTTAAAACTACTCCATTGCCGATACATGGAGAT
**
89943137 AAGATTCGGCATC-TTCGATCTGCTCGGCCACTGATTAGGGAGATAAGATCT
131 AAGATTC-GCATCTTTCGATCTGCTCCACCACTGATTAGGGAGATAAGATCT
89943188 GACTTCACCA
Statistics
Matches: 163, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
210 159 0.98
211 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (210 bp):
ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTACTC
TCTTGCTACCTCAGAAAGATAAGGCTTGGTGGCTTAAAACTACTCCATTGCCGATACATGGAGAT
AAGATTCGCATCTTTCGATCTGCTCCACCACTGATTAGGGAGATAAGATCTTTAATCTTCAGTCT
GCTTCTTTGCTAAAG
Found at i:89944301 original size:59 final size:53
Alignment explanation
Indices: 89944234--89944393 Score: 169
Period size: 59 Copynumber: 2.9 Consensus size: 53
89944224 TTCGACTTTA
* * *
89944234 TTTTTTTATTGAGTCTCAAAGCGCTCTTTGTGGGTTTTCACTTTGGCTCCATATCT
1 TTTTTTTATT-AGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCTCC--ACCC
* * *
89944290 TGTCATTTTTATTAGGTCTCAAAGCGCCCTTTGCGAGTTTTCACTTTGGC-CCCCCC
1 T-T--TTTTTATTA-GTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCTCCACCC
**
89944346 TTTTTTTAGAAAGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCT
1 TTTTTTTA-TTAGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCT
89944394 TCTTCCCCTC
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
53 39 0.44
54 1 0.01
55 1 0.01
56 3 0.03
57 1 0.01
58 3 0.03
59 40 0.45
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (53 bp):
TTTTTTTATTAGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCTCCACCC
Found at i:89948118 original size:22 final size:23
Alignment explanation
Indices: 89948088--89948141 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
89948078 TGGACTTTTA
89948088 TTGGTTTTTATCTTA-ATTTATTT
1 TTGGTTTTTAT-TTATATTTATTT
* *
89948111 TT-GTTTTTGTTTATTTTTATTT
1 TTGGTTTTTATTTATATTTATTT
89948133 TTGGTTTTT
1 TTGGTTTTT
89948142 CTCTAACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 16 0.59
23 8 0.30
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.76
Consensus pattern (23 bp):
TTGGTTTTTATTTATATTTATTT
Found at i:89948123 original size:16 final size:16
Alignment explanation
Indices: 89948104--89948135 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89948094 TTTATCTTAA
*
89948104 TTTATTTTTGTTTTTG
1 TTTATTTTTATTTTTG
89948120 TTTATTTTTATTTTTG
1 TTTATTTTTATTTTTG
89948136 GTTTTTCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTTTG
Found at i:89948624 original size:180 final size:175
Alignment explanation
Indices: 89948368--89949233 Score: 939
Period size: 180 Copynumber: 4.9 Consensus size: 175
89948358 TTTGGGAAAT
* * * * *
89948368 AAATCTACAATCTTTAGTCTACCTCCTTGCTACCTC-AGAAAGACAAGACTCATTCTTCAACCTG
1 AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAAG-AAGATAAGACTCATTTTTCAACCTG
* * * * *
89948432 CTCTCTTGCTACCTCAAAGAGATAAGGCGGATGGCTCAGATCTGCCCCATTGCCAATATATGGAG
65 CTCTCTTGCTACCTCAGAGAGATAAGGC-GATGGCTAAAATCTGCTCCATTGCCAATACATGGAG
*
89948497 ATAAGATTAGCCACCTTCGAAGATCTGCTCCGCTGTAACTTCGAGGAGATG
129 ATAAGATTAGCCATCTT---AGATCTGCTCCGCTGT-ACTTCGAGGAGATG
* * * *
89948548 AAATCTTCAATCCTGAGTCTGCTTCCTTGTTACCTCAAGAAGATAAGACTCATTTTTCAACCTGC
1 AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACTCATTTTTCAACCTGC
* * * * *
89948613 TCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCCGCTCCAGT-CTCGATACATGGAG
66 TCTCTTGCTACCTCAGAGAGATAAGGCGA-TGGCTAAAATCTGCTCCATTGC-CAATACATGGAG
* * ** *
89948677 ATAAGATTTGCCATCTTTGATCTGCTCCGC--TACTGTTTAGGGAGATA
129 ATAAGATTAGCCATCTTAGATCTGCTCCGCTGTACT-TCGA-GGAGATG
* * *
89948724 AAATCTTCAATCTTCAGTCTACTTTCTTGCTACCTCATA-AGGATAAGACTCATTCTTCAACCTG
1 AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCA-AGAAGATAAGACTCATTTTTCAACCTG
* * * * *
89948788 CTCTTTTGCTACCTCAGAGAGATAAGGCTGATGGCTTATATCTGCCCCATTGCCAATACATAGAG
65 CTCTCTTGCTACCTCAGAGAGATAAGGC-GATGGCTAAAATCTGCTCCATTGCCAATACATGGAG
*
89948853 ATAAGATTAGCCATCTTTGAAGATCTGCTCCGCTGCAACTTCGAGGAGATG
129 ATAAGATTAGCCATC-TT--AGATCTGCTCCGCTG-TACTTCGAGGAGATG
* * * * *
89948904 AAATCTTCAATCCTT-AGTCTGCTTCCTTGTTACCTCAGGTAGATAAGACTCTTTTTTCAACCTG
1 AAATCTTCAAT-CTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACTCATTTTTCAACCTG
* * * *
89948968 CTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGTCTAAAATCCGCTCCATTGCCGATACATGGAG
65 CTCTCTTGCTACCTCAGAGAGATAAGGCGA-TGGCTAAAATCTGCTCCATTGCCAATACATGGAG
* * * * *
89949033 ATAAGATTCA-CCATATTTGATCTGCTCCGCTACTATTTAG-GGAGAT-
129 ATAAGATT-AGCCATCTTAGATCTGCTCCGCT-GTACTTCGAGGAGATG
*
89949079 AAGATCTTCAATCTTCAGTCTACTTTCTTGCTACCTC-AGAAAGATAAGACTCATTTTTCAACCT
1 AA-ATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAAG-AAGATAAGACTCATTTTTCAACCT
* *
89949143 GC-CTTCTTGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATTTGCTCCATTGCCAATACATGG
64 GCTC-TCTTGCTACCTCAGAGAGATAAGGC-GATGGCTAAAATCTGCTCCATTGCCAATACATGG
* *
89949206 AGATAAGATTCA-CCATTTTCGATCTGCT
127 AGATAAGATT-AGCCATCTTAGATCTGCT
89949234 TCATTGCAAC
Statistics
Matches: 578, Mismatches: 84, Indels: 53
0.81 0.12 0.07
Matches are distributed among these distances:
174 3 0.01
175 61 0.11
176 210 0.36
177 34 0.06
179 17 0.03
180 242 0.42
181 8 0.01
182 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (175 bp):
AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACTCATTTTTCAACCTGC
TCTCTTGCTACCTCAGAGAGATAAGGCGATGGCTAAAATCTGCTCCATTGCCAATACATGGAGAT
AAGATTAGCCATCTTAGATCTGCTCCGCTGTACTTCGAGGAGATG
Found at i:89948800 original size:176 final size:176
Alignment explanation
Indices: 89948368--89949271 Score: 984
Period size: 176 Copynumber: 5.1 Consensus size: 176
89948358 TTTGGGAAAT
* * * * *
89948368 AAATCTACAATCTTTAGTCTACCTCCTTGCTACCTCAGAAAGACAAGACTCATTCTTCAACCTGC
1 AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAGAAAGATAAGACTCATTTTTCAACCTGC
* * * * * *
89948433 TCTCTTGCTACCTCAAAGAGATAAGG-CGGATGGCTCAGATCTGCCCCATTGCCAATATATGGAG
66 TCTCTTGCTACCTCAGAGAGATAAGGCCAG-TGGCTAAAATCTGCTCCATTGCCAATACATGGAG
* * * * * *
89948497 ATAAGATTAGCCACCTTCGAAGATCTGCTCCGCT-GTAACTTCGAGGAGATG
130 ATAAGATTAGCCATCTT---TGATCTGCTCCGCTACT-ATTTAG-GGAGATA
* * * *
89948548 AAATCTTCAATCCTGAGTCTGCTTCCTTGTTACCTCA-AGAAGATAAGACTCATTTTTCAACCTG
1 AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAGA-AAGATAAGACTCATTTTTCAACCTG
* * * *
89948612 CTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCCGCTCCAGT-CTCGATACATGGA
65 CTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGC-CAATACATGGA
* *
89948676 GATAAGATTTGCCATCTTTGATCTGCTCCGCTACTGTTTAGGGAGATA
129 GATAAGATTAGCCATCTTTGATCTGCTCCGCTACTATTTAGGGAGATA
* * * *
89948724 AAATCTTCAATCTTCAGTCTACTTTCTTGCTACCTCATAAGGATAAGACTCATTCTTCAACCTGC
1 AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAGAAAGATAAGACTCATTTTTCAACCTGC
* * * * * *
89948789 TCTTTTGCTACCTCAGAGAGATAAGG-CTGATGGCTTATATCTGCCCCATTGCCAATACATAGAG
66 TCTCTTGCTACCTCAGAGAGATAAGGCCAG-TGGCTAAAATCTGCTCCATTGCCAATACATGGAG
* * * * *
89948853 ATAAGATTAGCCATCTTTGAAGATCTGCTCCGCTGCAACTTCGAGGAGATG
130 ATAAGATTAGCCATCTTT---GATCTGCTCCGCTACTATTTAG-GGAGATA
* * ** *
89948904 AAATCTTCAATCCTT-AGTCTGCTTCCTTGTTACCTCAGGTAGATAAGACTCTTTTTTCAACCTG
1 AAATCTTCAAT-CTTCAGTCTACTTCCTTGCTACCTCAGAAAGATAAGACTCATTTTTCAACCTG
* * * *
89948968 CTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGTCTAAAATCCGCTCCATTGCCGATACATGGAG
65 CTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCAATACATGGAG
*
89949033 ATAAGATTCA-CCATATTTGATCTGCTCCGCTACTATTTAGGGAGATA
130 ATAAGATT-AGCCATCTTTGATCTGCTCCGCTACTATTTAGGGAGATA
* *
