Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 99 of 205
Found at i:29056964 original size:24 final size:24
Alignment explanation
Indices: 29056925--29057022 Score: 88
Period size: 24 Copynumber: 3.9 Consensus size: 24
29056915 TTAGTTTATC
* * *
29056925 TAATATAAATTCACCATAATCAAT
1 TAATATATATTAACCATAATTAAT
*
29056949 TAATATATATTAACCATAATTAGT
1 TAATATATATTAACCATAATTAAT
* *
29056973 TCACATAATATAATTAATCATAATTACT
1 T-A-AT-ATAT-ATTAACCATAATTAAT
* *
29057001 TAATATATATTTACTATAATTA
1 TAATATATATTAACCATAATTA
29057023 GTTTACATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
24 32 0.52
25 5 0.08
26 4 0.07
27 5 0.08
28 15 0.25
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (24 bp):
TAATATATATTAACCATAATTAAT
Found at i:29056994 original size:28 final size:27
Alignment explanation
Indices: 29056949--29057031 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 27
29056939 CATAATCAAT
*
29056949 TAATATATATTAACCATAATTAGTTCACA
1 TAATATA-ATTAATCATAATTAGTT-ACA
*
29056978 TAATATAATTAATCATAATTACTTA-A
1 TAATATAATTAATCATAATTAGTTACA
* *
29057004 T-ATATATTTACT-ATAATTAGTTTACA
1 TAATATAATTAATCATAATTAG-TTACA
29057030 TA
1 TA
29057032 TTTACAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
24 7 0.15
25 12 0.26
26 4 0.09
27 1 0.02
28 15 0.33
29 7 0.15
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (27 bp):
TAATATAATTAATCATAATTAGTTACA
Found at i:29057020 original size:52 final size:53
Alignment explanation
Indices: 29056888--29057031 Score: 168
Period size: 52 Copynumber: 2.7 Consensus size: 53
29056878 AGTAAACAAT
* * *
29056888 TAATTACTTGATACAGT-TTTACCATAATTAGTTTATC-TAATATAAATTCACCA
1 TAATTACTTAATATA-TATTTACCATAATTAGTTTA-CATAATATAAATTAACCA
* * * * *
29056941 TAATCAATTAATATATATTAACCATAATTAGTTCACATAATAT-AATTAATCA
1 TAATTACTTAATATATATTTACCATAATTAGTTTACATAATATAAATTAACCA
*
29056993 TAATTACTTAATATATATTTACTATAATTAGTTTACATA
1 TAATTACTTAATATATATTTACCATAATTAGTTTACATA
29057032 TTTACAATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 43 0.57
53 33 0.43
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (53 bp):
TAATTACTTAATATATATTTACCATAATTAGTTTACATAATATAAATTAACCA
Found at i:29057032 original size:24 final size:24
Alignment explanation
Indices: 29056948--29057032 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
29056938 CCATAATCAA
* * *
29056948 TTAATATATATTAACCATAATTAG
1 TTAACATATATTTACTATAATTAG
* * *
29056972 TTCACATAATATAATTAATCATAATTAC
1 TTAACAT-ATAT--TTACT-ATAATTAG
*
29057000 TTAATATATATTTACTATAATTAG
1 TTAACATATATTTACTATAATTAG
*
29057024 TTTACATAT
1 TTAACATAT
29057033 TTACAATAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
24 19 0.42
25 8 0.18
27 6 0.13
28 12 0.27
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAACATATATTTACTATAATTAG
Found at i:29062431 original size:22 final size:22
Alignment explanation
Indices: 29062387--29062445 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
29062377 ATGAATGTTG
*
29062387 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
29062411 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
29062433 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
29062446 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:29067477 original size:10 final size:10
Alignment explanation
Indices: 29067462--29067519 Score: 64
Period size: 10 Copynumber: 5.6 Consensus size: 10
29067452 CAGATCCAAT
29067462 TCAAAAAAAA
1 TCAAAAAAAA
29067472 TCAAAAAAAA
1 TCAAAAAAAA
29067482 T-AAAAAAAA
1 TCAAAAAAAA
*
29067491 ACAAAAAAGAA
1 TCAAAAAA-AA
*
29067502 TAAAAAGAAAAA
1 T-CAAA-AAAAA
29067514 TCAAAA
1 TCAAAA
29067520 TCAAGGTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.20
10 18 0.45
11 5 0.12
12 6 0.15
13 3 0.08
ACGTcount: A:0.81, C:0.07, G:0.03, T:0.09
Consensus pattern (10 bp):
TCAAAAAAAA
Found at i:29067488 original size:19 final size:20
Alignment explanation
Indices: 29067464--29067512 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
29067454 GATCCAATTC
*
29067464 AAAAAAAATCAAAAAA-AAT
1 AAAAAAAAACAAAAAAGAAT
29067483 AAAAAAAAACAAAAAAGAAT
1 AAAAAAAAACAAAAAAGAAT
29067503 AAAAAGAAAA
1 AAAAA-AAAA
29067513 ATCAAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.56
20 8 0.30
21 4 0.15
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAGAAT
Found at i:29067489 original size:20 final size:22
Alignment explanation
Indices: 29067464--29067519 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 22
29067454 GATCCAATTC
29067464 AAAAAAAATCAAAAAA-AAT-A
1 AAAAAAAATCAAAAAAGAATAA
29067484 AAAAAAAA-CAAAAAAGAATAA
1 AAAAAAAATCAAAAAAGAATAA
29067505 AAAGAAAAATCAAAA
1 AAA-AAAAATCAAAA
29067520 TCAAGGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.22
20 11 0.34
21 4 0.12
22 5 0.16
23 5 0.16
ACGTcount: A:0.84, C:0.05, G:0.04, T:0.07
Consensus pattern (22 bp):
AAAAAAAATCAAAAAAGAATAA
Found at i:29070100 original size:131 final size:131
Alignment explanation
Indices: 29069950--29070452 Score: 701
Period size: 131 Copynumber: 3.9 Consensus size: 131
29069940 TTGAAGATTT
* * *
29069950 GAAACTACAGATCTTATCTCCCTAAGTAATAGTGGAGCAAATCGAAGACGACGAATCTTATCTTC
1 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGATGAATCTTATCTTC
*
29070015 CCCAGGAGTAGGGAAACATATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAGGGGAATAGGTT
66 CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAGGGGAATAGGTT
*
29070080 A
131 G
*
29070081 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGAC-AGTGAATCTTATCTT
1 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGA-TGAATCTTATCTT
* *
29070145 CCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAAGAGAATAGGT
65 CCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAGGGGAATAGGT
29070210 TG
130 TG
* * *
29070212 GAAGCTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTC
1 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGATGAATCTTATCTTC
* * * * *
29070277 CCGAAGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTG-GTCAGCAGTGGAGTAGGT
66 CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAG-CAGCAGGGGAATAGGT
29070341 TG
130 TG
* * * * *
29070343 GAAATTACAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTT-
1 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGATGAATCTTATCTTC
* * * * * * *
29070407 --CAAGTGTAAGGAAGCAGATTTAAGCCAAAAATCTTATTTCCCTGAG
66 CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAG
29070453 GTTGCAGTGG
Statistics
Matches: 335, Mismatches: 33, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
128 36 0.11
129 1 0.00
130 2 0.01
131 296 0.88
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (131 bp):
GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGATGAATCTTATCTTC
CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAGGGGAATAGGTT
G
Found at i:29070679 original size:50 final size:50
Alignment explanation
Indices: 29070625--29070794 Score: 180
Period size: 50 Copynumber: 3.4 Consensus size: 50
29070615 TCCCCAGCGA
* * *
29070625 TGCAGTGGAACATATTAAAACCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
** * * * * ** * **
29070675 TGCAGTTAAAAAGATTAAAGCTACAACAGTGAATCTTACTT-TTCAAGCGG
1 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA-CAT
29070725 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
**
29070775 TGCAGTTAAACAGATTAAAG
1 TGCAGTGGAACAGATTAAAG
29070795 TTACGAGTTA
Statistics
Matches: 91, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
49 2 0.02
50 87 0.96
51 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (50 bp):
TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
Found at i:29072309 original size:22 final size:22
Alignment explanation
Indices: 29072265--29072323 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
29072255 ATGAATGTTG
*
29072265 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
29072289 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
29072311 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
29072324 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:29085709 original size:15 final size:15
Alignment explanation
Indices: 29085666--29085709 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
29085656 TTCTATTCAG
*
29085666 TATTAAAACTTTTTT
1 TATTAAAGCTTTTTT
*
29085681 TATT--AGCTCTTTT
1 TATTAAAGCTTTTTT
29085694 TATTAAAGCTTTTTT
1 TATTAAAGCTTTTTT
29085709 T
1 T
29085710 TTTCAAGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (15 bp):
TATTAAAGCTTTTTT
Found at i:29089458 original size:11 final size:11
Alignment explanation
Indices: 29089442--29089471 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
29089432 CTAAATGATA
*
29089442 TTTTAATTTGG
1 TTTTAATTCGG
29089453 TTTTAATTCGG
1 TTTTAATTCGG
29089464 TTTTAATT
1 TTTTAATT
29089472 ACCTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (11 bp):
TTTTAATTCGG
Found at i:29091694 original size:8 final size:8
Alignment explanation
Indices: 29091681--29091712 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
29091671 CAATTAGTAT
29091681 CATTTAAC
1 CATTTAAC
29091689 CATTTAAC
1 CATTTAAC
29091697 CATTTAAC
1 CATTTAAC
29091705 CATTTAAC
1 CATTTAAC
29091713 TTTCATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (8 bp):
CATTTAAC
Found at i:29092146 original size:16 final size:17
Alignment explanation
Indices: 29092125--29092158 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
29092115 GCATACAAGC
29092125 ATACATATAATTC-CAT
1 ATACATATAATTCACAT
29092141 ATACATATAATTCACAT
1 ATACATATAATTCACAT
29092158 A
1 A
29092159 ATTCATTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
ATACATATAATTCACAT
Found at i:29093343 original size:258 final size:260
Alignment explanation
Indices: 29092884--29093403 Score: 839
Period size: 258 Copynumber: 2.0 Consensus size: 260
29092874 AAACCATAAA
*
29092884 TAATTAAAAATTATAAACCAAAACCAATAGAGACTGATTAATACTTATTAAAAATAGTCCGAGGT
1 TAATTAAAAATTATAAACCAAAACCAATAGAGACTGATTAATACTTATTAAAAATAGTCCGAAGT
* * * * *
29092949 CAAAGGTGATTCTCCGTATGTCGAGTCTGGCCCTAGTTTCGAGCTTTACTTGTAAAGTTAAACAC
66 CAAAGGTAATTCTCCGTATGTCGAGTCCGGCCCTAGTTTCAAGCTTTACCTGAAAAGTTAAACAC
* *
29093014 TATGGGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCGAACATTTATTTAAACACCCATAAATAGA
131 TATGGGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCAAACAATTATTTAAACACCCATAAATAGA
* *
29093079 AAATATAGTTAAGCATATTACCGTTAACAAAAGAACACAGACCCATCATTGGAATTTCATATCAT
196 AAATATAGTGAAGCATATTACCATTAACAAAAGAACACAGACCCATCATTGGAATTTCATATCAT
*
29093144 TAATTAAAAATTATAAACCAAAACCAATAGAGATTGATTAATACTT-TTAAAAATAGTCCGAAGT
1 TAATTAAAAATTATAAACCAAAACCAATAGAGACTGATTAATACTTATTAAAAATAGTCCGAAGT
* * ** *
29093208 CCAGGGTAATTCTCCGTAT-TCCGAGTCCGGTTCTAGTTTCAAGGTTTACCTGAAAAGTTAAACA
66 CAAAGGTAATTCTCCGTATGT-CGAGTCCGGCCCTAGTTTCAAGCTTTACCTGAAAAGTTAAACA
29093272 CTAT-GGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCAAACAATTATTTAAACACCCATAAATAG
130 CTATGGGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCAAACAATTATTTAAACACCCATAAATAG
* * *
29093336 AAAATATAGTGAAGCATATTAGCATTAACAGAAGAATACAGACCCATCATTGGAATTTCATATCA
195 AAAATATAGTGAAGCATATTACCATTAACAAAAGAACACAGACCCATCATTGGAATTTCATATCA
29093401 T
260 T
29093402 TA
1 TA
29093404 CATAGTAATT
Statistics
Matches: 240, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
258 122 0.51
259 73 0.30
260 45 0.19
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (260 bp):
TAATTAAAAATTATAAACCAAAACCAATAGAGACTGATTAATACTTATTAAAAATAGTCCGAAGT
CAAAGGTAATTCTCCGTATGTCGAGTCCGGCCCTAGTTTCAAGCTTTACCTGAAAAGTTAAACAC
TATGGGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCAAACAATTATTTAAACACCCATAAATAGA
AAATATAGTGAAGCATATTACCATTAACAAAAGAACACAGACCCATCATTGGAATTTCATATCAT
Found at i:29093501 original size:5 final size:5
Alignment explanation
Indices: 29093491--29093544 Score: 99
Period size: 5 Copynumber: 10.8 Consensus size: 5
29093481 GATAACATTT
*
29093491 AATAC AATAC AATAC AATAC AATAC AATAC AATAT AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
29093541 AATA
1 AATA
29093545 TGTAGCATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAC
Found at i:29093739 original size:27 final size:27
Alignment explanation
Indices: 29093682--29093789 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
29093672 ACTTGATGTG
29093682 GTAAAACTACCT-AATAAAAAATAATGCA
1 GTAAAACTA-CTGAAT-AAAAATAATGCA
*
29093710 GTAAAACTACTGAATAACAATAATGCA
1 GTAAAACTACTGAATAAAAATAATGCA
* **
29093737 GTAAAACTACCGAATAAAAATAATTTA
1 GTAAAACTACTGAATAAAAATAATGCA
*
29093764 GTAAAA-TGCTGAATAACAAATAATGC
1 GTAAAACTACTGAATAA-AAATAATGC
29093790 GATATAATCG
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.12
27 49 0.71
28 12 0.17
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (27 bp):
GTAAAACTACTGAATAAAAATAATGCA
Found at i:29093767 original size:54 final size:55
Alignment explanation
Indices: 29093682--29093789 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 55
