Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020727.1 Corchorus olitorius cultivar O-4 contig20760, whole genome shotgun sequence
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: 101655
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Found at i:482 original size:24 final size:25
Alignment explanation
Indices: 449--505 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
439 GTCAGCCTTG
*
449 AATTT-TTTAATGT-TTAATTCTTA
1 AATTTATTTAATGTCTTAATTATTA
*
472 AATTTATTTAATGTCTTAATTATTC
1 AATTTATTTAATGTCTTAATTATTA
497 AATTTATTT
1 AATTTATTT
506 TACAATTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 5 0.17
24 8 0.27
25 17 0.57
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (25 bp):
AATTTATTTAATGTCTTAATTATTA
Found at i:14659 original size:21 final size:21
Alignment explanation
Indices: 14613--14659 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
14603 GGTATTACAA
*
14613 TTTTT-TTTTATATTGTTTTC
1 TTTTTATTTAATATTGTTTTC
*
14633 ATTTTATTTAATATTGTTTTC
1 TTTTTATTTAATATTGTTTTC
14654 TTTTTA
1 TTTTTA
14660 CAGAGTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTTATTTAATATTGTTTTC
Found at i:14951 original size:29 final size:29
Alignment explanation
Indices: 14918--14995 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
14908 GCCTTTTTAA
14918 AGAGTTCAGGGGCTTATTTGGCTGCAATT
1 AGAGTTCAGGGGCTTATTTGGCTGCAATT
* *
14947 AGAGTTTATGGGCTTATTTGGCTGCAATT
1 AGAGTTCAGGGGCTTATTTGGCTGCAATT
14976 AGAGTTCAGGGGCTTATTTG
1 AGAGTTCAGGGGCTTATTTG
14996 ACCGTTTTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.37
Consensus pattern (29 bp):
AGAGTTCAGGGGCTTATTTGGCTGCAATT
Found at i:22558 original size:17 final size:17
Alignment explanation
Indices: 22536--22570 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22526 GAGAATGTTC
22536 TTTGAAGTTTTAACAAT
1 TTTGAAGTTTTAACAAT
22553 TTTGAAGTTTTAACAAT
1 TTTGAAGTTTTAACAAT
22570 T
1 T
22571 GTTGGATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (17 bp):
TTTGAAGTTTTAACAAT
Found at i:25970 original size:14 final size:13
Alignment explanation
Indices: 25951--25988 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
25941 TGGTGCCTCC
25951 TTTTGTTTTTTTGT
1 TTTTGTTTTTTT-T
25965 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
25978 TTTTGTCTTTT
1 TTTTGT-TTTT
25989 CTCACTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.87
Consensus pattern (13 bp):
TTTTGTTTTTTTT
Found at i:25978 original size:19 final size:20
Alignment explanation
Indices: 25951--25988 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
25941 TGGTGCCTCC
25951 TTTTGTTTTTTTGT-TTTTG
1 TTTTGTTTTTTTGTCTTTTG
*
25970 TTTTTTTTTTTTGTCTTTT
1 TTTTGTTTTTTTGTCTTTT
25989 CTCACTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.87
Consensus pattern (20 bp):
TTTTGTTTTTTTGTCTTTTG
Found at i:26920 original size:36 final size:36
Alignment explanation
Indices: 26873--26942 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
26863 TTCAATAACC
*
26873 TTACATCTTTTGTGATTTTTG-TTATCATATTTCTTA
1 TTACATCTTTTGT-AATTTTGATTATCATATTTCTTA
26909 TTACATCTTTTGTAATTTTGATTATCATATTTCT
1 TTACATCTTTTGTAATTTTGATTATCATATTTCT
26943 CCAAAATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.60
Consensus pattern (36 bp):
TTACATCTTTTGTAATTTTGATTATCATATTTCTTA
Found at i:28052 original size:42 final size:40
Alignment explanation
Indices: 27993--28076 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 40
27983 AAACCTAAGA
27993 ATTTAATTAATGTAAGTATTTCAGTTATTATAGTATTATTAC
1 ATTTAATTAATGTAAGTATTTCAGTTATTATA-TA-TATTAC
*
28035 ATTTAATTAATGTAAGTATTTTAGTTATTATATATATTAC
1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC
28075 AT
1 AT
28077 CGGAATTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 8 0.20
41 2 0.05
42 31 0.76
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (40 bp):
ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC
Found at i:34035 original size:11 final size:11
Alignment explanation
Indices: 33993--34035 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
33983 TAACTATTAC
33993 TTAACCATAGA
1 TTAACCATAGA
*
34004 CTAACCATAGA
1 TTAACCATAGA
* *
34015 TTAACTATAGC
1 TTAACCATAGA
*
34026 TTGACCATAG
1 TTAACCATAG
34036 GTTAGTAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (11 bp):
TTAACCATAGA
Found at i:34083 original size:21 final size:21
Alignment explanation