89949080 AGATCTTCAATCTTCAGTCTACTTTCTTGCTACCTCAGAAAGATAAGACTCATTTTTCAACCTGC
1 AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAGAAAGATAAGACTCATTTTTCAACCTGC
** *
89949145 -CTTCTTGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATTTGCTCCATTGCCAATACATGGAG
66 TC-TCTTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCAATACATGGAG
* ** * *
89949208 ATAAGATTCA-CCAT-TTTCGATCTGCTTCATTGCAACTTTAGGGAGATA
130 ATAAGATT-AGCCATCTTT-GATCTGCTCCGCTACTA-TTTAGGGAGATA
* *
89949256 AGATCTTCATTCTTCA
1 AAATCTTCAATCTTCA
89949272 CCAATGTCGC
Statistics
Matches: 613, Mismatches: 93, Indels: 40
0.82 0.12 0.05
Matches are distributed among these distances:
174 3 0.00
175 59 0.10
176 244 0.40
177 36 0.06
178 1 0.00
179 19 0.03
180 244 0.40
181 7 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (176 bp):
AAATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAGAAAGATAAGACTCATTTTTCAACCTGC
TCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCAATACATGGAGA
TAAGATTAGCCATCTTTGATCTGCTCCGCTACTATTTAGGGAGATA
Found at i:89949028 original size:356 final size:356
Alignment explanation
Indices: 89948311--89949215 Score: 1347
Period size: 356 Copynumber: 2.5 Consensus size: 356
89948301 CTCTATTATT
* * * * *
89948311 GATATATGGAGATAAGATTCA-C-TATTCTCGATCTACTCCACAACTACTTT-GGGAAAT-AAAT
1 GATACATGGAGATAAGATTCACCATATT-T-GATCTGCTCCGCTACTA-TTTAGGGAGATAAAAT
* * * * * *
89948372 CTACAATCTTTAGTCTACCTCCTTGCTACCTCAGAAAGACAAGACTCATTCTTCAACCTGCTCTC
63 CTTCAATCTTCAGTCTACTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTT
* * * * *
89948437 TTGCTACCTCAAAGAGATAAGGCGGATGGCTCAGATCTGCCCCATTGCCAATATATGGAGATAAG
128 TTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCCCCATTGCCAATACATGGAGATAAG
*
89948502 ATTAGCCACCTTCGAAGATCTGCTCCGCTGTAACTTCGAGGAGATGAAATCTTCAATCCTGAGTC
193 ATTAGCCACCTTCGAAGATCTGCTCCGCTGCAACTTCGAGGAGATGAAATCTTCAATCCTGAGTC
89948567 TGCTTCCTTGTTACCTCAAGAAGATAAGACTCATTTTTCAACCTGCTCTCCTGCTACCTCAGAGA
258 TGCTTCCTTGTTACCTCAAGAAGATAAGACTCATTTTTCAACCTGCTCTCCTGCTACCTCAGAGA
89948632 GATAAGGCCAGTGGCTAAAATCCGCTCCAGTCTC
323 GATAAGGCCAGTGGCTAAAATCCGCTCCAGTCTC
** * *
89948666 GATACATGGAGATAAGATTTGCCATCTTTGATCTGCTCCGCTACTGTTTAGGGAGATAAAATCTT
1 GATACATGGAGATAAGATTCACCATATTTGATCTGCTCCGCTACTATTTAGGGAGATAAAATCTT
* *
89948731 CAATCTTCAGTCTACTTTCTTGCTACCTCATAAGGATAAGACTCATTCTTCAACCTGCTCTTTTG
66 CAATCTTCAGTCTACTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTTTTG
* * *
89948796 CTACCTCAGAGAGATAAGGCTGATGGCTTATATCTGCCCCATTGCCAATACATAGAGATAAGATT
131 CTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCCCCATTGCCAATACATGGAGATAAGATT
* * *
89948861 AGCCATCTTTGAAGATCTGCTCCGCTGCAACTTCGAGGAGATGAAATCTTCAATCCTTAGTCTGC
196 AGCCACCTTCGAAGATCTGCTCCGCTGCAACTTCGAGGAGATGAAATCTTCAATCCTGAGTCTGC
* * * *
89948926 TTCCTTGTTACCTCAGGTAGATAAGACTCTTTTTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
261 TTCCTTGTTACCTCAAGAAGATAAGACTCATTTTTCAACCTGCTCTCCTGCTACCTCAGAGAGAT
* * *
89948991 AAGGCTAGTGTCTAAAATCCGCTCCATTGC-C
326 AAGGCCAGTGGCTAAAATCCGCTCCAGT-CTC
*
89949022 GATACATGGAGATAAGATTCACCATATTTGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTT
1 GATACATGGAGATAAGATTCACCATATTTGATCTGCTCCGCTACTATTTAGGGAGATAAAATCTT
*
89949087 CAATCTTCAGTCTACTTTCTTGCTACCTCAGAAAGATAAGACTCATTTTTCAACCTGC-CTTCTT
66 CAATCTTCAGTCTACTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTT-TT
* * *
89949151 GCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATTTGCTCCATTGCCAATACATGGAGATAAGAT
130 GCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCCCCATTGCCAATACATGGAGATAAGAT
89949215 T
195 T
89949216 CACCATTTTC
Statistics
Matches: 496, Mismatches: 48, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
354 3 0.01
355 73 0.15
356 416 0.84
357 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (356 bp):
GATACATGGAGATAAGATTCACCATATTTGATCTGCTCCGCTACTATTTAGGGAGATAAAATCTT
CAATCTTCAGTCTACTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTTTTG
CTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCCCCATTGCCAATACATGGAGATAAGATT
AGCCACCTTCGAAGATCTGCTCCGCTGCAACTTCGAGGAGATGAAATCTTCAATCCTGAGTCTGC
TTCCTTGTTACCTCAAGAAGATAAGACTCATTTTTCAACCTGCTCTCCTGCTACCTCAGAGAGAT
AAGGCCAGTGGCTAAAATCCGCTCCAGTCTC
Found at i:89961703 original size:2 final size:2
Alignment explanation
Indices: 89961696--89961728 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
89961686 TTTACAAAAC
89961696 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
89961729 AAAATAGATA
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:89963927 original size:22 final size:23
Alignment explanation
Indices: 89963897--89963950 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
89963887 TAGACTTTTA
89963897 TTGGTTTTTATCTTA-ATTTATTT
1 TTGGTTTTTAT-TTATATTTATTT
* *
89963920 TT-GTTTTTGTTTATTTTTATTT
1 TTGGTTTTTATTTATATTTATTT
89963942 TTGGTTTTT
1 TTGGTTTTT
89963951 CTCTAACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 16 0.59
23 8 0.30
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.76
Consensus pattern (23 bp):
TTGGTTTTTATTTATATTTATTT
Found at i:89963932 original size:16 final size:16
Alignment explanation
Indices: 89963913--89963944 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89963903 TTTATCTTAA
*
89963913 TTTATTTTTGTTTTTG
1 TTTATTTTTATTTTTG
89963929 TTTATTTTTATTTTTG
1 TTTATTTTTATTTTTG
89963945 GTTTTTCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTTTG
Found at i:89987129 original size:5 final size:5
Alignment explanation
Indices: 89987119--89987151 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
89987109 AATATATAAG
89987119 AAACA AAACA AAACA AAACA AAACA AAACA AAA
1 AAACA AAACA AAACA AAACA AAACA AAACA AAA
89987152 AAAGAAACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:89988424 original size:12 final size:12
Alignment explanation
Indices: 89988407--89988431 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89988397 GCCGACTACT
89988407 GTTACTGTTATC
1 GTTACTGTTATC
89988419 GTTACTGTTATC
1 GTTACTGTTATC
89988431 G
1 G
89988432 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (12 bp):
GTTACTGTTATC
Found at i:89988460 original size:45 final size:44
Alignment explanation
Indices: 89988409--89988518 Score: 150
Period size: 45 Copynumber: 2.4 Consensus size: 44
89988399 CGACTACTGT
*
89988409 TACTGTTATCGTTACTGTTATCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTA-CGTTACTGTTATAGATTCAG-CACTTTGTGTGTCGAA
* *
89988454 TACTGTTACCGTTACTATTATAGATTCAGTACTTTGTGTGTCGAA
1 TACTGTTA-CGTTACTGTTATAGATTCAGCACTTTGTGTGTCGAA
89988499 TACTGTTACTGTTACTGTTA
1 TACTGTTAC-GTTACTGTTA
89988519 CTGCTACCGT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 1 0.02
45 56 0.97
46 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (44 bp):
TACTGTTACGTTACTGTTATAGATTCAGCACTTTGTGTGTCGAA
Found at i:89988509 original size:51 final size:51
Alignment explanation
Indices: 89988394--89988520 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 51
89988384 CAGGCACTTA
* * * * *
89988394 TGTGCCGACTACTGTTACTGTTATCGTTACTGTTATCGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGTTACTATTATAGATTCGACACTTTG
*
89988445 TGTGTCG-A-A----TACTGTTACCGTTACTATTATAGATTC-AGTACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGTTACTATTATAGATTCGA-CACTTTG
*
89988490 TGTGTCGAATACTGTTACTGTTACTGTTACT
1 TGTGTCGAATACTGTTACTGTTACCGTTACT
89988521 GCTACCGTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
44 1 0.02
45 37 0.60
46 1 0.02
47 1 0.02
49 1 0.02