29093672 ACTTGATGTG
*
29093682 GTAAAACTACCTAATAAAAAATAATGCAGTAAAACTACTGAATAAC-AATAATGCA
1 GTAAAACTACCGAATAAAAAATAATGCAGTAAAA-TACTGAATAACAAATAATGCA
** *
29093737 GTAAAACTACCGAAT-AAAAATAATTTAGTAAAATGCTGAATAACAAATAATGC
1 GTAAAACTACCGAATAAAAAATAATGCAGTAAAATACTGAATAACAAATAATGC
29093790 GATATAATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
53 10 0.21
54 24 0.50
55 14 0.29
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (55 bp):
GTAAAACTACCGAATAAAAAATAATGCAGTAAAATACTGAATAACAAATAATGCA
Found at i:29094821 original size:5 final size:5
Alignment explanation
Indices: 29094815--29094858 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
29094805 ATGCATTTAT
* * * *
29094815 TTCAT TTCAA TTCAA TTCAA TTCAA TCCAA TCCAA TCCAA TTCA
1 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCA
29094859 TATATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (5 bp):
TTCAA
Found at i:29097841 original size:17 final size:18
Alignment explanation
Indices: 29097819--29097857 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29097809 GTTTTACAAT
29097819 AAAATAAA-TAAACATGC
1 AAAATAAAGTAAACATGC
* *
29097836 AAAATAAAGTGAACATGG
1 AAAATAAAGTAAACATGC
29097854 AAAA
1 AAAA
29097858 CTAATGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.64, C:0.08, G:0.13, T:0.15
Consensus pattern (18 bp):
AAAATAAAGTAAACATGC
Found at i:29105322 original size:16 final size:16
Alignment explanation
Indices: 29105301--29105346 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
29105291 CATTCGCATG
29105301 AATAAATAATAATAAT
1 AATAAATAATAATAAT
*
29105317 AATAAATAATATTAAT
1 AATAAATAATAATAAT
* *
29105333 GATACAATATTAAT
1 AATA-AATAATAAT
29105347 GTTGCCACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AATAAATAATAATAAT
Found at i:29105837 original size:50 final size:50
Alignment explanation
Indices: 29105783--29105930 Score: 116
Period size: 47 Copynumber: 3.1 Consensus size: 50
29105773 ATCTACAAAT
29105783 TAAATCTCTAAGATTACAAAATCATAACTTCTAAGATTGCATATCATATC
1 TAAATCTCTAAGATTACAAAATCATAACTTCTAAGATTGCATATCATATC
* * *** * ** * *
29105833 TAAATAAT-T-ACA-T-CAACGGC-TAAGATTAAAAGGTAT-C-TA-CAAAT-
1 TAAAT-CTCTAAGATTACAAAATCATAA-CTTCTAAGAT-TGCATATCATATC
29105877 TAAATCTCTAAGATTACAAAATCATAACTTCTAAGATTGCATATCATATC
1 TAAATCTCTAAGATTACAAAATCATAACTTCTAAGATTGCATATCATATC
29105927 TAAA
1 TAAA
29105931 ATTACATATC
Statistics
Matches: 66, Mismatches: 20, Indels: 24
0.60 0.18 0.22
Matches are distributed among these distances:
43 1 0.02
44 6 0.09
45 6 0.09
46 7 0.11
47 22 0.33
48 7 0.11
49 6 0.09
50 10 0.15
51 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (50 bp):
TAAATCTCTAAGATTACAAAATCATAACTTCTAAGATTGCATATCATATC
Found at i:29105904 original size:94 final size:93
Alignment explanation
Indices: 29105743--29105937 Score: 374
Period size: 94 Copynumber: 2.1 Consensus size: 93
29105733 CGGTATAGAT
29105743 TAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAATTAAATCTCTAAGATTACAAAATCAT
1 TAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAATTAAATCTCTAAGATTACAAAATCAT
29105808 AACTTCTAAGATTGCATATCATATCTAAA
66 AACTTCTAAGATTGCATATCATATCT-AA
29105837 TAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAATTAAATCTCTAAGATTACAAAATCAT
1 TAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAATTAAATCTCTAAGATTACAAAATCAT
29105902 AACTTCTAAGATTGCATATCATATCTAA
66 AACTTCTAAGATTGCATATCATATCTAA
29105930 -AATTACAT
1 TAATTACAT
29105938 ATCATATCTA
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
92 8 0.08
93 2 0.02
94 91 0.90
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (93 bp):
TAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAATTAAATCTCTAAGATTACAAAATCAT
AACTTCTAAGATTGCATATCATATCTAA
Found at i:29105938 original size:19 final size:19
Alignment explanation
Indices: 29105906--29105959 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
29105896 AATCATAACT
29105906 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
29105925 TCTAAAATTACATATCATA
1 TCTAAGATTGCATATCATA
29105944 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
29105960 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:29106702 original size:44 final size:44
Alignment explanation
Indices: 29106650--29106761 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 44
29106640 GATCTGATTG
*
29106650 CTGTAACTTCAGAGAGATAAGATCT-GTAATTTTAATCCACTCCA
1 CTGTAACTTCAGAGAGATAAGAT-TAGTAACTTTAATCCACTCCA
* * ** **
29106694 CTGTAACTTCA-AGGAGATAGGATTATTGGCTTTAATCTGCTCCA
1 CTGTAACTTCAGA-GAGATAAGATTAGTAACTTTAATCCACTCCA
29106738 CTGTAACTTCATG-GAGATAAGATT
1 CTGTAACTTCA-GAGAGATAAGATT
29106762 CGCCATCTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.04
44 54 0.96
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (44 bp):
CTGTAACTTCAGAGAGATAAGATTAGTAACTTTAATCCACTCCA
Found at i:29106858 original size:217 final size:216
Alignment explanation
Indices: 29106602--29106992 Score: 660
Period size: 217 Copynumber: 1.8 Consensus size: 216
29106592 TTTCTTGGGT
* *
29106602 CTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATGCGATCTGA-T-TGCTGTAACTTCAGAGA
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCT-ACTCT-CTGTAACTTCAGAGA
*
29106665 GATAAGATCTGTAATTTTAATCCACTCCACTGTAACTTCAAGGAGATAGGATTATTGGCTTTAAT
64 GATAAGATCTGTAATTTTAATCCACTCCACTGCAACTT-AAGGAGATAGGATTATTGGCTTTAAT
* *
29106730 CTGCTCCACTGTAACTTCATGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTTAG
128 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTTAG
29106795 GAGGATAAGGTTTGCTTACTTAGA
193 GAGGATAAGGTTTGCTTACTTAGA
29106819 CTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTCTGTAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTCTGTAACTTCAGAGAGA
* * * *
29106884 TAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTAGGGAGATAGGATTATTGGCTTTAATCTG
66 TAAGATCTGTAATTTTAATCCACTCCACTGCAACTTAAGGAGATAGGATTATTGGCTTTAATCTG
29106949 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
131 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
29106993 TTTAAATTGC
Statistics
Matches: 163, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
216 71 0.44
217 91 0.56
218 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (216 bp):
CTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTCTGTAACTTCAGAGAGA
TAAGATCTGTAATTTTAATCCACTCCACTGCAACTTAAGGAGATAGGATTATTGGCTTTAATCTG
CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTTAGGAG
GATAAGGTTTGCTTACTTAGA
Found at i:29107391 original size:44 final size:44
Alignment explanation
Indices: 29107341--29107462 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
29107331 ATCTGCTATT
* * *
29107341 TTCAACCTACTCCACTGTTG-CTCAGGGAGATAGGA-TTCGCAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTT-ACAATC
29107385 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
** * *
29107429 TTCAACCTATTCCACTAATGTCCAGTGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
29107463 GTTGGGGTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 66 0.96
45 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
Found at i:29107596 original size:88 final size:88
Alignment explanation
Indices: 29107473--29108126 Score: 977
Period size: 88 Copynumber: 7.4 Consensus size: 88
29107463 GTTGGGGTCA
* * * *
29107473 TCGATATGCTTCGCTGTCAGTGCATGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
29107538 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
29107561 TCGATCTGCTTCGTTGTCGGTGCAAGAAGGCAAGATCTGTTATTTTTAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
29107626 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
29107649 TCAATCTGCTTCGCTGTCTGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* * *
29107714 CCAAGGAAGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * * *
29107737 TCGATCTGCTTTGCTATCGGTGCAGAAAGGCAAGATTTGCTATTTTTAACCTACTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
29107802 CCAGGAAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
** * *
29107825 TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
29107890 CCAGGGAGGCAAGGCCGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
29107913 TCGATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
29107977 ACAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
**
29108000 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTAAAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
29108065 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
29108088 TCGATCTTCTTCACTGTCAGTGTAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
29108127 TTATCTTCAC
Statistics
Matches: 507, Mismatches: 58, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
87 82 0.16
88 425 0.84
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:29107721 original size:45 final size:43
Alignment explanation
Indices: 29107671--29107814 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 43
29107661 GCTGTCTGTG
29107671 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 CAGGAAGGCAAGAT-TGCTATTTTTAACCTGCTCCGCTACAACC
* * * * ** * ** ****
29107715 CAAGGAA-GCAAGGTTGGTGTCTTCGATCTGCTTTGCTATCGGTG
1 C-AGGAAGGCAAGATTGCTATTTTTAACCTGCTCCGCTA-CAACC
* *
29107759 CAGAAAGGCAAGATTTGCTATTTTTAACCTACTCCGCTACAACC
1 CAGGAAGGCAAGA-TTGCTATTTTTAACCTGCTCCGCTACAACC
29107803 CAGGAAGGCAAG
1 CAGGAAGGCAAG
29107815 GCTGGTGTCT
Statistics
Matches: 67, Mismatches: 29, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 20 0.30
44 26 0.39
45 21 0.31
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (43 bp):
CAGGAAGGCAAGATTGCTATTTTTAACCTGCTCCGCTACAACC
Found at i:29109353 original size:2 final size:2
Alignment explanation
Indices: 29109346--29109376 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29109336 TTTCTTCTTT
29109346 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
29109377 TCTTTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:29114668 original size:16 final size:16
Alignment explanation
Indices: 29114647--29114678 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29114637 CATTCGCATG
29114647 AATAAATAATAATAAT
1 AATAAATAATAATAAT
*
29114663 AATAAATAATATTAAT
1 AATAAATAATAATAAT
29114679 GATACAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAAATAATAATAAT
Found at i:29114706 original size:74 final size:72
Alignment explanation
Indices: 29114626--29114763 Score: 224
Period size: 72 Copynumber: 1.9 Consensus size: 72
29114616 ACATATTACA
* *
29114626 TAAAAACGATGCATTCGCATGAATAAATAATAATAATAATAAAT-AATATTAATGATACAATATT
1 TAAAAACGATGCATGCGCATGAAT-AA-AA-AATAATAATAAATAAATAATAATGATACAATATT
29114690 AACGTGGTCG
63 AACGTGGTCG
29114700 TAAAAACGATGCATGCGCATGAATAAAAAATAATAATAAATAAATAATAATGATACAATATTAA
1 TAAAAACGATGCATGCGCATGAATAAAAAATAATAATAAATAAATAATAATGATACAATATTAA
29114764 TGATGCCACA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
71 13 0.21
72 23 0.38
73 2 0.03
74 23 0.38
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.28
Consensus pattern (72 bp):
TAAAAACGATGCATGCGCATGAATAAAAAATAATAATAAATAAATAATAATGATACAATATTAAC
GTGGTCG
Found at i:29115229 original size:22 final size:22
Alignment explanation
Indices: 29115204--29115260 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
29115194 TACAAATTAA
29115204 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTACAAAATCAT
* *
29115226 ATCTTCTAAGATTGC-ATATCAT
1 ATC-TCTAAGATTACAAAATCAT
29115248 A--TCTAAGATTACA
1 ATCTCTAAGATTACA
29115261 TATCATGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.33
22 10 0.33
23 10 0.33
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (22 bp):
ATCTCTAAGATTACAAAATCAT
Found at i:29115237 original size:23 final size:22
Alignment explanation
Indices: 29115194--29115266 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 22
29115184 AAAAGGTATC
* *
29115194 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
29115215 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
29115238 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
29115257 TACATATCAT
1 TACAAATCAT
29115267 GTCTAAGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 17 0.38
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:29115254 original size:19 final size:19
Alignment explanation
Indices: 29115230--29115283 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
29115220 AATCATATCT
29115230 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
29115249 TCTAAGATTACATATCATG
1 TCTAAGATTGCATATCATA
29115268 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
29115284 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:29119685 original size:11 final size:11
Alignment explanation
Indices: 29119669--29119703 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
29119659 TCTGGACTCC
29119669 ACCATTGTTGA
1 ACCATTGTTGA
*
29119680 ACCATTGTCGA
1 ACCATTGTTGA
*
29119691 ACCACTGTTGA
1 ACCATTGTTGA
29119702 AC
