Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 20 of 167
Found at i:5998815 original size:21 final size:21
Alignment explanation
Indices: 5998789--5998831 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
5998779 AATTTTAAGC
5998789 ACCAATTAGAAACAAAACCCT
1 ACCAATTAGAAACAAAACCCT
5998810 ACCAATTAGAAACAAAACCCT
1 ACCAATTAGAAACAAAACCCT
5998831 A
1 A
5998832 TTGTATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (21 bp):
ACCAATTAGAAACAAAACCCT
Found at i:6002343 original size:21 final size:20
Alignment explanation
Indices: 6002305--6002353 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
6002295 TTACGTTTAT
*
6002305 TTTTTTTAAATTAAGAATTA
1 TTTTTTTAAATTAAGAATGA
* *
6002325 TTTTTTTAATTTCATGAATGA
1 TTTTTTTAAATT-AAGAATGA
*
6002346 TTTATTTA
1 TTTTTTTA
6002354 TTTTATTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTTTTTAAATTAAGAATGA
Found at i:6010755 original size:19 final size:20
Alignment explanation
Indices: 6010723--6010766 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
6010713 CAGAAAATAA
6010723 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
6010743 TTTCTGG-AAATGATTTATT
1 TTTCTGGAAAATGATTTACT
6010762 TTTCT
1 TTTCT
6010767 AGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:6010911 original size:36 final size:36
Alignment explanation
Indices: 6010840--6010911 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
6010830 CCGAAAAAGC
*
6010840 TATTTTTACATATATTAATAAATTTATATTTTAAAT
1 TATTTTTACATATATTAATAAATTTATATTATAAAT
6010876 TATTTTTACATATATTGCAAT-AATTTAT-TTATAAAT
1 TATTTTTACATATATT--AATAAATTTATATTATAAAT
6010912 AAATAAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 23 0.70
37 7 0.21
38 3 0.09
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (36 bp):
TATTTTTACATATATTAATAAATTTATATTATAAAT
Found at i:6013081 original size:37 final size:37
Alignment explanation
Indices: 6013040--6013253 Score: 392
Period size: 37 Copynumber: 5.8 Consensus size: 37
6013030 TTTGAGTACT
6013040 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
6013077 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
6013114 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
6013151 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
*
6013188 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
6013225 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
6013254 AGCTTTAGCT
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:6013323 original size:45 final size:46
Alignment explanation
Indices: 6013215--6013338 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
6013205 GTGATAAGTG
* *
6013215 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
*
6013261 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGC-CTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
6013306 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
6013339 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 22 0.30
46 40 0.54
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
Found at i:6020815 original size:37 final size:37
Alignment explanation
Indices: 6020774--6020949 Score: 289