51 21 0.34
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (51 bp):
TGTGTCGAATACTGTTACTGTTACCGTTACTATTATAGATTCGACACTTTG
Found at i:89988510 original size:6 final size:6
Alignment explanation
Indices: 89988499--89988542 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
89988489 GTGTGTCGAA
* *
89988499 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
89988543 TAGGTACTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:89988673 original size:18 final size:18
Alignment explanation
Indices: 89988650--89988833 Score: 217
Period size: 18 Copynumber: 10.2 Consensus size: 18
89988640 TAAAGGTACC
89988650 GAATAATTGACTGTTACT
1 GAATAATTGACTGTTACT
* *
89988668 GAATAATTAACTGTCACT
1 GAATAATTGACTGTTACT
*
89988686 GAATAAATGACTGTTACT
1 GAATAATTGACTGTTACT
* *
89988704 GAATAATTAACTGTCACT
1 GAATAATTGACTGTTACT
*
89988722 GAATAAATGACTGTTACT
1 GAATAATTGACTGTTACT
* * *
89988740 GAATAACTGATTATTACT
1 GAATAATTGACTGTTACT
*
89988758 AAATAATTGACTGTTACT
1 GAATAATTGACTGTTACT
* *
89988776 TAATAAATGACTGTTACT
1 GAATAATTGACTGTTACT
* *
89988794 GGATAATCGACTGTTACT
1 GAATAATTGACTGTTACT
*
89988812 GAACAATTGA-TCGTTACT
1 GAATAATTGACT-GTTACT
89988830 GAAT
1 GAAT
89988834 GATATTGATA
Statistics
Matches: 137, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
17 1 0.01
18 136 0.99
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (18 bp):
GAATAATTGACTGTTACT
Found at i:89990699 original size:26 final size:26
Alignment explanation
Indices: 89990670--89990729 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
89990660 TGGTACAAAT
* *
89990670 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
89990696 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
89990722 TGATAATG
1 TGATAATG
89990730 TTCCATGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:89990730 original size:39 final size:39
Alignment explanation
Indices: 89990687--89990803 Score: 225
Period size: 39 Copynumber: 3.0 Consensus size: 39
89990677 GGGTTAGGTA
89990687 AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
1 AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
89990726 AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
1 AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
*
89990765 AATGTTCCATGATAATGGTTTAGGTAAATATTCCATGAT
1 AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
89990804 GGGCATATCA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (39 bp):
AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
Found at i:89990735 original size:13 final size:13
Alignment explanation
Indices: 89990717--89990781 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 13
89990707 TAGGTAAATA
89990717 TTCCATGATAATG
1 TTCCATGATAATG
89990730 TTCCATGATAATGG
1 TTCCATGATAAT-G
* *
89990744 ATT--A-GGTAAATA
1 -TTCCATGAT-AATG
89990756 TTCCATGATAATG
1 TTCCATGATAATG
89990769 TTCCATGATAATG
1 TTCCATGATAATG
89990782 GTTTAGGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 2 0.05
12 2 0.05
13 33 0.79
14 3 0.07
15 2 0.05
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (13 bp):
TTCCATGATAATG
Found at i:89992768 original size:137 final size:137
Alignment explanation
Indices: 89992522--89992808 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
89992512 GAGTAGTCTC
89992522 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
89992587 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
89992652 ACTGTTA
131 ACTGTTA
89992659 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
89992724 TGTTATCTGAATAAAGGGCTAAGGCCCAGTTTATTGTGATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
89992789 ACTGTTA
131 ACTGTTA
**
89992796 CCTGAATGGGCTT
1 CCCAAATGGGCTT
89992809 AGGCCAATAG
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:89997904 original size:26 final size:26
Alignment explanation
Indices: 89997875--89997934 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
89997865 TGGTACAAAT
* *
89997875 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
89997901 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
89997927 TGATAATG
1 TGATAATG
89997935 TTCCATGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:89997935 original size:39 final size:39
Alignment explanation
Indices: 89997892--89997969 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
89997882 GGGTTAGGTA
89997892 AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
1 AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
*
89997931 AATGTTCCATGATAATGGTTTAGGTAAATATTCCATGAT
1 AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
89997970 GAGCATTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (39 bp):
AATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
Found at i:89997940 original size:13 final size:13
Alignment explanation
Indices: 89997922--89997947 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89997912 TAGGTAAATA
89997922 TTCCATGATAATG
1 TTCCATGATAATG
89997935 TTCCATGATAATG
1 TTCCATGATAATG
89997948 GTTTAGGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTCCATGATAATG
Found at i:90001352 original size:2 final size:2
Alignment explanation
Indices: 90001345--90001390 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
90001335 TTGCATAATA
90001345 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
90001387 AT AT
1 AT AT
90001391 TGATTCAATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90010796 original size:23 final size:22
Alignment explanation
Indices: 90010730--90010806 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
90010720 GAGTCATGGT
90010730 CGGTAAGCTCCT-TTGAGATGAA
1 CGGTAAGCT-CTATTGAGATGAA
* *
90010752 CAGTAAGCT-TGATTGAGCTGAAA
1 CGGTAAGCTCT-ATTGAGATG-AA
*
90010775 CGGTAAGCTCTATTAAGATGAA
1 CGGTAAGCTCTATTGAGATGAA
*
90010797 TGGTAAGCTC
1 CGGTAAGCTC
90010807 CAATGAGTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 1 0.02
22 26 0.58
23 17 0.38
24 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (22 bp):
CGGTAAGCTCTATTGAGATGAA
Found at i:90018639 original size:30 final size:30
Alignment explanation
Indices: 90018605--90018664 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
90018595 ATTTAATACG
90018605 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
90018635 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
90018665 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:90025644 original size:46 final size:46
Alignment explanation
Indices: 90025577--90025702 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
90025567 AACCCGCCCC
* * * * *
90025577 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
90025623 TAAGTGAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
90025669 TAAGTGAAGTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
90025703 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:90026161 original size:14 final size:14
Alignment explanation
Indices: 90026142--90026168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
90026132 GAAAAATTAC
90026142 ACTTTTGCCCCTAA
1 ACTTTTGCCCCTAA
90026156 ACTTTTGCCCCTA
1 ACTTTTGCCCCTA
90026169 GGCTCGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.37, G:0.07, T:0.37
Consensus pattern (14 bp):
ACTTTTGCCCCTAA
Found at i:90027683 original size:22 final size:23
Alignment explanation
Indices: 90027649--90027695 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
90027639 GATGTAAGGG
90027649 AGAATAAAGAAATG-GAAAAAAA
1 AGAATAAAGAAATGAGAAAAAAA
