Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 234 of 250
Found at i:72220304 original size:21 final size:22
Alignment explanation
Indices: 72220275--72220321 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
72220265 CAGAAGGAGT
*
72220275 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
72220297 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
72220318 GAGT
1 GAGT
72220322 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:72222442 original size:18 final size:18
Alignment explanation
Indices: 72222401--72222445 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
72222391 ATATAATTGT
*
72222401 AATAATTTTTAATCATTT
1 AATAATTTTTAATCATTA
* **
72222419 ATTAATTTTTAATTGTTA
1 AATAATTTTTAATCATTA
72222437 AATAATTTT
1 AATAATTTT
72222446 AAAAACTTCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
AATAATTTTTAATCATTA
Found at i:72222584 original size:21 final size:21
Alignment explanation
Indices: 72222560--72222612 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
72222550 CGCTGTTTCT
* *
72222560 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
72222581 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
72222602 AATCTCACCGC
1 AATCTCACCGC
72222613 CACCACTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:72227869 original size:16 final size:16
Alignment explanation
Indices: 72227821--72227869 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
72227811 ATTTTTAAAA
*
72227821 AATAATAATATTTTTT
1 AATAAAAATATTTTTT
* *
72227837 AATATTTAAATAATTTTT
1 AATA--AAAATATTTTTT
72227855 AATAAAAATATTTTT
1 AATAAAAATATTTTT
72227870 CGTATTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 13 0.50
18 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAAAAATATTTTTT
Found at i:72228104 original size:22 final size:23
Alignment explanation
Indices: 72228070--72228130 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
72228060 AAATTAAATA
* * *
72228070 TTATTTAAATAAATACTCATA-T
1 TTATATAATTAAATACTAATATT
*
72228092 TTATATAATTAAAATATTAATATT
1 TTATATAATT-AAATACTAATATT
*
72228116 TTATATAATAAAATA
1 TTATATAATTAAATA
72228131 TTTATTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 8 0.25
23 14 0.44
24 10 0.31
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (23 bp):
TTATATAATTAAATACTAATATT
Found at i:72228114 original size:23 final size:23
Alignment explanation
Indices: 72228088--72228180 Score: 81
Period size: 24 Copynumber: 4.2 Consensus size: 23
72228078 ATAAATACTC
72228088 ATATTTATATAATTAAAATATTA
1 ATATTTATATAATTAAAATATTA
72228111 ATATTTTATATAA-TAAAATATTTA
1 ATA-TTTATATAATTAAAATA-TTA
* **
72228135 TTATATT-TATAATTGTAATA-TA
1 ATAT-TTATATAATTAAAATATTA
*
72228157 A-ATTTAT-T-ATTAAAATATTG
1 ATATTTATATAATTAAAATATTA
72228177 ATAT
1 ATAT
72228181 AGATATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
19 7 0.12
20 5 0.09
21 5 0.09
22 2 0.04
23 16 0.29
24 21 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTATATAATTAAAATATTA
Found at i:72228241 original size:15 final size:16
Alignment explanation
Indices: 72228221--72228250 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72228211 TATTTAAAAT
72228221 TTAAAA-TTATTATTG
1 TTAAAATTTATTATTG
72228236 TTAAAATTTATTATT
1 TTAAAATTTATTATT
72228251 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTG
Found at i:72228269 original size:19 final size:18
Alignment explanation
Indices: 72228237--72228272 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
72228227 TTATTATTGT
*
72228237 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
72228255 TAAAATTGTAATATTAAA
1 TAAAATT-TAATATTAAA
72228273 TTATATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:72228304 original size:22 final size:22
Alignment explanation
Indices: 72228240--72228306 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
72228230 TTATTGTTAA
72228240 AATT-TATTATTAAA-AT-AA-
1 AATTATATTATTAAATATAAAT
* * *
72228258 AATTGTAATATTAAAT-TATATT
1 AATTATATTATTAAATATA-AAT
72228280 AATTATATTATTAAATATAAAT
1 AATTATATTATTAAATATAAAT
72228302 AATTA
1 AATTA
72228307 AATAGGTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 4 0.11
19 10 0.26
21 1 0.03
22 21 0.55
23 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
AATTATATTATTAAATATAAAT
Found at i:72233120 original size:45 final size:45
Alignment explanation
Indices: 72233070--72233159 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
72233060 CTTAAACCTT
72233070 GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
1 GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
72233115 GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
1 GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
72233160 ACTTCTTCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (45 bp):
GAATCAATGGATTATTACTGGGCATGGGCATTCTTGACTTTGTAG
Found at i:72247395 original size:28 final size:30
Alignment explanation
Indices: 72247352--72247408 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
72247342 TGAGATTGAA
72247352 ATATTAAATAACTTATTAAATGA-TAAATT
1 ATATTAAATAACTTATTAAATGATTAAATT
* *
72247381 ATATT-AATAATTTATTATATGATTAAAT
1 ATATTAAATAACTTATTAAATGATTAAAT
72247409 ATAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (30 bp):
ATATTAAATAACTTATTAAATGATTAAATT
Found at i:72247437 original size:26 final size:27
Alignment explanation
Indices: 72247371--72247438 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
72247361 AACTTATTAA
* * *
72247371 ATGATAAATTATATTAATAATTTATTAT
1 ATGATTAATTATA-TAATAATTAAATAT
*
72247399 ATGATTAAATATA-AATAATTAAATAT
1 ATGATTAATTATATAATAATTAAATAT
72247425 AT-ATTTAATTATAT
1 ATGA-TTAATTATAT
72247439 CAAAAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 21 0.64
28 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
ATGATTAATTATATAATAATTAAATAT
Found at i:72251755 original size:4 final size:4
Alignment explanation
Indices: 72251748--72251774 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
72251738 AAATAAATAA
72251748 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
72251775 AACAGTCTCT
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:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:72253041 original size:19 final size:20
Alignment explanation
Indices: 72253004--72253042 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
72252994 TAAGGCCCTT
*
72253004 TTTTTAAAAAAATTTAATTC
1 TTTTTAAAAAAATTAAATTC
*
72253024 TTTTTACAAAAA-TAAATTC
1 TTTTTAAAAAAATTAAATTC
72253043 ATATATCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTTAAAAAAATTAAATTC
Found at i:72263009 original size:33 final size:33
Alignment explanation
Indices: 72262890--72262997 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
72262880 ATGCTCACTC
* *
72262890 GAGCCAATCCATCCATCACACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
72262923 GAGCTAATCCAACCATCACACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
* *
72262956 GAGCTAAACCAACCATCACACTAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
72262989 GAGCTAATC
1 GAGCTAATC
72262998 TAACTAGCAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.19
Consensus pattern (33 bp):
GAGCTAATCCAACCATCACACCAATGCTCATAA
Found at i:72278013 original size:22 final size:22
Alignment explanation
Indices: 72277940--72278011 Score: 135
Period size: 22 Copynumber: 3.3 Consensus size: 22
72277930 TTGCTTTACG
72277940 TACAAAAACCATTGAGGACAAA
1 TACAAAAACCATTGAGGACAAA
72277962 TACAAAAACCATTGAGGACAAA
1 TACAAAAACCATTGAGGACAAA
*
72277984 TACAAACACCATTGAGGACAAA
1 TACAAAAACCATTGAGGACAAA
72278006 TACAAA
1 TACAAA
72278012 CAATATTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.54, C:0.19, G:0.12, T:0.14
Consensus pattern (22 bp):
TACAAAAACCATTGAGGACAAA
Found at i:72279404 original size:11 final size:11
Alignment explanation
Indices: 72279388--72279416 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
72279378 TATAAAAATT
72279388 TTCTATTAAAA
1 TTCTATTAAAA
72279399 TTCTATTAAAA
1 TTCTATTAAAA
72279410 TTC-ATTA
1 TTCTATTA
72279417 TCAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTATTAAAA
Found at i:72279476 original size:34 final size:35
Alignment explanation
Indices: 72279438--72279504 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
72279428 TTTCTATGAA
* *
