Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 124 of 335
Found at i:37415939 original size:42 final size:42
Alignment explanation
Indices: 37415828--37415955 Score: 195
Period size: 41 Copynumber: 3.1 Consensus size: 42
37415818 AGACACGTGA
* *
37415828 CTTCAATCAATTCCACTGAAACTTCAAGGAGATCTACTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
*
37415870 CTTCGATTAA-TCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
* * *
37415911 CTTCGATCAATTCCACTGAAGCTTCAAGGAGATTTGCTGTGG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
37415953 CTT
1 CTT
37415956 TTAGCTGCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 39 0.50
42 39 0.50
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
Found at i:37416546 original size:43 final size:44
Alignment explanation
Indices: 37416463--37416554 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 44
37416453 TACATTTAGC
* * *
37416463 CTGCTCCACTGCGACTTCAAGGAGATGAGACTTGTAACTTCAGT
1 CTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTCAAT
* *
37416507 CTGCTCCACTGC-ACTTC-AGGAAGATAAGGCTAGTGACTTCAAT
1 CTGCTCCACTGCGACTTCAAGG-AGATAAGACTAGTAACTTCAAT
37416550 CTGCT
1 CTGCT
37416555 TCGCTGAGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 3 0.07
43 27 0.64
44 12 0.29
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (44 bp):
CTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTCAAT
Found at i:37428686 original size:3 final size:3
Alignment explanation
Indices: 37428629--37428727 Score: 57
Period size: 3 Copynumber: 35.0 Consensus size: 3
37428619 TAATATGCTG
* * * * * *
37428629 ATA AT- ATA ATA GTA ATG ATA ATA GTA ATA ATA GTA AAA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * **
37428676 A-C ATA ATA ATA A-A AAA ATA A-G ATA ATA ATA ATA GCA ATA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37428719 ATA ATA ATA
1 ATA ATA ATA
37428728 GTGATATTAG
Statistics
Matches: 70, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
2 10 0.14
3 60 0.86
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:37428686 original size:11 final size:10
Alignment explanation
Indices: 37428629--37428727 Score: 53
Period size: 11 Copynumber: 9.6 Consensus size: 10
37428619 TAATATGCTG
37428629 ATAATATAATA
1 ATAATA-AATA
*
37428640 GTAATGATAATA
1 ATAAT-A-AATA
*
37428652 GTAAT-AATA
1 ATAATAAATA
*
37428661 GTAA-AAATA
1 ATAATAAATA
*
37428670 AAAATAACATA
1 ATAATAA-ATA
37428681 ATAATAAA-A
1 ATAATAAATA
37428690 A-AATAAGATA
1 ATAATAA-ATA
*
37428700 ATAATAATAGCA
1 ATAATAA-A-TA
*
37428712 ATAAAAAATA
1 ATAATAAATA
37428722 ATAATA
1 ATAATA
37428728 GTGATATTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
8 5 0.07
9 17 0.24
10 11 0.15
11 20 0.28
12 18 0.25
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (10 bp):
ATAATAAATA
Found at i:37428693 original size:19 final size:19
Alignment explanation
Indices: 37428669--37428706 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37428659 TAGTAAAAAT
37428669 AAAAATAACATAATAATAA
1 AAAAATAACATAATAATAA
*
37428688 AAAAATAAGATAATAATAA
1 AAAAATAACATAATAATAA
37428707 TAGCAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAAATAACATAATAATAA
Found at i:37429440 original size:3 final size:3
Alignment explanation
Indices: 37429432--37429488 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
37429422 ACAAATACAT
37429432 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
37429480 TAA AAA TAA
1 TAA TAA TAA
37429489 ACTAATTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:37431555 original size:15 final size:15
Alignment explanation
Indices: 37431537--37431587 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
37431527 TCACTCAAAT
*
37431537 CTTCACTATCGAACC
1 CTTCATTATCGAACC
*
37431552 CTTCTTTATCAGAA-C
1 CTTCATTATC-GAACC
37431567 CTTCATTATC-AGACC
1 CTTCATTATCGA-ACC
37431582 CTTCAT
1 CTTCAT
37431588 CACCATCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.03
14 1 0.03
15 25 0.83
16 3 0.10
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.35
Consensus pattern (15 bp):
CTTCATTATCGAACC
Found at i:37443145 original size:13 final size:13
Alignment explanation
Indices: 37443112--37443154 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
37443102 TTTTAAATTA
*
37443112 TTTTGGTTTTA-T
1 TTTTTGTTTTATT
*
37443124 TTTAT-TTTTATT
1 TTTTTGTTTTATT
37443136 TTTTTGTTTTATT
1 TTTTTGTTTTATT
37443149 TTTTTG
1 TTTTTG
37443155 GTTGTGGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 13 0.50
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (13 bp):
TTTTTGTTTTATT
Found at i:37443584 original size:176 final size:175
Alignment explanation
Indices: 37443369--37444209 Score: 898
Period size: 177 Copynumber: 4.8 Consensus size: 175
37443359 CCTCAGGGAA
* * *
37443369 ATAAGATCTTCAATCTTCAGTCTGCTCCCTTGTTACCTCAGGAAGATAAGACTTATTCTTCAATT
1 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTATTCTTCAACT
* * *
37443434 TGTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGATAAAATCTGCTCCATTGCCGATACATGGA
66 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGCTAAAATCTACTCCATTGCCGATACATGGA
* * *
37443499 GATAAGATTCACCATTTTTGATCTGCTCCACTGCAGCTTCAAGGAG
131 GATAAGATTCACCATTTTCGATCTGCTCCGCTACAGCTT-AAGGAG
* * * *
37443545 ATAAGATCTTCAATCTTCAGTCTGCTTTCTTACTACCTCAGAAAGATAAGACTCATTCTTCAACT
1 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTATTCTTCAACT
* * *
37443610 TGCTCTCTTGCTACCT--GAG-G-TGAGGCGGGTGGTAAAATCTACTCCATTGCCGATACATGGA
66 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGCTAAAATCTACTCCATTGCCGATACATGGA
* * * * * *
37443671 GATAAAATTCACCATATTCGATCTGCTCCTCTGCAAG-TGCAGGGAG
131 GATAAGATTCACCATTTTCGATCTGCTCCGCTAC-AGCT-TAAGGAG
* * * * * *
37443717 ATAAGAT-TTTAATCTTCAGTCTGCTTTCTTGCTACCTTAGAAAGATAAGACTCATTCTTTAACT
1 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTATTCTTCAACT
* * ** *
37443781 TGATCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTCAATCTGCTCCATTGCCGATACATGG
66 TGCTCTCTTGCTACCTCAGAGAGATAAGGC-TGGTGCTAAAATCTACTCCATTGCCGATACATGG
* ** * *
37443846 AGATAAGATTCGCCATCCTGGATCTGCTCCGCTACTGCTTAAGGAG
130 AGATAAGATTCACCATTTTCGATCTGCTCCGCTACAGCTTAAGGAG
* *
37443892 ATAAGATCTTCAATCTTTAGTCTACTTCCTTGCTACCTCAGGAAGATAAGAC-TATTATCTTCAA
1 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTA-T-TCTTCAA
* * * * * * **
37443956 CCTACTCTCTTGTTACCTCAAAGAGATAAGG-TCAGTGGCTAAAATCTACTCCATTACTAATACA
64 CTTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GGT-GCTAAAATCTACTCCATTGCCGATACA
* * * *
37444020 TGGAGATAAGATTCACCATTTTCAATCTGTTCTGCTACTGCTT-AGAGAG
127 TGGAGATAAGATTCACCATTTTCGATCTGCTCCGCTACAGCTTAAG-GAG
* * * * *
37444069 ATAAGATCTGT-GATTTTCAGTCTGC-TCCACTG-TAACCTCAAGAAGATAAGACTTCAATCTTC
1 ATAAGATCT-TCAATCTTCAGTCTGCTTCC-TTGCT-ACCTCAGGAAGATAAGACTT-ATTCTTC
* * * * *
37444131 AACATGCTCTCTTACTACCTCAGAGAGATAAGGTTTGAG-GCTTAAATCTACTCCATTGACGATA
62 AACTTGCTCTCTTGCTACCTCAGAGAGATAAGG-CTG-GTGCTAAAATCTACTCCATTGCCGATA
37444195 CATGGAGATAAGATT
125 CATGGAGATAAGATT
37444210 TGCCTCTTCC
Statistics
Matches: 557, Mismatches: 86, Indels: 43
0.81 0.13 0.06
Matches are distributed among these distances:
171 68 0.12
172 80 0.14
173 6 0.01
174 4 0.01
175 20 0.04
176 176 0.32
177 198 0.36
178 2 0.00
179 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (175 bp):
ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTATTCTTCAACT
TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGCTAAAATCTACTCCATTGCCGATACATGGA
GATAAGATTCACCATTTTCGATCTGCTCCGCTACAGCTTAAGGAG
Found at i:37444370 original size:147 final size:147
Alignment explanation
Indices: 37444103--37444371 Score: 414
Period size: 147 Copynumber: 1.8 Consensus size: 147
37444093 CTCCACTGTA
**
37444103 ACCTCAAGAAGATAAGACTTCAATCTTCAACATGCTCTCTTACTACCTCAGAGAGATAAGGTTTG
1 ACCTCAAGAAGATAAGACTTCAATCTTCAACATGCTCTCTTACTACCTCAGAGAGATAAGGTCAG
* * *
37444168 AGGCTTAAATCTACTCCATTGACGATACATGGAGATAAGATTTGCCTCTTCCAATCTTCAATCTT
66 AGGCTAAAATCTACTCCATTGACGATACATGGAGATAAGATTCGCCTCATCCAATCTTCAATCTT
37444233 CAGTCTGCTTCCTTGCT
131 CAGTCTGCTTCCTTGCT
* * * *
37444250 ACCTCAAGAAGATAAGACTTCAATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAATGTCAG
1 ACCTCAAGAAGATAAGACTTCAATCTTCAACATGCTCTCTTACTACCTCAGAGAGATAAGGTCAG
* * *
37444315 TGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCAT-CAATCT
66 AGGCTAAAATCTACTCCATTGACGATACATGGAGATAAGATTCGCC-TCATCCAATCT
37444372 GCCCCACTAC
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
147 106 0.97
148 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (147 bp):
ACCTCAAGAAGATAAGACTTCAATCTTCAACATGCTCTCTTACTACCTCAGAGAGATAAGGTCAG
AGGCTAAAATCTACTCCATTGACGATACATGGAGATAAGATTCGCCTCATCCAATCTTCAATCTT
CAGTCTGCTTCCTTGCT
Found at i:37444474 original size:133 final size:133
Alignment explanation
Indices: 37444322--37444578 Score: 399
Period size: 133 Copynumber: 1.9 Consensus size: 133
37444312 CAGTGGCTAA
*
37444322 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCATCAATCTGCCCCACTACTGCCT
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCATCAATCTGCCCCACTACTGCCT
*
37444387 AGGGAGATAAGATCTACAAAT-TCCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTACAAT
66 AGGGAGATAAGATCTAC-AATCTCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT
37444451 CGCC
130 CGCC
* * * * * *
37444455 AATCTGCTCCATTGTCGATACATGGAGATAAGATTCACTATCTTCGATCTGCTCCACTACTGCTT
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCATCAATCTGCCCCACTACTGCCT
* * *
37444520 AGGGAGGTAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
66 AGGGAGATAAGATCTACAATCTCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
37444579 CAACTTTCAA
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
