Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 16 of 290
Found at i:5587628 original size:16 final size:17
Alignment explanation
Indices: 5587589--5587628 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
5587579 AAGTGTCACG
*
5587589 AAAAT-TAA-AAAATTA
1 AAAATATAACAAAACTA
5587604 AAAATATAACAAAACTA
1 AAAATATAACAAAACTA
5587621 AAAA-ATAA
1 AAAATATAA
5587629 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 10 0.45
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATATAACAAAACTA
Found at i:5587639 original size:17 final size:17
Alignment explanation
Indices: 5587614--5587679 Score: 64
Period size: 17 Copynumber: 3.7 Consensus size: 17
5587604 AAAATATAAC
5587614 AAAACTAAAAAATAATTT
1 AAAACTAAAAAAT-ATTT
*
5587632 AAAA-TAAAAAAT-CTT
1 AAAACTAAAAAATATTT
5587647 AAAACTCAAAAAATTATTT
1 AAAACT-AAAAAA-TATTT
5587666 AAAAAACTAAAAAA
1 --AAAACTAAAAAA
5587680 AATCATAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 6 0.15
16 1 0.03
17 14 0.35
18 5 0.12
19 2 0.05
20 6 0.15
21 6 0.15
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAACTAAAAAATATTT
Found at i:5587641 original size:34 final size:35
Alignment explanation
Indices: 5587597--5587669 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
5587587 CGAAAATTAA
5587597 AAAATTAAAAATATAACAAAACT-AAAAAATAATTT
1 AAAATTAAAAA-ATAACAAAACTCAAAAAATAATTT
*** *
5587632 AAAA-TAAAAAATCTTAAAACTCAAAAAATTATTT
1 AAAATTAAAAAATAACAAAACTCAAAAAATAATTT
5587666 AAAA
1 AAAA
5587670 AACTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 8 0.24
34 21 0.64
35 4 0.12
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (35 bp):
AAAATTAAAAAATAACAAAACTCAAAAAATAATTT
Found at i:5588032 original size:17 final size:17
Alignment explanation
Indices: 5588012--5588045 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5588002 TTTTATGATT
5588012 TTTTTGGTAATTTTTAA
1 TTTTTGGTAATTTTTAA
**
5588029 TTTTTTTTAATTTTTAA
1 TTTTTGGTAATTTTTAA
5588046 GTACTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTTGGTAATTTTTAA
Found at i:5588053 original size:28 final size:28
Alignment explanation
Indices: 5587991--5588055 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
5587981 CGCATGCTTA
* **
5587991 TAATTTTTAATTTTTATGATTTTTTTGG
1 TAATTTTTAATTTTTATGAATTTTTAAG
* *
5588019 TAATTTTTAATTTTTTTTAATTTTTAAG
1 TAATTTTTAATTTTTATGAATTTTTAAG
*
5588047 TACTTTTTA
1 TAATTTTTA
5588056 TAGTTGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (28 bp):
TAATTTTTAATTTTTATGAATTTTTAAG
Found at i:5606796 original size:90 final size:90
Alignment explanation
Indices: 5606623--5606801 Score: 306
Period size: 89 Copynumber: 2.0 Consensus size: 90
5606613 AGCCATTGAA
*
5606623 CAATTAGTCGTCACCCATCTTTGCTACTCCTGCTTCGACCATGATACCAATCATCAGTTATTTTT
1 CAATTAATCGTCACCCATCTTTGCTACTCCTGCTTCGACCATGATACCAATCATCAGTTATTTTT
5606688 TCGAAATAATAAAGTTTTTTCGTCC
66 TCGAAATAATAAAGTTTTTTCGTCC
* * * *
5606713 CAATTAATCGTCACCCGTCTTTGCTA-TCCTGCTTCGGCCATGATCCCAATCATCAGTTGTTTTT
1 CAATTAATCGTCACCCATCTTTGCTACTCCTGCTTCGACCATGATACCAATCATCAGTTATTTTT
5606777 TCGAAATAATAAAGTTTTTTCGTCC
66 TCGAAATAATAAAGTTTTTTCGTCC
5606802 AAGTGTTAGA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 60 0.71
90 24 0.29
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (90 bp):
CAATTAATCGTCACCCATCTTTGCTACTCCTGCTTCGACCATGATACCAATCATCAGTTATTTTT
TCGAAATAATAAAGTTTTTTCGTCC
Found at i:5607771 original size:46 final size:47
Alignment explanation
Indices: 5607694--5607966 Score: 337
Period size: 46 Copynumber: 5.9 Consensus size: 47
5607684 TTTGACATGA
* * * * * *
5607694 TGCCATAGTGTCTTTAAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
** *
5607740 TATCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
5607786 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
5607832 TGCCATGGTATCTTTCAACCATGGTCTTA--CATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCAT-TTTCATATCACGT
* * * *
5607878 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
5607924 TGCCATGGTATCTTTCAACCATGGTCTTA--CATATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCAT-TTTCATATCA
5607967 GAGAGCACAC
Statistics
Matches: 204, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
44 4 0.02
45 5 0.02
46 193 0.95
48 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
Found at i:5607942 original size:138 final size:138
Alignment explanation
Indices: 5607694--5607966 Score: 381
Period size: 138 Copynumber: 2.0 Consensus size: 138
5607684 TTTGACATGA
* * * *
5607694 TGCCATAGTGTCTTTAAACTATGGTCTTACTCATTTTCTGTCATGTTATCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTAAACCATGGTCTTACTCATTTTCTATCAGGTTATCATGGTATCTTTCAAC
* * * * *
5607759 CATGGTCTTACTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA-TTCATTTC
66 CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTC
5607823 ATATCACGT
130 ATATCACGT
* * *
5607832 TGCCATGGTATCTTTCAACCATGGTCTTA--CATATTTCATATCAGGTTGTCATGGTATCTTTCA
1 TGCCATAGTATCTTTAAACCATGGTCTTACTCAT-TTTC-TATCAGGTTATCATGGTATCTTTCA
*
5607895 ACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACATATTT
64 ACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACATATTT
5607960 CATATCA
129 CATATCA
5607967 GAGAGCACAC
Statistics
Matches: 119, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
136 3 0.03
137 4 0.03
138 111 0.93
139 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (138 bp):
TGCCATAGTATCTTTAAACCATGGTCTTACTCATTTTCTATCAGGTTATCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCA
TATCACGT
Found at i:5607967 original size:46 final size:46
Alignment explanation
Indices: 5607743--5607967 Score: 346
Period size: 46 Copynumber: 4.9 Consensus size: 46
5607733 GTCATGTTAT
* * *
5607743 CATGGTATCTTTCAACCATGGTCTTAC-TCTTTTCATGTCACGTTGC
1 CATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATATCAGGTTGC
* *
5607789 CATGGTATCTTTCAACCATGGTCTTA-TTCATTTCATATCACGTTGC
1 CATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATATCAGGTTGC
*
5607835 CATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGT
1 CATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGC
* *
5607881 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGC
1 CATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGC
5607927 CATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
1 CATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
5607968 AGAGCACACT
Statistics
Matches: 168, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
46 167 0.99
47 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGC
Found at i:5610065 original size:11 final size:11
Alignment explanation
Indices: 5610049--5610096 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
5610039 CTTTATATAC
5610049 TAATAAAATAA
1 TAATAAAATAA
*
5610060 TAATAAAATATC
1 TAATAAAATA-A
* *
5610072 TCATTAAAATAT
1 T-AATAAAATAA
5610084 TAATAAAATAA
1 TAATAAAATAA
5610095 TA
1 TA
5610097 TTTATCTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 20 0.67
12 2 0.07
13 8 0.27
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:5619744 original size:299 final size:299
Alignment explanation
Indices: 5619005--5619862 Score: 1237
Period size: 299 Copynumber: 2.9 Consensus size: 299
5618995 CACATTTTGT
* * *
5619005 AATCATAAATTCCCAAGATTTTGAAATTCATGTTTTTCTATACATTTCAAATACATAATCAAAGT
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTTATACATTTCAAATACATAGTCAAAGT
* * * * *
5619070 TCAACCTTAACTAATTT-GTCTTTTCATAGCTCATAGTTAATATAACAAATAAAAAATCCAAATT
66 TCAACCTTAACTAATTTGGTTTTTTCA-AGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
* * *
5619134 CAGCTTTTCATAGCTTATAAAATCATAAA-TTCTTAAGATTTTGAAATAT-ATGTTTTTCTTAAT
130 TAGCTTCTCATACCTTATAAAATCATAAATTTC-TAAGATTTTGAAAT-TCATG-TTTTCTTAAT
* * * *
5619197 GCATTTCAAATACATAATCAAAGTTCAACCTTAACTAATTTGGCCTTTTCATAGCTCAAAATTAA
192 ACATTTCAAATACATAATCAAAGTTCAACCTTAACTAATTTGGCTTTTTCAGAGCTCAAAATCAA
* * *
5619262 TAAACAAATCAAAAATCCAAATTCAGCTTTTCATAGCTTATAA
257 TAAACAAATCAAAAATCCAAATTCAACTTCTCATACCTTATAA
* * *
5619305 AATCATAAATTCCTAAGATTTTGAAATTCTTGTTTTCTTATGCATTTCAAATACAT-GATCAAAG
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTTATACATTTCAAATACATAG-TCAAAG
* * *
5619369 TTCAACCTTAACCAATTTGGCTTTTTCAAGCTCAAAATCAATATAACAAATGAAATATCCAAATT
65 TTCAACCTTAACTAATTTGGTTTTTTCAAGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
* *
5619434 TAACTTCTCATACCTTATAAAATCATAAATTTCTAAGATTTTGAAATTCATGTTTT-TTAATATA
130 TAGCTTCTCATACCTTATAAAATCATAAATTTCTAAGATTTTGAAATTCATGTTTTCTTAATACA
*
5619498 TTTCAAATACATAGTCAAAGTTCAACCTTAACTAATTTGGCTTTTTCA-AGCTCAAAATCAATAT
195 TTTCAAATACATAATCAAAGTTCAACCTTAACTAATTTGGCTTTTTCAGAGCTCAAAATCAATA-
* * *
5619562 AACAAATGAAATATCCAAATTTAACTTCTCATACCTTATAA
259 AACAAATCAAAAATCCAAATTCAACTTCTCATACCTTATAA
* *
5619603 AATCATAAATTTCTAAGATTTTGAAATTCATGTTTTTTTAATATATTTCAAATACATAGTCAAAG
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTT-ATACATTTCAAATACATAGTCAAAG
5619668 TTCAACCTTAACTAATTTGGTTTTTTCAAGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
65 TTCAACCTTAACTAATTTGGTTTTTTCAAGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
* * * * *
5619733 TAGCTTCTCATACCTTATAAAATCCTAAATTCCTAATATTTTGACATTCATGTTTTCTT-CTACA
130 TAGCTTCTCATACCTTATAAAATCATAAATTTCTAAGATTTTGAAATTCATGTTTTCTTAATACA
* *
5619797 ATTCAAATACAGAATCAAAGTTCAACCTTAACTAAATTTGGCTTTTTCAGAGCTCAAAATC-ATA
195 TTTCAAATACATAATCAAAGTTCAACCTTAACT-AATTTGGCTTTTTCAGAGCTCAAAATCAATA
5619861 AA
259 AA
5619863 TTTCAAAATT
Statistics
Matches: 501, Mismatches: 47, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
297 14 0.03
298 123 0.25
299 174 0.35
300 169 0.34
301 21 0.04
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.38
Consensus pattern (299 bp):
AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTTATACATTTCAAATACATAGTCAAAGT
TCAACCTTAACTAATTTGGTTTTTTCAAGCTCAAAATCAATATAACAAATGAAAAATCCAAATTT
AGCTTCTCATACCTTATAAAATCATAAATTTCTAAGATTTTGAAATTCATGTTTTCTTAATACAT