Indices: 34052--34093 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34042 AACAAATTAG
*
34052 TAACAAACTAACTGACTGTAAC
1 TAACAAACTAACT-ACTCTAAC
34074 TAAC-AACTAACTACTCTAAC
1 TAACAAACTAACTACTCTAAC
34094 AGCATTGCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (21 bp):
TAACAAACTAACTACTCTAAC
Found at i:37171 original size:26 final size:28
Alignment explanation
Indices: 37119--37172 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
37109 CTAAGACTAA
37119 ACTCGAAACTGACTCGAAAAAACAAACTG
1 ACTCGAAACTGACTC-AAAAAACAAACTG
37148 ACTC-AAACTGACT-AAAAAACAAACT
1 ACTCGAAACTGACTCAAAAAACAAACT
37173 CAAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 12 0.48
28 9 0.36
29 4 0.16
ACGTcount: A:0.52, C:0.24, G:0.09, T:0.15
Consensus pattern (28 bp):
ACTCGAAACTGACTCAAAAAACAAACTG
Found at i:38542 original size:20 final size:20
Alignment explanation
Indices: 38513--38553 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
38503 CGATCCAGAT
38513 CGAATCCGGATTAATCAAAA
1 CGAATCCGGATTAATCAAAA
*
38533 CGAATTCGGATTAATCAAAA
1 CGAATCCGGATTAATCAAAA
38553 C
1 C
38554 AAAGTTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (20 bp):
CGAATCCGGATTAATCAAAA
Found at i:41438 original size:21 final size:21
Alignment explanation
Indices: 41414--41453 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
41404 GGAAAGGAAA
* *
41414 GGGAAGGAAAGGGAGGGAGGG
1 GGGAAGAAAAGGAAGGGAGGG
*
41435 GGGAATAAAAGGAAGGGAG
1 GGGAAGAAAAGGAAGGGAG
41454 TGATAATCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.57, T:0.03
Consensus pattern (21 bp):
GGGAAGAAAAGGAAGGGAGGG
Found at i:41627 original size:18 final size:17
Alignment explanation
Indices: 41585--41630 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
41575 ATGTAATTTC
41585 ATTTATCAATTAAATTAA
1 ATTTAT-AATTAAATTAA
* *
41603 ATATATAATTATATTAAA
1 ATTTATAATTAAATT-AA
41621 ATTTATAATT
1 ATTTATAATT
41631 TCTTTTACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTATAATTAAATTAA
Found at i:41727 original size:39 final size:40
Alignment explanation
Indices: 41671--41751 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
41661 TTTAATTCCT
41671 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
* *
41711 ATGTAATA-CTATAATAACTGAAATACTTACATTAATTAA
1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
41750 AT
1 AT
41752 TCTTAGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (40 bp):
ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
Found at i:42248 original size:202 final size:203
Alignment explanation
Indices: 41859--42268 Score: 718
Period size: 202 Copynumber: 2.0 Consensus size: 203
41849 TTCCTTAATA
*
41859 ATAAATAAATTGGATCTTTAATATCTTTTATAATTTTGAAATTTTATTTGACATTGATCTAATTT
1 ATAAATAAATCGGATCTTTAATATCTTTTATAATTTTGAAATTTTATTTGACATTGATCTAATTT
*
41924 AATTTAATAAATCAACCACTAATGTTCAACTAATTTTTTTTGGTATAGTTCTATATATAATAGTA
66 AATTTAATAAATCAACCACTAATGTTCAACTAATTTTTTTTGGTATAGTTCTATATATAATAATA
41989 ATGTGTTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAA-CATT
131 ATGTGTTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAATCATT
42053 CACCATTC
196 CACCATTC
* *
42061 ATAAATAAATCGGATCTTTAATATCTTTTATAATTTTGAAATTTTGTTTGCCATTGATCTAATTT
1 ATAAATAAATCGGATCTTTAATATCTTTTATAATTTTGAAATTTTATTTGACATTGATCTAATTT
*
42126 AATTTAATAATTCAACCACTAATGTTCAACTAATTTTTTTTTGGTATAGTT-TAATATATAATAA
66 AATTTAATAAATCAACCACTAATGTTCAACTAA-TTTTTTTTGGTATAGTTCT-ATATATAATAA
*
42190 TAATGTGTTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTT-AAGAATTAATAATCA
129 TAATGTGTTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAATCA
*
42254 TTCACCATTG
194 TTCACCATTC
42264 ATAAA
1 ATAAA
42269 GTTATTAAGC
Statistics
Matches: 198, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
202 106 0.54
203 92 0.46
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (203 bp):
ATAAATAAATCGGATCTTTAATATCTTTTATAATTTTGAAATTTTATTTGACATTGATCTAATTT
AATTTAATAAATCAACCACTAATGTTCAACTAATTTTTTTTGGTATAGTTCTATATATAATAATA
ATGTGTTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAATCATT
CACCATTC
Found at i:42832 original size:36 final size:36
Alignment explanation
Indices: 42785--42854 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
42775 GAGATTTTGG
* *
42785 AGAAATATGATAATCAAAATTACAAAAAATGTAATA
1 AGAAATATGATAACCAAAATCACAAAAAATGTAATA
*
42821 AGAAATATGATAACCAAAATCACAAAAGATGTAA
1 AGAAATATGATAACCAAAATCACAAAAAATGTAA
