Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 189 of 211
Found at i:58480492 original size:95 final size:95
Alignment explanation
Indices: 58480183--58480522 Score: 385
Period size: 96 Copynumber: 3.6 Consensus size: 95
58480173 AGTAACCCTA
* * *
58480183 AACCCTTAAACCCTAATTTATTTGAGTTTTTCCTTAAAACC-----C-CTAAACCCTAATCTAAT
1 AACCC-TAAACCCTAATTTATTTAATTTTTTCCTTAAAACCATAAACACAAAACCCTAATCTAA-
58480242 TTTTTTAAAATTTATAATTAATTTACTCAAGT
64 TTTTTTAAAATTTATAATTAATTTACTCAAGT
* * * *
58480274 AACCCTAAGCCCTAATTTATTTAATTTTTT-CTTAAAAACCCTTAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTAATTTTTTCCTT-AAAACCATAAACACAAAACCCTAATCTAAT
58480338 TTTTTAAAAATTTATAATTAATTTACTCAAGT
65 TTTTT-AAAATTTATAATTAATTTACTCAAGT
* * *
58480370 AACCCTAAACTCTAATTTAATTGATTTTTTCCTTAAAACCATAAACACAAAACCCTAATCTAA-T
1 AACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAACCATAAACACAAAACCCTAATCTAATT
* * * * *
58480434 TTTGAAATTTTTATAATTAATTTAATTAAGA
66 TTTTAAA-ATTTATAATTAATTTACTCAAGT
* * *
58480465 AACCCTAATCCCTTATTTATTTAATTTTTTCTTTAAAATCCA-AAATC-CAAAACCCTAA
1 AACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAA-CCATAAA-CACAAAACCCTAA
58480523 CCCTAACGCA
Statistics
Matches: 216, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
89 3 0.01
90 28 0.13
91 5 0.02
94 3 0.01
95 76 0.35
96 98 0.45
97 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAACCATAAACACAAAACCCTAATCTAATT
TTTTAAAATTTATAATTAATTTACTCAAGT
Found at i:58481645 original size:18 final size:18
Alignment explanation
Indices: 58481615--58481649 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
58481605 CATATTAACA
58481615 ATAAATAATTTAAAAATC
1 ATAAATAATTTAAAAATC
58481633 ATAAA-AATATTAAAAAT
1 ATAAATAAT-TTAAAAAT
58481650 TTAAAAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATAATTTAAAAATC
Found at i:58481663 original size:27 final size:26
Alignment explanation
Indices: 58481616--58481677 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
58481606 ATATTAACAA
58481616 TAAATAATTTAAAAATCATAAAAATAT
1 TAAA-AATTTAAAAATCATAAAAATAT
*
58481643 TAAAAATTTAAAAGCAT-ATAAAAATTT
1 TAAAAATTTAAAA--ATCATAAAAATAT
58481670 TATAAAAT
1 TA-AAAAT
58481678 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 9 0.29
27 15 0.48
28 7 0.23
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (26 bp):
TAAAAATTTAAAAATCATAAAAATAT
Found at i:58487499 original size:24 final size:24
Alignment explanation
Indices: 58487472--58487518 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
58487462 AACAAATTTT
58487472 TTTGTCTTTTGACACGCTTTTCTC
1 TTTGTCTTTTGACACGCTTTTCTC
58487496 TTTGTCTTTTGACACGCTTTTCT
1 TTTGTCTTTTGACACGCTTTTCT
58487519 GCTCTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.09, C:0.23, G:0.13, T:0.55
Consensus pattern (24 bp):
TTTGTCTTTTGACACGCTTTTCTC
Found at i:58489218 original size:41 final size:41
Alignment explanation
Indices: 58489164--58489277 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
58489154 TTAATTAAAA
* * *
58489164 CAGATTCAACGGCACATAGCCTGTTAGACTTATAGCCTGATT
1 CAGA-TCACCGGCACATAGCCTGCTAGACTTATAACCTGATT
**
58489206 CAGATCACCGGCACATAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACATAGCCTGCTAGACTTATAACCTGATT
*
58489247 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACATAGCCTGCTAGACTTA
58489278 AAGTCTGAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 60 0.94
42 4 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACATAGCCTGCTAGACTTATAACCTGATT
Found at i:58489983 original size:12 final size:12
Alignment explanation
Indices: 58489938--58489990 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
58489928 AATAACTTTT
**
58489938 ATATATATATGT
1 ATATATATATAC
*
58489950 ATATATATTCTAGC
1 ATATATA-TATA-C
58489964 ATTATATATATAC
1 A-TATATATATAC
58489977 ATATATATATAC
1 ATATATATATAC
58489989 AT
1 AT
58489991 GCTTATTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 20 0.59
13 4 0.12
14 4 0.12
15 6 0.18
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (12 bp):
ATATATATATAC
Found at i:58497178 original size:18 final size:18
Alignment explanation
Indices: 58497155--58497194 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
58497145 GCCCTCAGCA
58497155 TCTTCTCCTACATTTCCT
1 TCTTCTCCTACATTTCCT
*
58497173 TCTTCTCCTACGTTTCCT
1 TCTTCTCCTACATTTCCT
58497191 TCTT
1 TCTT
58497195 TTCCAAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.38, G:0.03, T:0.53
Consensus pattern (18 bp):
TCTTCTCCTACATTTCCT
Found at i:58500094 original size:17 final size:18
Alignment explanation
Indices: 58500069--58500113 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
58500059 TATAAGAATA
*
58500069 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
58500086 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
58500104 ATTAAATTAT
1 ATTAAATTAT
58500114 GTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:58500232 original size:120 final size:120
Alignment explanation
Indices: 58500017--58500375 Score: 659
Period size: 120 Copynumber: 3.0 Consensus size: 120
58500007 GAAATAAAAT
*
58500017 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
58500080 AATTTTATTAAATTATATATTTTTATTAAATTATGTTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
58500135 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
58500200 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATAATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
58500255 ATTATATTTTATAGTATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
58500320 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
58500375 A
1 A
58500376 ATATGATTAA
Statistics
Matches: 233, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
118 5 0.02
119 49 0.21
120 179 0.77
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:58501239 original size:22 final size:23
Alignment explanation
Indices: 58501190--58501239 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
58501180 ACAAGAAATC
* *
58501190 ATTTCTCTCAATTTCTCTCTAAT
1 ATTTCTCTCAAATTCTCTCTAAA
58501213 A-TTCTCTCAAATTC-CTCTAAA
1 ATTTCTCTCAAATTCTCTCTAAA
58501234 ATTTCT
1 ATTTCT
58501240 ATTTAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 16 0.67
23 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTCTCTCAAATTCTCTCTAAA
Found at i:58508347 original size:49 final size:49
Alignment explanation
Indices: 58508293--58508411 Score: 220
Period size: 49 Copynumber: 2.4 Consensus size: 49
58508283 TTATATTAAC
*
58508293 GTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTGAT
1 GTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCAT
58508342 GTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCAT
1 GTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCAT
*
58508391 TTAATAAAATACAAAATAGTT
1 GTAATAAAATACAAAATAGTT
58508412 AATATTCTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (49 bp):
GTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCAT
Found at i:58511809 original size:125 final size:124
Alignment explanation
Indices: 58511548--58511834 Score: 466
Period size: 125 Copynumber: 2.3 Consensus size: 124
58511538 CCCAAACATG
* * * * * *
58511548 CTACTGTAACAAAAACGCGTTCACATGGAAGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
58511613 TTGAAGCGTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCATGAC
66 TTGAAGCGTTTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
58511672 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
58511737 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCG-TTTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* *
58511797 CTATTGTAGCAAAAGCGCGTCCACGTAGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
58511835 CTTAAAAAAA
Statistics
Matches: 151, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
124 67 0.44
125 84 0.56
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
Found at i:58513759 original size:197 final size:194
Alignment explanation
Indices: 58513346--58513905 Score: 609
Period size: 193 Copynumber: 2.9 Consensus size: 194
58513336 TAGCGATCTG
* * * *
58513346 TAAACTCAGCTTAGTCTGTTTGTTGTTTTTGACGAGGGTGAAAAGTAAATACTATTCAGATTTAT
1 TAAACTCAGTTTAGTCTGCTTG-TGTTTTTGATGAGGGTGAAAAGTAAATACCATTCAGATTTAT
* *
58513411 CTCTATGATGAATTTATCA-TATGTTCATAACACTATACAGTTAGTGGTGAGCTTTGTATTTTCT
65 CTCTATGATGAA-TTATCATTA-GTTCATAACAC-ATA-AATTAGTGGTGAGCTTTGCATTTTCT
* * * *
58513475 GAATGATTCTGCTATGTTA-T--AAAGTTCACTAATTGCTATACAGATTTAGCTTCGCTAGCTGA
126 GAATGATTCTGATATGTTATTGAAAAGTTCACTCATTGCCATACAGATTTAACTTCGCTAGCTGA
58513537 TCCT
191 TCCT
*
58513541 TAAACTCAGCTTT-GTCTGCTTGTCGTTTTTGATGAGGGTGAAAAGTAGATACCATTCAGATTTA
1 TAAACTCAG-TTTAGTCTGCTTGT-GTTTTTGATGAGGGTGAAAAGTAAATACCATTCAGATTTA
* * ** *
58513605 GCTCAATGATGAATTGCCATTAGTTCATAGCAGCATAAACTTCA-TGGTGAGCTTTGCATTTTCT
64 TCTCTATGATGAATTATCATTAGTTCATAACA-CATAAA-TT-AGTGGTGAGCTTTGCATTTTCT
*
58513669 GAATGATTCTGGTATGTTATTGAAAAGTTCACTCATTGCCATACAGATTTAACTGT-GCTAGCTG
126 GAATGATTCTGATATGTTATTGAAAAGTTCACTCATTGCCATACAGATTTAACT-TCGCTAGCTG
58513733 ATCCT
190 ATCCT
* * ** * *** *
58513738 TAAGCTCAGTTTAATCTGC-T-TGTTTCGGGTGCCAGTG-AAAGTAAATATCATTCAGATTTATC
1 TAAACTCAGTTTAGTCTGCTTGTGTTTTTGATGAGGGTGAAAAGTAAATACCATTCAGATTTATC
* ** * * * *
58513800 TTTATGAAAAATTATCATAAGTTCATAACATCATAAATTTATTGGTGAGTTTTTCATTTTCTGAA
66 TCTATGATGAATTATCATTAGTTCATAACA-CATAAA-TTAGTGGTGAGCTTTGCATTTTCTGAA
* * *
58513865 TGATTCTAATATGTTATAGAAAAGATCACTCATTGCCATAC
129 TGATTCTGATATGTTATTGAAAAGTTCACTCATTGCCATAC
58513906 TGTTTTAAGA
Statistics
Matches: 310, Mismatches: 43, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
192 1 0.00
193 111 0.36
194 66 0.21
195 71 0.23
196 6 0.02
197 54 0.17
198 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (194 bp):
TAAACTCAGTTTAGTCTGCTTGTGTTTTTGATGAGGGTGAAAAGTAAATACCATTCAGATTTATC
TCTATGATGAATTATCATTAGTTCATAACACATAAATTAGTGGTGAGCTTTGCATTTTCTGAATG
ATTCTGATATGTTATTGAAAAGTTCACTCATTGCCATACAGATTTAACTTCGCTAGCTGATCCT
Found at i:58516835 original size:64 final size:65
Alignment explanation
Indices: 58516733--58516865 Score: 250
Period size: 64 Copynumber: 2.1 Consensus size: 65
58516723 TGGATAATCA
58516733 ACAAGTCTGGCTGAAAAATTTTGGTTTGCACAAATTTATAAAATGCCAAAGTTCTCCAACGGGAT
1 ACAAGTCTGGCTGAAAAATTTTGGTTTGCACAAATTTATAAAATGCCAAAGTTCTCCAACGGGAT
*
58516798 ACAAGTCTGGCTG-AAAATTTTGGTTTGCACAAATTTATAAAATGCCAAAGTTCTCCAGCGGGAT
1 ACAAGTCTGGCTGAAAAATTTTGGTTTGCACAAATTTATAAAATGCCAAAGTTCTCCAACGGGAT
58516862 ACAA
1 ACAA
58516866 TTAAGATTCC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
64 54 0.81
65 13 0.19
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (65 bp):
ACAAGTCTGGCTGAAAAATTTTGGTTTGCACAAATTTATAAAATGCCAAAGTTCTCCAACGGGAT
Found at i:58516988 original size:15 final size:15
Alignment explanation
Indices: 58516968--58516998 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58516958 CATTAGTTGT
58516968 TTCATATTGATTGAG
1 TTCATATTGATTGAG
58516983 TTCATATTGATTGAG
1 TTCATATTGATTGAG
58516998 T
1 T
58516999 CGTAGCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (15 bp):
TTCATATTGATTGAG
Found at i:58518336 original size:12 final size:12
Alignment explanation
Indices: 58518321--58518350 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58518311 AGGAACATTT
*
58518321 CGAGGATTTCTA
1 CGAGGATATCTA
58518333 CGAGGATATCTA
1 CGAGGATATCTA
58518345 CGAGGA
1 CGAGGA
58518351 ACTAAGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (12 bp):
CGAGGATATCTA
Found at i:58533488 original size:21 final size:21
Alignment explanation
Indices: 58533464--58533504 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58533454 ATAGATTAAA
*
58533464 TCTTA-AATTTGAACAAAATAT
1 TCTTATAATTAGAA-AAAATAT
58533485 TCTTATAATTAGAAAAAATA
1 TCTTATAATTAGAAAAAATA
58533505 GAGAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (21 bp):
TCTTATAATTAGAAAAAATAT
Found at i:58539897 original size:21 final size:22
Alignment explanation
Indices: 58539872--58539923 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
58539862 ATAATCAAAT
58539872 AAATAATACATTAAATTAAA-A
1 AAATAATACATTAAATTAAAGA
*
58539893 AAATAACT-C-TTAATTTAAAGA
1 AAATAA-TACATTAAATTAAAGA
58539914 AAATAA-ACAT
1 AAATAATACAT
58539924 AATTATCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
20 10 0.38
21 15 0.58
22 1 0.04
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATAATACATTAAATTAAAGA
Found at i:58539926 original size:20 final size:20
Alignment explanation
Indices: 58539872--58539927 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
58539862 ATAATCAAAT
* *
58539872 AAATAATACATTAAATTAAAA
1 AAATAACACA-TAATTTAAAA
* *
58539893 AAATAACTCTTAATTTAAAGA
1 AAATAACACATAATTTAAA-A
58539914 AAATAA-ACATAATT
1 AAATAACACATAATT
58539928 ATCTAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATAACACATAATTTAAAA
Found at i:58548678 original size:17 final size:17
Alignment explanation
Indices: 58548656--58548755 Score: 65
Period size: 17 Copynumber: 5.5 Consensus size: 17
58548646 GAATTGAATA