90027671 AGAA-AAAGAAAATGATGAAAAAAA
1 AGAATAAAG-AAATGA-GAAAAAAA
90027695 A
1 A
90027696 TGGGTGTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
24 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (23 bp):
AGAATAAAGAAATGAGAAAAAAA
Found at i:90029868 original size:71 final size:71
Alignment explanation
Indices: 90029784--90029947 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
90029774 CGATTTGTCT
90029784 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
90029849 CTTTCA
66 CTTTCA
* *
90029855 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
90029920 CTTTCA
66 CTTTCA
90029926 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
90029948 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:90029985 original size:71 final size:70
Alignment explanation
Indices: 90029784--90029981 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
90029774 CGATTTGTCT
* * * * *
90029784 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90029849 CTTTCA
65 CTTTCA
* * * *
90029855 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90029920 CTTTCA
65 CTTTCA
* *
90029926 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
90029982 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:90031814 original size:29 final size:29
Alignment explanation
Indices: 90031772--90031844 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
90031762 AAAATTGTAC
90031772 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
90031801 AGCATTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
90031830 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
90031845 GATTCACTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:90039053 original size:93 final size:93
Alignment explanation
Indices: 90038945--90039115 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
90038935 GCCCCTAAGT
* * *
90038945 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCTCATCCATAAGTGAAATCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCAA
90039010 CGAGGTCGGATGCCTAGTTACATTTCAC
66 CGAGGTCGGATGCCTAGTTACATTTCAC
* * * *
90039038 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCAA
* *
90039103 TGAGTTCGGATGC
66 CGAGGTCGGATGC
90039116 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCAA
CGAGGTCGGATGCCTAGTTACATTTCAC
Found at i:90039131 original size:46 final size:45
Alignment explanation
Indices: 90039038--90039123 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
90039028 TACATTTCAC
* *
90039038 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* *
90039084 GAACTCGGACTCAACTCAATGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
90039124 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:90039569 original size:30 final size:30
Alignment explanation
Indices: 90039535--90039594 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
90039525 ATTTAATACG
90039535 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
90039565 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
90039595 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:90047136 original size:38 final size:38
Alignment explanation
Indices: 90047045--90047159 Score: 131
Period size: 38 Copynumber: 3.0 Consensus size: 38
90047035 AAATCCAGTC
* * * *
90047045 ACCAGCACAAAGCCTGCAGGACTTTAAGCTCGGATATAAT
1 ACCAGCACAAAGCCTACGGGA-TTTAA-CCCGGATATATT
* *
90047085 ACTAGCACGAAGCCTACGGGATTTAACCCGGATATATT
1 ACCAGCACAAAGCCTACGGGATTTAACCCGGATATATT
* * *
90047123 ACCAGCATAAAGCCGACGGGACTTAACCCGGATATAT
1 ACCAGCACAAAGCCTACGGGATTTAACCCGGATATAT
90047160 ATCGAGTGCT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 42 0.66
39 5 0.08
40 17 0.27
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (38 bp):
ACCAGCACAAAGCCTACGGGATTTAACCCGGATATATT
Found at i:90058038 original size:19 final size:18
Alignment explanation
Indices: 90058014--90058068 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
90058004 CTCCTTTCTT
90058014 CTTCTCTTTTCCTCTTTCC
1 CTTCTCTTTTCCT-TTTCC
*
90058033 CTTCTCTCCTTT-CTTTTTC
1 CTTCTCT--TTTCCTTTTCC
90058052 CTTCT-TTTTCCTTTTCC
1 CTTCTCTTTTCCTTTTCC
90058069 ACCACAGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 3 0.10
17 6 0.19
18 1 0.03
19 16 0.52
20 2 0.06
21 3 0.10
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (18 bp):
CTTCTCTTTTCCTTTTCC
Found at i:90059804 original size:18 final size:18
Alignment explanation
Indices: 90059759--90059804 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
90059749 TTTTCATTTT
*
90059759 TTTAT-TTTTTATTTTTA
1 TTTATCTTTTTATCTTTA
*
90059776 TTT-TCCCTTTTATCTTTA
1 TTTAT-CTTTTTATCTTTA
90059794 TTTATCTTTTT
1 TTTATCTTTTT
90059805 TATGTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
16 1 0.04
17 3 0.13
18 18 0.78
19 1 0.04
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATCTTTTTATCTTTA
Found at i:90075677 original size:23 final size:23
Alignment explanation
Indices: 90075632--90075743 Score: 113
Period size: 23 Copynumber: 4.9 Consensus size: 23
90075622 TCGGGTTGTC
* *
90075632 ACAGTAAGCTCTATTAAGTTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
*
90075655 ACGGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
** * *
90075678 TGA-TAAGCTATAATGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
90075700 ACAGTAAGCTCT-TATGAGCTGAA
1 ACAGTAAGCTCTAT-TGAGCTGAA
*
90075723 TCAGTAAGCTC-ATATGAGCTG
1 ACAGTAAGCTCTAT-TGAGCTG
90075744 TGGTGAGTCC
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.25
23 55 0.75
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:90075701 original size:45 final size:46
Alignment explanation
Indices: 90075633--90075743 Score: 131
Period size: 45 Copynumber: 2.4 Consensus size: 46
90075623 CGGGTTGTCA
* * *
90075633 CAGTAAGCTC-TATTAAGTTGAAACGGTAAGCTC-TATTGAGCTGAAT
1 CAGTAAGCTCATA-TGAGCTGAAACAGTAAGCTCTTA-TGAGCTGAAT
*
90075679 GA-TAAGCT-ATAATGAGCTGAAACAGTAAGCTCTTATGAGCTGAAT
1 CAGTAAGCTCAT-ATGAGCTGAAACAGTAAGCTCTTATGAGCTGAAT
90075724 CAGTAAGCTCATATGAGCTG
1 CAGTAAGCTCATATGAGCTG
90075744 TGGTGAGTCC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
45 35 0.64
46 18 0.33
47 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
CAGTAAGCTCATATGAGCTGAAACAGTAAGCTCTTATGAGCTGAAT
Found at i:90079690 original size:21 final size:21
Alignment explanation
Indices: 90079662--90079717 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
90079652 CAAAACTTGT
90079662 ATAA-CTATCATCAAATATTC
1 ATAATCTATCATCAAATATTC
90079682 ATAATCTATCATCAAATATTC
1 ATAATCTATCATCAAATATTC
*
90079703 ATAATTTATCATCAA
1 ATAATCTATCATCAA
90079718 TCACTCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATCTATCATCAAATATTC
Found at i:90092295 original size:36 final size:34
Alignment explanation
Indices: 90092206--90092296 Score: 103
Period size: 34 Copynumber: 2.6 Consensus size: 34
90092196 TTACATATTG
* * *
90092206 TACTGGAATGGGTTAAGGCCCAGACTGCCTCTAT
1 TACTGAAATGGGCTAAGGCCCAGACTGCATCTAT
* *
90092240 TACTGAAATGGGCTCAGGCCCAGACTG-ATACTGT
1 TACTGAAATGGGCTAAGGCCCAGACTGCAT-CTAT
90092274 TACTGAAAAATGGGCTAAGGCCC
1 TACTG--AAATGGGCTAAGGCCC
90092297 TAACTGGAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 1 0.02
34 32 0.67
36 15 0.31
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACTGCATCTAT
Found at i:90093231 original size:127 final size:126
Alignment explanation
Indices: 90093006--90093237 Score: 347
Period size: 127 Copynumber: 1.8 Consensus size: 126
90092996 TTCATGCATT
* * * * *
90093006 GAAATTTTAAAAGGATGTTTGGTTATTTGGTCAACGGAAAATCGAAACCCAGCACGTTAGGGCAC