42855 GGTTATTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.60, C:0.09, G:0.10, T:0.21
Consensus pattern (36 bp):
AGAAATATGATAACCAAAATCACAAAAAATGTAATA
Found at i:44201 original size:57 final size:57
Alignment explanation
Indices: 44108--44218 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 57
44098 AGCATCATGC
* *
44108 CTCGGTCCTAAAACGTTTTTTTTAGGCATCTAATAAAAAACATGTCACTCGATAAGT
1 CTCGGTCCGAAAACATTTTTTTTAGGCATCTAATAAAAAACATGTCACTCGATAAGT
* * *
44165 CTCGGTCCGAAAACATCTTTTTTTATGCATCT-ATAAAGAACATGTCACTTGATA
1 CTCGGTCCGAAAACAT-TTTTTTTAGGCATCTAATAAAAAACATGTCACTCGATA
44219 TTTGATTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 34 0.71
58 14 0.29
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (57 bp):
CTCGGTCCGAAAACATTTTTTTTAGGCATCTAATAAAAAACATGTCACTCGATAAGT
Found at i:51065 original size:70 final size:70
Alignment explanation
Indices: 50973--51117 Score: 186
Period size: 76 Copynumber: 2.0 Consensus size: 70
50963 CTTCGTACTA
50973 TTAGATAATGTCCACGAA-TC-TCATGATAGGTACCCAAAGATTCATAGTGAACTTCGATGGGAG
1 TTAGATAATGTCCACGAACTCATCATGATAGGTA-CCAAAGATTCATAGTGAACTTCGATGGGAG
51036 CTCTCTC
65 CT-TCTC
* * *
51043 TTAGATAATGTCCATGAATCTCATGAATCATGATAGGTACCAAAGATTCATCGTGAATTTCGATG
1 TTAGATAATGTCCACGAA-CTC----ATCATGATAGGTACCAAAGATTCATAGTGAACTTCGATG
51108 GGAGCTTCTC
61 GGAGCTTCTC
51118 CTACAGCAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
70 17 0.26
72 2 0.03
75 4 0.06
76 30 0.46
77 12 0.18
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (70 bp):
TTAGATAATGTCCACGAACTCATCATGATAGGTACCAAAGATTCATAGTGAACTTCGATGGGAGC
TTCTC
Found at i:53969 original size:31 final size:31
Alignment explanation
Indices: 53928--54003 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
53918 TGACAAGTGG
* *
53928 ACTTTCAAAAT-TTAAACTTTTTG-CTCCCTAA
1 ACTTTTAAAATCTT-AACGTTTTGCCT-CCTAA
* *
53959 ACTTTTAAAATCTTGACGTTTTGCCTCTTAA
1 ACTTTTAAAATCTTAACGTTTTGCCTCCTAA
53990 ACTTTTAAAATCTT
1 ACTTTTAAAATCTT
54004 GTTGACAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (31 bp):
ACTTTTAAAATCTTAACGTTTTGCCTCCTAA
Found at i:79437 original size:334 final size:329
Alignment explanation
Indices: 78060--80543 Score: 2030
Period size: 334 Copynumber: 7.5 Consensus size: 329
78050 CTCAATTTTT
* * * * * *
78060 ATATATAAAATTTAACGCCAAAAAGATTTGAGAAATTTTCACGCTTTTAATATTGTTTTTCATA-
1 ATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAT
* * * *
78124 TTTTCTGAATTTATCTT-TAATTGAATCGAAACAAGATTCAGATGCTCGTACAAGCAAATCCTTA
66 TTTTCTGAATTAAT-TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC-TA
** * * * * *
78188 AATTAAATGTCGCTGAGATTTGATTAGATGAGTATAGATATTTTAAGGAATCTCGGTGCCAAAAA
129 AATCCAATGTGGCTGAGATTTGATTAGATGAATATTGATATTTCAA-GAGTCTCGGTGCCAAAAA
* * * * ** *
78253 TCATGCAAAACTAAGCCGGGGCCCTGAAACGCGCTTTTAGCTAAAAACCATGATAGTTAGTACAC
193 TCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAAACTGTAATAGTTAGT--AC
* * * * *
78318 ACGATTTT-AGCTAAAATTTT-AAAAAAATGACCTGAAAAATTTTTCCTGAATTTTTGGATAAAA
256 ACGATTTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGATAAAA
78381 TACTCAT-A
321 TACTCATAA
* **
78389 ATATATATAATTTAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATTATTTTTCATAT
1 ATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAT
* * * ** *
78454 TTTTCTGGATTAATTTCTAATTAAATCGAAACAAGATTCAGATGGTCGTAAAAATAAATTTTTAT
66 TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAA-TCCTAA
* ** * * * * * *
78519 ATACAATGTACCAGAAATTTGATTAGTTGAATA-TGAATATCTCAAAGAGTCTTGATGCCAAAAA
130 ATCCAATGTGGCTGAGATTTGATTAGATGAATATTG-ATATTTC-AAGAGTCTCGGTGCCAAAAA
* * * * *
78583 TCATGCAAAACTTAGCCAGGGCCCCGGAACGCGTTTTTAGCCAAAAATCATG--ATATGATTATT
193 TCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAG-CAAAAAAC-TGTAATA-G-TTAGT
** * * * * **
78646 ACATAATTTT-AGCTAAAATTTTGCAAAAATTGACCC-AAAAGTTATTACCTCAATTTTTTAGCC
254 ACACGATTTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATT-TTTCCTCAA-TTTTTGGAT
* *
78709 ACAATAATCATAA
317 AAAATACTCATAA
* * * ** * *
78722 AAATTATATAATTCAAAGCCAAAAAGATTGAAAGG-CTTTTCATACTTTTAATAT-TTTTTTCCT
1 ATA-TATATAATTCAACGCCAAAAAGATTG-GAGGACTTTTCACGCTTTTAATATCGTTTTTCAT
* * * * ***
78785 ATTATTTTCCGAATTAATTTCTAATCAAATCGAAACATGATT-ATGATGCTTGT-TTTACAAATC
64 A-T-TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCA-GATGCTCGTAAAAACAAATC
* * * * * **
78848 CTTAAATCCAATATGGTTGAGATTTGGTTA-A--AATATAATAGATAATTCCAGAAGTCTCGGCA
126 C-TAAATCCAATGTGGCTGAGATTTGATTAGATGAATAT--T-GATATTTCAAG-AGTCTCGGTG