1 AC
29119704 ATTTTTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (11 bp):
ACCATTGTTGA
Found at i:29120305 original size:22 final size:22
Alignment explanation
Indices: 29120277--29120328 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
29120267 TATCAGCATT
*
29120277 ATCAGTGGCGGTTTATCCATAA
1 ATCAGTGGCAGTTTATCCATAA
* *
29120299 ATTAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCCATAA
29120321 ATCAGTGG
1 ATCAGTGG
29120329 TGGCATGTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCCATAA
Found at i:29127632 original size:25 final size:25
Alignment explanation
Indices: 29127603--29127655 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
29127593 GACTTAGTGT
29127603 ATTTATCCATGATATAGGTAGATTC
1 ATTTATCCATGATATAGGTAGATTC
*
29127628 ATTTATCCATGATATAGGTATATTC
1 ATTTATCCATGATATAGGTAGATTC
29127653 ATT
1 ATT
29127656 CATAGCATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (25 bp):
ATTTATCCATGATATAGGTAGATTC
Found at i:29130167 original size:27 final size:27
Alignment explanation
Indices: 29130135--29130312 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
29130125 ATATTGAGTC
* *
29130135 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
29130162 CACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
29130189 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
29130217 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
29130244 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
29130271 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
29130298 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29130313 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29130295 original size:54 final size:55
Alignment explanation
Indices: 29130135--29130312 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
29130125 ATATTGAGTC
* * * * * * *
29130135 CGCACACTCAGTGCTATATAATC-AACTCACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
29130189 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
29130244 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
29130298 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29130313 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
54 60 0.58
55 44 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:29133130 original size:71 final size:71
Alignment explanation
Indices: 29133055--29133197 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
29133045 TTTAAAGTAA
*
29133055 TAGCGATTGACTTTTTCAACTTTTACGTTTTAGTCCTTTGTGCTTAATTAACTATCAAAATATTA
1 TAGCGATTGACTTTTTCAACTTTTACGTTTTAGTCCTTTGTGCTTAATTAACTATCAAAACATTA
29133120 AAATTT
66 AAATTT
29133126 TAGCGATTGACTTTTTCAACTTTTACGTTTTAGTCCTTTGTGCTTAATTAACTATCAAAACATTA
1 TAGCGATTGACTTTTTCAACTTTTACGTTTTAGTCCTTTGTGCTTAATTAACTATCAAAACATTA
29133191 AAATTT
66 AAATTT
29133197 T
1 T
29133198 TCAATAAAAC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (71 bp):
TAGCGATTGACTTTTTCAACTTTTACGTTTTAGTCCTTTGTGCTTAATTAACTATCAAAACATTA
AAATTT
Found at i:29140608 original size:22 final size:24
Alignment explanation
Indices: 29140559--29140619 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
29140549 TTAAAAATTC
29140559 AAAAATTTTAAAATATATATTTAA
1 AAAAATTTTAAAATATATATTTAA
* *
29140583 AAAAATTTTTAAATATAT-TTTTA
1 AAAAATTTTAAAATATATATTTAA
*
29140606 AAATATTTTAAAAT
1 AAAAATTTTAAAAT
29140620 TAAAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAAATTTTAAAATATATATTTAA
Found at i:29143068 original size:40 final size:36
Alignment explanation
Indices: 29143008--29143093 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
29142998 AAACTAGTAT
* * *
29143008 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
29143044 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
29143084 TATTATTATT
1 TATTATTATT
29143094 TTTATTGAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:29145740 original size:159 final size:153
Alignment explanation
Indices: 29145381--29145800 Score: 447
Period size: 159 Copynumber: 2.7 Consensus size: 153
29145371 GCATGTTGAA
* * **
29145381 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCGTTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGTCCATTTCTTCGTATTTTTTTCTCCGAATTTTATTA
* *
29145446 -TTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTGCATTATGTTTGAA
66 CTTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTACATTATGTTTGAA
* *
29145510 ATTTATTATTTTAGTGTATTTTT
131 ATTTATTATTTTACTGAATTTTT
* * * * * *
29145533 AAAATTAATTTAATGTCAAAAAAACCCTTA-TTCCTGCCCTTTCCTCGTATTATTTTC-CCGAAT
1 AAAA--AATTT-A-GT--AAAACACTCTTACTTCGT-CCATTTCTTCGTATTTTTTTCTCCGAAT
* * * *
29145596 TTTATTACTTTTAATAAAAAAT-ATTATTTTCGT-ATTTTATTATTTTATATTATTTCAGTACAT
59 TTTATTACTTTTAA-AAAAAATCA-TAATTTC-TAATTTTATAATTTTACATTATTTAAGTACAT
* *
29145659 TTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
121 TATGTTTG-AA-A-TT-TATT-ATT-TTACTGAATTTTT
*
29145698 AAAAAATTTAGTAAAACACTCTTACTTCGTCCATTTCTTCGTATTTTTTTCTCCGTATTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGTCCATTTCTTCGTATTTTTTTCTCCGAATTTTATTA
* *
29145763 C-TTTAAAAAATATCATAATTTCTAATTTTATAAATTTA
66 CTTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTA
29145801 TTAATTTAGT
Statistics
Matches: 216, Mismatches: 31, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
152 4 0.02
154 4 0.02
155 1 0.00
156 2 0.01
157 15 0.07
158 59 0.27
159 79 0.37
160 20 0.09
161 3 0.01
162 3 0.01
163 9 0.04
164 3 0.01
165 14 0.06
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (153 bp):
AAAAAATTTAGTAAAACACTCTTACTTCGTCCATTTCTTCGTATTTTTTTCTCCGAATTTTATTA
CTTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTACATTATGTTTGAA
ATTTATTATTTTACTGAATTTTT
Found at i:29146060 original size:285 final size:286
Alignment explanation
Indices: 29145508--29146087 Score: 1000
Period size: 285 Copynumber: 2.0 Consensus size: 286
29145498 ATTATGTTTG
* *
29145508 AAATTTATTATTTTAGTGTATTTTTAAAATTAATTTAATGTCAAAAAAACCCTTATTCCTGCCCT
1 AAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAATGTCAAAAAAACCATTATTCCTGCCCT
* *
29145573 TTCCTCGTATTATTTTCCCGAATTTTATTACTTTTAATAAAAAATATTATTTTCGTATTTTATTA
66 TTCCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTA
*
29145638 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAA
131 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTCTTAAAAA
* * * *
29145703 ATTTAGTAAAACACTCTTACTTCGTCCATTTCTTCGTATTTTTTTCTCCGTATTTTATTACTTTA
196 ATTTAGTAAAACACTCTTACTCCGGCCATTTCTTCGTATTTTTTTCTCCGCATCTTATTACTTTA
29145768 AAAAATATCATAATTTCTAATTTTAT
261 AAAAATATCATAATTTCTAATTTTAT
* * *
29145794 AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGT-AAAAAAACCATTATTCCTGCCCT
1 AAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAATGTCAAAAAAACCATTATTCCTGCCCT
*
29145858 TTGCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTA
66 TTCCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTA
* *
29145923 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTTTTAATTCTTAAAAA
131 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTCTTAAAAA
*
29145988 ATTTAGTAAAACACTCTTACTCCGGCCATTTCTTCGTATTTTTTTCTCTGCATCTTATTACTTTA
196 ATTTAGTAAAACACTCTTACTCCGGCCATTTCTTCGTATTTTTTTCTCCGCATCTTATTACTTTA
29146053 AAAAATATCATAATTTCTAATTTTAT
261 AAAAATATCATAATTTCTAATTTTAT
*
29146079 AATTTTATT
1 AAATTTATT
29146088 TTATTTTAGT
Statistics
Matches: 277, Mismatches: 17, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
285 240 0.87
286 37 0.13
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (286 bp):
AAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAATGTCAAAAAAACCATTATTCCTGCCCT
TTCCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTA
TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTCTTAAAAA
ATTTAGTAAAACACTCTTACTCCGGCCATTTCTTCGTATTTTTTTCTCCGCATCTTATTACTTTA
AAAAATATCATAATTTCTAATTTTAT
Found at i:29146503 original size:14 final size:14
Alignment explanation
Indices: 29146478--29146566 Score: 82
Period size: 14 Copynumber: 6.6 Consensus size: 14
29146468 CTTCCTCCAC
29146478 TCTTC-TTC-TTCT
1 TCTTCTTTCTTTCT
*
29146490 TCTTCTTTTTTTC-
1 TCTTCTTTCTTTCT
*
29146503 TCTTC-TCCTTTCAT
1 TCTTCTTTCTTTC-T
*
29146517 T-TTCTTTCTTTCC
1 TCTTCTTTCTTTCT
*
29146530 TCTCCTTTCTTT-T
1 TCTTCTTTCTTTCT
29146543 TCTTTCTTTCTTTCT
1 TC-TTCTTTCTTTCT
29146558 TCTTCTTTC
1 TCTTCTTTC
29146567 CCTCTCTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
12 10 0.16
13 13 0.21
14 35 0.57
15 3 0.05
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (14 bp):
TCTTCTTTCTTTCT
Found at i:29146538 original size:24 final size:26
Alignment explanation
Indices: 29146492--29146557 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 26
29146482 CTTCTTCTTC
*
29146492 TTCTTTTTTTCTCTTCTCCTTTCATT
1 TTCTTTCTTTCTCTTCTCCTTTCATT
*
29146518 TTCTTTCTTTC-C-TCTCCTTTCTTT
1 TTCTTTCTTTCTCTTCTCCTTTCATT
29146542 TTCTTTCTTTCT-TTCT
1 TTCTTTCTTTCTCTTCT
29146558 TCTTCTTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 22 0.61
25 4 0.11
26 10 0.28
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.70
Consensus pattern (26 bp):
TTCTTTCTTTCTCTTCTCCTTTCATT
Found at i:29146563 original size:24 final size:25
Alignment explanation
Indices: 29146486--29146565 Score: 92
Period size: 24 Copynumber: 3.2 Consensus size: 25
29146476 ACTCTTCTTC
* *
29146486 TTCTTCTTCTTTTTTTCTCTTCTCCT
1 TTCTTTTTCTTTCTTTCT-TTCTCCT
* *
29146512 TTCATTTTCTTTCTTTC-CTCTCCT
1 TTCTTTTTCTTTCTTTCTTTCTCCT
*
29146536 TTCTTTTTCTTTCTTTCTTTCTTC-
1 TTCTTTTTCTTTCTTTCTTTCTCCT
29146560 TTCTTT
1 TTCTTT
29146566 CCCTCTCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 28 0.61
25 4 0.09
26 14 0.30
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (25 bp):
TTCTTTTTCTTTCTTTCTTTCTCCT
Found at i:29146574 original size:28 final size:28
Alignment explanation
Indices: 29146517--29146577 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
29146507 CTCCTTTCAT
** *
29146517 TTTCTTTCTTTCCTCTCCTTTCTTTTTC
1 TTTCTTTCTTTCCTCTCCTTTCCCTCTC
* *
29146545 TTTCTTTCTTTCTTCTTCTTTCCCTCTC
1 TTTCTTTCTTTCCTCTCCTTTCCCTCTC
29146573 TTTCT
1 TTTCT
29146578 CTTCCCCCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTCTTTCTTTCCTCTCCTTTCCCTCTC
Found at i:29146577 original size:14 final size:13
Alignment explanation
Indices: 29146519--29146582 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 13
29146509 CCTTTCATTT
29146519 TCTTTCTTTCCTC
1 TCTTTCTTTCCTC
* *
29146532 TCCTTTCTTTTTCTT
1 T-CTTTC-TTTCCTC
29146547 TCTTTCTTT-CT-
1 TCTTTCTTTCCTC
29146558 TC-TTCTTTCCCTC
1 TCTTTCTTT-CCTC
29146571 TCTTTCTCTTCC
1 TCTTTCT-TTCC
29146583 CCCCACCTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 4 0.10
13 6 0.14
14 16 0.38
15 8 0.19
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TCTTTCTTTCCTC
Found at i:29146658 original size:27 final size:27
Alignment explanation
Indices: 29146619--29146687 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
29146609 TATATGGGCA
* *
29146619 GTGCCGCCGATGGGAATGACACCATCG
1 GTGCCGCCCATGGGAAAGACACCATCG
* * *
29146646 GTGCCGCCTATGGGAAAGGCACCTTCG
1 GTGCCGCCCATGGGAAAGACACCATCG
*
29146673 GTGCTGCCCATGGGA
1 GTGCCGCCCATGGGA
29146688 TACCCTCCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.29, G:0.35, T:0.17
Consensus pattern (27 bp):
GTGCCGCCCATGGGAAAGACACCATCG
Found at i:29149127 original size:39 final size:38
Alignment explanation
Indices: 29149084--29149181 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 38
29149074 AATTCGCAAC
* * * *
29149084 AAATGTTGAATCTCGTTATATTGCCGGAGGATCCACATA
1 AAATGTT-AATCTCGTTATATTACCGAAGGATCCAAAAA
* * *
29149123 AAATGCTAGATCTCGTTATATTACCTAAGGATCTAAAAA
1 AAATGTTA-ATCTCGTTATATTACCGAAGGATCCAAAAA
*
29149162 AAATGTTAAATCTCATTATA
1 AAATGTT-AATCTCGTTATA
29149182 ATTTTGACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
38 1 0.02
39 46 0.96
40 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (38 bp):
AAATGTTAATCTCGTTATATTACCGAAGGATCCAAAAA
Found at i:29149507 original size:15 final size:15
Alignment explanation
Indices: 29149487--29149515 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29149477 GTCAAAATTC
29149487 ACAACAATTTTCACT
1 ACAACAATTTTCACT
29149502 ACAACAATTTTCAC
1 ACAACAATTTTCAC
29149516 ATAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (15 bp):
ACAACAATTTTCACT
Found at i:29154156 original size:5 final size:6
Alignment explanation
Indices: 29154139--29154163 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29154129 TTCATACAAA
29154139 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
29154164 GGTAAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:29157256 original size:8 final size:8
Alignment explanation
Indices: 29157243--29157286 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
29157233 ATTAAAATAA
29157243 TTTTATAT
1 TTTTATAT
29157251 TTTTATAT
1 TTTTATAT
29157259 TTTTATAT
1 TTTTATAT
*
29157267 TATTTCATAG