72279438 AAATTTAACTTTAGAA-CTAAATATAA-AAATTATT
1 AAATTCAAATTTAGAATCTAAA-ATAATAAATTATT
*
72279472 AAATTCAAATTTAGAATTTAAAATAATAAATTA
1 AAATTCAAATTTAGAATCTAAAATAATAAATTA
72279505 ATAACACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 18 0.64
35 10 0.36
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.37
Consensus pattern (35 bp):
AAATTCAAATTTAGAATCTAAAATAATAAATTATT
Found at i:72280069 original size:46 final size:46
Alignment explanation
Indices: 72280017--72280164 Score: 163
Period size: 46 Copynumber: 3.2 Consensus size: 46
72280007 AGAGATCTCT
*
72280017 TTTCCAGCAACTAAACACTTCAATTTGCAGCGATAAAACATTTCAA
1 TTTCCAGCAACTAAACACTTCAATTTGCAGCGTTAAAACATTTCAA
*
72280063 TTTCCAGCAACTAAACACTTCAATTTGCAGTAC-TTAAAACATTTTAA
1 TTTCCAGCAACTAAACACTTCAATTTGCAG--CGTTAAAACATTTCAA
* * ** * * * * *
72280110 TTTACAACATTTAAGCACTTCAATTTACAGTGTTTAAACACTTCAA
1 TTTCCAGCAACTAAACACTTCAATTTGCAGCGTTAAAACATTTCAA
*
72280156 TTTGCAGCA
1 TTTCCAGCA
72280165 CTTTAACATC
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
46 48 0.56
47 36 0.42
48 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (46 bp):
TTTCCAGCAACTAAACACTTCAATTTGCAGCGTTAAAACATTTCAA
Found at i:72280111 original size:24 final size:24
Alignment explanation
Indices: 72280017--72280112 Score: 92
Period size: 23 Copynumber: 4.1 Consensus size: 24
72280007 AGAGATCTCT
*
72280017 TTTCCAGCAACT-AAACACTTCAA
1 TTTCCAGCAACTAAAACATTTCAA
* *
72280040 TTTGCAGCGA-TAAAACATTTCAA
1 TTTCCAGCAACTAAAACATTTCAA
*
72280063 TTTCCAGCAACT-AAACACTTCAA
1 TTTCCAGCAACTAAAACATTTCAA
* * *
72280086 TTTGCAG-TACTTAAAACATTTTAA
1 TTTCCAGCAAC-TAAAACATTTCAA
72280110 TTT
1 TTT
72280113 ACAACATTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
22 3 0.05
23 43 0.73
24 13 0.22
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (24 bp):
TTTCCAGCAACTAAAACATTTCAA
Found at i:72280170 original size:47 final size:47
Alignment explanation
Indices: 72280028--72280170 Score: 148
Period size: 47 Copynumber: 3.1 Consensus size: 47
72280018 TTCCAGCAAC
* * *
72280028 TAAACACTTCAATTTGCAGCGATAAAACATTTCAATTTCCAGCAAC--
1 TAAACACTTCAATTTGCAGTGTTAAAACATTTCAATTTACAGC-ACTT
* * *
72280074 TAAACACTTCAATTTGCAGTACTTAAAACATTTTAATTTACAACA-TT
1 TAAACACTTCAATTTGCAGT-GTTAAAACATTTCAATTTACAGCACTT
* * * * *
72280121 TAAGCACTTCAATTTACAGTGTTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGTGTTAAAACATTTCAATTTACAGCACTT
72280168 TAA
1 TAA
72280171 CATCTCAATT
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
46 38 0.48
47 41 0.52
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (47 bp):
TAAACACTTCAATTTGCAGTGTTAAAACATTTCAATTTACAGCACTT
Found at i:72280172 original size:23 final size:23
Alignment explanation
Indices: 72280028--72280180 Score: 114
Period size: 23 Copynumber: 6.6 Consensus size: 23
72280018 TTCCAGCAAC
72280028 TAAACACTTCAATTTGCAGCGA-T
1 TAAACACTTCAATTTGCAGC-ACT
* * *
72280051 AAAACATTTCAATTTCCAGCAAC-
1 TAAACACTTCAATTTGCAGC-ACT
*
72280074 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTGCAGCACT
* * * * *
72280097 TAAAACATTTTAATTTACAACATT
1 T-AAACACTTCAATTTGCAGCACT
* * ***
72280121 TAAGCACTTCAATTTACAGTGTT
1 TAAACACTTCAATTTGCAGCACT
72280144 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTGCAGCACT
*
72280167 TTAACA-TCTCAATT
1 TAAACACT-TCAATT
72280181 AACAACATTT
Statistics
Matches: 100, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
22 3 0.03
23 80 0.80
24 17 0.17
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (23 bp):
TAAACACTTCAATTTGCAGCACT
Found at i:72280265 original size:23 final size:23
Alignment explanation
Indices: 72280239--72280307 Score: 120
Period size: 23 Copynumber: 3.0 Consensus size: 23
72280229 TTCCAGACAC
72280239 TTCAATTTACAACATTTAAACAT
1 TTCAATTTACAACATTTAAACAT
72280262 TTCAATTTACAACATTTAAACAT
1 TTCAATTTACAACATTTAAACAT
*
72280285 TTCAATTTACAGCATTTTAAACA
1 TTCAATTTACAACA-TTTAAACA
72280308 ATAGCAGCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 36 0.82
24 8 0.18
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.39
Consensus pattern (23 bp):
TTCAATTTACAACATTTAAACAT
Found at i:72284370 original size:22 final size:21
Alignment explanation
Indices: 72284345--72284404 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
72284335 TCATGATCCC
72284345 TAAACCCATAATCCATAAACCT
1 TAAACCCATAA-CCATAAACCT
**
72284367 TAAA-ATAGTAACTCATAAACCT
1 TAAACCCA-TAAC-CATAAACCT
*
72284389 TAAACCCTTAACCATA
1 TAAACCCATAACCATA
72284405 TGCCCTAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAACCCATAACCATAAACCT
Found at i:72286767 original size:12 final size:12
Alignment explanation
Indices: 72286752--72286782 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
72286742 TTCTCTTTTA
72286752 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
72286764 TTTTTCTTTCTC
1 TTTTTCTTTCCC
72286776 TTTTTCT
1 TTTTTCT
72286783 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:72287864 original size:13 final size:12
Alignment explanation
Indices: 72287848--72287877 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
72287838 GGCGTTTTTT
72287848 TAAAAAGCGCCGC
1 TAAAAA-CGCCGC
72287861 TAAAAACGCCGC
1 TAAAAACGCCGC
72287873 TAAAA
1 TAAAA
72287878 GTCAAGGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.10
Consensus pattern (12 bp):
TAAAAACGCCGC
Found at i:72295789 original size:549 final size:548
Alignment explanation
Indices: 72294751--72296410 Score: 2448
Period size: 549 Copynumber: 3.0 Consensus size: 548
72294741 CTCACTATTC
**
72294751 CCTCCCTCAATTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
1 CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
*
72294816 TTCTTTAGAGAAATGACCTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
66 TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
* *
72294881 CAGAACTCTCTGTTGATCCTCAGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAATCA
131 CAGAACTCTCTGTTGATCCTCGGTCTTGCTGACTATCTCTTCTTTTGCCTTTTCTATCTCAATCA
* * *
72294946 TATGATCT-GAAATAGCTTGTGTTTTACTCTCAAGCTGAACTTCAAGTTCAGCTTTCTGGCTATG
196 CATGAT-TGGAAATAGCTTGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTATG
* * * * * *
72295010 CATGGA-TCCCAGTTTCTGCTGCAATGTATTTATTTCATCCATCAAGCTCTTGACTTG-GTTCGA
260 CAGGGACT-CCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTT-GA
** * * *
72295073 TGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTCAGTCCGCAGCAACTCCA
323 TGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCA
* * *
72295138 TGTCTCCTAGCAGATTGTTAATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTGTCTCA
388 TGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCA
* * * *
72295203 TTATCCTCAAACTTCTTTGTGAGAGTAAAAAGTTCTTCTTGTCTCGTCTTTAATACCCTCTCGAG
453 TTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTCGT-TTTGATATCATCTCGAG
** *
72295268 TTCTGAAATTTGATATTGCAGTCCCATATTTT
517 TTCTGAAATTTGGGATTGCAGTCCTATATTTT
*
72295300 CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAGGTCCTCTTCCAGTTCACCTTTCTGG
1 CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
72295365 TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
66 TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
*
72295430 CAGAACTCTCTGTTGATCCTCGGTCTTGCTGACTATCTCTTCTTTTGCCTTCTCTATCTCAATCA
131 CAGAACTCTCTGTTGATCCTCGGTCTTGCTGACTATCTCTTCTTTTGCCTTTTCTATCTCAATCA
* * **
72295495 CATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCCAGTTCTGCTTGATGGCTATGC
196 CATGATTGGAAATAGCTTGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTATGC
* *
72295560 AGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCCCTTGACCTGAGTTGATGC
261 AGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGATGC
* *
72295625 TTCATCGCCTTTCACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGGGACTCCATGT
326 TTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCATGT
* * ** * *
72295690 CTGCTAGCAAATTGTTGATCTGCACTGTTAAATTCTCCACTCTAGATAGCGATTCTTTCTCGTTG
391 CTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCATTA
* *
72295755 TCCTCAAACTTCTCTGTGAGTGTCAAAAGTTCTTCTTGTCTCTGTTTTGATATCATCTCGAGTTC
456 TCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTC-GTTTTGATATCATCTCGAGTTC
* * *
72295820 GGAAATTTGGGATTGCAGTCCTAAACTTT
520 TGAAATTTGGGATTGCAGTCCTATATTTT
* * * ** *
72295849 CCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCGCAAATCCTCTTCCAACTCACCTTTCTGA