* * * * ** * * *
78910 CCAAAAATCATGCAACACTGAACCGGGGCCCTGGAACATGTTTTTAGCCAAAAACCGTGATTTCG
186 CCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAAACTGT-A-AT--
* * * * * *
78975 ACTAACGTACACGA-TTTCGGCTAATATATTGCAAAAATTGACCAGAAATATTTTTTCC-CAATT
247 AGTTA-GTACACGATTTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA-AATTTTTCCTCAATT
**
79038 TTT-TTTAAAATACTCATAAA
310 TTTGGATAAAATACTCAT-AA
**
79058 ATATATATAATTCAACTTCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAT
1 ATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAT
* * *
79123 TTCTCTGAATCAATTTCTAATTAAATCGAAATAAGATTCAGATGCTCGTAAAAACAAATTCCTAA
66 TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAA-TCCTAA
* * * ***
79188 ATGCAATGTGGCTGAGATTTGGTTTGATGAATATTGATATTTCAAGTAGTCTCAACGCCAAAAAT
130 ATCCAATGTGGCTGAGATTTGATTAGATGAATATTGATATTTCAAG-AGTCTCGGTGCCAAAAAT
* * * *
79253 CATTCAAAACTGAGGCAGGGCCCCGAAACGCGTTTTGTAGCAAAAAACTGTAATAGTTAGTACTC
194 CATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTT-TAGCAAAAAACTGTAATAGTTAGTACAC
* * *
79318 GATTTTCGGCTAAAATTTTGTAAAAAATGACCCGAAAAATTTTTCCTCAAATTTTGGATAAAATA
258 GATTTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGATAAAATA
*
79383 CTAATGAA
323 CTCAT-AA
* * * *
79391 ATATATATAATTTAATGCCAAAAAATATTGGAGGACTTTTCACGCTTTTTATATCGTTTTTCATA
1 ATATATATAATTCAACGCC-AAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATA
* * * * *
79456 CTTTTTGTAAATTAATTTCTAATTAAATCGAATCAAGATTTAGATGCTCGTAAAAATAAATCC--
65 -TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTA
* * * * * * * *
79519 ---GCACTGTGGTTGAAATTTGATTTGATGAATA-TGAATATCTCAAAGAGTCTTGGTGCGAAAA
129 AATCCAATGTGGCTGAGATTTGATTAGATGAATATTG-ATATTTC-AAGAGTCTCGGTGCCAAAA
** * * * * * ** *
79580 ATCATGCAAAACTGAATTCGGTGCCACGAAATGCATTTTTAGCCAAAAACCATGAT-GTTAGTAC
192 ATCATGCAAAACTG-AGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAAACTGTAATAGTTAGTAC
** * * * * * *
79644 ACGATTTTTTGCTGAAATTTTGCAAAAAATAACCTGAAAAAATTTTCCACAATTTTTGGATAAAA
256 ACGATTTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGATAAAA
79709 TACTCATAAA
321 TACTCAT-AA
* *
79719 ATATATATGATTCAACGCCAAAAATATTGGAGGACTTTTCACGCTTTTAATATCG-TTTTCATAT
1 ATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATA-
* * * * * * * *
79783 TTTTTCTGAATTAATTTTTTATTAAATCGAAAGATGATTCAGATACTCATAAAAATAAATTCTTA
65 TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAA-TCCTA
** * * * * **
79848 AATTTAATGTGGCTAAGATTTGATTAGATGAATATGGATATCTCAAGGAGTCTTGGTGGAAAAAA
129 AATCCAATGTGGCTGAGATTTGATTAGATGAATATTGATATTTCAA-GAGTCTCGGTGCCAAAAA
* * * * * * * * * *
79913 TCATGCAAAACTGAGTCGGGGCACTGAAAAGCTTTTTTAGCCAAAAATTGTGATGGTTATTACAC
193 TCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAAACTGTAATAGTTAGTACAC
* * * * * *
79978 GA-TTTCGGCTAAAATTTTGTAAAAATTAACCCGAAAGATATTTCCTCATTTTTTTTGGCTAAAA
258 GATTTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCA--ATTTTTGGATAAAA
*
80042 TAATCATAA
321 TACTCATAA
* ** * ** * * *
80051 AAATTATATGTTTCAACGCCAGAAAGATTCAAGGGCTTTTGACG-TTTCTAATATCGTTTTTCCT
1 ATA-TATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTT-TAATATCGTTTTTCAT
* * * * *
80115 A-TTTTCCGAATGAATTTTTAATTACATCGAAACAAAATTCAGATGCTCGTAAAAAACAAATCCT
64 ATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAAACAAATCC-
** * * * *
80179 TAAATCCAATGTTTCTGAGATTTGATTAGATGAATATAGATATTTCAATTAGTCTCAGAGCC-AA
127 TAAATCCAATGTGGCTGAGATTTGATTAGATGAATATTGATATTTCAA-GAGTCTCGGTGCCAAA
* * ** * * * *
80243 AATCATGCAAAATTGAGGC-GGGATCCTAGAATGCGTTTTTAGCTAAAAACCGTGATGATTAGTT
191 AATCATGCAAAACTGAGCCGGGGCCCCGA-AACGCGTTTTTAGC-AAAAAAC-TG-T-AATAGTT
* * * * * *
80307 AGTACACGA-TCTCGGCTAAAATTTTGCAAAAATTGACACGAAATATTTCTCCTCAATTATTGGC
251 AGTACACGATTTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGA
*
80371 TAAAATATTCATAA
316 TAAAATACTCATAA
* * * * * * * * * *
80385 AAATATATAATTCAATGCCAAAAAGAATGTAGGGCTTTTAATGCTTTTAATATCATATTTCTTAT
1 ATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAT
* * * * *
80450 TTTTGTAAATTAATTTCTAATTAAATCAAAACAAGATTCAGATGCTCGTAAAAAACAATTTCTTA
66 TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAAACAA-ATCCTA
* * *
80515 AATCCAATGTTGCTGAAATTTGCTTAGAT
129 AATCCAATGTGGCTGAGATTTGATTAGAT
80544 TATGTAAAGT
Statistics
Matches: 1726, Mismatches: 353, Indels: 147
0.78 0.16 0.07
Matches are distributed among these distances:
326 57 0.03
327 37 0.02
328 89 0.05
329 132 0.08
330 179 0.10