1 T-TTT-ATAT
*
29157277 GTTTATAT
1 TTTTATAT
29157285 TT
1 TT
29157287 AAAGTTTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 21 0.70
9 6 0.20
10 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (8 bp):
TTTTATAT
Found at i:29163347 original size:89 final size:88
Alignment explanation
Indices: 29163241--29164413 Score: 441
Period size: 89 Copynumber: 13.0 Consensus size: 88
29163231 AGTCATCGTG
* *
29163241 GCAAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACAAATTAGATCTCCCTAAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAAATTA-ATCTCCCTAAAG
* *
29163306 TTGTAGTGGAGCAGACTAAAGATA
65 TTGCAGTGGAGCAGACTGAAGATA
* * *
29163330 GCAAATCTTATCTCCCTGAAGTTACAGT-AGAGTAGATTAAAGCTATAAACCTT-ATCTCCCTAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTACAAA--TTAATCTCCCTAA
* * ** *
29163393 AGTTACAGTGGGGCAGGTTGAAGTTA
63 AGTTGCAGTGGAGCAGACTGAAGATA
* * * * ** * * * * *
29163419 -CAAGTCTTATCTCTC-AAAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTAATCCCCCTGAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAAAT-TAATCTCCCTAAAG
**
29163482 TTGCAGCAGAGCAGACTGAAGATA
65 TTGCAGTGGAGCAGACTGAAGATA
* * * *
29163506 GCGAATCTTATTTCCCTGAAGTTGCAGTAGAA-TAGATTAAGGCTACAAATTACAAATCGGATCC
1 GCAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAGCTACAAATT---AATC---T-C
* * * * *
29163570 CCTTGAAGTTGTAGTGGGGCAGATTGAAGTTA
58 CC-TAAAGTTGCAGTGGAGCAGACTGAAGATA
* * ** * * ** *
29163602 -CGAGTCTTATCTCCCTGAAGTTGTTGTGGAA-CAGACTAAAGATAGCAAATCTTGTTTCCCTAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAGCTA-CAAAT-TAATCTCCCTAA
* * * *
29163665 AGTTGCAGTGGAACA-AATTAAGGCTA
63 AGTTGCAGTGGAGCAGACTGAA-GATA
* * ** * * * * *
29163691 -CAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATACAAGTCTTATCTCC
1 GCAAA-T-C--T--TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAAAT-TAATCTCC
*
29163755 CTAAAGTTGCAGTGGAGCAAACTGAAGATA
59 CTAAAGTTGCAGTGGAGCAGACTGAAGATA
** * ** * * *
29163785 GCAAATCTTATCTTTCTAAAGTTATAGT-AGAGCAAATTAAAGCTATAAACCTT-ATCTCCCTGA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTACAAA--TTAATCTCCCTAA
* * ** *
29163848 AGTTACAGTGGGGCAGGTTGAAGTTA
63 AGTTGCAGTGGAGCAGACTGAAGATA
* * * * ** * * * * *
29163874 -CAAGTCTTATCT-CCTAAAATTTACAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAA
1 GCAAATCTTATCTCCCT-GAAGTTGCAGTGAAGCAGATTAAAGCTACAAAT-TAATCTCCCTAAA
29163937 GTTGCAGTGGAGCAGACTGAAGATA
64 GTTGCAGTGGAGCAGACTGAAGATA
* * * * *
29163962 G-AGAACCTTATTTCCATGAAGTTGCAGTGGAA-TAGATTAAGGCTACAAATTACAAATCGGATC
1 GCA-AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAGCTACAAATT---AATC---T-
** * * * * *
29164025 CCCTTGAGTTGCAGTGGGGTAGATTAAAGTTA
57 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * * *
29164057 -CGAGTCTTATCTCCCTGAAGTTGCAGTGGAA-CAGACTAAAGATAGCAAATCTTATTTCCCTAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAGCTA-CAAAT-TAATCTCCCTAA
* * * *
29164120 AGTTGCAGTGGAACA-AATTAAGGCTA
63 AGTTGCAGTGGAGCAGACTGAA-GATA
* * * ** * ** * * *
29164146 -CAAATTACAATCGGATCTCCTTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTTTTATCTCC
1 GCAAA-T-C--T--TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAA-ATTAATCTCC
* * *
29164210 CTGAAGTTGCAGTGGAGTAGACTAAAGATA
59 CTAAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * *
29164240 GCAAATCTTATCTCTCTGAAGTTGCAGT-AGAGCAAATTAAAGCTATAAACCTT-ATCTCCTTGA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTACAAA--TTAATCTCCCTAA
* *
29164303 AGATGCAGTGGAGCAGGA-TGAAG-TT
63 AGTTGCAGTGGAGCA-GACTGAAGATA
* * * * * ** * * *
29164328 GCTAATCTTATCTCCATGAAGATGCAAT-AGAGCAGATTGAATATACTAATCTTATCTCCCCAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTACAAAT-TAATCTCCCTAAA
* * *
29164392 GTTGCAGTAGAGTAGATTGAAG
64 GTTGCAGTGGAGCAGACTGAAG
29164414 CGACAAATTC
Statistics
Matches: 794, Mismatches: 222, Indels: 137
0.69 0.19 0.12
Matches are distributed among these distances:
85 1 0.00
86 3 0.00
87 54 0.07
88 161 0.20
89 270 0.34
90 15 0.02
91 15 0.02
93 6 0.01
94 100 0.13
95 139 0.18
96 29 0.04
97 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (88 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAAATTAATCTCCCTAAAGT
TGCAGTGGAGCAGACTGAAGATA
Found at i:29163396 original size:44 final size:45
Alignment explanation
Indices: 29163294--29163401 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
29163284 CACAAATTAG
** * *
29163294 ATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATAGCAAATCTT
1 ATCTCCCTAAAGTTACAGTAGAGCAGACTAAAGATAGCAAACCTT
* * * * *
29163339 ATCTCCCTGAAGTTACAGTAGAGTAGATTAAAGCTA-TAAACCTT
1 ATCTCCCTAAAGTTACAGTAGAGCAGACTAAAGATAGCAAACCTT
29163383 ATCTCCCTAAAGTTACAGT
1 ATCTCCCTAAAGTTACAGT
29163402 GGGGCAGGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
44 24 0.45
45 29 0.55
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (45 bp):
ATCTCCCTAAAGTTACAGTAGAGCAGACTAAAGATAGCAAACCTT
Found at i:29163428 original size:44 final size:44
Alignment explanation
Indices: 29163242--29164409 Score: 375
Period size: 44 Copynumber: 25.8 Consensus size: 44
29163232 GTCATCGTGG
* * * * **
29163242 CAAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* ** * *
29163286 CAAAT-TAGATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATA
1 CAAATCT-TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * *
29163330 GCAAATCTTATCTCCCTGAAGTTACAGTAGAGTAGATTAAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * *
29163375 TAAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
29163419 CAAGTCTTATCTCTC-AAAATTGCAGTGGGGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * ** * * *
29163462 CAAGTCTAATCCCCCTGAAGTTGCAGCAGAGCAGACTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * ** * *
29163506 GCGAATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAGGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
** * ** * *
29163551 CAAATTACAAATCGGATCCCCTTGAAGTTGTAGTGGGGCAGATTGAAGTTA
1 CAAA-T-CTTATC---T-CCC-TAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * *** * * *
29163602 CGAGTCTTATCTCCCTGAAGTTGTTGTGGAACAGACTAAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * *
29163646 GCAAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * ** * * * *
29163691 CAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATA
1 CAAA-T-C--T--TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
29163741 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
** * * * *
29163785 GCAAATCTTATCTTTCTAAAGTTATAGTAGAGCAAATTAAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
29163830 TAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * *
29163874 CAAGTCTTATCT-CCTAAAATTTACAGTGGGGCAGATTGAAGTTA
1 CAAATCTTATCTCCCT-AAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
29163918 CAAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * ** * *
29163962 GAGAACCTTATTTCCATGAAGTTGCAGTGGAATAGATTAAGGCTA
1 CA-AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
** ** * * *
29164007 CAAATTACAAATCGGATCCCCTTGAGTTGCAGTGGGGTAGATTAAAGTTA
1 CAAA-T-CTTATC---T-CCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * *
29164057 CGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
29164101 GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * ** * * ** *
29164146 CAAATTACAATCGGATCTCCTTGAAGTTGTAGTGGGGTAGATCGAAGATA
1 CAAA-T-C--T--TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * *
29164196 CAAGTTTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
29164240 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * * *
29164285 TAAACCTTATCTCCTTGAAGATGCAGTGGAGCAGGA-TGAAGTTG
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCA-GATTAAAGTTA
* * * * * * * *
29164329 CTAATCTTATCTCCATGAAGATGCAATAGAGCAGATTGAA-TATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGT-TA
* * * * *
29164373 CTAATCTTATCTCCCCAAAGTTGCAGTAGAGTAGATT
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATT
29164410 GAAGCGACAA
Statistics
Matches: 847, Mismatches: 237, Indels: 80
0.73 0.20 0.07
Matches are distributed among these distances:
43 43 0.05
44 419 0.49
45 248 0.29
46 12 0.01
48 7 0.01
49 9 0.01
50 86 0.10
51 23 0.03
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
Found at i:29163624 original size:140 final size:139
Alignment explanation
Indices: 29163442--29163944 Score: 549
Period size: 139 Copynumber: 3.7 Consensus size: 139
29163432 TCAAAATTGC
* * **
29163442 AGTGGGGCAGATTGAAGTTACAAGTCTAATCCCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAG
1 AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* * * *
29163507 CGAATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAGGCTACAAATTACAAATCGGATC-CC
66 CAAATCTTATTTCCCTAAAGTTGCAGTAGAACAAATTAAGGCTACAAATTAC-AATCGGATCTCC
29163571 CTTGAAGTTGT
130 C-TGAAGTTGT
* ** * *
29163582 AGTGGGGCAGATTGAAGTTACGAGTCTTATCTCCCTGAAGTTGTTGTGGAACAGACTAAAGATAG
1 AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* *
29163647 CAAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTACAAATTACAATCGGATCTCCC
66 CAAATCTTATTTCCCTAAAGTTGCAGTAGAACAAATTAAGGCTACAAATTACAATCGGATCTCCC
29163712 TGAAGTTGT
131 TGAAGTTGT
* * * *
29163721 AGTGGGGTAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGATAG
1 AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* ** * * * **
29163786 CAAATCTTATCTT-TCTAAAGTTATAGTAGAGCAAATTAAAGCT----A-TA-AACCTTATCTCC
66 CAAATCTTAT-TTCCCTAAAGTTGCAGTAGAACAAATTAAGGCTACAAATTACAATCGGATCTCC
**
29163844 CTGAAGTTAC
130 CTGAAGTTGT
* * * * * * *
29163854 AGTGGGGCAGGTTGAAGTTACAAGTCTTATCT-CCTAAAATTTACAGTGGGGCAGATTGAAGTTA
1 AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCT-GAAGTTGCAGTGGAGCAGACTGAAGATA
* **
29163918 -CAAGTCTTATCCCCCTAAAGTTGCAGT
65 GCAAATCTTATTTCCCTAAAGTTGCAGT
29163945 GGAGCAGACT
Statistics
Matches: 308, Mismatches: 51, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
132 23 0.07
133 68 0.22
134 2 0.01
135 1 0.00
139 107 0.35
140 107 0.35
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (139 bp):
AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
CAAATCTTATTTCCCTAAAGTTGCAGTAGAACAAATTAAGGCTACAAATTACAATCGGATCTCCC
TGAAGTTGT
Found at i:29163790 original size:95 final size:95
Alignment explanation
Indices: 29163610--29163790 Score: 222
Period size: 95 Copynumber: 1.9 Consensus size: 95
29163600 TACGAGTCTT
* * *
29163610 ATCTCCCTGAAGTTGTTGTGGAACAGACTAAAGATAGCAAATCTTGTTTCCCTAAAGTTGCAGTG
1 ATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTG
* *
29163675 GAACAAATTAAGGCTACAAATTACAATCGG
66 GAACAAATGAAGGATACAAATTACAATCGG
*** * * *
29163705 ATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATA-CAAGTCTTATCTCCCTAAAGTTGCAGTG
1 ATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTG
*
29163769 GAGCAAACTGAA-GATAGCAAAT
66 GAACAAA-TGAAGGATA-CAAAT
29163791 CTTATCTTTC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
94 34 0.47
95 38 0.53
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (95 bp):
ATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTG
GAACAAATGAAGGATACAAATTACAATCGG
Found at i:29163969 original size:133 final size:133
Alignment explanation
Indices: 29163294--29163991 Score: 339
Period size: 139 Copynumber: 5.2 Consensus size: 133
29163284 CACAAATTAG
* * * * * * * *
29163294 ATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTACAGTA
1 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATA-CAAGTCTTATCTCCCTAAAGTTACAGTG
* * * * * * * * * * *** * * * *
29163359 GAGTAGATTAAAGCTA-TAAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTACAAG
65 GAGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATAGAAA
*
29163423 TCTT
130 CCTT
* * * * * * * * **
29163427 ATCTCTC-AAAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTAATCCCCCTGAAGTTGCAGCAG
1 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTACAGTGG
* * ** * *
29163491 AGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTAGAATAG-ATTAAGGCTACAA-
66 AGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAG---AGCA--AA--CTA-AAG
* * **
29163554 ATTACAAATCGG
123 A-TAGAAACCTT
* * * * ***
29163566 ATC-CCCTTGAAGTTGTAGTGGGGCAGATTGAAGTTACGAGTCTTATCTCCCTGAAGTTGTTGTG
1 ATCTCCC-TGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTACAGTG
* * * * ** * * * * * * *
29163630 GAACAGACTAAAGATAGCAAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTACAAA
65 GAGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATA-GAA
**
29163695 TTACAATCGG
129 --AC---CTT
* * *
29163705 ATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTACAGTGG
*** * * * *
29163770 AGCAAACTGAAGATAGCAAATCTTATCTTTCTAAAGTTATAGTAGAGCAAATTAAAGCTATAAAC
66 AGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATAGAAAC
29163835 CTT
131 CTT
* * * *
29163838 ATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGTCTTATCT-CCTAAAATTTACAGTG
1 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCT-AAAGTTACAGTG