TTCAAATACATAATCAAAGTTCAACCTTAACTAATTTGGCTTTTTCAGAGCTCAAAATCAATAAA
CAAATCAAAAATCCAAATTCAACTTCTCATACCTTATAA
Found at i:5619753 original size:150 final size:150
Alignment explanation
Indices: 5619005--5619858 Score: 1234
Period size: 149 Copynumber: 5.7 Consensus size: 150
5618995 CACATTTTGT
* *
5619005 AATCATAAATTCCCAAGATTTTGAAATTCATGTTTTTCTATACATTTCAAATACATAATCAAAGT
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTTATACATTTCAAATACATAATCAAAGT
* * * * *
5619070 TCAACCTTAACTAATTTGTC-TTTTCATAGCTCATAGTTAATATAACAAATAAAAAATCCAAATT
66 TCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
* * *
5619134 CAGCTTTTCATAGCTTATAA
131 TAGCTTCTCATACCTTATAA
* *
5619154 AATCATAAATTCTTAAGATTTTGAAATAT-ATGTTTTTCTTAATGCATTTCAAATACATAATCAA
1 AATCATAAATTCCTAAGATTTTGAAAT-TCATGTTTTT-TT-ATACATTTCAAATACATAATCAA
* * *
5619218 AGTTCAACCTTAACTAATTTGGCCTTTTCATAGCTCAAAATTAATA-AACAAATCAAAAATCCAA
63 AGTTCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATGAAAAATCCAA
* * *
5619282 ATTCAGCTTTTCATAGCTTATAA
128 ATTTAGCTTCTCATACCTTATAA
* * * *
5619305 AATCATAAATTCCTAAGATTTTGAAATTCTTGTTTTCTTATGCATTTCAAATACATGATCAAAGT
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTTATACATTTCAAATACATAATCAAAGT
* *
5619370 TCAACCTTAACCAATTTGGCTTTTTCA-AGCTCAAAATCAATATAACAAATGAAATATCCAAATT
66 TCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
*
5619434 TAACTTCTCATACCTTATAA
131 TAGCTTCTCATACCTTATAA
* * * *
5619454 AATCATAAATTTCTAAGATTTTGAAATTCATGTTTTTTAATATATTTCAAATACATAGTCAAAGT
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTTATACATTTCAAATACATAATCAAAGT
*
5619519 TCAACCTTAACTAATTTGGCTTTTTCA-AGCTCAAAATCAATATAACAAATGAAATATCCAAATT
66 TCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
*
5619583 TAACTTCTCATACCTTATAA
131 TAGCTTCTCATACCTTATAA
* * *
5619603 AATCATAAATTTCTAAGATTTTGAAATTCATGTTTTTTTAATATATTTCAAATACATAGTCAAAG
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTT-ATACATTTCAAATACATAATCAAAG
*
5619668 TTCAACCTTAACTAATTTGGTTTTTTCA-AGCTCAAAATCAATATAACAAATGAAAAATCCAAAT
65 TTCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATGAAAAATCCAAAT
5619732 TTAGCTTCTCATACCTTATAA
130 TTAGCTTCTCATACCTTATAA
* * * * * * *
5619753 AATCCTAAATTCCTAATATTTTGACATTCATGTTTTCTTCTACAATTCAAATACAGAATCAAAGT
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTTATACATTTCAAATACATAATCAAAGT
*
5619818 TCAACCTTAACTAAATTTGGCTTTTTCAGAGCTCAAAATCA
66 TCAACCTTAACT-AATTTGGCTTTTTCATAGCTCAAAATCA
5619859 TAAATTTCAA
Statistics
Matches: 651, Mismatches: 45, Indels: 16
0.91 0.06 0.02
Matches are distributed among these distances:
148 14 0.02
149 329 0.51
150 160 0.25
151 128 0.20
152 20 0.03
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.38
Consensus pattern (150 bp):
AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTTTTATACATTTCAAATACATAATCAAAGT
TCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
TAGCTTCTCATACCTTATAA
Found at i:5623648 original size:26 final size:26
Alignment explanation
Indices: 5623600--5623649 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
5623590 TTTTAAGCAT
*
5623600 GTAAAATTATAAAATTTTAAAAAGTA
1 GTAAAATTATAAAATTCTAAAAAGTA
*
5623626 GTAAAA-TATTAAAATTCTCAAAAG
1 GTAAAATTA-TAAAATTCTAAAAAG
5623650 AAACTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (26 bp):
GTAAAATTATAAAATTCTAAAAAGTA
Found at i:5630085 original size:16 final size:16
Alignment explanation
Indices: 5630063--5630131 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
5630053 TTTGGTTCGC
5630063 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
5630079 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
5630095 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
5630112 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
5630128 TGTA
1 TGTA
5630132 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:5630109 original size:33 final size:32
Alignment explanation
Indices: 5630063--5630131 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
5630053 TTTGGTTCGC
5630063 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
* *
5630095 TGTATTGGGATTAGAGGTGTATTGGATTAGATG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
5630128 TGTA
1 TGTA
5630132 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:5630479 original size:66 final size:66
Alignment explanation
Indices: 5630407--5630605 Score: 219
Period size: 66 Copynumber: 3.2 Consensus size: 66
5630397 GAAATTCTTA
5630407 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
5630472 C
66 C
* * * *
5630473 ATAATTATTATTA-AATA-TAATTTAATTAAA--AT-ATATA--AT--T-T--AATA-AAATTCT
1 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAA-T-T
*
5630525 TA-
64 AAC
*
5630527 ATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
5630592 C
66 C
*
5630593 ATAATTATTATTA
1 ATAATTAATATTA
5630606 AATATATTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
53 3 0.03
54 16 0.15
55 5 0.05
56 12 0.12
57 1 0.01
58 2 0.02
59 7 0.07
61 7 0.07
62 2 0.02
63 1 0.01
64 12 0.12
65 5 0.05
66 28 0.27
67 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (66 bp):
ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
C
Found at i:5630487 original size:120 final size:120
Alignment explanation
Indices: 5630350--5631451 Score: 2098
Period size: 120 Copynumber: 9.2 Consensus size: 120
5630340 ATCATATTTA
5630350 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
* *
5630415 TATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
5630470 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
5630535 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5630590 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
5630655 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
5630710 AACATAATTATTATTAAATATA-TTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
5630774 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5630829 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
5630894 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5630949 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
5631014 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5631069 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
5631134 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5631189 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
5631254 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5631309 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
5631374 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5631429 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
5631452 AACTTGAAAA
Statistics
Matches: 972, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
119 117 0.12
120 855 0.88
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:5630528 original size:17 final size:18
Alignment explanation
Indices: 5630487--5630521 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5630477 TTATTATTAA
5630487 ATATAATTTAATTAAAAT
1 ATATAATTTAATTAAAAT
5630505 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
5630522 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:5630747 original size:17 final size:17
Alignment explanation
Indices: 5630727--5630760 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5630717 TTATTATTAA
5630727 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5630744 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5630761 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5635798 original size:26 final size:26
Alignment explanation
Indices: 5635768--5635818 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
5635758 CCGTAAAATA
5635768 CTGCAGCTAATACCAATGACAAAAAC
1 CTGCAGCTAATACCAATGACAAAAAC
*
5635794 CTGCAGCTAATATCAATGACAAAAA
1 CTGCAGCTAATACCAATGACAAAAA
5635819 TAAATGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (26 bp):
CTGCAGCTAATACCAATGACAAAAAC
Found at i:5655552 original size:16 final size:16
Alignment explanation
Indices: 5655518--5655552 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5655508 AATTTTCATG
*
5655518 TATTTTTATAATATCT
1 TATTTTTATAAAATCT
*
5655534 TATTTTTATAAAATTT
1 TATTTTTATAAAATCT
5655550 TAT
1 TAT
5655553 AATATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTTATAAAATCT
Found at i:5655597 original size:17 final size:15
Alignment explanation
Indices: 5655567--5655605 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
5655557 TATATTTGAT
5655567 TTAATATAATAAAAG
1 TTAATATAATAAAAG
5655582 TTAATATATATAAAA-
1 TTAATATA-ATAAAAG
*
5655597 ATAATATAA
1 TTAATATAA
5655606 AATTTTGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.68
16 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
TTAATATAATAAAAG
Found at i:5656800 original size:17 final size:17
Alignment explanation
Indices: 5656778--5656811 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5656768 CTTCTCTGTT
5656778 GCCATAATAGTTGAGAA
1 GCCATAATAGTTGAGAA
5656795 GCCATAATAGTTGAGAA
1 GCCATAATAGTTGAGAA
5656812 AAAAAGAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
GCCATAATAGTTGAGAA
Found at i:5659184 original size:6 final size:6
Alignment explanation
Indices: 5659175--5659225 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
5659165 AGGGGTTACG
* * * *
5659175 GGTTCG GGTT-T GGGTCT GGTACT GGTTCA GGTTCT GGTTCT GGTTCT
1 GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT
5659222 GGTT
1 GGTT
5659226 ATGGGAGTGG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
5 3 0.08
6 34 0.92
ACGTcount: A:0.04, C:0.14, G:0.39, T:0.43
Consensus pattern (6 bp):
GGTTCT
Found at i:5659284 original size:3 final size:3
Alignment explanation
Indices: 5659276--5659332 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
5659266 AAGTGGAACC
** * *
5659276 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT TCT GGT GGT GGA AGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
5659324 GGT GGT GGT
1 GGT GGT GGT
