Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 208 of 318
Found at i:65862601 original size:29 final size:29
Alignment explanation
Indices: 65862559--65862619 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
65862549 TAATTTGGAT
*
65862559 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTTATTTAAATATTATTAAATTAAAA
*
65862588 TAATTT-TTATAAATATTATTTAATTAAAA
1 TAATTTATT-TAAATATTATTAAATTAAAA
65862617 TAA
1 TAA
65862620 AATTTTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTAAATTAAAA
Found at i:65862848 original size:9 final size:9
Alignment explanation
Indices: 65862818--65862998 Score: 185
Period size: 9 Copynumber: 20.7 Consensus size: 9
65862808 TATATACTTG
65862818 AACTTACAT
1 AACTTACAT
* *
65862827 AACTCACAA
1 AACTTACAT
65862836 AACTTACAT
1 AACTTACAT
*
65862845 AACTTATAT
1 AACTTACAT
65862854 AACTTACAT
1 AACTTACAT
65862863 AACTTACAT
1 AACTTACAT
*
65862872 AACTCACAT
1 AACTTACAT
65862881 AACTTACAT
1 AACTTACAT
65862890 AACTT--AT
1 AACTTACAT
* *
65862897 -ATTTAGAT
1 AACTTACAT
*
65862905 AACTCACAT
1 AACTTACAT
*
65862914 AACTCACAT
1 AACTTACAT
*
65862923 AACTTACAA
1 AACTTACAT
65862932 AACTTACAT
1 AACTTACAT
*
65862941 AATTTACAT
1 AACTTACAT
65862950 AACTTACAT
1 AACTTACAT
65862959 AA--TACAT
1 AACTTACAT
* *
65862966 AA-ATATAT
1 AACTTACAT
* *
65862974 ATCATATCAT
1 AACTTA-CAT
65862984 AACTTACAT
1 AACTTACAT
65862993 AACTTA
1 AACTTA
65862999 ATTAGAGTTA
Statistics
Matches: 144, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
6 3 0.02
7 9 0.06
8 7 0.05
9 119 0.83
10 6 0.04
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:65862923 original size:60 final size:60
Alignment explanation
Indices: 65862843--65862955 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
65862833 CAAAACTTAC
* * * *
65862843 ATAACTTATATAACTTACATAACTTACATAACTCACATAACTTACATAACTTATATTTAG
1 ATAACTCACATAACTCACATAACTTACAAAACTCACATAACTTACATAACTTATATTTAG
* *
65862903 ATAACTCACATAACTCACATAACTTACAAAACTTACATAATTTACATAACTTA
1 ATAACTCACATAACTCACATAACTTACAAAACTCACATAACTTACATAACTTA
65862956 CATAATACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (60 bp):
ATAACTCACATAACTCACATAACTTACAAAACTCACATAACTTACATAACTTATATTTAG
Found at i:65865491 original size:32 final size:32
Alignment explanation
Indices: 65865455--65865519 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
65865445 TGTATGCATT
65865455 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
65865487 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
65865519 T
1 T
65865520 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:65867041 original size:26 final size:26
Alignment explanation
Indices: 65866989--65867041 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
65866979 TTTATAGTTT
*
65866989 TACCCCTAGGAGATAAATTACCGAAA
1 TACCCCTAGGAGATAAATTAACGAAA
* *
65867015 TACCCCTAGG-GTTAAATTGAACTAAA
1 TACCCCTAGGAGATAAATT-AACGAAA
65867041 T
1 T
65867042 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTAACGAAA
Found at i:65868634 original size:12 final size:12
Alignment explanation
Indices: 65868617--65868645 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
65868607 ACTCAGGGAA
65868617 GAGGCCGTGGTC
1 GAGGCCGTGGTC
65868629 GAGGCCGTGGTC
1 GAGGCCGTGGTC
65868641 GAGGC
1 GAGGC
65868646 TGAGGTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.24, G:0.52, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:65871702 original size:47 final size:47
Alignment explanation
Indices: 65871624--65872003 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
65871614 CCCTTCGAGA
* * * * * * *
65871624 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
65871671 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65871718 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65871765 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65871812 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65871859 CTTATCACACATATACACTTTCACGTTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65871906 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65871953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65872000 CTTA
1 CTTA
65872004 CTATCATTTC
Statistics
Matches: 312, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 312 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65879494 original size:25 final size:25
Alignment explanation
Indices: 65879465--65879513 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
65879455 ATAGTTTTAC
65879465 CCCTAGGAGATAAATT-ACCGAAATA
1 CCCTAGG-GATAAATTGACCGAAATA
* *
65879490 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
65879514 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGGATAAATTGACCGAAATA
Found at i:65894286 original size:28 final size:28
Alignment explanation
Indices: 65894229--65894354 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
65894219 TAAATTGTGC
*
65894229 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
65894256 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
65894284 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
65894312 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
65894340 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65894355 GACTTAATAT
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 16 0.17
28 77 0.83
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:65902406 original size:28 final size:28
Alignment explanation
Indices: 65902349--65902501 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
65902339 TAAATTGTGC
* *
65902349 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
65902376 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
65902404 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
65902432 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
65902460 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
65902487 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65902502 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.32
28 79 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:65902482 original size:83 final size:83
Alignment explanation
Indices: 65902349--65902501 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
65902339 TAAATTGTGC
* *
65902349 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
65902414 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
65902432 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
65902496 TGTGCG
65 TGTGCG
65902502 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:65908057 original size:48 final size:48
Alignment explanation
Indices: 65907984--65908089 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
65907974 CAAGATATAT
* * *
65907984 ATATATATGTGTGGTAAAGCAGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATATGTATGAG
*
65908032 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATATGTATGAG
*
65908080 ATGTGTATAT
1 ATATGTATAT
65908090 ATTGTGGCCG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATATGTATGAG
Found at i:65911135 original size:37 final size:37
Alignment explanation
Indices: 65911076--65911177 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
65911066 AGCTCAGACG
* *
65911076 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
65911113 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65911150 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
65911178 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65911374 original size:47 final size:47
Alignment explanation
Indices: 65911298--65911710 Score: 332
Period size: 47 Copynumber: 8.3 Consensus size: 47
65911288 CTTCGGGACT
* * * * *
65911298 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
65911345 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
*
65911392 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
** *
65911438 TCATCACATCGGCCAT-TAGGC-CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCA
1 T-ATCACAT-----ATATA--CACTT-TCAC--AT-T-CA---TCACA-TCGGCCAC-TAGG-C-
65911500 TTAGGCC
46 -----CC
* *
65911507 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 -TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* *
65911557 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* *
65911604 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* *
65911651 TATCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
*
65911699 TATCTCATATAT
1 TATCACATATAT
65911711 GCATGTTCAT
Statistics
Matches: 312, Mismatches: 20, Indels: 69
0.78 0.05 0.17
Matches are distributed among these distances:
46 8 0.03
47 183 0.59
48 35 0.11
49 16 0.05
50 1 0.00
51 2 0.01
52 5 0.02
53 5 0.02
55 2 0.01
56 2 0.01
57 7 0.02
58 7 0.02
60 7 0.02
61 7 0.02
62 1 0.00
63 2 0.01
65 5 0.02
66 5 0.02
67 2 0.01
69 7 0.02
70 1 0.00
71 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:65911444 original size:22 final size:22
Alignment explanation
Indices: 65911416--65911468 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
65911406 ACTTTCACAT
65911416 TCATCACATCGGCCATTAGGCC
1 TCATCACATCGGCCATTAGGCC
65911438 TCATCACATCGGCCATTAGGCC
1 TCATCACATCGGCCATTAGGCC
*
65911460 TTATCACAT
1 TCATCACAT
65911469 ATATACACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (22 bp):
TCATCACATCGGCCATTAGGCC
Found at i:65911445 original size:69 final size:69
Alignment explanation
Indices: 65911369--65911515 Score: 285
Period size: 69 Copynumber: 2.1 Consensus size: 69
65911359 ACTTTCACAT
65911369 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
65911434 GGCC
66 GGCC
65911438 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
65911503 GGCC
66 GGCC
*
65911507 TTATCACAT
1 TCATCACAT
65911516 ATATATACAC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 77 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (69 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCC
Found at i:65911549 original size:96 final size:96
Alignment explanation
Indices: 65911438--65911710 Score: 498
Period size: 96 Copynumber: 2.9 Consensus size: 96
65911428 CCATTAGGCC
65911438 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
65911503 GGCCTTATCACATATATATACACTTTCACAT
66 GGCCTTATCACATATATATACACTTTCACAT
65911534 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
65911599 GGCCTTATCAC--ATATATACACTTTCACAT
66 GGCCTTATCACATATATATACACTTTCACAT
65911628 TCATCACATCGGCCATTAGGCCTTATCACATATATATACAC-TTCACATTCATCACATCGGCCAT
1 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCAT
*
65911692 TAGGCCTTATCTCATATAT
64 TAGGCCTTATCACATATAT
65911711 GCATGTTCAT
Statistics
Matches: 172, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
94 47 0.27
95 35 0.20
96 86 0.50
97 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (96 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACATATATATACACTTTCACAT
Found at i:65911566 original size:165 final size:163
Alignment explanation
Indices: 65911296--65911611 Score: 533
Period size: 165 Copynumber: 1.9 Consensus size: 163
65911286 CCCTTCGGGA
* * * * *
65911296 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
65911361 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65911426 GGCCATTAGGCCTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTCATCACATCGGCCATTAGGC
* * *
65911459 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
65911524 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
65911589 TCGGCCATTAGGCCTTATCACAT
129 TCGGCCATTAGGCCTCATCACAT
65911612 ATATACACTT
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