132 3 0.03
133 109 0.97
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (133 bp):
AATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCATCAATCTGCCCCACTACTGCCT
AGGGAGATAAGATCTACAATCTCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
GCC
Found at i:37444946 original size:64 final size:67
Alignment explanation
Indices: 37444810--37444969 Score: 195
Period size: 64 Copynumber: 2.4 Consensus size: 67
37444800 TGCCATGATC
* * * *
37444810 AAAAA-GAATCAAATGCTCTTAACTAAATGAGATATGAGTGATGTCAAATAATTAGGACGCTATG
1 AAAAATGAATCAAATGCTCTTAACTAGATGAGATATGACTGATGTCAAATAATTAGGACACTATA
37444874 AT
66 AT
** * *
37444876 CGAAATGAATCAAATGCTCTTAACTAGA-G-G-TAATG-CTTATGTCAAATAATTAGGATACTAT
1 AAAAATGAATCAAATGCTCTTAACTAGATGAGAT-ATGACTGATGTCAAATAATTAGGACACTAT
37444937 AAT
65 AAT
*
37444940 AAAAATGAATCAAATGCTCCTAACTAGATG
1 AAAAATGAATCAAATGCTCTTAACTAGATG
37444970 CGTGATTTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
64 50 0.62
65 5 0.06
66 4 0.05
67 21 0.26
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (67 bp):
AAAAATGAATCAAATGCTCTTAACTAGATGAGATATGACTGATGTCAAATAATTAGGACACTATA
AT
Found at i:37445989 original size:14 final size:13
Alignment explanation
Indices: 37445972--37446024 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
37445962 TTGTTTTTAA
*
37445972 TTTTTTGATTTTC
1 TTTTTTTATTTTC
*
37445985 TTTTTTAATTTTTC
1 TTTTTTTA-TTTTC
*
37445999 TTTTTTTTATTTTGA
1 -TTTTTTTATTTT-C
37446014 TTTTTTTATTT
1 TTTTTTTATTT
37446025 CAATCTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 7 0.21
14 20 0.59
15 7 0.21
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.81
Consensus pattern (13 bp):
TTTTTTTATTTTC
Found at i:37446004 original size:21 final size:20
Alignment explanation
Indices: 37445955--37446018 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
37445945 TCTCCTTTTC
*
37445955 TTTC-TTTTTGTTTTTAATT
1 TTTCTTTTTTTTTTTTAATT
*
37445974 TTT-TGATTTTCTTTTTTAATT
1 TTTCT--TTTTTTTTTTTAATT
*
37445995 TTTCTTTTTTTTATTTTGATT
1 TTTCTTTTTTTT-TTTTAATT
37446016 TTT
1 TTT
37446019 TTATTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.08
20 6 0.17
21 26 0.72
22 1 0.03
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTCTTTTTTTTTTTTAATT
Found at i:37446038 original size:35 final size:34
Alignment explanation
Indices: 37445974--37446046 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
37445964 GTTTTTAATT
* *
37445974 TTTTGATTTTCTTTTTTAATTTTTCTTTTTTTTA
1 TTTTGATTTTCTTTTTTAATTCTTCTTTTTCTTA
37446008 TTTTGATTTT-TTTATTTCAATCTCTT-TTTTTCTTA
1 TTTTGATTTTCTTT-TTT-AAT-TCTTCTTTTTCTTA
37446043 TTTT
1 TTTT
37446047 TTTAAGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 3 0.09
34 13 0.38
35 15 0.44
36 3 0.09
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (34 bp):
TTTTGATTTTCTTTTTTAATTCTTCTTTTTCTTA
Found at i:37455623 original size:13 final size:13
Alignment explanation
Indices: 37455599--37455642 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
37455589 TTCCTGTAAA
*
37455599 CATTTCACATAAC
1 CATTTCATATAAC
**
37455612 CATTTTGTATAAC
1 CATTTCATATAAC
*
37455625 CAATTCATATAAC
1 CATTTCATATAAC
37455638 CATTT
1 CATTT
37455643 GTCATCTGGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:37455787 original size:46 final size:46
Alignment explanation
Indices: 37455725--37455860 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
37455715 TTATATTTGA
* * *** *
37455725 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTTGTTTTC-TGT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTAC-ACATTTCATAT
* *
37455771 CATGTTGCCATGGTATCTTTCAGCCATGGTCTTACACATTTCATAT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
37455817 CAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCAT
37455861 TTCAGAGAGC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.05
46 74 0.95
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:37456191 original size:24 final size:24
Alignment explanation
Indices: 37456164--37456366 Score: 73
Period size: 23 Copynumber: 8.6 Consensus size: 24
37456154 TTTAACGGAG
*
37456164 AGCTCATAAAGAGCCATATCGGGA
1 AGCTCACAAAGAGCCATATCGGGA
** * * *
37456188 AGCT-A-ATCCGGGCTATAACGGGA
1 AGCTCACA-AAGAGCCATATCGGGA
* * * * *
37456211 AACTCA-ATAGAGCCGAAATCAGGT
1 AGCTCACAAAGAGCC-ATATCGGGA
* * *
37456235 AGTTCACAAAGAACCATATCGTGA
1 AGCTCACAAAGAGCCATATCGGGA
*
37456259 AGCTCACGAAGAGCC-TATCGGGA
1 AGCTCACAAAGAGCCATATCGGGA
** * *
37456282 AGCTC-CGGATAGCCATATATCGAGA
1 AGCTCACAAAGAGCC--ATATCGGGA
* * *
37456307 AGTTCA-AGCA-AG-CACTATTGGGA
1 AGCTCACA-AAGAGCCA-TATCGGGA
*
37456330 GGCTCACAAAGAGCC-TATCGGGA
1 AGCTCACAAAGAGCCATATCGGGA
*
37456353 AGCTCACGAAGAGC
1 AGCTCACAAAGAGC
37456367 TGTATTTTGG
Statistics
Matches: 126, Mismatches: 40, Indels: 27
0.65 0.21 0.14
Matches are distributed among these distances:
22 9 0.07
23 60 0.48
24 36 0.29
25 20 0.16
26 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.17
Consensus pattern (24 bp):
AGCTCACAAAGAGCCATATCGGGA
Found at i:37456283 original size:23 final size:23
Alignment explanation
Indices: 37456251--37456366 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 23
37456241 CAAAGAACCA
*
37456251 TATCGTGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* *
37456274 TATCGGGAAGCTC-CGGATAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * * *
37456296 ATATATCGAGAAGTTCAAGCA-AGCAC
1 ---TATCGGGAAGCTCACGAAGAGC-C
* * *
37456322 TATTGGGAGGCTCACAAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
37456345 TATCGGGAAGCTCACGAAGAGC
1 TATCGGGAAGCTCACGAAGAGC
37456367 TGTATTTTGG
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
22 7 0.10
23 43 0.61
24 3 0.04
25 14 0.20
26 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAGAGCC
Found at i:37458842 original size:13 final size:13
Alignment explanation
Indices: 37458824--37458874 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
37458814 CGAATTCTTC
37458824 CTTTTCTTCTCCT
1 CTTTTCTTCTCCT
*
37458837 CTTTTCTTCT-AT
1 CTTTTCTTCTCCT
* *
37458849 TTTCTTTTTCTCCTT
1 CTT-TTCTTCTCC-T
37458864 CTTTTCTTCTC
1 CTTTTCTTCTC
37458875 TAGCCAAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
12 3 0.10
13 16 0.55
14 7 0.24
15 3 0.10
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (13 bp):
CTTTTCTTCTCCT
Found at i:37461565 original size:29 final size:27
Alignment explanation
Indices: 37461494--37461565 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 27
37461484 TATCATATAA
* *
37461494 ATATCTTATAATATAATTATAATAAATT
1 ATATTTTATAAT-TTATTATAATAAATT
*
37461522 A-ATTTAATATCATTTATTACTAATAAATAT
1 ATATTT--TATAATTTATTA-TAATAAAT-T
37461552 ATATTTTATAATTT
1 ATATTTTATAATTT
37461566 GAAATCTAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
27 3 0.09
28 6 0.17
29 20 0.57
30 2 0.06
31 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTTTATAATTTATTATAATAAATT
Found at i:37464905 original size:50 final size:50
Alignment explanation
Indices: 37464829--37464943 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 50
37464819 CTCAAAATAT
* * * *
37464829 AAAAATAAGTAAATAAGAATTAAAAAATGAATGTGAAATGGATCTTTGAA
1 AAAAATAAGAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
37464879 AAAAATAAGGAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
1 AAAAATAA-GAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
37464930 AAAAATAATGAAAA
1 AAAAATAA-GAAAA
37464944 AAAACTCAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 8 0.14
51 51 0.86
ACGTcount: A:0.61, C:0.03, G:0.14, T:0.23
Consensus pattern (50 bp):
AAAAATAAGAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
Found at i:37464939 original size:27 final size:27
Alignment explanation
Indices: 37464850--37464939 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 27
37464840 AATAAGAATT
*
37464850 AAAAAATGAATGTGAAATGGATCTTTGA
1 AAAAAAT-AATGTGAAATGGATCTTTAA
*** ***
37464878 AAAAAATAA-G-GAAAACAAGAATTAA
1 AAAAAATAATGTGAAATGGATCTTTAA
*
37464903 AAAATA-AATGTGAAATGGATCTTTAA
1 AAAAAATAATGTGAAATGGATCTTTAA
37464929 AAAAAATAATG
1 AAAAAATAATG
37464940 AAAAAAAACT
Statistics
Matches: 44, Mismatches: 15, Indels: 7
0.67 0.23 0.11
Matches are distributed among these distances:
24 2 0.05
25 14 0.32
26 15 0.34
27 6 0.14
28 7 0.16
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.23
Consensus pattern (27 bp):
AAAAAATAATGTGAAATGGATCTTTAA
Found at i:37464958 original size:15 final size:14
Alignment explanation
Indices: 37464925--37464967 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
37464915 AAATGGATCT
37464925 TTAAAAAAAA-TAA
1 TTAAAAAAAACTAA
*
37464938 TGAAAAAAAACTCAA
1 TTAAAAAAAACT-AA
37464953 TTAAAATAAAACTAA
1 TTAAAA-AAAACTAA
37464968 AATGAAAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 9 0.36
14 1 0.04
15 9 0.36
16 6 0.24
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (14 bp):
TTAAAAAAAACTAA
Found at i:37464971 original size:52 final size:51
Alignment explanation
Indices: 37464829--37464971 Score: 121
Period size: 51 Copynumber: 2.8 Consensus size: 51
37464819 CTCAAAATAT
* * * * ** * *
37464829 AAAAATAA-GTAAATAAGAATTAAAAAATGAATGTGAAATGGATCTTTGAA
1 AAAAATAAGGAAAACAAGAATCAAAAAATAAAACTAAAATGGATCTTTAAA
* ** *
37464879 AAAAATAAGGAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
1 AAAAATAAGGAAAACAAGAATCAAAAAATAAAACTAAAATGGATCTTTAAA
*
37464930 AAAAATAATGAAAA-AA-AACTCAATTAAAATAAAACTAAAATG
1 AAAAATAAGGAAAACAAGAA-TCAA--AAAATAAAACTAAAATG
37464972 AAAGGGATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
49 2 0.03
50 13 0.16
51 51 0.64
52 14 0.17
ACGTcount: A:0.62, C:0.04, G:0.12, T:0.22
Consensus pattern (51 bp):
AAAAATAAGGAAAACAAGAATCAAAAAATAAAACTAAAATGGATCTTTAAA