1 CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
* * * *
72295914 TTCTTTAAAGAATTGACATCAAATTCTAGTTCCTTCATTTGTGCCAGCAAACCCTCTTTCTCCTG
66 TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
* * **
72295979 CAGAACTCTTTGTTGATCCTCGGTCTTGCTTG-CTATCTCTTCTTTTGCATTTTCTATCTTGATC
131 CAGAACTCTCTGTTGATCCTCGGTCTTGC-TGACTATCTCTTCTTTTGCCTTTTCTATCTCAATC
* * * *
72296043 ACATGATCGGAAATAGCTCGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGACTCTG
195 ACATGATTGGAAATAGCTTGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTATG
* * *
72296108 CAGGGACTCCAGCTCCTGCTGCAAATTTTTTATCTGATCCATCAAGCTCTTGACTTGAGTCGATG
260 CAGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGATG
** * * *
72296173 CTTCATCATCTTTTACTGCAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGTGACTCCATG
325 CTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCATG
* *
72296238 TCTGCTAGCAGATTGTTGATCTGCACTGTCAGATTCTCCACTCTAGACAATGATTCTTTCTCATT
390 TCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCATT
* * * * * *
72296303 ATCCTCAAATTTCTTTGCGAGAGTCAAAAGTTCTTCTTCTCTCTTTTTTGACATCATCTCAAGTT
455 ATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTC-GTTTTGATATCATCTCGAGTT
*
72296368 CTGAAATTTGGGATTGCAGTCCTATATTTA
519 CTGAAATTTGGGATTGCAGTCCTATATTTT
72296398 CCTCTCC-CAGCTG
1 CCTC-CCTCAGCTG
72296411 TTTTGCTTCA
Statistics
Matches: 1001, Mismatches: 104, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
548 1 0.00
549 990 0.99
550 10 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (548 bp):
CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
CAGAACTCTCTGTTGATCCTCGGTCTTGCTGACTATCTCTTCTTTTGCCTTTTCTATCTCAATCA
CATGATTGGAAATAGCTTGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTATGC
AGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGATGC
TTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCATGT
CTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCATTA
TCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTCGTTTTGATATCATCTCGAGTTCT
GAAATTTGGGATTGCAGTCCTATATTTT
Found at i:72301980 original size:117 final size:117
Alignment explanation
Indices: 72301841--72302073 Score: 333
Period size: 117 Copynumber: 2.0 Consensus size: 117
72301831 TGCTTGCATT
* *
72301841 CATTGAATCCCTCAACTCCCTCAGCTCAGCTTCACAACTGGCAAGCTTCTCTTTAAGCTCACCAT
1 CATTGAATCCCTCAACTCCCTCAGCTCAACTTCACAACTAGCAAGCTTCTCTTTAAGCTCACCAT
* *
72301906 TTTCGTGTTCTAGCCTTGAAATGGATTCAGTCCATGAATTCTTGCCTGCCTC
66 TTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCATGAATTCTTGCATGCCTC
* * ** * **
72301958 CATTGAATCCCT-AGATTTCCTCAGCTCAACTTCACAGGTAGCAAGCTTCTCTTTAAGGTGTCCA
1 CATTGAATCCCTCA-ACTCCCTCAGCTCAACTTCACAACTAGCAAGCTTCTCTTTAAGCTCACCA
* *
72302022 TTTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCATGCATTTTTGCATGCCT
65 TTTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCATGAATTCTTGCATGCCT
72302074 AGTATCCCTA
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 1 0.01
117 101 0.99
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (117 bp):
CATTGAATCCCTCAACTCCCTCAGCTCAACTTCACAACTAGCAAGCTTCTCTTTAAGCTCACCAT
TTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCATGAATTCTTGCATGCCTC
Found at i:72302136 original size:20 final size:20
Alignment explanation
Indices: 72302111--72302160 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
72302101 TGGCTTAAAA
72302111 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
72302131 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
72302148 GTGGTAGTGGATT
1 TTGGTAGTGGATT
72302161 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:72306775 original size:20 final size:20
Alignment explanation
Indices: 72306750--72306799 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
72306740 TGGCTTAAAA
72306750 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
72306770 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
72306787 GTGGTAGTGGATT
1 TTGGTAGTGGATT
72306800 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:72307333 original size:25 final size:25
Alignment explanation
Indices: 72307305--72307354 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
72307295 CAATTCCTTA
72307305 ACTTCCTTATCTCAACTTCACCGGT
1 ACTTCCTTATCTCAACTTCACCGGT
*
72307330 ACTTCCTTATCTCAGCTTCACCGGT
1 ACTTCCTTATCTCAACTTCACCGGT
72307355 GGCAACCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.36, G:0.10, T:0.36
Consensus pattern (25 bp):
ACTTCCTTATCTCAACTTCACCGGT
Found at i:72319452 original size:43 final size:44
Alignment explanation
Indices: 72319375--72319463 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 44
72319365 GAGGTACCTA
*
72319375 AAACAAATTATAAATAATATGATTAAATCAACCAATTACGTGTT
1 AAACAAATTATAAATAATATGATTAAATCAACCAATTACATGTT
* *
72319419 AAACAAATTATAAGTAAT-TGATTAAATCTACCAATTACATGTT
1 AAACAAATTATAAATAATATGATTAAATCAACCAATTACATGTT
72319462 AA
1 AA
72319464 TTTTGGAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 25 0.60
44 17 0.40
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (44 bp):
AAACAAATTATAAATAATATGATTAAATCAACCAATTACATGTT
Found at i:72319691 original size:15 final size:17
Alignment explanation
Indices: 72319672--72319712 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
72319662 TATTTTTATA
72319672 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
72319688 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
72319704 AAAATTATA
1 AAAATTATA
72319713 TTTAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:72319699 original size:24 final size:24
Alignment explanation
Indices: 72319667--72319712 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
72319657 TAATTTATTT
*
72319667 TTATAAAAATTATAAAAATATAAA
1 TTATAAAAATAATAAAAATATAAA
* *
72319691 TTATTAAAATAATAAAATTATA
1 TTATAAAAATAATAAAAATATA
72319713 TTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TTATAAAAATAATAAAAATATAAA
Found at i:72320642 original size:21 final size:18
Alignment explanation
Indices: 72320609--72320647 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
72320599 AAGTGACTAT
72320609 TTTAATAGTTTATTCATGA
1 TTTAATAGTTTATT-ATGA
72320628 TTTAATTATGTTTATTATGA
1 TTTAA-TA-GTTTATTATGA
72320648 ATACCTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (18 bp):
TTTAATAGTTTATTATGA
Found at i:72324609 original size:20 final size:20
Alignment explanation
Indices: 72324584--72324621 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72324574 TTTATAGTTA
72324584 AAATTTTGTT-TTAATAATTT
1 AAATTTT-TTCTTAATAATTT
72324604 AAATTTTTTCTTAATAAT
1 AAATTTTTTCTTAATAAT
72324622 AGTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (20 bp):
AAATTTTTTCTTAATAATTT
Found at i:72326491 original size:27 final size:27
Alignment explanation
Indices: 72326461--72326527 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
72326451 TAATTTTACC
*
72326461 TCTAAACTATTTTTTTTCA-TTTAAGTA
1 TCTAAACTATTTTTTCTCACTTTAA-TA
* * *
72326488 TCTAATCT-TTTTATCTCACTTTGATA
1 TCTAAACTATTTTTTCTCACTTTAATA
*
72326514 CCTAAACTATTTTT
1 TCTAAACTATTTTT
72326528 CATTACCTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
26 16 0.52
27 15 0.48
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.54
Consensus pattern (27 bp):
TCTAAACTATTTTTTCTCACTTTAATA
Found at i:72326710 original size:18 final size:16
Alignment explanation
Indices: 72326672--72326704 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
72326662 AATAATTCAA
72326672 AAAATTATTTAAAAAT
1 AAAATTATTTAAAAAT
72326688 AAAATT-TTATAAAAAT
1 AAAATTATT-TAAAAAT
72326704 A
1 A
72326705 GAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTATTTAAAAAT
Found at i:72327423 original size:22 final size:22
Alignment explanation
Indices: 72327389--72327430 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
72327379 GGATTGAAAT
72327389 TAAATTATAAATTTTATTATAA
1 TAAATTATAAATTTTATTATAA
72327411 TAAA-TATATAATTTTATTAT
1 TAAATTATA-AATTTTATTAT
72327431 TTTAATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATTATAAATTTTATTATAA
Found at i:72327459 original size:17 final size:16
Alignment explanation
Indices: 72327417--72327459 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
72327407 ATAATAAATA
72327417 TATAAT-TTTATTATT
1 TATAATATTTATTATT
72327432 T-TAATAGTTTATATATT
1 TATAATA-TTTAT-TATT