58548656 ACTACATAATTAAAAAC
1 ACTACATAATTAAAAAC
** *
58548673 ACTACATAAGTCTTTGAATC
1 ACTACATAA---TTAAAAAC
58548693 ACTACATAATTAAAAAC
1 ACTACATAATTAAAAAC
* ** *
58548710 ATTACATAAGTCTTTGAATC
1 ACTACATAA---TTAAAAAC
*
58548730 ACGACATAATTAAAAAC
1 ACTACATAATTAAAAAC
*
58548747 ATTACATAA
1 ACTACATAA
58548756 GTCTTGAAAT
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
17 34 0.57
20 26 0.43
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (17 bp):
ACTACATAATTAAAAAC
Found at i:58548697 original size:20 final size:20
Alignment explanation
Indices: 58548672--58548738 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
58548662 TAATTAAAAA
58548672 CACTACATAAGTCTTTGAAT
1 CACTACATAAGTCTTTGAAT
** *
58548692 CACTACATAA---TTAAAAA
1 CACTACATAAGTCTTTGAAT
*
58548709 CATTACATAAGTCTTTGAAT
1 CACTACATAAGTCTTTGAAT
*
58548729 CACGACATAA
1 CACTACATAA
58548739 TTAAAAACAT
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
17 13 0.37
20 22 0.63
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (20 bp):
CACTACATAAGTCTTTGAAT
Found at i:58548697 original size:37 final size:37
Alignment explanation
Indices: 58548649--58548760 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
58548639 ATTAACCGAA
* *
58548649 TTGAATAACTACATAATTAAAAACACTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
58548686 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
58548723 TTGAATCACGACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
58548760 T
1 T
58548761 GAAATTAACA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.31
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:58548774 original size:37 final size:37
Alignment explanation
Indices: 58548649--58548777 Score: 190
Period size: 37 Copynumber: 3.5 Consensus size: 37
58548639 ATTAACCGAA
*
58548649 TTGAATAACTACATAATTAAAAACACTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
58548686 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
* *
58548723 TTGAATCACGACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
58548759 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
58548778 GAAATGTAAG
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
36 3 0.03
37 80 0.93
38 3 0.03
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:58557839 original size:17 final size:15
Alignment explanation
Indices: 58557802--58557832 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58557792 ATAGCTGAAC
*
58557802 ACAAAAAAGTAATCT
1 ACAAAAAAGTAATAT
58557817 ACAAAAAAGTAATAT
1 ACAAAAAAGTAATAT
58557832 A
1 A
58557833 AACAAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.10, G:0.06, T:0.19
Consensus pattern (15 bp):
ACAAAAAAGTAATAT
Found at i:58568216 original size:39 final size:37
Alignment explanation
Indices: 58568139--58568217 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 37
58568129 AATCTTATAC
* * * *
58568139 TAATTATTTAATTATTATATATCTTTTAATTTAATAA
1 TAATTATTTAATTAATAAATATCTTATAACTTAATAA
58568176 TAATTATTAATAATTAATAAATATCTTAT-ACTTAATTAA
1 TAATTATT--TAATTAATAAATATCTTATAACTTAA-TAA
58568215 TAA
1 TAA
58568218 GTAAATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 8 0.23
38 5 0.14
39 22 0.63
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (37 bp):
TAATTATTTAATTAATAAATATCTTATAACTTAATAA
Found at i:58569528 original size:22 final size:22
Alignment explanation
Indices: 58569502--58569556 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
58569492 TTTTATTAAC
58569502 TAAAATA-AAATTATAAAAACT-A
1 TAAAATATAAA-TAT-AAAACTAA
58569524 TAAAATATAAATATAAAACTAA
1 TAAAATATAAATATAAAACTAA
58569546 TAAAATATAAA
1 TAAAATATAAA
58569557 ATTTATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 6 0.19
22 22 0.71
23 3 0.10
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATATAAATATAAAACTAA
Found at i:58569534 original size:7 final size:7
Alignment explanation
Indices: 58569502--58569558 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
58569492 TTTTATTAAC
58569502 TAAAATA
1 TAAAATA
*
58569509 -AAATTA
1 TAAAATA
58569515 TAAAAACTA
1 T-AAAA-TA
58569524 TAAAATA
1 TAAAATA
58569531 T-AAATA
1 TAAAATA
58569537 TAAAACTAA
1 TAAAA-T-A
58569546 TAAAATA
1 TAAAATA
58569553 TAAAAT
1 TAAAAT
58569559 TTATTTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
6 11 0.26
7 13 0.31
8 9 0.21
9 9 0.21
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAATA
Found at i:58573558 original size:17 final size:16
Alignment explanation
Indices: 58573502--58573558 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
58573492 CTAATGTCAG
* *
58573502 AAATAATAGAATATAC
1 AAATAATAAAATATAT
**
58573518 AAATTTTAAAATATAAT
1 AAATAATAAAATAT-AT
*
58573535 ATATAATAAAATTATAT
1 AAATAATAAAA-TATAT
58573552 AAATAAT
1 AAATAAT
58573559 TTAATATCTG
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
16 11 0.35
17 17 0.55
18 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATAATAAAATATAT
Found at i:58577136 original size:19 final size:19
Alignment explanation
Indices: 58577104--58577140 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
58577094 CCATGTGTGT
58577104 TATATGTTATTTTTAAATA
1 TATATGTTATTTTTAAATA
58577123 TATAT-TTATATTTTAAAT
1 TATATGTTAT-TTTTAAAT
58577141 TTGAGACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TATATGTTATTTTTAAATA
Found at i:58586675 original size:17 final size:19
Alignment explanation
Indices: 58586642--58586676 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58586632 AATTTTCATT
58586642 AAATATAAAAATCAAATTA
1 AAATATAAAAATCAAATTA
58586661 AAATA-AAAAAT-AAATT
1 AAATATAAAAATCAAATT
58586677 TTATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATATAAAAATCAAATTA
Found at i:58592899 original size:2 final size:2
Alignment explanation
Indices: 58592886--58592915 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
58592876 AACACATCAA
*
58592886 AT AT AC 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
58592916 GATACAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:58593483 original size:31 final size:32
Alignment explanation
Indices: 58593443--58593509 Score: 127
Period size: 31 Copynumber: 2.1 Consensus size: 32
58593433 TAATTATTAA
58593443 CATTGTTAAAATTCTTTGATTAAATTAAGGTT
1 CATTGTTAAAATTCTTTGATTAAATTAAGGTT
58593475 CATT-TTAAAATTCTTTGATTAAATTAAGGTT
1 CATTGTTAAAATTCTTTGATTAAATTAAGGTT
58593506 CATT
1 CATT
58593510 ACAACCTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (32 bp):
CATTGTTAAAATTCTTTGATTAAATTAAGGTT
Found at i:58597607 original size:3 final size:3
Alignment explanation
Indices: 58597599--58597660 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
58597589 GGGCACAAAC
58597599 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
58597647 AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AA
58597661 CAGTTCTGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:58598996 original size:110 final size:109
Alignment explanation
Indices: 58598465--58599084 Score: 983
Period size: 109 Copynumber: 5.7 Consensus size: 109
58598455 GGTCAAAAGG
* * * *
58598465 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTTGAATTTCCAAACGCAAAATATTGTCTTACT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* *
58598530 TTAAAA-TTTTAGAAGGATATTTGGCTATTTGGTTGAACGAGAA
66 TTAAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAA
* * *
58598573 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGTCTTACT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * * * *
58598638 TTGAAA-TTTTAGAAGGATATTTGGTTATTTGGTTGAACGGGAA
66 TTAAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAA
*
58598681 AAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
58598746 TTAAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAA
66 TTAAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAA
*
58598790 AAATCGAAACCCAGCACATTAGGGTACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* *
58598855 TTAAAATTTTTCAAAGGATATTTAGCCATTTGGTTGAACGAGAA
66 TTAAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAA
* * *
58598899 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAACGCAAAACATTGCCTTAT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTAT
*
58598964 TTTAAAATTTTTAAAAGGATATTAAGCTATTTGGTTGAACGAGAA
65 TTTAAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAA
* * *
58599009 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
58599074 TTTAAAATTTT
65 TTTAAAATTTT
58599085 CCTCTTTTTC
Statistics
Matches: 485, Mismatches: 24, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
108 170 0.35
109 175 0.36
110 140 0.29
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (109 bp):
AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAA
Found at i:58599154 original size:15 final size:15
Alignment explanation
Indices: 58599134--58599163 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58599124 AAATAAATAT
*
58599134 GATAATGTGAACAAA
1 GATAATATGAACAAA
58599149 GATAATATGAACAAA
1 GATAATATGAACAAA
58599164 AACGAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
GATAATATGAACAAA
Found at i:58599215 original size:4 final size:4
Alignment explanation
Indices: 58599201--58599232 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
58599191 ATACCATAGC
*
58599201 AAAT GAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
58599233 GAACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:58599610 original size:24 final size:24
Alignment explanation
Indices: 58599574--58599621 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
58599564 ATATAGATAT
*
58599574 ACGTATATAAATATGTATATATAAA
1 ACGTATATAAATATATATAT-TAAA
*
58599599 ACGTAT-TTAATATATATATTAAA
1 ACGTATATAAATATATATATTAAA
58599622 TAACTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (24 bp):
ACGTATATAAATATATATATTAAA
Found at i:58599737 original size:21 final size:22
Alignment explanation
Indices: 58599713--58599757 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
58599703 ATAAATAAAT
58599713 ATAAATAGAAATA-TAATGATA
1 ATAAATAGAAATATTAATGATA
**
58599734 AT-AATATTAATATTAATGATA
1 ATAAATAGAAATATTAATGATA
58599755 ATA
1 ATA
58599758 GTAAAGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAAATAGAAATATTAATGATA
Found at i:58599739 original size:3 final size:3
Alignment explanation
Indices: 58599725--58599795 Score: 63
Period size: 3 Copynumber: 23.7 Consensus size: 3
58599715 AAATAGAAAT
* * * * * * *
58599725 ATA ATG ATA ATA ATA TTA ATA TTA ATG ATA ATA GTA A-A GATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
58599770 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
58599796 GATGTTAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.98
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:58601405 original size:95 final size:95
Alignment explanation
Indices: 58601290--58601756 Score: 781
Period size: 95 Copynumber: 4.9 Consensus size: 95
58601280 ATCTGTAATC
* *
58601290 TTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTATCAGCTTCAATGTACTCCACTGTAGTC
1 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
* *
58601355 ACAGGGAGGTAAAATCTACCATCTTCGATT
66 ACAGGGAGGTAAAATCTGCCATCTTTGATT
*
58601385 TTCAATCTATTCCACTGCCAACCAGAGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
1 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
58601450 ACAGGGAGGTAAAATCTGCCATCTTTGATT
66 ACAGGGAGGTAAAATCTGCCATCTTTGATT
* * * *
58601480 TTCAATCTATTCTACTGTCAACCAAGGAGATAGAATTATCGGCTTCAATGTACTCCACTGCAGTC
1 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
*
58601545 ACAGGGAGGTAAAATCTGCCATCTTTGATA
66 ACAGGGAGGTAAAATCTGCCATCTTTGATT
*
58601575 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATAGTC
1 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
* *
58601640 ACAGGGAGGTAAAATCTGCCATATTTGATC
66 ACAGGGAGGTAAAATCTGCCATCTTTGATT
* *
58601670 TTCAATCTATTCCACTTCCAACCAAGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
1 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
* *
58601735 ATAGGGAGGTAAAATCTACCAT
66 ACAGGGAGGTAAAATCTGCCAT
58601757 TTTTAGTCTG
Statistics
Matches: 349, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 349 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (95 bp):
TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
ACAGGGAGGTAAAATCTGCCATCTTTGATT
Found at i:58601944 original size:88 final size:88
Alignment explanation
Indices: 58601785--58602148 Score: 566
Period size: 88 Copynumber: 4.1 Consensus size: 88
58601775 TCAGTACAGG
* * * * * * * * * *
58601785 GAGGCAAGGATGGTTTCTTCGATCTACTTTACCGTCAATACAGGAAGGCAAGATCTGCTATCTTT
1 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTC
*
58601850 AGCCAGCTCCACTACAACCGAGA
66 AACCAGCTCCACTACAACCGAGA
*
58601873 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTC
*
58601938 AACCAGCTCCATTACAACCGAGA
66 AACCAGCTCCACTACAACCGAGA
* *
58601961 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTC
58602026 AACCAGCTCCACTACAACCGAGA
66 AACCAGCTCCACTACAACCGAGA