Found at i:37466104 original size:17 final size:17
Alignment explanation
Indices: 37466082--37466127 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
37466072 TTGGACTTTA
37466082 ATTTTGGTTTTTTTATT
1 ATTTTGGTTTTTTTATT
* *
37466099 ATTTTGATTTATTTTGTT
1 ATTTTGGTTT-TTTTATT
37466117 -TTTTGGTTTTT
1 ATTTTGGTTTTT
37466128 GTATAAGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 17 0.68
18 6 0.24
ACGTcount: A:0.11, C:0.00, G:0.13, T:0.76
Consensus pattern (17 bp):
ATTTTGGTTTTTTTATT
Found at i:37483278 original size:25 final size:25
Alignment explanation
Indices: 37483244--37483295 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
37483234 GTTTTAGTTG
37483244 TTGGGCCATTTGGGCCTTGTATTTT
1 TTGGGCCATTTGGGCCTTGTATTTT
37483269 TTGGGCCATTTGGGCCTTGTATTTT
1 TTGGGCCATTTGGGCCTTGTATTTT
37483294 TT
1 TT
37483296 AGGCTGGGTT
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:0.08, C:0.15, G:0.27, T:0.50
Consensus pattern (25 bp):
TTGGGCCATTTGGGCCTTGTATTTT
Found at i:37483887 original size:143 final size:142
Alignment explanation
Indices: 37483703--37484410 Score: 911
Period size: 143 Copynumber: 5.0 Consensus size: 142
37483693 GATCCGTAAC
* * * *
37483703 TTGTAGCTTTAATCTACTCCACTGGAACT-TTAGGGAAATAAGATTCGCTATCTTCAGTCTGCTC
1 TTGTAGCTTTAATCTATTCCACTGCAA-TGTTAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTC
* * *
37483767 TGCTACAACTCTAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATA
65 CGCTGCAACT-TAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
*
37483832 AGAGTC-ACCATAAT
129 AGA-TCTGCCATAAT
* * *
37483846 TTGTAGCTTTAATCTATTCCACTGCAATGTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCT
1 TTGTAGCTTTAATCTATTCCACTGCAATGTTAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
** * *
37483911 ATTGCAAATTCTA-GGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATA
66 GCTGC-AACT-TAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
*
37483975 AGATCCGCCATAAT
129 AGATCTGCCATAAT
* ** * * * *
37483989 TTGTAACTTTAATCTATTCCACTGCAACATTAGGGAAATAAGATTCACTGTTTTTAGTCTGCTCC
1 TTGTAGCTTTAATCTATTCCACTGCAATGTTAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * *
37484054 ACTGCAACTTCA-AGAGATAAGGGTGGTGGCTTCAATCTGTTCCACTGCAACTTCAGGAAGATAA
66 GCTGCAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
*
37484118 GATCTGTCATAAT
130 GATCTGCCATAAT
* * * * * *
37484131 TTGTAGCTTTAATATGTTCCACTACAATGTCAAGGAAATAAGATCCGCTGTCTTCAGTTTGCTCC
1 TTGTAGCTTTAATCTATTCCACTGCAATGTTAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * *
37484196 GCTGCAACTTTAGGCAGATAAGGCGGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGATAA
66 GCTGCAAC-TTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
37484261 GATCTGCCATAAT
130 GATCTGCCATAAT
* * * * *
37484274 TTGTAACTTTAATCTGTTCCACTGCAACGTTAAGGAAATGAGATTCGCTGTCTTTAGTCTGCTCC
1 TTGTAGCTTTAATCTATTCCACTGCAATGTTAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * *
37484339 GCTGCAAGTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAATATAA
66 GCTGCAACTT-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
37484404 GATCTGC
130 GATCTGC
37484411 AATCTTTGAT
Statistics
Matches: 493, Mismatches: 65, Indels: 14
0.86 0.11 0.02
Matches are distributed among these distances:
141 1 0.00
142 128 0.26
143 358 0.73
144 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (142 bp):
TTGTAGCTTTAATCTATTCCACTGCAATGTTAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
GCTGCAACTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
ATCTGCCATAAT
Found at i:37484227 original size:285 final size:286
Alignment explanation
Indices: 37483687--37484410 Score: 1021
Period size: 285 Copynumber: 2.5 Consensus size: 286
37483677 TACTTCAAAG
* * * * *
37483687 AGATAAGATCCG---TAACTTGTAGCTTTAATCTACTCCACTGGAACTTTAGGGAAATAAGATTC
1 AGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCCACTGCAACATTAGGGAAATAAGATTC
* * * * *
37483749 GCTATCTTCAGTCTGCTCTGCTACAAC-TCTAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCA
66 GCTGTCTTTAGTCTGCTCCGCTGCAACTTC-AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCA
* * *
37483813 CTGCAACTTCAGGAAGATAAGAGTC-ACCATAATTTGTAGCTTTAATCTATTCCACTGCAATGTC
130 CTGCAACTTCAGGAAGATAAGA-TCTGCCATAATTTGTAGCTTTAATATATTCCACTACAATGTC
* * * *
37483877 AAGGAAATAAGATTCGCTATCTTCAGTCTGCTCTATTGCAAATTCTAGGAGATAAGGCTGGTGGC
194 AAGGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCAAATTCTAGGAGATAAGGCGGGTGGC
*
37483942 TTCAATCTGCTCCACTGCAACTTTAGGA
259 TTCAATCTGCTCCACTGCAACTTCAGGA
37483970 AGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCCACTGCAACATTAGGGAAATAAGATTC
1 AGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCCACTGCAACATTAGGGAAATAAGATTC
* * * * * *
37484035 ACTGTTTTTAGTCTGCTCCACTGCAACTTCA-AGAGATAAGGGTGGTGGCTTCAATCTGTTCCAC
66 GCTGTCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
* *
37484099 TGCAACTTCAGGAAGATAAGATCTGTCATAATTTGTAGCTTTAATATGTTCCACTACAATGTCAA
131 TGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTAATATATTCCACTACAATGTCAA
* * * *
37484164 GGAAATAAGATCCGCTGTCTTCAGTTTGCTCCGCTGCAACTT-TAGGCAGATAAGGCGGGTGGCT
196 GGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCAAATTCTAGG-AGATAAGGCGGGTGGCT
*
37484228 TCAATCTGCTCTACTGCAACTTCAGGA
260 TCAATCTGCTCCACTGCAACTTCAGGA
* * * * *
37484255 AGATAAGATCTGCCATAATTTGTAACTTTAATCTGTTCCACTGCAACGTTAAGGAAATGAGATTC
1 AGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCCACTGCAACATTAGGGAAATAAGATTC
* *
37484320 GCTGTCTTTAGTCTGCTCCGCTGCAAGTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCAC
66 GCTGTCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
*
37484385 TGCAACTTCAGGAATATAAGATCTGC
131 TGCAACTTCAGGAAGATAAGATCTGC
37484411 AATCTTTGAT
Statistics
Matches: 389, Mismatches: 45, Indels: 11
0.87 0.10 0.02
Matches are distributed among these distances:
283 12 0.03
284 6 0.02
285 249 0.64
286 120 0.31
287 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (286 bp):
AGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCCACTGCAACATTAGGGAAATAAGATTC
GCTGTCTTTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
TGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTAATATATTCCACTACAATGTCAA
GGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCAAATTCTAGGAGATAAGGCGGGTGGCTT
CAATCTGCTCCACTGCAACTTCAGGA
Found at i:37484734 original size:30 final size:30
Alignment explanation
Indices: 37484700--37484761 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
37484690 TCCATTGCTC
*
37484700 ATTGTTCATCAAGATTCTATCATTGACACA
1 ATTGTTCATCAAGATTCTATCATGGACACA
37484730 ATTGTTCATCAAGATTCTATCATGGACACA
1 ATTGTTCATCAAGATTCTATCATGGACACA
37484760 AT
1 AT
37484762 ATCTTATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (30 bp):
ATTGTTCATCAAGATTCTATCATGGACACA
Found at i:37485084 original size:65 final size:65
Alignment explanation
Indices: 37485010--37485133 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 65
37485000 AATGATGGAC
* *
37485010 AAGAAAGAAATTGATTGAGAGCATAGCTC-AAGACGAATAAGTTAATCAAAGATGGCAAATAAAA
1 AAGAAAGAAATTGATTGAGAGCATAGCTCGAA-ACGAATAAATTAATCAAAGATAGCAAATAAAA
37485074 T
65 T
* *
37485075 AAGAAAGAAATTGATTGAGAGTATAGCTCGAAATGAATAAATTAATCAAAGATAGCAAA
1 AAGAAAGAAATTGATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAA
37485134 CTTTGCTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 52 0.96
66 2 0.04
ACGTcount: A:0.52, C:0.08, G:0.19, T:0.21
Consensus pattern (65 bp):
AAGAAAGAAATTGATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATAAAAT
Found at i:37485605 original size:12 final size:12
Alignment explanation
Indices: 37485588--37485694 Score: 87
Period size: 12 Copynumber: 8.9 Consensus size: 12
37485578 GGTTTCTCCT
37485588 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
37485600 TTTTCTTTTCTC
1 TTTTCTTTTTTC
*
37485612 TTTT-GTTTTTC
1 TTTTCTTTTTTC
*
37485623 TTTTTTGCTTTTTC
1 TTTTCT--TTTTTC
*
37485637 TTTTC-CTTTT-
1 TTTTCTTTTTTC
*
37485647 ATTTCTTTATTTC
1 TTTTCTTT-TTTC
37485660 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
37485672 TTTT-TTTCTTTT
1 TTTTCTTT-TTTC
*
37485684 TTTTATTTTTT
1 TTTTCTTTTTT
37485695 TAAGGTGAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
10 4 0.05
11 17 0.22
12 36 0.47
13 10 0.13
14 10 0.13
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:37485633 original size:8 final size:7
Alignment explanation
Indices: 37485587--37485685 Score: 66
Period size: 7 Copynumber: 13.7 Consensus size: 7
37485577 TGGTTTCTCC
37485587 TTTTTCT
1 TTTTTCT
37485594 TTTTTCT
1 TTTTTCT
37485601 TTTCTT-T
1 TTT-TTCT
37485608 TCTCTTT-T
1 T-T-TTTCT
37485616 GTTTTTCT
1 -TTTTTCT
37485624 TTTTTGC-
1 TTTTT-CT
37485631 TTTTTCT
1 TTTTTCT
37485638 TTTCCTT-T
1 TTT--TTCT
*
37485646 TATTTCT
1 TTTTTCT
37485653 TTATTTC-
1 TT-TTTCT
37485660 -TTTTCT
1 TTTTTCT
37485666 TTTTTCTT
1 TTTTTC-T
37485674 TTTTTCT
1 TTTTTCT
37485681 TTTTT
1 TTTTT
37485686 TTATTTTTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 28
0.72 0.02 0.26
Matches are distributed among these distances:
5 4 0.05
6 4 0.05
7 41 0.54
8 23 0.30
9 4 0.05
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:37485663 original size:23 final size:22
Alignment explanation
Indices: 37485589--37485696 Score: 76
Period size: 20 Copynumber: 5.4 Consensus size: 22
37485579 GTTTCTCCTT
37485589 TTTCTTT-TTTCTTTTC-TTT-
1 TTTCTTTATTTCTTTTCTTTTA
* *
37485608 TCTCTTT-TGT-TTTTCTTTT-
1 TTTCTTTATTTCTTTTCTTTTA
* *
37485627 TTGCTTT-T-TCTTTTCCTTTTA
1 TTTCTTTATTTC-TTTTCTTTTA
37485648 TTTCTTTATTTCTTTTC-TTT-
1 TTTCTTTATTTCTTTTCTTTTA
*
37485668 TTTCTTTTTTTCTTTT-TTTTA
1 TTTCTTTATTTCTTTTCTTTTA
*
37485689 TTTTTTTA
1 TTTCTTTA