163 47 0.33
165 95 0.67
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (163 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTCATCACATCGGCCATTAGGC
Found at i:65911608 original size:143 final size:142
Alignment explanation
Indices: 65911438--65911710 Score: 528
Period size: 143 Copynumber: 1.9 Consensus size: 142
65911428 CCATTAGGCC
65911438 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
65911503 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
66 GGCCTTATCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
65911568 TACACTTTCACAT
130 TACACTTTCACAT
65911581 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
65911646 GGCCTTATCACATATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATAT
66 GGCCTTATCACATATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
65911711 GCATGTTCAT
Statistics
Matches: 129, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
142 41 0.32
143 88 0.68
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (142 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACATATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
ACACTTTCACAT
Found at i:65914558 original size:39 final size:39
Alignment explanation
Indices: 65914515--65914663 Score: 208
Period size: 39 Copynumber: 3.8 Consensus size: 39
65914505 ACATATTTCC
* * *
65914515 AGCACGTAGCCTGCGGACCTTAAGTTCGGTTATAATTCT
1 AGCACATAGCCTGCGGACCCTAAGTTCGGATATAATTCT
* * *
65914554 AGCACATAGCCTGCAGACCTTAAGTCCGGATATAATTCT
1 AGCACATAGCCTGCGGACCCTAAGTTCGGATATAATTCT
* *
65914593 AGCATATAGCCTGCGGACCCTAAGTTCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTTCGGATATAATTCT
* *
65914632 AGCACATAGCCTACGGACCCTAAGTCCGGATA
1 AGCACATAGCCTGCGGACCCTAAGTTCGGATA
65914664 AACATCACTG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 98 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCCTAAGTTCGGATATAATTCT
Found at i:65914565 original size:78 final size:78
Alignment explanation
Indices: 65914498--65914661 Score: 211
Period size: 78 Copynumber: 2.1 Consensus size: 78
65914488 GCGGGACTTT
* * * * *
65914498 AGCCCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTTCGGTTATAATTCTAGCACATAG
1 AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTTCGGATATAATTCCAGCACATAG
65914563 CCTGCAGACCTTA
66 CCTGCAGACCTTA
* * * *
65914576 AGTCCGGATATAATTCTAGCATATAGCCTGCGGACCCTAAGTTCGGATATAATTCCAGCACATAG
1 AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTTCGGATATAATTCCAGCACATAG
* * *
65914641 CCTACGGACCCTA
66 CCTGCAGACCTTA
*
65914654 AGTCCGGA
1 AGCCCGGA
65914662 TAAACATCAC
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (78 bp):
AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTTCGGATATAATTCCAGCACATAG
CCTGCAGACCTTA
Found at i:65917818 original size:47 final size:47
Alignment explanation
Indices: 65917766--65918406 Score: 1048
Period size: 47 Copynumber: 13.6 Consensus size: 47
65917756 GATAATTGTG
* *
65917766 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65917813 ATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
65917860 ATGTGAATGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65917907 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
65917954 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
65918001 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
65918048 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
65918097 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
65918144 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
65918191 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65918240 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65918287 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
65918334 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
65918381 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
65918407 TCCCGAAGGG
Statistics
Matches: 560, Mismatches: 30, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
47 470 0.84
49 90 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:65917998 original size:22 final size:22
Alignment explanation
Indices: 65917970--65918045 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
65917960 AAGTGTATAT
65917970 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
65917992 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
65918016 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
65918039 ATGTGAT
1 ATGTGAT
65918046 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:65918111 original size:143 final size:143
Alignment explanation
Indices: 65917766--65918406 Score: 1060
Period size: 143 Copynumber: 4.5 Consensus size: 143
65917756 GATAATTGTG
*
65917766 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
65917829 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCTAATA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
65917894 GCCGATGTGATGA
131 GCCAATGTGATGA
*
65917907 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
65917970 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
65918035 GCCAATGTGATGA
131 GCCAATGTGATGA
65918048 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
65918113 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
65918178 GCCAATGTGATGA
131 GCCAATGTGATGA
65918191 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
65918256 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
65918321 GCCGATGTGATGA
131 GCCAATGTGATGA
* * * * * * * *
65918334 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
65918397 ATGTGATAAG
66 ATGTGATAAG
65918407 TCCCGAAGGG
Statistics
Matches: 473, Mismatches: 23, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
141 192 0.41
142 2 0.00
143 279 0.59
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGA
Found at i:65924859 original size:68 final size:66
Alignment explanation
Indices: 65924785--65924934 Score: 178
Period size: 67 Copynumber: 2.2 Consensus size: 66
65924775 CATCATGTGT
* * * *
65924785 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
65924848 TGTAG
62 TGTAG
* * *
65924853 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
65924918 AG
65 AG
65924920 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
65924935 GATAAATTGG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
64 24 0.33
65 3 0.04
66 5 0.07
67 27 0.38
68 13 0.18
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:65931899 original size:45 final size:44
Alignment explanation
Indices: 65931825--65932001 Score: 196
Period size: 45 Copynumber: 4.0 Consensus size: 44
65931815 GAATCAAATA
* * * * *
65931825 CGATGCCAA-TTCCCAGACATGGTCTTACACATAACCATATATAT
1 CGATGCCAACGTCCCAGACGTAGTCTTACACA-AAACACATATAT
*
65931869 CGATGCCAACGTCCTAGACGTAGTCTTACACGAAAACACATATAT
1 CGATGCCAACGTCCCAGACGTAGTCTTACAC-AAAACACATATAT
* *
65931914 CGATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATATAT
1 CGATGCCAACGTCCCAGACGTAGTCTTACA-CAAAACACATATAT
* * *
65931959 CGATGCCAACGTTCCAAATGT-GATCTTACACCAAAACACATAT
1 CGATGCCAACGTCCCAGACGTAG-TCTTACA-CAAAACACATAT
65932002 CAGAATCCTA
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
44 10 0.09
45 104 0.90
46 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (44 bp):
CGATGCCAACGTCCCAGACGTAGTCTTACACAAAACACATATAT
Found at i:65931957 original size:90 final size:89
Alignment explanation
Indices: 65931825--65932001 Score: 225
Period size: 90 Copynumber: 2.0 Consensus size: 89
65931815 GAATCAAATA
* * * *
65931825 CGATGCCAATTCCCAGACATGGTCTTACACATAACCATATATATCGATGCCAACG-TCCTAGACG
1 CGATGCCAAGTCCCAGACATGGTCTTACACATAAACACATATATCGATGCCAACGTTCC-AAACG
*
65931889 T-AGTCTTACACGAAAACACATATAT
65 TGA-TCTTACACCAAAACACATATAT
* * *
65931914 CGATGCCAACGTCCCAGACGTGGTCTTACATGA-AAACACATATATCGATGCCAACGTTCCAAAT
1 CGATGCCAA-GTCCCAGACATGGTCTTACA-CATAAACACATATATCGATGCCAACGTTCCAAAC
65931978 GTGATCTTACACCAAAACACATAT
64 GTGATCTTACACCAAAACACATAT
65932002 CAGAATCCTA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
89 9 0.12
90 62 0.82
91 5 0.07
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (89 bp):
CGATGCCAAGTCCCAGACATGGTCTTACACATAAACACATATATCGATGCCAACGTTCCAAACGT
GATCTTACACCAAAACACATATAT
Found at i:65932406 original size:15 final size:15
Alignment explanation
Indices: 65932383--65932413 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65932373 TCAAAAATTC
65932383 CAATACAAAACATAT
1 CAATACAAAACATAT
*
65932398 CAATCCAAAACATAT
1 CAATACAAAACATAT
65932413 C
1 C
65932414 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:65932944 original size:14 final size:15
Alignment explanation
Indices: 65932927--65932955 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65932917 TCACGAAAAT
65932927 TTCACACAT-ATAAA
1 TTCACACATAATAAA
65932941 TTCACACATAATAAA
1 TTCACACATAATAAA
65932956 CACAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:65944595 original size:24 final size:24
Alignment explanation
Indices: 65944563--65944610 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
65944553 ACGACTTAGT
*
65944563 CTCGATTATTTGAGATGGTACTAA
1 CTCGATTATTTGAGATGGCACTAA
*
65944587 CTCGGTTATTTGAGATGGCACTAA
1 CTCGATTATTTGAGATGGCACTAA
65944611 GTGTGCGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (24 bp):
CTCGATTATTTGAGATGGCACTAA
Found at i:65946292 original size:93 final size:93
Alignment explanation
Indices: 65946178--65946349 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65946168 CGCCCATAAG
* *
65946178 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65946243 ACGAGTTCGGATGCCTAGTTATGTTTCA
66 ACGAGTTCGGATGCCTAGTTATGTTTCA
*
65946271 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65946336 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65946350 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTATGTTTCA
Found at i:65946346 original size:46 final size:45
Alignment explanation
Indices: 65946171--65946346 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
65946161 TGTAACCCGC
* *
65946171 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCAT
* * * *
65946217 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA--CTTCG-CAT
*** *
65946265 GTTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCAT
*
65946310 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65946347 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 5 0.05
46 65 0.61
47 31 0.29
48 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCAT
Found at i:65953772 original size:46 final size:46
Alignment explanation
Indices: 65953705--65953877 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
65953695 TAACCCGCCC
* *
65953705 ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
*
65953751 ATAAGTGAGCTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACG--T-T
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTT-CGCATCT
* * * * * *
65953800 -TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
* *
65953844 ATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
65953878 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 1 0.01
44 1 0.01
45 2 0.02
46 58 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 1 0.01
51 3 0.03
52 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCT
Found at i:65953824 original size:93 final size:93
Alignment explanation
Indices: 65953710--65953881 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
65953700 CGCCCATAAG
* * * *
65953710 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAGCTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65953775 ACGAGCTCGGATGCCTAGTTACGTTTCA