5659333 TCGACTGAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.04, C:0.02, G:0.61, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:5663899 original size:19 final size:18
Alignment explanation
Indices: 5663871--5663925 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 18
5663861 AATACATTTA
5663871 AAAACAAAAAACAAATATT
1 AAAAC-AAAAACAAATATT
5663890 AAAACTAAAAACAAATATT
1 AAAAC-AAAAACAAATATT
5663909 AAAACAAGAAACAAATA
1 AAAACAA-AAACAAATA
5663926 ACAATTGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 2 0.06
19 32 0.94
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAACAAAAACAAATATT
Found at i:5668447 original size:6 final size:6
Alignment explanation
Indices: 5668438--5668472 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
5668428 TGTAAATGAT
*
5668438 GAAGAG GAAGAG GAAGAG GAAGAG GACGAG GAAGA
1 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGA
5668473 TGAAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.03, G:0.49, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:5683731 original size:21 final size:20
Alignment explanation
Indices: 5683693--5683731 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5683683 TCAATCAGCA
*
5683693 AAATGGGATGAGGTAAAAAC
1 AAATGGGATGAGGAAAAAAC
*
5683713 AAATGAGGATGATGAAAAA
1 AAATG-GGATGAGGAAAAA
5683732 TGCATCAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.03, G:0.28, T:0.15
Consensus pattern (20 bp):
AAATGGGATGAGGAAAAAAC
Found at i:5687014 original size:59 final size:59
Alignment explanation
Indices: 5686949--5687065 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
5686939 TTTATTTTCT
5686949 AAATGAAAATTAAAACTATAATTTGTTAATTTTAAAAAATCTAAATTACTAATTGAGTA
1 AAATGAAAATTAAAACTATAATTTGTTAATTTTAAAAAATCTAAATTACTAATTGAGTA
*
5687008 AAATGAAAATTAAAACTATAATTTGTTAATTTTAAAAAATTTAAATTACTAATTGAGT
1 AAATGAAAATTAAAACTATAATTTGTTAATTTTAAAAAATCTAAATTACTAATTGAGT
5687066 TTTAACTCGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.38
Consensus pattern (59 bp):
AAATGAAAATTAAAACTATAATTTGTTAATTTTAAAAAATCTAAATTACTAATTGAGTA
Found at i:5687068 original size:28 final size:28
Alignment explanation
Indices: 5686978--5687070 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 28
5686968 AATTTGTTAA
*
5686978 TTTTAAAAAATCTAAATTACTAATTGAG
1 TTTTAAAAAATTTAAATTACTAATTGAG
** * * *
5687006 -TAAAATGAAAATTAAAACTA-TAATTTGTTAA
1 TTTTAA--AAAATTTAAATTACTAA-TTG--AG
5687037 TTTTAAAAAATTTAAATTACTAATTGAG
1 TTTTAAAAAATTTAAATTACTAATTGAG
5687065 TTTTAA
1 TTTTAA
5687071 CTCGATTGGT
Statistics
Matches: 47, Mismatches: 11, Indels: 14
0.65 0.15 0.19
Matches are distributed among these distances:
27 3 0.06
28 10 0.21
29 13 0.28
30 14 0.30
31 4 0.09
32 3 0.06
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.41
Consensus pattern (28 bp):
TTTTAAAAAATTTAAATTACTAATTGAG
Found at i:5688139 original size:15 final size:16
Alignment explanation
Indices: 5688121--5688150 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5688111 ATTTGAATAA
5688121 AAAAT-ATTTAAACCT
1 AAAATAATTTAAACCT
5688136 AAAATAATTTAAACC
1 AAAATAATTTAAACC
5688151 ACCTAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATAATTTAAACCT
Found at i:5695803 original size:23 final size:23
Alignment explanation
Indices: 5695755--5695804 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
5695745 TATTTATATC
* * *
5695755 ATATAAGAATTAAACATATAATA
1 ATATAAGAAATAAAAATATAAAA
5695778 ATATAA-AAATAAAAATATTAAAA
1 ATATAAGAAATAAAAATA-TAAAA
5695801 ATAT
1 ATAT
5695805 TTACTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
ATATAAGAAATAAAAATATAAAA
Found at i:5698821 original size:17 final size:17
Alignment explanation
Indices: 5698795--5698835 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5698785 AAAACCAAAT
*
5698795 CAGTTTATTAGAAATAA
1 CAGTTCATTAGAAATAA
*
5698812 CAGTTCATTAGACATAA
1 CAGTTCATTAGAAATAA
*
5698829 CAATTCA
1 CAGTTCA
5698836 CACACACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (17 bp):
CAGTTCATTAGAAATAA
Found at i:5702192 original size:7 final size:7
Alignment explanation
Indices: 5702180--5702212 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
5702170 TTACTCTCTT
5702180 TTTTTTC
1 TTTTTTC
5702187 TTTTTTC
1 TTTTTTC
5702194 TTTTTTC
1 TTTTTTC
5702201 TTTTTTC
1 TTTTTTC
5702208 TTTTT
1 TTTTT
5702213 CATCATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:5705676 original size:44 final size:45
Alignment explanation
Indices: 5705621--5705723 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 45
5705611 TATCTTTGAC
* * * * *
5705621 ATGGACGTACATGAATTATTCCTGCCTCTAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGCCTCCAAAGCCATATTATAAT
** * *
5705665 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGCCTCCAAAGCCATA-TTATAAT
5705711 ATGGACTTACATG
1 ATGGACTTACATG
5705724 GCTCATTTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 30 0.62
46 18 0.38
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGCCTCCAAAGCCATATTATAAT
Found at i:5711673 original size:11 final size:11
Alignment explanation
Indices: 5711645--5711675 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5711635 GGTGAGATTA
*
5711645 GATACTATAGC
1 GATACTGTAGC
5711656 GATACTGTAGC
1 GATACTGTAGC
5711667 GATACTGTA
1 GATACTGTA
5711676 ACGTGAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (11 bp):
GATACTGTAGC
Found at i:5718100 original size:174 final size:175
Alignment explanation
Indices: 5717793--5718132 Score: 477
Period size: 174 Copynumber: 1.9 Consensus size: 175
5717783 GAAGACGATT
* * * * * *
5717793 GAAAGATGTTAATGTTAACATCTTGTATTAGCATCTTTAGTTGTTTGTTTAGCTATATACAAGTC
1 GAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGATTGTATAGCTATATACAAATC
** * *
5717858 CGGATCGAAAACTTGTGTTATAAAGTCGTATATTAGTTGCTCGAAAACTCTGATGTAGTGAAAGG
66 CGGATCGAAAACTCATGTTATAAAGTCGTATAGTAGTTGCTCGAAAACTCCGATGTAGTGAAAGG
* *
5717923 AAAAGAAATTTCTCCAGTGATCGATCATGCATCGTTTTAATCCGG
131 AAAAGAAATTTCTCCAGTGATCAATCATACATCGTTTTAATCCGG
5717968 GAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTT-ATTGTATAGCTATATACAAATC
1 GAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGATTGTATAGCTATATACAAATC
** * * * *
5718032 CGGATCGAAAACTCATGTTATAAAGTTTTATAGTAGTTGCTTGAAAACTCCGATTTATTTG-TAG
66 CGGATCGAAAACTCATGTTATAAAGTCGTATAGTAGTTGCTCGAAAACTCCGATGTA-GTGAAAG
* *
5718096 GAAAAGAAATTTCTCCGGTGATCAATCTTACATCGTT
130 GAAAAGAAATTTCTCCAGTGATCAATCATACATCGTT
5718133 CTAAAGCAAG
Statistics
Matches: 144, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
174 103 0.72
175 41 0.28
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (175 bp):
GAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGATTGTATAGCTATATACAAATC
CGGATCGAAAACTCATGTTATAAAGTCGTATAGTAGTTGCTCGAAAACTCCGATGTAGTGAAAGG
AAAAGAAATTTCTCCAGTGATCAATCATACATCGTTTTAATCCGG
Found at i:5718336 original size:374 final size:372
Alignment explanation
Indices: 5717617--5718336 Score: 1013
Period size: 374 Copynumber: 1.9 Consensus size: 372
5717607 GGACCGGAAA
**
5717617 CTTGTATAAGCATCTTGTTAAAGATGCTAATATACAAATCCGGATCGAAAACTTGTGCTAGTAAG
1 CTTGTATAAGCATCTTGTTAAAGATGCTAATATACAAATCCGGATCGAAAACTCATGCTAGTAAG
* * * *
5717682 TCGTATATTTGTTGCTCGAAAACTCTGATTTAGTGAAAGGAAAAGAAATTTCTCCGGTGATCGAT
66 TCGTATAGTAGTTGCTCGAAAACTCCGATTTAGTGAAAGGAAAAGAAATTTCTCCGGTGATCAAT
* * * * *
5717747 CATACATCGTTGTAAAGCTAGTTTTCTTAATCCGGGGAAGACGATTGAAAGATGTTAATGTTAAC
131 CATACATCGTTCTAAAGCAAGTTTTCTTAATCCGGGGAAGACGATGGAAAGATGCTAATGGTAAC
* * * **
5717812 ATCTTGTATTAGCATCTTTAGTTGTTTGTTTAGCTATATACAAGTCCGGATCGAAAACTTGTGTT
196 ATCTTGTATAAGCATCTTTAGTTGTTTGTATAGCTATATACAAATCCGGATCGAAAACTCATGTT
*
5717877 ATAAAGTCGTATATTAGTTGCTCGAAAACTCTGATGTAGTGAAAGGAAAAGAAATTTCTCCAGTG
261 ATAAAGTCGTATATTAGTTGCTCGAAAACTCCGATGTAGTGAAAGGAAAAGAAATTTCTCCAGTG
*
5717942 ATCGATCATGCATCGTTTTAATCCGGGAAAGATGCTAATGGTAACAT
326 ATCGATCATACATCGTTTTAATCCGGGAAAGATGCTAATGGTAACAT
** *
5717989 CTTGTATAAGCATCTTTAGTTATTGTATAGCT-ATATACAAATCCGGATCGAAAACTCATGTTA-
1 CTTGTATAAGCATC-TT-GTTAAAG-AT-GCTAATATACAAATCCGGATCGAAAACTCATGCTAG
** * * *
5718052 TAAAGTTTTATAGTAGTTGCTTGAAAACTCCGATTTATTTG-TAGGAAAAGAAATTTCTCCGGTG
62 T-AAGTCGTATAGTAGTTGCTCGAAAACTCCGATTTA-GTGAAAGGAAAAGAAATTTCTCCGGTG
* *
5718116 ATCAATCTTACATCGTTCTAAAGCAAGTTTT-TTAATTCGGGGAAGACGATGGAAAGATGCTAAT
125 ATCAATCATACATCGTTCTAAAGCAAGTTTTCTTAATCCGGGGAAGACGATGGAAAGATGCTAAT
5718180 GGTAACATCTTGTATAAGCATCTTTAGTTGTTTGTATAGCTATATACAAATCCGGATCGAAAACT
190 GGTAACATCTTGTATAAGCATCTTTAGTTGTTTGTATAGCTATATACAAATCCGGATCGAAAACT
* * * * *
5718245 CATGTTATGAAGTTGTATATTAGTTGCTTGAAAACTCCGATTTATTTG-AAGGAAAAGAAATTTC
255 CATGTTATAAAGTCGTATATTAGTTGCTCGAAAACTCCGATGTA-GTGAAAGGAAAAGAAATTTC
5718309 T-CAGGTGATCGAT-ATCACATCGTTTTAA
319 TCCA-GTGATCGATCAT-ACATCGTTTTAA
5718337 AGCAAGTTTT
Statistics
Matches: 306, Mismatches: 33, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
372 14 0.05
373 6 0.02
374 171 0.56
375 110 0.36
376 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (372 bp):
CTTGTATAAGCATCTTGTTAAAGATGCTAATATACAAATCCGGATCGAAAACTCATGCTAGTAAG
TCGTATAGTAGTTGCTCGAAAACTCCGATTTAGTGAAAGGAAAAGAAATTTCTCCGGTGATCAAT
CATACATCGTTCTAAAGCAAGTTTTCTTAATCCGGGGAAGACGATGGAAAGATGCTAATGGTAAC
ATCTTGTATAAGCATCTTTAGTTGTTTGTATAGCTATATACAAATCCGGATCGAAAACTCATGTT
ATAAAGTCGTATATTAGTTGCTCGAAAACTCCGATGTAGTGAAAGGAAAAGAAATTTCTCCAGTG
ATCGATCATACATCGTTTTAATCCGGGAAAGATGCTAATGGTAACAT
Found at i:5718359 original size:199 final size:200
Alignment explanation
Indices: 5717967--5718415 Score: 767
Period size: 200 Copynumber: 2.3 Consensus size: 200
5717957 TTTTAATCCG
*
5717967 GGAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTT-ATTGTATAGCTATATACAAAT
1 GGAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGTTTGTATAGCTATATACAAAT
* *
5718031 CCGGATCGAAAACTCATGTTATAAAGTTTTATAGTAGTTGCTTGAAAACTCCGATTTATTTGTAG
66 CCGGATCGAAAACTCATGTTATAAAGTTGTATAGTAGTTGCTTGAAAACTCCGATTTATTTGAAG
* * *
5718096 GAAAAGAAATTTCTCCGGTGATCAATCTTACATCGTTCTAAAGCAAGTTTTTTAATTCGGGGAAG