37485697 AGGTGAAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
18 6 0.08
19 17 0.24
20 26 0.37
21 15 0.21
22 5 0.07
23 2 0.03
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTCTTTATTTCTTTTCTTTTA
Found at i:37485693 original size:15 final size:15
Alignment explanation
Indices: 37485587--37485685 Score: 70
Period size: 15 Copynumber: 6.8 Consensus size: 15
37485577 TGGTTTCTCC
37485587 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
* *
37485602 TTCTTT-TCTCTTT-TG
1 TT-TTTCT-TTTTTCTT
37485617 TTTTTCTTTTTTGC--
1 TTTTTCTTTTTT-CTT
*
37485631 TTTTTC-TTTTCCTT
1 TTTTTCTTTTTTCTT
37485645 TTATTTCTTTATTTC--
1 TT-TTTCTTT-TTTCTT
37485660 -TTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
37485674 TTTTTCTTTTTT
1 TTTTTCTTTTTT
37485686 TTATTTTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 26
0.68 0.05 0.27
Matches are distributed among these distances:
12 5 0.08
13 11 0.17
14 16 0.24
15 22 0.33
16 9 0.14
17 3 0.05
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:37494015 original size:3 final size:3
Alignment explanation
Indices: 37494007--37494044 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
37493997 AATTTGGATG
37494007 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37494045 TAGTATGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37495602 original size:8 final size:8
Alignment explanation
Indices: 37495591--37495629 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
37495581 CTAGATCGGC
*
37495591 AAAAGCTG
1 AAAAGCCG
37495599 AAAAGCCG
1 AAAAGCCG
37495607 AAAAGCCG
1 AAAAGCCG
*
37495615 AAATGCCG
1 AAAAGCCG
37495623 AAAAGCC
1 AAAAGCC
37495630 AGTATTTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.49, C:0.23, G:0.23, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:37496013 original size:2 final size:2
Alignment explanation
Indices: 37496006--37496040 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37495996 CCTTGTTAAT
37496006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37496041 TATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37500285 original size:40 final size:39
Alignment explanation
Indices: 37500145--37500292 Score: 179
Period size: 39 Copynumber: 3.7 Consensus size: 39
37500135 ACTCAAATTT
* * *
37500145 TCGCACACTAAGTGCCAATACATAGTCGAAGCTATTTTAA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCAA
* * *
37500185 TCCTGTACACTAAATGTCATACATAGCCGAAGCTATCTCAA
1 T-C-GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAA
* * *
37500226 TCACACACTAAGTGTCATACATAACCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTC-AA
37500266 TCGCACACTAAGTGCCATACATAGCCG
1 TCGCACACTAAGTGCCATACATAGCCG
37500293 GATTGTCGTC
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.34
40 28 0.30
41 22 0.24
42 11 0.12
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAA
Found at i:37502435 original size:20 final size:20
Alignment explanation
Indices: 37502406--37502451 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
37502396 AAGATAGTAG
*
37502406 CTTGTTACACGCCTTGGAGC
1 CTTGTCACACGCCTTGGAGC
37502426 CTTGTCACACGCCTTGGAGC
1 CTTGTCACACGCCTTGGAGC
37502446 CTTGTC
1 CTTGTC
37502452 CTGTTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.33, G:0.24, T:0.30
Consensus pattern (20 bp):
CTTGTCACACGCCTTGGAGC
Found at i:37503869 original size:3 final size:3
Alignment explanation
Indices: 37503861--37503942 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
37503851 CATGCATATT
37503861 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37503909 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37503943 AACATACTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37504836 original size:30 final size:31
Alignment explanation
Indices: 37504802--37504863 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 31
37504792 GATTCATCCA
37504802 TGGAAAAT-AAAATAAAA-AAAATGATGA-AAT
1 TGGAAAATGAAAA-AAAATAAAA-GATGATAAT
*
37504832 TGGAAAGTGAAAAAAAATAAAAGATGATAAT
1 TGGAAAATGAAAAAAAATAAAAGATGATAAT
37504863 T
1 T
37504864 AATTAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (31 bp):
TGGAAAATGAAAAAAAATAAAAGATGATAAT
Found at i:37508700 original size:68 final size:68
Alignment explanation
Indices: 37508616--37508753 Score: 206
Period size: 68 Copynumber: 2.0 Consensus size: 68
37508606 TAAGGTTTTG
** * * *
37508616 CAGACTGTGTGAGAATAAGTAGCCCGTGTGGCTAGACTGTGTGAGGCACAC-GACTGTGTGAAAA
1 CAGACTGTGTGAGAATAAACAACCCGTGTGGCTAGACCGTGTGAGGCACACAG-CCGTGTGAAAA
37508680 TGTT
65 TGTT
*
37508684 CAGACTGTGTGAGAATAAACAACCCGTGTGGCTAGACCGTGTGAGGCACACAGCCGTGTGGAAAT
1 CAGACTGTGTGAGAATAAACAACCCGTGTGGCTAGACCGTGTGAGGCACACAGCCGTGTGAAAAT
37508749 GTT
66 GTT
37508752 CA
1 CA
37508754 AACCGTATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 62 0.98
69 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (68 bp):
CAGACTGTGTGAGAATAAACAACCCGTGTGGCTAGACCGTGTGAGGCACACAGCCGTGTGAAAAT
GTT
Found at i:37511151 original size:14 final size:15
Alignment explanation
Indices: 37511127--37511155 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37511117 TTATGCATGT
37511127 TATGATTTGATATGA
1 TATGATTTGATATGA
37511142 TATG-TTTGATATGA
1 TATGATTTGATATGA
37511156 CCTAGCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TATGATTTGATATGA
Found at i:37514677 original size:15 final size:16
Alignment explanation
Indices: 37514636--37514681 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
37514626 TTTATGTCAT
* *
37514636 TTTTATAATAATAAAA
1 TTTTATAATTATTAAA
37514652 TTTTCATAATTATTAAA
1 TTTT-ATAATTATTAAA
37514669 -TTTATAATTATTA
1 TTTTATAATTATTA
37514682 TATAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 7 0.26
17 10 0.37
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTATAATTATTAAA
Found at i:37516809 original size:30 final size:31
Alignment explanation
Indices: 37516751--37516813 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
37516741 TTTAACAAGA
*
37516751 AAATGCCTCTAAAATAATAAAAAAAATTAAC
1 AAATACCTCTAAAATAATAAAAAAAATTAAC
* *
37516782 AAATACCTTTAAAATAAT-AAGAAAATTAAC
1 AAATACCTCTAAAATAATAAAAAAAATTAAC
37516812 AA
1 AA
37516814 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.62, C:0.11, G:0.03, T:0.24
Consensus pattern (31 bp):
AAATACCTCTAAAATAATAAAAAAAATTAAC
Found at i:37518732 original size:27 final size:27
Alignment explanation
Indices: 37518685--37518741 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
37518675 AAAAAGAAAT
**
37518685 AAAAAAGAAGACTAAAGGGAAAAATACG
1 AAAAAAGAAGAAGAAAGGGAAAAATA-G
37518713 AAAAAAGAAGAAGAAA-GGAAAAATAG
1 AAAAAAGAAGAAGAAAGGGAAAAATAG
37518739 AAA
1 AAA
37518742 GTAAAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.15
27 9 0.33
28 14 0.52
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.05
Consensus pattern (27 bp):
AAAAAAGAAGAAGAAAGGGAAAAATAG
Found at i:37521620 original size:64 final size:64
Alignment explanation
Indices: 37521501--37521620 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
37521491 CACACAGTCA
* * ***
37521501 TGTCCTTCACCCTTGTGATCATTATTTTGTAATCAGTGAGTTACACGGTTGGGACAGATGCTTG
1 TGTCCTTCACCCGTGTGATCATTATATTGTAATCAGTGAGTTACACGGCCAGGACAGATGCTTG
* * *
37521565 TGTCCTTGACCCGTGTGCTCATTATATTGTAATTAGTGAGTTACACGGCCAGGACA
1 TGTCCTTCACCCGTGTGATCATTATATTGTAATCAGTGAGTTACACGGCCAGGACA
37521621 CACACCCGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (64 bp):
TGTCCTTCACCCGTGTGATCATTATATTGTAATCAGTGAGTTACACGGCCAGGACAGATGCTTG
Found at i:37521632 original size:64 final size:64
Alignment explanation
Indices: 37521501--37521648 Score: 161
Period size: 64 Copynumber: 2.3 Consensus size: 64
37521491 CACACAGTCA
* * * * *** * ** **
37521501 TGTCCTTCACCCTTGTGATCATTATTTTGTAATCAGTGAGTTACACGGTTGGGACAGATGCTTG
1 TGTCCTTGACCCGTGTGCTCATTATATTGTAATCAGTGAGTTACACGGCCAGGACACACACCCG
*
37521565 TGTCCTTGACCCGTGTGCTCATTATATTGTAATTAGTGAGTTACACGGCCAGGACACACACCCG
1 TGTCCTTGACCCGTGTGCTCATTATATTGTAATCAGTGAGTTACACGGCCAGGACACACACCCG
* *
37521629 TGTCCTTGGCTCGTGTGCTC
1 TGTCCTTGACCCGTGTGCTC
37521649 CTTGCACTAA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (64 bp):
TGTCCTTGACCCGTGTGCTCATTATATTGTAATCAGTGAGTTACACGGCCAGGACACACACCCG
Found at i:37535848 original size:6 final size:6
Alignment explanation
Indices: 37535834--37535891 Score: 107
Period size: 6 Copynumber: 9.7 Consensus size: 6
37535824 CATACACAGT
*
37535834 CAGAAA CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA
1 CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA
37535882 CAGATA CAGA
1 CAGATA CAGA
37535892 GTTGGGATCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (6 bp):
CAGATA
Found at i:37539260 original size:4 final size:4
Alignment explanation
Indices: 37539251--37539276 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
37539241 ATCATAGACA
37539251 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
37539277 CTATATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:37544507 original size:42 final size:42
Alignment explanation
Indices: 37544448--37544593 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 42
37544438 ATGAGTTTTC
* * * *
37544448 GTTTAACGCTAATAGGTTTTAGTTCAGCTCTCTCGAGCTTCA
1 GTTTAACCCTTATAGGTTTTAGTTCAACTCTCTTGAGCTTCA
* * *
37544490 GTTTAACCCTTCTAGGTTTCAGTTCAACTCTTTTGAGCTTCA
1 GTTTAACCCTTATAGGTTTTAGTTCAACTCTCTTGAGCTTCA
** * * *
37544532 AATTAACCCTTATGGGTTTTTGTTCAACTC-CTATGAGCTTCT
1 GTTTAACCCTTATAGGTTTTAGTTCAACTCTCT-TGAGCTTCA
* *
37544574 GTTTATCCCTTATGGGTTTT
1 GTTTAACCCTTATAGGTTTT
37544594 CGTTTAGCAC
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 1 0.01
42 84 0.99
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.43
Consensus pattern (42 bp):