66 ACGAGCTCGGATGCCTAGTTACGTTTCA
* *
65953803 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
65953868 ATGAGTTCGGATGC
66 ACGAGCTCGGATGC
65953882 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACGTTTCA
Found at i:65957427 original size:27 final size:28
Alignment explanation
Indices: 65957373--65957428 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
65957363 CAAGGGAAAA
*
65957373 TTAAAATTTTGAAAACTGATCCAATATG
1 TTAAAATTTTGAAAACCGATCCAATATG
*
65957401 TTAAAATTTTG-AAACCGATCCAGTATG
1 TTAAAATTTTGAAAACCGATCCAATATG
65957428 T
1 T
65957429 GATATTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (28 bp):
TTAAAATTTTGAAAACCGATCCAATATG
Found at i:65959458 original size:56 final size:56
Alignment explanation
Indices: 65959372--65959550 Score: 268
Period size: 56 Copynumber: 3.2 Consensus size: 56
65959362 CAATGGAATC
* * * * *
65959372 GATATATTTGTGCGAGTAAAACCACATTTAATACGTTGGCATCGATATGTGATTTT
1 GATATATGTGTGTGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTTT
* *
65959428 GATATATGTGTGTAAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTTC
1 GATATATGTGTGTGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTTT
* *
65959484 GATATATGTGTGTGAGTAAGACCACGTTTATTATGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGTGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTTT
*
65959540 GATTTATGTGT
1 GATATATGTGT
65959551 ACCAGTAAGA
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 111 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (56 bp):
GATATATGTGTGTGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTTT
Found at i:65959580 original size:112 final size:112
Alignment explanation
Indices: 65959370--65959593 Score: 261
Period size: 112 Copynumber: 2.0 Consensus size: 112
65959360 GACAATGGAA
* *
65959370 TCGATATATTTGTGCGAGTAAAACCACATTTAATACGTTGGCATCGATATGTGATTTTGATATAT
1 TCGATATATGTGTGCGAGTAAAACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATAT
** * * *** *
65959435 GTGTGTAAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATT
66 GTGTACAAGTAAGACCACGTCTAAGACAATGGCATCAATATGTGATT
* * * * * *
65959482 TCGATATATGTGTGTGAGTAAGACCACGTTTATTATGTTGGCATCGATATGTGATTCTGATTTAT
1 TCGATATATGTGTGCGAGTAAAACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATAT
* **
65959547 GTGTACCAGTAAGACC-CTGTCTGGGACAATGGCATCAATATGTGATT
66 GTGTACAAGTAAGACCAC-GTCTAAGACAATGGCATCAATATGTGATT
65959594 ACATGTAAGA
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
111 1 0.01
112 91 0.99
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (112 bp):
TCGATATATGTGTGCGAGTAAAACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATAT
GTGTACAAGTAAGACCACGTCTAAGACAATGGCATCAATATGTGATT
Found at i:65968873 original size:27 final size:28
Alignment explanation
Indices: 65968789--65968886 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
65968779 GTTGATTTCG
* * * *
65968789 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
65968818 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
65968846 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65968873 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
65968887 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65968897 original size:27 final size:27
Alignment explanation
Indices: 65968817--65968899 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
65968807 TAAATTGTAC
* *
65968817 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
65968845 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
65968872 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
65968899 A
1 A
65968900 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:65968900 original size:29 final size:27
Alignment explanation
Indices: 65968789--65968900 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
65968779 GTTGATTTCG
** * *
65968789 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
65968818 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
65968846 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
65968873 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
65968901 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:65974998 original size:79 final size:81
Alignment explanation
Indices: 65974856--65975038 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
65974846 TACTCATTCA
* * *
65974856 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCTCACAAATGCCTTCGGGCCTTAACCCGGA
1 AATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
* * *
65974920 TTTAGTGACT-CGCACC
66 TATAGTCACTAAGCA-C
* * **
65974936 AATGCCTTCGGG-CCTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
65974999 TATAGTCACTAAGCAC
66 TATAGTCACTAAGCAC
* *
65975015 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACATAGCCCGGA
65975039 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 62 0.70
80 26 0.30
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
TATAGTCACTAAGCAC
Found at i:65975038 original size:40 final size:40
Alignment explanation
Indices: 65974854--65975038 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
65974844 GCTACTCATT
* * *
65974854 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
65974894 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
65974934 CCAATGCCTTCGGG-CCTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
65974973 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTAAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACT-CGCA
65975014 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65975039 CATCATTCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 78 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:65978487 original size:153 final size:153
Alignment explanation
Indices: 65978209--65978515 Score: 614
Period size: 153 Copynumber: 2.0 Consensus size: 153
65978199 AGGTCTTAAG
65978209 CATGAAGTTACCGACTTCGTAGGTAAATGCCTTACTTGTCAGCAGGTTAAGGCTGAGCAACAGTT
1 CATGAAGTTACCGACTTCGTAGGTAAATGCCTTACTTGTCAGCAGGTTAAGGCTGAGCAACAGTT
65978274 TCCTTCAGGGTTGCTTCAGCCAGTTAAGATTCTACTTTGGAAGTGGGAGAGAGTAACTAGGACTT
66 TCCTTCAGGGTTGCTTCAGCCAGTTAAGATTCTACTTTGGAAGTGGGAGAGAGTAACTAGGACTT
65978339 TGTTAGTGGGCTACCCCTAACGC
131 TGTTAGTGGGCTACCCCTAACGC
65978362 CATGAAGTTACCGACTTCGTAGGTAAATGCCTTACTTGTCAGCAGGTTAAGGCTGAGCAACAGTT
1 CATGAAGTTACCGACTTCGTAGGTAAATGCCTTACTTGTCAGCAGGTTAAGGCTGAGCAACAGTT
65978427 TCCTTCAGGGTTGCTTCAGCCAGTTAAGATTCTACTTTGGAAGTGGGAGAGAGTAACTAGGACTT
66 TCCTTCAGGGTTGCTTCAGCCAGTTAAGATTCTACTTTGGAAGTGGGAGAGAGTAACTAGGACTT
65978492 TGTTAGTGGGCTACCCCTAACGC
131 TGTTAGTGGGCTACCCCTAACGC
65978515 C
1 C
65978516 TTCTAAGAAA
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (153 bp):
CATGAAGTTACCGACTTCGTAGGTAAATGCCTTACTTGTCAGCAGGTTAAGGCTGAGCAACAGTT
TCCTTCAGGGTTGCTTCAGCCAGTTAAGATTCTACTTTGGAAGTGGGAGAGAGTAACTAGGACTT
TGTTAGTGGGCTACCCCTAACGC
Found at i:65987468 original size:51 final size:49
Alignment explanation
Indices: 65987285--65987474 Score: 188
Period size: 50 Copynumber: 3.8 Consensus size: 49
65987275 AGCCGAAGTT
* * * *
65987285 ATCTGATACGCATAGTAGCGTGCACTTAGTACTACACATGCGACCAA-C
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACGAATC
* * * * **
65987333 AATC-CAGTACACGTAGTATCCTACACTTAGTACTACACATGTGACCTCATC
1 -ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CGAATC
*
65987384 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CGAA-TC
* *
65987435 AT-TGAGTACGCATAGTAGCCTGCACCTAGTACTACACATG
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACATG
65987475 CGACTTAACA
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 34 0.29
50 45 0.38
51 37 0.32
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACGAATC
Found at i:65993778 original size:49 final size:49
Alignment explanation
Indices: 65993604--65994111 Score: 779
Period size: 47 Copynumber: 10.6 Consensus size: 49
65993594 CCCTTCGGGA
* * * * * *
65993604 CTTATCACAT-T-TATACACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65993651 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65993698 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65993745 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65993794 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65993841 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65993890 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65993939 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65993986 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65994035 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65994082 CTTATCACATATATATATACTTTCACATTC
1 CTTATCACATATATATACACTTTCACATTC
65994112 CACATATACT
Statistics
Matches: 427, Mismatches: 24, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 221 0.52
49 205 0.48
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65993801 original size:96 final size:94
Alignment explanation
Indices: 65993604--65994111 Score: 764
Period size: 96 Copynumber: 5.3 Consensus size: 94
65993594 CCCTTCGGGA
* * * * * * * * *
65993604 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
65993669 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
65993698 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
65993763 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
65993794 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
65993859 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
65993890 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
65993955 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
65993986 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
65994051 ACTTTCACATTCATCACATCAGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
65994082 CTTATCACATATATATATACTTTCACATTC
1 CTTATCAC--ATATATACACTTTCACATTC
65994112 CACATATACT
Statistics
Matches: 387, Mismatches: 23, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
94 45 0.12
96 296 0.76
98 46 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:66002303 original size:13 final size:13
Alignment explanation
Indices: 66002285--66002311 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66002275 GCTCGGCAAG
66002285 GACACGCCCGTGT
1 GACACGCCCGTGT
66002298 GACACGCCCGTGT
1 GACACGCCCGTGT
66002311 G
1 G
66002312 CGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:66010346 original size:40 final size:40
Alignment explanation
Indices: 66010275--66010410 Score: 220
Period size: 40 Copynumber: 3.4 Consensus size: 40
66010265 AAGCCAAGTA
* *
66010275 CCTTCGGGATTTA-ACCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
66010314 CCTTTGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
66010354 CATTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66010394 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
66010411 AGTTATCATC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 11 0.12
40 77 0.88
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66016682 original size:122 final size:120
Alignment explanation
Indices: 66016467--66016687 Score: 325
Period size: 122 Copynumber: 1.8 Consensus size: 120
66016457 CATAATAACA
* ** *
66016467 ATGAGAATGAGAATAGAAATGTAATAGGTATGAGGTTTTCCTAATCTCAATTTAACACGGAATGT
1 ATGAGAATAAGAATAGAAATGTAATAGGTATGAGGTGCTCCTAATCTCAATTTAACACGAAATGT
*
66016532 ATGATAACTAACCTAGGAATGCAAATTAAATGATCGACATTGGCATGGTACTAGC
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATCGACATTGGCATGGTACTAGC
* * * * **