1 GAAATTTTAAAAGGATATTTAGTTATTCGGTCAACAGAAAATCAAAACCCAGCACGTTAGGGCAC
90093071 GATTTCTCGAATTTCCAAACACGAAACATTGCCTTGTTTTTTAATTTAAGAAAACATGAAC
66 GATTTCTCGAATTTCCAAACACGAAACATTGCCTTGTTTTTTAATTTAAGAAAACATGAAC
* * *
90093132 GAAATTTTGAAAGGCTATTTAGTTGTTCGGTCAAACAGAAAATCAAAACCCAGCACGTTAGGGCA
1 GAAATTTTAAAAGGATATTTAGTTATTCGGTC-AACAGAAAATCAAAACCCAGCACGTTAGGGCA
* * * *
90093197 CGATTTTTCGAATTTCTAAATACGAAATATTGCCTTGTTTT
65 CGATTTCTCGAATTTCCAAACACGAAACATTGCCTTGTTTT
90093238 GAAAAACTTT
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
126 26 0.28
127 67 0.72
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (126 bp):
GAAATTTTAAAAGGATATTTAGTTATTCGGTCAACAGAAAATCAAAACCCAGCACGTTAGGGCAC
GATTTCTCGAATTTCCAAACACGAAACATTGCCTTGTTTTTTAATTTAAGAAAACATGAAC
Found at i:90093968 original size:30 final size:29
Alignment explanation
Indices: 90093933--90093989 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
90093923 TTATATATAA
90093933 ATTTAAAAGAAAATATATAAATATAAATTG
1 ATTTAAAAGAAAATATATAAATA-AAATTG
*
90093963 ATTTAAAAGAAAATATATACATAAAAT
1 ATTTAAAAGAAAATATATAAATAAAAT
90093990 AATATGCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (29 bp):
ATTTAAAAGAAAATATATAAATAAAATTG
Found at i:90096070 original size:133 final size:133
Alignment explanation
Indices: 90095929--90096220 Score: 408
Period size: 133 Copynumber: 2.2 Consensus size: 133
90095919 AGCTTGCTCC
*
90095929 CTTGCTACCTCAAGGAAATAAGACTAGTGGCTAAAATCTACTCCCCTGCTACCTCGGCAAGATAA
1 CTTGCTACCTCAAGGAAATAAGACTAGTGGCTAAAATCTACTCCCCTGCTACCTCGGCAAAATAA
90095994 GATTCGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTAT
66 GATTCGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTAT
90096059 TCT
131 TCT
* * * * * * *
90096062 CTTGCTACCT-TAGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTGCTACCTCGGGAAAATA
1 CTTGCTACCTCAAG-GAAATAAGACTAGTGGCTAAAATCTACTCCCCTGCTACCTCGGCAAAATA
* * * * * **
90096126 AGATTTGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTACAATCTTCAGTCTA
65 AGATTCGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTA
*
90096191 TTTT
130 TTCT
90096195 CTTGCTACCTCAA-GAAGATAAGACTA
1 CTTGCTACCTCAAGGAA-ATAAGACTA
90096221 TAATCTTCAG
Statistics
Matches: 136, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
132 4 0.03
133 131 0.96
134 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (133 bp):
CTTGCTACCTCAAGGAAATAAGACTAGTGGCTAAAATCTACTCCCCTGCTACCTCGGCAAAATAA
GATTCGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTAT
TCT
Found at i:90096258 original size:44 final size:45
Alignment explanation
Indices: 90096158--90096260 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
90096148 TCCACTACTG
* * * **
90096158 CTTAGGGAGATAATATCTACAATCTTCAGTCTATTTTCTTGCTAC
1 CTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCCTTGCTAC
* * * *
90096203 CTCAAGAAGATAAGA-CTATAATCTTCAGCCTACTCCCTTGCTAC
1 CTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCCTTGCTAC
90096247 CTTAGGGAGATAAG
1 CTTAGGGAGATAAG
90096261 GCTAGTGGCT
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
44 35 0.76
45 11 0.24
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (45 bp):
CTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCCTTGCTAC
Found at i:90096260 original size:133 final size:132
Alignment explanation
Indices: 90095929--90096260 Score: 339
Period size: 133 Copynumber: 2.5 Consensus size: 132
90095919 AGCTTGCTCC
* * * *
90095929 CTTGCTACCTCAAG-GAAATAAGACT-AGTGGCTAAAATCTACTCCCCTGCTACCTCGGCAAGAT
1 CTTGCTACCT-AAGAGAGATAAGACTGA-TAGCTAAAACCTACTCCCCTGCTACCTCGG-GAGAT
90095992 AAGATTCGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCT
63 AAGATTCGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCT
90096057 ATTCT
128 ATTCT
* * * * ** * *
90096062 CTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTGCTACCTCGGGAAAATAA
1 CTTGCTACCTAAGAGAGATAAGACTGATAGCTAAAACCTACTCCCCTGCTACCTCGGG-AGATAA
* * * * * **
90096127 GATTTGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTACAATCTTCAGTCTAT
65 GATTCGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTAT
*
90096192 TTT
130 TCT
* ** * * *
90096195 CTTGCTACCTCAAGA-AGATAAGACT-ATAATCTTCAGCCTACTCCCTTGCTACCTTAGGGAGAT
1 CTTGCTACCT-AAGAGAGATAAGACTGAT-AGCTAAAACCTACTCCCCTGCTACC-TCGGGAGAT
90096258 AAG
63 AAG
90096261 GCTAGTGGCT
Statistics
Matches: 163, Mismatches: 30, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
132 3 0.02
133 153 0.94
134 7 0.04
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (132 bp):
CTTGCTACCTAAGAGAGATAAGACTGATAGCTAAAACCTACTCCCCTGCTACCTCGGGAGATAAG
ATTCGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTATT
CT
Found at i:90096282 original size:310 final size:310
Alignment explanation
Indices: 90095763--90096336 Score: 839
Period size: 310 Copynumber: 1.9 Consensus size: 310
90095753 CTGCAACTTC
** * * *
90095763 AGAGAGATAAGGCTGGTGGCTTCAATCTGCTTCCTTGCTACCTTGGGAAGAAAAGATTTGCCATC
1 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGAAAAGATTTGCCATC
* * *
90095828 TTCGATCTGCTCCACTACTGCTTAGGGAGATCAGATTTACAATCTTCGGTCTATTCCCTTTGTAC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGTCTATTCCCTTTGTAC
* * * * *
90095893 CTCAGGAAGATAAGGCTACAATGTTCAGCTTGCTCCCTTGCTACCTCAAGGAAATAAGACTAGTG
131 CTCAAGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCTCAAGGAAATAAGACTAGTG
*
90095958 GCTAAAATCTACTCCCCTGCTACCT-CGGCAAGATAAGATTCGCCATCTTCGATCCGCTCCACTA
196 GCTAAAATCTACTCCCCTGCTACCTCCGG-AAGATAAGATTCGCCATCTCCGATCCGCTCCACTA
90096022 CTGCTTAGGGAGATAAGATCTACAAACTTCAACCTATTCTCTTGCTACCTT
260 CTGCTTAGGGAGATAAGATCTACAAACTTCAACCTATTCTCTTGCTACCTT
* * *
90096073 AGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTGCTACCTCGGGAA-AATAAGATTTGTCAT
1 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGAA-AAGATTTGCCAT
* **
90096137 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTACAATCTTCAGTCTATTTTC-TTGCT
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGTCTATTCCCTTTG-T
* * * * *
90096201 ACCTCAAGAAGATAAGACTATAATCTTCAGCCTACTCCCTTGCTACCTTAGGGAGATAAGGCTAG
129 ACCTCAAGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCTCAAGGAAATAAGACTAG
* * *
90096266 TGGCTAAAATCTACTCCGCTGCTACCTCCGGAAGATAAGATTCGCCATCTCCGATCTGCTTCACT
194 TGGCTAAAATCTACTCCCCTGCTACCTCCGGAAGATAAGATTCGCCATCTCCGATCCGCTCCACT
*
90096331 GCTGCT
259 ACTGCT
90096337 ATCTCTACAA
Statistics
Matches: 232, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
309 5 0.02
310 224 0.97
311 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (310 bp):
AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGAAAAGATTTGCCATC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGTCTATTCCCTTTGTAC
CTCAAGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCTCAAGGAAATAAGACTAGTG
GCTAAAATCTACTCCCCTGCTACCTCCGGAAGATAAGATTCGCCATCTCCGATCCGCTCCACTAC
TGCTTAGGGAGATAAGATCTACAAACTTCAACCTATTCTCTTGCTACCTT
Found at i:90102428 original size:39 final size:39
Alignment explanation
Indices: 90102374--90102561 Score: 333
Period size: 39 Copynumber: 4.8 Consensus size: 39
90102364 TGTTCGGGTA
*
90102374 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
90102413 ATATCCGGGCTAAGCCCGAAGGCAACTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
90102452 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
90102491 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
90102530 ATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
90102562 GGCTACCATA