GTTTAACCCTTATAGGTTTTAGTTCAACTCTCTTGAGCTTCA
Found at i:37549906 original size:24 final size:24
Alignment explanation
Indices: 37549879--37549998 Score: 93
Period size: 24 Copynumber: 5.0 Consensus size: 24
37549869 AGCTTCTGTT
37549879 ATATGGCTCTTTATGAGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
* * *
37549903 ATATGGTTCTTTGTGAACTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
* *
37549927 ATTATGGCTC-TTATGAGCTTTCTG
1 A-TATGGCTCTTTATGAGCTTCCCG
* ** *
37549951 TTATATAGC-CTAAATAAGCTTCCCG
1 --ATATGGCTCTTTATGAGCTTCCCG
* *
37549976 ATA-GGCTCTTTGTGGGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
37549999 TTACATGGCT
Statistics
Matches: 71, Mismatches: 20, Indels: 11
0.70 0.20 0.11
Matches are distributed among these distances:
22 2 0.03
23 14 0.20
24 33 0.46
25 21 0.30
26 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (24 bp):
ATATGGCTCTTTATGAGCTTCCCG
Found at i:37549946 original size:73 final size:72
Alignment explanation
Indices: 37549772--37549998 Score: 183
Period size: 73 Copynumber: 3.1 Consensus size: 72
37549762 CTTATGAGCA
* * * *
37549772 TCCCGATTATAGGCTTTTCGTGAGCTTATTGTTAAATTGGCTCTTTGTGAGCTTCCCGATAAT-G
1 TCCCGATTAT-GGC-TTT-ATGAGCTT-CTGTTATA-TGGCTCTTTATGAGCTTCCCGAT-ATGG
**
37549836 CTCGCT-TGAACT
60 CTCTTTGTGAACT
* * ** *
37549848 TCCCAATGTATGGCTATCCGAAGCTTCTGTTATATGGCTCTTTATGAGCTTCCCGATATGGTTCT
1 TCCCGAT-TATGGCTTTATG-AGCTTCTGTTATATGGCTCTTTATGAGCTTCCCGATATGGCTCT
37549913 TTGTGAACT
64 TTGTGAACT
* ** *
37549922 TCCCGATTATGGCTCTTATGAGCTTTCTGTTATATAGC-CTAAATAAGCTTCCCGATA-GGCTCT
1 TCCCGATTATGGCT-TTATGAGC-TTCTGTTATATGGCTCTTTATGAGCTTCCCGATATGGCTCT
**
37549985 TTGTGGGCT
64 TTGTGAACT
37549994 TCCCG
1 TCCCG
37549999 TTACATGGCT
Statistics
Matches: 124, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
72 19 0.15
73 52 0.42
74 34 0.27
75 7 0.06
76 9 0.07
77 3 0.02
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (72 bp):
TCCCGATTATGGCTTTATGAGCTTCTGTTATATGGCTCTTTATGAGCTTCCCGATATGGCTCTTT
GTGAACT
Found at i:37556746 original size:31 final size:31
Alignment explanation
Indices: 37556697--37556776 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
37556687 TCAAACATGT
*
37556697 ACTGGGCC-ATAGCCCTTTTCATATTTCATAAC
1 ACTGGGCCGA-AG-CCTTTTCAAATTTCATAAC
* **
37556729 ACTGGGTCGAAGCCTTTTCAAATTTCATATT
1 ACTGGGCCGAAGCCTTTTCAAATTTCATAAC
37556760 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
37556777 ACCGTAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 32 0.76
32 9 0.21
33 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCAAATTTCATAAC
Found at i:37557069 original size:23 final size:23
Alignment explanation
Indices: 37556991--37557133 Score: 214
Period size: 23 Copynumber: 6.1 Consensus size: 23
37556981 CCTAGCCTCT
* *
37556991 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
37557014 TTTTAATAACTGGGGCAAAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
37557038 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
37557062 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* * *
37557085 TTTAATAACTGGAGAATTAGCCC
1 TTTAATAACTGGGGCATAAGCCC
37557108 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
37557131 TTT
1 TTT
37557134 TGCACTTCCT
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
23 66 0.59
24 45 0.41
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:37557208 original size:20 final size:20
Alignment explanation
Indices: 37557180--37557250 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
37557170 GCATTTATGA
*
37557180 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
37557200 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
37557220 ACATGTCATGTGTATATCAT
1 ACATATCATGTGCATATCAT
37557240 ACATATCATGT
1 ACATATCATGT
37557251 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:37557315 original size:25 final size:25
Alignment explanation
Indices: 37557287--37557334 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
37557277 ATATATAAAC
* * *
37557287 CCTAGAGGTATAATGGTCATTTTTA
1 CCTAGAGGCAAAACGGTCATTTTTA
*
37557312 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGAGGCAAAACGGTCATTTT
37557335 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGAGGCAAAACGGTCATTTTTA
Found at i:37558648 original size:27 final size:27
Alignment explanation
Indices: 37558622--37558847 Score: 107
Period size: 27 Copynumber: 8.3 Consensus size: 27
37558612 ATCTACAAAC
* *
37558622 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* **
37558649 CAATGGTATTTCTATAATTTT-TAGAAAGT
1 CAAGGGTATTTCGGTAATTTTGT--AAA-T
* * * *
37558678 TAAGTGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* * * **
37558705 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
** ***
37558732 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTGTAAAT
* * **
37558758 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTGTAAAT
* *
37558785 CTAGGGGTATTTTGGTAATTTTGTAAAT
1 C-AAGGGTATTTCGGTAATTTTGTAAAT
* *** * *
37558813 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCGGTAATTTTGTAAAT
37558840 CAAGGGTA
1 CAAGGGTA
37558848 AAATAATAAT
Statistics
Matches: 155, Mismatches: 37, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.02
27 127 0.82
28 8 0.05
29 16 0.10
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTGTAAAT
Found at i:37558848 original size:27 final size:27
Alignment explanation
Indices: 37558799--37558979 Score: 226
Period size: 27 Copynumber: 6.8 Consensus size: 27
37558789 GGGTATTTTG
*
37558799 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
37558826 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
37558853 ATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
37558880 GTAATTCTATAAGTCGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
37558906 GATAATTATGTAAATCG-GGGTAAAACA
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* *
37558933 GTAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
37558959 GTAATTCTGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
37558980 CTTTCGTAAT
Statistics
Matches: 135, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 54 0.40
27 81 0.60
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:37565680 original size:42 final size:42
Alignment explanation
Indices: 37565634--37565753 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 42
37565624 CAGCACTCTC
*
37565634 GAGCTTCAATTTAACCCTTCTGGTTTTCAATTTAGCTCGT-TT
1 GAGCTTCAATTTAACCCTTCTGGTTTTC-ATTTAGCTCCTATT
* * *
37565676 GAGCTTCAGA-TTAACCCTTATGGGTTTCTGTTTAGCTCCTATT
1 GAGCTTCA-ATTTAACCCTTCTGGTTTTC-ATTTAGCTCCTATT
* *
37565719 -AGCTTCCATTTAACCCTTACGGGTTTTCATTTAGC
1 GAGCTTCAATTTAACCCTT-CTGGTTTTCATTTAGC
37565754 ACTTATATGC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.02
42 54 0.84
43 9 0.14
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
GAGCTTCAATTTAACCCTTCTGGTTTTCATTTAGCTCCTATT
Found at i:37565766 original size:42 final size:42
Alignment explanation
Indices: 37565596--37565766 Score: 111
Period size: 42 Copynumber: 4.1 Consensus size: 42
37565586 TCATATGAGT
* * * * **
37565596 TTCCATTTAACCCTAATGGGTTTT-AGTTCAGCACTCTCGAGC
1 TTCCATTTAACCCTTACGGGTTTTCAATTTAGCACT-TATAGC
* * *
37565638 TTCAATTTAACCCTT-CTGGTTTTCAATTTAGCTCGTT-TGAGC
1 TTCCATTTAACCCTTACGGGTTTTCAATTTAGCAC-TTAT-AGC
* * ** * *
37565680 TT-CAGATTAACCCTTATGGG-TTTCTGTTTAGCTCCTATTAGC
1 TTCCA-TTTAACCCTTACGGGTTTTCAATTTAGCACTTA-TAGC
37565722 TTCCATTTAACCCTTACGGGTTTTC-ATTTAGCACTTATATGC
1 TTCCATTTAACCCTTACGGGTTTTCAATTTAGCACTTATA-GC
37565764 TTC
1 TTC
37565767 TATGCAACCT
Statistics
Matches: 99, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
41 10 0.10
42 79 0.80
43 10 0.10
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (42 bp):
TTCCATTTAACCCTTACGGGTTTTCAATTTAGCACTTATAGC
Found at i:37568388 original size:56 final size:56
Alignment explanation
Indices: 37568302--37568413 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
37568292 CCGGCAAAAT
37568302 CTTGTCACCCTATCTCTAGGCACACAATCAACTCCACTTAATTATGACAATTGTAC
1 CTTGTCACCCTATCTCTAGGCACACAATCAACTCCACTTAATTATGACAATTGTAC
*
37568358 CTTGTCACCCTATCTCTAGGCGCACAATCAACTCCACTTAATTATGACAATTGTAC
1 CTTGTCACCCTATCTCTAGGCACACAATCAACTCCACTTAATTATGACAATTGTAC
37568414 TCTTAGATAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.30
Consensus pattern (56 bp):
CTTGTCACCCTATCTCTAGGCACACAATCAACTCCACTTAATTATGACAATTGTAC
Found at i:37574324 original size:29 final size:31
Alignment explanation
Indices: 37574290--37574348 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
37574280 AAACTTTTCA
37574290 TTTTCCCCT-AAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAATTTTTACTCCCTTCCCAC
37574319 TTTTCCCCTAAAATTTTTACTCCCTTCCCA
1 TTTTCCCCTAAAATTTTTACTCCCTTCCCA
37574349 TCCCATCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 9 0.32
30 14 0.50
31 5 0.18
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAATTTTTACTCCCTTCCCAC
Found at i:37574352 original size:5 final size:5
Alignment explanation
Indices: 37574339--37574389 Score: 79
Period size: 5 Copynumber: 10.6 Consensus size: 5
37574329 AAATTTTTAC
*
37574339 TCCCT TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA -CCC- TCCCA
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA
37574387 TCC
1 TCC
37574390 AACCCCCCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
4 6 0.14
5 37 0.86
ACGTcount: A:0.16, C:0.63, G:0.00, T:0.22
Consensus pattern (5 bp):
TCCCA
Found at i:37574400 original size:12 final size:13
Alignment explanation
Indices: 37574354--37574400 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
37574344 TCCCATCCCA
*
37574354 TCCCATCCCATCCC
1 TCCCAT-CCAACCC
*
37574368 ATCCCATCCCACCC