66016587 ATGAGAATAAGTATAGTAATGTCATGGGTATGAGGTGCTCCTAATAACTTGATTTAACACGAAAT
1 ATGAGAATAAGAATAGAAATGTAATAGGTATGAGGTGCTCCTAAT--CTCAATTTAACACGAAAT
66016652 GTATGATAACTAACCTAAGAATGCAAATTAAATGAT
64 GTATGATAACTAACCTAAGAATGCAAATTAAATGAT
66016688 AGAAAAATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
120 38 0.43
122 50 0.57
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATAGGTATGAGGTGCTCCTAATCTCAATTTAACACGAAATGT
ATGATAACTAACCTAAGAATGCAAATTAAATGATCGACATTGGCATGGTACTAGC
Found at i:66018001 original size:20 final size:20
Alignment explanation
Indices: 66017976--66018014 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66017966 AGCTTTTCGT
* *
66017976 AATTTTTGAGAATTTGGTAA
1 AATTTTTAAAAATTTGGTAA
66017996 AATTTTTAAAAATTTGGTA
1 AATTTTTAAAAATTTGGTA
66018015 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTTTTAAAAATTTGGTAA
Found at i:66019889 original size:10 final size:10
Alignment explanation
Indices: 66019868--66019914 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
66019858 CATGAGATTT
66019868 TGATAT-ACA
1 TGATATGACA
66019877 TGATATGACA
1 TGATATGACA
66019887 TGATATGACA
1 TGATATGACA
66019897 TGATATGCACA
1 TGATATG-ACA
66019908 TGATATG
1 TGATATG
66019915 TTATGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:66019910 original size:21 final size:21
Alignment explanation
Indices: 66019868--66019934 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
66019858 CATGAGATTT
66019868 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
66019887 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** * *
66019908 TGATATGTTATGAGATGCACT
1 TGATATGACATGATATGCACA
66019929 TGATAT
1 TGATAT
66019935 ACTCATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 26 0.62
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:66025995 original size:20 final size:20
Alignment explanation
Indices: 66025970--66026008 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66025960 GGATTTTTGT
*
66025970 AATTTTCAAGAATTTGGTAA
1 AATTTTCAAAAATTTGGTAA
*
66025990 AATTTTTAAAAATTTGGTA
1 AATTTTCAAAAATTTGGTA
66026009 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (20 bp):
AATTTTCAAAAATTTGGTAA
Found at i:66027883 original size:10 final size:10
Alignment explanation
Indices: 66027862--66027938 Score: 102
Period size: 10 Copynumber: 7.6 Consensus size: 10
66027852 CATGAGATTT
66027862 TGATAT-ACA
1 TGATATGACA
66027871 TGATATGACA
1 TGATATGACA
66027881 TGATATGACA
1 TGATATGACA
66027891 TGATATGACA
1 TGATATGACA
66027901 TGATATGCACA
1 TGATATG-ACA
**
66027912 TGATATGTTA
1 TGATATGACA
*
66027922 TGAGATGCACA
1 TGATATG-ACA
66027933 TGATAT
1 TGATAT
66027939 ACTCATTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
9 6 0.10
10 37 0.63
11 16 0.27
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:66027914 original size:21 final size:21
Alignment explanation
Indices: 66027868--66027938 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
66027858 ATTTTGATAT
66027868 ACATGATATGACATGATATG-
1 ACATGATATGACATGATATGC
66027888 ACATGATATGACATGATATGC
1 ACATGATATGACATGATATGC
** *
66027909 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGATATGC
66027930 ACATGATAT
1 ACATGATAT
66027939 ACTCATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 20 0.43
21 27 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGATATGC
Found at i:66030731 original size:43 final size:43
Alignment explanation
Indices: 66030683--66030794 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
66030673 CCGGCATTAC
66030683 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
66030726 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
66030769 GCCTACTAGGCATGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
66030795 TAATACCAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:66030843 original size:38 final size:38
Alignment explanation
Indices: 66030787--66030894 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
66030777 GGCATGAAGG
* * * *
66030787 CCCAAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
66030825 CCCGGATATAATACCAGCACGAAGCATACGGGATTTAA
1 CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
66030863 CCCAGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCAGATATAATACCAGCACGAAGCCTGCGGG
66030895 TCTTTAAGCC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:66040429 original size:43 final size:41
Alignment explanation
Indices: 66040367--66040535 Score: 198
Period size: 43 Copynumber: 4.0 Consensus size: 41
66040357 CAAATAAAGC
* * * *
66040367 TCATA-CAATGCC-ATATCCCAGATATAGTCTTACATGTTATC
1 TCATATCAATGCCAATGTCCCAGACATGGTCTTACATG-TA-A
* *
66040408 TCATATCAATGCCAATGTCCCAGACATGGTCTTACACGAAA
1 TCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAA
*
66040449 TCATATAACATGCCAATGTCCCAGACATGGTCTTACATGTAA
1 TCATATCA-ATGCCAATGTCCCAGACATGGTCTTACATGTAA
* *
66040491 TCATAGTACAATGCCAATGTCCTAGACATGTTCTTACATGTAA
1 TCATA-T-CAATGCCAATGTCCCAGACATGGTCTTACATGTAA
66040534 TC
1 TC
66040536 CCATCTCGGT
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 12 0.11
42 44 0.40
43 54 0.49
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (41 bp):
TCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAA
Found at i:66040462 original size:42 final size:41
Alignment explanation
Indices: 66040408--66040528 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 41
66040398 ACATGTTATC
66040408 TCATAT-CAATGCCAATGTCCCAGACATGGTCTTACACGAAA
1 TCATATAC-ATGCCAATGTCCCAGACATGGTCTTACACGAAA
* *
66040449 TCATATAACATGCCAATGTCCCAGACATGGTCTTACATGTAA
1 TCATAT-ACATGCCAATGTCCCAGACATGGTCTTACACGAAA
* *
66040491 TCATAGTACAATGCCAATGTCCTAGACATGTTCTTACA
1 TCATA-TAC-ATGCCAATGTCCCAGACATGGTCTTACA
66040529 TGTAATCCCA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
41 6 0.08
42 38 0.53
43 28 0.39
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (41 bp):
TCATATACATGCCAATGTCCCAGACATGGTCTTACACGAAA
Found at i:66040526 original size:85 final size:84
Alignment explanation
Indices: 66040374--66040528 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
66040364 AGCTCATACA
* *
66040374 ATGCCATATCCCAGATATAGTCTTACATGTTATCTCATATCAATGCCAATGTCCCAGACATGGTC
1 ATGCCATATCCCAGACATAGTCTTACATGTAATCTCATATCAATGCCAATGTCCCAGACATGGTC
66040439 TTACACGAAATCATATAAC
66 TTACACGAAATCATATAAC
* * *
66040458 ATGCCAATGTCCCAGACATGGTCTTACATGTAA--TCATAGTACAATGCCAATGTCCTAGACATG
1 ATGCC-ATATCCCAGACATAGTCTTACATGTAATCTCATA-T-CAATGCCAATGTCCCAGACATG
*
66040521 TTCTTACA
63 GTCTTACA
66040529 TGTAATCCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
83 5 0.08
84 6 0.10
85 51 0.82
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (84 bp):
ATGCCATATCCCAGACATAGTCTTACATGTAATCTCATATCAATGCCAATGTCCCAGACATGGTC
TTACACGAAATCATATAAC
Found at i:66046816 original size:47 final size:47
Alignment explanation
Indices: 66046753--66047115 Score: 629
Period size: 47 Copynumber: 7.7 Consensus size: 47
66046743 ATGATAGTAT
66046753 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
66046800 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
66046847 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
66046894 GGACTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
66046941 TG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
66046987 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
66047034 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
66047083 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
66047116 CCCGAAGGGC
Statistics
Matches: 304, Mismatches: 8, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
46 46 0.15
47 212 0.70
49 42 0.14
50 4 0.01
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:66047009 original size:140 final size:141
Alignment explanation
Indices: 66046756--66047115 Score: 641
Period size: 140 Copynumber: 2.5 Consensus size: 141
66046746 ATAGTATGGC
*
66046756 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66046821 AATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
66 AATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
66046886 TGTGATAAGGA
131 TGTGATAAGGA
*
66046897 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATG-CTAATGGCCGATGTGATG
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66046961 AATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
66 AATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
66047026 TGTGATAGGGC
131 TGTGATAAGGA
*
66047037 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGA
1 CTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGA
66047102 TGAATGTGATAAGT
64 TGAATGTGA-AAGT
66047116 CCCGAAGGGC
Statistics
Matches: 209, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
140 121 0.58
141 45 0.22
142 14 0.07
143 25 0.12
144 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (141 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGA
Found at i:66047071 original size:187 final size:189
Alignment explanation
Indices: 66046756--66047115 Score: 643
Period size: 187 Copynumber: 1.9 Consensus size: 189
66046746 ATAGTATGGC
66046756 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
*
66046821 AATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATAT
66 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATAT
66046885 ATGTGATAAGGACTAATGGCCGATGTGATGAATGTGA-AAGTGTATATATGTGATAATG
131 ATGTGATAAGGACTAATGGCCGATGTGATGAATGTGATAAGTGTATATATGTGATAATG
* *
66046943 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATG
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
*
66047008 AATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
66 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATA
* *
66047073 TATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGATAAGT
130 TATGTGATAAGGACTAATGGCCGATGTGATGAATGTGATAAGT
66047116 CCCGAAGGGC
Statistics
Matches: 164, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
187 120 0.73
189 40 0.24
190 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (189 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATAT
ATGTGATAAGGACTAATGGCCGATGTGATGAATGTGATAAGTGTATATATGTGATAATG
Found at i:66047289 original size:37 final size:37
Alignment explanation
Indices: 66047233--66047311 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
66047223 CCGAGGTCTA
* * *
66047233 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
66047270 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
66047307 AAGAC
1 AAGAC
66047312 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:66049211 original size:43 final size:43
Alignment explanation
Indices: 66049163--66049265 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
66049153 TTGGTTTTCA
66049163 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
*
66049206 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
66049249 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
66049266 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.25
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
Found at i:66049282 original size:29 final size:29
Alignment explanation
Indices: 66049247--66049320 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
66049237 GTTGTGAGAT
* *
66049247 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
66049276 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
66049305 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66049321 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:66049758 original size:40 final size:40
Alignment explanation