131 GAAAAGAAATTTCTCAGGTGATCAATATCACATCGTTCTAAAGCAAGTTTTTTAATTCGGGGAAG
*
5718161 ACGAT
196 ACGAC
5718166 GGAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGTTTGTATAGCTATATACAAAT
1 GGAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGTTTGTATAGCTATATACAAAT
* *
5718231 CCGGATCGAAAACTCATGTTATGAAGTTGTATATTAGTTGCTTGAAAACTCCGATTTATTTGAAG
66 CCGGATCGAAAACTCATGTTATAAAGTTGTATAGTAGTTGCTTGAAAACTCCGATTTATTTGAAG
* * *
5718296 GAAAAGAAATTTCTCAGGTGATCGATATCACATCGTTTTAAAGCAAG-TTTTTAATTTGGGGAAG
131 GAAAAGAAATTTCTCAGGTGATCAATATCACATCGTTCTAAAGCAAGTTTTTTAATTCGGGGAAG
5718360 ACGAC
196 ACGAC
*
5718365 GGGAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGTTTGTAT
1 GGAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGTTTGTAT
5718416 CGGTGTTGAA
Statistics
Matches: 236, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
199 113 0.48
200 123 0.52
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (200 bp):
GGAAAGATGCTAATGGTAACATCTTGTATAAGCATCTTTAGTTGTTTGTATAGCTATATACAAAT
CCGGATCGAAAACTCATGTTATAAAGTTGTATAGTAGTTGCTTGAAAACTCCGATTTATTTGAAG
GAAAAGAAATTTCTCAGGTGATCAATATCACATCGTTCTAAAGCAAGTTTTTTAATTCGGGGAAG
ACGAC
Found at i:5720405 original size:131 final size:131
Alignment explanation
Indices: 5720190--5720434 Score: 348
Period size: 131 Copynumber: 1.9 Consensus size: 131
5720180 TTTAAATTAC
* * * * *
5720190 TTAAATTATTTAAGTTGTAAAATTCAAGTATGATTCTAATTTAAAAAATTAATTATTAATTTAAA
1 TTAAATTATTCAAGTTATAAAACTCAAGTATGACTCTAATTAAAAAAATTAATTATTAATTTAAA
5720255 TTAATTAAAAAAAACTGAATAACTCCCTTCAATTAATTTGAAAGTTGAATTTTATCGATTTATTT
66 TTAATTAAAAAAAACTGAATAACTCCCTTCAATTAATTTGAAAGTTGAATTTTATCGATTTATTT
5720320 T
131 T
* *
5720321 TTAAATTATTCAAGTTATAAAACTGAAGTATTACTCTAATTAAAAAAATTAAATTATTAATTTAA
1 TTAAATTATTCAAGTTATAAAACTCAAGTATGACTCTAATTAAAAAAATT-AATTATTAATTTAA
* ** ** * *
5720386 GTTAATT-AAAAAAACTGAATTTCTCTTTTCGATTACTTTGAAAGTTGAA
65 ATTAATTAAAAAAAACTGAATAACTCCCTTCAATTAATTTGAAAGTTGAA
5720435 AATTTTAAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 79 0.80
132 20 0.20
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (131 bp):
TTAAATTATTCAAGTTATAAAACTCAAGTATGACTCTAATTAAAAAAATTAATTATTAATTTAAA
TTAATTAAAAAAAACTGAATAACTCCCTTCAATTAATTTGAAAGTTGAATTTTATCGATTTATTT
T
Found at i:5725878 original size:18 final size:17
Alignment explanation
Indices: 5725855--5725912 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
5725845 TTGGAGTCAA
5725855 ATTTTTTGAACTTCCACT
1 ATTTTTTGAACTT-CACT
* * *
5725873 A-TTTTTGGA-GTCA-A
1 ATTTTTTGAACTTCACT
5725887 ATTTTTTGAACTTTCACT
1 ATTTTTTGAAC-TTCACT
5725905 ATTTTTTG
1 ATTTTTTG
5725913 TAAAAACATA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 1 0.03
15 9 0.30
16 1 0.03
17 10 0.33
18 9 0.30
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (17 bp):
ATTTTTTGAACTTCACT
Found at i:5725894 original size:15 final size:15
Alignment explanation
Indices: 5725843--5725894 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
5725833 CAGCTGATAA
5725843 TTTTGGAGTCAAATT
1 TTTTGGAGTCAAATT
* * * *
5725858 TTTTGAACTTCCACTAT
1 TTTTGGA-GTCAAAT-T
5725875 TTTTGGAGTCAAATT
1 TTTTGGAGTCAAATT
5725890 TTTTG
1 TTTTG
5725895 AACTTTCACT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 12 0.44
16 8 0.30
17 7 0.26
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (15 bp):
TTTTGGAGTCAAATT
Found at i:5725912 original size:33 final size:32
Alignment explanation
Indices: 5725843--5725910 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
5725833 CAGCTGATAA
5725843 TTTTGGAGTCAAATTTTTTGAACTTCCACTAT
1 TTTTGGAGTCAAATTTTTTGAACTTCCACTAT
*
5725875 TTTTGGAGTCAAATTTTTTGAACTTTCACTAT
1 TTTTGGAGTCAAATTTTTTGAACTTCCACTAT
5725907 TTTT
1 TTTT
5725911 TGTAAAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (32 bp):
TTTTGGAGTCAAATTTTTTGAACTTCCACTAT
Found at i:5727595 original size:29 final size:29
Alignment explanation
Indices: 5727559--5727618 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
5727549 TCTTGTCTTG
5727559 TTCATAACATTTTTGTATTAAGATTGTAC
1 TTCATAACATTTTTGTATTAAGATTGTAC
*
5727588 TTCATAACATTTTTGTATTATGATTGTAC
1 TTCATAACATTTTTGTATTAAGATTGTAC
5727617 TT
1 TT
5727619 AATTATGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (29 bp):
TTCATAACATTTTTGTATTAAGATTGTAC
Found at i:5730135 original size:181 final size:180
Alignment explanation
Indices: 5729831--5730195 Score: 660
Period size: 181 Copynumber: 2.0 Consensus size: 180
5729821 ATCACAAACC
*
5729831 TCTCCTAAATCAAGGAGATTGAAATAAGAAAGACACTAATTACCGATCTGCAGGCAGGCAGGAAT
1 TCTCCTAAATCAAGGAGATTGAAATAAGAAAGACACTAATTACCGATCTCCAGGCAGGCAGGAAT
*
5729896 ATAATGAAATCAAAGGGTGACTCAGAGCCGACTAAGTGACGAAAACAGATTCTAAAGCACACCAA
66 ATAATGAAATCAAAGGGTGACTCAGAGCCGACTAAGTGACAAAAACAGATTCTAAAGCACACCAA
5729961 GAAAGGCTATTCTTCATTTTTGTGCTGTTCTTGTCAATTAGTAAGCCACCT
131 GAAAGGCTATTCTTCATTTTTGTGCTGTTCTTGTC-ATTAGTAAGCCACCT
*
5730012 TCTCCTAAATCAA-GACGATTGAAATAAGAAAGACACTAATTACTGATCTCCAGGCAGGCAGGAA
1 TCTCCTAAATCAAGGA-GATTGAAATAAGAAAGACACTAATTACCGATCTCCAGGCAGGCAGGAA
* *
5730076 TATAATGAAATCAAAGGGTGACTCAGAGCTGACTAATTGACAAAAACAGATTCTAAAGCACACCA
65 TATAATGAAATCAAAGGGTGACTCAGAGCCGACTAAGTGACAAAAACAGATTCTAAAGCACACCA
5730141 AGAAAGGCTATTCTTCATTTTTGTGCTGTTCTTGTCATTAGTAAGCCACCT
130 AGAAAGGCTATTCTTCATTTTTGTGCTGTTCTTGTCATTAGTAAGCCACCT
5730192 TCTC
1 TCTC
5730196 TAAGGCATTC
Statistics
Matches: 178, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
180 21 0.12
181 157 0.88
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (180 bp):
TCTCCTAAATCAAGGAGATTGAAATAAGAAAGACACTAATTACCGATCTCCAGGCAGGCAGGAAT
ATAATGAAATCAAAGGGTGACTCAGAGCCGACTAAGTGACAAAAACAGATTCTAAAGCACACCAA
GAAAGGCTATTCTTCATTTTTGTGCTGTTCTTGTCATTAGTAAGCCACCT
Found at i:5740338 original size:25 final size:25
Alignment explanation
Indices: 5740304--5740355 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
5740294 TTTAAACAAC
5740304 CAGGTTTAATAGCTACTGTTTGGAT
1 CAGGTTTAATAGCTACTGTTTGGAT
5740329 CAGGTTTAATAGCTACTGTTTGGAT
1 CAGGTTTAATAGCTACTGTTTGGAT
5740354 CA
1 CA
5740356 ATACTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (25 bp):
CAGGTTTAATAGCTACTGTTTGGAT
Found at i:5741222 original size:20 final size:21
Alignment explanation
Indices: 5741194--5741234 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5741184 TTGGACTAAA
5741194 AAATAA-TTTAAAAAATTATT
1 AAATAATTTTAAAAAATTATT
*
5741214 AAATTATTTTAAAAAATTATT
1 AAATAATTTTAAAAAATTATT
5741235 TAAGTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATTTTAAAAAATTATT
Found at i:5741226 original size:21 final size:22
Alignment explanation
Indices: 5741200--5741243 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
5741190 TAAAAAATAA
5741200 TTTAAAAAATTA-TTAAATTAT
1 TTTAAAAAATTATTTAAATTAT
*
5741221 TTTAAAAAATTATTTAAGTTAT
1 TTTAAAAAATTATTTAAATTAT
5741243 T
1 T
5741244 AGGCATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTAAAAAATTATTTAAATTAT
Found at i:5752449 original size:34 final size:35
Alignment explanation
Indices: 5752411--5752503 Score: 86
Period size: 38 Copynumber: 2.6 Consensus size: 35
5752401 ATATTATATA
5752411 TAAATTTTTAATAAATAA-A-AATATATAAATTTAT
1 TAAATTTTTAATAAATAATATAA-ATATAAATTTAT
* *
5752445 TAAATATTGAATTAA-AAATAATATAAATATATATTTTT
1 TAAAT-TT---TTAATAAATAATATAAATATAAATTTAT
5752483 TAAATTTTT-ATAAAATAATAT
1 TAAATTTTTAAT-AAATAATAT
5752504 GAGTATGCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
33 1 0.02
34 7 0.14
35 11 0.22
37 8 0.16
38 20 0.41
39 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (35 bp):
TAAATTTTTAATAAATAATATAAATATAAATTTAT
Found at i:5753120 original size:19 final size:19
Alignment explanation
Indices: 5753084--5753143 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
5753074 AGAAATAGTT
* *
5753084 TAATTGAATAATATACATTA
1 TAATT-AATATTACACATTA
*
5753104 TAATTAATATTACACATTG
1 TAATTAATATTACACATTA
*
5753123 TAATTAATATTACACAATA
1 TAATTAATATTACACATTA
5753142 TA
1 TA
5753144 TTATTATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.86
20 5 0.14
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.40
Consensus pattern (19 bp):
TAATTAATATTACACATTA
Found at i:5756794 original size:15 final size:15
Alignment explanation
Indices: 5756774--5756803 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5756764 ATAGTTTAAT
5756774 TCAGTAACTAAATTA
1 TCAGTAACTAAATTA
5756789 TCAGTAACTAAATTA
1 TCAGTAACTAAATTA
5756804 ATTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
TCAGTAACTAAATTA
Found at i:5758104 original size:22 final size:22
Alignment explanation
Indices: 5758095--5758199 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 22
5758085 ATGTTATTTG
5758095 ATAAAAATAATATATTATATTA
1 ATAAAAATAATATATTATATTA
5758117 AT-AAAATAA-ATATTA-A-TA
1 ATAAAAATAATATATTATATTA
* *
5758135 A-AATAAAT-ATTTATT-T-TTT
1 ATAA-AAATAATATATTATATTA
* * *
5758154 TTAAAAAT-ATTTATTTTATTA
1 ATAAAAATAATATATTATATTA
*
5758175 ATATAATATAATATATTATATTA
1 ATA-AAAATAATATATTATATTA
5758198 AT
1 AT
5758200 TCATTTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 19
0.71 0.09 0.21
Matches are distributed among these distances:
18 5 0.08
19 21 0.32
20 9 0.14
21 11 0.17
22 6 0.09
23 13 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAAATAATATATTATATTA
Found at i:5758131 original size:15 final size:15
Alignment explanation
Indices: 5758111--5758145 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
5758101 ATAATATATT
5758111 ATATTAATAAAATAA
1 ATATTAATAAAATAA
5758126 ATATTAATAAAATAA
1 ATATTAATAAAATAA
5758141 ATATT
1 ATATT
5758146 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATTAATAAAATAA
Found at i:5758139 original size:20 final size:21
Alignment explanation
Indices: 5758098--5758141 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
5758088 TTATTTGATA
*
5758098 AAAATAATATATTATATTAAT
1 AAAATAATATATTATATAAAT
5758119 AAAATAA-ATATTA-ATAAAAT
1 AAAATAATATATTATAT-AAAT