331 120 0.07
332 210 0.12
333 213 0.12
334 321 0.19
335 231 0.13
336 91 0.05
337 30 0.02
338 13 0.01
339 3 0.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (329 bp):
ATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAT
TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTAAA
TCCAATGTGGCTGAGATTTGATTAGATGAATATTGATATTTCAAGAGTCTCGGTGCCAAAAATCA
TGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAAACTGTAATAGTTAGTACACGAT
TTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGATAAAATACTC
ATAA
Found at i:79471 original size:669 final size:649
Alignment explanation
Indices: 78062--80543 Score: 2053
Period size: 669 Copynumber: 3.7 Consensus size: 649
78052 CAATTTTTAT
* * ** * *
78062 ATATAAAATTTAACGCCAAAAAGATTTG-AGAAATTTTCACGCTTTTAATATTGTTTTTCATATT
1 ATATATAATTTAAAGCCAAAAAGA-TTGAAG-GCTTTTCACGCTTTTAATATCGTTTTTCCTATT
* * *
78126 TTCTGAATTTATCTT-TAATTGAATCGAAACAAGATTCA-GATGCTCGTACAAGCAAATCCTTAA
64 TT-TGAATTAAT-TTCTAATTAAATCGAAACAAGATT-ATGATGCTCGT--TA-CAAATCCTTAA
** * * * ** *
78189 ATTAAATGTCGCTGAGATTTGATTAGATGAGTATAGAT-ATTTTAAGGAA-TCTCGGTGCCAAAA
123 ATCCAATGTGGTTGAGATTTGATTAGAT-A-AATAGATAATTCCAA--AAGTCTCGG-ACCAAAA
* * * * *
78252 ATCATGCAAAACT-AAGCCGGGGCCCTGAAACGCGCTTTTAGCTAAAAACCATGA-TAG-TTAGT
183 ATCATGCAAAACTGAA-CCGGGGCCCTGAAA--TGTTTTTAGCCAAAAACCGTGATTTGATTAGT
** * * * * **
78314 ACACACGATTTTAGCTAAAATTTT-AAAAAAATGACCTGAAAAATTTTTCCTGAATTTTTGGATA
245 --ACACGATTTCGGCT-AAATTTTGCAAAAATTGACCAGAAATATTTTTCCACAATTTTT-GATA
*
78378 AAATACTCAT--AATATATATAATTTAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATA
306 AAATACTCATAAAATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATA
* * *
78441 TTATTTTTCATATTTTTCTGGATTAATTTCTAATTAAATCGAAACAAGATTCAGATGGTCGTAAA
371 TCATTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA
* * * ** * *
78506 AATAAATTTTTATATACAATGTACCAGAAATTTGATTAGTTGAATA-TGAATATCTCAAAGAGTC
436 AACAAATTCTTAAATACAATGTGGCTGAAATTTGATTAGATGAATATTG-ATATCTC-AAGAGTC
* * *
78570 TTGATGCCAAAAATCATGCAAAACTTAGCCAGGGCCCCGGAACGCGTTTTTAGCCAAAAATCATG
499 TTGATGCCAAAAATCATGCAAAACTGAGCCAGGGCCCCGAAACGCGTTTTTAG-CAAAAAAC-TG
* * * * *
78635 -ATATGATTATTACAT-AATTTT-AGCTAAAATTTTGCAAAAATTGACCC-AAAAGTTATTACCT
562 TATA-G-TTATTAC-TCGATTTTCGGCTAAAATTTTGTAAAAATTGACCCGAAAAATT-TTTCCT
* * *
78696 CAATTTTTTAGCCACAATAATCATAAAA
623 CAA-TTTTTGGCTAAAATAATCATAAAA
* ** *
78724 ATTATATAATTCAAAGCCAAAAAGATTGAAAGGCTTTTCATACTTTTAATAT-TTTTTTCCTATT
1 A-TATATAATTTAAAGCCAAAAAGATTG-AAGGCTTTTCACGCTTTTAATATCGTTTTTCCTA-T
* * *
78788 ATTTTCCGAATTAATTTCTAATCAAATCGAAACATGATTATGATGCTTGTTTTACAAATCCTTAA
63 -TTTT--GAATTAATTTCTAATTAAATCGAAACAAGATTATGATGCTCG--TTACAAATCCTTAA
* * * *
78853 ATCCAATATGGTTGAGATTTGGTTAAAATATAATAGATAATTCCAGAAGTCTCGGCACCAAAAAT
123 ATCCAATGTGGTTGAGATTTGATT-AGATA-AATAGATAATTCCAAAAGTCTCGG-ACCAAAAAT
* *
78918 CATGCAACACTGAACCGGGGCCCTGGAACATGTTTTTAGCCAAAAACCGTGATTTCGACTAACGT
185 CATGCAAAACTGAACCGGGGCCCT-GAA-ATGTTTTTAGCCAAAAACCGTGATTT-GA-TTA-GT
* **
78983 ACACGATTTCGGCTAATATATTGCAAAAATTGACCAGAAATATTTTTTCC-CAATTTTTTTTAAA
245 ACACGATTTCGGCTAA-ATTTTGCAAAAATTGACCAGAAATA-TTTTTCCACAATTTTTGATAAA
**
79047 ATACTCATAAAATATATATAATTCAACTTCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATC
308 ATACTCATAAAATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATC
* * * *
79112 GTTTTTCATATTTCTCTGAATCAATTTCTAATTAAATCGAAATAAGATTCAGATGCTCGTAAAAA
373 ATTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * * * * * **
79177 CAAATTCCTAAATGCAATGTGGCTGAGATTTGGTTTGATGAATATTGATATTTCAAGTAGTCTCA
438 CAAATTCTTAAATACAATGTGGCTGAAATTTGATTAGATGAATATTGATATCTCAAG-AGTCTTG
* * *
79242 ACGCCAAAAATCATTCAAAACTGAGGCAGGGCCCCGAAACGCGTTTTGTAGCAAAAAACTGTAAT
502 ATGCCAAAAATCATGCAAAACTGAGCCAGGGCCCCGAAACGCGTTTT-TAGCAAAAAACTGT-AT
* * *
79307 AGTTAGTACTCGATTTTCGGCTAAAATTTTGTAAAAAATGACCCGAAAAATTTTTCCTCAAATTT
565 AGTTATTACTCGATTTTCGGCTAAAATTTTGTAAAAATTGACCCGAAAAATTTTTCCTCAATTTT
* * * *
79372 TGGATAAAATACTAATGAAAT
630 TGGCTAAAATAATCAT-AAAA
* * * * *
79393 ATATATAATTTAATGCCAAAAAATATTGGAGGACTTTTCACGCTTTTTATATCGTTTTTCATACT
1 ATATATAATTTAAAGCC-AAAAAGATTGAAGG-CTTTTCACGCTTTTAATATCGTTTTTCCTA-T
* *
79458 TTTTGTAAATTAATTTCTAATTAAATCGAATCAAGATT-TAGATGCTCG-TA-AAA---ATAAAT
63 TTTTG--AATTAATTTCTAATTAAATCGAAACAAGATTAT-GATGCTCGTTACAAATCCTTAAAT
* * * * * * *
79517 CCGCACTGTGGTTGAAATTTGATTTGATGAAT--ATGAATATCTCAAAGAGTCTTGGTGCGAAAA
125 -C-CAATGTGGTTGAGATTTGATTAGATAAATAGAT-AAT-TC-CAAA-AGTCTCGG-ACCAAAA