72327449 TATAATATTTA
1 TATAATATTTA
72327460 AAGAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.17
15 1 0.04
16 5 0.21
17 9 0.38
18 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATAATATTTATTATT
Found at i:72335073 original size:26 final size:27
Alignment explanation
Indices: 72335037--72335100 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
72335027 AAAATATTTG
72335037 TTTTTAATTTTAGTCCATA-TTATCATGA
1 TTTTT-ATTTTA-TCCATATTTATCATGA
** *
72335065 -TTTTATTTTATTTATATTTATCGTGA
1 TTTTTATTTTATCCATATTTATCATGA
72335091 TTTTTATTTT
1 TTTTTATTTT
72335101 GCCAGTTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 4 0.13
26 14 0.45
27 13 0.42
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.64
Consensus pattern (27 bp):
TTTTTATTTTATCCATATTTATCATGA
Found at i:72336903 original size:25 final size:25
Alignment explanation
Indices: 72336852--72336900 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
72336842 ATATTTATTT
*
72336852 TTATATCATAAAAAATTAAAATTAA
1 TTATATCATAAAAAATTAAAATAAA
72336877 TTATAT-ATATAAAAA-TAAAATAAA
1 TTATATCATA-AAAAATTAAAATAAA
72336901 ATTTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TTATATCATAAAAAATTAAAATAAA
Found at i:72339550 original size:30 final size:30
Alignment explanation
Indices: 72339510--72339582 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
72339500 AATTATATAT
*
72339510 AAACTTTAATTTGGTGCAATTATATACATG
1 AAACTTTAATTTGGTGCAAATATATACATG
* ** * *
72339540 AAACTCTAATTGTGGTTTAAATGTATACTTG
1 AAACTTTAATT-TGGTGCAAATATATACATG
72339571 AAACTTTAATTT
1 AAACTTTAATTT
72339583 TGATTTAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (30 bp):
AAACTTTAATTTGGTGCAAATATATACATG
Found at i:72339573 original size:31 final size:31
Alignment explanation
Indices: 72339532--72339590 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
72339522 GGTGCAATTA
*
72339532 TATACATGAAACTCTAATTGTGGTTTAAATG
1 TATACATGAAACTCTAATTGTGATTTAAATG
* * *
72339563 TATACTTGAAACTTTAATTTTGATTTAA
1 TATACATGAAACTCTAATTGTGATTTAA
72339591 TCATACATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (31 bp):
TATACATGAAACTCTAATTGTGATTTAAATG
Found at i:72339766 original size:29 final size:30
Alignment explanation
Indices: 72339723--72339801 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 30
72339713 GAATTGGATC
*
72339723 AAATCAAAATTTCATGTATACAATTGCACA-
1 AAATC-AAAGTTCATGTATACAATTGCACAT
72339753 AAATCAAAGTTCATGTATACAATTGCACATT
1 AAATCAAAGTTCATGTATACAATTGCACA-T
* *
72339784 GAATCATAGTTCATGTAT
1 AAATCAAAGTTCATGTAT
72339802 TAAATTTGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 23 0.52
30 5 0.11
31 16 0.36
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATACAATTGCACAT
Found at i:72339854 original size:22 final size:20
Alignment explanation
Indices: 72339821--72339873 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
72339811 TATTTATCCC
72339821 ATTATTAAATA-TTAAAATAAT
1 ATTA-TAAATATTTAAAA-AAT
72339842 ATAATATAAATATTTAAAAAAT
1 AT--TATAAATATTTAAAAAAT
72339864 ATTATAAATA
1 ATTATAAATA
72339874 ACATGGACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.28
21 2 0.07
22 11 0.38
23 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTATAAATATTTAAAAAAT
Found at i:72341936 original size:29 final size:29
Alignment explanation
Indices: 72341893--72341951 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
72341883 TTATCATGTG
* *
72341893 ATGGGGACAACTATGCAATCTTAAATAAT
1 ATGGAGACAACTATGCAATCTTAAACAAT
* *
72341922 ATGGAGACAATTATGTAATCTTAAACAAT
1 ATGGAGACAACTATGCAATCTTAAACAAT
72341951 A
1 A
72341952 ATATTACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (29 bp):
ATGGAGACAACTATGCAATCTTAAACAAT
Found at i:72344860 original size:25 final size:25
Alignment explanation
Indices: 72344823--72344871 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
72344813 TCATTAATAT
72344823 CTTAACTTTACTGTTTCA-AGTAAAG
1 CTTAACTTTACTGTTT-ATAGTAAAG
72344848 CTTAA-TTTGACTGTTTATAGTAAA
1 CTTAACTTT-ACTGTTTATAGTAAA
72344872 AGACACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (25 bp):
CTTAACTTTACTGTTTATAGTAAAG
Found at i:72346456 original size:2 final size:2
Alignment explanation
Indices: 72346449--72346485 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
72346439 TTATGCCTTA
72346449 TC TC TC 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 TC TC TC T
72346486 TTCGCCGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:72348668 original size:75 final size:75
Alignment explanation
Indices: 72348570--72348709 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 75
72348560 CCAATTTATA
* *
72348570 GGATGCACAAAGGGGGCACAAGGGAGCAC-CATGTTCTGCAA-GGCACATGGTGGTGGAAAAAGG
1 GGATGCACAAAGGGGGCACAAGGGAGCACTCAT-TTCTGCAAGGGC-CATGGAGGGGGAAAAAGG
72348633 TGCACATATCTG
64 TGCACATATCTG
* * ** * * *
72348645 GGATGTACAAAGGGTGCTGAAGGGAGTACTCCTTTCTGTAAGGGCCATGGAGGGGGAAAAAGGTG
1 GGATGCACAAAGGGGGCACAAGGGAGCACTCATTTCTGCAAGGGCCATGGAGGGGGAAAAAGGTG
72348710 TGCATTTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
75 49 0.91
76 5 0.09
ACGTcount: A:0.29, C:0.16, G:0.37, T:0.18
Consensus pattern (75 bp):
GGATGCACAAAGGGGGCACAAGGGAGCACTCATTTCTGCAAGGGCCATGGAGGGGGAAAAAGGTG
CACATATCTG
Found at i:72352855 original size:93 final size:92
Alignment explanation
Indices: 72352696--72352881 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 92
72352686 AATGCTCTCC
*
72352696 TGCAAATCTAGGTTTGTCCTCTCAAATTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
1 TGCAAATCTAGGTTTGCCCTCTCAAATTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
72352761 CTTTAATATTATTTTTATCTCCCTTGTT
66 CTTTAATATTA-TTTTATCTCCCTTGTT
*
72352789 TGCAAATCTAGGTTTGCCCTCTCAAGTTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
1 TGCAAATCTAGGTTTGCCCTCTCAAATTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
72352854 CTTTAATATTATTTTATCTCCCTTGTT
66 CTTTAATATTATTTTATCTCCCTTGTT
72352881 T
1 T
72352882 TTAGCTCCTA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 17 0.19
93 74 0.81
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (92 bp):
TGCAAATCTAGGTTTGCCCTCTCAAATTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
CTTTAATATTATTTTATCTCCCTTGTT
Found at i:72358942 original size:20 final size:20
Alignment explanation
Indices: 72358919--72358968 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
72358909 AAATCCAAAT
72358919 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
72358939 TAAAATCCTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
72358959 TAAGAATACT
1 TAA-AATACT
72358969 GATGTGACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:72363025 original size:73 final size:73
Alignment explanation
Indices: 72362943--72363087 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
72362933 AAATTCATAT
*
72362943 GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACTTAACATCAAGTGATCTCTTAATT
1 GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACGTAACATCAAGTGATCTCTTAATT
72363008 ATATTTAG
66 ATATTTAG
72363016 GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACGTAACATCAAGTGATCTCTTAATT
1 GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACGTAACATCAAGTGATCTCTTAATT
72363081 ATATTTA
66 ATATTTA
72363088 TAGCACTTGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (73 bp):
GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACGTAACATCAAGTGATCTCTTAATT
ATATTTAG
Found at i:72368128 original size:26 final size:26
Alignment explanation
Indices: 72368099--72368150 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
72368089 TAACAATGAG
* * *
72368099 TAAATTAAGAAGAAAATAAAATAAAA
1 TAAAATAAGAAGAAAAAAAAAGAAAA
*
72368125 TAAAATCAGAAGAAAAAAAAAGAAAA
1 TAAAATAAGAAGAAAAAAAAAGAAAA
72368151 GTATGAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.13
Consensus pattern (26 bp):
TAAAATAAGAAGAAAAAAAAAGAAAA
Found at i:72373540 original size:13 final size:13
Alignment explanation
Indices: 72373522--72373547 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72373512 CTTGGTTGTC
72373522 TTTTAGGAAAATA
1 TTTTAGGAAAATA
72373535 TTTTAGGAAAATA
1 TTTTAGGAAAATA
72373548 ACAGCATTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TTTTAGGAAAATA
Found at i:72380029 original size:6 final size:5
Alignment explanation