5758139 AAA
1 AAA
5758142 TATTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATAATATATTATATAAAT
Found at i:5770812 original size:7 final size:7
Alignment explanation
Indices: 5770800--5770825 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5770790 TCTATTTAAG
5770800 GATTGCA
1 GATTGCA
5770807 GATTGCA
1 GATTGCA
5770814 GATTGCA
1 GATTGCA
5770821 GATTG
1 GATTG
5770826 TAGAGAGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.31
Consensus pattern (7 bp):
GATTGCA
Found at i:5773612 original size:23 final size:23
Alignment explanation
Indices: 5773582--5773629 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
5773572 TTGTCTTTTA
**
5773582 TGGTCAAATTGGATTGAGTTGGG
1 TGGTCAAATTGGACCGAGTTGGG
5773605 TGGTCAAATTGGACCGAGTTGGG
1 TGGTCAAATTGGACCGAGTTGGG
5773628 TG
1 TG
5773630 TGGGCAGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.08, G:0.40, T:0.31
Consensus pattern (23 bp):
TGGTCAAATTGGACCGAGTTGGG
Found at i:5777118 original size:13 final size:14
Alignment explanation
Indices: 5777102--5777143 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
5777092 TTTCAATTTT
5777102 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
5777115 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
5777130 ATTTTAAATAATAT
1 ATTTT-AATAATAT
5777144 TATTGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:5777128 original size:16 final size:16
Alignment explanation
Indices: 5777106--5777142 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
5777096 AATTTTATTT
5777106 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
5777123 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
5777138 TAATA
1 TAATA
5777143 TTATTGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:5777214 original size:15 final size:15
Alignment explanation
Indices: 5777164--5777214 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 15
5777154 ATTCAATATT
5777164 AATAT-TTAATAATA
1 AATATATTAATAATA
*
5777178 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
5777197 AATATATTAATAATA
1 AATATATTAATAATA
5777212 AAT
1 AAT
5777215 GTTTTGTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.13
15 9 0.30
16 1 0.03
17 6 0.20
19 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:5777984 original size:90 final size:90
Alignment explanation
Indices: 5777831--5778005 Score: 323
Period size: 90 Copynumber: 1.9 Consensus size: 90
5777821 ATCTTGAACT
* *
5777831 AGAGGCTTGAACTAGACAACTATTCTCACATTGGAGCTTGAATTTTTGTTTGTCCAAATTAATCA
1 AGAGGCTTGAACTAGACAACTATTCTCACATTAGAGCTTGAATTTTTGTATGTCCAAATTAATCA
5777896 TTGAGCTTGATAATTGTTCCCACAC
66 TTGAGCTTGATAATTGTTCCCACAC
*
5777921 AGAGGCTTGAATTAGACAACTATTCTCACATTAGAGCTTGAATTTTTGTATGTCCAAATTAATCA
1 AGAGGCTTGAACTAGACAACTATTCTCACATTAGAGCTTGAATTTTTGTATGTCCAAATTAATCA
5777986 TTGAGCTTGATAATTGTTCC
66 TTGAGCTTGATAATTGTTCC
5778006 TGCATTGGGC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (90 bp):
AGAGGCTTGAACTAGACAACTATTCTCACATTAGAGCTTGAATTTTTGTATGTCCAAATTAATCA
TTGAGCTTGATAATTGTTCCCACAC
Found at i:5782639 original size:18 final size:17
Alignment explanation
Indices: 5782616--5782650 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5782606 GGCTTGGTTG
5782616 CCTCAGGATCATCTATCT
1 CCTCAGGATCATC-ATCT
*
5782634 CCTCAGGCTCATCATCT
1 CCTCAGGATCATCATCT
5782651 AACCATCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.20, C:0.37, G:0.11, T:0.31
Consensus pattern (17 bp):
CCTCAGGATCATCATCT
Found at i:5784958 original size:31 final size:31
Alignment explanation
Indices: 5784920--5785041 Score: 174
Period size: 31 Copynumber: 3.9 Consensus size: 31
5784910 GAATAATTAT
*
5784920 TAAACTATTTGACAA-TTTTCATTTAAGTCAC
1 TAAACTATTTGA-AAGATTTCATTTAAGTCAC
* *
5784951 TAAACTATTTGAAAGATTTCATTGAATTCAC
1 TAAACTATTTGAAAGATTTCATTTAAGTCAC
*
5784982 TAAATTATTTGAAAGATTTCATTTAAGTCAC
1 TAAACTATTTGAAAGATTTCATTTAAGTCAC
* *
5785013 TGAACTATTTGAAAAATTTCATTTAAGTC
1 TAAACTATTTGAAAGATTTCATTTAAGTC
5785042 GCTATTAAGT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
30 2 0.02
31 79 0.98
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (31 bp):
TAAACTATTTGAAAGATTTCATTTAAGTCAC
Found at i:5785927 original size:58 final size:60
Alignment explanation
Indices: 5785859--5785990 Score: 157
Period size: 58 Copynumber: 2.3 Consensus size: 60
5785849 GTTAATGTTA
* * *
5785859 ATATAATTTAAAATTTTAATTTATTATTATAATTT-TT-TTAAAAATATTTTTCT-TATTT
1 ATATATTTTAAAATTTTAATATATTATTATAATTTCTTGTCAAAAATATTTTT-TATATTT
* * * *
5785917 ATATATTTT--AATTTTTATATATTATTATTATTTCTTGTCAACAATATTTTTTATTTTT
1 ATATATTTTAAAATTTTAATATATTATTATAATTTCTTGTCAAAAATATTTTTTATATTT
5785975 ATATATTTTAAAATTT
1 ATATATTTTAAAATTT
5785991 ATTTTTTTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
56 21 0.34
57 3 0.05
58 33 0.53
60 5 0.08
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (60 bp):
ATATATTTTAAAATTTTAATATATTATTATAATTTCTTGTCAAAAATATTTTTTATATTT
Found at i:5786867 original size:10 final size:9
Alignment explanation
Indices: 5786825--5786958 Score: 59
Period size: 9 Copynumber: 14.8 Consensus size: 9
5786815 TTATTTTCCC
*
5786825 ATAAAAAAT
1 ATAAAAATT
5786834 A-AAAAATT
1 ATAAAAATT
5786842 ATAAAAATT
1 ATAAAAATT
*
5786851 CAGAAAAATT
1 -ATAAAAATT
5786861 ATTAAAATATT
1 A-TAAAA-ATT
*
5786872 -TATAAAGTT
1 ATA-AAAATT
*
5786881 ATTAAAA-T
1 ATAAAAATT
*
5786889 -TAATAATT
1 ATAAAAATT
*
5786897 AATAAAACTT
1 -ATAAAAATT
*
5786907 ATAAATATT
1 ATAAAAATT
5786916 AT-AAAA-T
1 ATAAAAATT
5786923 ATAATAAATCT
1 ATAA-AAAT-T
*
5786934 A-ATAAATT
1 ATAAAAATT
5786942 -TCAATAAATT
1 AT-AA-AAATT
5786952 ATAAAAA
1 ATAAAAA
5786959 ATTTATAAGA
Statistics
Matches: 93, Mismatches: 15, Indels: 34
0.65 0.11 0.24
Matches are distributed among these distances:
7 7 0.08
8 14 0.15
9 36 0.39
10 30 0.32
11 6 0.06
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:5786938 original size:19 final size:17
Alignment explanation
Indices: 5786873--5786957 Score: 68
Period size: 19 Copynumber: 4.8 Consensus size: 17
5786863 TAAAATATTT
*
5786873 ATAAAGTTATTAAAATTA
1 ATAAA-TTAATAAAATTA
5786891 AT-AATTAATAAAACTT-
1 ATAAATTAATAAAA-TTA
*
5786907 ATAAATATTATAAAATATA
1 ATAAAT-TAATAAAAT-TA
*
5786926 ATAAATCTAATAAATTTCA
1 ATAAAT-TAATAAAATT-A
5786945 ATAAATT-ATAAAA
1 ATAAATTAATAAAA
5786958 AATTTATAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
16 10 0.18
17 13 0.24
18 12 0.22
19 20 0.36
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (17 bp):
ATAAATTAATAAAATTA
Found at i:5787257 original size:23 final size:23
Alignment explanation
Indices: 5787227--5787277 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
5787217 TACTATTTTA
5787227 TATTTAAGCTTTATTCACCAAAG
1 TATTTAAGCTTTATTCACCAAAG
5787250 TATTTAAGCTTTATTCACCAAAG
1 TATTTAAGCTTTATTCACCAAAG
5787273 TATTT
1 TATTT
5787278 GAAATATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (23 bp):
TATTTAAGCTTTATTCACCAAAG
Found at i:5787984 original size:42 final size:42
Alignment explanation
Indices: 5787921--5788035 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
5787911 CTTCGTTTTC
** * *
5787921 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCAGATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCAGAT-A
* * *
5787964 T-GCTGCCATAGGCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCAGATA
5788005 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
5788036 GAATCACATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.03
42 60 0.95
43 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCAGATA
Found at i:5788135 original size:31 final size:31
Alignment explanation
Indices: 5788100--5788248 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
5788090 CTTGTCACTT
* *
5788100 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
5788131 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
5788162 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
5788193 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
5788224 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
5788249 TGTTATTTGT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 112 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:5788322 original size:50 final size:51
Alignment explanation
Indices: 5788224--5788352 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
5788214 CACTGATCAG
* * *
5788224 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
5788275 GTAGCCGAAGCTATTACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
5788325 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
5788353 TGCTATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:5793889 original size:27 final size:25
Alignment explanation
Indices: 5793823--5794012 Score: 117
Period size: 27 Copynumber: 7.6 Consensus size: 25
5793813 TTTTGAACAG
* * * *
5793823 TTTTATTATTATATATTTTAAGTTT
1 TTTTAATATTATTTATTTTAAATTA
* *
5793848 TTTTCATATGGTATTTGTTTTAAATTA
1 TTTTAATAT--TATTTATTTTAAATTA
* *
5793875 TTTTACCATATTATTTATTTTAATTTG
1 TTTTA--ATATTATTTATTTTAAATTA
*
5793902 TTTT-GTATTA-TTATTTTAAATTA
1 TTTTAATATTATTTATTTTAAATTA
* *
5793925 TTTTATATATTATTTACTTTAAATTGC
1 TTTTA-ATATTATTTATTTTAAATT-A
*
5793952 TTTATAA-ATTATTTATTTCAAATTA
1 TTT-TAATATTATTTATTTTAAATTA
* * *
5793977 ATTT-ATA--CTTTATTTTAAAATA
1 TTTTAATATTATTTATTTTAAATTA
*
5793999 -TAT-ATATTATTTAT
1 TTTTAATATTATTTAT
5794013 CTTGAACCAT
Statistics
Matches: 128, Mismatches: 25, Indels: 26
0.72 0.14 0.15
Matches are distributed among these distances:
21 5 0.04
22 12 0.09
23 21 0.16
24 7 0.05
25 14 0.11
26 26 0.20
27 37 0.29
28 2 0.02
29 4 0.03
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTAATATTATTTATTTTAAATTA
Found at i:5793915 original size:23 final size:23
Alignment explanation
Indices: 5793823--5794009 Score: 90
Period size: 26 Copynumber: 7.5 Consensus size: 23
5793813 TTTTGAACAG
* *
5793823 TTTTATTATTATATATTTTAAGTTT
1 TTTTA-TATTAT-TATTTTAAATTA
*
5793848 TTTTCATATGGTATTTGTTTTAAATTA