Period size: 37 Copynumber: 4.8 Consensus size: 37
6020764 TTTGAGTACT
6020774 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
* *
6020811 TCTGATCAAGAAACGAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6020848 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6020885 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
6020922 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
6020950 TAGCTTCAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:6021021 original size:45 final size:46
Alignment explanation
Indices: 6020912--6021035 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
6020902 GTGATAAGTG
* *
6020912 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
6020958 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
6021003 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
6021036 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:6035827 original size:28 final size:30
Alignment explanation
Indices: 6035795--6035854 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
6035785 ATTTTAATAG
6035795 TTAAAATAATAAA-TTAA-TTA-ATATAATT
1 TTAAAA-AATAAAGTTAAGTTATATATAATT
* *
6035823 TTAAAAATTAAAGTTAAGTTATATTTAATT
1 TTAAAAAATAAAGTTAAGTTATATATAATT
6035853 TT
1 TT
6035855 CAAGTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 3 0.11
30 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
TTAAAAAATAAAGTTAAGTTATATATAATT
Found at i:6036278 original size:14 final size:14
Alignment explanation
Indices: 6036259--6036289 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6036249 AAGTAGTGAA
6036259 TTTATTTTGTATTT
1 TTTATTTTGTATTT
6036273 TTTATTTTGTATTT
1 TTTATTTTGTATTT
6036287 TTT
1 TTT
6036290 TGTGTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (14 bp):
TTTATTTTGTATTT
Found at i:6036966 original size:15 final size:15
Alignment explanation
Indices: 6036946--6036976 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6036936 TTATTGCAAC
6036946 TCTATTCAATTACAG
1 TCTATTCAATTACAG
*
6036961 TCTATTCCATTACAG
1 TCTATTCAATTACAG
6036976 T
1 T
6036977 AAACCAAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (15 bp):
TCTATTCAATTACAG
Found at i:6040736 original size:3 final size:3
Alignment explanation
Indices: 6040728--6040752 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6040718 AATATTTTAA
6040728 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6040753 GATCAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6042484 original size:13 final size:13
Alignment explanation
Indices: 6042466--6042500 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
6042456 CTGGAATATT
6042466 AAAACAAGAATTA
1 AAAACAAGAATTA
*
6042479 AAAACACATAATTA
1 AAAACA-AGAATTA
6042493 AAAACAAG
1 AAAACAAG
6042501 TCAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (13 bp):
AAAACAAGAATTA
Found at i:6052628 original size:4 final size:4
Alignment explanation
Indices: 6052619--6052656 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
6052609 GTGCCCATAT
*
6052619 TTCA TTCA TTCA TTCA TCCA TTCA TTCA TTCA TTCA TT
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TT