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 135 0.94
40 9 0.06
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:90102577 original size:78 final size:78
Alignment explanation
Indices: 90102374--90102592 Score: 278
Period size: 78 Copynumber: 2.8 Consensus size: 78
90102364 TGTTCGGGTA
* * *** *
90102374 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAC
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAC
90102439 TGTGCGAGTTGTG
66 TGTGCGAGTTGTG
* *** * *
90102452 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAC
90102517 TGTGCGAGTTGTG
66 TGTGCGAGTTGTG
* * *
90102530 ATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCGGGCTACCATAACCGGGCTATGTCCCGAAGGC
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAG-CCCGAAGGC
90102593 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
78 111 0.86
79 18 0.14
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAC
TGTGCGAGTTGTG
Found at i:90102580 original size:117 final size:118
Alignment explanation
Indices: 90102374--90102592 Score: 325
Period size: 117 Copynumber: 1.9 Consensus size: 118
90102364 TGTTCGGGTA
90102374 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAC
1 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAC
* *** *
90102439 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTG
66 TGTGCGAGCTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTGTG
* *
90102491 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC-A
1 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAA
* * *
90102555 TTGTGCGGGCTACCATAACCGGGCTATGTCCCGAAGGC
65 CTGTGCGAGCTACCATAACCGGGCTAAGTCCCGAAGGC
90102593 GTTTGAACGA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
117 72 0.80
118 18 0.20
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (118 bp):
ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAC
TGTGCGAGCTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:90102613 original size:79 final size:78
Alignment explanation
Indices: 90102374--90102620 Score: 230
Period size: 78 Copynumber: 3.2 Consensus size: 78
90102364 TGTTCGGGTA
* * * *** * *
90102374 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAC
1 ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAT
** *
90102439 TGTGCGAGTTGTG
66 TGAACGAGTAGTG
* * *** *
90102452 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAT
** *
90102517 TGTGCGAGTTGTG
66 TGAACGAGTAGTG
* * *
90102530 ATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCGGGCTACCATAACCGGGCTATGTCCCGAAGGCG
1 ATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAG-CCCGAAGGCA
*
90102594 TTTGAACGAGTAGCT-
64 ATTGAACGAGTAG-TG
90102609 ATATCC-GGTTAA
1 ATATCCGGGTTAA
90102621 ACTTCGAAGG
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
78 117 0.77
79 33 0.22
80 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAT
TGAACGAGTAGTG
Found at i:90110102 original size:39 final size:39
Alignment explanation
Indices: 90110048--90110157 Score: 195
Period size: 39 Copynumber: 2.8 Consensus size: 39
90110038 TGTTCGGGTA
90110048 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
90110087 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
90110126 ATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
90110158 GGCTACCATA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
39 60 0.87
40 9 0.13
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:90110209 original size:79 final size:78
Alignment explanation
Indices: 90110048--90110226 Score: 175
Period size: 78 Copynumber: 2.3 Consensus size: 78
90110038 TGTTCGGGTA
* * *** *
90110048 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAT
** *
90110113 TGTGCGAGTTGTG
66 TGAACGAGTAGTG
* * *
90110126 ATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCGGGCTACCATAACCGGGCTATGTCCCGAAGGCG
1 ATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAG-CCCGAAGGCA
*
90110190 TTTGAACGAGTAGCT-
64 ATTGAACGAGTAG-TG
*
90110205 ATATCC-GGTTAAACTCCGAAGG
1 ATATCCGGGTTAAGC-CCGAAGG
90110227 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
77 1 0.01
78 48 0.58
79 33 0.40
80 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAT
TGAACGAGTAGTG
Found at i:90118057 original size:41 final size:41
Alignment explanation
Indices: 90118012--90118129 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
90118002 TGAAAGATAA
90118012 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
90118053 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
90118083 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
90118124 ATGTAG
1 ATGTAG
90118130 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:90118068 original size:71 final size:71
Alignment explanation
Indices: 90117980--90118143 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
90117970 GAGATGTATC
90117980 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
90118045 AGGACA
66 AGGACA
90118051 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
90118116 AGGACA
66 AGGACA
90118122 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
90118144 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:90120856 original size:39 final size:39
Alignment explanation
Indices: 90120780--90120927 Score: 246
Period size: 39 Copynumber: 3.8 Consensus size: 39
90120770 TGTTCGGGTA
90120780 ATATCCGGGCTAAGCCCGAAGG-AATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
90120818 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
90120857 ATATCCGGGCTAAGCCCGAAGGCAATTATGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
90120896 ATATACGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
90120928 GGCTACCATA
Statistics
Matches: 104, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
38 22 0.21
39 73 0.70
40 9 0.09
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:90120943 original size:78 final size:77
Alignment explanation
Indices: 90120784--90120946 Score: 220
Period size: 78 Copynumber: 2.1 Consensus size: 77
90120774 CGGGTAATAT
* *
90120784 CCGGGCTAAGCCCGAAGGAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC
1 CCGGGCTAAGCCCGAAGGAATTATGCGAGTTGTGATATACGGGCTAAGCCCGAAGGCAATTGTGC
* *** *
90120849 GAGTTGTGATAT
66 GAGCTACCATAA
*
90120861 CCGGGCTAAGCCCGAAGGCAATTATGCGAGTTGTGATATACGGGTTAAGTCCCGAAGGC-ATTGT
1 CCGGGCTAAGCCCGAAGG-AATTATGCGAGTTGTGATATACGGGCTAAG-CCCGAAGGCAATTGT
*
90120925 GCGGGCTACCATAA
64 GCGAGCTACCATAA
90120939 CCGGGCTA
1 CCGGGCTA
90120947 TGTCCCAAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
77 18 0.24
78 48 0.64
79 9 0.12
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGAATTATGCGAGTTGTGATATACGGGCTAAGCCCGAAGGCAATTGTGC
GAGCTACCATAA
Found at i:90128838 original size:39 final size:39
Alignment explanation
Indices: 90128784--90128893 Score: 195
Period size: 39 Copynumber: 2.8 Consensus size: 39
90128774 TGTTCGGGTA
90128784 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
90128823 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
90128862 ATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
90128894 GGCTACCATA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
39 60 0.87
40 9 0.13
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:90128936 original size:79 final size:78
Alignment explanation
Indices: 90128784--90128962 Score: 184
Period size: 78 Copynumber: 2.3 Consensus size: 78
90128774 TGTTCGGGTA
* * *** *
90128784 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAT
** *
90128849 TGTGCGAGTTG-T
66 TGAACGAGTAGCT
* *
90128861 GATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCGGGCTACCATAACCGGGCTATGTCCCGAAGGC
1 -ATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAG-CCCGAAGGC
*
90128925 ATTTGAACGAGTAGCT
63 AATTGAACGAGTAGCT
*
90128941 ATATCC-GGTTAAACTCCGAAGG
1 ATATCCGGGTTAAGC-CCGAAGG
90128963 TACGTGATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
77 1 0.01
78 48 0.57
79 34 0.40
80 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (78 bp):
ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGCCCGAAGGCAAT
TGAACGAGTAGCT
Found at i:90132656 original size:30 final size:30
Alignment explanation
Indices: 90132607--90132679 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
90132597 CTTAAAAGAG
* *
90132607 ATAAATTATATATAGATTTAAAAGAGAATAT
1 ATAAA-TATAAATAGATTTAAAAGAAAATAT
*
90132638 ATAAATATAAATTGATTTAAAAGAAAATAT
1 ATAAATATAAATAGATTTAAAAGAAAATAT
*
90132668 ATACATA-AAATA
1 ATAAATATAAATA
90132680 ATATGCAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.11
30 28 0.76
31 5 0.14
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (30 bp):
ATAAATATAAATAGATTTAAAAGAAAATAT
Found at i:90134361 original size:33 final size:33
Alignment explanation
Indices: 90134319--90134387 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
90134309 TCAAGAAAGC
90134319 ACAAACCAATGTTTTTCTGAAATCATCATGCTT
1 ACAAACCAATGTTTTTCTGAAATCATCATGCTT
90134352 ACAAACCAATGTTTTTCTGAAATCATCATGCTT
1 ACAAACCAATGTTTTTCTGAAATCATCATGCTT
90134385 ACA
1 ACA
90134388 CCATATGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (33 bp):
ACAAACCAATGTTTTTCTGAAATCATCATGCTT
Found at i:90137946 original size:55 final size:54
Alignment explanation
Indices: 90137859--90138112 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
90137849 ATTAGGGTTT
*
90137859 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
90137914 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
90137969 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
90138022 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTT-TAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
90138071 AAGGATACCACGTAAGACCATGACAAGTCATGG-AA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
90138113 GTACCCGCGT
Statistics
Matches: 169, Mismatches: 23, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
48 9 0.05
49 30 0.18
52 8 0.05
53 40 0.24
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:90138065 original size:108 final size:110
Alignment explanation
Indices: 90137866--90138066 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
90137856 TTTAAGGATA
* *
90137866 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
90137931 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
90137976 CCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
90138038 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
90138067 TTAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 6 0.07
110 27 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:90138325 original size:16 final size:16
Alignment explanation
Indices: 90138304--90138334 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90138294 ATAAACTTGA
90138304 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
90138320 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
90138335 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:90141174 original size:66 final size:68
Alignment explanation
Indices: 90141045--90141174 Score: 183
Period size: 66 Copynumber: 1.9 Consensus size: 68
90141035 GGGATGTATC
* *
90141045 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTGA
90141110 AGGACA
63 AGGACA
* *
90141116 CCATGTAGACAAGAGAGCTAC-GAGATAAAT-CAGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTG
90141175 TTCACCATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
66 25 0.45
67 9 0.16
71 21 0.38
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTGAAGG
ACA
Found at i:90144092 original size:40 final size:40
Alignment explanation
Indices: 90144013--90144176 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
90144003 CGGATGATAA
* * * *
90144013 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
90144053 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
90144093 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
90144133 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
90144173 CCGG
1 CCGG
90144177 CTATATCCCG
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 102 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:90157762 original size:53 final size:53
Alignment explanation
Indices: 90157582--90157786 Score: 197
Period size: 53 Copynumber: 3.8 Consensus size: 53
90157572 ATTAGGGTTT
* * *
90157582 AAGGATACCAAT-TAAGACTATGCCAAGGCATGGCAATTGGTAAGATTTC-TAAGAC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGC-ATTGGTAAG--TTCATAAGGC
* * *
90157637 AA--A-ATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
90157689 AAAGG-TCCCATGTAAAACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
90157742 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
90157787 TTAAAAGGCT
Statistics
Matches: 122, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
49 2 0.02
50 1 0.01
51 10 0.08
52 30 0.25
53 44 0.36
54 1 0.01
55 34 0.28
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:90158046 original size:16 final size:16
Alignment explanation
Indices: 90158025--90158055 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90158015 ATAAATTTGA
90158025 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
90158041 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
90158056 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:90165098 original size:30 final size:29
Alignment explanation
Indices: 90165004--90165105 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
90164994 TATAGTGAAT
* * *
90165004 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
90165033 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
90165061 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
90165091 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
90165106 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:90173835 original size:30 final size:28
Alignment explanation
Indices: 90173799--90173897 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
90173789 GACAAGATTG
* *
90173799 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
90173829 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * * *
90173857 GCACTAAGTGTGCGAGCTGAA-AATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
90173884 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90173898 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.31
28 24 0.39
30 18 0.30
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:90173868 original size:28 final size:28
Alignment explanation
Indices: 90173799--90173897 Score: 110
Period size: 27 Copynumber: 3.5 Consensus size: 28
90173789 GACAAGATTG
* * * *
90173799 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
90173829 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* **
90173857 GCACTAAGTGTGCGAG-CTGAAAATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
90173884 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90173898 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 18 0.29
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:90181776 original size:28 final size:28