Indices: 66049631--66049946 Score: 307
Period size: 40 Copynumber: 7.9 Consensus size: 40
66049621 TCGAATGATG
** *
66049631 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
66049671 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
66049711 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
66049751 TCTGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
66049791 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
66049831 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * ** * *
66049871 TCCGTGCTAAACCCCAAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
66049911 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
66049947 CGTGTATTCG
Statistics
Matches: 230, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.00
40 210 0.91
41 19 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:66049767 original size:80 final size:80
Alignment explanation
Indices: 66049631--66049931 Score: 347
Period size: 80 Copynumber: 3.8 Consensus size: 80
66049621 TCGAATGATG
* ** * *
66049631 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
* * * *
66049693 TTGGTGCGAGTTACTAAA
64 TTCGTGCTAGTGA-TATA
* *
66049711 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCTGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
*
66049776 CATGCTAGTGATATA
66 CGTGCTAGTGATATA
*
66049791 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
66049856 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
* ** * * * * * * *
66049871 TCCGTGCTAAACCCCAAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAG
66049932 TAATCATGCT
Statistics
Matches: 191, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
80 166 0.87
81 19 0.10
82 6 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:66053414 original size:47 final size:48
Alignment explanation
Indices: 66053351--66053575 Score: 373
Period size: 49 Copynumber: 4.7 Consensus size: 48
66053341 ATGATAGTAT
66053351 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
*
66053398 GGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
* *
66053445 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
66053494 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
66053543 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
66053576 CCCGAAGGGC
Statistics
Matches: 170, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
47 77 0.45
49 89 0.52
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
Found at i:66053520 original size:96 final size:95
Alignment explanation
Indices: 66053351--66053575 Score: 371
Period size: 96 Copynumber: 2.3 Consensus size: 95
66053341 ATGATAGTAT
66053351 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
66053416 ATGAATGTGAAAGTG-TATATATGTGATAA
66 ATGAATGTGAAAGTGATATATATGTGATAA
* * *
66053445 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATG
*
66053510 TGATGAATGTGAAAGTGTATATATATGTGATAG
64 TGATGAATGTGAAAGTG-ATATATATGTGATAA
66053543 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
66053576 CCCGAAGGGC
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
94 32 0.26
96 45 0.37
98 40 0.33
99 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (95 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
ATGAATGTGAAAGTGATATATATGTGATAA
Found at i:66053749 original size:37 final size:37
Alignment explanation
Indices: 66053693--66053771 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
66053683 CCGAGCTCTA
* * * *
66053693 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
*
66053730 AAGACCCGATAACTTCGTGTGGAGATTATGCCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
66053767 AAGAC
1 AAGAC
66053772 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
Found at i:66072826 original size:40 final size:40
Alignment explanation
Indices: 66072732--66072876 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
66072722 TACTCGAATG
*
66072732 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
66072773 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* *
66072813 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
66072852 CATATCCGGGTTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGTCCCGAAGGC
66072877 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 2 0.02
40 61 0.66
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:66075377 original size:26 final size:26
Alignment explanation
Indices: 66075344--66075412 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
66075334 TCGTAGCAAC
66075344 GCTACCAGTAACAGTATCATAGAAAA
1 GCTACCAGTAACAGTATCATAGAAAA
* * *
66075370 GCTTCCAGTAACAGTATCGTAGCAAA
1 GCTACCAGTAACAGTATCATAGAAAA
66075396 GCTACCAGTAACAGTAT
1 GCTACCAGTAACAGTAT
66075413 ATGTGGCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (26 bp):
GCTACCAGTAACAGTATCATAGAAAA
Found at i:66075429 original size:27 final size:27
Alignment explanation
Indices: 66075374--66075455 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 27
66075364 AGAAAAGCTT
* * *
66075374 CCAGTAACAGTAT-CGTAGCAAAGCTA
1 CCAGTAACAGTATATGTGGCAAAGCCA
66075400 CCAGTAACAGTATATGTGGCAAAGCCA
1 CCAGTAACAGTATATGTGGCAAAGCCA
** * **
66075427 CCAAAAATAGTATATGTGGCGGAGCCA
1 CCAGTAACAGTATATGTGGCAAAGCCA
66075454 CC
1 CC
66075456 GGTATCATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 13 0.28
27 34 0.72
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAAAGCCA
Found at i:66078340 original size:27 final size:24
Alignment explanation
Indices: 66078310--66078358 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
66078300 AAAATTATTT
*
66078310 TCTGTGATTATTTTGTGTGAATTTATA
1 TCTGTGA-AATTTT-TGTG-ATTTATA
66078337 TCTGTGAAATTTTTGTGATTTA
1 TCTGTGAAATTTTTGTGATTTA
66078359 ATTTTGTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 4 0.19
26 5 0.24
27 7 0.33
ACGTcount: A:0.22, C:0.04, G:0.18, T:0.55
Consensus pattern (24 bp):
TCTGTGAAATTTTTGTGATTTATA
Found at i:66094167 original size:78 final size:80
Alignment explanation
Indices: 66094031--66094253 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 80
66094021 TTGAATGATG
* * * * * **
66094031 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGATTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
66094093 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* *
66094110 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
66094171 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
66094188 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
66094253 G
66 G
66094254 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
78 46 0.37
79 55 0.44
80 22 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:66094218 original size:40 final size:40
Alignment explanation
Indices: 66094031--66094253 Score: 253
Period size: 39 Copynumber: 5.7 Consensus size: 40
66094021 TTGAATGATG
* *
66094031 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
66094070 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66094110 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66094149 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
66094188 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66094229 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66094254 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 91 0.57
40 60 0.37
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66094275 original size:79 final size:78
Alignment explanation
Indices: 66094083--66094276 Score: 200
Period size: 79 Copynumber: 2.5 Consensus size: 78
66094073 GGATTAAGAT
** * * *
66094083 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCAAAGGCATTTGTGCGAGATACTA
*
66094147 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
** *
66094161 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCAAAGGCATTTGTGCGAGA-TACT
*
66094225 -ATAACCGGGCTATGTC
64 AAT-ACCGGGCTAAG-C
*
66094241 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
66094277 ATTCCGAAGG
Statistics
Matches: 101, Mismatches: 9, Indels: 11
0.83 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 37 0.37
79 38 0.38
80 25 0.25
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCAAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:66102099 original size:39 final size:40
Alignment explanation
Indices: 66102004--66102226 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
66101994 TTGAATGATG
*
66102004 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
66102042 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
66102083 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
66102122 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
66102161 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-GATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
66102200 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
66102227 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 94 0.57
40 58 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:66102190 original size:79 final size:82
Alignment explanation
Indices: 66102004--66102226 Score: 277
Period size: 79 Copynumber: 2.8 Consensus size: 82
66101994 TTGAATGATG
* * *
66102004 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGT-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
66102065 TTTGTGCGAGATACTAAT
65 TTTGTGCGAGATACTAAA
66102083 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
66102144 TTGTGCGAGTTACTAAA
66 TTGTGCGAGATACTAAA
* * * * *
66102161 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-GATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATATCCGGGCTAAGACCCGAAGGCAT
66102224 TTG
66 TTG
66102227 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
78 48 0.38
79 54 0.42
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGATACTAAA
Found at i:66102248 original size:79 final size:78
Alignment explanation
Indices: 66102056--66102249 Score: 209
Period size: 78 Copynumber: 2.5 Consensus size: 78
66102046 GGACTAAGAT
** * *
66102056 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTA
*
66102120 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
** *
66102134 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG-GATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGA-TACT
*
66102198 -ATAACCGGGCTATGTC
64 AAT-ACCGGGCTAAG-C
*
66102214 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
66102250 ATTCCGAGGG
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 38 0.37
79 38 0.37
80 25 0.25
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:66119009 original size:19 final size:21
Alignment explanation
Indices: 66118987--66119028 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
66118977 ATATTTTAAT
*
66118987 TTTTTATA-AAT-TCTGAAAA
1 TTTTTATATAATCTCTAAAAA
66119006 TTTTTATATAATCTCTAAAAA
1 TTTTTATATAATCTCTAAAAA
66119027 TT
1 TT
66119029 AATTAAGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTTTATATAATCTCTAAAAA
Found at i:66126485 original size:26 final size:26
Alignment explanation
Indices: 66126456--66126563 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
66126446 TGGTACAAAT
66126456 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
66126482 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
66126508 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
66126534 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
66126560 TGAT
1 TGAT
66126564 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:66126949 original size:4 final size:4
Alignment explanation