1 -TCCCATCCAACCC
37574382 TCCCATCCAACCC
1 TCCCATCCAACCC
37574395 -CCCATC
1 TCCCATC
37574401 TACCCCAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 6 0.21
13 12 0.41
14 5 0.17
15 6 0.21
ACGTcount: A:0.19, C:0.64, G:0.00, T:0.17
Consensus pattern (13 bp):
TCCCATCCAACCC
Found at i:37575908 original size:10 final size:10
Alignment explanation
Indices: 37575893--37575942 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
37575883 TAATTTTAAG
37575893 ATTTAT-TTT
1 ATTTATCTTT
37575902 CATTTATCTTT
1 -ATTTATCTTT
*
37575913 AATTATCTTT
1 ATTTATCTTT
37575923 ATTTAT-TTAT
1 ATTTATCTT-T
37575933 ATTTATCTTT
1 ATTTATCTTT
37575943 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:37579660 original size:10 final size:9
Alignment explanation
Indices: 37579645--37579704 Score: 61
Period size: 10 Copynumber: 6.4 Consensus size: 9
37579635 AAGCAACCCA
37579645 ATTTTTATTT
1 ATTTTTA-TT
37579655 ATTTTTATT
1 ATTTTTATT
37579664 ATTATTCT-TT
1 ATT-TT-TATT
*
37579674 CTTTTTATT
1 ATTTTTATT
37579683 ATTATTTATT
1 ATT-TTTATT
37579693 A-TTTTATT
1 ATTTTTATT
37579701 ATTT
1 ATTT
37579705 AGATATTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
8 8 0.19
9 14 0.33
10 20 0.47
11 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (9 bp):
ATTTTTATT
Found at i:37579697 original size:19 final size:19
Alignment explanation
Indices: 37579648--37579703 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
37579638 CAACCCAATT
37579648 TTTATTTATTTTTATTATTA
1 TTTA-TTATTTTTATTATTA
*
37579668 TTCT-TTCTTTTTATTATTA
1 TT-TATTATTTTTATTATTA
37579687 TTTATTA-TTTTATTATT
1 TTTATTATTTTTATTATT
37579704 TAGATATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 11 0.34
19 18 0.56
20 2 0.06
21 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTATTTTTATTATTA
Found at i:37580909 original size:96 final size:97
Alignment explanation
Indices: 37580792--37580966 Score: 282
Period size: 96 Copynumber: 1.8 Consensus size: 97
37580782 ATATATTCGC
* * * *
37580792 CTGAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATATGTTCT
1 CTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAATATATTCT
37580857 TAAG-AAAAATAAAAATTAGGAGTATGTTGGG
66 TAAGCAAAAATAAAAATTAGGAGTATGTTGGG
37580888 CTGAGTAACCGGGGT-AGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAATATATTC
1 CTGAGTAACCGGGGTGA-GGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAATATATTC
*
37580952 TTAAGCAATAATAAA
65 TTAAGCAAAAATAAA
37580967 TAAATAAATA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 63 0.88
97 8 0.11
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (97 bp):
CTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAATATATTCT
TAAGCAAAAATAAAAATTAGGAGTATGTTGGG
Found at i:37582407 original size:31 final size:31
Alignment explanation
Indices: 37582332--37582408 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
37582322 GCACATACTA
* *
37582332 GGCCGAAGCCTTTACATTTTTCATATCACTG
1 GGCCGAAGCCTTTTCATTATTCATATCACTG
37582363 GGCCGAAGCCTTTTCATTATTCATATCACTG
1 GGCCGAAGCCTTTTCATTATTCATATCACTG
37582394 GGCCGAAGCCTTTTC
1 GGCCGAAGCCTTTTC
37582409 TGTAACAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATTATTCATATCACTG
Found at i:37582651 original size:24 final size:25
Alignment explanation
Indices: 37582613--37582720 Score: 105
Period size: 24 Copynumber: 4.4 Consensus size: 25
37582603 CTGGAGGCCT
* *
37582613 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
* *
37582637 ATCCCTTTTTGATAAACTGCGGCAAA
1 AGCCCTTTTTGATAAACTGGGGC-AA
*
37582663 AGCCC-TTTTCAGTAAACTGGGGCAA
1 AGCCCTTTTTGA-TAAACTGGGGCAA
* * *
37582688 AGCCCTTTTCGGT-AACTGGGGCAT
1 AGCCCTTTTTGATAAACTGGGGCAA
37582712 AGCCCTTTT
1 AGCCCTTTT
37582721 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
24 29 0.42
25 21 0.30
26 19 0.28
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTTGATAAACTGGGGCAA
Found at i:37582784 original size:11 final size:11
Alignment explanation
Indices: 37582768--37582815 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
37582758 TATATGAATT
37582768 TATCATGTGCA
1 TATCATGTGCA
*
37582779 TATCA--TACA
1 TATCATGTGCA
37582788 TATCATGTGCA
1 TATCATGTGCA
37582799 TATCATGT-CA
1 TATCATGTGCA
*
37582809 AATCATG
1 TATCATG
37582816 CATATCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 8 0.25
11 16 0.50
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:37584065 original size:23 final size:20
Alignment explanation
Indices: 37584021--37584068 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
37584011 AGAAGAAAAT
37584021 AATAAAACTATGGTTTACAG
1 AATAAAACTATGGTTTACAG
37584041 AATAAAACTATGGTTTACAG
1 AATAAAACTATGGTTTACAG
*
37584061 AAGAAAAC
1 AATAAAAC
37584069 GACACAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (20 bp):
AATAAAACTATGGTTTACAG
Found at i:37586725 original size:99 final size:99
Alignment explanation
Indices: 37586548--37586726 Score: 218
Period size: 99 Copynumber: 1.8 Consensus size: 99
37586538 CGATCACGTA
* * * * *
37586548 TGTAGTACTAAGTGCAGACTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGACTACTATGCGTACCAGATAGTTAGGTCACATATGTAGCACTAAGTGC
**
37586613 AGGCTATTACATGTACCAGATAATTGGTCGCATG
66 AAACTATTACATGTACCAGATAATTGGTCGCATG
* * * *
37586647 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTGG-CTACATATGTGGCACTTATGT
1 TGTAGTACTAAGTGCAGACTACTATGCGTACCAGATAGTTAGGTC-ACATATGTAGCAC-TAAGT
*
37586711 GCAAACT-TTCCATGTA
64 GCAAACTATTACATGTA
37586727 TCCGAATTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
98 1 0.02
99 56 0.85
100 9 0.14
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (99 bp):
TGTAGTACTAAGTGCAGACTACTATGCGTACCAGATAGTTAGGTCACATATGTAGCACTAAGTGC
AAACTATTACATGTACCAGATAATTGGTCGCATG
Found at i:37593936 original size:25 final size:25
Alignment explanation
Indices: 37593902--37593951 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
37593892 AATTTCGGTT
37593902 GCCAAAAAACATGGCTGTCAATGCC
1 GCCAAAAAACATGGCTGTCAATGCC
*
37593927 GCCAAGAAACATGGCTGTCAATGCC
1 GCCAAAAAACATGGCTGTCAATGCC
37593952 ACACGGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.28, G:0.22, T:0.16
Consensus pattern (25 bp):
GCCAAAAAACATGGCTGTCAATGCC
Found at i:37601162 original size:14 final size:14
Alignment explanation
Indices: 37601143--37601173 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
37601133 TTAAATTAAC
37601143 CACACGGCCTAGCA
1 CACACGGCCTAGCA
37601157 CACACGGCCTAGCA
1 CACACGGCCTAGCA
37601171 CAC
1 CAC
37601174 GGGCGTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.45, G:0.19, T:0.06
Consensus pattern (14 bp):
CACACGGCCTAGCA
Found at i:37602297 original size:6 final size:6
Alignment explanation
Indices: 37602278--37602310 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
37602268 CATGAAAACT
*
37602278 ATACAA ATATAA ATACAA ATACAA ATACAA ATA
1 ATACAA ATACAA ATACAA ATACAA ATACAA ATA
37602311 TATTTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (6 bp):
ATACAA
Found at i:37604228 original size:3 final size:3
Alignment explanation
Indices: 37604222--37604256 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
37604212 TAAATATATG
37604222 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37604257 TTTACAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:37605489 original size:30 final size:30
Alignment explanation
Indices: 37605436--37605551 Score: 121
Period size: 30 Copynumber: 3.9 Consensus size: 30
37605426 TGTAATTTTT
*
37605436 AGAAAATTTA-GGGTTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTTAAAATGAAATTTAA
* * *
37605465 TGAAAGTTTAGGGGTTTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTTAAAATGAAATTTAA
* *
37605495 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTTAAAATGAAATTTAA
* * *
37605524 GGAAAAGTTTA-GGGTCAAAATGTAATTT
1 AG-AAAGTTTAGGGGTTAAAATGAAATTT
37605552 TTATTTTTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
29 26 0.35
30 48 0.65
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.32
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTTAAAATGAAATTTAA
Found at i:37605574 original size:16 final size:16
Alignment explanation
Indices: 37605549--37605583 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37605539 CAAAATGTAA
37605549 TTTTTATTTTTAAAAT
1 TTTTTATTTTTAAAAT
* *
37605565 TTTTTTTTTTTGAAAT
1 TTTTTATTTTTAAAAT
37605581 TTT
1 TTT
37605584 GAAAATTAAA
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:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTATTTTTAAAAT
Found at i:37608725 original size:9 final size:10
Alignment explanation
Indices: 37608701--37608734 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
37608691 TAATGGATTA
37608701 TAAAAAATTT
1 TAAAAAATTT
*
37608711 TCAAAAA-TT
1 TAAAAAATTT
37608720 TAAAAAATTT
1 TAAAAAATTT
37608730 TAAAA
1 TAAAA
37608735 GATTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAAAAATTT
Found at i:37610967 original size:25 final size:26
Alignment explanation
Indices: 37610920--37610973 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
37610910 TTAGAAACAA
*
37610920 TTAAATAGTATTTAAAAAATTTAATT
1 TTAAATAGTATTTAAAAAATTTAAAT
**
37610946 TTAAATAG-ATTTAAAATTTTTAAAT
1 TTAAATAGTATTTAAAAAATTTAAAT
37610971 TTA
1 TTA
37610974 GAAACAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
TTAAATAGTATTTAAAAAATTTAAAT
Found at i:37611053 original size:13 final size:13
Alignment explanation
Indices: 37611020--37611108 Score: 56
Period size: 13 Copynumber: 6.5 Consensus size: 13
37611010 CTTATATATT
37611020 AAATT-AATTTATA
1 AAATTAAATTT-TA
37611033 AAATTAAATTTTA
1 AAATTAAATTTTA
37611046 AAATTAAAAAATTTTA
1 AAATT---AAATTTTA
**
37611062 AAATATAAA-AATA
1 AAAT-TAAATTTTA