* * *
79580 ATCATGCAAAACTGAATTCGGTGCCAC-GAAATGCATTTTTAGCCAAAAACCATGA--TG-TTAG
183 ATCATGCAAAACTGAA-CCGGGGCC-CTGAAATG--TTTTTAGCCAAAAACCGTGATTTGATTAG
** * * * * *
79641 TACACGATTTTTTGCTGAAATTTTGCAAAAAATAACCTGAAAAAATTTTCCACAATTTTTGGATA
244 TACACGA-TTTCGGCT-AAATTTTGCAAAAATTGACCAGAAATATTTTTCCACAATTTTT-GATA
* *
79706 AAATACTCATAAAATATATATGATTCAACGCCAAAAATATTGGAGGACTTTTCACGCTTTTAATA
306 AAATACTCATAAAATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATA
* * * * * * *
79771 TC-GTTTTCATATTTTTTCTGAATTAATTTTTTATTAAATCGAAAGATGATTCAGATACTCATAA
371 TCATTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAA
* ** *
79835 AAATAAATTCTTAAATTTAATGTGGCT-AAGATTTGATTAGATGAATATGGATATCTCAAGGAGT
435 AAACAAATTCTTAAATACAATGTGGCTGAA-ATTTGATTAGATGAATATTGATATCTCAA-GAGT
* ** * * * * * * * *
79899 CTTGGTGGAAAAAATCATGCAAAACTGAGTCGGGGCACTGAAAAGCTTTTTTAGCCAAAAATTGT
498 CTTGATGCCAAAAATCATGCAAAACTGAGCCAGGGCCCCGAAACGCGTTTTTAGCAAAAAACTGT
* * * * *
79964 GATGGTTATTACACGA-TTTCGGCTAAAATTTTGTAAAAATTAACCCGAAAGATATTTCCTCATT
563 -ATAGTTATTACTCGATTTTCGGCTAAAATTTTGTAAAAATTGACCCGAAAAATTTTTCCTCA--
*
80028 TTTTTTGGCTAAAATAATCATAAAA
625 ATTTTTGGCTAAAATAATCATAAAA
* * * * *
80053 AT-TATATGTTTCAACGCCAGAAAGATTCAAGGGCTTTTGACG-TTTCTAATATCGTTTTTCCTA
1 ATATATA-ATTT-AAAGCCAAAAAGATTGAA-GGCTTTTCACGCTTT-TAATATCGTTTTTCCTA
* * * * * *
80116 TTTTCCGAATGAATTTTTAATTACATCGAAACAAAATTCA-GATGCTCGTAAAAAACAAATCCTT
62 TTTT-TGAATTAATTTCTAATTAAATCGAAACAAGATT-ATGATGCTCGT----TACAAATCCTT
* * * *
80180 AAATCCAATGT-TTCTGAGATTTGATTAGATGAATATAGAT-ATTTCAATTAGTCTCAGAGCC-A
121 AAATCCAATGTGGT-TGAGATTTGATTAGAT-AA-ATAGATAATTCCAA-AAGTCTCGGA-CCAA
* ** ** *
80242 AAATCATGCAAAATTGAGGCGGGATCCT-AGAATGCGTTTTTAGCTAAAAACCGTGATGATT-AG
181 AAATCATGCAAAACTGAACCGGGGCCCTGA-AAT--GTTTTTAGCCAAAAACCGTGAT--TTGA-
* * * *
80305 TTAGTACACGATCTCGGCTAAAATTTTGCAAAAATTGA-CACGAAATATTTCTCCTCAATTATTG
240 TTAGTACACGATTTCGGCT-AAATTTTGCAAAAATTGACCA-GAAATATTTTTCCACAATT-TTT
* * * * * * * *
80369 GCTAAAATATTCATAAAA-ATATATAATTCAATGCCAAAAAGAATGTAGGGCTTTTAATGCTTTT
302 GATAAAATACTCATAAAATATATATAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTT
* * * * *
80433 AATATCATATTTCTTATTTTTGTAAATTAATTTCTAATTAAATCAAAACAAGATTCAGATGCTCG
367 AATATCATTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCG
* * * *
80498 TAAAAAACAATTTCTTAAATCCAATGTTGCTGAAATTTGCTTAGAT
432 T-AAAAACAAATTCTTAAATACAATGTGGCTGAAATTTGATTAGAT
80544 TATGTAAAGT
Statistics
Matches: 1460, Mismatches: 261, Indels: 193
0.76 0.14 0.10
Matches are distributed among these distances:
658 34 0.02
659 67 0.05
660 111 0.08
661 226 0.15
662 26 0.02
663 76 0.05
664 164 0.11
665 104 0.07
666 96 0.07
667 134 0.09
668 86 0.06
669 313 0.21
670 23 0.02
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (649 bp):
ATATATAATTTAAAGCCAAAAAGATTGAAGGCTTTTCACGCTTTTAATATCGTTTTTCCTATTTT
TGAATTAATTTCTAATTAAATCGAAACAAGATTATGATGCTCGTTACAAATCCTTAAATCCAATG
TGGTTGAGATTTGATTAGATAAATAGATAATTCCAAAAGTCTCGGACCAAAAATCATGCAAAACT
GAACCGGGGCCCTGAAATGTTTTTAGCCAAAAACCGTGATTTGATTAGTACACGATTTCGGCTAA
ATTTTGCAAAAATTGACCAGAAATATTTTTCCACAATTTTTGATAAAATACTCATAAAATATATA
TAATTCAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCATTTTTCATATTTTTCTG
AATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATACAAT
GTGGCTGAAATTTGATTAGATGAATATTGATATCTCAAGAGTCTTGATGCCAAAAATCATGCAAA
ACTGAGCCAGGGCCCCGAAACGCGTTTTTAGCAAAAAACTGTATAGTTATTACTCGATTTTCGGC
TAAAATTTTGTAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGCTAAAATAATCATAAAA
Found at i:85389 original size:20 final size:22
Alignment explanation
Indices: 85361--85418 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
85351 AGCGAGATTA
*
85361 TTATGTTATATCTTA-C-TATT
1 TTATCTTATATCTTATCTTATT
85381 TTATC-T-TATCTTATCTTATT
1 TTATCTTATATCTTATCTTATT
85401 TTATC-T-TATCTTATCTTA
1 TTATCTTATATCTTATCTTA
85419 CTATCTTACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 7 0.20
19 2 0.06
20 26 0.74
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.62
Consensus pattern (22 bp):
TTATCTTATATCTTATCTTATT
Found at i:85391 original size:5 final size:5
Alignment explanation
Indices: 85369--85426 Score: 70
Period size: 5 Copynumber: 12.4 Consensus size: 5
85359 TATTATGTTA
* *
85369 TATCT TA-C- TATTT TATCT TATCT TATCT TATTT TATCT TATCT TATCT
1 TATCT TATCT TATCT TATCT TATCT TATCT TATCT TATCT TATCT TATCT
85417 TA-C- TATCT TA
1 TATCT TATCT TA