1 TTTT-ATAT--TA-TTATTTTAAATTA
* *
5793875 TTTTACCATATTATTTATTTTAATTTG
1 TTTT---ATATTA-TTATTTTAAATTA
*
5793902 TTTTGTATTATTATTTTAAATTA
1 TTTTATATTATTATTTTAAATTA
* *
5793925 TTTTATATATTATTTACTTTAAATTGC
1 -TTT-TATATTA-TTATTTTAAATT-A
* *
5793952 TTTATAAATTATTTATTTCAAATTA
1 TTT-TATATTA-TTATTTTAAATTA
* * *
5793977 ATTTATACT-TTATTTTAAAATA
1 TTTTATATTATTATTTTAAATTA
*
5793999 -TATATATTATT
1 TTTTATATTATT
5794010 TATCTTGAAC
Statistics
Matches: 128, Mismatches: 23, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
21 6 0.05
22 13 0.10
23 11 0.09
24 12 0.09
25 15 0.12
26 33 0.26
27 32 0.25
28 1 0.01
29 5 0.04
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTATATTATTATTTTAAATTA
Found at i:5793947 original size:26 final size:25
Alignment explanation
Indices: 5793866--5793991 Score: 107
Period size: 26 Copynumber: 5.0 Consensus size: 25
5793856 TGGTATTTGT
*
5793866 TTTAAATTATTTTACCATATTATTTA
1 TTTAAATTATTTTA-TATATTATTTA
* *
5793892 TTTTAATT-TGTTT-TGTATTA-TTA
1 TTTAAATTAT-TTTATATATTATTTA
5793915 TTTTAAATTATTTTATATATTATTTA
1 -TTTAAATTATTTTATATATTATTTA
** *
5793941 CTTTAAATTGCTTTATAAATTATTTA
1 -TTTAAATTATTTTATATATTATTTA
*
5793967 TTTCAAATTAATTTATACT-TTATTT
1 TTT-AAATTATTTTATA-TATTATTT
5793992 TAAAATATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.04
24 15 0.19
25 11 0.14
26 52 0.64
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTAAATTATTTTATATATTATTTA
Found at i:5796325 original size:16 final size:18
Alignment explanation
Indices: 5796304--5796341 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5796294 TTTTAGACAT
*
5796304 TATATAA-AA-AAGAACA
1 TATATAATAATAACAACA
5796320 TATATAATAATAACAACA
1 TATATAATAATAACAACA
5796338 TATA
1 TATA
5796342 ATAAGATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (18 bp):
TATATAATAATAACAACA
Found at i:5797612 original size:3 final size:3
Alignment explanation
Indices: 5797598--5797628 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
5797588 AAGAATGTGG
5797598 AGA AGCA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA
5797629 GCTTTAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5805361 original size:23 final size:23
Alignment explanation
Indices: 5805305--5805355 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
5805295 ATTTTATTAG
**
5805305 ATAATAATTTTAAATATTAAGTT
1 ATAATAATAATAAATATTAAGTT
* *
5805328 ATTATAATAATAAATATTATGTT
1 ATAATAATAATAAATATTAAGTT
5805351 ATAAT
1 ATAAT
5805356 TTTAATTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
ATAATAATAATAAATATTAAGTT
Found at i:5807272 original size:22 final size:22
Alignment explanation
Indices: 5807247--5807299 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
5807237 ATTATAAGGA
5807247 TTATAATAAGTATAAATTTTAC
1 TTATAATAAGTATAAATTTTAC
5807269 TTATAATAAGTATAAATTTTAC
1 TTATAATAAGTATAAATTTTAC
5807291 TTATAATAA
1 TTATAATAA
5807300 ATTTTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (22 bp):
TTATAATAAGTATAAATTTTAC
Found at i:5808043 original size:15 final size:15
Alignment explanation
Indices: 5808023--5808052 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5808013 TATTTTATTT
*
5808023 ATATTAGGATAATTA
1 ATATTAAGATAATTA
5808038 ATATTAAGATAATTA
1 ATATTAAGATAATTA
5808053 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:5808080 original size:27 final size:26
Alignment explanation
Indices: 5808019--5808081 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
5808009 ACTTTATTTT
5808019 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
5808046 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
5808074 ATTTTATT
1 ATTTTATT
5808082 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:5809006 original size:12 final size:12
Alignment explanation
Indices: 5808989--5809021 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5808979 CTACTTCCCC
*
5808989 TTTACTATTATT
1 TTTACTATTAAT
5809001 TTTACTATTAAT
1 TTTACTATTAAT
5809013 TTTACTATT
1 TTTACTATT
5809022 TTACAGGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTACTATTAAT
Found at i:5809516 original size:38 final size:38
Alignment explanation
Indices: 5809474--5809592 Score: 220
Period size: 38 Copynumber: 3.1 Consensus size: 38
5809464 AACAACTTTA
* *
5809474 CACTACAACCAAGAGTTATATTATTCATGCCTATGCAT
1 CACTACAACCAAGAGTTACATTATTCATGCCTATGTAT
5809512 CACTACAACCAAGAGTTACATTATTCATGCCTATGTAT
1 CACTACAACCAAGAGTTACATTATTCATGCCTATGTAT
5809550 CACTACAACCAAGAGTTACATTATTCATGCCTATGTAT
1 CACTACAACCAAGAGTTACATTATTCATGCCTATGTAT
5809588 CACTA
1 CACTA
5809593 ATTTCACAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (38 bp):
CACTACAACCAAGAGTTACATTATTCATGCCTATGTAT
Found at i:5810883 original size:21 final size:21
Alignment explanation
Indices: 5810857--5810899 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5810847 TTCACGAAAA
*
5810857 AAATTGTTATATTAAATAAAC
1 AAATTGTTATATCAAATAAAC
5810878 AAATTGTTATATCAAATAAAC
1 AAATTGTTATATCAAATAAAC
5810899 A
1 A
5810900 TTTTAATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (21 bp):
AAATTGTTATATCAAATAAAC
Found at i:5815626 original size:11 final size:11
Alignment explanation
Indices: 5815610--5815634 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5815600 ATTTTGGAGC
5815610 AAAATGAGCAA
1 AAAATGAGCAA
5815621 AAAATGAGCAA
1 AAAATGAGCAA
5815632 AAA
1 AAA
5815635 TTGGAGCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (11 bp):
AAAATGAGCAA
Found at i:5822783 original size:52 final size:52
Alignment explanation
Indices: 5822627--5822786 Score: 205
Period size: 52 Copynumber: 3.1 Consensus size: 52
5822617 CGGACCACAT
* * *
5822627 ATCATACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATAATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACGT-ATCAC
* * *
5822680 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGGAT-ACGAATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCACGTATCAC
** * *
5822732 ATGGTACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCATGTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACGTATCAC
5822784 ATC
1 ATC
5822787 TTTTCCGTCA
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
51 4 0.04
52 47 0.52
53 36 0.40
54 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACGTATCAC
Found at i:5824796 original size:36 final size:35
Alignment explanation
Indices: 5824754--5824840 Score: 95
Period size: 36 Copynumber: 2.5 Consensus size: 35
5824744 CACTGTTGTT
** *
5824754 TTGTTATCATTTTGCTATTATATTGCTATTATTTTG
1 TTGTTAT-ATTTTGCTATTATATAACTATTATTTTA
* * *
5824790 TTGTTATTATTTGGATATTGTATAACTATTATTTTA
1 TTGTTA-TATTTTGCTATTATATAACTATTATTTTA
5824826 TTGTTA-ATTTTGCTA
1 TTGTTATATTTTGCTA
5824841 CTATTTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
34 7 0.17
36 34 0.81
37 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (35 bp):
TTGTTATATTTTGCTATTATATAACTATTATTTTA
Found at i:5826121 original size:27 final size:25
Alignment explanation
Indices: 5826073--5826124 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
5826063 TAATTCTATA
*
5826073 TTAAATTAATAAAATTAGCACAATT
1 TTAAATTAATAAAATTAACACAATT
*
5826098 TTAAATATATATATAATTAACACAATT
1 TTAAAT-TA-ATAAAATTAACACAATT
5826125 AAATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
26 2 0.09
27 15 0.65
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (25 bp):
TTAAATTAATAAAATTAACACAATT
Found at i:5826126 original size:25 final size:24
Alignment explanation
Indices: 5826072--5826141 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
5826062 ATAATTCTAT
* *
5826072 ATTAAATTA-ATAAAATTAGCACA
1 ATTAAATTATATATAATTAACACA
5826095 ATTTTAAATATATATATAATTAACACA
1 A--TTAAAT-TATATATAATTAACACA
5826122 ATTAAATTATAATTATAATT
1 ATTAAATTAT-A-TATAATT
5826142 GTCATAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 1 0.03
24 3 0.08
25 13 0.33
26 9 0.23
27 13 0.33
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (24 bp):
ATTAAATTATATATAATTAACACA
Found at i:5831245 original size:16 final size:16
Alignment explanation
Indices: 5831224--5831278 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
5831214 GTTTGGTTTA
5831224 CTGTAATGGAATA-AGG
1 CTGTAATGGAATAGA-G
5831240 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
5831256 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
5831272 CTGTAAT
1 CTGTAAT
5831279 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 35 0.97
17 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:5831346 original size:44 final size:46
Alignment explanation
Indices: 5831260--5831347 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
5831250 ATAGAGTTGT
5831260 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATAG
1 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATAG
*
5831306 AATGGAATAGAGCTGTAAT-AG-AATTC-TTGTGTTTGGTTGAAT
1 AATGGAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAAT
5831348 GAAATAGATG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.45
45 2 0.05
46 19 0.47
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATAG
Found at i:5831520 original size:15 final size:15
Alignment explanation
Indices: 5831486--5831530 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
5831476 TCATATTTTA
* *
5831486 ATATAATTATTATTAT
1 ATATAATT-TAATAAT
5831502 ATATAATTTAATAAT
1 ATATAATTTAATAAT
5831517 ATATAATTTAATAA
1 ATATAATTTAATAA
5831531 CATTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATAATTTAATAAT
Found at i:5833281 original size:33 final size:34
Alignment explanation
Indices: 5833243--5833307 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
5833233 GAACAAAATA
*
5833243 TAATATTATTAAT-TAATAGTA-AATATTCAATTT
1 TAATATTAAT-ATGTAATAGTATAATATTCAATTT
*
5833276 TAATATTAATATGTAATATTATAATATTCAAT
1 TAATATTAATATGTAATAGTATAATATTCAAT
5833308 ATTATTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 2 0.07
33 16 0.57
34 10 0.36
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (34 bp):