** *
37611075 ATTTTATATTTTA
1 AAATTAAATTTTA
*
37611088 AAATTTAATTTTA
1 AAATTAAATTTTA
37611101 TAAATTAA
1 -AAATTAA
37611109 TGTAATATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 13
0.70 0.15 0.16
Matches are distributed among these distances:
12 3 0.05
13 27 0.47
14 14 0.25
16 12 0.21
17 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTAAATTTTA
Found at i:37611059 original size:16 final size:17
Alignment explanation
Indices: 37611038--37611072 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
37611028 TTATAAAATT
37611038 AAATTTTAAAAT-TAAA
1 AAATTTTAAAATATAAA
37611054 AAATTTTAAAATATAAA
1 AAATTTTAAAATATAAA
37611071 AA
1 AA
37611073 TAATTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTTTAAAATATAAA
Found at i:37614413 original size:27 final size:27
Alignment explanation
Indices: 37614351--37614416 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
37614341 TACCCTTAGT
* *
37614351 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAATTACTGAAATACCCTCGAC
*
37614378 TTGTAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
37614405 TTGTAAAATTAC
1 TTGTAAAATTAC
37614417 CAAAGTACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:37614425 original size:27 final size:27
Alignment explanation
Indices: 37614327--37614425 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
37614317 TTTAGTTTAC
*
37614327 TAAAATTAC-CAAAATACCCTTAG-TTTG
1 TAAAATTACTC-AAATA-CCTTCGATTTG
* * *
37614354 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTCAAATACCTTCGATTTG
* *
37614381 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTCAAATACCTTCGATTTG
37614408 TAAAATTAC-CAAAGTACC
1 TAAAATTACTCAAA-TACC
37614426 CCCAATTTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.11
27 54 0.89
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
TAAAATTACTCAAATACCTTCGATTTG
Found at i:37614540 original size:54 final size:53
Alignment explanation
Indices: 37614430--37614549 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 53
37614420 AGTACCCCCA
* *
37614430 ATTTACAGAATTATCGTTTTACCCCAATTTACATAATTACCGTTTTACCCCTG
1 ATTTACAAAATTATCGTTTTACCCCAATTTACAGAATTACCGTTTTACCCCTG
* ** *
37614483 ATTTACATAATTATCGTTTTACCCTTGATTTACAGAATTACTGTTTTA-CCCTCG
1 ATTTACAAAATTATCGTTTTACCC-CAATTTACAGAATTACCGTTTTACCCCT-G
37614537 ATTTACAAAATTA
1 ATTTACAAAATTA
37614550 CTAAAATACC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 27 0.46
54 32 0.54
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (53 bp):
ATTTACAAAATTATCGTTTTACCCCAATTTACAGAATTACCGTTTTACCCCTG
Found at i:37614550 original size:27 final size:27
Alignment explanation
Indices: 37614425--37614551 Score: 145
Period size: 27 Copynumber: 4.7 Consensus size: 27
37614415 ACCAAAGTAC
*
37614425 CCCCAATTTACAGAATTA-TCGTTTTA
1 CCCCGATTTACAGAATTACTCGTTTTA
* *
37614451 CCCCAATTTACATAATTAC-CGTTTTA
1 CCCCGATTTACAGAATTACTCGTTTTA
*
37614477 CCCCTGATTTACATAATTA-TCGTTTTA
1 CCCC-GATTTACAGAATTACTCGTTTTA
*
37614504 CCCTTGATTTACAGAATTACT-GTTTTA
1 CCC-CGATTTACAGAATTACTCGTTTTA
*
37614531 CCCTCGATTTACAAAATTACT
1 CCC-CGATTTACAGAATTACT
37614552 AAAATACCCT
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
26 28 0.31
27 61 0.68
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCCGATTTACAGAATTACTCGTTTTA
Found at i:37614576 original size:54 final size:54
Alignment explanation
Indices: 37614529--37614668 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
37614519 ATTACTGTTT
* * * *
37614529 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAA
* * *
37614583 TACCC-CTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAA
*
37614637 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTATAAAATTACCAAAATACCC
37614669 CTGATTTACA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAA
Found at i:37614691 original size:54 final size:53
Alignment explanation
Indices: 37614502--37614781 Score: 181
Period size: 54 Copynumber: 5.2 Consensus size: 53
37614492 ATTATCGTTT
* * *** * ** *
37614502 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACA-AATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
* * *
37614556 TACCCTTAGTTTGTA-AAATTACCA-AAATACCC-CTAGTTTATAAAATTACCAAAA
1 TACCCTT-GGTT-TACAAATTA-CAGAAATACCCTC-AATTTGTAAAATTACCAAAA
** *
37614610 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTT-ACAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
* * * * * *
37614664 TACCCCTGATTTACAAAGTTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAA-TTACAGAAATACCC-TCAATTTGT-AAAATTACCA-AAA
* * * * * *
37614720 TACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTAC-AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
*
37614774 CACCCTTG
1 TACCCTTG
37614782 TAGGATGAAA
Statistics
Matches: 177, Mismatches: 35, Indels: 28
0.74 0.15 0.12
Matches are distributed among these distances:
52 1 0.01
53 8 0.05
54 109 0.62
55 20 0.11
56 36 0.20
57 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (53 bp):
TACCCTTGGTTTACAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:37614697 original size:81 final size:81
Alignment explanation
Indices: 37614544--37614698 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
37614534 TCGATTTACA
* * * *
37614544 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAA
37614609 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* *
37614625 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAGTTA-CAG
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACCA-
37614688 AAATACCCTTG
64 AAATACCCTTG
37614699 ACTTTCTAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 3 0.05
81 63 0.95
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAA
ATACCCTTGGTTTGTG
Found at i:37614746 original size:27 final size:27
Alignment explanation
Indices: 37614529--37614781 Score: 152
Period size: 27 Copynumber: 9.3 Consensus size: 27
37614519 ATTACTGTTT
* * *
37614529 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
37614556 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
37614583 TACCCCTAGTTTATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** *
37614610 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** **
37614637 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
37614664 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* *
37614691 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
37614720 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** * *
37614747 TACCCTTAGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
37614774 CACCCTTG
1 TACCCTTG
37614782 TAGGATGAAA
Statistics
Matches: 179, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.01
27 151 0.84
28 7 0.04
29 19 0.11
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:37614876 original size:27 final size:27
Alignment explanation
Indices: 37614799--37614876 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
37614789 AAATGACTAA
*
37614799 AATACCCCTGT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
37614826 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
37614853 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
37614877 GAATATGCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:37616081 original size:25 final size:25
Alignment explanation
Indices: 37616035--37616082 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
37616025 TTATAATATG
* * * *
37616035 AAAATGACCGTTTTGCCTCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
37616060 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
37616083 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:37616133 original size:9 final size:9
Alignment explanation
Indices: 37616121--37616177 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
37616111 TTTGATAAAC
37616121 ATGATATGT
1 ATGATATGT
*
37616130 ATGATATGCAC
1 ATGATATG--T
*
37616141 ATGACATGT
1 ATGATATGT
*
37616150 ATGATATGCAC
1 ATGATATG--T
37616161 ATGATATGT
1 ATGATATGT
37616170 ATGATATG
1 ATGATATG
37616178 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:37616144 original size:20 final size:20
Alignment explanation
Indices: 37616119--37616189 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
37616109 ATTTTGATAA
37616119 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
37616139 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
37616159 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
37616179 ACATGAGATGT
1 ACATGATATGT
37616190 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:37616166 original size:11 final size:11
Alignment explanation
Indices: 37616130--37616184 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
37616120 CATGATATGT
37616130 ATGATATGCAC
1 ATGATATGCAC
* *
37616141 ATGACATG--T
1 ATGATATGCAC
37616150 ATGATATGCAC
1 ATGATATGCAC
*
37616161 ATGATATG--T
1 ATGATATGCAC
37616170 ATGATATGCAC
1 ATGATATGCAC
37616181 ATGA
1 ATGA
37616185 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:37616341 original size:24 final size:25
Alignment explanation
Indices: 37616236--37616353 Score: 197
Period size: 25 Copynumber: 4.8 Consensus size: 25
37616226 AGGAAGTGCA
37616236 AAAGGGCTTATGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
37616259 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
37616284 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
37616309 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
37616333 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
37616354 CTATATGATA
Statistics
Matches: 91, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
23 22 0.24
24 21 0.23
25 48 0.53
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:37616586 original size:31 final size:31