Indices: 72380012--72380052 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
72380002 AAAACTTGTA
72380012 AAAAT AAAAT AAATAT AAACAT AAAAT AAAAT AAATAT AAA
1 AAAAT AAAAT AAA-AT AAA-AT AAAAT AAAAT AAA-AT AAA
72380053 CTCGGCAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 18 0.55
6 15 0.45
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:72380037 original size:22 final size:22
Alignment explanation
Indices: 72380012--72380053 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
72380002 AAAACTTGTA
72380012 AAAATAAAATAAATATAAACAT
1 AAAATAAAATAAATATAAACAT
72380034 AAAATAAAATAAATATAAAC
1 AAAATAAAATAAATATAAAC
72380054 TCGGCAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATAAAATAAATATAAACAT
Found at i:72382390 original size:31 final size:29
Alignment explanation
Indices: 72382320--72382396 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
72382310 TTTCCCTTAA
*
72382320 GTTACATTTTAGTCACTTATATTTAAAAT
1 GTTACATTTTAGTCACTTATAGTTAAAAT
**
72382349 GTTACATTTTAGTCACTTAT-GTTAACGT
1 GTTACATTTTAGTCACTTATAGTTAAAAT
72382377 GTTGTAACATTTTAGTCACT
1 G-T-T-ACATTTTAGTCACT
72382397 AAGTTGTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 6 0.14
29 21 0.50
30 1 0.02
31 14 0.33
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.47
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATAGTTAAAAT
Found at i:72387579 original size:19 final size:19
Alignment explanation
Indices: 72387555--72387597 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
72387545 TGGTGGCGAC
*
72387555 TCCCATTCTTCATTTTTAT
1 TCCCATTCTTCATTTTCAT
72387574 TCCCATTCTTCATTTTCAT
1 TCCCATTCTTCATTTTCAT
72387593 TCCCA
1 TCCCA
72387598 AAATCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.33, G:0.00, T:0.51
Consensus pattern (19 bp):
TCCCATTCTTCATTTTCAT
Found at i:72390733 original size:16 final size:16
Alignment explanation
Indices: 72390712--72390746 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
72390702 GGGAGTGCAC
72390712 ACACTTTTAAGATTAA
1 ACACTTTTAAGATTAA
72390728 ACACTTTTAAGATTAA
1 ACACTTTTAAGATTAA
72390744 ACA
1 ACA
72390747 ATCAACTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (16 bp):
ACACTTTTAAGATTAA
Found at i:72391512 original size:129 final size:129
Alignment explanation
Indices: 72391281--72391540 Score: 403
Period size: 129 Copynumber: 2.0 Consensus size: 129
72391271 TACGTCCTCC
* * * * * *
72391281 TTCTACATTAGCAACAATTTTCATGTCAATCGAGCTAAGACTCAATCGTCAACTTTGTAAAAATC
1 TTCTACATTAGCAACAATTTTCATGTAAATCGAACTAAAACTCAATAGACAACCTTGTAAAAATC
* * *
72391346 TTCATTTCTCAATTTAAACACTCATCAAATTTAAAATTTCCTTTAAAACTATAATTTAAGTTAT
66 TTAAATTCTCAATCTAAACACTCATCAAATTTAAAATTTCCTTTAAAACTATAATTTAAGTTAT
* *
72391410 TTCTACATTAGTAACAATTTTCATGTAAATCGAACTAAAACTCAATAGACAACCTTGTGAAAATC
1 TTCTACATTAGCAACAATTTTCATGTAAATCGAACTAAAACTCAATAGACAACCTTGTAAAAATC
* *
72391475 TTAAATTCTCAATCTAAACACTCATCAAATTTGAAATTTCCTTTAAAACTGTAATTTAAGTTAT
66 TTAAATTCTCAATCTAAACACTCATCAAATTTAAAATTTCCTTTAAAACTATAATTTAAGTTAT
72391539 TT
1 TT
72391541 AATTTAAAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 118 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (129 bp):
TTCTACATTAGCAACAATTTTCATGTAAATCGAACTAAAACTCAATAGACAACCTTGTAAAAATC
TTAAATTCTCAATCTAAACACTCATCAAATTTAAAATTTCCTTTAAAACTATAATTTAAGTTAT
Found at i:72392176 original size:28 final size:28
Alignment explanation
Indices: 72392130--72392190 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
72392120 TTCAATTAAT
*
72392130 AAAATAATTAAATAAATAA-ATAAAACAA
1 AAAATAATTAAACAAATAAGATAAAA-AA
* * *
72392158 AAAATAATTGAACATATAAGATACAAAA
1 AAAATAATTAAACAAATAAGATAAAAAA
72392186 AAAAT
1 AAAAT
72392191 CATATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.21
Consensus pattern (28 bp):
AAAATAATTAAACAAATAAGATAAAAAA
Found at i:72392439 original size:34 final size:35
Alignment explanation
Indices: 72392401--72392466 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
72392391 AGAAAAAGTC
*
72392401 TCAAGTTTAAATGCCAAATTAAA-AAAAAAAACTA
1 TCAAGTTTAAATACCAAATTAAACAAAAAAAACTA
* *
72392435 TCAAGTTTAGATACTAAATTAAACAAAAAAAA
1 TCAAGTTTAAATACCAAATTAAACAAAAAAAA
72392467 TTAAATATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 20 0.71
35 8 0.29
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (35 bp):
TCAAGTTTAAATACCAAATTAAACAAAAAAAACTA
Found at i:72393008 original size:25 final size:25
Alignment explanation
Indices: 72392980--72393028 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
72392970 TATTTGTGTT
* *
72392980 ATAATAATTTGATTATACTTATTCC
1 ATAATAATTCGATTATACTAATTCC
* *
72393005 ATAATAGTTCGATTCTACTAATTC
1 ATAATAATTCGATTATACTAATTC
72393029 GATATTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (25 bp):
ATAATAATTCGATTATACTAATTCC
Found at i:72399486 original size:26 final size:26
Alignment explanation
Indices: 72399464--72399512 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
72399454 TTTTTATGTG
72399464 TTAAAATATA-TATATTAAATTATTA
1 TTAAAATATAGTATATTAAATTATTA
* * *
72399489 TTATATTATAGTATATTATATTAT
1 TTAAAATATAGTATATTAAATTAT
72399513 AAATTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTAAAATATAGTATATTAAATTATTA
Found at i:72399495 original size:5 final size:5
Alignment explanation
Indices: 72399469--72399526 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
72399459 ATGTGTTAAA
* *
72399469 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATT ATAAATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATATT AT--ATT
72399518 ATATT ATAT
1 ATATT ATAT
72399527 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 32 0.71
6 8 0.18
7 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:72400859 original size:18 final size:19
Alignment explanation
Indices: 72400836--72400874 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
72400826 ATATATAGAT
72400836 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
72400854 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
72400873 AT
1 AT
72400875 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:72401224 original size:39 final size:39
Alignment explanation
Indices: 72401114--72401251 Score: 118
Period size: 39 Copynumber: 3.5 Consensus size: 39
72401104 GACCTCGAGT
* * * *
72401114 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
72401155 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
72401193 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
72401232 CGATGAGGCACTGGGTGTCA
1 CGATGAGACACTGGGTGTCA
72401252 TATTGGTGTG
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
38 18 0.24
39 38 0.50
40 4 0.05
41 16 0.21
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:72401392 original size:18 final size:19
Alignment explanation
Indices: 72401371--72401411 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
72401361 AATGAAATGA
72401371 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
72401389 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
72401408 GAAA
1 GAAA
72401412 GCATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:72407398 original size:11 final size:9
Alignment explanation
Indices: 72407274--72407409 Score: 58
Period size: 10 Copynumber: 13.9 Consensus size: 9
72407264 TTTCCGAGGC
72407274 ATTATAAAAA
1 ATTAT-AAAA
72407284 ATTCATAAAA
1 ATT-ATAAAA
*
72407294 ACTTATAAAT
1 A-TTATAAAA
72407304 A-TATAAATA
1 ATTATAAA-A
* *
72407313 TTTCTAATAA
1 ATTATAA-AA
*
72407323 ATGATACAAA
1 ATTATA-AAA
* *
72407333 GTTGTAAAA
1 ATTATAAAA
*
72407342 ATTATTAAAC
1 ATTA-TAAAA
* *
72407352 ATGACAAAA
1 ATTATAAAA
*
72407361 GCTTATAAAAA
1 -ATTAT-AAAA
*
72407372 ATTCTAGAAA
1 ATTATA-AAA
72407382 ATTATACAAA
1 ATTATA-AAA
72407392 ATATATAAAA
1 AT-TATAAAA
72407402 ATTATAAA
1 ATTATAAA
72407410 TAAAATCATT
Statistics
Matches: 92, Mismatches: 23, Indels: 23
0.67 0.17 0.17
Matches are distributed among these distances:
8 6 0.07
9 15 0.16
10 57 0.62
11 14 0.15
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (9 bp):
ATTATAAAA
Found at i:72419853 original size:18 final size:17
Alignment explanation
Indices: 72419802--72419853 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
72419792 TTTCTTTTTC
72419802 TTCCTATTTTTCTAATAG
1 TTCCTATTTTT-TAATAG
* * *
72419820 TTCGTGTCTTTCTAATAG
1 TTCCTAT-TTTTTAATAG
72419838 TTCCTATTTTATTAAT