* * * * * * * * *
29163902 GGGCAGATTGAAGTTA-CAAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGAGA
65 GAGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATAGA-A
29163966 ACCTT
129 ACCTT
* *
29163971 ATTTCCATGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGG
29163992 AATAGATTAA
Statistics
Matches: 440, Mismatches: 102, Indels: 46
0.75 0.17 0.08
Matches are distributed among these distances:
131 35 0.08
132 81 0.18
133 99 0.22
134 5 0.01
135 1 0.00
136 5 0.01
137 1 0.00
138 6 0.01
139 118 0.27
140 89 0.20
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (133 bp):
ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTACAGTGG
AGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATAGAAAC
CTT
Found at i:29164064 original size:139 final size:138
Alignment explanation
Indices: 29163897--29164284 Score: 528
Period size: 139 Copynumber: 2.8 Consensus size: 138
29163887 CTAAAATTTA
* * * *
29163897 CAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
1 CAGTGGGGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
* * *
29163962 G-AGAACCTTATTTCCATGAAGTTGCAGTGGAATAGATTAAGGCTACAAATTACAAATCGGATCC
66 GCA-AATCTTATTTCC-TGAAGTTGCAGTGGAACAAATTAAGGCTACAAATTAC-AATCGGATCC
29164026 CCTTG-AGTTG
128 CCTTGAAGTTG
* * *
29164036 CAGTGGGGTAGATTAAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATA
1 CAGTGGGGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
* *
29164101 GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTACAAATTACAATCGGATCTCC
66 GCAAATCTTATTT-CCTGAAGTTGCAGTGGAACAAATTAAGGCTACAAATTACAATCGGATCCCC
29164166 TTGAAGTTG
130 TTGAAGTTG
* * * * *
29164175 TAGTGGGGTAGATCGAAGATACAAGTTTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGATA
1 CAGTGGGGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
* * * *
29164240 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCTA
66 GCAAATCTTATTTC-CTGAAGTTGCAGTGGAACAAATTAAGGCTA
29164285 TAAACCTTAT
Statistics
Matches: 220, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
138 15 0.07
139 202 0.92
140 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (138 bp):
CAGTGGGGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
GCAAATCTTATTTCCTGAAGTTGCAGTGGAACAAATTAAGGCTACAAATTACAATCGGATCCCCT
TGAAGTTG
Found at i:29164365 original size:455 final size:455
Alignment explanation
Indices: 29163294--29164413 Score: 1725
Period size: 455 Copynumber: 2.5 Consensus size: 455
29163284 CACAAATTAG
* *
29163294 ATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTACAGTA
1 ATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTA
* * *
29163359 GAGTAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
66 GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
* *
29163424 CTTATCTCTCA-AAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTAATCCCCCTGAAGTTGCAG
131 CTTATCTC-CATAAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCAG
* * * *
29163488 CAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAGGCTACA
195 TAGAGCAGACTGAAGATAGAGAACCTTATTTCCATGAAGTTGCAGTAGAATAGATTAAGGCTACA
* *
29163553 AATTACAAATCGGATCCCCTTGAAGTTGTAGTGGGGCAGATTGAAGTTACGAGTCTTATCTCCCT
260 AATTACAAATCGGATCCCCTTGAAGTTGCAGTGGGGCAGATTAAAGTTACGAGTCTTATCTCCCT
** *
29163618 GAAGTTGTTGTGGAACAGACTAAAGATAGCAAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAAT
325 GAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAAT
*
29163683 TAAGGCTACAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATACAAGTCT
390 TAAGGCTACAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTCT
29163748 T
455 T
* * * * *
29163749 ATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTTATCTTTCTAAAGTTATAGTA
1 ATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTA
29163814 GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
66 GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
*
29163879 CTTATCTCC-TAAAATTTACAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCA
131 CTTATCTCCAT-AAA-TTGCAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCA
* *
29163943 GTGGAGCAGACTGAAGATAGAGAACCTTATTTCCATGAAGTTGCAGTGGAATAGATTAAGGCTAC
194 GTAGAGCAGACTGAAGATAGAGAACCTTATTTCCATGAAGTTGCAGTAGAATAGATTAAGGCTAC
*
29164008 AAATTACAAATCGGATCCCCTTG-AGTTGCAGTGGGGTAGATTAAAGTTACGAGTCTTATCTCCC
259 AAATTACAAATCGGATCCCCTTGAAGTTGCAGTGGGGCAGATTAAAGTTACGAGTCTTATCTCCC
29164072 TGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAA
324 TGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAA
* *
29164137 TTAAGGCTACAAATTACAATCGGATCTCCTTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTT
389 TTAAGGCTACAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTC
29164202 TT
454 TT
* * *
29164204 ATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTA
1 ATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTA
* * * * * *
29164269 GAGCAAATTAAAGCTATAAACCTTATCTCCTTGAAGATGCAGTGGAGCAGGATGAAGTTGCTAA-
66 GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTAC-AAG
* * *
29164333 TCTTATCTCCATGAAGA-TGCAATAGAGCAGATTGAA-TATACTAA-TCTTATCTCCCC-AAAGT
130 TCTTATCTCCAT-AA-ATTGCAGTGGGGCAGATTGAAGT-TAC-AAGTCTTATC-CCCCTAAAGT
* *
29164394 TGCAGTAGAGTAGATTGAAG
190 TGCAGTAGAGCAGACTGAAG
29164414 CGACAAATTC
Statistics
Matches: 606, Mismatches: 50, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
454 2 0.00
455 464 0.77
456 139 0.23
457 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (455 bp):
ATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTA
GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
CTTATCTCCATAAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCAGT
AGAGCAGACTGAAGATAGAGAACCTTATTTCCATGAAGTTGCAGTAGAATAGATTAAGGCTACAA
ATTACAAATCGGATCCCCTTGAAGTTGCAGTGGGGCAGATTAAAGTTACGAGTCTTATCTCCCTG
AAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATT
AAGGCTACAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTCTT
Found at i:29166205 original size:73 final size:71
Alignment explanation
Indices: 29166120--29166313 Score: 219
Period size: 73 Copynumber: 2.7 Consensus size: 71
29166110 TTAATACTAT
* *
29166120 ATATTTATTTTATTTATTTACTCATTTATTTACCATTCTTTTACTTTTAAAATAATTAAATTTCA
1 ATATTTATTTTATCTATTTACTCATTTATTTA--ATTCTTTTACTTTTAAAATAATTAAATTTAA
29166185 TATTATGA
64 TATTATGA
* * * **
29166193 ATATTTACTTTATCTATTTACTTATTTATTTATTATTCTTTTACTTTTCAAATGCTTAAATTTAA
1 ATATTTATTTTATCTATTTACTCATTTATTTA--ATTCTTTTACTTTTAAAATAATTAAATTTAA
* **
29166258 TATTGTTT
64 TATTATGA
* * * *
29166266 ACATTTGTTTTATCTATTTATTCACTTATTT-ATTCTTTTACTTTTAAA
1 ATATTTATTTTATCTATTTACTCATTTATTTAATTCTTTTACTTTTAAA
29166314 GAAATTTTAA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
70 16 0.16
73 86 0.84
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (71 bp):
ATATTTATTTTATCTATTTACTCATTTATTTAATTCTTTTACTTTTAAAATAATTAAATTTAATA
TTATGA
Found at i:29166354 original size:4 final size:4
Alignment explanation
Indices: 29166345--29166371 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
29166335 TTCATATTGG
29166345 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
29166372 AGTAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:29178477 original size:73 final size:73
Alignment explanation
Indices: 29178377--29178570 Score: 205
Period size: 73 Copynumber: 2.7 Consensus size: 73
29178367 TTAATACTAT
** * *
29178377 ATATTTATTTTATTTATTTACTCATTTATTTATCATTCTTTTACTTTTAAAATATTTAAATTTAA
1 ATATTTACGTTATCTATTTACTCATTTATTTATCATTCTTTTACTTTTAAAATACTTAAATTTAA
29178442 TATTATGA
66 TATTATGA
* * * * *
29178450 ATATTTACGTTATCTATTTACTTATTTATTTATTATTCTTTTATTTTTCAAATGCTTAAATTTAA
1 ATATTTACGTTATCTATTTACTCATTTATTTATCATTCTTTTACTTTTAAAATACTTAAATTTAA
* **
29178515 TATTGTTT
66 TATTATGA
* *** * *
29178523 ACATTTGTTTTATCTATTTATTCACTTA-TT-T-ATTCTTTTACTTTTAAA
1 ATATTTACGTTATCTATTTACTCATTTATTTATCATTCTTTTACTTTTAAA
29178571 GAAATTTTAA
Statistics
Matches: 100, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
70 15 0.15
71 1 0.01
72 2 0.02
73 82 0.82
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.60
Consensus pattern (73 bp):
ATATTTACGTTATCTATTTACTCATTTATTTATCATTCTTTTACTTTTAAAATACTTAAATTTAA
TATTATGA
Found at i:29178740 original size:6 final size:6
Alignment explanation
Indices: 29178729--29178761 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
29178719 ATTAAGCACC
29178729 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
29178762 GAATTATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCAT
Found at i:29179469 original size:23 final size:23
Alignment explanation
Indices: 29179416--29179469 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
29179406 TTCCTCGTGC
29179416 GTAAATC--AAATATTTGTTTTA
1 GTAAATCAAAAATATTTGTTTTA
* *
29179437 GTAGACCAAAAATATTTGTTTTA
1 GTAAATCAAAAATATTTGTTTTA
29179460 GTAAATCAAA
1 GTAAATCAAA
29179470 TCTCTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 5 0.19
23 22 0.81
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (23 bp):
GTAAATCAAAAATATTTGTTTTA
Found at i:29185006 original size:20 final size:21
Alignment explanation
Indices: 29184981--29185019 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
29184971 TTGAAGCATT
29184981 ATATTTTAA-AATTTTAATAA
1 ATATTTTAATAATTTTAATAA
*
29185001 ATATTTTAATTATTTTAAT
1 ATATTTTAATAATTTTAAT
29185020 TTTCATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTAATAATTTTAATAA
Found at i:29185568 original size:22 final size:22
Alignment explanation
Indices: 29185520--29185572 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
29185510 TGCACAATGA
*
29185520 ATAAAAATAGTAGTAAAGCATTG
1 ATAAAAA-AGTAGTAAAGAATTG
* * *
29185543 ATAAAAAAGTAGTATATAATTT
1 ATAAAAAAGTAGTAAAGAATTG
29185565 ATAAAAAA
1 ATAAAAAA
29185573 AGTTCAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (22 bp):
ATAAAAAAGTAGTAAAGAATTG
Found at i:29186592 original size:22 final size:21
Alignment explanation
Indices: 29186567--29186610 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
29186557 GCAATATAAT
29186567 ATCAAAATGACAACAAAACAAC
1 ATCAAAATGACAAC-AAACAAC
*
29186589 ATCAAAATTACAACAAACAAC
1 ATCAAAATGACAACAAACAAC
29186610 A
1 A
29186611 AAAAACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.64, C:0.23, G:0.02, T:0.11
Consensus pattern (21 bp):
ATCAAAATGACAACAAACAAC
Found at i:29186760 original size:30 final size:31
Alignment explanation
Indices: 29186701--29186759 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
29186691 AAAATGGGCC
* * *
29186701 TTATTTTTTTGTCCAAACTTACTTTTTTTGT
1 TTATATTTTTGCCCAAACTCACTTTTTTTGT
29186732 TTATATTTTTGCCCAAACTCACTTTTTT
1 TTATATTTTTGCCCAAACTCACTTTTTT
29186760 GGAGGGCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.59
Consensus pattern (31 bp):
TTATATTTTTGCCCAAACTCACTTTTTTTGT
Found at i:29198859 original size:85 final size:85
Alignment explanation
Indices: 29198760--29199102 Score: 686
Period size: 85 Copynumber: 4.0 Consensus size: 85
29198750 TTATAATTAA
29198760 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
1 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
29198825 AAAAAGTAATAAACATTCAT
66 AAAAAGTAATAAACATTCAT
29198845 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
1 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
29198910 AAAAAGTAATAAACATTCAT
66 AAAAAGTAATAAACATTCAT
29198930 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
1 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
29198995 AAAAAGTAATAAACATTCAT
66 AAAAAGTAATAAACATTCAT
29199015 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
1 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
29199080 AAAAAGTAATAAACATTCAT
66 AAAAAGTAATAAACATTCAT
29199100 CGT
1 CGT
29199103 AGATGGTGAA
Statistics
Matches: 258, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 258 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (85 bp):
CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
AAAAAGTAATAAACATTCAT
Found at i:29199462 original size:10 final size:10
Alignment explanation
Indices: 29199447--29199471 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29199437 AATAGAAAAA
29199447 AAAACCATAT
1 AAAACCATAT
29199457 AAAACCATAT
1 AAAACCATAT
29199467 AAAAC
1 AAAAC
29199472 TTAAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAACCATAT
Found at i:29204591 original size:58 final size:59
Alignment explanation
Indices: 29204529--29204649 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 59
29204519 TTTTTAAAAT
* ** *
29204529 TTTTAGAACTAGAACTAAATTGAA-AA-TTTTGTAAATGTTTAGAGCGAAATTTATTGAA
1 TTTTAGAACTAGAACTAAAAT-AACAAGTTTTGTAAACATTGAGAGCGAAATTTATTGAA
* * * * *
29204587 TTTTAGAATTTGAACTAAAATAACAAGTTTTGTAAACATTGAGAGCTAAATTTGTTGGA
1 TTTTAGAACTAGAACTAAAATAACAAGTTTTGTAAACATTGAGAGCGAAATTTATTGAA
29204646 TTTT
1 TTTT
29204650 TTAGGTTTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
57 2 0.04
58 20 0.38
59 30 0.58