Indices: 66126940--66126982 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
66126930 CCAAACACAA
66126940 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
66126983 AACCTTGGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:66127063 original size:22 final size:22
Alignment explanation
Indices: 66127023--66127064 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
66127013 TGGCCACCCA
*
66127023 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
66127045 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
66127065 TCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:66127181 original size:20 final size:20
Alignment explanation
Indices: 66127139--66127206 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
66127129 GTTTTTGGTT
*
66127139 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TT-TT-TTTG
66127162 TTTTGGAGGAGGTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTG
*
66127182 TTTTTTGGAGG-TGTTTTTTTG
1 --TTTTGGAGGAGGTTTTTTTG
66127203 TTTT
1 TTTT
66127207 TTTTGGAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 4 0.10
20 4 0.10
21 11 0.27
22 11 0.27
23 11 0.27
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.59
Consensus pattern (20 bp):
TTTTGGAGGAGGTTTTTTTG
Found at i:66127193 original size:19 final size:21
Alignment explanation
Indices: 66127162--66127208 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
66127152 TTGTTCTTTG
*
66127162 TTTTGGAGGAGGTTTTTTTGTT
1 TTTTGGAGG-TGTTTTTTTGTT
66127184 TTTTGGAGGTGTTTTTTTGTT
1 TTTTGGAGGTGTTTTTTTGTT
66127205 TTTT
1 TTTT
66127209 TTGGAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.66
Consensus pattern (21 bp):
TTTTGGAGGTGTTTTTTTGTT
Found at i:66127209 original size:22 final size:22
Alignment explanation
Indices: 66127111--66127208 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
66127101 CATTCAAGAC
* * * *
66127111 TTTGTTTTTAGGGGGTGGGTTT
1 TTTGTTTTTTGGAGGAGGTTTT
* *
66127133 TTGGTTTTTTGGAGAAGGATTGTT
1 TTTGTTTTTTGGAGGAGG-TT-TT
66127157 CTTTG--TTTTGGAGGAGGTTTT
1 -TTTGTTTTTTGGAGGAGGTTTT
*
66127178 TTTGTTTTTTGGAGG-TGTTTT
1 TTTGTTTTTTGGAGGAGGTTTT
66127199 TTTGTTTTTT
1 TTTGTTTTTT
66127209 TTGGAAAGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.06
21 17 0.27
22 24 0.39
23 12 0.19
24 2 0.03
25 3 0.05
ACGTcount: A:0.08, C:0.01, G:0.32, T:0.59
Consensus pattern (22 bp):
TTTGTTTTTTGGAGGAGGTTTT
Found at i:66127546 original size:3 final size:3
Alignment explanation
Indices: 66127532--66127617 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
66127522 GAGCTTCATT
* *
66127532 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
66127576 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
66127618 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:66127570 original size:27 final size:27
Alignment explanation
Indices: 66127531--66127617 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
66127521 AGAGCTTCAT
66127531 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
66127558 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
66127583 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
66127609 -TTATATTAT
1 TTTATATTAT
66127618 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 9 0.19
27 13 0.27
28 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:66127592 original size:21 final size:18
Alignment explanation
Indices: 66127532--66127621 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
66127522 GAGCTTCATT
*
66127532 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
66127552 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
66127570 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
66127591 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
66127609 TTA-TATTATATAT
1 TTATTATT-TATAT
66127622 GCCCTCTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.43
19 9 0.15
20 10 0.16
21 12 0.20
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:66130663 original size:40 final size:40
Alignment explanation
Indices: 66130602--66130848 Score: 318
Period size: 40 Copynumber: 6.2 Consensus size: 40
66130592 CGGAATTTAG
* * * *
66130602 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * *
66130642 CCGGGT-ATAGCAACTCGCACAAATGCCTTCAGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
66130682 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
66130722 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
66130762 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
66130802 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
66130842 CCGGATA
1 CCGGATA
66130849 TCATTCAAAT
Statistics
Matches: 186, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 180 0.97
41 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:66138204 original size:40 final size:40
Alignment explanation
Indices: 66138143--66138389 Score: 300
Period size: 40 Copynumber: 6.2 Consensus size: 40
66138133 CGGAATTTAG
* * * *
66138143 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * *
66138183 CCGGGT-ATAGCAACTCGCACAAATGCCTTCAGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
66138223 CCGGAT-ATATCAACTCGGACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
66138263 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
66138303 CCGGATAAAATCACTAGCATAAATGCCTTCAGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
66138343 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
66138383 CCGGATA
1 CCGGATA
66138390 TCATTCAAAT
Statistics
Matches: 182, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 2 0.01
40 176 0.97
41 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:66138365 original size:120 final size:120
Alignment explanation
Indices: 66138130--66138389 Score: 337
Period size: 120 Copynumber: 2.2 Consensus size: 120
66138120 ACCCAAGTTT
* * * * * *
66138130 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAGC
* * * * *
66138194 AACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGGACAAATGC
66 AACTAGCACAAATGCCTTCAGGTCTTAACCCGGATAAATCAACTAGCACAAATGC
* * * *
66138249 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGAT-AAAG
*
66138314 C-ACTAGCATAAATGCCTTCAGGTCTTAACCCGGATAAAATC-ACTAGCACAAATGC
65 CAACTAGCACAAATGCCTTCAGGTCTTAACCCGGAT-AAATCAACTAGCACAAATGC
66138369 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
66138390 TCATTCAAAT
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
119 10 0.08
120 104 0.86
121 7 0.06
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAGC
AACTAGCACAAATGCCTTCAGGTCTTAACCCGGATAAATCAACTAGCACAAATGC
Found at i:66140711 original size:19 final size:19
Alignment explanation
Indices: 66140689--66140735 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
66140679 CTTCCTTTCT
66140689 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
66140708 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
66140727 TTTGCATTA
1 TTTGCATTA
66140736 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:66140905 original size:24 final size:23
Alignment explanation
Indices: 66140868--66140917 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
66140858 TAGAAAGGAT
* *
66140868 AGAACAAATGCAAAGGGAGATGCA
1 AGAACAAATACAAA-GCAGATGCA
*
66140892 AGAACAATTACAAAGCAGATGCA
1 AGAACAAATACAAAGCAGATGCA
66140915 AGA
1 AGA
66140918 GCAACTGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.52, C:0.14, G:0.24, T:0.10
Consensus pattern (23 bp):
AGAACAAATACAAAGCAGATGCA
Found at i:66143564 original size:10 final size:10
Alignment explanation
Indices: 66143539--66143575 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
66143529 GGCAAAGGCA
66143539 AAAAAAAAAC
1 AAAAAAAAAC
* *
66143549 ACAAAAACAC
1 AAAAAAAAAC
66143559 AAAAAAAAAC
1 AAAAAAAAAC
66143569 AAAAAAA
1 AAAAAAA
66143576 TTCTAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:66145095 original size:43 final size:43
Alignment explanation
Indices: 66144910--66146111 Score: 649
Period size: 43 Copynumber: 27.6 Consensus size: 43
66144900 ATTCACAAGC
* * * *
66144910 CTTAAGCCCCTAAGCAATAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * * *
66144955 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * * * *
66144999 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGTAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * *
66145041 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * **
66145084 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * * *
66145127 CTTTAACCTCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* * *
66145171 CTTAACCCCCTAAGTAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * *
66145216 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * * * *
66145259 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * *
66145301 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * **
66145344 CTGAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * *
66145387 CTTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* * *
66145430 CTTAACCCCTTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * * **
66145475 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* ** * *
66145517 CTTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGAT-GAAGAT
* * * *
66145560 CTTAAACCCCTAAGCAGTAGGGTAACTG-GCTGAA-ATTTATAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* ** * * **
66145604 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* ** * ** * *
66145647 CTTTAACCCCCTAAGCAATAGGGTAACAGGCCAAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGAT-GAAGAT
* * * *
66145691 CTTAACCCCCTAAGCAGTAAGGTAACAGGTTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGAT
* * * * **
66145736 CTTAACCCTCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* ** * *
66145779 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGAT-GAAGAT
* * *
66145823 CTTAAACCCCTAAGCAGTAGGGTAACTAGCT-GAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAAC-AGATCGAAGA-TGA-AGAT
* ** * * **
66145868 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGCG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* ** * *
66145911 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGAT-GAAGAT
* * * *
66145955 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * * * *
66146000 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* * * * * * **
66146043 CTTAACCCCTTAAGCAGTTGGGAAATAGATCAAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* *
66146087 CTTAAACCCCTAAGTAGTAGGGTAA
1 CTTAACCCCCTAAGCAGTAGGGTAA
66146112 TAGGCTGGAA
Statistics
Matches: 887, Mismatches: 210, Indels: 121
0.73 0.17 0.10
Matches are distributed among these distances:
41 1 0.00
42 80 0.09
43 361 0.41
44 294 0.33
45 148 0.17
46 3 0.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
Found at i:66145175 original size:87 final size:86
Alignment explanation
Indices: 66145084--66146111 Score: 524
Period size: 87 Copynumber: 11.8 Consensus size: 86
66145074 AGATGAAGAT
*
66145084 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACC-CCTAAGCAGTAGG
66145149 GTAACAAGCCAAATTTACAAGC
65 GTAACAAGCCAAATTTACAAGC
* * * ** *
66145171 CTTAACCCCCTAAGTAGTAGGGTAACAG-GCTGAAGAT-TTACAGATCTTAACCCCTAAGCAGTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGAT-GGGCT-TTAACCCCTAAGCAGTA
* * * * *
66145234 GGGAAAC-AGATCGAA--GACGAAGGGT
63 GGGTAACAAG-CCAAATTTAC-AA--GC
* * * * * ** *
66145259 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCA-GATC-TTATCTCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATG-ATGGGCTTTAAC-CCCTAAGCAGTAG