Alignment explanation
Indices: 90181707--90181807 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
90181697 GACAAGATTG
* * * *
90181707 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
90181737 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
90181765 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
90181794 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90181808 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:90183334 original size:27 final size:29
Alignment explanation
Indices: 90183304--90183362 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
90183294 ATACAAGAGC
*
90183304 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
90183331 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
90183360 ATA
1 ATA
90183363 GAATCAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.12
29 18 0.69
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:90199487 original size:27 final size:27
Alignment explanation
Indices: 90199457--90199515 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
90199447 CCTTAGGGGC
* *
90199457 ATTTTGATAATTTTACAAGTCGAGGGT
1 ATTTCGATAATTGTACAAGTCGAGGGT
* *
90199484 ATTTCGGTAATTGTACAGGTCGAGGGT
1 ATTTCGATAATTGTACAAGTCGAGGGT
90199511 ATTTC
1 ATTTC
90199516 AGTAATTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (27 bp):
ATTTCGATAATTGTACAAGTCGAGGGT
Found at i:90199520 original size:27 final size:27
Alignment explanation
Indices: 90199464--90199522 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
90199454 GGCATTTTGA
* *
90199464 TAATTTTACAAGTCGAGGGTATTTCGG
1 TAATTGTACAAGTCGAGGGTATTTCAG
*
90199491 TAATTGTACAGGTCGAGGGTATTTCAG
1 TAATTGTACAAGTCGAGGGTATTTCAG
90199518 TAATT
1 TAATT
90199523 TCACAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (27 bp):
TAATTGTACAAGTCGAGGGTATTTCAG
Found at i:90199930 original size:29 final size:29
Alignment explanation
Indices: 90199866--90199935 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
90199856 GCCCACTAGG
* *
90199866 CCGAATCTCATTCATATGACCCATTAGGC
1 CCGAATCACATTCATATGACCCATTAGAC
* * *
90199895 CCAAATCACATTTATATGGCCCATCT-GAC
1 CCGAATCACATTCATATGACCCAT-TAGAC
90199924 CCGAATCA-ATTC
1 CCGAATCACATTC
90199936 CAAGCCATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.09
29 29 0.88
30 1 0.03
ACGTcount: A:0.30, C:0.31, G:0.11, T:0.27
Consensus pattern (29 bp):
CCGAATCACATTCATATGACCCATTAGAC
Found at i:90205567 original size:40 final size:41
Alignment explanation
Indices: 90205522--90205688 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
90205512 CGGAATATAA
*
90205522 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
90205562 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
90205602 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
90205642 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
90205681 CCGGATAT
1 CCGGATAT
90205689 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90206535 original size:17 final size:19
Alignment explanation
Indices: 90206512--90206557 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
90206502 AAGAAGCATG
90206512 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
90206530 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
90206548 AATCATGCTC
1 AATCATGCTC
90206558 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:90213575 original size:40 final size:40
Alignment explanation
Indices: 90213530--90213696 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
90213520 CGGAATATAA
90213530 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
90213570 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
90213610 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
90213650 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
90213689 CCGGATAT
1 CCGGATAT
90213697 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90214540 original size:17 final size:19
Alignment explanation
Indices: 90214517--90214562 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
90214507 AAGAAGCATG
90214517 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
90214535 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
90214553 AATCATGCTC
1 AATCATGCTC
90214563 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:90223750 original size:40 final size:40
Alignment explanation
Indices: 90223705--90223872 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
90223695 CGGAATATAA
*
90223705 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
90223745 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
90223785 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
90223825 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
90223865 CCGGATAT
1 CCGGATAT
90223873 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 104 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90223855 original size:80 final size:80
Alignment explanation
Indices: 90223721--90223872 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
90223711 ATAACCATGT
* *
90223721 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
90223786 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
90223801 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
90223864 CCCGGATAT
64 CCCGGATAT
90223873 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:90226227 original size:3 final size:3
Alignment explanation
Indices: 90226219--90226253 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
90226209 AAATCATTTA
90226219 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
90226254 AAGATCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90229356 original size:25 final size:26
Alignment explanation
Indices: 90229319--90229370 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
90229309 GTCAACATGC
90229319 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
90229345 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
90229370 A
1 A
90229371 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:90230877 original size:26 final size:26
Alignment explanation
Indices: 90230841--90230950 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
90230831 ACATGAATTC
90230841 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90230867 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
90230893 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
90230919 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90230945 TTATCA
1 TTATCA
90230951 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90235126 original size:25 final size:26
Alignment explanation
Indices: 90235089--90235140 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
90235079 TCAAACATGC
90235089 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
90235115 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
90235140 A
1 A
90235141 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:90236648 original size:26 final size:26
Alignment explanation
Indices: 90236612--90236721 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
90236602 ACATGAATTC
90236612 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90236638 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
90236664 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
90236690 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90236716 TTATCA
1 TTATCA
90236722 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Done.