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.40
Consensus pattern (59 bp):
TTTTAGAACTAGAACTAAAATAACAAGTTTTGTAAACATTGAGAGCGAAATTTATTGAA
Found at i:29205970 original size:17 final size:17
Alignment explanation
Indices: 29205942--29205981 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
29205932 TAAAAAAACA
29205942 AAAAATATATGAAAATT
1 AAAAATATATGAAAATT
29205959 AGAAAATA-ATGAAAATT
1 A-AAAATATATGAAAATT
29205976 AAAAAT
1 AAAAAT
29205982 TTTAACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 11 0.50
18 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (17 bp):
AAAAATATATGAAAATT
Found at i:29222653 original size:82 final size:83
Alignment explanation
Indices: 29222558--29223083 Score: 539
Period size: 82 Copynumber: 6.4 Consensus size: 83
29222548 CGAAGAAAAT
* *
29222558 AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC--ACCTCA-AGTCTTATCTCCCTAAGCAGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAACCACAGA-TCTTATCTCCCTAAGCAGT
29222620 AGTGGAGCAGA-CAGAACCAC
64 AGTGGAGCAGATC-GAACCAC
** * * *
29222640 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA-AG-TCTTATCTCTCTAAGTAGTA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAACCACAGATCTTATCTCCCTAAGCAGTA
*
29222703 ATGGAGCAGA-CAGAACCAC
65 GTGGAGCAGATC-GAACCAC
* * ** *
29222722 AAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCA-AG-TCTTATCTCCCTAAGCAGTA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAACCACAGATCTTATCTCCCTAAGCAGTA
* *
29222785 GTAGAGCAGA-CAAAACCAC
65 GTGGAGCAGATC-GAACCAC
29222804 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AACCACAGATCTTATCTCCCTAAGCAGTA
* * * * * *
29222869 GCGAAACAAATCGCATCA-
65 GTGGAGCAGATCGAACCAC
* * *
29222887 AG-TCTTATCTCCCTAAGTAGTAGTGGAGCGGACAGAACCACAGATCTTATCTCCCTAAGTAGTA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AACCACAGATCTTATCTCCCTAAGCAGTA
*
29222951 GT-GACGCAGATCG--CCTC
65 GTGGA-GCAGATCGAACCAC
* *
29222968 A-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATTTTATCTCCTTAAGCAGT
1 AGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AACCACAGATCTTATCTCCCTAAGCAGT
* * *
29223032 AATGGAGCAGATCGCATCA-
64 AGTGGAGCAGATCGAACCAC
*
29223051 AG-TCTTATCTCCCTAAGCAGTAGCGGAGCAGAC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
29223084 TATAGATAGC
Statistics
Matches: 385, Mismatches: 44, Indels: 30
0.84 0.10 0.07
Matches are distributed among these distances:
80 1 0.00
81 3 0.01
82 341 0.89
83 8 0.02
84 31 0.08
85 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (83 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAACCACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAACCAC
Found at i:29222831 original size:164 final size:164
Alignment explanation
Indices: 29222560--29223082 Score: 596
Period size: 164 Copynumber: 3.2 Consensus size: 164
29222550 AAGAAAATAG
* * *
29222560 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACCTCAAGTCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT-G
* *
29222625 AGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG-TCTT
65 AGCAGACA-AACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAGATCTT
*
29222687 ATCTCTCTAAGTAGTAATGGAGCAGACAGAACCA-CAA
128 ATCTC-CTAAGCAGTAATGGAGCAGACAGAACCATCAA
*
29222724 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT-G
29222789 AGCAGACAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTA
65 AGCAGAC-AAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTA
29222854 TCTCCCTAAGCAGT-A-GCGA--A-ACA-AATCGCATCAA
129 TCT-CCTAAGCAGTAATG-GAGCAGACAGAA-C-CATCAA
* * * * * *
29222888 GTCTTATCTCCCTAAGTAGTAGTGGAGCGGA-CAGAACCACAGATCTTATCTCCCTAAGTAGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG-TCTTATCTCCCTAAGCAGTAG
* *
29222952 TGACGCAGATC--GCCTCA-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGAT
63 TGA-GCAGA-CAAACCACAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGAT
*
29223014 TTTATCTCCTTAAGCAGTAATGGAGCAGATC-G---CATCAA
125 CTTATCTCC-TAAGCAGTAATGGAGCAGA-CAGAACCATCAA
* *
29223052 GTCTTATCTCCCTAAGCAGTAGCGGAGCAGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
29223083 CTATAGATAG
Statistics
Matches: 315, Mismatches: 21, Indels: 46
0.82 0.05 0.12
Matches are distributed among these distances:
161 2 0.01
162 4 0.01
163 8 0.03
164 240 0.76
165 13 0.04
166 43 0.14
167 3 0.01
168 1 0.00
169 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (164 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGA
GCAGACAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATC
TCCTAAGCAGTAATGGAGCAGACAGAACCATCAA
Found at i:29222923 original size:206 final size:205
Alignment explanation
Indices: 29222561--29223075 Score: 756
Period size: 206 Copynumber: 2.5 Consensus size: 205
29222551 AGAAAATAGA
* *
29222561 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATC--ACCTCA-AGTCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAACCACAGA-TCTTATCTCCCTAAGCAGTAGT
* * * *
29222623 GGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTA
64 GGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGCGAAACAAATCGCATCAAGTCTTA
* *
29222688 TCTCTCTAAGTAGTAATGGAGCAGACAGAACCACAAATCTTATCTCCCTAAGCAGTAGTGGA-GT
129 TCTCCCTAAGTAGTAATGGAGCAGACAGAACCACAAATCTTATCTCCCTAAGCAGTAGT-GACGC
29222752 AGATCGCATCAAG
193 AGATCGCATCAAG
*
29222765 TCTTATCTCCCTAAGCAGTAGTAGAGCAGACAAAACCACAGATCTTATCTCCCTAAGCAGTAGTG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-AAACCACAGATCTTATCTCCCTAAGCAGTAGTG
29222830 GAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGCGAAACAAATCGCATCAAGTCTTAT
65 GAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGCGAAACAAATCGCATCAAGTCTTAT
* * * *
29222895 CTCCCTAAGTAGTAGTGGAGCGGACAGAACCACAGATCTTATCTCCCTAAGTAGTAGTGACGCAG
130 CTCCCTAAGTAGTAATGGAGCAGACAGAACCACAAATCTTATCTCCCTAAGCAGTAGTGACGCAG
*
29222960 ATCGCCTCAAG
195 ATCGCATCAAG
* * *
29222971 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATTTTATCTCCTTAAGCAGTAATG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACA-AACCACAGATCTTATCTCCCTAAGCAGTAGTG
* *
29223036 GAGCAGATC-GCATCA-AG-TCTTATCTCCCTAAGCAGTAGCG
65 GAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAGTAGCG
29223076 GAGCAGACTA
Statistics
Matches: 284, Mismatches: 20, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
203 1 0.00
204 51 0.18
205 5 0.02
206 225 0.79
207 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (205 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAACCACAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGCGAAACAAATCGCATCAAGTCTTATC
TCCCTAAGTAGTAATGGAGCAGACAGAACCACAAATCTTATCTCCCTAAGCAGTAGTGACGCAGA
TCGCATCAAG
Found at i:29227457 original size:23 final size:22
Alignment explanation
Indices: 29227431--29227999 Score: 515
Period size: 23 Copynumber: 25.1 Consensus size: 22
29227421 AAGTAAAATT
*
29227431 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
29227454 ATTAAATTAGGTTA-GGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
29227476 AGT--TTAGGGTTTATGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
29227498 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
29227521 ATTTAATTAGGTTAGAGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
29227544 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
29227567 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
29227590 A--ATTTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
29227612 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
29227635 AGT--TTAGGGTTTAGTGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
29227657 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
29227680 AGT--TTAGGGTTTAGTGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
29227702 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
29227725 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
29227748 AGTTAA--AGGGTTAGGGTTTTTA
1 A-TTAATTA-GGTTAGGGTTTTTA
*
29227770 AGTT--TAAGGTTTAGGGTTTTTA
1 A-TTAATTAGG-TTAGGGTTTTTA
29227792 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
29227815 ATTTAATTAGGTTAAGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
29227838 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
29227860 ATTAAATTAGGTTAGGGTTTATA
1 ATT-AATTAGGTTAGGGTTTTTA
*
29227883 ATTTAATTAGGTTAGGGTTCTTA
1 A-TTAATTAGGTTAGGGTTTTTA
29227906 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
29227929 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
29227952 AGT--TTAGAGTTTAAGGTTTTTA
1 ATTAATTAG-G-TTAGGGTTTTTA
29227974 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
29227997 ATT
1 ATT
29228000 TAAGGGTATT
Statistics
Matches: 458, Mismatches: 47, Indels: 82
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.01
20 13 0.03
21 15 0.03
22 120 0.26
23 264 0.58
24 23 0.05
25 20 0.04
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.49
Consensus pattern (22 bp):
ATTAATTAGGTTAGGGTTTTTA
Found at i:29227625 original size:45 final size:45
Alignment explanation
Indices: 29227513--29228016 Score: 373
Period size: 45 Copynumber: 11.1 Consensus size: 45
29227503 ATTAGGTTAG
* * * *
29227513 GGTTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTAATTA-GG-TTAG
1 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAA---ATTTAGGGTTTAA
***
29227559 GGTTTTTAAGTT-AAGGGGGTTAGGGTTTTTAAATTTAGGGTTTAA
1 GGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAATTTAGGGTTTAA
*
29227604 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGGGTTT-A
1 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAAATTTAGGGTTTAA
*
29227648 GTGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGGGTTT-A
1 G-GTTTTTAATTAAATTAGGTTAGGGTTTTTAAATTTAGGGTTTAA
* *
29227693 GTGTTTTTAATTAAATTAGGTTAGGGTTTTT-AATTTAATTAGG-TTAG
1 G-GTTTTTAATTAAATTAGGTTAGGGTTTTTAAATTT-A--GGGTTTAA
* * * *
29227740 GGTTTTTAAGTTAAA--GGGTTAGGGTTTTTAAGTTTAAGGTTTAG
1 GGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAATTTAGGGTTTAA
* *
29227784 GGTTTTTAATTTAATTAGGTTAGGGTTTTT-AATTTAATTAGG-TTAA
1 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAAATTT-A--GGGTTTAA
* * *
29227830 GGTTTTTAAGT---TTAGGGTTTAGGGTTTTTAATTAAATTA-GG-TTAG
1 GGTTTTTAATTAAATTA-GG-TTAGGGTTTTT-A--AATTTAGGGTTTAA
* * * * *
29227875 GGTTTATAATTTAATTAGGTTAGGGTTCTT-AATTTAATTAGG-TTAG
1 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAAATTT-A--GGGTTTAA
*** * *
29227921 GGTTTTTAAGTT-AAGGGGGTTAGGGTTTTTAAGTTTAGAGTTTAA
1 GGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAATTTAGGGTTTAA
29227966 GGTTTTTAATTAAATTAGGTTAGGGTTTTT-AATTTAAGGGTATTAA
1 GGTTTTTAATTAAATTAGGTTAGGGTTTTTAAATTT-AGGGT-TTAA
29228012 TGGTT
1 -GGTT
29228017 AGTAGAATTC
Statistics
Matches: 381, Mismatches: 40, Indels: 73
0.77 0.08 0.15
Matches are distributed among these distances:
42 4 0.01
43 15 0.04
44 36 0.09
45 198 0.52
46 95 0.25
47 25 0.07
48 4 0.01
49 4 0.01
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (45 bp):
GGTTTTTAATTAAATTAGGTTAGGGTTTTTAAATTTAGGGTTTAA
Found at i:29227738 original size:158 final size:157
Alignment explanation
Indices: 29227434--29228006 Score: 672
Period size: 158 Copynumber: 3.6 Consensus size: 157
29227424 TAAAATTATT
*
29227434 AATTTA-GTTTAGGGTTTTTAA-TTAAATTAGGTTA-GGTTTTTAAGTTTAGGGTTTA-TGGTTT
1 AATTTAGGGTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGT-GTTT
*
29227495 TTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGG-TTAGAGTTTTTAAGTT-AATTAGGTTA
64 TTAATTAAATTAGGTTAGGGTTTTTAATTTAA--GGGTTTAGAGTTTTTAA-TTAAATTAGGTTA
* ***
29227558 GGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTA
126 GGGTTTTTAATTTAATTAGGTTAGGGTTTTTA
*
29227590 AATTTAGGGTTTAAGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGTGTTT
1 AATTTAGGG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGTGTTT
*
29227654 TTAATTAAATTAGGTTAGGGTTTTTAAGTTT-AGGGTTTAGTGTTTTTAATTAAATTAGGTTAGG
64 TTAATTAAATTAGGTTAGGGTTTTTAA-TTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGG
29227718 GTTTTTAATTTAATTAGGTTAGGGTTTTTA
128 GTTTTTAATTTAATTAGGTTAGGGTTTTTA
* * * * *
29227748 AGTTAAAGGGTTAGGGTTTTTAAGTT--TAAGGTTTAGGGTTTTTAA-TTTAATTAGG-TTAGGG
1 AATT-TAGGGTTAGGGTTTTTAAGTTAATTAGG-TTAGGGTTTTTAAGTTT-A--GGGTTTAGTG
* * *
29227809 TTTTTAATTTAATTAGGTTAAGGTTTTTAAGTTT-AGGGTTTAGGGTTTTTAATTAAATTAGGTT
61 TTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTT
* *
29227873 AGGGTTTATAATTTAATTAGGTTAGGGTTCTT-
125 AGGGTTTTTAATTTAATTAGGTTAGGGTTTTTA
* *** *
29227905 AATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGAGTTTAAG-GT
1 AATTT-A--GGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTT-AGTGT
29227969 TTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGT
62 TTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGGT
29228007 ATTAATGGTT
Statistics
Matches: 366, Mismatches: 29, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
156 13 0.04
157 23 0.06
158 190 0.52
159 115 0.31
160 20 0.05
161 5 0.01