58602049 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTC
* *
58602114 AACCAGCTCCGCTACAACTGAGA
66 AACCAGCTCCACTACAACCGAGA
*
58602137 GAGGTAAGGTTT
1 GAGGCAAGGTTT
58602149 ATCTTCAACC
Statistics
Matches: 256, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 256 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (88 bp):
GAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTC
AACCAGCTCCACTACAACCGAGA
Found at i:58602178 original size:129 final size:129
Alignment explanation
Indices: 58602021--58602277 Score: 426
Period size: 129 Copynumber: 2.0 Consensus size: 129
58602011 AGATCTGTTG
*
58602021 TCTTCAACCAGCTCCACTACAACCGAGAGAGGCA-AGGTTTGTGTCTTCGATCTGCTTCACTGTC
1 TCTTCAACCAACTCCACTACAACCGAGAGAGGCATA-GTTTGTGTCTTCGATCTGCTTCACTGTC
*
58602085 AATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACTGAGAGAGGTAAGGTTTA
65 AATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACTGAGAGAGGCAAGGTTTA
* **
58602150 TCTTCAACCAACTCCGCTACAACCGAGAGAGGCATAGTTTGTGTCTTCGATCTGCTTTGCTGTCA
1 TCTTCAACCAACTCCACTACAACCGAGAGAGGCATAGTTTGTGTCTTCGATCTGCTTCACTGTCA
* * *
58602215 ATGCAGGAAGGTAATATCTGTTGTCTTCAACCAGCTCTGCTACAACTGAGAGAGGCAAGGTTT
66 ATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACTGAGAGAGGCAAGGTTT
58602278 GTGTCTTCGA
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
129 118 0.99
130 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (129 bp):
TCTTCAACCAACTCCACTACAACCGAGAGAGGCATAGTTTGTGTCTTCGATCTGCTTCACTGTCA
ATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACTGAGAGAGGCAAGGTTTA
Found at i:58602194 original size:217 final size:217
Alignment explanation
Indices: 58601933--58602365 Score: 724
Period size: 217 Copynumber: 2.0 Consensus size: 217
58601923 AGATCTGTTG
* *
58601933 TCTTCAACCAGCTCCATTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 TCTTCAACCAACTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
*
58601998 ATGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGT
66 ATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGT
58602063 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTA
131 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTA
* *
58602128 CAACTGAGAGAGGTAAGGTTTA
196 CAACCGAGAGAGGCAAGGTTTA
* *
58602150 TCTTCAACCAACTCCGCTACAACCGAGAGAGGCATA-GTTTGTGTCTTCGATCTGCTTTGCTGTC
1 TCTTCAACCAACTCCACTACAACCGAGAGAGGCA-AGGTTTGTGTCTTCGATCTGCTTCGCTGTC
* * ** *
58602214 AATGCAGGAAGGTAATATCTGTTGTCTTCAACCAGCTCTGCTACAACTGAGAGAGGCAAGGTTTG
65 AATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTG
* *
58602279 TGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT
130 TGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT
58602344 ACAACCGAGAGAGGCAAGGTTT
195 ACAACCGAGAGAGGCAAGGTTT
58602366 GTGTCTTCGA
Statistics
Matches: 201, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 200 1.00
218 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (217 bp):
TCTTCAACCAACTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
ATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGT
GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTA
CAACCGAGAGAGGCAAGGTTTA
Found at i:58602257 original size:88 final size:88
Alignment explanation
Indices: 58602150--58602505 Score: 583
Period size: 88 Copynumber: 4.1 Consensus size: 88
58602140 GTAAGGTTTA
* *
58602150 TCTTCAACCAACTCCGCTACAACCGAGAGAGGCATA-GTTTGTGTCTTCGATCTGCTTTGCTGTC
1 TCTTCAACCAGCTCCGCTACAACCGAGAGAGGCA-AGGTTTGTGTCTTCGATCTGCTTCGCTGTC
* *
58602214 AATGCAGGAAGGTAATATCTGTTG
65 AATGCAGGAAGGCAAGATCTGTTG
* *
58602238 TCTTCAACCAGCTCTGCTACAACTGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 TCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
*
58602303 ATGTAGGAAGGCAAGATCTGTTG
66 ATGCAGGAAGGCAAGATCTGTTG
*
58602326 TCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGC--AGCTGTCA
1 TCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
58602389 ATGCAGGAAGGCAAGATCTGTTG
66 ATGCAGGAAGGCAAGATCTGTTG
*
58602412 TCTTCAACCAGCTCCGCTACAACCGAGAAAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 TCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
*
58602477 AGGCAGGAAGGCAAGATCTGTTG
66 ATGCAGGAAGGCAAGATCTGTTG
*
58602500 TTTTCA
1 TCTTCA
58602506 TTGATCTGTT
Statistics
Matches: 250, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
86 83 0.33
87 1 0.00
88 166 0.66
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (88 bp):
TCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
ATGCAGGAAGGCAAGATCTGTTG
Found at i:58602447 original size:174 final size:175
Alignment explanation
Indices: 58602150--58602505 Score: 590
Period size: 174 Copynumber: 2.0 Consensus size: 175
58602140 GTAAGGTTTA
*
58602150 TCTTCAACCAACTCCGCTACAACCGAGAGAGGCATAGTTTGTGTCTTCGATCTGCTTTGCTGTCA
1 TCTTCAACCAACTCCGCTACAACCGAGAGAGGCATAGTTTGTGTCTTCGATCTGC-TAGCTGTCA
* * * * *
58602215 ATGCAGGAAGGTAATATCTGTTGTCTTCAACCAGCTCTGCTACAACTGAGAGAGGCAAGGTTTGT
65 ATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAAAGGCAAGGTTTGT
* *
58602280 GTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTG
130 GTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTG
*
58602326 TCTTCAACCAGCTCCGCTACAACCGAGAGAGGCA-AGGTTTGTGTCTTCGATCTGC-AGCTGTCA
1 TCTTCAACCAACTCCGCTACAACCGAGAGAGGCATA-GTTTGTGTCTTCGATCTGCTAGCTGTCA
58602389 ATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAAAGGCAAGGTTTGT
65 ATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAAAGGCAAGGTTTGT
58602454 GTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTG
130 GTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTG
*
58602500 TTTTCA
1 TCTTCA
58602506 TTGATCTGTT
Statistics
Matches: 169, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
174 116 0.69
175 1 0.01
176 52 0.31
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (175 bp):
TCTTCAACCAACTCCGCTACAACCGAGAGAGGCATAGTTTGTGTCTTCGATCTGCTAGCTGTCAA
TGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAAAGGCAAGGTTTGTG
TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTG
Found at i:58602459 original size:217 final size:217
Alignment explanation
Indices: 58601950--58602447 Score: 542
Period size: 217 Copynumber: 2.3 Consensus size: 217
58601940 CCAGCTCCAT
* * * * * * * * * *
58601950 TACAACCGAGAGAGGCA-AGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGA
1 TACAACAGAGAGAGGCATA-GTCTGTGTCTTCAACCAGCTCCGCTGACAACGCAGAAAGGCAAGA
58602014 TCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTC
65 TCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTC
* *
58602079 ACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACTGAGAGAGGTAA
130 ACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAA
* *
58602144 GGTTTATCTTCAACCAACTCCGC
195 GGTTTATCGTCAACCAACTCAGC
* * * * * ** * * * * *
58602167 TACAACCGAGAGAGGCATAGTTTGTGTCTTCGATCTGCTTTGCTGTCAATGCAGGAAGGTAATAT
1 TACAACAGAGAGAGGCATAGTCTGTGTCTTCAACCAGCTCCGCTGACAACGCAGAAAGGCAAGAT
** * *
58602232 CTGTTGTCTTCAACCAGCTCTGCTACAACTGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCG
66 CTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCA
*
58602297 CTGTCAATGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAG
131 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAG
* ** * *
58602362 GTTTGT-GTCTTCGATCTGCAGC
196 GTTTATCGTCAACCAACT-CAGC
*
58602384 TGTCAATGCAG-GA-AGGCA-AGATCTGTTGTCTTCAACCAGCTCCGCT-ACAAC-CGAGAAAGG
1 T-ACAA--CAGAGAGAGGCATAG-TCTG-TGTCTTCAACCAGCTCCGCTGACAACGC-AGAAAGG
58602444 CAAG
60 CAAG
58602448 GTTTGTGTCT
Statistics
Matches: 242, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
216 6 0.02
217 194 0.80
218 23 0.10
219 17 0.07
220 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (217 bp):
TACAACAGAGAGAGGCATAGTCTGTGTCTTCAACCAGCTCCGCTGACAACGCAGAAAGGCAAGAT
CTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCA
CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAG
GTTTATCGTCAACCAACTCAGC
Found at i:58606565 original size:19 final size:20
Alignment explanation
Indices: 58606536--58606587 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
58606526 CACTTTGTGA
* *
58606536 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
58606555 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
58606575 AAATG-AATGCAAA
1 AAATGTAATGCAAA
58606588 AAAAAGACGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:58608153 original size:108 final size:110
Alignment explanation
Indices: 58607994--58608637 Score: 889
Period size: 108 Copynumber: 5.9 Consensus size: 110
58607984 ATTTAAGAGA
* * * *
58607994 ATATTTAGCTATTTGG-TCAA-AAG-GAAATCGAAACCCAGCACATTAGGGCACGTTTTCTTGAA
1 ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
* *
58608056 TTTCCAAACGCAAAATATTGTCTTACTTTGAAA-TTTTAGAAA-G
66 TTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTTAGAAAGG
*
58608099 ATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
1 ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
* *
58608164 TTTCCAAACGCAAAATATTGTCTTACTTTGAAA-TTTTAG-AAGG
66 TTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTTAGAAAGG
* * * *
58608207 ATATTTGGTTATTTGGTTGAACGGGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAA
1 ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
* *
58608272 TTTCCAAACGCAAAACATTGCCTTA-TTTTAAATTTTTTGAAAGG
66 TTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTTAGAAAGG
*
58608316 ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGTACGTTTTCTCGAA
1 ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
*
58608381 TTTCCAAACGCAAAACATTGCCTTA-TTTTAAATTTTTTA-AAAGG
66 TTTCCAAACGCAAAACATTGCCTTACTTTGAAA-TTTTTAGAAAGG
** * * *
58608425 ATATTTAGCCGTTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAA
1 ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
*
58608490 TTTTCCAAACGCAAAACATTGCCTT-CTTTTAAAATTTTTA-AAAGG
66 -TTTCCAAACGCAAAACATTGCCTTAC-TTTGAAATTTTTAGAAAGG
* * * * *
58608535 ATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAA
1 ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
* * *
58608600 TTTCCCAAACGCAAAACATTACCTTATTTTAAAATTTT
66 TTT-CCAAACGCAAAACATTGCCTTACTTTGAAATTTT
58608638 CCTCTTTTTC
Statistics
Matches: 498, Mismatches: 29, Indels: 19
0.91 0.05 0.03
Matches are distributed among these distances:
105 15 0.03
106 3 0.01
107 10 0.02
108 167 0.34
109 163 0.33
110 134 0.27
111 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (110 bp):
ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
TTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTTAGAAAGG
Found at i:58608550 original size:110 final size:109
Alignment explanation
Indices: 58607985--58608637 Score: 913
Period size: 109 Copynumber: 6.0 Consensus size: 109
58607975 TGGATTAAGA
* * * * *
58607985 TTTAAGAGAATATTTAGCTATTTGG-TCAA-AAG-GAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * * * *
58608047 TTTCTTGAATTTCCAAACGCAAAATATTGTCTTACTTTGAAA-T
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
*
58608090 TTTAGAAA-GATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACG
1 TTTA-AAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACG
* * * *
58608154 TTTTCTCGAATTTCCAAACGCAAAATATTGTCTTACTTTGAAA-T
65 TTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
* * * * *
58608198 TTTAGAAGGATATTTGGTTATTTGGTTGAACGGGAAAAATCGAAACCCAGCACGTTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
58608263 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAATTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
* *
58608307 TTTGAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGTACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
58608372 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAATTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
** * * *
58608416 TTTAAAAGGATATTTAGCCGTTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
58608481 TTTCTCGAATTTTCCAAACGCAAAACATTGCCTTCTTTTAAAATT
66 TTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
* * * * *
58608526 TTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
58608591 TTTCTCGAATTTCCCAAACGCAAAACATTACCTTATTTTAAAATT
66 TTTCTCGAATTT-CCAAACGCAAAACATTGCCTTATTTTAAAATT
58608636 TT
1 TT
58608638 CCTCTTTTTC
Statistics
Matches: 504, Mismatches: 36, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
105 19 0.04
106 5 0.01
107 4 0.01
108 166 0.33
109 173 0.34
110 137 0.27
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (109 bp):
TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
Found at i:58608685 original size:21 final size:21
Alignment explanation
Indices: 58608661--58608700 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58608651 GTATGGTGTT
58608661 AATATACATAATG-GAACAATA
1 AATAT-CATAATGTGAACAATA
*
58608682 AATATGATAATGTGAACAA
1 AATATCATAATGTGAACAA
58608701 AGATAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
AATATCATAATGTGAACAATA
Found at i:58608707 original size:15 final size:15
Alignment explanation
Indices: 58608687--58608716 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58608677 CAATAAATAT