TAATATTAATATGTAATAGTATAATATTCAATTT
Found at i:5833372 original size:9 final size:9
Alignment explanation
Indices: 5833358--5833385 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5833348 ACAATAATTT
5833358 ATTAATATA
1 ATTAATATA
5833367 ATTAATATA
1 ATTAATATA
5833376 ATTAATATA
1 ATTAATATA
5833385 A
1 A
5833386 ATTATTACTT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTAATATA
Found at i:5833404 original size:26 final size:24
Alignment explanation
Indices: 5833368--5833416 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
5833358 ATTAATATAA
5833368 TTAATATAATTAATATAAATTATTACT
1 TTAATATAATT-AT-TAAA-TATTACT
5833395 TTAATA-AATTATTAAATATTAC
1 TTAATATAATTATTAAATATTAC
5833417 AATTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.27
24 4 0.18
25 2 0.09
26 4 0.18
27 6 0.27
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAATATAATTATTAAATATTACT
Found at i:5833548 original size:23 final size:23
Alignment explanation
Indices: 5833534--5833589 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
5833524 TATTATAATT
*
5833534 TATAAATATTTTATAGTACAAAA
1 TATAAATATTTTATATTACAAAA
5833557 TATAAATATTTTA-ATTACATAAA
1 TATAAATATTTTATATTACA-AAA
*
5833580 TATAAGTATT
1 TATAAATATT
5833590 GATTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TATAAATATTTTATATTACAAAA
Found at i:5838613 original size:42 final size:42
Alignment explanation
Indices: 5838564--5838710 Score: 179
Period size: 42 Copynumber: 3.3 Consensus size: 42
5838554 CATAGTTCAA
5838564 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACAT-ATCGATGCCATAGCCCAG
* * *
5838606 CTATGGTCTTACTCATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
5838648 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATATCGATGCCATAGCCCAG
*
5838697 CTATGGTCGTACAC
1 CTATGGTCTTACAC
5838711 GAATCACATA
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 49 0.54
45 2 0.02
48 1 0.01
49 36 0.40
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
Found at i:5838692 original size:49 final size:48
Alignment explanation
Indices: 5838591--5838800 Score: 179
Period size: 47 Copynumber: 4.5 Consensus size: 48
5838581 TTCACATAAT
* * * *
5838591 GATGCCATAGCCCAGCTATGGTCTTACTCAT-AT-TCATAT----ATC
1 GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAATC
*
5838633 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA-ATC
* * * *
5838682 GATGCCATAGCCCAGCTATGGTCGTACACG-AATCACATATCTCACT-
1 GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAATC
* * * * * *
5838728 GATGCCATATCCCATATATGGTCTTATACAGT-AGCATATATCAC-ACC
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACAATC
* *
5838775 GATGCCATATCCCAAATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
5838801 TACGGAAATC
Statistics
Matches: 141, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
42 29 0.21
43 2 0.01
44 5 0.04
46 24 0.17
47 36 0.26
48 13 0.09
49 32 0.23
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (48 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAATC
Found at i:5838857 original size:31 final size:31
Alignment explanation
Indices: 5838822--5839001 Score: 297
Period size: 31 Copynumber: 5.8 Consensus size: 31
5838812 CTTGTCACTT
*
5838822 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
5838853 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
5838884 GTAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
5838915 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
5838946 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
5838977 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
5839002 TGTCATTTGT
Statistics
Matches: 139, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 139 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:5839081 original size:50 final size:51
Alignment explanation
Indices: 5838977--5839105 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
5838967 CACTGATCAG
* * *
5838977 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
*
5839028 GTAGCCGAAGCTATCACTTATCACTT-TC-TCTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCAT-TTGTCCTTGATCAGATAAGT
5839078 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
5839106 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
49 1 0.01
50 47 0.65
51 24 0.33
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGT
Found at i:5845139 original size:17 final size:16
Alignment explanation
Indices: 5845117--5845161 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
5845107 TTTTAAATAC
5845117 TTATATTATTTTTAATT
1 TTATA-TATTTTTAATT
**
5845134 TTATAT-TTACTAATT
1 TTATATATTTTTAATT
5845149 TTATATATTTTTA
1 TTATATATTTTTA
5845162 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.57
16 5 0.22
17 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATATATTTTTAATT
Found at i:5845152 original size:27 final size:27
Alignment explanation
Indices: 5845094--5845152 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
5845084 TTGCCCATAT
* *
5845094 TATT-TTTTTAATTTTTTAAATACTTA
1 TATTATTTTTAATTTTATAAATACTAA
**
5845120 TATTATTTTTAATTTTATATTTACTAA
1 TATTATTTTTAATTTTATAAATACTAA
*
5845147 TTTTAT
1 TATTAT
5845153 ATATTTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTATTTTTAATTTTATAAATACTAA
Found at i:5851619 original size:8 final size:8
Alignment explanation
Indices: 5851601--5851638 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
5851591 TTTAAGAAAT
5851601 TAATAATTA
1 TAATAA-TA
5851610 TAATAATA
1 TAATAATA
*
5851618 TAATAGT-
1 TAATAATA
5851625 TAATAATA
1 TAATAATA
5851633 TAATAA
1 TAATAA
5851639 AAGAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 14 0.54
9 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:5851646 original size:24 final size:24
Alignment explanation
Indices: 5851600--5851646 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5851590 ATTTAAGAAA
* *
5851600 TTAATAATTATAATAATATAATAG
1 TTAATAATTATAATAAAAAAATAG
5851624 TTAATAA-TATAATAAAAGAAATA
1 TTAATAATTATAATAAAA-AAATA
5851647 ATAAAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
TTAATAATTATAATAAAAAAATAG
Found at i:5851715 original size:16 final size:16
Alignment explanation
Indices: 5851657--5851707 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
5851647 ATAAAAGAAT
5851657 AAAGAAAAA-GGAAAG
1 AAAGAAAAAGGGAAAG
* * *
5851672 AAAGAAGGACGAGAAAG
1 AAAGAA-AAAGGGAAAG
5851689 AAAGAAAAAGGGAAAG
1 AAAGAAAAAGGGAAAG
5851705 AAA
1 AAA
5851708 AATAAAGGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 6 0.21
16 11 0.39
17 11 0.39
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGGGAAAG
Found at i:5859126 original size:8 final size:8
Alignment explanation
Indices: 5859108--5859145 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
5859098 TTTAAGAAAT
5859108 TAATAATTA
1 TAATAA-TA
5859117 TAATAATA
1 TAATAATA
*
5859125 TAATAGT-
1 TAATAATA
5859132 TAATAATA
1 TAATAATA
5859140 TAATAA
1 TAATAA
5859146 AAGAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 14 0.54
9 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:5859153 original size:24 final size:24
Alignment explanation
Indices: 5859107--5859153 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5859097 ATTTAAGAAA
* *
5859107 TTAATAATTATAATAATATAATAG
1 TTAATAATTATAATAAAAAAATAG
5859131 TTAATAA-TATAATAAAAGAAATA
1 TTAATAATTATAATAAAA-AAATA
5859154 ATAAAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
TTAATAATTATAATAAAAAAATAG
Found at i:5860845 original size:30 final size:29
Alignment explanation
Indices: 5860807--5860864 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
5860797 GTAAAAACTC
* *
5860807 AAAATTTAAAGGATTAA-AGTGTAAATATG
1 AAAATTT-AAGGACTAATAGTGCAAATATG
5860836 AAAAGTTTAAGGACTAATAGTGCAAATAT
1 AAAA-TTTAAGGACTAATAGTGCAAATAT
5860865 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.29
Consensus pattern (29 bp):
AAAATTTAAGGACTAATAGTGCAAATATG
Found at i:5863343 original size:46 final size:46
Alignment explanation
Indices: 5863291--5863706 Score: 579
Period size: 46 Copynumber: 9.0 Consensus size: 46
5863281 GTGTGCTCTT
** *
5863291 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** *
5863337 TGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
** *
5863383 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
5863429 TGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
5863475 TGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
5863521 TGATATGAAATGACTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
5863567 TGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
5863613 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
5863659 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
5863705 TG
1 TG
5863707 TCAAAGATAA
Statistics
Matches: 340, Mismatches: 23, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
45 4 0.01
46 333 0.98
47 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:5863448 original size:92 final size:92
Alignment explanation
Indices: 5863298--5863701 Score: 650
Period size: 92 Copynumber: 4.4 Consensus size: 92
5863288 CTTTGATATG
* * **
5863298 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGT
* *
5863363 TAAAAGATACCATGGCAATC-TGATATG-
66 TGAAAGATACCATGGCAA-CATGACA-GA
* *
5863390 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACTATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGT
5863455 TGAAAGATACCATGGCAACATGACAGA
66 TGAAAGATACCATGGCAACATGACAGA
* *
5863482 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGACTAAGACCATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGT
5863547 TGAAAGATACCATGGCAACATGACAGA
66 TGAAAGATACCATGGCAACATGACAGA
*
5863574 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGT
5863639 TGAAAGATACCATGGCAACATGACAGA
66 TGAAAGATACCATGGCAACATGACAGA
* * *
5863666 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
5863702 TCATGTCAAA
Statistics
Matches: 295, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