6052657 TGTTTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (4 bp):
TTCA
Found at i:6055395 original size:17 final size:18
Alignment explanation
Indices: 6055373--6055406 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6055363 ATAATTGTAA
6055373 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
6055390 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
6055407 CATGACTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:6056010 original size:6 final size:6
Alignment explanation
Indices: 6055989--6056027 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
6055979 AGCACAAATT
* *
6055989 TTTTAA TTAGTAA TTTTAA TTTTAA TTTTAA TTATAA TT
1 TTTTAA TT-TTAA TTTTAA TTTTAA TTTTAA TTTTAA TT
6056028 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (6 bp):
TTTTAA
Found at i:6056016 original size:12 final size:12
Alignment explanation
Indices: 6055989--6056049 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 12
6055979 AGCACAAATT
6055989 TTTTAATTAGTAA
1 TTTTAATTA-TAA
*
6056002 TTTTAATTTTAA
1 TTTTAATTATAA
6056014 TTTTAATTATAA
1 TTTTAATTATAA
*
6056026 TTATT-TTTA-AA
1 TT-TTAATTATAA
6056037 TTTTTAATTATAA
1 -TTTTAATTATAA
6056050 AAAAATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 4 0.10
12 24 0.60
13 12 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
TTTTAATTATAA
Found at i:6056041 original size:24 final size:24
Alignment explanation
Indices: 6055988--6056049 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 24
6055978 TAGCACAAAT
*
6055988 TTTTTAATTAGTAATTTTAATTTTAA
1 TTTTTAATTA-TAATTTT-ATTTAAA
6056014 -TTTTAATTATAATTATT-TTTAAA
1 TTTTTAATTATAATT-TTATTTAAA
6056037 TTTTTAATTATAA
1 TTTTTAATTATAA
6056050 AAAAATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.15
24 17 0.52
25 11 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTTAATTATAATTTTATTTAAA
Found at i:6066032 original size:146 final size:145
Alignment explanation
Indices: 6065881--6066228 Score: 350
Period size: 149 Copynumber: 2.3 Consensus size: 145
6065871 ACTTTATTTT
* **
6065881 TATTTTTCAAAATCTAAATTTTCTCCTTTTTTTAAAAAAAACTATTTTTATTAAAGATTAAAGTT
1 TATTTTTCAAAATCTAAAATTTCTCCTTTTTTTAAAAAAAACTATTTTTATTAAAGATTAAAACT
* *
6065946 TTTACTTTGAAGTAG-TTAAAAAAGAAGTTCAAAATTTTGTTTTAAAAATTTAAACTTTTCATTA
66 TTTAATTTGAAGTAGTTTAAAAAA-AA-TT-AAAATTTTATTTTAAAAATTTAAAC-TTTCATTA
* *
6066010 AAATAACTAAAAAAACAAATTTT
127 AAA-AACTAAAAAAA-ACA--TA
* * * *
6066033 TATTTTACAAAAAACT-AAA---CT--TTTTAATTAAAAAAATACTATTTTTCTTAAAGATTAAA
1 TATTTTTC-AAAATCTAAAATTTCTCCTTTT-TTTAAAAAAA-ACTATTTTTATTAAAGATTAAA
* *
6066092 ACTTTTAATTTGAAGTAGTTTAAAAAAAATTAAAATTTTATTTTAAAAATTTAAACTTTCCTTTA
63 ACTTTTAATTTGAAGTAGTTTAAAAAAAATTAAAATTTTATTTTAAAAATTTAAACTTTCATTAA
6066157 AAAACTAAAAAAAACATA
128 AAAACTAAAAAAAACATA
* * * *
6066175 TTTTTATTTTTGCAAAATCTAAACTTTCTCATTTTTTTTAAAAACACTATTTTT
1 ----TATTTTT-CAAAATCTAAAATTTCTCCTTTTTTTAAAAAAAACTATTTTT
6066229 CCCAAAATCA
Statistics
Matches: 162, Mismatches: 19, Indels: 32
0.76 0.09 0.15
Matches are distributed among these distances:
142 1 0.01
144 2 0.01
145 11 0.07
146 21 0.13
147 31 0.19
148 11 0.07
149 40 0.25
150 19 0.12
151 7 0.04
152 13 0.08
153 6 0.04