*
58608687 GATAATGTGAACAAA
1 GATAATATGAACAAA
58608702 GATAATATGAACAAA
1 GATAATATGAACAAA
58608717 AACGAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
GATAATATGAACAAA
Found at i:58609284 original size:3 final size:3
Alignment explanation
Indices: 58609270--58609332 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
58609260 AAATAGAAAT
* * * * * *
58609270 ATA ATG ATA ATA ATA TTA ATA TTA ATA ATA ATA GTA A-A GATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
58609315 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
58609333 GTGTTAAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
2 1 0.02
3 47 0.98
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:58610671 original size:44 final size:44
Alignment explanation
Indices: 58610623--58610998 Score: 134
Period size: 44 Copynumber: 8.3 Consensus size: 44
58610613 ATCTCTTTGG
*
58610623 AGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGA
1 AGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAA
** * * *
58610667 AGTTGCAGTGGA-CCGGATTGAAGCTATAATTTCTATA-CCCTTGAA
1 AGTTGCAGTGGAGCAAGA-TGAAGCTACAAATCCTATATCCC-T-AA
* *** * ** * * * *
58610712 A-TTGCATTGG-GTTTGATTTAATCTGCCATAGTGAATCTTATCTCTCTGA
1 AGTTGCAGTGGAGCAAGA-TGAA---G-C-TA-CAAATCCTATATCCCTAA
* * *
58610761 AGTTGCAGTGGAGCAAGATGAAGCTACAAATCTTATATTCCTGA
1 AGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAA
* * * * * **
58610805 AGTTGCAGTGGATC-GGATTGAAACTACAATTTCTATGCCCCTAA
1 AGTTGCAGTGGAGCAAGA-TGAAGCTACAAATCCTATATCCCTAA
* * *** * * * * *
58610849 AATTGTAGTGG-GTTGGAATAAAACTACAGTAGCGAATCTTATCTCCATAA
1 AGTTGCAGTGGAGCAAG-ATGAAGCTAC---A---AATCCTATATCCCTAA
* * * * ** *
58610899 AGTCGCAGTGGAGCGAGATGAAGCTGCAAGTTTTATCTCCCTAA
1 AGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAA
*
58610943 AGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATATCCCTAA
1 AGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAA
*
58610987 AGTTGTAGTGGA
1 AGTTGCAGTGGA
58610999 ATAGATTGAA
Statistics
Matches: 238, Mismatches: 71, Indels: 46
0.67 0.20 0.13
Matches are distributed among these distances:
43 8 0.03
44 165 0.69
45 5 0.02
46 1 0.00
47 4 0.02
48 1 0.00
49 4 0.02
50 43 0.18
51 7 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
AGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAA
Found at i:58610823 original size:138 final size:137
Alignment explanation
Indices: 58610567--58610923 Score: 448
Period size: 138 Copynumber: 2.6 Consensus size: 137
58610557 AATCCCTAAT
* * * * * *
58610567 CCCTTAAGTTGCAGTGGGTTGGATTGAATCTGCCATAACAAATCTTATCTCTTTGGAGTTGCAGT
1 CCCTTAAATTGCAGTGGGTTGGATTAAATCTGCCATAGCGAATCTTATCTCTCTGAAGTTGCAGT
* *
58610632 GGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGACCGGATTGAAGCTATAAT
66 GGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGACCGGATTGAAACTACAAT
58610697 TTCTATA
131 TTCTATA
* * * *
58610704 CCCTTGAAATTGCATTGGGTTTGATTTAATCTGCCATAGTGAATCTTATCTCTCTGAAGTTGCAG
1 CCCTT-AAATTGCAGTGGGTTGGATTAAATCTGCCATAGCGAATCTTATCTCTCTGAAGTTGCAG
* * *
58610769 TGGAGCAAGATGAAGCTACAAATCTTATATTCCTGAAGTTGCAGTGGATCGGATTGAAACTACAA
65 TGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGACCGGATTGAAACTACAA
*
58610834 TTTCTATGC
130 TTTCTAT-A
* * * * * * *
58610843 CCCTAAAATTGTAGTGGGTTGGAATAAAACT-ACAGTAGCGAATCTTATCTC-CATAAAGTCGCA
1 CCCTTAAATTGCAGTGGGTTGGATTAAATCTGCCA-TAGCGAATCTTATCTCTC-TGAAGTTGCA
*
58610906 GTGGAGCGAGATGAAGCT
64 GTGGAGCAAGATGAAGCT
58610924 GCAAGTTTTA
Statistics
Matches: 189, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
137 8 0.04
138 177 0.94
139 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (137 bp):
CCCTTAAATTGCAGTGGGTTGGATTAAATCTGCCATAGCGAATCTTATCTCTCTGAAGTTGCAGT
GGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGACCGGATTGAAACTACAAT
TTCTATA
Found at i:58610970 original size:138 final size:137
Alignment explanation
Indices: 58610579--58610997 Score: 412
Period size: 138 Copynumber: 3.0 Consensus size: 137
58610569 CTTAAGTTGC
* * * * * * * ** *
58610579 AGTGGGTTGGATTGAATCTGCCATAACAAATCTTATCTCTTTGGAGTTGCAGTGGAGCAAGATGA
1 AGTGGGTTGGAATAAAACTGACATAGCGAATCTTATCTCTCTAAAGTCGCAGTGGAGCAAGATGA
* * *
58610644 AGCTACAAATCCTATATCCCTGAAGTTGCAGTGGACCGGATTGAAGCTATAATTTCTATACCCTT
66 AGCTACAAATCTTATATCCCTGAAGTTGCAGTGGA-CGGATTGAAGCTACAATTTCTATACCCCT
* *
58610709 GAAATTGC
130 AAAATTGT
* * * * * * * * *
58610717 ATTGGGTTTGATTTAATCTGCCATAGTGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGA
1 AGTGGGTTGGAATAAAACTGACATAGCGAATCTTATCTCTCTAAAGTCGCAGTGGAGCAAGATGA
* * *
58610782 AGCTACAAATCTTATATTCCTGAAGTTGCAGTGGATCGGATTGAAACTACAATTTCTATGCCCCT
66 AGCTACAAATCTTATATCCCTGAAGTTGCAGTGGA-CGGATTGAAGCTACAATTTCTATACCCCT
58610847 AAAATTGT
130 AAAATTGT
*
58610855 AGTGGGTTGGAATAAAACT-ACAGTAGCGAATCTTATCTC-CATAAAGTCGCAGTGGAGCGAGAT
1 AGTGGGTTGGAATAAAACTGACA-TAGCGAATCTTATCTCTC-TAAAGTCGCAGTGGAGCAAGAT
* * * * * * * * * *
58610918 GAAGCTGCAAGTTTTATCTCCCTAAAGTTGCAATGGAGCAAGA-TGAAGCTACAAATCCTATATC
64 GAAGCTACAAATCTTATATCCCTGAAGTTGCAGTGGA-C-GGATTGAAGCTACAATTTCTATACC
*
58610982 CCTAAAGTTGT
127 CCTAAAATTGT
58610993 AGTGG
1 AGTGG
58610998 AATAGATTGA
Statistics
Matches: 236, Mismatches: 42, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
137 3 0.01
138 231 0.98
139 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (137 bp):
AGTGGGTTGGAATAAAACTGACATAGCGAATCTTATCTCTCTAAAGTCGCAGTGGAGCAAGATGA
AGCTACAAATCTTATATCCCTGAAGTTGCAGTGGACGGATTGAAGCTACAATTTCTATACCCCTA
AAATTGT
Found at i:58612722 original size:9 final size:9
Alignment explanation
Indices: 58612708--58612733 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58612698 TTAAATTTTG
58612708 ATACTATTA
1 ATACTATTA
58612717 ATACTATTA
1 ATACTATTA
58612726 ATACTATT
1 ATACTATT
58612734 TGTATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (9 bp):
ATACTATTA
Found at i:58612845 original size:22 final size:22
Alignment explanation
Indices: 58612812--58612858 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
58612802 ATTAATTGAA
58612812 TATTTTTCATTATTGTTATT-AT
1 TATTTTTCATTATTG-TATTCAT
58612834 TATTTCTT-ATTATTGTATTCAT
1 TATTT-TTCATTATTGTATTCAT
58612856 TAT
1 TAT
58612859 AGTAATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 17 0.74
23 2 0.09
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (22 bp):
TATTTTTCATTATTGTATTCAT
Found at i:58624057 original size:19 final size:20
Alignment explanation
Indices: 58624012--58624060 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
58624002 GATAAACTAT
*
58624012 TCTTTTAAAATTTTATTAACA
1 TCTTTT-AAATTTTATAAACA
* *
58624033 TGTTTTAAA-TTTATAAACC
1 TCTTTTAAATTTTATAAACA
58624052 TCTTTTAAA
1 TCTTTTAAA
58624061 AATCTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
20 3 0.12
21 5 0.21
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (20 bp):
TCTTTTAAATTTTATAAACA
Found at i:58628884 original size:171 final size:171
Alignment explanation
Indices: 58628591--58628932 Score: 587
Period size: 171 Copynumber: 2.0 Consensus size: 171
58628581 CTTTCAGTTC
* *
58628591 ACTTCCTCCGATCAAAATAAACCCTCAACCCAATGCAATGCAGTATACAAATATGATATTCTATA
1 ACTTCCTCCGATCAAAATAAACCCTCAACCCAATGCAATACAGTATACAAATATGATATACTATA
* *
58628656 ACATAATATCATGCATGTAATCAAGGCATACAGTATCAAATCAGTGGATCATCATCATGCTTATT
66 ACATAATATCATACATGTAATCAAGGCATAAAGTATCAAATCAGTGGATCATCATCATGCTTATT
*
58628721 TATATCAGTCATACAGTCATCTCAGTCAATTAAGAGTCTAGG
131 CATATCAGTCATACAGTCATCTCAGTCAATT-AGAGTCTAGG
58628763 ACTTCCTCCGATCAAAATAAACCC-CAACCCAATGCAATACAGTATACAAATATGATATACTATA
1 ACTTCCTCCGATCAAAATAAACCCTCAACCCAATGCAATACAGTATACAAATATGATATACTATA
* *
58628827 ACATAATATCATACATGTAATCAGGGCATAAAGTATCAAATCAGTGGATCGTCATCATGCTTATT
66 ACATAATATCATACATGTAATCAAGGCATAAAGTATCAAATCAGTGGATCATCATCATGCTTATT
* *
58628892 CATATCAGTCATACAGTCATTTCAGTCAATTAGGGTCTAGG
131 CATATCAGTCATACAGTCATCTCAGTCAATTAGAGTCTAGG
58628933 TAAGCTTACC
Statistics
Matches: 161, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
170 9 0.06
171 128 0.80
172 24 0.15
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (171 bp):
ACTTCCTCCGATCAAAATAAACCCTCAACCCAATGCAATACAGTATACAAATATGATATACTATA
ACATAATATCATACATGTAATCAAGGCATAAAGTATCAAATCAGTGGATCATCATCATGCTTATT
CATATCAGTCATACAGTCATCTCAGTCAATTAGAGTCTAGG
Found at i:58632135 original size:21 final size:21
Alignment explanation
Indices: 58632109--58632148 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
58632099 ATACGTCAAT
*
58632109 AGAAGCTCGTAAGAGCTGAAA
1 AGAAGCTCATAAGAGCTGAAA
58632130 AGAAGCTCATAAGAGCTGA
1 AGAAGCTCATAAGAGCTGA
58632149 TCCATCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTGAAA
Found at i:58632340 original size:17 final size:17
Alignment explanation
Indices: 58632320--58632352 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58632310 TTCAATATTA
58632320 TATTTCAAACAATAAAT
1 TATTTCAAACAATAAAT
*
58632337 TATTTCTAACAATAAA
1 TATTTCAAACAATAAA
58632353 ATGTATATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (17 bp):
TATTTCAAACAATAAAT
Found at i:58635032 original size:188 final size:188
Alignment explanation
Indices: 58634715--58635092 Score: 756
Period size: 188 Copynumber: 2.0 Consensus size: 188
58634705 TTTCCAGTCC
58634715 TATAAAAACCTTATAGAACATTGGAAAGATAAATTTATTAATATTACTGATAAATTAGAAAAGGT
1 TATAAAAACCTTATAGAACATTGGAAAGATAAATTTATTAATATTACTGATAAATTAGAAAAGGT
58634780 AGAATATTTAAAGTTAACAGAAGAATTTTATGAAAAACATAAAGATATATTTACTTTATTTAATT
66 AGAATATTTAAAGTTAACAGAAGAATTTTATGAAAAACATAAAGATATATTTACTTTATTTAATT
58634845 ATCATTATATGTTAAATTATGATACTTCAAATAGTAGTGGTTCTAATAATTCTGAAAA
131 ATCATTATATGTTAAATTATGATACTTCAAATAGTAGTGGTTCTAATAATTCTGAAAA
58634903 TATAAAAACCTTATAGAACATTGGAAAGATAAATTTATTAATATTACTGATAAATTAGAAAAGGT
1 TATAAAAACCTTATAGAACATTGGAAAGATAAATTTATTAATATTACTGATAAATTAGAAAAGGT
58634968 AGAATATTTAAAGTTAACAGAAGAATTTTATGAAAAACATAAAGATATATTTACTTTATTTAATT
66 AGAATATTTAAAGTTAACAGAAGAATTTTATGAAAAACATAAAGATATATTTACTTTATTTAATT
58635033 ATCATTATATGTTAAATTATGATACTTCAAATAGTAGTGGTTCTAATAATTCTGAAAA
131 ATCATTATATGTTAAATTATGATACTTCAAATAGTAGTGGTTCTAATAATTCTGAAAA
58635091 TA
1 TA
58635093 CAGAAAACTT
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 190 1.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (188 bp):
TATAAAAACCTTATAGAACATTGGAAAGATAAATTTATTAATATTACTGATAAATTAGAAAAGGT
AGAATATTTAAAGTTAACAGAAGAATTTTATGAAAAACATAAAGATATATTTACTTTATTTAATT
ATCATTATATGTTAAATTATGATACTTCAAATAGTAGTGGTTCTAATAATTCTGAAAA
Found at i:58636793 original size:105 final size:105
Alignment explanation
Indices: 58636544--58636916 Score: 642
Period size: 105 Copynumber: 3.6 Consensus size: 105
58636534 TAACCGTTAT
* * ** *
58636544 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
58636609 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
58636648 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
58636712 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
58636753 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
58636818 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
58636858 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
58636917 TTATATACAA
Statistics
Matches: 258, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
104 81 0.31
105 176 0.68
106 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:58637277 original size:29 final size:29
Alignment explanation
Indices: 58637244--58637307 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
58637234 TAATCCACCA
58637244 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
58637273 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
58637303 CCCAA
1 CCCAA
58637308 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:58637281 original size:30 final size:30
Alignment explanation
Indices: 58637251--58637307 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
58637241 CCACCCAACT
58637251 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
58637280 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
58637308 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:58638485 original size:26 final size:26
Alignment explanation
Indices: 58638456--58638505 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
58638446 TTATAAAAAG
58638456 GAAACAAATCCTGATAAAAATTATCA
1 GAAACAAATCCTGATAAAAATTATCA
* *
58638482 GAAACAAATCTTGATAAAATTTAT
1 GAAACAAATCCTGATAAAAATTAT
58638506 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (26 bp):
GAAACAAATCCTGATAAAAATTATCA
Found at i:58639886 original size:46 final size:46
Alignment explanation
Indices: 58639786--58640249 Score: 598
Period size: 46 Copynumber: 10.6 Consensus size: 46
58639776 TACATATGAT
58639786 CACTTATCACTTGTC-C-C-TGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTT-TCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58639829 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58639875 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTCAGGCTAA
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58639921 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGTTAA
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58639967 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGTTAA
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
58640013 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58640049 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58640095 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
58640131 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
58640177 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
58640223 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTCTCACTTGATCAGA
58640250 AGTACTCAAA
Statistics
Matches: 381, Mismatches: 16, Indels: 45
0.86 0.04 0.10
Matches are distributed among these distances:
36 57 0.15
38 5 0.01
39 1 0.00
40 4 0.01
41 4 0.01
42 5 0.01
43 14 0.04
44 6 0.02
45 18 0.05
46 267 0.70
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:58640054 original size:36 final size:36
Alignment explanation
Indices: 58640013--58640167 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
58640003 CTAAGGTTAA
58640013 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
58640049 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
58640091 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
58640131 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
58640167 C
1 C
58640168 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:58640060 original size:82 final size:82
Alignment explanation
Indices: 58639967--58640213 Score: 422
Period size: 82 Copynumber: 3.0 Consensus size: 82
58639957 CTAAGGTTAA
* * * *
58639967 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGTTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
58640032 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
*
58640049 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
58640114 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
58640131 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
58640196 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
58640213 C
1 C
58640214 TAATGCTACC
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 156 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:58640069 original size:128 final size:130
Alignment explanation
Indices: 58639786--58640249 Score: 555
Period size: 128 Copynumber: 3.6 Consensus size: 130
58639776 TACATATGAT
58639786 CACTTATCACTTGTC-C-C-TGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCAC
1 CACTTATCACTT-TCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
58639847 TTGATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGC
65 TTGATCAGATAAG-GTAGCTAAGG-TA-CACTTATCACTTTCTCACTTGATCAGATAAG-GTA-C
*
58639912 TCAGGCTAA
125 TAAGG---A
* * *
58639921 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGTTAACACTTATCACTTTCTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
*
58639986 TGATCAGATAAGTGTAGCTAAGGTTAACACTTATCACTTTGTCACTTGATCAGATAA-GTA-T-A
66 TGATCAGATAAG-GTAGCTAAGG-T-ACACTTATCACTTTCTCACTTGATCAGATAAGGTACTAA
58640048 -G-
128 GGA
* * *
58640049 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
*
58640114 TGATCAGATAA-GT-G-T-A-G--CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAT
66 TGATCAGATAAGGTAGCTAAGGTACACTTATCACTTTCTCACTTGATCAGATAAG-GTA-CTAA-
*
58640172 GCTA
128 G-GA
* *
58640176 CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCAC
1 -CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
58640241 TTGATCAGA
65 TTGATCAGA
58640250 AGTACTCAAA
Statistics
Matches: 296, Mismatches: 18, Indels: 37
0.84 0.05 0.11
Matches are distributed among these distances:
118 29 0.10
120 3 0.01
122 2 0.01
123 2 0.01
124 1 0.00
125 1 0.00
126 2 0.01
128 139 0.47
132 1 0.00
133 1 0.00
134 3 0.01
135 13 0.04
136 4 0.01
137 19 0.06
138 75 0.25
139 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (130 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGGTAGCTAAGGTACACTTATCACTTTCTCACTTGATCAGATAAGGTACTAAGGA
Found at i:58645484 original size:36 final size:36
Alignment explanation
Indices: 58645431--58645504 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
58645421 TTGTATAGGC
*
58645431 ATCAAAAAAGTTCTAGCTTTCTTTTCTTTTTGAAAA
1 ATCAAAAAAGTACTAGCTTTCTTTTCTTTTTGAAAA
*
58645467 ATCAAAAAA-TACTTAGCTTTCTTTTCTTTTTGTAAA
1 ATCAAAAAAGTAC-TAGCTTTCTTTTCTTTTTGAAAA
58645503 AT
1 AT
58645505 TCCATTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 33 0.94
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.46
Consensus pattern (36 bp):
ATCAAAAAAGTACTAGCTTTCTTTTCTTTTTGAAAA
Found at i:58655058 original size:11 final size:11
Alignment explanation
Indices: 58655030--58655072 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
58655020 AAAAATTTTA
*
58655030 AATTTTTTAAT
1 AATTTTTTAAG
58655041 ATATTTTTT-AG
1 A-ATTTTTTAAG
58655052 AATTTTTTAAG
1 AATTTTTTAAG
58655063 AATTTTTTAA
1 AATTTTTTAA
58655073 AAAATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 7 0.24
11 15 0.52
12 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
AATTTTTTAAG
Found at i:58655058 original size:22 final size:20
Alignment explanation
Indices: 58655025--58655073 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
58655015 TTTAGAAAAA
*
58655025 TTTTAAATTTTTTAATATATT
1 TTTTAAATTTTTTAAGA-ATT
58655046 TTTTAGAATTTTTTAAGAATT
1 TTTTA-AATTTTTTAAGAATT
58655067 TTTTAAA
1 TTTTAAA
58655074 AAATATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 13 0.50
22 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTTAAATTTTTTAAGAATT
Found at i:58655553 original size:21 final size:21
Alignment explanation
Indices: 58655527--58655592 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
58655517 TGGCTAATCT
58655527 TTATTAGCTTTAAATAGACCC
1 TTATTAGCTTTAAATAGACCC
*** * *
58655548 TTATTAG---TGGCTA-ATCT
1 TTATTAGCTTTAAATAGACCC
58655565 TTATTAGCTTTAAATAGACCC
1 TTATTAGCTTTAAATAGACCC
58655586 TTATTAG
1 TTATTAG
58655593 TGGACCTACA
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
17 9 0.29
18 3 0.10
20 3 0.10
21 16 0.52
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (21 bp):
TTATTAGCTTTAAATAGACCC
Found at i:58655554 original size:38 final size:38
Alignment explanation
Indices: 58655512--58655595 Score: 168
Period size: 38 Copynumber: 2.2 Consensus size: 38
58655502 CCAGAACTTC
58655512 ATTAGTGGCTAATCTTTATTAGCTTTAAATAGACCCTT
1 ATTAGTGGCTAATCTTTATTAGCTTTAAATAGACCCTT
58655550 ATTAGTGGCTAATCTTTATTAGCTTTAAATAGACCCTT
1 ATTAGTGGCTAATCTTTATTAGCTTTAAATAGACCCTT
58655588 ATTAGTGG
1 ATTAGTGG
58655596 ACCTACAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (38 bp):
ATTAGTGGCTAATCTTTATTAGCTTTAAATAGACCCTT
Found at i:58655912 original size:25 final size:26
Alignment explanation
Indices: 58655863--58655915 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
58655853 TGTTTCATTT
58655863 ATGTAAATTTATATACATTAATAATTC
1 ATGTAAATTTATATACATT-ATAATTC
*
58655890 ATGTAAATTTATATTCATT-TAATTC
1 ATGTAAATTTATATACATTATAATTC
58655915 A
1 A
58655916 AGCAACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.28
27 18 0.72
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (26 bp):
ATGTAAATTTATATACATTATAATTC
Found at i:58655925 original size:25 final size:26
Alignment explanation
Indices: 58655867--58655925 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
58655857 TCATTTATGT
* *
58655867 AAATTTATATACATTAATAATTCATGT
1 AAATTTATATACATT-ATAATTCAAGC
*
58655894 AAATTTATATTCATT-TAATTCAAGC
1 AAATTTATATACATTATAATTCAAGC
*
58655919 AACTTTA
1 AAATTTA
58655926 GTAAAATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.50
27 14 0.50
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (26 bp):
AAATTTATATACATTATAATTCAAGC
Found at i:58665001 original size:28 final size:28
Alignment explanation
Indices: 58664939--58665001 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
58664929 TAAAGCAGTG
*
58664939 TAAGTATGTACATATGTATGTTAAAAGA
1 TAAGTATGTACATATGTATGTTAAAACA
* *
58664967 TATGTATG-A-ATATGTGTGTATAAATACA
1 TAAGTATGTACATATGTATGT-TAAA-ACA
58664995 TAAGTAT
1 TAAGTAT
58665002 ATAAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.31
27 5 0.17
28 15 0.52
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.38
Consensus pattern (28 bp):
TAAGTATGTACATATGTATGTTAAAACA
Found at i:58675729 original size:15 final size:15
Alignment explanation
Indices: 58675709--58675740 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
58675699 CATCAACCTA
58675709 TACAAGTCTCTTAAT
1 TACAAGTCTCTTAAT
58675724 TACAAGTCTCTTAAT
1 TACAAGTCTCTTAAT
58675739 TA
1 TA
58675741 TATACAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (15 bp):
TACAAGTCTCTTAAT
Found at i:58679153 original size:99 final size:100
Alignment explanation
Indices: 58678972--58679165 Score: 270
Period size: 99 Copynumber: 1.9 Consensus size: 100
58678962 AGATCATAAC
* *
58678972 TAAATATTAAGTTGAACTTGTATTTTGAAAATTAAGATAACAAACGTTTAATAGTATCAATTTTG
1 TAAATATTAAGTTGAACTCGTATTTTGAAAATTAAGATAAC-AACGTTTAATAATATCAATTTTG
58679037 AGCGCAACGAAAATGCTAAAACCATCCTCGCACAAT
65 AGCGCAACGAAAATGCTAAAACCATCCTCGCACAAT
* *
58679073 TAAATATTGAA-TTGAACTCGTGTTTT-AAAAGTTAAGATAAC-ACGTTTAATAATATTAATTTT
1 TAAATATT-AAGTTGAACTCGTATTTTGAAAA-TTAAGATAACAACGTTTAATAATATCAATTTT
* *
58679135 GAGCGTAAC-AAAAGTGCTAAAACTATCCTCG
64 GAGCGCAACGAAAA-TGCTAAAACCATCCTCG
58679166 TAATTGATTC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
98 4 0.05
99 43 0.51
100 4 0.05
101 31 0.37
102 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (100 bp):
TAAATATTAAGTTGAACTCGTATTTTGAAAATTAAGATAACAACGTTTAATAATATCAATTTTGA
GCGCAACGAAAATGCTAAAACCATCCTCGCACAAT
Found at i:58684018 original size:18 final size:17
Alignment explanation
Indices: 58683985--58684023 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
58683975 TTTTATAAAT
58683985 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
58684003 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
58684020 TGTG
1 TGTG
58684024 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:58684262 original size:23 final size:23
Alignment explanation
Indices: 58684227--58684325 Score: 126
Period size: 23 Copynumber: 4.3 Consensus size: 23
58684217 AGTGTTATTG
* *
58684227 ATCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
58684250 GTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * * *
58684273 GTCAGTCGTCGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
*
58684296 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
58684319 ATCAGTG
1 ATCAGTG
58684326 TGGCACTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:58687178 original size:37 final size:37
Alignment explanation
Indices: 58687137--58687211 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
58687127 ATGATGAGTA
58687137 TGACATTTGCCTTAATATTTTCCTAGACTTTCATCCT
1 TGACATTTGCCTTAATATTTTCCTAGACTTTCATCCT
58687174 TGACATTTGCCTTAATATTTTCCTAGACTTTCATCCT
1 TGACATTTGCCTTAATATTTTCCTAGACTTTCATCCT
58687211 T
1 T
58687212 TCACATCAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.08, T:0.47
Consensus pattern (37 bp):
TGACATTTGCCTTAATATTTTCCTAGACTTTCATCCT
Found at i:58689309 original size:13 final size:13
Alignment explanation
Indices: 58689291--58689326 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
58689281 TTTGGCAATG
58689291 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
58689304 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
58689317 CTTTTGAAAA
1 CTTTTGAAAA
58689327 TTTTGGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:58693678 original size:233 final size:232
Alignment explanation
Indices: 58693272--58693736 Score: 867
Period size: 233 Copynumber: 2.0 Consensus size: 232
58693262 AAGTGTATGA
58693272 CTTGAATTCTGCTTCTTCTATTGAACCCTAAAGTCAAACTAAAAAAGCAGAGCATCTCTTAGAAA
1 CTTGAATTCTGCTTCTTCTATTGAACCCTAAAGTCAAACTAAAAAAGCAGAGCATCTCTTAGAAA
58693337 AAAAATGGAAGTACATGGATTCGTGTTGTTTAGTACTAACCTTAGCATCTGAATAAATGGAACCA
66 AAAAATGGAAGTACATGGATTCGTGTTGTTTAGTACTAACCTTAGCATCTGAATAAATGGAACCA
* *
58693402 ATTAAAAGTTACATGTTGTTGTTGTTGAAATATTGTTGGTTATTTTCAAGTTGGAATCAAAGAGG
131 ACTAAAAGTTACATATTGTTGTTGTTGAAATATTGTTGGTTATTTTCAAGTTGGAATCAAAGAGG
58693467 AAACTTCCAAATATTTGACTTCTGTTATCTACTTTGT
196 AAACTTCCAAATATTTGACTTCTGTTATCTACTTTGT
*
58693504 CTTGAATTCTGCTTCTTCTCTTGAACCCTAAAGTCAAACTAAAAAAGCAGAGCATCTCTTAGAAA
1 CTTGAATTCTGCTTCTTCTATTGAACCCTAAAGTCAAACTAAAAAAGCAGAGCATCTCTTAG-AA
* *
58693569 AAAAAATGGACGTACATGGATTCGTGTTGTTTAGTACTAGCCTTAGCATCTGAATAAATGGAACC
65 AAAAAATGGAAGTACATGGATTCGTGTTGTTTAGTACTAACCTTAGCATCTGAATAAATGGAACC
58693634 AACTAAAAGTTACATATTGTTGTTGTTGAAATATTGTTGGTTATTTTCAAGTTGGAATCAAAGAG
130 AACTAAAAGTTACATATTGTTGTTGTTGAAATATTGTTGGTTATTTTCAAGTTGGAATCAAAGAG
*
58693699 GAAACTTCCAAATATTTGACTTTTGTTATCTACTTTGT
195 GAAACTTCCAAATATTTGACTTCTGTTATCTACTTTGT
58693737 TGACATATTT
Statistics
Matches: 226, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
232 61 0.27
233 165 0.73