1 TTCCTATTTT-TTAAT
72419854 TTATTTATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (17 bp):
TTCCTATTTTTTAATAG
Found at i:72420518 original size:57 final size:57
Alignment explanation
Indices: 72420435--72420546 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 57
72420425 ATTATTGTGG
* * *
72420435 GCATGGGGTCCACTCCTTTGAGCTTCAGGTCCTTAAATTGGGCCGAAATCTTCTTTA
1 GCATGGGCTCCACTCATTTGAGCTTCAAGTCCTTAAATTGGGCCGAAATCTTCTTTA
* * * *
72420492 GCATGGGCTCTACTCATTTGGGCTTCAAGTTCTTAAATTGGGCTGAAATCTTCTT
1 GCATGGGCTCCACTCATTTGAGCTTCAAGTCCTTAAATTGGGCCGAAATCTTCTT
72420547 CATTGAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (57 bp):
GCATGGGCTCCACTCATTTGAGCTTCAAGTCCTTAAATTGGGCCGAAATCTTCTTTA
Found at i:72430614 original size:26 final size:27
Alignment explanation
Indices: 72430569--72430620 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
72430559 ATGATTTAAT
* *
72430569 AAATAATATAAATTTTAAAAACTAAAA
1 AAATAATAAAAATATTAAAAACTAAAA
*
72430596 AAAT-ATAAAAATATTAAAAATTAAA
1 AAATAATAAAAATATTAAAAACTAAA
72430621 TATTGAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (27 bp):
AAATAATAAAAATATTAAAAACTAAAA
Found at i:72430925 original size:27 final size:25
Alignment explanation
Indices: 72430885--72430966 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 25
72430875 AATTTCGTAT
**
72430885 TTAAATTTTCTTTTTTCAATTAAATA
1 TTAAATTTAATTTTTT-AATTAAATA
*
72430911 CTTAAATTTAATTTTTTTAATTGATATA
1 -TTAAATTTAA-TTTTTTAATT-AAATA
* *
72430939 TT-AATTAAATTTTTTATTTAAATTA
1 TTAAATTTAATTTTTTAATTAAA-TA
72430964 TTA
1 TTA
72430967 CTTATAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.04
25 13 0.29
26 6 0.13
27 14 0.31
28 10 0.22
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (25 bp):
TTAAATTTAATTTTTTAATTAAATA
Found at i:72437775 original size:20 final size:21
Alignment explanation
Indices: 72437728--72437777 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
72437718 ATACCACATC
72437728 AGTATTTTTATCCTAAATTTTA
1 AGTA-TTTTATCCTAAATTTTA
*
72437750 AG-ATTTTATCCTGAATTTT-
1 AGTATTTTATCCTAAATTTTA
72437769 AGTATTTTA
1 AGTATTTTA
72437778 ATTTGGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 1 0.04
22 2 0.08
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (21 bp):
AGTATTTTATCCTAAATTTTA
Found at i:72438212 original size:17 final size:19
Alignment explanation
Indices: 72438192--72438233 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
72438182 TAATATTTTT
72438192 AAAAT-TTTAT-TATATTA
1 AAAATATTTATGTATATTA
*
72438209 AAAATATTTATGTATTTTA
1 AAAATATTTATGTATATTA
72438228 ACAAAT
1 A-AAAT
72438234 CTAATCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 5 0.24
19 7 0.33
20 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AAAATATTTATGTATATTA
Found at i:72438228 original size:19 final size:17
Alignment explanation
Indices: 72438185--72438233 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
72438175 TTAATTCTAA
*
72438185 TATTTTTAAAATTTTAT
1 TATTTTAAAAATTTTAT
*
72438202 TATATTAAAAATATTTAT
1 TATTTTAAAAAT-TTTAT
72438220 GTATTTTAACAAAT
1 -TATTTTAA-AAAT
72438234 CTAATCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 7 0.27
20 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TATTTTAAAAATTTTAT
Found at i:72438267 original size:16 final size:16
Alignment explanation
Indices: 72438246--72438276 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72438236 AATCAAATTC
72438246 ATATTGAATATTTTTT
1 ATATTGAATATTTTTT
*
72438262 ATATTGATTATTTTT
1 ATATTGAATATTTTT
72438277 AAAATCATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
ATATTGAATATTTTTT
Found at i:72439416 original size:19 final size:19
Alignment explanation
Indices: 72439392--72439449 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
72439382 AATGTTGTTG
*
72439392 TTAATAATTTCTTATAAAT
1 TTAATAATTTTTTATAAAT
* *
72439411 TTAATAGTTTTTTAAATAAT
1 TTAATAATTTTTTATA-AAT
72439431 TTATATAATGTTTTTATAA
1 TTA-ATAAT-TTTTTATAA
72439450 TTATTTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 13 0.42
20 6 0.19
21 5 0.16
22 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
TTAATAATTTTTTATAAAT
Found at i:72439433 original size:20 final size:22
Alignment explanation
Indices: 72439392--72439457 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 22
72439382 AATGTTGTTG
*
72439392 TTAATAAT-TTCTTAT-A-AAT
1 TTAATAATGTTTTTATAATAAT
*
72439411 TTAATAGT-TTTTTA-AATAAT
1 TTAATAATGTTTTTATAATAAT
*
72439431 TTATATAATGTTTTTATAATTAT
1 TTA-ATAATGTTTTTATAATAAT
72439454 TTAA
1 TTAA
72439458 AAATAATGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 13 0.34
20 6 0.16
21 4 0.11
22 7 0.18
23 8 0.21
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (22 bp):
TTAATAATGTTTTTATAATAAT
Found at i:72439519 original size:15 final size:17
Alignment explanation
Indices: 72439490--72439534 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
72439480 ATTGTTTTTA
72439490 TTTAAATA--ATT-ATT
1 TTTAAATATTATTAATT
72439504 TTTAAA-ATT-TTAATT
1 TTTAAATATTATTAATT
72439519 TTTAAATATTATTAAT
1 TTTAAATATTATTAAT
72439535 GTGATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 8 0.31
15 9 0.35
16 3 0.12
17 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAATATTATTAATT
Found at i:72451762 original size:3 final size:3
Alignment explanation
Indices: 72451754--72451780 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
72451744 TTCTTATAAG
72451754 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
72451781 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:72455490 original size:44 final size:45
Alignment explanation
Indices: 72455437--72455536 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
72455427 CTTTGACATA
* * * *
72455437 GACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGACATATTATAATATG
** * *
72455481 GACTTACATGGCTCAATCTTGTCTCCAAAGACATATTTCTAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGACATA-TTATAATATG
72455527 GACTTACATG
1 GACTTACATG
72455537 GCTCATTTCT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 28 0.61
46 18 0.39
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (45 bp):
GACTTACATGAATCAATCCTGTCTCCAAAGACATATTATAATATG
Found at i:72458303 original size:17 final size:19
Alignment explanation
Indices: 72458283--72458319 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
72458273 TTTATAATTT
72458283 TGTATA-TTAT-TTTTAAA
1 TGTATATTTATATTTTAAA
72458300 TGTATATTTATATTTTAAA
1 TGTATATTTATATTTTAAA
72458319 T
1 T
72458320 ATGTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TGTATATTTATATTTTAAA
Found at i:72461250 original size:26 final size:26
Alignment explanation
Indices: 72461167--72461242 Score: 125
Period size: 26 Copynumber: 2.9 Consensus size: 26
72461157 CATGAAATTC
*
72461167 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
72461193 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
72461219 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
72461243 TACTATCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:72479711 original size:14 final size:16
Alignment explanation
Indices: 72479686--72479718 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
72479676 AATATATTCA
72479686 TTATATATAATA-AAT
1 TTATATATAATACAAT
72479701 TTATA-ATAATACAAT
1 TTATATATAATACAAT
72479716 TTA
1 TTA
72479719 AATTAACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATATATAATACAAT
Found at i:72479867 original size:23 final size:24
Alignment explanation
Indices: 72479824--72479872 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
72479814 AGTTGTGAAA
*
72479824 TTACAAAAAAAAAAACGTATTGTTT
1 TTACAAAAAAAAAAAC-TATTATTT
*
72479849 TTACAAAACAAAAAA-TATTATTT
1 TTACAAAAAAAAAAACTATTATTT
72479872 T
1 T
72479873 AAGGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
25 14 0.64
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
TTACAAAAAAAAAAACTATTATTT
Found at i:72488905 original size:46 final size:46
Alignment explanation
Indices: 72488853--72489212 Score: 497
Period size: 46 Copynumber: 7.8 Consensus size: 46
72488843 AGTGTGCTCT
* * *
72488853 CTGATATGGAATGTGTAAGACCATGGTTGAAAAATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
72488899 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
72488945 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