Alignment explanation
Indices: 37616551--37616614 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
37616541 CGTTTACAAT
*
37616551 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
37616582 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
37616613 AA
1 AA
37616615 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:37622453 original size:37 final size:37
Alignment explanation
Indices: 37622398--37622500 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
37622388 CGAATAGTCC
* * * *
37622398 CCACTCGTAGTTAGCGGGTCTCACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
37622435 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
37622472 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
37622501 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:37622699 original size:48 final size:48
Alignment explanation
Indices: 37622641--37623074 Score: 728
Period size: 48 Copynumber: 9.0 Consensus size: 48
37622631 ATATACACAC
* * * *
37622641 ATCTCCTACATATTTCACATTAGCCATTCGACTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
37622689 ATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
37622737 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
37622785 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
37622833 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
37622881 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
37622929 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
37622977 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
37623025 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
37623073 AT
1 AT
37623075 ATTTATCTTG
Statistics
Matches: 365, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 2 0.01
48 361 0.99
49 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:37625823 original size:6 final size:6
Alignment explanation
Indices: 37625812--37625842 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
37625802 CCCACCCCAA
37625812 ATACAG ATACAG AATACAG ATACAG ATACAG
1 ATACAG ATACAG -ATACAG ATACAG ATACAG
37625843 TTATAACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
ATACAG
Found at i:37625829 original size:13 final size:13
Alignment explanation
Indices: 37625811--37625842 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
37625801 TCCCACCCCA
37625811 AATACAGATACAG
1 AATACAGATACAG
37625824 AATACAGATACAG
1 AATACAGATACAG
37625837 -ATACAG
1 AATACAG
37625843 TTATAACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
AATACAGATACAG
Found at i:37626642 original size:16 final size:18
Alignment explanation
Indices: 37626606--37626643 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37626596 AACAGATCTA
37626606 AAAATAGAAGAAAGTAAC
1 AAAATAGAAGAAAGTAAC
*
37626624 AAAATAGATG-AAG-AAC
1 AAAATAGAAGAAAGTAAC
37626640 AAAA
1 AAAA
37626644 GAACAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.68, C:0.05, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAATAGAAGAAAGTAAC
Found at i:37644916 original size:19 final size:20
Alignment explanation
Indices: 37644877--37644930 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
37644867 TTCTTGTCAA
37644877 AAAATAATTAAA-TAT-TAT
1 AAAATAATTAAATTATGTAT
37644895 AAAATAATTAAATTATGT-T
1 AAAATAATTAAATTATGTAT
*
37644914 AAAA-ATATGAAATTATG
1 AAAATA-ATTAAATTATG
37644931 AATTTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.41
19 18 0.56
20 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (20 bp):
AAAATAATTAAATTATGTAT
Found at i:37647831 original size:28 final size:25
Alignment explanation
Indices: 37647763--37647833 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 25
37647753 TTCTTTTCCA
37647763 TTTTTTTCTTTTCTTT-TTCCTTCTC
1 TTTTTTTCTTTT-TTTCTTCCTTCTC
*** *
37647788 TTTTTTTCTCCCTTTCTTCCTTCTTTAT
1 TTTTTTTCTTTTTTTCTTCCTTC--T-C
37647816 TTTTTTTCTTTTTTTCTT
1 TTTTTTTCTTTTTTTCTT
37647834 TTCCCTCTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 3 0.09
25 16 0.46
27 1 0.03
28 15 0.43
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTTTCTTTTTTTCTTCCTTCTC
Found at i:37657717 original size:27 final size:26
Alignment explanation
Indices: 37657685--37657744 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 26
37657675 AATCGTGCCC
*
37657685 AAAAAAACCAGCGTGACAGAAAAAAA
1 AAAAAAAACAGCGTGACAGAAAAAAA
*
37657711 ATAAAAAAACTGCGTGACAGAAAAAAA
1 A-AAAAAAACAGCGTGACAGAAAAAAA
37657738 AAAAAAA
1 AAAAAAA
37657745 TAACAGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.68, C:0.12, G:0.13, T:0.07
Consensus pattern (26 bp):
AAAAAAAACAGCGTGACAGAAAAAAA
Found at i:37658590 original size:27 final size:26
Alignment explanation
Indices: 37658560--37658621 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
37658550 AGATAATTAA
37658560 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
37658587 AATAATCATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
37658614 AATAAAAT
1 AATAAAAT
37658622 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:37667195 original size:22 final size:22
Alignment explanation
Indices: 37667170--37667212 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37667160 TATCCAAACA
37667170 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
37667192 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
37667213 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:37675207 original size:33 final size:33
Alignment explanation
Indices: 37675170--37675235 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
37675160 TTTTTAGGGA
*
37675170 AAAAATAGATATGATAGCATATCCCTAGATTTT
1 AAAAACAGATATGATAGCATATCCCTAGATTTT
37675203 AAAAACAGATATGATAGCATATCCCTAGATTTT
1 AAAAACAGATATGATAGCATATCCCTAGATTTT
37675236 CTCCCTACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (33 bp):
AAAAACAGATATGATAGCATATCCCTAGATTTT
Found at i:37675641 original size:23 final size:23
Alignment explanation
Indices: 37675615--37675677 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
37675605 AATATCCACT
37675615 AACTTGTTTAT-GTATAAATAGTA
1 AACTTGTTT-TGGTATAAATAGTA
37675638 AACTTGTTTTGGTATAAATAGTA
1 AACTTGTTTTGGTATAAATAGTA
*
37675661 AACTTATTTTGGTATAA
1 AACTTGTTTTGGTATAA
37675678 TGGCATGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (23 bp):
AACTTGTTTTGGTATAAATAGTA
Found at i:37679689 original size:2 final size:2
Alignment explanation
Indices: 37679682--37679714 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37679672 TGACATCATA
37679682 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37679715 AAACAACTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37688104 original size:13 final size:13
Alignment explanation
Indices: 37688086--37688111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37688076 AATAAAGAAT
37688086 GTGGAGGTGTTTG
1 GTGGAGGTGTTTG
37688099 GTGGAGGTGTTTG
1 GTGGAGGTGTTTG
37688112 AATTCCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.54, T:0.38
Consensus pattern (13 bp):
GTGGAGGTGTTTG
Found at i:37688392 original size:30 final size:30
Alignment explanation
Indices: 37688358--37688451 Score: 127
Period size: 30 Copynumber: 3.1 Consensus size: 30
37688348 GAGAGATTGA
*
37688358 GCCCAGTGATTGTGTGGGTACTGTTGATGG
1 GCCCAGTGATTGTGTGGGTGCTGTTGATGG
* *
37688388 GCCCAGTGATTGTGTGGGCGCTATTGATGG
1 GCCCAGTGATTGTGTGGGTGCTGTTGATGG
* *
37688418 GCCC-GATGATTGTGTAGGTGTTGTTGATGG
1 GCCCAG-TGATTGTGTGGGTGCTGTTGATGG
37688448 GCCC
1 GCCC
37688452 GTCCCATCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 1 0.02
30 55 0.98
ACGTcount: A:0.13, C:0.16, G:0.39, T:0.32
Consensus pattern (30 bp):
GCCCAGTGATTGTGTGGGTGCTGTTGATGG
Found at i:37688959 original size:7 final size:7
Alignment explanation
Indices: 37688949--37688980 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
37688939 TTATATACAT
37688949 AATACTA
1 AATACTA
37688956 AATACTA
1 AATACTA
37688963 AATACTA
1 AATACTA
*
37688970 AGTACTA
1 AATACTA
37688977 AATA
1 AATA
37688981 TGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:37698072 original size:17 final size:18
Alignment explanation
Indices: 37698047--37698080 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37698037 ATGTAATTTC
37698047 TTATATATTACAATTAAA
1 TTATATATTACAATTAAA
*
37698065 TTAT-TATTACATTTAA
1 TTATATATTACAATTAA
37698081 TAATTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATATATTACAATTAAA
Found at i:37699167 original size:17 final size:18
Alignment explanation
Indices: 37699145--37699178 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
37699135 TATGAATTTT
37699145 ATTAAAATAT-AAAATAA
1 ATTAAAATATGAAAATAA
37699162 ATTAAAATATGAAAATA
1 ATTAAAATATGAAAATA
37699179 CAAAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTAAAATATGAAAATAA
Found at i:37699823 original size:23 final size:23
Alignment explanation
Indices: 37699774--37699832 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
37699764 TTATCAGATT
**
37699774 TTAATTTATAATAAAGTGCAATT
1 TTAATTTATAATAAAGTGCAACA
*
37699797 TTAATTTATATATAAA-TGTAACA
1 TTAATTTATA-ATAAAGTGCAACA
37699820 TTAA-TTA-AATAAA
1 TTAATTTATAATAAA
37699833 AATTAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 5 0.16
21 1 0.03
22 3 0.09
23 18 0.56
24 5 0.16
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (23 bp):
TTAATTTATAATAAAGTGCAACA
Found at i:37700117 original size:7 final size:7
Alignment explanation
Indices: 37700105--37700132 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
37700095 ATCATTCTTA
37700105 TATAGAT
1 TATAGAT
37700112 TATAGAT
1 TATAGAT
37700119 TATAGAT
1 TATAGAT
37700126 TATAGAT
1 TATAGAT
37700133 ATGTGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
TATAGAT
Done.