* * * * *
66145321 GGAAACAGATCGAAGA--T-GAAGAT
64 GGTAACA-AGCCAA-ATTTACAAG-C
* *
66145344 CTGAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACCCCTAAGCAGTAGGG
66145409 TAACAAGCCAAATTTACAAGC
66 TAACAAGCCAAATTTACAAGC
* * * ** *
66145430 CTTAACCCCTTAAGCAGTAGGGTAACAG-GCTGAAGAT-TTACAGATCTTAACCCCTAAGCAGTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGAT-GGGCT-TTAACCCCTAAGCAGTA
* * * * ***
66145493 GGGAAAC-AGATCAAAGATGATGGGC
63 GGGTAACAAG-CCAAA-TTTACAAGC
* * * * ** * *
66145518 TTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAGCCTTAAACCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGA-TGGGCTTTAACCCCTAAGCAGTAG
** * * *
66145580 GGTAACTGGCTGAAATTTA-TAGAT
64 GGTAACAAGC-CAAATTTACAAG-C
* ** * *
66145604 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAATAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAA-CCCCTAAGCAGTAGG
*
66145669 GTAACAGGCCAAATTTACAAGC
65 GTAACAAGCCAAATTTACAAGC
* * * * ** *
66145691 CTTAACCCCCTAAGCAGTAAGGTAACAGGTTGAAGAT-TTACAGATCTTAACCCTCTAAGCAGTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAT-GGGCT-TTAACCC-CTAAGCAGTA
* * * * ***
66145755 GGGAAAC-AGATCAAAGATGATGGGC
63 GGGTAACAAG-CCAAA-TTTACAAGC
* * * * ** * *
66145780 TTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAGCCTTAAACCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGA-TGGGCTTTAACCCCTAAGCAGTAG
* * *
66145843 GGTAACTAGCTGAAGATTTAC-AGAT
64 GGTAACAAGC-CAA-ATTTACAAG-C
* ** * *
66145868 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGCGCTTTAACCCCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAA-CCCCTAAGCAGTAGG
*
66145933 GTAACAAGCCGAATTTACAAGC
65 GTAACAAGCCAAATTTACAAGC
* * * **** *
66145955 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGAT-TTACAAATCTTAACCCCCTAACCAGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGAT-GGGCT-TTAA-CCCCTAAGCAGT
* *** *
66146018 AGGGTAACAGGTTGAATTTAC-AGAT
62 AGGGTAACAAGCCAAATTTACAAG-C
* * * * * * *
66146043 CTTAACCCCTTAAGCAGTTGGGAAATAGATCAAAGATGATGGGCCTTAAACCCCTAAGTAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGG-CTTTAACCCCTAAGCAGTAGG
66146108 GTAA
65 GTAA
66146112 TAGGCTGGAA
Statistics
Matches: 698, Mismatches: 182, Indels: 122
0.70 0.18 0.12
Matches are distributed among these distances:
84 2 0.00
85 43 0.06
86 117 0.17
87 264 0.38
88 208 0.30
89 64 0.09
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (86 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACCCCTAAGCAGTAGGG
TAACAAGCCAAATTTACAAGC
Found at i:66145787 original size:132 final size:132
Alignment explanation
Indices: 66144898--66146027 Score: 1526
Period size: 132 Copynumber: 8.6 Consensus size: 132
66144888 TAGAATCAGT
* * *
66144898 GAATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * * * *
66144963 CCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
66145026 GACC
130 G-CC
* * * * * * *
66145030 GAATTGTA-GA-TCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATT-TACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
* *
66145090 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGGGTAACA
64 CCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
66145155 AGCC
129 AGCC
* *
66145159 AAATTTACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAA-CC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * * *
66145223 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
66145286 GACC
130 G-CC
* * * * * * * *
66145290 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTGAAC
1 GAATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
*
66145350 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACA
64 CCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
66145414 AGCC
129 AGCC
* *
66145418 AAATTTACAAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAA-CC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
66145482 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66145546 CC
131 CC
* * *
66145548 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAA-ATTTATAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * *
66145612 CCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAATAGGGTAACAGG
66 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66145677 CC
131 CC
* * *
66145679 AAATTTACAAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGTTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
*
66145744 TCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66145809 CC
131 CC
*
66145811 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTA-GCTGAAGATTTACAGATCTTAACC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAAC-AGGCTGAAGATTTACAGATCTTAACC
* * *
66145875 CCCTAAGCAGTAGGGAAACAGATAAAAAATGATGCGCTTTAACCCCCTAAGCAGTAGGGTAACAA
65 CCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
66145940 GCC
130 GCC
* *
66145943 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
66146008 CCTAACCAGTAGGGTAACAG
66 CCTAAGCAGTAGGGAAACAG
66146028 GTTGAATTTA
Statistics
Matches: 884, Mismatches: 88, Indels: 52
0.86 0.09 0.05
Matches are distributed among these distances:
128 32 0.04
129 164 0.19
130 226 0.26
131 164 0.19
132 296 0.33
133 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (132 bp):
GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
CC
Found at i:66146249 original size:68 final size:69
Alignment explanation
Indices: 66146132--66146330 Score: 287
Period size: 68 Copynumber: 2.9 Consensus size: 69
66146122 ATTACAAATT
* *
66146132 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGA
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGA
**
66146196 -GGA
66 CAAA
*
66146199 TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCA-A
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGA
66146263 CAAA
66 CAAA
* * ** *
66146267 CCTCTTCTTCCAAAAATGGCATTGGAGAGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
66146331 TGGAAGAAGA
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
67 7 0.06
68 111 0.94
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (69 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGA
CAAA
Found at i:66146445 original size:44 final size:44
Alignment explanation
Indices: 66146397--66147257 Score: 701
Period size: 44 Copynumber: 19.6 Consensus size: 44
66146387 GATTTCAGCA
* *
66146397 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * *
66146441 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * * * *
66146485 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATATCAG-ATT
*
66146529 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * *
66146573 TGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATATCAGATT
* * * * * * *
66146617 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATATCAG-ATT
*
66146661 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* *
66146705 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * * * * *
66146749 TGTCATCCCGGTGCTTATAGAGAACAAATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * * * *
66146793 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATATCAG-ATT
*
66146837 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* *
66146881 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * * * * *
66146925 TGTCATCCCGGTGCTTATAGAGAACAAATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * * * *
66146969 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATATCAG-ATT
*
66147013 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* *
66147057 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
* * * * *
66147101 TGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATATCAGATT
* * * * ** * * *
66147145 TGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATATCAG-ATT
* * * *
66147189 TGACATACCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
*
66147233 TGGCATCCCTGTGCTTACAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
66147258 GGATCGAAGA
Statistics
Matches: 650, Mismatches: 137, Indels: 60
0.77 0.16 0.07
Matches are distributed among these distances:
42 5 0.01
43 34 0.05
44 568 0.87
45 38 0.06
46 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATATCAGATT
Found at i:66146611 original size:132 final size:132
Alignment explanation
Indices: 66146374--66147313 Score: 974
Period size: 132 Copynumber: 7.1 Consensus size: 132
66146364 AAGTTGCAGA
66146374 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
1 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
**
66146439 TTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
66 TTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
66146504 GT
131 GT
*
66146506 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
1 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66146571 TTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
66 TTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
66146636 GT
131 GT
*
66146638 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
1 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
* * * * * * * * * *
66146703 TTTGGCATCCCTGTGCTTATAGGGAAC-AAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTAT
66 TTTGGCATCCCTGTGCTTATAGGGAACGGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTAC
*
66146767 AGA
130 AGT
* * ** * * * * * * ***
66146770 GAA-CAAATCGAAGATAGCAG-ATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTT
1 GAAGCAGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACAG
* * * * * * * *
66146832 CAGCA--TGGCATCCCTGTGCTTATAGGGAAC-AAGTTGAAAACATCAGATTTGGCATCCCTGTG
62 CAG-ATTTGGCATCCCTGTGCTTATAGGGAACGGA-TCGAAGATAGCAGATCTGACATTCCTGTG
* *
66146894 CTTATAGG
125 CTTACAGT
* * *** * * * * * * *
66146902 GAA-CAAGTTGAAA-ACAACAG-ATTTGTCATCCCGGTGCTTATAGAGAACAAATCGAAGATAGC
1 GAAGC-AGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGC
* * * * * * * ** * *
66146964 AGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG--CATGGCATCCCTGTGC
63 AGATTTGGCATCCCTGTGCTTATAGGGAA-CGGATCGAAGATAGCAGATC-TGACATTCCTGTGC
* *
66147027 TTATAGG
126 TTACAGT
* * ** *
66147034 GAA-CAAGTTGAAA-ACATCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAAC
1 GAAGC-AGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGC
66147096 AGATTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
63 AGATTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
66147161 ACAGT
128 ACAGT
* * * *
66147166 GAAGTAGATCGAAGATTTCAGCATGACATACCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
1 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
* *
66147231 TTTGGCATCCCTGTGCTTACAGGGAACGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACA
66 TTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
66147296 GT
131 GT
66147298 GAAGCAGATCAAAGAT
1 GAAGCAGATCAAAGAT
66147314 AGCGGATATC
Statistics
Matches: 695, Mismatches: 95, Indels: 36
0.84 0.12 0.04
Matches are distributed among these distances:
130 2 0.00
131 33 0.05
132 632 0.91
133 25 0.04
134 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (132 bp):
GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
GT
Found at i:66147345 original size:176 final size:176
Alignment explanation
Indices: 66146529--66147257 Score: 1305
Period size: 176 Copynumber: 4.1 Consensus size: 176
66146519 GATTTCAGCA
* * * *
66146529 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGA
**
66146594 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66146659 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