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (232 bp):
CTTGAATTCTGCTTCTTCTATTGAACCCTAAAGTCAAACTAAAAAAGCAGAGCATCTCTTAGAAA
AAAAATGGAAGTACATGGATTCGTGTTGTTTAGTACTAACCTTAGCATCTGAATAAATGGAACCA
ACTAAAAGTTACATATTGTTGTTGTTGAAATATTGTTGGTTATTTTCAAGTTGGAATCAAAGAGG
AAACTTCCAAATATTTGACTTCTGTTATCTACTTTGT
Found at i:58696504 original size:93 final size:93
Alignment explanation
Indices: 58696340--58696516 Score: 228
Period size: 93 Copynumber: 1.9 Consensus size: 93
58696330 TTGCAGCTCG
* * * * * * *
58696340 TGTGGTTCCTACCGACCATTCTTCTGCACCAGTTATCGGTTGTAACGCGAAAGGGTATACCCCTG
1 TGTGCTTCCTACCGAACATTCGTCGGCACCAGTCATCGGTGGTAACGCGAAAGGGCATACCCCTG
* *
58696405 TTTATGGAGAATCATGTCCTCCTCCAAA
66 TTTATGGAAAATCAGGTCCTCCTCCAAA
* ** * *
58696433 TGTGCTTCCTACTGAACATTCGTCGGCACCAGTCATCGGTGGTAACGTTACAGGGCATACCTCTG
1 TGTGCTTCCTACCGAACATTCGTCGGCACCAGTCATCGGTGGTAACGCGAAAGGGCATACCCCTG
58696498 TTTATGGAAAATCAGGTCC
66 TTTATGGAAAATCAGGTCC
58696517 CTCACCAAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (93 bp):
TGTGCTTCCTACCGAACATTCGTCGGCACCAGTCATCGGTGGTAACGCGAAAGGGCATACCCCTG
TTTATGGAAAATCAGGTCCTCCTCCAAA
Found at i:58696861 original size:9 final size:9
Alignment explanation
Indices: 58696847--58696874 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
58696837 ACTGATGAGA
58696847 ACTTATCGT
1 ACTTATCGT
58696856 ACTTATCGT
1 ACTTATCGT
58696865 ACTTATCGT
1 ACTTATCGT
58696874 A
1 A
58696875 ATAAGTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (9 bp):
ACTTATCGT
Found at i:58708694 original size:42 final size:42
Alignment explanation
Indices: 58708632--58708784 Score: 263
Period size: 42 Copynumber: 3.6 Consensus size: 42
58708622 GCTACAGAAG
* *
58708632 AAGAAGAAAAGGACAGTGGAAAAGAAGAAGAGGACATTGGAA
1 AAGAAGAAAAGGACAGTGGAAAAGAAGAAAAGGACGTTGGAA
*
58708674 AAGAAGAAAAGGACAATGGAAAAGAAGAAAAGGACGTTGGAA
1 AAGAAGAAAAGGACAGTGGAAAAGAAGAAAAGGACGTTGGAA
58708716 AAGAAGAAAAGGAC-GTTGGAAAAGAAGAAAAGGACGTTGGAA
1 AAGAAGAAAAGGACAG-TGGAAAAGAAGAAAAGGACGTTGGAA
58708758 AAGAAGAAAAGGACAGTGGAAAAGAAG
1 AAGAAGAAAAGGACAGTGGAAAAGAAG
58708785 TCGAGGAACC
Statistics
Matches: 105, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
42 104 0.99
43 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.33, T:0.07
Consensus pattern (42 bp):
AAGAAGAAAAGGACAGTGGAAAAGAAGAAAAGGACGTTGGAA
Found at i:58708791 original size:21 final size:21
Alignment explanation
Indices: 58708632--58708784 Score: 231
Period size: 21 Copynumber: 7.3 Consensus size: 21
58708622 GCTACAGAAG
58708632 AAGAAGAAAAGGACAGTGGAA
1 AAGAAGAAAAGGACAGTGGAA
* *
58708653 AAGAAGAAGAGGACATTGGAA
1 AAGAAGAAAAGGACAGTGGAA
*
58708674 AAGAAGAAAAGGACAATGGAA
1 AAGAAGAAAAGGACAGTGGAA
58708695 AAGAAGAAAAGGAC-GTTGGAA
1 AAGAAGAAAAGGACAG-TGGAA
58708716 AAGAAGAAAAGGAC-GTTGGAA
1 AAGAAGAAAAGGACAG-TGGAA
58708737 AAGAAGAAAAGGAC-GTTGGAA
1 AAGAAGAAAAGGACAG-TGGAA
58708758 AAGAAGAAAAGGACAGTGGAA
1 AAGAAGAAAAGGACAGTGGAA
58708779 AAGAAG
1 AAGAAG
58708785 TCGAGGAACC
Statistics
Matches: 125, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
21 124 0.99
22 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.33, T:0.07
Consensus pattern (21 bp):
AAGAAGAAAAGGACAGTGGAA
Found at i:58709629 original size:25 final size:25
Alignment explanation
Indices: 58709595--58709648 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
58709585 GTTTAAACTA
58709595 TGAATTTCTGAACTGTCTGAGAATT
1 TGAATTTCTGAACTGTCTGAGAATT
*
58709620 TGAATTTCTGCACTGTCTGAGAATT
1 TGAATTTCTGAACTGTCTGAGAATT
58709645 TGAA
1 TGAA
58709649 AGTTGAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (25 bp):
TGAATTTCTGAACTGTCTGAGAATT
Found at i:58729798 original size:19 final size:19
Alignment explanation
Indices: 58729774--58729810 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58729764 GAAGCAGCAA
*
58729774 AAAAGAAATAGAAAAATAG
1 AAAAGAAACAGAAAAATAG
*
58729793 AAAAGAGACAGAAAAATA
1 AAAAGAAACAGAAAAATA
58729811 AGGGGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAAGAAACAGAAAAATAG
Found at i:58739730 original size:19 final size:20
Alignment explanation
Indices: 58739708--58739754 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
58739698 AATCAAAATC
*
58739708 AAAATCAAAAAG-AAAAGAG
1 AAAATCAAAAAGCAAAAAAG
*
58739727 AAAAGC-AAAAGCAAAAAAG
1 AAAATCAAAAAGCAAAAAAG
58739746 AGAAATCAA
1 A-AAATCAA
58739755 TCAAAGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 4 0.18
21 1 0.05
ACGTcount: A:0.72, C:0.09, G:0.15, T:0.04
Consensus pattern (20 bp):
AAAATCAAAAAGCAAAAAAG
Found at i:58740174 original size:6 final size:7
Alignment explanation
Indices: 58740161--58740206 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
58740151 AAAAAAGAAG
58740161 ATGAAAA
1 ATGAAAA
58740168 ATG-AAA
1 ATGAAAA
58740174 ATGAAAA
1 ATGAAAA
58740181 ATGAAAA
1 ATGAAAA
*
58740188 ATGAAAG
1 ATGAAAA
58740195 A-GTAAAA
1 ATG-AAAA
58740202 ATGAA
1 ATGAA
58740207 GAGGCTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 7 0.21
7 26 0.76
8 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:58740174 original size:20 final size:19
Alignment explanation
Indices: 58740161--58740206 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
58740151 AAAAAAGAAG
58740161 ATGAAAAATGAAAATGAAAA
1 ATGAAAAATGAAAA-GAAAA
58740181 ATGAAAAATGAAAGAGTAAAA
1 ATGAAAAATGAAA-AG-AAAA
58740202 ATGAA
1 ATGAA
58740207 GAGGCTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.15
Consensus pattern (19 bp):
ATGAAAAATGAAAAGAAAA
Found at i:58740177 original size:13 final size:13
Alignment explanation
Indices: 58740151--58740193 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
58740141 TTTCAAAAAA
* *
58740151 AAAAAAGAAGATG
1 AAAAATGAAAATG
58740164 AAAAATGAAAATG
1 AAAAATGAAAATG
58740177 AAAAATGAAAAATG
1 AAAAATG-AAAATG
58740191 AAA
1 AAA
58740194 GAGTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:58741506 original size:87 final size:87
Alignment explanation
Indices: 58741360--58741754 Score: 619
Period size: 87 Copynumber: 4.5 Consensus size: 87
58741350 CAGATCAGTG
* * *
58741360 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
58741425 TCGGTTGTAGTGGAGCAGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* *
58741447 AAGATAGCAGATCTTGCATTCCTGCGTTAACAGTGAAGCAGATCAAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
58741512 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
*
58741534 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCATTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
58741599 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* * *
58741621 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAACAGATCGAAAACGAAGCCTTGCCTACA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
58741686 TCGTTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* * ** ** *
58741708 AAAATAGCAGATCTTGCCCTCCTATGTCGACTGTGAAGCAGATCGAA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAA
58741755 GATCACAAGT
Statistics
Matches: 285, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 285 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTGGAGCTGGTTA
Found at i:58741523 original size:42 final size:42
Alignment explanation
Indices: 58741394--58741610 Score: 122
Period size: 42 Copynumber: 5.0 Consensus size: 42
58741384 CATTGACAGC
* *
58741394 GAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGT
1 GAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGT
* * * * * * *
58741436 GGAGCAGGTTAAAGATAGCAGA-TCTTGCATTCC-T-GCGTTAACAGT
1 GAAGCAGATCAAA-A-A-CAAAGCCTTGC-CTCCATCG-GTT-GCAGT
58741481 GAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGT
1 GAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGT
* * * * * * *
58741523 GGAGCTGGTTAAAGATAGCAGA-TCTTGCCTTCC-T-GCGTTAACAGT
1 GAAGCAGATCAAA-A-A-CAAAGCCTTGCC-TCCATCG-GTT-GCAGT
* *
58741568 GAAGCAGATCGAAAACAAAGCATTGCCTCCATCGGTTGCAGT
1 GAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGT
58741610 G
1 G
58741611 GAGCTGGTTA
Statistics
Matches: 125, Mismatches: 32, Indels: 36
0.65 0.17 0.19
Matches are distributed among these distances:
42 39 0.31
43 24 0.19
44 25 0.20
45 37 0.30
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (42 bp):
GAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGT
Found at i:58741851 original size:44 final size:44
Alignment explanation
Indices: 58741803--58741931 Score: 125
Period size: 44 Copynumber: 2.9 Consensus size: 44
58741793 GTTGAAAATT
* *
58741803 ACAAGTCTTATCTCCCTGAGGTTGCAGCGGAACAAACTG-AGAAA
1 ACAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAACTGAAG-AA
* * * * ** * *
58741847 ACAAGCCTTATCCCCCTAAAGTCACAGTGGGGCAGACTGAAGAA
1 ACAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAACTGAAGAA
* * *
58741891 GCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAAATTGAA
1 ACAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAACTGAA
58741932 TTCGATAATC
Statistics
Matches: 63, Mismatches: 21, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
44 61 0.97
45 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (44 bp):
ACAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAACTGAAGAA
Found at i:58745208 original size:89 final size:89
Alignment explanation
Indices: 58745021--58745213 Score: 208
Period size: 89 Copynumber: 2.2 Consensus size: 89
58745011 CATATCAAGT
** * * * *
58745021 CTTATCTCCCTGAAATTGCAGCAAAGTAGACTAAAAATAGCAGATCTTATCTTTCTGTACCAGCA
1 CTTATCTCCCTGAGTTTGCAGCAAAGCAAACTAAAAATAGCAGATCTTATCTTCCTATACCAGCA
*
58745086 GCGAAATAGATCAAAGACACCAGC
66 GCGAAACAGATCAAAGACACCAGC
* * ** * * * * *
58745110 CTGACCTCCCTGAGTTTGCAGCGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTATACTAGTA
1 CTTATCTCCCTGAGTTTGCAGCAAAGCAAACTAAAAATAGCAGATCTTATCTTCCTATACCAGCA
*
58745175 GCGAAGCAGATCGAAAG-CACCAGC
66 GCGAAACAGATC-AAAGACACCAGC
*
58745199 CTTATCTCCCGGAGT
1 CTTATCTCCCTGAGT
58745214 AGCAGTTGAG
Statistics
Matches: 83, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
89 79 0.95
90 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (89 bp):
CTTATCTCCCTGAGTTTGCAGCAAAGCAAACTAAAAATAGCAGATCTTATCTTCCTATACCAGCA
GCGAAACAGATCAAAGACACCAGC
Found at i:58745489 original size:44 final size:44
Alignment explanation
Indices: 58745385--58745497 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
58745375 CACAACGGCG
* * *
58745385 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCTACT
1 AATCATATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACGACT
* *
58745429 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGA-T
1 AATCATATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACGACT
*
58745472 GAATCATATAC-CTCTGAAGTTGCAGT
1 -AATCATAT-CTCCCTGAAGTTGCAGT
58745498 AGGTCGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 59 0.97
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
AATCATATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACGACT
Found at i:58751731 original size:72 final size:72
Alignment explanation
Indices: 58751580--58751721 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 72
58751570 TCTCGGATTT
* * *
58751580 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAGTTTAAAA
58751645 CTTGAGA
66 CTTGAGA
* * *
58751652 AAAAAAAGGATTATGCCCAGTAAGTTAGGACACGGTCTCTTCTTAATTCTCGAGATAGTTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAGTTTAAAA
58751717 CTTGA
66 CTTGA
58751722 ATTTGAAAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (72 bp):
AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAGTTTAAAA
CTTGAGA
Found at i:58752210 original size:27 final size:26
Alignment explanation
Indices: 58752172--58752223 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
58752162 AAATAAATAA
*
58752172 ATAAAAGTTATGTAGGTATATATATT
1 ATAAAAATTATGTAGGTATATATATT
*
58752198 ATAAAAATGTATGTATGTATATATAT
1 ATAAAAAT-TATGTAGGTATATATAT
58752224 ACATAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (26 bp):
ATAAAAATTATGTAGGTATATATATT
Found at i:58752526 original size:21 final size:23
Alignment explanation
Indices: 58752502--58752543 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
58752492 CGCAGGGCAA
58752502 AATTTAAAAAA-A-TAAAAACCT
1 AATTTAAAAAATATTAAAAACCT
58752523 AATTTAAAAAATATTAAAAAC
1 AATTTAAAAAATATTAAAAAC
58752544 GGAAGGGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTTAAAAAATATTAAAAACCT
Found at i:58759789 original size:22 final size:23
Alignment explanation
Indices: 58759767--58759824 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
58759757 ACCACAATTA
58759767 TAATTATAATTATAATTTT-TTAT
1 TAATT-TAATTATAATTTTGTTAT
*
58759790 TAATTTAAATATAATTTTGTTAT
1 TAATTTAATTATAATTTTGTTAT
58759813 TAATTT-ATTATA
1 TAATTTAATTATA
58759825 TATATTACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TAATTTAATTATAATTTTGTTAT
Found at i:58759812 original size:23 final size:22
Alignment explanation
Indices: 58759767--58759819 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 22
58759757 ACCACAATTA
*
58759767 TAATTATAATTATAATTTTTTAT