91 2 0.01
92 293 0.99
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGA
Found at i:5864895 original size:13 final size:13
Alignment explanation
Indices: 5864877--5864928 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
5864867 GTCAGATCTG
5864877 CCCACGGCCTGGC
1 CCCACGGCCTGGC
5864890 CCCACGGCCATGGGAAC
1 CCCACGGCC-T-GG--C
*
5864907 CCCACGGGCTGGC
1 CCCACGGCCTGGC
*
5864920 CACACGGCC
1 CCCACGGCC
5864929 ATGTCCCAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 17 0.53
14 1 0.03
15 4 0.12
16 1 0.03
17 9 0.28
ACGTcount: A:0.15, C:0.48, G:0.31, T:0.06
Consensus pattern (13 bp):
CCCACGGCCTGGC
Found at i:5869125 original size:24 final size:24
Alignment explanation
Indices: 5869096--5869144 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
5869086 TTTAGTTTTA
*
5869096 ATCAATCATTTGAATTAATTAGTT
1 ATCAATCATTCGAATTAATTAGTT
*
5869120 ATCAATCATTCGAATTATTTAGTT
1 ATCAATCATTCGAATTAATTAGTT
5869144 A
1 A
5869145 AATATTAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (24 bp):
ATCAATCATTCGAATTAATTAGTT
Found at i:5872264 original size:11 final size:11
Alignment explanation
Indices: 5872244--5872273 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
5872234 ATTGAATTTT
5872244 AATTTAATTAAA
1 AATTT-ATTAAA
5872256 AATTTATTAAA
1 AATTTATTAAA
5872267 AATTTAT
1 AATTTAT
5872274 GTTTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AATTTATTAAA
Found at i:5875690 original size:17 final size:17
Alignment explanation
Indices: 5875668--5875701 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5875658 ATCCACTAAT
*
5875668 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
5875685 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
5875702 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5880320 original size:17 final size:17
Alignment explanation
Indices: 5880298--5880331 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5880288 ATCCACTAAT
*
5880298 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
5880315 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
5880332 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5886532 original size:99 final size:99
Alignment explanation
Indices: 5886347--5886540 Score: 253
Period size: 99 Copynumber: 2.0 Consensus size: 99
5886337 ATAATTATCG
* * * * * **
5886347 TTAAAATTAAAAATTTTAAGTGTGAACTTGAGATAGATATCATTATTATACGTTATTTTTGGACC
1 TTAAAACTAAAAATTTTAAGTGTGAACTTGAGATAAATATCATAAATATACATTAACTTTGGACC
* *
5886412 AATGTGCGCTACATAAATTTTAATCTTGTGCGAT
66 AATGTCCACTACATAAATTTTAATCTTGTGCGAT
**
5886446 TTAAAACTAAAAATTTTAAGTGTGAACTTGAGATAAATATCATAAATATTTATTAACTTTGGACC
1 TTAAAACTAAAAATTTTAAGTGTGAACTTGAGATAAATATCATAAATATACATTAACTTTGGACC
* * * *
5886511 AATTTCCACTGCATGAGTTTTAATCTTGTG
66 AATGTCCACTACATAAATTTTAATCTTGTG
5886541 GAATTAAGTT
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (99 bp):
TTAAAACTAAAAATTTTAAGTGTGAACTTGAGATAAATATCATAAATATACATTAACTTTGGACC
AATGTCCACTACATAAATTTTAATCTTGTGCGAT
Found at i:5886692 original size:74 final size:74
Alignment explanation
Indices: 5886571--5886716 Score: 274
Period size: 74 Copynumber: 2.0 Consensus size: 74
5886561 ATGGGGCGTG
* *
5886571 TTGGACCGTAATAAAATTTTAAGCCCGTTTGATAGGCCTTAGGCTTGGTCTAAAAATGGGTATAA
1 TTGGACCGTAACAAAATTTTAAGCCCGTTTGATAGGCCTTAGGCTTGGTCTAAAAATAGGTATAA
5886636 AATTTTACC
66 AATTTTACC
5886645 TTGGACCGTAACAAAATTTTAAGCCCGTTTGATAGGCCTTAGGCTTGGTCTAAAAATAGGTATAA
1 TTGGACCGTAACAAAATTTTAAGCCCGTTTGATAGGCCTTAGGCTTGGTCTAAAAATAGGTATAA
5886710 AATTTTA
66 AATTTTA
5886717 TCTTTAAGTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (74 bp):
TTGGACCGTAACAAAATTTTAAGCCCGTTTGATAGGCCTTAGGCTTGGTCTAAAAATAGGTATAA
AATTTTACC
Found at i:5886849 original size:25 final size:25
Alignment explanation
Indices: 5886821--5886871 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
5886811 CATCAAATAC
*
5886821 ACTAAAAACATT-AAAATAAATGTTT
1 ACTAAAAA-ATTGAAAATAAATATTT
*
5886846 ACTAACAAATTGAAAATAAATATTT
1 ACTAAAAAATTGAAAATAAATATTT
5886871 A
1 A
5886872 AAAAAAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (25 bp):
ACTAAAAAATTGAAAATAAATATTT
Found at i:5887328 original size:30 final size:30
Alignment explanation
Indices: 5887261--5887329 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
5887251 TAGCACCATT
5887261 TTATATTTA--CATATTTCATAAAAAAATTA
1 TTATATTTATTCA-ATTTCATAAAAAAATTA
* *
5887290 TTATATTTATTCAATTTGATAAATAAATGTA
1 TTATATTTATTCAATTTCATAAAAAAAT-TA
5887321 TTA-ATTTAT
1 TTATATTTAT
5887330 GAGATGTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 9 0.26
30 19 0.54
31 7 0.20
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (30 bp):
TTATATTTATTCAATTTCATAAAAAAATTA
Found at i:5887416 original size:30 final size:29
Alignment explanation
Indices: 5887351--5887416 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
5887341 AATAGAATCA
* *
5887351 AAATCAAAGTTTCATAATACAGTTAAATC
1 AAATCAAAGTTTCATAATACAATTAAACC
* * *
5887380 ATAATCAAAGTTTCATATCTATAATTACACC
1 A-AATCAAAGTTTCATA-ATACAATTAAACC
5887411 AAATCA
1 AAATCA
5887417 TAGATCATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.03
30 20 0.67
31 9 0.30
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.32
Consensus pattern (29 bp):
AAATCAAAGTTTCATAATACAATTAAACC
Found at i:5912344 original size:130 final size:130
Alignment explanation
Indices: 5912106--5912370 Score: 415
Period size: 130 Copynumber: 2.0 Consensus size: 130
5912096 TGGATGTGAT
* ** *
5912106 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGCTCTTCACTCTATTCCACTGTTGCCCCGAG
1 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGAG
*
5912171 AGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
66 AGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGTCGAC
* *
5912236 CTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
1 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGAG
** *
5912301 AGATAGAACTACTGGCTT-TAATGTACTCCACCGTAATCGGGGAGGTAAAATCCGCCATCGTCGA
66 AGATAGAACTACCAGCTTCT-ATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGTCGA
*
5912365 T
130 C
5912366 CTGCT
1 CTGCT
5912371 TCGCTGCCAA
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
129 1 0.01
130 122 0.99
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (130 bp):
CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGAG
AGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGTCGAC
Found at i:5912633 original size:132 final size:132
Alignment explanation
Indices: 5912434--5913191 Score: 1282
Period size: 132 Copynumber: 5.7 Consensus size: 132
5912424 CAAATACAGG
* * * * *
5912434 GACAATATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * *
5912499 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGTCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
5912564 AA
131 AA
* * *
5912566 GACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATATTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
5912631 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATA
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
5912696 AA
131 AA
** *
5912698 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTATATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
5912763 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
5912828 AA
131 AA
* * *
5912830 GATAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
5912895 CCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
5912960 AA
131 AA
*
5912962 GATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
5913027 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACTTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
5913092 AA
131 AA
5913094 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
5913159 TCCACTTCCTACCAATATATGAAGATAGGACCT
66 TCCACTTCCTACCAATATAGGAAGATAGGACCT
5913192 ATTTACGCCT
Statistics
Matches: 588, Mismatches: 38, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 588 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:5923027 original size:91 final size:91
Alignment explanation
Indices: 5922872--5923373 Score: 670
Period size: 91 Copynumber: 5.5 Consensus size: 91
5922862 TCGCTGTAGG
* * * *
5922872 ACCTCAACGAGGCAGCTAAGTGTTCATTTCTATGAGCTGAAAATTGAAACAAATATGAGTTGGCT
1 ACCTCAATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAAATCGAAACAAATATGAGTTGGCT
*
5922937 ACTTCTAACCTACTGATACGAAATGC
66 ACTTCTAACCTACCGATACGAAATGC
* *
5922963 ACCTCAATGAGACAGCTAAATGTTCATTTCTATGAGCTGAAAATCGAAACAAATATGAGTTGGCT
1 ACCTCAATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAAATCGAAACAAATATGAGTTGGCT
* * * *
5923028 ACTTCTATCCTACCGCTACAAAATGT
66 ACTTCTAACCTACCGATACGAAATGC
* *
5923054 ATCTCAATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAAGA-C-AAAGCAAATATGAGTCGG
1 ACCTCAATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAA-ATCGAAA-CAAATATGAGTTGG
* *
5923117 CTACTTCTAAGCTACCAATACGAAATGC
64 CTACTTCTAACCTACCGATACGAAATGC
* * * *
5923145 ATCTCAACGAAGCAGCTAAATGTTCATTTCTTTGAGCTGAAAATC-AAAGCAAATATGAGTCGGC
1 ACCTCAATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAAATCGAAA-CAAATATGAGTTGGC
* * *
5923209 TACTTCTAAGCTACCAATACGAAATGG
65 TACTTCTAACCTACCGATACGAAATGC
* * * *
5923236 ACCTCAATGAGGCAACTAAATGTTCATTTCTGTGAGCTGAAAATCAAAACAAATATGAGTTGACT
1 ACCTCAATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAAATCGAAACAAATATGAGTTGGCT
* * *
5923301 ACTTTTAACCTACTGCTACGAAACTG-
66 ACTTCTAACCTACCGATACGAAA-TGC
*
5923327 ACCTCGATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAAATCGA
1 ACCTCAATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAAATCGA
5923374 GAGTGAATAG
Statistics
Matches: 368, Mismatches: 38, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
90 4 0.01
91 358 0.97
92 6 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (91 bp):
ACCTCAATGAGGCAGCTAAATGTTCATTTCTTTGAGCTGAAAATCGAAACAAATATGAGTTGGCT
ACTTCTAACCTACCGATACGAAATGC
Done.