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (145 bp):
TATTTTTCAAAATCTAAAATTTCTCCTTTTTTTAAAAAAAACTATTTTTATTAAAGATTAAAACT
TTTAATTTGAAGTAGTTTAAAAAAAATTAAAATTTTATTTTAAAAATTTAAACTTTCATTAAAAA
ACTAAAAAAAACATA
Found at i:6066067 original size:23 final size:23
Alignment explanation
Indices: 6066018--6066073 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
6066008 TAAAATAACT
*
6066018 AAAAAAAC-AAATTTTTATTTTA
1 AAAAAAACTAAATTTTTATATTA
*
6066040 CAAAAAACTAAACTTTTTA-ATTA
1 AAAAAAACTAAA-TTTTTATATTA
6066063 AAAAAATACTA
1 AAAAAA-ACTA
6066074 TTTTTCTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 7 0.25
23 11 0.39
24 10 0.36
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAAAACTAAATTTTTATATTA
Found at i:6066068 original size:24 final size:23
Alignment explanation
Indices: 6066018--6066073 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
6066008 TAAAATAACT
* *
6066018 AAAAAAAC-AAATTTTTATTTTA
1 AAAAAAACTAAATTTTTAATTAA
*
6066040 CAAAAAACTAAACTTTTTAATTAA
1 AAAAAAACTAAA-TTTTTAATTAA
*
6066064 AAAAATACTA
1 AAAAAAACTA
6066074 TTTTTCTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 7 0.26
23 3 0.11
24 17 0.63
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAAAACTAAATTTTTAATTAA
Found at i:6066141 original size:20 final size:20
Alignment explanation
Indices: 6066116--6066166 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6066106 GTAGTTTAAA
* *
6066116 AAAAATTAAAATTTTATTTT
1 AAAAATTAAAACTTTACTTT
* *
6066136 AAAAATTTAAACTTTCCTTT
1 AAAAATTAAAACTTTACTTT
*
6066156 AAAAACTAAAA
1 AAAAATTAAAA
6066167 AAAACATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTAAAACTTTACTTT
Found at i:6066191 original size:147 final size:147
Alignment explanation
Indices: 6065912--6066201 Score: 410
Period size: 146 Copynumber: 2.0 Consensus size: 147
6065902 TCTCCTTTTT
** *
6065912 TTAAAAAAAACTATTTTTATTAAAGATTAAAGTTTTTACTTTGAAGTAGTTAAAAAAGAAGTTCA
1 TTAAAAAAAACTATTTTTATTAAAGATTAAAACTTTTAATTTGAAGTAGTTAAAAAAGAAGTTCA
*
6065977 AAATTTTGTTTTAAAAATTTAAACTTTTCATTAAAATAACTAAAAAAACAAATTTTTATTTTACA
66 AAATTTTATTTTAAAAATTTAAACTTTTCATTAAAATAACTAAAAAAACAAATTTTTATTTTAC-
6066042 AAAAACTAAACTTTTTAA
130 AAAAACTAAACTTTTTAA
*
6066060 TTAAAAAAATACTATTTTTCTTAAAGATTAAAACTTTTAATTTGAAGTAGTTTAAAAAA-AA-TT
1 TTAAAAAAA-ACTATTTTTATTAAAGATTAAAACTTTTAATTTGAAGTAG-TTAAAAAAGAAGTT
* * *
6066123 -AAAATTTTATTTTAAAAATTTAAAC-TTTCCTTTAAA-AACTAAAAAAAACATATTTTTATTTT
64 CAAAATTTTATTTTAAAAATTTAAACTTTTCATTAAAATAACT-AAAAAAACAAATTTTTA-TTT
* *
6066185 TGCAAAATCTAAACTTT
127 TACAAAAACTAAACTTT
6066202 CTCATTTTTT
Statistics
Matches: 128, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
145 4 0.03
146 38 0.30
147 29 0.23
148 11 0.09
149 38 0.30
150 8 0.06
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (147 bp):
TTAAAAAAAACTATTTTTATTAAAGATTAAAACTTTTAATTTGAAGTAGTTAAAAAAGAAGTTCA
AAATTTTATTTTAAAAATTTAAACTTTTCATTAAAATAACTAAAAAAACAAATTTTTATTTTACA
AAAACTAAACTTTTTAA
Found at i:6072241 original size:74 final size:74
Alignment explanation
Indices: 6072153--6072311 Score: 216
Period size: 74 Copynumber: 2.1 Consensus size: 74
6072143 CCCCAAACCT
* *