66146705 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGA
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGA
66146770 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66146835 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
66146881 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGA
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGA
66146946 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66147011 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * *
66147057 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGA
** * *
66147122 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
* * *
66147187 CATGACATACCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
*
66147233 TGGCATCCCTGTGCTTACAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
66147258 GGATCGAAGA
Statistics
Matches: 536, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 536 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (176 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGA
GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:66147602 original size:4 final size:4
Alignment explanation
Indices: 66147595--66147629 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
66147585 CCTAAACACA
66147595 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
66147630 AACCTTGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:66147812 original size:24 final size:24
Alignment explanation
Indices: 66147783--66147880 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 24
66147773 TGGGTTTTTG
66147783 GTTTTTTGGAGAAGGATTGTTCTTT
1 GTTTTTTGGAGAAGG-TTGTTCTTT
* * *
66147808 G--TTTTGGAGGAGGTTTTTTTTT
1 GTTTTTTGGAGAAGGTTGTTCTTT
66147830 GTTTTTTGGAG--GTGTT-TT-TTT
1 GTTTTTTGGAGAAG-GTTGTTCTTT
*
66147851 GTTTTTTTGGAAAGAAGGTTATT-TTT
1 G-TTTTTTGG--AGAAGGTTGTTCTTT
66147877 GTTT
1 GTTT
66147881 CCTGGAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
21 4 0.07
22 19 0.31
23 14 0.23
24 10 0.16
25 7 0.11
26 7 0.11
ACGTcount: A:0.13, C:0.01, G:0.28, T:0.58
Consensus pattern (24 bp):
GTTTTTTGGAGAAGGTTGTTCTTT
Found at i:66147835 original size:23 final size:23
Alignment explanation
Indices: 66147785--66147861 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
66147775 GGTTTTTGGT
* * *
66147785 TTTTTGGAGAAGGATTGTTCTTTG
1 TTTTTGGAGGAGG-TTTTTTTTTG
66147809 -TTTTGGAGGAGGTTTTTTTTTG
1 TTTTTGGAGGAGGTTTTTTTTTG
*
66147831 TTTTTTGGAGG-TGTTTTTTTGTT-
1 -TTTTTGGAGGAGGTTTTTTT-TTG
66147854 TTTTTGGA
1 TTTTTGGA
66147862 AAGAAGGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 16 0.35
23 19 0.41
24 11 0.24
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (23 bp):
TTTTTGGAGGAGGTTTTTTTTTG
Found at i:66147861 original size:22 final size:21
Alignment explanation
Indices: 66147816--66147857 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
66147806 TTGTTTTGGA
*
66147816 GGAGGTTTTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTGTTTTTT
66147837 GGAGGTGTTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTGTTTTTT
66147858 TGGAAAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.69
Consensus pattern (21 bp):
GGAGGTGTTTTTTTGTTTTTT
Found at i:66148203 original size:3 final size:3
Alignment explanation
Indices: 66148189--66148274 Score: 56
Period size: 3 Copynumber: 28.3 Consensus size: 3
66148179 GAGCTTCGTT
* *
66148189 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
66148233 TT- TCTCA TGTA TAAA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
66148275 ATATGCCCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
2 7 0.11
3 51 0.77
4 6 0.09
5 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:66155672 original size:83 final size:83
Alignment explanation
Indices: 66155528--66155693 Score: 260
Period size: 83 Copynumber: 2.0 Consensus size: 83
66155518 CGTAAAACAT
* * * *
66155528 GATGTTACAAATATATTTTTGATGCTTGAATTATACATAGATTGTATATATAATTTATTATGGTT
1 GATGCTACAAATATATTTTTGATGCTTCAATTATACATAGATCGTATATATAATTGATTATGGTT
66155593 GAAAACGATGATAAATCA
66 GAAAACGATGATAAATCA
* *
66155611 GATGCTACAAATATGTTTTTGATGCTTCAATTTTACATAGATCGTATATATAATTGATTATGGTT
1 GATGCTACAAATATATTTTTGATGCTTCAATTATACATAGATCGTATATATAATTGATTATGGTT
* *
66155676 GAATATGATGATAAATCA
66 GAAAACGATGATAAATCA
66155694 AGTGTATTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (83 bp):
GATGCTACAAATATATTTTTGATGCTTCAATTATACATAGATCGTATATATAATTGATTATGGTT
GAAAACGATGATAAATCA
Found at i:66165101 original size:127 final size:125
Alignment explanation
Indices: 66164898--66165180 Score: 372
Period size: 127 Copynumber: 2.2 Consensus size: 125
66164888 GTTTGGGAAC
* *
66164898 TCGAGGAATCGTGCCCTACCGTGCTGGGTTTTGATTTTTCGTTTGACCAAATAATCAAATATTCC
1 TCGAGGAATCGTGCCCTA-CGTGCTGGGTTTCGATTTTCCGTTTGACCAAATAATCAAATATTCC
* *
66164963 TTTGAAATTTCATTCGTACTTTCTAAATTCTAAAACAAGGCAATGTTCAATGTTAGGAAAT
65 TTTGAAATTTCACTCGTACTTTATAAATTCTAAAACAAGGCAATGTTCAATGTTAGGAAAT
* **
66165024 TCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA-TTTCCGGTTT-ATTCCAAATAATTGAATAT
1 TCGAGGAATCGTGCCCTA-CGTGCTGGGTTTCGATTTTCC-GTTTGA--CCAAATAATCAAATAT
** ** * *
66165087 TCCTTTGGTATTTCACTCGTGTTTTATAAATTCTAAAACAATGCAATGTTCAATGTTTGGAAAT
62 TCCTTTGAAATTTCACTCGTACTTTATAAATTCTAAAACAAGGCAATGTTCAATGTTAGGAAAT
* *
66165151 TCGAGAAATCGTGCCCTACATGCTGGGTTT
1 TCGAGGAATCGTGCCCTACGTGCTGGGTTT
66165181 TGTTTTTTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
125 5 0.04
126 46 0.34
127 86 0.63
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (125 bp):
TCGAGGAATCGTGCCCTACGTGCTGGGTTTCGATTTTCCGTTTGACCAAATAATCAAATATTCCT
TTGAAATTTCACTCGTACTTTATAAATTCTAAAACAAGGCAATGTTCAATGTTAGGAAAT
Found at i:66166874 original size:25 final size:25
Alignment explanation
Indices: 66166846--66166918 Score: 128
Period size: 25 Copynumber: 2.9 Consensus size: 25
66166836 CCTCTTTTAA
66166846 TAACTGGGGCAAAGCCCTTTTTGGT
1 TAACTGGGGCAAAGCCCTTTTTGGT
*
66166871 TAACTGGGGCAAAGCCCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTGGT
*
66166896 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
66166919 CACTTCCTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGGT
Found at i:66166975 original size:22 final size:22
Alignment explanation
Indices: 66166950--66167032 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
66166940 ACCCAACCCA
*
66166950 TGCATATAATGAGTATATCATG
1 TGCATATCATGAGTATATCATG
* *
66166972 TGCATCTCATGCGTATATCATG
1 TGCATATCATGAGTATATCATG
*
66166994 TGCATATCATGTA-CATATCATG
1 TGCATATCATG-AGTATATCATG
66167016 T-CATATCAT--GTATATCA
1 TGCATATCATGAGTATATCA
66167033 AAATCTCATG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.12
21 8 0.15
22 38 0.73
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (22 bp):
TGCATATCATGAGTATATCATG
Found at i:66166981 original size:11 final size:11
Alignment explanation
Indices: 66166950--66167026 Score: 84
Period size: 11 Copynumber: 7.1 Consensus size: 11
66166940 ACCCAACCCA
*
66166950 TGCATATAATG
1 TGCATATCATG
* *
66166961 AGTATATCATG
1 TGCATATCATG
*
66166972 TGCATCTCATG
1 TGCATATCATG
* *
66166983 CGTATATCATG
1 TGCATATCATG
66166994 TGCATATCATG
1 TGCATATCATG
*
66167005 TACATATCATG
1 TGCATATCATG
66167016 T-CATATCATG
1 TGCATATCATG
66167026 T
1 T
66167027 ATATCAAAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
10 10 0.19
11 44 0.81
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (11 bp):
TGCATATCATG
Found at i:66168910 original size:20 final size:20
Alignment explanation
Indices: 66168887--66168925 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66168877 CAAAACCAAA
* *
66168887 TACCAAATTTTTAAAAATTT
1 TACCAAATTCTCAAAAATTT
66168907 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
66168926 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:66174907 original size:24 final size:25
Alignment explanation
Indices: 66174861--66174959 Score: 87
Period size: 25 Copynumber: 4.0 Consensus size: 25
66174851 GCTTTATCAT
** *
66174861 ATAACTGGAGGCCTAGCCTCTTTT-A
1 ATAACTGG-GGCAAAGCCCCTTTTGA
66174886 ATAACTGGGGCAAAGCCCCTTTTGA
1 ATAACTGGGGCAAAGCCCCTTTTGA
*
66174911 TTAACTGGGGCAAAG-CCCTTTTCG-
1 ATAACTGGGGCAAAGCCCCTTTT-GA
* * *
66174935 GTAAACTAGGGCAAAGCCCTTTTTG
1 AT-AACTGGGGCAAAGCCCCTTTTG
66174960 CACTTCCTCC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
24 20 0.32
25 37 0.59
26 6 0.10
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
ATAACTGGGGCAAAGCCCCTTTTGA
Found at i:66174915 original size:25 final size:25
Alignment explanation
Indices: 66174887--66174959 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
66174877 CCTCTTTTAA
66174887 TAACTGGGGCAAAGCCCCTTTTGAT
1 TAACTGGGGCAAAGCCCCTTTTGAT
*
66174912 TAACTGGGGCAAAG-CCCTTTTCGGT
1 TAACTGGGGCAAAGCCCCTTTT-GAT
* * *
66174937 AAACTAGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCCTTTTG
66174960 CACTTCCTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.17
25 29 0.69
26 6 0.14
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCCTTTTGAT
Found at i:66175033 original size:10 final size:10
Alignment explanation
Indices: 66175005--66175042 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
66174995 TATAATGCGT
66175005 ATATCATGTGC
1 ATATCATGT-C
*
66175016 ATACCATGTC
1 ATATCATGTC
66175026 ATATCATGTC
1 ATATCATGTC
66175036 ATATCAT
1 ATATCAT
66175043 TTATATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:66176902 original size:20 final size:20
Alignment explanation
Indices: 66176879--66176917 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66176869 TACAACCAAA
* *
66176879 TACCAAATTTTTAAAAATTT
1 TACCAAATTCTCAAAAATTT
66176899 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
66176918 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:66187998 original size:135 final size:135
Alignment explanation
Indices: 66187778--66188338 Score: 754
Period size: 135 Copynumber: 4.2 Consensus size: 135
66187768 CATAGCAAAT
* * * * *
66187778 CTTATCTCTCT-AACGTTGCAGTAGAGTAGGTTGAAA-TA-GCAAGTCTCATCTCCCTAAAGTTA
1 CTTATCTCTCTGAA-GTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTG
* * * * *
66187840 CAGTGGAGTAGA-TGGAAGATAGCAGATCTTGTCCCCCTGAAGTTGCAGTGGAGCAGATCAAAGC
65 CAGTGGAGCAGACT-GAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGT
*
66187904 CACAATC
129 AACAATC
* *
66187911 CTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
* * * * * *
66187976 AGTGGAGCGGACTAAAGTTAGCAGATCTTATCTCCCTGGAGTTGCAGTAGAGCATATCGAAGTAA
66 AGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGTAA
66188041 CAATC
131 CAATC
*
66188046 CTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
* * *
66188111 AGTAGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATCAAAGTAA
66 AGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGTAA
66188176 CAATC
131 CAATC
** *
66188181 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTTTCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
* * * *
66188246 AGTGGAGCAGACTGAAGTTAGTAGATCTTATCTCCCTGAAGTTGCAATGGAGCAGAACGAAGTTA
66 AGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAG-TA
**
66188311 GTAGATC
130 ACA-ATC
*
66188318 C-TATCTCCCTGAAGTTGCAGT
1 CTTATCTCTCTGAAGTTGCAGT
66188339 GGAGTAGAAC
Statistics
Matches: 377, Mismatches: 45, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
133 29 0.08
134 4 0.01
135 317 0.84
136 23 0.06
137 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (135 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
AGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGTAA
CAATC
Done.