72488991 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
72489037 GTGATATTAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
72489083 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
72489129 ATGACGGGAAAATGAATAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
72489176 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
72489213 TATGACATCA
Statistics
Matches: 292, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 251 0.86
47 41 0.14
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:72492763 original size:25 final size:25
Alignment explanation
Indices: 72492685--72492774 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
72492675 CCATATAACA
* * * *
72492685 GGAATCTCATGTGAGCTAAGTAATG
1 GGAAGCTCATGAGAGCCAAGTATTG
* * * * **
72492710 GGAAGTTCTTGCGAGCCAAATATCA
1 GGAAGCTCATGAGAGCCAAGTATTG
72492735 GGAAGCTCATGAGAGCCAAGTATTG
1 GGAAGCTCATGAGAGCCAAGTATTG
*
72492760 GGAAGCTCAAGAGAG
1 GGAAGCTCATGAGAG
72492775 TTGTGGTGTG
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (25 bp):
GGAAGCTCATGAGAGCCAAGTATTG
Found at i:72494419 original size:18 final size:19
Alignment explanation
Indices: 72494374--72494426 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
72494364 TACTTTTATT
72494374 ATTTAA-AAACTAAAAATGC
1 ATTTAATAAA-TAAAAATGC
72494393 ATTTAATAAATAAAAATG-
1 ATTTAATAAATAAAAATGC
* *
72494411 TTTTTATAAATAAAAA
1 ATTTAATAAATAAAAA
72494427 AGACAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 14 0.45
19 14 0.45
20 3 0.10
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (19 bp):
ATTTAATAAATAAAAATGC
Found at i:72494671 original size:20 final size:22
Alignment explanation
Indices: 72494646--72494686 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
72494636 TTGTTTTTAA
72494646 TAATTTAA-TAT-TTATATTTT
1 TAATTTAATTATATTATATTTT
72494666 TAATTTAATTATATTATATTT
1 TAATTTAATTATATTATATTT
72494687 ATTATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TAATTTAATTATATTATATTTT
Found at i:72495612 original size:30 final size:28
Alignment explanation
Indices: 72495578--72495636 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 28
72495568 GGCTTTGTAA
72495578 TACAAGTTTTTTTAACATATTAATAATTCT
1 TACAAG-TTTTTT-ACATATTAATAATTCT
*
72495608 TACAAGTTTTTTATATATTAATAATTCT
1 TACAAGTTTTTTACATATTAATAATTCT
72495636 T
1 T
72495637 TTTTAAACGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 16 0.57
29 6 0.21
30 6 0.21
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (28 bp):
TACAAGTTTTTTACATATTAATAATTCT
Found at i:72496768 original size:12 final size:12
Alignment explanation
Indices: 72496751--72496783 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
72496741 CGGCTCGCCC
72496751 ATATTAATTTTT
1 ATATTAATTTTT
*
72496763 ATATTATTTTTT
1 ATATTAATTTTT
72496775 ATA-TAATTT
1 ATATTAATTT
72496784 AAAAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:72500670 original size:21 final size:21
Alignment explanation
Indices: 72500632--72500671 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
72500622 GCTCAAAGCT
*
72500632 TTAATATAATATGTGTATAAA
1 TTAATATAATATGCGTATAAA
72500653 TTAATTATAATAT-CGTATA
1 TTAA-TATAATATGCGTATA
72500672 TTTGTCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (21 bp):
TTAATATAATATGCGTATAAA
Found at i:72512397 original size:3 final size:3
Alignment explanation
Indices: 72512389--72512417 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
72512379 CAACCCCATG
72512389 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72512418 ATTAGCCCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:72520555 original size:9 final size:9
Alignment explanation
Indices: 72520541--72520581 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
72520531 GTTCTTATAT
72520541 TTTTTTTAC
1 TTTTTTTAC
72520550 TTTTTTTAC
1 TTTTTTTAC
72520559 TTTTTTTAC
1 TTTTTTTAC
72520568 -TTTTTTA-
1 TTTTTTTAC
72520575 TTTTTTT
1 TTTTTTT
72520582 CTTATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.42
9 18 0.58
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:72520591 original size:18 final size:17
Alignment explanation
Indices: 72520553--72520649 Score: 60
Period size: 18 Copynumber: 5.5 Consensus size: 17
72520543 TTTTTACTTT
72520553 TTTTACTTTTTTTACTT--
1 TTTTA-TTTTTTT-CTTAA
72520570 TTTTATTTTTTTCTTATA
1 TTTTATTTTTTTCTTA-A
* * *
72520588 TTTTGTCTCTTTCTTAGA
1 TTTTATTTTTTTCTTA-A
72520606 TTTT-TTTCTTTT-TTAA
1 TTTTATTT-TTTTCTTAA
72520622 GTTTTATATTATTTTCTTAA
1 -TTTTAT-TT-TTTTCTTAA
72520642 -TTTATTTT
1 TTTTATTTT
72520650 ACTTATTTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
15 3 0.05
16 9 0.14
17 16 0.25
18 27 0.42
19 6 0.09
20 4 0.06
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTTTCTTAA
Found at i:72520666 original size:36 final size:36
Alignment explanation
Indices: 72520597--72520670 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
72520587 ATTTTGTCTC
*
72520597 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
72520634 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
72520670 T
1 T
72520671 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:72520675 original size:18 final size:17
Alignment explanation
Indices: 72520624--72520671 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
72520614 TTTTTTAAGT
*
72520624 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
72520642 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
72520660 TTTATATTATTA
1 TTTATATTATTA
72520672 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:72520715 original size:21 final size:20
Alignment explanation
Indices: 72520691--72520729 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
72520681 AATTTGTAAT
72520691 ATATATTTAAAATGTTTTATA
1 ATATATTTAAAAT-TTTTATA
* *
72520712 ATATTTTTTAAATTTTTA
1 ATATATTTAAAATTTTTA
72520730 ATTATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
ATATATTTAAAATTTTTATA
Found at i:72520740 original size:20 final size:19
Alignment explanation
Indices: 72520680--72520740 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 19
72520670 TAATTTTAAA
* *
72520680 AAATTTGTAATATATATTTA
1 AAATTTTTAATAT-TATTTT
72520700 AAATGTTTTATAATATT-TTTT
1 AAA--TTTT-TAATATTATTTT
72520721 AAATTTTTAATTATTATTTT
1 AAATTTTTAA-TATTATTTT
72520741 TAAAAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
18 3 0.09
19 8 0.24
20 7 0.21
21 6 0.18
22 4 0.12
23 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
AAATTTTTAATATTATTTT
Found at i:72520747 original size:23 final size:22
Alignment explanation
Indices: 72520667--72520752 Score: 70
Period size: 22 Copynumber: 3.9 Consensus size: 22
72520657 TAATTTATAT
* *
72520667 TATTAATTTTAAAAAATTTGTAA
1 TATTATTTTTAAAATATTT-TAA
* *
72520690 TA-TATATTTAAAATGTTTT-A
1 TATTATTTTTAAAATATTTTAA
* *
72520710 TAATATTTTTTAAAT-TTTTAA
1 TATTATTTTTAAAATATTTTAA
72520731 TTATTATTTTTAAAAATATTTT
1 -TATTATTTTT-AAAATATTTT
72520753 TTAACTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 7 0.14
21 12 0.24
22 21 0.42
23 6 0.12
24 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTATTTTTAAAATATTTTAA
Found at i:72520811 original size:37 final size:36
Alignment explanation
Indices: 72520770--72520840 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
72520760 TATATATATA
* *
72520770 TATTTGTGAAATTAATTATTTATAAATTTTAAAAATG
1 TATTTGTCAAATTAATTATTTA-AAATTTAAAAAATG
* *
72520807 TATTTTTCAAATTAATTTTTTAAAATTTAAAAAA
1 TATTTGTCAAATTAATTATTTAAAATTTAAAAAA
72520841 AATAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 11 0.37
37 19 0.63
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (36 bp):
TATTTGTCAAATTAATTATTTAAAATTTAAAAAATG
Found at i:72521290 original size:21 final size:23
Alignment explanation
Indices: 72521265--72521308 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
72521255 GTATATTTCT
72521265 TAAAT-TAATTTTTGAAA-ATTA
1 TAAATATAATTTTTGAAATATTA
* *
72521286 TAAATATTATTTTTTAAATATTA
1 TAAATATAATTTTTGAAATATTA
72521309 ACCATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAAATATAATTTTTGAAATATTA
Found at i:72521297 original size:35 final size:36
Alignment explanation
Indices: 72521237--72521304 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
72521227 GTTTTATATT
* * *
72521237 TTTTTTAAAATTTTAAATGTATATTTCTTAAATTAA