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (157 bp):
AATTTAGGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGTGTTTTT
AATTAAATTAGGTTAGGGTTTTTAATTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTT
TTTAATTTAATTAGGTTAGGGTTTTTA
Found at i:29228003 original size:68 final size:67
Alignment explanation
Indices: 29227431--29228002 Score: 528
Period size: 68 Copynumber: 8.4 Consensus size: 67
29227421 AAGTAAAATT
* * *
29227431 ATTAATTTAGTTTAGGGTTTTTAATTAAATTAGGTTA-GGTTTTTAAGTTTAG-GGTTTATGGTT
1 ATTAA-TTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGAGG-TTAGGGTT
29227494 TTTA
64 TTTA
* * *
29227498 ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTAATTAGGTTAGGGTT
1 ATT-AATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTA-GAGGTTAGGGTT
29227563 TTTA
64 TTTA
*** * * * *
29227567 AGTTAAGGGGGTTAGGGTTTTTAAATTT-A--GGGTTTAAGGTTTTTAA-TTAAATTAGGTTAGG
1 A-TTAATTAGGTTAGGGTTTTT-AATTTAATTAGG-TTAGGGTTTTTAAGTT-TA-GAGGTTAGG
29227628 GTTTTTA
61 GTTTTTA
* * * *
29227635 AGT--TTAGGGTTTAGTGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAG-GGTTTAGTGT
1 ATTAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGAGG-TTAGGGT
29227697 TTTTA
63 TTTTA
*
29227702 ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG-TTAAAGGGTTAGGGTT
1 ATT-AATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGA-GGTTAGGGTT
29227766 TTTA
64 TTTA
* * *
29227770 AGTT--TAAGGTTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTTAATTAGGTTAAGG
1 A-TTAATTAGG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTT-A-GAGGTTAGGG
29227832 TTTTTA
62 TTTTTA
* * * *
29227838 AGT--TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTATAA-TTTAATTAGGTTAGGG
1 ATTAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTT-A-GAGGTTAGGG
*
29227900 TTCTTA
62 TTTTTA
* *** * *
29227906 ATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGAGTTTAAGGTTT
1 A-TTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGAGGTTAGGGTTT
29227971 TTA
65 TTA
29227974 ATTAAATTAGGTTAGGGTTTTTAATTTAA
1 ATT-AATTAGGTTAGGGTTTTTAATTTAA
29228003 GGGTATTAAT
Statistics
Matches: 425, Mismatches: 49, Indels: 61
0.79 0.09 0.11
Matches are distributed among these distances:
66 12 0.03
67 107 0.25
68 215 0.51
69 71 0.17
70 17 0.04
71 3 0.01
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (67 bp):
ATTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGAGGTTAGGGTTTT
TA
Found at i:29228083 original size:24 final size:25
Alignment explanation
Indices: 29228041--29228091 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
29228031 ATAATATAAA
29228041 AAATTTCTATTTTATTACATCAAAT
1 AAATTTCTATTTTATTACATCAAAT
29228066 AAATTTCTA-TTTATTACATCAAAT
1 AAATTTCTATTTTATTACATCAAAT
29228090 AA
1 AA
29228092 TATCAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (25 bp):
AAATTTCTATTTTATTACATCAAAT
Found at i:29228888 original size:7 final size:7
Alignment explanation
Indices: 29228878--29228902 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29228868 TTATATACAT
29228878 AATACTA
1 AATACTA
29228885 AATACTA
1 AATACTA
29228892 AATACTA
1 AATACTA
29228899 AATA
1 AATA
29228903 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:29230560 original size:18 final size:18
Alignment explanation
Indices: 29230539--29230618 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 18
29230529 AAAAATGCAG
29230539 AAAAACTAGAAAATTATT
1 AAAAACTAGAAAATTATT
29230557 AAAAATCATA-AAAATTA--
1 AAAAA-C-TAGAAAATTATT
29230574 AATAAATCTACGAAAA-TATTT
1 AA-AAA-CTA-GAAAATTA-TT
* *
29230595 AATAACTAGAAAAATATT
1 AAAAACTAGAAAATTATT
29230613 AAAAAC
1 AAAAAC
29230619 ATTAAAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
17 4 0.08
18 24 0.47
19 17 0.33
20 4 0.08
21 2 0.04
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAAACTAGAAAATTATT
Found at i:29230561 original size:19 final size:19
Alignment explanation
Indices: 29230539--29230617 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
29230529 AAAAATGCAG
29230539 AAAAACTAGAAAATTATTA
1 AAAAACTAGAAAATTATTA
*
29230558 AAAATCATA-AAAATTA--A
1 AAAAAC-TAGAAAATTATTA
* *
29230575 ATAAATCTACGAAAA-TATTT
1 A-AAAACTA-GAAAATTATTA
* *
29230595 AATAACTAGAAAAATATTA
1 AAAAACTAGAAAATTATTA
29230614 AAAA
1 AAAA
29230618 CATTAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
17 4 0.09
18 12 0.26
19 28 0.60
20 3 0.06
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAAACTAGAAAATTATTA
Found at i:29230954 original size:15 final size:16
Alignment explanation
Indices: 29230934--29230969 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
29230924 TCCTTTATTG
29230934 TTATTTTAAT-AATTT
1 TTATTTTAATGAATTT
29230949 TTATTTTTAATGAATTT
1 TTA-TTTTAATGAATTT
29230966 TTAT
1 TTAT
29230970 GGTTTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 8 0.42
17 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTATTTTAATGAATTT
Found at i:29230958 original size:16 final size:17
Alignment explanation
Indices: 29230937--29230969 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29230927 TTTATTGTTA
29230937 TTTTAAT-AATTTTTAT
1 TTTTAATGAATTTTTAT
29230953 TTTTAATGAATTTTTAT
1 TTTTAATGAATTTTTAT
29230970 GGTTTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTAATGAATTTTTAT
Found at i:29233690 original size:18 final size:18
Alignment explanation
Indices: 29233667--29233703 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
29233657 CAAATGAATC
*
29233667 ATTTCCATTTTCATTTTT
1 ATTTCCATTTCCATTTTT
29233685 ATTTCCATTTCCATTTTT
1 ATTTCCATTTCCATTTTT
29233703 A
1 A
29233704 GAAACATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTT
Found at i:29236564 original size:22 final size:22
Alignment explanation
Indices: 29236533--29236592 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
29236523 TTTTGCACAC
*
29236533 TAGTGCTCTCTGTTTAGCACATT
1 TAGTGATCTCTGTTTAGCAC-TT
*
29236556 T-GTGATCTCTGTATAGCACTT
1 TAGTGATCTCTGTTTAGCACTT
*
29236577 TAGTGCTCTCTGTTTA
1 TAGTGATCTCTGTTTA
29236593 CTAGTGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.09
22 28 0.88
23 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (22 bp):
TAGTGATCTCTGTTTAGCACTT
Found at i:29239358 original size:13 final size:14
Alignment explanation
Indices: 29239324--29239358 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
29239314 TAAGCTGAAG
*
29239324 AGACACTTGCAATA
1 AGACACATGCAATA
29239338 AGACACATGCAATA
1 AGACACATGCAATA
29239352 A-ACACAT
1 AGACACAT
29239359 TAAAATGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (14 bp):
AGACACATGCAATA
Found at i:29239805 original size:50 final size:52
Alignment explanation
Indices: 29239679--29239810 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 52
29239669 ATGAACAAAT
* *
29239679 GAGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATAG
1 GAGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATAG
** * * *
29239731 GAGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCAT-G
1 GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATAG
*
29239780 GAAGTTACATAATGCATAACTTTATTAAATG
1 G-AGTTACATAATGCATAACTTTATTTAATG
29239811 CAGAACACAT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
49 2 0.03
50 29 0.44
51 15 0.23
52 20 0.30
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (52 bp):
GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATAG
Found at i:29241513 original size:20 final size:20
Alignment explanation
Indices: 29241490--29241532 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
29241480 GTGTTTGTTT
29241490 TGTAAGAATATGGATCCTTA
1 TGTAAGAATATGGATCCTTA
29241510 TGTAAGAATATGGATCCTTA
1 TGTAAGAATATGGATCCTTA
29241530 TGT
1 TGT
29241533 TTGGTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (20 bp):
TGTAAGAATATGGATCCTTA
Found at i:29243914 original size:49 final size:49
Alignment explanation
Indices: 29243861--29243962 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
29243851 AAATATGGGT
* * * * *
29243861 CACACGTCCGTGTGGCC-CACACGGCCTACATGAATTTTCCATGTTATCG
1 CACACGCCCATGT-GCCTCACACGGCCTACATGAATTTCCCATGTAACCG
* *
29243910 CACACGCCCATGTGCCTCACACGGCTTACTTGAATTTCCCATGTAACCG
1 CACACGCCCATGTGCCTCACACGGCCTACATGAATTTCCCATGTAACCG
29243959 CACA
1 CACA
29243963 TGCCTGTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.07
49 42 0.93
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (49 bp):
CACACGCCCATGTGCCTCACACGGCCTACATGAATTTCCCATGTAACCG
Found at i:29246075 original size:17 final size:17
Alignment explanation
Indices: 29246053--29246098 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
29246043 TGTGTTATAG
*
29246053 TAATTTTGGGTTTAAAT
1 TAATTTTGAGTTTAAAT
*
29246070 TAATTTTGACTTTAAAT
1 TAATTTTGAGTTTAAAT
29246087 T-ATTTTGAGTTT
1 TAATTTTGAGTTT
29246099 GTGTCACCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (17 bp):
TAATTTTGAGTTTAAAT
Found at i:29247402 original size:177 final size:176
Alignment explanation
Indices: 29247111--29247440 Score: 444
Period size: 177 Copynumber: 1.9 Consensus size: 176
29247101 ATATTCAGTT
* * * *
29247111 TCTACACTTTAATTTTTACATAATTTAGACATCTGCCCGTTCTTTTTTCTTTTCTTTTGACATGA
1 TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTCTTTTTTCTTTTCTTTTGACATGA
* * *** *
29247176 AAAAATAATGGTTAAATTTCAGTTCTAACCCCTCTACCTTCTCAAGATTATATAAGAACGGTTAA
66 AAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTAA
* *
29247241 ATTTTAGTTTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
131 ATTTCAGTGTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
* * *
29247287 TCTATACTTTTATTTTGACATAATTTAGACACCTGACTATTCTTTTTTTCTTTTCTTTTGACATG
1 TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTC-TTTTTTCTTTTCTTTTGACATG
* * ** * * *
29247352 AGAAAATAATGGCTAAATTTCAGGTCTAATCCAAATATTTTTTTAAGATTATATAAGAATGATTA
65 AAAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTA
*
29247417 AATTTCAGTGTTGATCCCTATATT
130 AATTTCAGTGTTGAGCCCTATATT
29247441 CCAGTTGAAT
Statistics
Matches: 130, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
176 35 0.27
177 95 0.73
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (176 bp):
TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTCTTTTTTCTTTTCTTTTGACATGA
AAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTAA
ATTTCAGTGTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
Found at i:29249662 original size:12 final size:12
Alignment explanation
Indices: 29249645--29249674 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
29249635 ACTTCATTTG
29249645 AATATTTTTATA
1 AATATTTTTATA
29249657 AATATTTTTATA
1 AATATTTTTATA
29249669 AATATT
1 AATATT
29249675 AGACTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATATTTTTATA
Found at i:29250774 original size:6 final size:6
Alignment explanation
Indices: 29250756--29250791 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
29250746 AGAAGTGAAT
* *
29250756 TTTTGC TTTTAC TTCTAC TTTTAC TTTTAC TTTTAC
1 TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC
29250792 CAATTCTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.14, C:0.19, G:0.03, T:0.64
Consensus pattern (6 bp):
TTTTAC
Found at i:29251177 original size:20 final size:20
Alignment explanation
Indices: 29251148--29251198 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
29251138 TAATATATAT
* *
29251148 AAATACATAAAT-ATTTTCAA
1 AAATATATAAATAAATTT-AA
29251168 AAATATAT-AATAAATTTAA
1 AAATATATAAATAAATTTAA
*
29251187 ATATATATAAAT
1 AAATATATAAAT
29251199 TATAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATATAAATAAATTTAA
Found at i:29251198 original size:16 final size:17
Alignment explanation
Indices: 29251168--29251213 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
29251158 ATATTTTCAA
29251168 AAATATATAATAAATT-T
1 AAATATAT-ATAAATTAT
29251185 AAATATATATAAATTAT
1 AAATATATATAAATTAT
*
29251202 AAAAAT-TATAAA
1 AAATATATATAAA
29251214 GATAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATATATAAATTAT
Found at i:29251222 original size:26 final size:25
Alignment explanation
Indices: 29251168--29251231 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
29251158 ATATTTTCAA
* *
29251168 AAATATATAATAAATTTAAATATATAT
1 AAAT-TATAA-AAATTTAAAGATAAAT
29251195 AAATTATAAAAATTATAAAGATAAAT
1 AAATTATAAAAATT-TAAAGATAAAT
29251221 AAA-TA-AAAAAT
1 AAATTATAAAAAT
29251232 AAAAAACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 6 0.18
25 7 0.21
26 17 0.50
27 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATTATAAAAATTTAAAGATAAAT
Found at i:29251275 original size:16 final size:16
Alignment explanation
Indices: 29251254--29251292 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
29251244 CTTATATTAT
29251254 TCTTTTTTTTTCCTTC
1 TCTTTTTTTTTCCTTC
* * *
29251270 TCTTTTCTTTTCTTTT
1 TCTTTTTTTTTCCTTC
29251286 TCTTTTT
1 TCTTTTT
29251293 CCTAATTGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TCTTTTTTTTTCCTTC