6072153 TTTTACTTTCCCCTC-CAAAATTTAATTT-CCCCAAACCCCCTAAAACTTTTTTCCTTTTTACTT
1 TTTTAC-TTCCCCTCAAAAAATTTAATTTCCCCCAAACCCCCCAAAA-TTTTTTCC-TTTTACTT
* *
6072216 TATTCTC-AAAAC
63 T-CTCCCAAAAAC
*
6072228 TTTTACTTCCCCTCAAAAAATTTACTTTCCCCCAAACCCCCCAAAATTTTTTCCTTTTACTTTCT
1 TTTTACTTCCCCTCAAAAAATTTAATTTCCCCCAAACCCCCCAAAATTTTTTCCTTTTACTTTCT
6072293 CCCAAAAAC
66 CCCAAAAAC
6072302 TTTTACTTCC
1 TTTTACTTCC
6072312 TTAAGACCCA
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
73 3 0.04
74 32 0.42
75 25 0.33
76 16 0.21
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (74 bp):
TTTTACTTCCCCTCAAAAAATTTAATTTCCCCCAAACCCCCCAAAATTTTTTCCTTTTACTTTCT
CCCAAAAAC
Found at i:6072787 original size:20 final size:19
Alignment explanation
Indices: 6072746--6072804 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
6072736 TTTTTTTAAT
*
6072746 TTTTTTTAAAAAATTAAAA
1 TTTTTTTAAAAAATCAAAA
**
6072765 TTTTATTTAAAAAATCATTA
1 TTTT-TTTAAAAAATCAAAA
6072785 TTTTTCTT-AAAAATCAAAA
1 TTTTT-TTAAAAAATCAAAA
6072804 T
1 T
6072805 CTTATTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTTTTAAAAAATCAAAA
Found at i:6072816 original size:20 final size:19
Alignment explanation
Indices: 6072750--6072816 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
6072740 TTTAATTTTT
*
6072750 TTTAAAAAATTAAAATTTTA
1 TTTAAAAAATCAAAA-TTTA
**
6072770 TTTAAAAAATCATTATTT-
1 TTTAAAAAATCAAAATTTA
*
6072788 TTCTTAAAAATCAAAATCTTA
1 TT-TAAAAAATCAAAAT-TTA
6072809 TTTCAAAA
1 TTT-AAAA
6072817 TAGTTAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.39
20 15 0.42
21 5 0.14
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAAAAAATCAAAATTTA
Found at i:6075354 original size:50 final size:49
Alignment explanation
Indices: 6075300--6075498 Score: 130
Period size: 50 Copynumber: 4.1 Consensus size: 49
6075290 GAAGTAGTTA
*
6075300 AAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTTAAATAACT
1 AAAAAAT-AAAACTTTGTTTTAAAAATTTAAACTTTCCTTTTAAATAATT
* * * *
6075350 AAAAAA-AAAGATTTTTTTTTCAAAATTTAAACTTT-C---T-CAT--TT
1 AAAAAATAAA-ACTTTGTTTTAAAAATTTAAACTTTCCTTTTAAATAATT
* * * * * * * *
6075392 GAAAAA-AATACTATTTTTCTTAAAGA-TTAAAGCTTTTACTTTGAAGTAGTT
1 AAAAAATAAAACT-TTGTT-TTAAAAATTTAAA-C-TTTCCTTTTAAATAATT
* *
6075443 AAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAATT
1 AAAAAAT-AAAACTTTGTTTTAAAAATTTAAACTTTCCTTTTAAATAATT
6075493 AAAAAA
1 AAAAAA
6075499 CATATTTTTA
Statistics
Matches: 112, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
41 2 0.02
42 18 0.16
43 6 0.05
44 5 0.04
45 2 0.02
48 4 0.04
49 23 0.21
50 25 0.22
51 13 0.12
52 9 0.08
53 5 0.04
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.41
Consensus pattern (49 bp):
AAAAAATAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTTAAATAATT
Found at i:6075513 original size:144 final size:145
Alignment explanation
Indices: 6075251--6075536 Score: 443
Period size: 143 Copynumber: 2.0 Consensus size: 145
6075241 GGGGTGTTAC
*
6075251 AAAAACACTATTTTTATTAAAGATTAAATATTTTACTTTGAAGTAGTTAAAAAAATCAAAACTTT
1 AAAAACACTATTTTTATTAAAGATTAAAGATTTTACTTTGAAGTAGTTAAAAAAATCAAAACTTT
* *
6075316 GTTTTAAAAATTTAAACTTTCCTTTTAAATAACTAAAAAAAAAGATTTTTTTTT-CAAAATTTAA