1 TAATT-TAAATATAATTTTTTAT
58759790 TAATTTAAATATAATTTTGTTAT
1 TAATTTAAATATAATTTT-TTAT
58759813 TAATTTA
1 TAATTTA
58759820 TTATATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TAATTTAAATATAATTTTTTAT
Found at i:58759829 original size:28 final size:24
Alignment explanation
Indices: 58759769--58759826 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
58759759 CACAATTATA
58759769 ATTATAATTATAATTTTTTATTAAT
1 ATTATAA-TATAATTTTTTATTAAT
58759794 -TTA-AATATAATTTTGTTATTAAT
1 ATTATAATATAATTTT-TTATTAAT
*
58759817 -TTATTATATA
1 ATTATAATATA
58759827 TATTACCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.30
23 13 0.43
24 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
ATTATAATATAATTTTTTATTAAT
Found at i:58765095 original size:22 final size:22
Alignment explanation
Indices: 58765055--58765096 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58765045 TATTTGTGCA
* *
58765055 TTATAATAATTTAATTATATGG
1 TTATAATAATTCAAATATATGG
*
58765077 TTATAATTATTCAAATATAT
1 TTATAATAATTCAAATATAT
58765097 ATTATTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
TTATAATAATTCAAATATATGG
Found at i:58767331 original size:16 final size:15
Alignment explanation
Indices: 58767306--58767345 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
58767296 AGTCTCTTAG
*
58767306 AATTATAAAATGTTA
1 AATTATAAAATGATA
58767321 AATTAATAAAATGATA
1 AATT-ATAAAATGATA
58767337 AATTTATAA
1 AA-TTATAA
58767346 TTCAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 16 0.73
17 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
AATTATAAAATGATA
Found at i:58770176 original size:3 final size:3
Alignment explanation
Indices: 58770170--58770209 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
58770160 TTATTTAACC
* *
58770170 TTA TTA TTG TTA TTA TTA TTA ATA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
58770210 GTTTTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:58776889 original size:87 final size:87
Alignment explanation
Indices: 58776780--58777047 Score: 437
Period size: 87 Copynumber: 3.1 Consensus size: 87
58776770 ATCTGCATCA
* *
58776780 AAGATAGCAGATCTGACCTTCCTGCATTAACAGCGAAGCAAATTGAAAACAAAGCCTTGTCTCCA
1 AAGATAGCAGATCTGGCCTTCCTGCATTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCA
*
58776845 TCGGTTGTAATGGAGCTGATTG
66 TCGGTTGTAGTGGAGCTGATTG
* *
58776867 AAGATAGCAGATCTGGCCTTCCTGCATTAACTGCGAAGCAGATTAAAAACAAAGCCTTGTCTCCA
1 AAGATAGCAGATCTGGCCTTCCTGCATTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCA
* * *
58776932 TCGGTTGCAGTGGAACTGGTTG
66 TCGGTTGTAGTGGAGCTGATTG
* *
58776954 AAGATAGCAGATCTGGCCTTCCTGCGTTAACAGCGAAGCAGATTGAAAACAAAGCATTGTCTCCA
1 AAGATAGCAGATCTGGCCTTCCTGCATTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCA
*
58777019 TCGGTTGTAGTAGAGCTGATTG
66 TCGGTTGTAGTGGAGCTGATTG
58777041 AAGATAG
1 AAGATAG
58777048 TAATCCTATC
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 165 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (87 bp):
AAGATAGCAGATCTGGCCTTCCTGCATTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCA
TCGGTTGTAGTGGAGCTGATTG
Found at i:58777248 original size:44 final size:43
Alignment explanation
Indices: 58777131--58778336 Score: 445
Period size: 44 Copynumber: 27.7 Consensus size: 43
58777121 TCGCATCAGG
* **
58777131 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAG-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG----TCAGAA
** * *
58777177 TCTCGTCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAG-AA
* * * * * *
58777221 TCCTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATTAAAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGA-A
* * * * * *
58777265 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG-G
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTCAGAA
* * * *
58777306 TCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGA-A
* * * **
58777350 TCTTATCTCACTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGAA
* * * * * * * *
58777393 TCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGT-CAGAA
* ** * * * *
58777437 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TCAG-G
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTCAGAA
* * * * **
58777478 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG----TCAGAA
* * *
58777524 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGA-A
* * * **
58777568 TCTTATCTCCCTAAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGAA
* * * * * * * *
58777611 TCCTATCTCCCT-AAAGTTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGT-CAGAA
* * * * *
58777655 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCATG--
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTCA-GAA
* * * *
58777696 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACTGAAGAATTTCAG-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG----TCAGAA
* * *
58777742 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGA-A
* * * * **
58777786 TCTTATCTCCCTTAGATTACAGCGGAGCAAATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGAA
* * * * * * * *
58777829 TCCTATCTCCTTGA-AGTTACAGTGAAGC-GAATTAAAATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAG-ATTGAAGT-CAGAA
* * * * * * *
58777873 TCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCA-TCAG-G
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGAA
* * * * **
58777914 TCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCAG-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG----TCAGAA
* **
58777960 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGAA
* * * * * * * *
58778003 TCCTATCTACCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGT-CAGAA
* * * * * * *
58778047 TCTTATCTCTCTGA-AGTTACAACAGAGTAGATCGCA-TCAG-C
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTCAGAA
* * ** * **
58778088 TCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAATTTCAG-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG----TCAGAA
* * *
58778134 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGATA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGA-A
* * * **
58778178 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGAA
* * * * * * *
58778221 TCCTATCTCCCTGA-AGTTACAGTGTAGCGGATTAAAATCACAGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTCAGA-A
* ** * * *
58778265 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATTGCA-TCAG-G
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTCAGAA
* * *
58778306 TCTTATCTCCTTGAGGTTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
58778337 CCAAAGAAAC
Statistics
Matches: 877, Mismatches: 228, Indels: 115
0.72 0.19 0.09
Matches are distributed among these distances:
41 169 0.19
42 30 0.03
43 156 0.18
44 340 0.39
45 3 0.00
46 179 0.20
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAGAA
Found at i:58777440 original size:87 final size:87
Alignment explanation
Indices: 58777131--58778363 Score: 530
Period size: 87 Copynumber: 14.2 Consensus size: 87
58777121 TCGCATCAGG
** * **
58777131 TCTTATCTCCCTG-AGATTACAGTGGAGCAGACCGAAGAATTTCA-GATCTCGTCTCCCTGAGAT
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TTAA-AA-TACAGGATCTTATCTCCCTGAGAT
* * **
58777194 TACAGTGGAGCAGATTGAAGTTA-GTAA
62 TACAGCGGAGCAGATCGAAGACACG--A
* * * * *
58777221 TCCTATCTCCCTG-AGATTACAGCGGAGCGGATTAAAATTA-AAGATCTTATCTCTCTGA-AGTT
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAA-TACAGGATCTTATCTCCCTGAGA-TT
* * * * *
58777283 ACAGCAGAGTAGATCGCA-TCA-GG
63 ACAGCGGAGCAGATCGAAGACACGA
* * * ** *
58777306 TCTTATCTCCTTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCACTGAGATTAC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG-GATCTTATCTCCCTGAGATTAC
*
58777370 AGCGGAGCAGATCGAAGACACTA
65 AGCGGAGCAGATCGAAGACACGA
* * * * *
58777393 TCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTAC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAGA-TTAC
** * * * *
58777457 AGTAGAGTAGATCGCA-TCA-GG
65 AGCGGAGCAGATCGAAGACACGA
* * * ** * *
58777478 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-GATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TACAGGATCTTATCTCCCTGAGATT
* * * *
58777542 ACAGTGGAGCAGATTGAAGCCAGAGA
63 ACAGCGGAGCAGATCGAAGACA-CGA
* ** * ** * *
58777568 TCTTATCTCCCT-AAGATTACAGCGGAGCAGA-TCGAAGACACTATCCTATCTCCCT-AAAGTTA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAGA-TTA
* * ** * * *
58777630 CAGTGGAGCGGATTAAAATAAAGGA
64 CAGCGGAGCAGA-TCGAAGACACGA
* ** * *** * *
58777655 TCTTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCAT-CATG-TCTTATCTCCCTGAGGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAGATTACA
* *
58777717 GTGGAGTAGA-CTGAAGA-ATTTCAGA
66 GCGGAGCAGATC-GAAGACA---C-GA
* * ** *
58777742 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCCCTTAGATTAC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG-GATCTTATCTCCCTGAGATTAC
* *
58777806 AGCGGAGCAAATCGAAGACACTA
65 AGCGGAGCAGATCGAAGACACGA
* * * * * *
58777829 TCCTATCTCCTTGAAGTTACAGTGAAGC-GAATTAAAATAAAGGATCTTATCTCTCTGAGGTTAC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAG-ATTAAAATACAGGATCTTATCTCCCTGAGATTAC
* * * * *
58777893 AGCAGAGTAGATCGCA-TCA-GG
65 AGCGGAGCAGATCGAAGACACGA
* ** *
58777914 TCTTATCTCCCT-AAGGTTACAGTGGAGTAGACCGAAGAATTTCA-GATCTTATCTCCCTGAGAT
1 TCTTATCTCCCTGAA-GTTACAGTGGAGCAGA-TTAA-AA-TACAGGATCTTATCTCCCTGAGAT
* *
58777977 TACAGCGGAGCAGATTGAAGACACTA
62 TACAGCGGAGCAGATCGAAGACACGA
* * * * *
58778003 TCCTATCTACCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTAC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAGA-TTAC
* * * * * *
58778067 AACAGAGTAGATCGCA-TCA-GC
65 AGCGGAGCAGATCGAAGACACGA
* * ** * *
58778088 TCTTATCTCCCT-AAGGTTACAGTAGAGTAGACCGAAGAATTTCA-GATCTTATCTCCCTGAGGT
1 TCTTATCTCCCTGAA-GTTACAGTGGAGCAGA-TTAA-AA-TACAGGATCTTATCTCCCTGAGAT
* * *
58778151 TACAGTGGAGCAGATTGAAGCCA-GATA
62 TACAGCGGAGCAGATCGAAGACACG--A
* * ** * ** *
58778178 TCTTATCTCCTTG-AGATTACAGCGGAGCAGA-TCGAAGACACTATCCTATCTCCCTGA-AGTTA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAGA-TTA
* * * * *
58778240 CAGTGTAGCGGAT-TAAAATCACAGA
64 CAGCGGAGCAGATCGAAGA-CAC-GA
* * * ** * *
58778265 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATT-GCAT-CAGG-TCTTATCTCCTTGAGGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAGATTACA
* * * *
58778327 GTGGAGCAGACCAAAGAAACCGA
66 GCGGAGCAGATCGAAGACA-CGA
*
58778350 TCCTATCTCCCTGA
1 TCTTATCTCCCTGA
58778364 CATAGCAGTG
Statistics
Matches: 854, Mismatches: 223, Indels: 137
0.70 0.18 0.11
Matches are distributed among these distances:
83 1 0.00
84 10 0.01
85 194 0.23
86 38 0.04
87 399 0.47
88 69 0.08
89 31 0.04
90 110 0.13
91 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAGATTACA
GCGGAGCAGATCGAAGACACGA
Found at i:58777466 original size:172 final size:174
Alignment explanation
Indices: 58777048--58777595 Score: 663
Period size: 172 Copynumber: 3.2 Consensus size: 174
58777038 TTGAAGATAG
* * *
58777048 TAATCCTATCTCCCTGAGATTATAGTGGAGCGG------ATTAAAGGATCTTATCTCTCTAAAGT
1 TAATCCTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATTAAAGGATCTTATCTCTCTGAAGT
* *
58777107 TACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATT
66 TACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTACAGTGGAGCAGACCGAAGAA--
* * * * ** *
58777172 TCAGATCTCGTCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG
129 TCAGATCTCATCTCACTGAGATTACAGCGGAGCAGATCGAAGACAC
58777218 TAATCCTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATTAAA-GATCTTATCTCTCTGAAGT
1 TAATCCTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATTAAAGGATCTTATCTCTCTGAAGT
* ** *
58777282 TACAGCAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA-
66 TACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTACAGTGGAGCAGACCGAAG-AAT
* *
58777346 GAGATCTTATCTCACTGAGATTACAGCGGAGCAGATCGAAGACAC
130 CAGATCTCATCTCACTGAGATTACAGCGGAGCAGATCGAAGACAC
* *
58777391 T-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAA-TAAAGGATCTTATCTCTCTGAAG
1 TAATCCTATCTCCCTGAGA-TTACAGCGGAGCGGATTAAAATTAAAGGATCTTATCTCTCTGAAG
*
58777453 TTACAGTAGAGTAGATCGCATCAGGTCTTATCT-CTCTGAGGTTACAGTGGAGTAGACCGAAGAA
65 TTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCT-TGAGGTTACAGTGGAGCAGACCGAAGAA
* * * * * *
58777517 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-
129 --TCAGATCTCATCTCACTGAGATTACAGCGGAGCAGATCGAAGACAC
* * *
58777564 GAGATCTTATCTCCCTAAGATTACAGCGGAGC
1 TA-ATCCTATCTCCCTGAGATTACAGCGGAGC
58777596 AGATCGAAGA
Statistics
Matches: 326, Mismatches: 36, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
170 31 0.10
171 8 0.02
172 107 0.33
173 37 0.11
174 38 0.12
175 97 0.30
176 8 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (174 bp):
TAATCCTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATTAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTACAGTGGAGCAGACCGAAGAATC
AGATCTCATCTCACTGAGATTACAGCGGAGCAGATCGAAGACAC
Found at i:58777553 original size:218 final size:217
Alignment explanation