1 TTTTTGAAAATTATAAATATATATTTCTTAAATTAA
*
72521273 TTTTTGAAAATTATAAATAT-TATTTTTTAAAT
1 TTTTTGAAAATTATAAATATATATTTCTTAAAT
72521305 ATTAACCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.39
36 17 0.61
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (36 bp):
TTTTTGAAAATTATAAATATATATTTCTTAAATTAA
Found at i:72521386 original size:6 final size:7
Alignment explanation
Indices: 72521365--72521389 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
72521355 ATCTTTCAAA
72521365 TTTATTT
1 TTTATTT
72521372 TTTATTT
1 TTTATTT
72521379 TTTATTT
1 TTTATTT
72521386 TTTA
1 TTTA
72521390 ATAATATAAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:72521440 original size:11 final size:10
Alignment explanation
Indices: 72521424--72521486 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
72521414 AAATTTTTAA
72521424 ATAAAAATTGT
1 ATAAAAATT-T
72521435 ATAAAAATTT
1 ATAAAAATTT
*
72521445 A-AAAAATGT
1 ATAAAAATTT
*
72521454 -TAAATATTT
1 ATAAAAATTT
* **
72521463 TTAAAAATAA
1 ATAAAAATTT
72521473 ATAAAAA-TT
1 ATAAAAATTT
72521482 ATAAA
1 ATAAA
72521487 TTTCAAAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
9 18 0.44
10 14 0.34
11 9 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:72521530 original size:10 final size:9
Alignment explanation
Indices: 72521512--72521600 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 9
72521502 TAAAATTTAA
72521512 AAAATATTT
1 AAAATATTT
72521521 AAAATCATTT
1 AAAAT-ATTT
*
72521531 AAAATATTAA
1 AAAATATT-T
72521541 AAAATATTT
1 AAAATATTT
*
72521550 TAAATCATTT
1 AAAAT-ATTT
* *
72521560 TAAATGTTTT
1 AAAAT-ATTT
* *
72521570 ATAATATTA
1 AAAATATTT
72521579 AAAATATATT
1 AAAATAT-TT
*
72521589 -TAATATTT
1 AAAATATTT
72521597 AAAA
1 AAAA
72521601 AATAATTTGA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 2 0.03
9 27 0.44
10 33 0.53
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (9 bp):
AAAATATTT
Found at i:72521536 original size:19 final size:18
Alignment explanation
Indices: 72521512--72521600 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 18
72521502 TAAAATTTAA
72521512 AAAATATTTAAAATCATTT
1 AAAATATTTAAAAT-ATTT
*
72521531 AAAATATTAAAAAATATTT
1 AAAATATT-TAAAATATTT
* * *
72521550 TAAATCATTTTAAATGTTTT
1 AAAAT-ATTTAAAAT-ATTT
* *
72521570 ATAATATTAAAAATATATT
1 AAAATATTTAAAATAT-TT
*
72521589 -TAATATTTAAAA
1 AAAATATTTAAAA
72521601 AATAATTTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 12 0.22
19 29 0.53
20 14 0.25
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (18 bp):
AAAATATTTAAAATATTT
Found at i:72521540 original size:29 final size:28
Alignment explanation
Indices: 72521502--72521614 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
72521492 AAATTCTATG
72521502 TAAAATTTAAAAAATATTTAAAATCATT
1 TAAAATTTAAAAAATATTTAAAATCATT
*
72521530 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAAT-TTAAAAAATATTTAAAATCATT
* ** * * *
72521559 TTAAATGTTTTATAATATTAAAAATATATT
1 TAAAAT-TTAAAAAATATTTAAAAT-CATT
*
72521589 TAATATTTAAAAAATAATTTGAAAAT
1 TAAAATTTAAAAAAT-ATTT-AAAAT
72521615 ATATTTTTAA
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 6 0.09
29 45 0.68
30 10 0.15
31 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAATTTAAAAAATATTTAAAATCATT
Found at i:72521617 original size:31 final size:34
Alignment explanation
Indices: 72521570--72521660 Score: 100
Period size: 33 Copynumber: 2.7 Consensus size: 34
72521560 TAAATGTTTT
72521570 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
72521602 ATAAT-TTGAAAATATATTTTTAATATTTATAAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTAT-AAAA
*
72521637 ATATATATTATAAAACAT-TTTTAA
1 ATA-ATATTA-AAAATATATTTTAA
72521661 AAAGTACATT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 10 0.20
32 5 0.10
33 11 0.22
35 7 0.14
36 8 0.16
37 2 0.04
38 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:72530860 original size:30 final size:30
Alignment explanation
Indices: 72530808--72530900 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
72530798 GGTCAAATGG
* * * *
72530808 ACTCGAACCGCCTATATTCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
72530838 ACTTGAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
72530868 ACTCGAACCACCCATGTCCGGGTTATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
72530898 ACT
1 ACT
72530901 GCTCTGGGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (30 bp):
ACTCGAACCACCCATGTCCGGGTGATATGA
Found at i:72536035 original size:5 final size:5
Alignment explanation
Indices: 72536027--72536066 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
72536017 TATATTAAAT
*
72536027 TATTA TATTA TAGTA TATTA TATTA TAAATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA T--ATTA TATTA TAT
72536067 AAATAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 26 0.84
7 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:72536045 original size:15 final size:13
Alignment explanation
Indices: 72536011--72536065 Score: 60
Period size: 15 Copynumber: 4.1 Consensus size: 13
72536001 TATGTGTTAA
72536011 AATATATATATTA-
1 AATAT-TATATTAT
72536024 AATTATTATATTAT
1 AA-TATTATATTAT
72536038 AGTATATTATATTAT
1 A--ATATTATATTAT
72536053 AA-ATTATATTAT
1 AATATTATATTAT
72536065 A
1 A
72536066 TAAATAAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.29
13 10 0.26
14 4 0.11
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
AATATTATATTAT
Found at i:72537400 original size:18 final size:19
Alignment explanation
Indices: 72537377--72537415 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
72537367 ATATATAGAT
72537377 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
72537395 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
72537414 AT
1 AT
72537416 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:72537765 original size:39 final size:39
Alignment explanation
Indices: 72537655--72537789 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
72537645 GACCTCGAGT
* * * *
72537655 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
72537696 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
72537734 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
72537773 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
72537790 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:72537933 original size:18 final size:19
Alignment explanation
Indices: 72537912--72537952 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
72537902 AATGAAATGA
72537912 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
72537930 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
72537949 GAAA
1 GAAA
72537953 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:72539525 original size:26 final size:27
Alignment explanation
Indices: 72539485--72539550 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
72539475 TTTTAAAAAA
* *
72539485 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAA-ATTATAATTTCTTAAATG
*
72539512 TA-TTAAAAAGTTATAATTTTTTAAATG
1 TATTTAAAAA-TTATAATTTCTTAAATG
72539539 TATTTAAAAATT
1 TATTTAAAAATT
72539551 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 19 0.58
27 6 0.18
28 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (27 bp):
TATTTAAAAATTATAATTTCTTAAATG
Found at i:72539630 original size:34 final size:34
Alignment explanation
Indices: 72539552--72539631 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
72539542 TTAAAAATTG
*
72539552 TATTTAAAATTTAAAAAAATAATCTTAAAATACA
1 TATTTAAAATTTAAAAAAATAATATTAAAATACA
* *
72539586 TATCTAAAATTTAAAAATATATATATTAATAA-A-A
1 TATTTAAAATTTAAAAAAATA-ATATTAA-AATACA
*
72539620 TATTTCAAATTT
1 TATTTAAAATTT
72539632 TTTAAAGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 30 0.77
35 7 0.18
36 2 0.05
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (34 bp):
TATTTAAAATTTAAAAAAATAATATTAAAATACA
Found at i:72539729 original size:23 final size:23
Alignment explanation
Indices: 72539698--72539749 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
72539688 TCAAAAAAAG
*
72539698 AAAAAAATATATTTA-ATATTTAT
1 AAAAAAATAT-TTAATATATTTAT
* *
72539721 AAAATAATATTTAATATATTTTT
1 AAAAAAATATTTAATATATTTAT
72539744 AAAAAA
1 AAAAAA
72539750 TTTACATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAAAATATTTAATATATTTAT
Done.