85427 CTAATCTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 4 0.09
4 3 0.07
5 38 0.84
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.60
Consensus pattern (5 bp):
TATCT
Found at i:86820 original size:331 final size:330
Alignment explanation
Indices: 86082--87533 Score: 1360
Period size: 331 Copynumber: 4.4 Consensus size: 330
86072 ACATTGGACC
* * * * * * * *
86082 TAAAAATTTATTTTTACGAGTATCTAAATCTTGTTTTGATTTAATTAGTAATTAATTTAGAAAAA
1 TAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTAAAAAAAA
* * * * * *
86147 TAAGAAATACGATATTAAAAGCAT-AAAAATACCTCCAATATTTTTGGA-GTTGAATTATGTA-T
66 TATGAAAAACGATATTAAAAGCGTGAAAAGTACCTCCAATATTTTT-GACGTTAAATTATATATT
* * * *
86209 TTTTATGAGTATTTTAG-TCAAAAATTGAGGAGATATCTTTCGGGTCAATTTTTGCAAAATTTTA
130 TTTTATGAGTATTAT-GCT-AAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTA
* * * * * * *
86273 GCCGAAATCGTGTAATAACCATCACAGTTTTTGGATAAAAAAGTGTTCT-AGGCCTCGGCTTAGT
193 GCCGAAATCGTGTAATAACCATCACGGTTTTTGGCT-AAAAAGCGTTTTGGGGCCCCGGCTCAGT
** ** * * * * *
86337 TTTGTATGATTTTTTCCTCCAAGACTCCTTGAGATAT-TCATATTCATCTAATCAAATCTCAGTC
257 TTTACATGATTTTTGGCGCCAAGACTCCTTGAAATATCT-ATATTCATCTAATAAAATCTTAGCC
*
86401 ACATTGGATT
321 ACATTGCATT
* * * * *
86411 T-AAGAATTTGTTTTTACAAGCATTTGAATCTTGTTTCGTTTTAATTAGAAATTAATTCAGAAAA
1 TAAAG-ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTAAAAAAA
* * * *
86475 ATACGAAAAATGATATTAAAAGCGTGAAAAGT-CCTCCAATATTTTTGACGTTAAACTATATATA
65 ATATGAAAAACGATATTAAAAGCGTGAAAAGTACCTCCAATATTTTTGACGTTAAATTATATATT
86539 TTTTATGAGTATTTAAT-CTAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTA
130 TTTTATGAGTA-TT-ATGCTAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTA
* * * *
86603 GCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAATAACGCGTTTTGGGGCCCCAGCTCAGT
193 GCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAA-AAAGCGTTTTGGGGCCCCGGCTCAGT
* * * *
86668 TTTACATAATTTTTGGCGCCGACACTCCTTGTAAA-ATCTATATTCATCTATTAAAATCTTAGCC
257 TTTACATGATTTTTGGCGCCAAGACTCCTTG-AAATATCTATATTCATCTAATAAAATCTTAGCC
86732 ACATTGCATT
321 ACATTGCATT
* **
86742 TAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTTAGAAAAAAAAA
1 TAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTAAAAAAAA
* * * * * *
86807 TATGAAAAATGATATTAAAAGCGTGAAAA-TCCCTTCAATCTTTTTGGCGTTGAATTATATATTT
66 TATGAAAAACGATATTAAAAGCGTGAAAAGTACCTCCAATATTTTTGACGTTAAATTATATATTT
* * *
86871 TTTATGAGTATTATGGCTAAAAATGGAGGAAATATTTTTCGGGTTAATTTTTGCAAAATTTTAGC
131 TTTATGAGTATTAT-GCTAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTAGC
* ** * *
86936 CGAAATCGTGTAATAATCATCACGGTTTTTGGCTAAAAATGCG-TTCCGGG-CCCGTGTTCAATT
195 CGAAATCGTGTAATAACCATCACGGTTTTTGGCTAAAAA-GCGTTTTGGGGCCCCG-GCTCAGTT
** * * *
86999 TTGA-ATGATTTTTGGCATCGAGAATCCTTGAAATATCTATATTCATCTAATCAAATC----CCA
258 TT-ACATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCA
87059 -A---C---
322 CATTGCATT
* * * * *
87061 ----CA-TTGTTTTTACAAGCATCTGAATCATGTTTCGTTTTAATTAGAAATTAATTCTAAAAAA
1 TAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT-AAAAAAA
* * * * *
87121 ATATGAAAAACGATATTAAAAGCGTGAAATG-CCCTTCAATCTTTTTGGCGTTAAATTATATATT
65 ATATGAAAAACGATATTAAAAGCGTGAAAAGTACCTCCAATATTTTTGACGTTAAATTATATA-T
* * * *
87185 TTTTTATGAGTATTATGGCTAAAATTTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATATTA
129 TTTTTATGAGTATTAT-GCTAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTA
* * *
87250 GCCGAAATCGTG---T-ACCATCACTGTTTTTTGGCT-AAAAGCGTTTAGGGGCCCCGGGTCAGT
193 GCCGAAATCGTGTAATAACCATCAC-GGTTTTTGGCTAAAAAGCGTTTTGGGGCCCCGGCTCAGT
* * * * * * ** * **
87310 TTTGCATGATTTTTAGTGGCAAAACTCTTTGAAATATCTGCATTCATTTAA-CCAATCTTAGCCA
257 TTTACATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCA
*
87374 CATTGGATT
322 CATTGCATT
* * *
87383 TAAGGATTTTTTTTTTTTACGAGCATTTGAAT-TATGTTTCGATTTAATTAGAAATTAATTTGAA
1 TAAAGA---TTTGTTTTTACGAGCATCTGAATCT-TGTTTCGATTTAATTAGAAATTAA-TT-AA
* * * * * * *
87447 AAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGGAGAAGTCCTTCAATCTTTTTTACGTTGA
60 AAAAAATATGAAAAACGATATTAAAAGCGTG-AAA--AGTA--CCTCCAATATTTTTGACGTTAA
87512 ATTATATATTTTTTATGAGTAT
120 ATTATATATTTTTTATGAGTAT
87534 GACCGAGCCA
Statistics
Matches: 935, Mismatches: 135, Indels: 99
0.80 0.12 0.08
Matches are distributed among these distances:
311 8 0.01
312 59 0.06
313 15 0.02
314 44 0.05
315 68 0.07
316 72 0.08
322 1 0.00
325 1 0.00
326 4 0.00
328 4 0.00
329 106 0.11
330 199 0.21