Found at i:29259106 original size:39 final size:40
Alignment explanation
Indices: 29259011--29259233 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
29259001 TTGAATGATG
*
29259011 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
29259049 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
29259090 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
29259129 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
29259168 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
29259207 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29259234 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
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:29259197 original size:79 final size:81
Alignment explanation
Indices: 29259011--29259233 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
29259001 TTGAATGATG
* * *
29259011 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
29259072 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
29259090 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
29259152 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
29259168 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
29259232 TG
66 TG
29259234 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:29259255 original size:79 final size:79
Alignment explanation
Indices: 29259011--29259266 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
29259001 TTGAATGATG
* * * *
29259011 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
29259072 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
29259090 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
29259154 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
29259168 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
29259232 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
29259248 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29259267 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:29261380 original size:12 final size:12
Alignment explanation
Indices: 29261365--29261389 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29261355 AGAAAAGAAA
29261365 ATTGAAAATGAG
1 ATTGAAAATGAG
29261377 ATTGAAAATGAG
1 ATTGAAAATGAG
29261389 A
1 A
29261390 GTGCAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
ATTGAAAATGAG
Found at i:29262833 original size:293 final size:293
Alignment explanation
Indices: 29262306--29262891 Score: 1172
Period size: 293 Copynumber: 2.0 Consensus size: 293
29262296 GCGATGAATG
29262306 CAAGAATAAAGTTAATACAAATTGCGATACTAATCTGCAAACAAATGAAATTGTAATCCATCGTC
1 CAAGAATAAAGTTAATACAAATTGCGATACTAATCTGCAAACAAATGAAATTGTAATCCATCGTC
29262371 CTTGGCACTTTTTGACTACGCAAGATGAAAACCCATATAAATCTTTCTCTGAGATTGATCGTGTT
66 CTTGGCACTTTTTGACTACGCAAGATGAAAACCCATATAAATCTTTCTCTGAGATTGATCGTGTT
29262436 GAAAATGCATGGAAAACTGTTGAGTTTGATTGTGTGCGAAAATGTATGATTAATTGTCATTTGAA
131 GAAAATGCATGGAAAACTGTTGAGTTTGATTGTGTGCGAAAATGTATGATTAATTGTCATTTGAA
29262501 CCGATTGAGTTCATTTGTTTGCAATAATGACATATCAAGACTGTTTGATAATTTGAGGTATGCAA
196 CCGATTGAGTTCATTTGTTTGCAATAATGACATATCAAGACTGTTTGATAATTTGAGGTATGCAA
29262566 GTTTAGACCGAATAAGACTTTGGATGCATGACT
261 GTTTAGACCGAATAAGACTTTGGATGCATGACT
29262599 CAAGAATAAAGTTAATACAAATTGCGATACTAATCTGCAAACAAATGAAATTGTAATCCATCGTC
1 CAAGAATAAAGTTAATACAAATTGCGATACTAATCTGCAAACAAATGAAATTGTAATCCATCGTC
29262664 CTTGGCACTTTTTGACTACGCAAGATGAAAACCCATATAAATCTTTCTCTGAGATTGATCGTGTT
66 CTTGGCACTTTTTGACTACGCAAGATGAAAACCCATATAAATCTTTCTCTGAGATTGATCGTGTT
29262729 GAAAATGCATGGAAAACTGTTGAGTTTGATTGTGTGCGAAAATGTATGATTAATTGTCATTTGAA
131 GAAAATGCATGGAAAACTGTTGAGTTTGATTGTGTGCGAAAATGTATGATTAATTGTCATTTGAA
29262794 CCGATTGAGTTCATTTGTTTGCAATAATGACATATCAAGACTGTTTGATAATTTGAGGTATGCAA
196 CCGATTGAGTTCATTTGTTTGCAATAATGACATATCAAGACTGTTTGATAATTTGAGGTATGCAA
29262859 GTTTAGACCGAATAAGACTTTGGATGCATGACT
261 GTTTAGACCGAATAAGACTTTGGATGCATGACT
29262892 GATTGAATGA
Statistics
Matches: 293, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
293 293 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (293 bp):
CAAGAATAAAGTTAATACAAATTGCGATACTAATCTGCAAACAAATGAAATTGTAATCCATCGTC
CTTGGCACTTTTTGACTACGCAAGATGAAAACCCATATAAATCTTTCTCTGAGATTGATCGTGTT
GAAAATGCATGGAAAACTGTTGAGTTTGATTGTGTGCGAAAATGTATGATTAATTGTCATTTGAA
CCGATTGAGTTCATTTGTTTGCAATAATGACATATCAAGACTGTTTGATAATTTGAGGTATGCAA
GTTTAGACCGAATAAGACTTTGGATGCATGACT
Found at i:29263453 original size:20 final size:20
Alignment explanation
Indices: 29263428--29263503 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
29263418 TTCATGTGGT
29263428 TCAGCTCACTT-GAGCTCAAG
1 TCAGCTCA-TTCGAGCTCAAG
29263448 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCATTCGAGCTCAAG
*
29263468 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
29263488 TCAGCTCATT-GAGCTC
1 TCAGCTCATTCGAGCTC
29263504 GTTATTAGCT
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
19 8 0.15
20 46 0.85
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:29267957 original size:18 final size:19
Alignment explanation
Indices: 29267934--29267975 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
29267924 AACCTATAAC
* *
29267934 AAATAAATAC-ACTAAGTT
1 AAATAAAGACTACTAAGTA
29267952 AAAT-AAGACTACTAAGTA
1 AAATAAAGACTACTAAGTA
29267970 AAATAA
1 AAATAA
29267976 CCAAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 15 0.75
19 1 0.05
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.24
Consensus pattern (19 bp):
AAATAAAGACTACTAAGTA
Found at i:29276555 original size:20 final size:20
Alignment explanation
Indices: 29276497--29276565 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
29276487 AGATAAAATG
* *
29276497 CCAGAAATGTGGACAAGCCA
1 CCAGTAATGTGGACAAGCTA
* * ** * *
29276517 CTAGTATTGCAGACGAGCTG
1 CCAGTAATGTGGACAAGCTA
29276537 CCAGTAATGTGGACAAGCTA
1 CCAGTAATGTGGACAAGCTA
*
29276557 CCAATAATG
1 CCAGTAATG
29276566 CAGATAAATT
Statistics
Matches: 34, Mismatches: 15, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (20 bp):
CCAGTAATGTGGACAAGCTA
Found at i:29276568 original size:40 final size:40
Alignment explanation
Indices: 29276464--29276622 Score: 140
Period size: 40 Copynumber: 4.0 Consensus size: 40
29276454 CACATCAATT
* * * * ** *
29276464 TGTGGATAAGCCACCAACAATACAGATAAAATGCCAGAAA
1 TGTGGACAAGCCACCAATAATGCAGACAAGCTGCCAGTAA
* * * *
29276504 TGTGGACAAGCCACTAGTATTGCAGACGAGCTGCCAGTAA
1 TGTGGACAAGCCACCAATAATGCAGACAAGCTGCCAGTAA
* * ** * *
29276544 TGTGGACAAGCTACCAATAATGCAGATAAATTGCCAATAT
1 TGTGGACAAGCCACCAATAATGCAGACAAGCTGCCAGTAA
*
29276584 TGTGGACAAGCCACCAA-AATTGCAAACAAGCTGCCAGTA
1 TGTGGACAAGCCACCAATAA-TGCAGACAAGCTGCCAGTA
29276623 CTTCTTCCTT
Statistics
Matches: 91, Mismatches: 27, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
39 2 0.02
40 89 0.98
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (40 bp):
TGTGGACAAGCCACCAATAATGCAGACAAGCTGCCAGTAA
Found at i:29276597 original size:80 final size:80
Alignment explanation
Indices: 29276464--29276622 Score: 203
Period size: 80 Copynumber: 2.0 Consensus size: 80
29276454 CACATCAATT
* * ** *
29276464 TGTGGATAAGCCACCAACAATACAGATAAAATGCCAGAAATGTGGACAAGCCACTAGTATTGCAG
1 TGTGGACAAGCCACCAACAATACAGATAAAATGCCAGAAATGTGGACAAGCCACCAAAATTGCAA
*
29276529 ACGAGCTGCCAGTAA
66 ACAAGCTGCCAGTAA
* * * * *
29276544 TGTGGACAAGCTACCAATAATGCAGATAAATTGCCA-ATATTGTGGACAAGCCACCAAAATTGCA
1 TGTGGACAAGCCACCAACAATACAGATAAAATGCCAGA-AATGTGGACAAGCCACCAAAATTGCA
29276608 AACAAGCTGCCAGTA
65 AACAAGCTGCCAGTA
29276623 CTTCTTCCTT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.99
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (80 bp):
TGTGGACAAGCCACCAACAATACAGATAAAATGCCAGAAATGTGGACAAGCCACCAAAATTGCAA
ACAAGCTGCCAGTAA
Found at i:29280251 original size:34 final size:34
Alignment explanation
Indices: 29280186--29280252 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
29280176 GTTGGGTCTT
* * *
29280186 AGCCCATTACAGTGACAGTAAATTATTGGGCTTG
1 AGCCCATCACAATGACAGTAAATTATAGGGCTTG
*
29280220 AGCCCATCACAATGCCAGT-AATTAGTAGGGCTT
1 AGCCCATCACAATGACAGTAAATTA-TAGGGCTT
29280253 TTGCCTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (34 bp):
AGCCCATCACAATGACAGTAAATTATAGGGCTTG
Found at i:29280794 original size:27 final size:27
Alignment explanation
Indices: 29280764--29281056 Score: 326
Period size: 27 Copynumber: 10.8 Consensus size: 27
29280754 TCATCTACAA
* *
29280764 GGGGTATATCAGTCATTTTACCATATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
29280791 GGGGTATTTCGGTCATTTTACCCTAT-
1 GGGGTATTTCAGTCATTTTACCCTATG
** * *
29280817 AAGGTATTTCGGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
29280844 AGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
** * *
29280871 GGATTATTTC-GATCATTATTACCTTACG
1 GGGGTATTTCAG-TCATT-TTACCCTATG
29280899 GGGGTATTTCTA-TCATTTTTACCCTATG
1 GGGGTATTTC-AGTCA-TTTTACCCTATG
29280927 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
29280954 AGGCTATTTCGGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
29280981 GGGGTATTTCGGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
29281008 GGGGTATTTC-GATCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
*
29281035 AGGGTATTTC-GATCATTTTACC
1 GGGGTATTTCAG-TCATTTTACC
29281057 TATTTTGGGG
Statistics
Matches: 230, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
26 25 0.11
27 163 0.71
28 40 0.17
29 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:29281024 original size:137 final size:135
Alignment explanation
Indices: 29280779--29281053 Score: 406
Period size: 136 Copynumber: 2.0 Consensus size: 135
29280769 ATATCAGTCA
* *
29280779 TTTTACCATATGGGGGTATTTCGGTCATTTTACCCTATAAGGTATTTCGGTTATTTTACCCTATG
1 TTTTACCATATGGGGGTATTTCAGTCATTTTACCCTATAAGGTATTTCGGTCATTTTACCCTATG
* * *
29280844 AGGGTATTTCAGTCATTTTACCCTATGGGATTATTTCGATCATTATTACCTTACGGGGGTATTTC
66 AGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATT-TTACCCTACGAGGGTATTTC
*
29280909 TATCAT
130 GATCAT
* * *
29280915 TTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGCTATTTCGGTCATTTTATCCTAT
1 TTTTACCATATGGGGGTATTTCAGTCATTTTACCCTATAAGG-TATTTCGGTCATTTTACCCTAT
* * * * *
29280980 GGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTC
65 GAGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTACGAGGGTATTTC
29281045 GATCAT
130 GATCAT
29281051 TTT
1 TTT
29281054 ACCTATTTTG
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
136 64 0.52
137 60 0.48
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (135 bp):
TTTTACCATATGGGGGTATTTCAGTCATTTTACCCTATAAGGTATTTCGGTCATTTTACCCTATG
AGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTACGAGGGTATTTCG
ATCAT
Found at i:29281066 original size:137 final size:135
Alignment explanation
Indices: 29280776--29281060 Score: 396
Period size: 137 Copynumber: 2.1 Consensus size: 135
29280766 GGTATATCAG
* *
29280776 TCATTTTACC-ATATGGGGGTATTTCGGTCATTTTACCCTATAAGGTATTTCGGTTATTTTACCC
1 TCATTTTACCTAT-TGGGGGTATTTCAGTCATTTTACCCTATAAGGTATTTCGGTCATTTTACCC
* * *
29280840 TATGAGGGTATTTCAGTCATTTTACCCTATGGGATTATTTCGATCATTATTACCTTACGGGGGTA
65 TATGAGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTATTACCCTACGAGGGTA
*
29280905 TTTCTA
130 TTTCGA
* *
29280911 TCATTTTTACCCTA-TGGGGGTATTTCAGTCATTTTACCCTATGAGGCTATTTCGGTCATTTTAT
1 TCA-TTTTA-CCTATTGGGGGTATTTCAGTCATTTTACCCTATAAGG-TATTTCGGTCATTTTAC
* * * * *
29280975 CCTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCGATCATT-TTACCCTATGAGGG
63 CCTATGAGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTATTACCCTACGAGGG
29281039 TATTTCGA
128 TATTTCGA
29281047 TCATTTTACCTATT
1 TCATTTTACCTATT
29281061 TTGGGGTCTC
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
134 4 0.03
135 9 0.07
136 56 0.42
137 62 0.47
138 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.44
Consensus pattern (135 bp):
TCATTTTACCTATTGGGGGTATTTCAGTCATTTTACCCTATAAGGTATTTCGGTCATTTTACCCT
ATGAGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTATTACCCTACGAGGGTAT
TTCGA
Found at i:29283624 original size:29 final size:29
Alignment explanation
Indices: 29283577--29283636 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
29283567 AACACACAAC
29283577 CAACCACCAGACCAACAGGCCCATTCGGA
1 CAACCACCAGACCAACAGGCCCATTCGGA
* * *
29283606 CAACCACCAGACTAGCAGGCCCATTCTGA
1 CAACCACCAGACCAACAGGCCCATTCGGA
29283635 CA
1 CA
29283637 CTAGAATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.40, G:0.17, T:0.10
Consensus pattern (29 bp):
CAACCACCAGACCAACAGGCCCATTCGGA
Found at i:29291768 original size:22 final size:21
Alignment explanation
Indices: 29291734--29291774 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
29291724 ACACCTATGT
*
29291734 GGAGGGGTACATGCCCGTGCG
1 GGAGGGGCACATGCCCGTGCG
29291755 GGAGGAGGCACATGCCCGTG
1 GGAGG-GGCACATGCCCGTG
29291775 TGACCTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.17, C:0.24, G:0.46, T:0.12
Consensus pattern (21 bp):
GGAGGGGCACATGCCCGTGCG
Done.