Indices: 58777301--58777996 Score: 1212
Period size: 218 Copynumber: 3.2 Consensus size: 217
58777291 GTAGATCGCA
* * * *
58777301 TCAGGTCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCACTGAGA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGA
58777366 TTACAGCGGAGCAGATCGAAGACACTATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAAT
66 TTACAGCGGAGCAGATCGAAGACACTATCCTATCTC-CTGAAGTTACAGTGGAGCGGATTAAAAT
* *
58777431 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTT
130 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTT
58777496 ACAGTGGAGTAGACCGAAGAATT
195 ACAGTGGAGTAGACCGAAGAATT
58777519 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGA
*
58777584 TTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAAT
66 TTACAGCGGAGCAGATCGAAGACACTATCCTATCT-CCTGAAGTTACAGTGGAGCGGATTAAAAT
*
58777649 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCATGTCTTATCTCCCTGAGGTT
130 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTT
*
58777714 ACAGTGGAGTAGACTGAAGAATT
195 ACAGTGGAGTAGACCGAAGAATT
*
58777737 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTTAGA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGA
* * *
58777802 TTACAGCGGAGCAAATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGAAGCGAATTAAAAT
66 TTACAGCGGAGCAGATCGAAGACACTATCCTATCTCC-TGAAGTTACAGTGGAGCGGATTAAAAT
* *
58777867 AAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTT
130 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTT
58777932 ACAGTGGAGTAGACCGAAGAATT
195 ACAGTGGAGTAGACCGAAGAATT
* *
58777955 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
58777997 ACACTATCCT
Statistics
Matches: 456, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
217 2 0.00
218 453 0.99
219 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGA
TTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCTGAAGTTACAGTGGAGCGGATTAAAATA
AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTA
CAGTGGAGTAGACCGAAGAATT
Found at i:58778038 original size:392 final size:391
Alignment explanation
Indices: 58777083--58778344 Score: 1606
Period size: 392 Copynumber: 3.2 Consensus size: 391
58777073 TGGAGCGGAT
* *
58777083 TAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGAT
1 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
** *
58777148 TACAGTGGAGCAGACCGAAGAATTTCAGATCTCGTCTCCCTGAGATTACAGTGGAGCAGATTGAA
66 TACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
** * *
58777213 GTTAGTAATCCTATCTCCCTG-AGATTACAGCGGAGCGGATTAAAATTAAA-GATCTTATCTCTC
131 GACACT-ATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAA-TAAAGGATCTTATCTCTC
* * *
58777276 TGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGA
193 TGAAGTTACAGCAGAGTAGATCGCATCA-GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACTGA
* * * * * * * * *
58777341 AGCCA---GAGATCTTATCTCACTGAGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCTC
257 AG-AATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGATATCTTATCTC
* * * * * ** * * ** *
58777402 TCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCT-CTCTGAAGTTACAGT-AGAG
321 CCTTAGA-TTACAGCGGAGC-AAATCGAAGACACTATCCTATCTCCT-TGAAGTTACAGTGA-AG
* ***
58777464 -TAGA-TCGCA
382 CGA-ATTAAAA
* * * * * *
58777473 T-CAGG-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
1 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA--TCAGGTCTTATCTCCCT
** * * *
58777536 GAGGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTAAGATTACAGCGGAGCAG
61 GAGGTTACAGTGGAGCAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAG
* *
58777598 ATCGAAGACACTATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCT
125 ATTGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCT
58777663 CTCTGAAGTTACAGCAGAGTAGATCGCATCATGTCTTATCTCCCTGAGGTTACAGTGGAGTAGAC
190 CTCTGAAGTTACAGCAGAGTAGATCGCATCA-GTCTTATCTCCCTGAGGTTACAGTGGAGTAGAC
*
58777728 TGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATC
254 TGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGATATCTTATC
58777793 TCCCTTAGATTACAGCGGAGCAAATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGAAGCG
319 TCCCTTAGATTACAGCGGAGCAAATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGAAGCG
58777858 AATTAAAA
384 AATTAAAA
* * *
58777866 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGGT
1 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
*
58777931 TACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
66 TACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
*
58777996 GACACTATCCTATCTACCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA
131 GACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA
* * * *
58778061 AGTTACAACAGAGTAGATCGCATCAGCTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGA
196 AGTTACAGCAGAGTAGATCGCATCAG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACTGAAGA
58778126 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGATATCTTATCT-CCTT
260 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGATATCTTATCTCCCTT
* * * *
58778190 GAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGTAGCGGATTA
325 -AGATTACAGCGGAGCAAATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGAAGCGAATTA
58778255 AAA
389 AAA
* * *
58778258 TCACA-GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAGGTCTTATCTCCTTGAGG
1 T-AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
*
58778322 TTACAGTGGAGCAGACCAAAGAA
65 TTACAGTGGAGCAGACCGAAGAA
58778345 ACCGATCCTA
Statistics
Matches: 762, Mismatches: 85, Indels: 48
0.85 0.09 0.05
Matches are distributed among these distances:
388 29 0.04
389 9 0.01
390 147 0.19
391 46 0.06
392 426 0.56
393 70 0.09
394 5 0.01
395 30 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (391 bp):
TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
TACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
GACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA
AGTTACAGCAGAGTAGATCGCATCAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACTGAAGAA
TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGATATCTTATCTCCCTTA
GATTACAGCGGAGCAAATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGAAGCGAATTAAA
A
Found at i:58778064 original size:218 final size:219
Alignment explanation
Indices: 58777301--58778287 Score: 1042
Period size: 218 Copynumber: 4.5 Consensus size: 219
58777291 GTAGATCGCA
* * * * * * * *
58777301 TCAGGTCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCACTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAGAGATCCTATCTCCCTAAGA
* ** * * *
58777366 TTACAGCGGAGCAGA-TCGAAGACACTATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAA
66 TTACAGCGGAGCGGATTAAAAGACACGATCCTATCTCTCTGAAGTTACAGTGAAGCGAATTAAAA
* *
58777430 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGT
131 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
58777495 TACAGTGGAGTAGACCGAAGAATT
196 TACAGTGGAGTAGACCGAAGAATT
* * * *
58777519 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAGAGATCCTATCTCCCTAAGA
* ** * * * * *
58777584 TTACAGCGGAGCAGA-TCGAAGACACTATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAA
66 TTACAGCGGAGCGGATTAAAAGACACGATCCTATCTCTCTGAAGTTACAGTGAAGCGAATTAAAA
*
58777648 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCATGTCTTATCTCCCTGAGGT
131 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
*
58777713 TACAGTGGAGTAGACTGAAGAATT
196 TACAGTGGAGTAGACCGAAGAATT
* * * * *
58777737 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTTAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAGAGATCCTATCTCCCTAAGA
* * ** *
58777802 TTACAGCGGAGC-AAATCGAAGACACTATCCTATCTC-CTTGAAGTTACAGTGAAGCGAATTAAA
66 TTACAGCGGAGCGGATTAAAAGACACGATCCTATCTCTC-TGAAGTTACAGTGAAGCGAATTAAA
* *
58777865 ATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGG
130 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
58777930 TTACAGTGGAGTAGACCGAAGAATT
195 TTACAGTGGAGTAGACCGAAGAATT
** *
58777955 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA-CTATCCTATCTACCTGAAG
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAGAGATCCTATCTCCCT-AAG
* * * * * *
58778019 -TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA---ACAGAGTAGA-T
65 ATTACAGCGGAGCGGATTAAAAGACACGATCCTATCTCTCTGAAGTTACAGTGA-AGCG-A-ATT
*** * * * * * * *
58778079 CGCAT-CA-GCTCTTATCTCCCT-AAGGTTACAGTAGAGTAGACCGAAGAATTTCAGATCTTATC
127 AAAATAAAGGATCTTATCTCTCTGAA-GTTACAGCAGAGTAGATC---GCA--TCAGGTCTTATC
* **
58778141 TCCCTGAGGTTACAGTGGAGCAGATTGAAG----
186 TCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
* * * **
58778171 CCAGATATCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGA
1 TCAG--ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAGAGATCCTATCTCCCT-A
* * * *
58778235 AG-TTACAGTGTAGCGGATTAAAA-TCACAGATCTTATCTCTCTGAAGTTACAGT
63 AGATTACAGCGGAGCGGATTAAAAGACAC-GATCCTATCTCTCTGAAGTTACAGT
58778288 AGAGTAGATT
Statistics
Matches: 689, Mismatches: 61, Indels: 36
0.88 0.08 0.05
Matches are distributed among these distances:
214 1 0.00
215 29 0.04
216 7 0.01
217 29 0.04
218 585 0.85
219 1 0.00
220 37 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (219 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAGAGATCCTATCTCCCTAAGA
TTACAGCGGAGCGGATTAAAAGACACGATCCTATCTCTCTGAAGTTACAGTGAAGCGAATTAAAA
TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
TACAGTGGAGTAGACCGAAGAATT
Found at i:58778237 original size:174 final size:174
Alignment explanation
Indices: 58777783--58778241 Score: 586
Period size: 174 Copynumber: 2.6 Consensus size: 174
58777773 TTGAAGCCAG
* * * *
58777783 AGATCTTATCTCCCTTAGATTACAGCGGAGCAAATCGAAGACACTATCCTATCT-CCTTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAATATCCTATCTACC-TGAAGTT
* * * * * * *
58777847 ACAGTGAAGC-GAATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATC
65 ACAGCGGAGCAG-ATTAAAAGAAACGATCCTATCTCTCTGAAGTTACAACAGAGTAGATCGCATC
* *
58777911 AGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTC
129 AGCTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAATTTC
*
58777957 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTATCCTATCTACCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAATATCCTATCTACCTGAAGTTA
* * * * *
58778022 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAG
66 CAGCGGAGCAGATTAAAAGAAACGATCCTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAG
58778087 CTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAATTTC
131 CTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAATTTC
* * * *
58778131 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGATATCTTATCT-CCTTG-AGA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA-ATATCCTATCTACC-TGAAG-
** * * *
58778194 TTACAGCGGAGCAGA-TCGAAGACACTATCCTATCTCCCTGAAGTTACA
63 TTACAGCGGAGCAGATTAAAAGAAACGATCCTATCTCTCTGAAGTTACA
58778242 GTGTAGCGGA
Statistics
Matches: 257, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
174 230 0.89
175 27 0.11
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (174 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAATATCCTATCTACCTGAAGTTA
CAGCGGAGCAGATTAAAAGAAACGATCCTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAG
CTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAATTTC
Found at i:58779841 original size:10 final size:10
Alignment explanation
Indices: 58779826--58779850 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58779816 ATTATTACTA
58779826 TTATTAGTTT
1 TTATTAGTTT
58779836 TTATTAGTTT
1 TTATTAGTTT
58779846 TTATT
1 TTATT
58779851 TTCCTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
TTATTAGTTT
Found at i:58783141 original size:83 final size:84
Alignment explanation
Indices: 58783000--58783155 Score: 212
Period size: 83 Copynumber: 1.9 Consensus size: 84
58782990 ATTGGCTGAA
* *
58783000 ATTTTAAGTAAAATTTTAACTATTTCATATAAACAAGTCTATTAATTATAATTTATTAAATAAAA
1 ATTTTAAGTAAAATTTTAAC-ATTTCATATAAACAAATCTATTAATCATAATTTATTAAATAAAA
*
58783065 ATGATCTTAATTAAAATATT
65 ATAATCTTAATTAAAATATT
*
58783085 ATTTTAA-TAAAATGTTTAA-ATTTCATATGAAA-AAATCTATTAATCAT-ATTTGATTAAATGA
1 ATTTTAAGTAAAAT-TTTAACATTTCATAT-AAACAAATCTATTAATCATAATTT-ATTAAATAA
58783146 AAATAATCTT
63 AAATAATCTT
58783156 TAATGAGCGG
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
82 4 0.06
83 39 0.61
84 9 0.14
85 12 0.19
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (84 bp):
ATTTTAAGTAAAATTTTAACATTTCATATAAACAAATCTATTAATCATAATTTATTAAATAAAAA
TAATCTTAATTAAAATATT
Found at i:58785141 original size:19 final size:21
Alignment explanation
Indices: 58785083--58785142 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
58785073 CTTTCTGTTT
* *
58785083 AGCTCTTATGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTATTC
58785104 AGCTCTTACGAG-TTCCTATTC
1 AGCTCTTACGAGCTT-CTATTC
58785125 AGCT-TT-CGAGCTTCTATT
1 AGCTCTTACGAGCTTCTATT
58785143 GGCGTATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 9 0.26
20 6 0.17
21 20 0.57
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTATTC
Done.