331 302 0.32
332 10 0.01
334 1 0.00
336 14 0.01
337 27 0.03
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (330 bp):
TAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTAAAAAAAA
TATGAAAAACGATATTAAAAGCGTGAAAAGTACCTCCAATATTTTTGACGTTAAATTATATATTT
TTTATGAGTATTATGCTAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTAGCC
GAAATCGTGTAATAACCATCACGGTTTTTGGCTAAAAAGCGTTTTGGGGCCCCGGCTCAGTTTTA
CATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCACATT
GCATT
Found at i:87648 original size:20 final size:20
Alignment explanation
Indices: 87620--87660 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
87610 TTTAAAAAAA
* *
87620 TTAATAATTAGTTATTATTT
1 TTAAAAATTAATTATTATTT
87640 TTAAAAATTAATTATTATTT
1 TTAAAAATTAATTATTATTT
87660 T
1 T
87661 ATATGACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTAAAAATTAATTATTATTT
Found at i:99101 original size:18 final size:18
Alignment explanation
Indices: 99078--99126 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
99068 ATAAGTAGTC
*
99078 TTTTTAGTAATTTAACTT
1 TTTTTAGTAATTCAACTT
*
99096 TTTTTAGATGATTCAACTT
1 TTTTTAG-TAATTCAACTT
*
99115 TTTTTATTAATT
1 TTTTTAGTAATT
99127 ATGTAAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (18 bp):
TTTTTAGTAATTCAACTT
Found at i:100281 original size:329 final size:329
Alignment explanation
Indices: 99594--100483 Score: 948
Period size: 329 Copynumber: 2.7 Consensus size: 329
99584 ATACTTTACA
* * * * *
99594 TCATCTAACCAAATCTCAGTA-ACATTGGATTTAACAA--TTTTTTTATAAGTAT-TGAATCTTA
1 TCATCTAATCAAATCTCAG-ACACATTGGATTTAAGAATTTTTTTTTATGAGCATCTGAATCTTG
* * * * * * *
99655 TTTTGATTTAATTAAAAATTAATCTTAAAAAATCAGAAATATGATATTAAAAGCGTGAAACCGCC
65 TTTCGA-TTAATTAGAAATTAAT-TCAAAAAA-AAGAAAAACGATATTAAAAGCGTGAAA-AGCC
* * ** *
99720 CTCCAATCTTTTAGGTGTT-GAAT-TATACATTTTTATGAGTATTTTAGCCAAAAATTGAGAAGA
126 CTTCAATCTTTTTGGCATTAAAATATATA-ATTTTTATGAGTATTTTAG-CAAAAATTGAG--GA
* * * * *
99783 AAT-TTTTCGTGTCAATTTTTGTACAATTTTAACCGAAATCATGTACTAACTAACCATCACGGTT
187 AATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT-ATGTACTAACTAACCATCACAGTT
* * * * * * **
99847 TTTGGCTAAAAACGGGTTCCGGGGACCCGTCTCAATTTTGTAAGATTTTTGCCTCCGAGGCTGTT
251 TTTGGCTAAAAAAGCGTTCCGGGGACCCGGCTCAATTTTGCAAGATTTTTGCCTCCAAGACTCCT
*
99912 TGAAATATATATAT
316 TGAAATATACATAT
*
99926 TCATCTAATCAAATCTCAGACACATTGGATTTAAGGATTTTTTTTTATGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGACACATTGGATTTAAGAATTTTTTTTTATGAGCATCTGAATCTTGT
* *
99991 TTCGATATAATTAGAAATTAATTCAAAAAAAAGAAAAACGATATTAAAAACGTCAAAAGCCCTTC
66 TTCGAT-TAATTAGAAATTAATTCAAAAAAAAGAAAAACGATATTAAAAGCGTGAAAAGCCCTTC
100056 AATCTTTTTGGCATTAAAATATATAATTTTTATGAGTATTTTAGCTAAAAATTGAGGAAATATCT
130 AATCTTTTTGGCATTAAAATATATAATTTTTATGAGTATTTTAGC-AAAAATTGAGGAAATAT-T
* * * *
100121 TTCGGGTCAATTTTTACAGAATTTTAGTCGAAAT-TGT-GTAA-TAACCATCACAGTTTTTGGCT
193 TTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATATGTACTAACTAACCATCACAGTTTTTGGCT
* * * * *
100183 AAAAAAGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGT-CAAGACTCCTTGAGAT
258 AAAAAAGCGTTCCGGGGACCCGGCTCAATTTTGCAAGATTTTT-GCCTCCAAGACTCCTTGAAAT
*
100247 ATCCATAT
322 ATACATAT
* * * * * *
100255 TCATCTAATCAAATGTGAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTTAATCTTGT
1 TCATCTAATCAAATCTCAGACACATTGGATTTAAGAATTTTTTTTTATGAGCATCTGAATCTTGT
* *
100320 TTCGGTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAACGCGTGAAAAGTCCT
66 TTCGATTAATTAGAAATTAATTCA-AAAAAA-A-GAAAAACGATATTAAAAGCGTGAAAAG-CC-
* * * *
100385 CTT--ATC-TTTTGGCATTAAATTATAT-ATATTTTATAAGTATTTTATCCAAAATTGAGGAAAA
126 CTTCAATCTTTTTGGCATTAAAATATATAAT-TTTTATGAGTATTTTAGCAAAAATTGAGG-AAA
* *
100446 TTATTTTC-GGTCATTTTTTGCAAAATTTTAGCCAAAAT
189 -TATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT
100484 CTATATTCAT
Statistics
Matches: 476, Mismatches: 63, Indels: 41
0.82 0.11 0.07
Matches are distributed among these distances:
328 18 0.04
329 179 0.38
330 48 0.10
331 39 0.08
332 54 0.11
333 86 0.18
334 25 0.05
335 27 0.06
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (329 bp):
TCATCTAATCAAATCTCAGACACATTGGATTTAAGAATTTTTTTTTATGAGCATCTGAATCTTGT
TTCGATTAATTAGAAATTAATTCAAAAAAAAGAAAAACGATATTAAAAGCGTGAAAAGCCCTTCA
ATCTTTTTGGCATTAAAATATATAATTTTTATGAGTATTTTAGCAAAAATTGAGGAAATATTTTC
GGGTCAATTTTTGCAAAATTTTAGCCGAAATATGTACTAACTAACCATCACAGTTTTTGGCTAAA
AAAGCGTTCCGGGGACCCGGCTCAATTTTGCAAGATTTTTGCCTCCAAGACTCCTTGAAATATAC
ATAT
Done.