66 GTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAAAGATTTTTTTTTCCAAAATCTAA
6075380 ACTTTCTCATTTGAA
131 ACTTTCTCATTTGAA
* * *
6075395 AAAAATACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAAGTAGTT-AAAAAATCAAAACTTT
1 AAAAACACTATTTTTATTAAAGATTAAAGATTTTACTTTGAAGTAGTTAAAAAAATCAAAACTTT
* * * *
6075459 GTTTTAAAATTTTAAACTTTCCTTTAAAATAATTAAAAAACATA-TTTTTATTTTTCCAAAATCT
66 GTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAA-AAAGATTTT-TTTTTCCAAAATCT
6075523 AAACTTTCTCATTT
129 AAACTTTCTCATTT
6075537 TTAAACTATT
Statistics
Matches: 129, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
143 57 0.44
144 51 0.40
145 21 0.16
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (145 bp):
AAAAACACTATTTTTATTAAAGATTAAAGATTTTACTTTGAAGTAGTTAAAAAAATCAAAACTTT
GTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAAAGATTTTTTTTTCCAAAATCTAA
ACTTTCTCATTTGAA
Found at i:6076073 original size:12 final size:12
Alignment explanation
Indices: 6076058--6076089 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
6076048 AAAAGGAAAG
6076058 AAAAAAAAAGAA
1 AAAAAAAAAGAA
6076070 AAAAAAAAAGAA
1 AAAAAAAAAGAA
6076082 AAGAAAAA
1 AA-AAAAA
6076090 TAATGGTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:6076083 original size:17 final size:16
Alignment explanation
Indices: 6076058--6076089 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6076048 AAAAGGAAAG
6076058 AAAAAAAAAGAAAAAA
1 AAAAAAAAAGAAAAAA
6076074 AAAAAGAAAAGAAAAA
1 AAAAA-AAAAGAAAAA
6076090 TAATGGTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAA
Found at i:6076086 original size:114 final size:116
Alignment explanation
Indices: 6075949--6076161 Score: 349
Period size: 114 Copynumber: 1.9 Consensus size: 116
6075939 CCGAAAAAGG
*
6075949 AAAGAAGAAAAAAAAAGAAAAGAAAAGTAAAGGTCTCAAATAGACCAAAATCGGATGGGCTTCGA
1 AAAGAAGAAAAAAAAAGAAAAGAAAAATAAAGGTCTCAAATAGACCAAAATCGGATGGGCTTCGA
**
6076014 ATGGCCCAAGAGA-AAAAAAATTTAAATAGGCCCAAAAAGGAAAGAAAAAA
66 ACAGCCCAAGAGAGAAAAAAATTTAAATAGGCCCAAAAAGGAAAGAAAAAA
* * *
6076064 AAAGAA-AAAAAAAAAGAAAAGAAAAATAATGGTCTCAAATAGACCAAAATCGGGTGGGCTTTGA
1 AAAGAAGAAAAAAAAAGAAAAGAAAAATAAAGGTCTCAAATAGACCAAAATCGGATGGGCTTCGA
*
6076128 ACAGCCCAAGAGAGAATAAAATTTAAATAGGCCC
66 ACAGCCCAAGAGAGAAAAAAATTTAAATAGGCCC
6076162 CCAATCGAGC
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 65 0.72
115 25 0.28
ACGTcount: A:0.55, C:0.12, G:0.20, T:0.13
Consensus pattern (116 bp):
AAAGAAGAAAAAAAAAGAAAAGAAAAATAAAGGTCTCAAATAGACCAAAATCGGATGGGCTTCGA
ACAGCCCAAGAGAGAAAAAAATTTAAATAGGCCCAAAAAGGAAAGAAAAAA
Found at i:6077008 original size:74 final size:73
Alignment explanation
Indices: 6076914--6077079 Score: 183
Period size: 75 Copynumber: 2.2 Consensus size: 73
6076904 CCCGACCACT
* * * *
6076914 CCAAAACCTTTTTCTTTCCCCTC-CAAATTTTAATTTCCCCAAACCCCCCAAAACT-TTTTTCCT
1 CCAAAA-CTTTTAC-TTCCCCTCAAAAAATTTAATTTCCCCAAAACCCCCAAAA-TATTTTTCC-
*
6076977 TTTTACTTTATT
62 TTTTACTTTATA
* * *
6076989 CTCAAAACTTTTACTTCCCCTCAAAAAATTTACTTTCCCCAAAACCTCCTAAATATTTTTCCTTT
1 C-CAAAACTTTTACTTCCCCTCAAAAAATTTAATTTCCCCAAAACCCCCAAAATATTTTTCCTTT
*
6077054 TACTTTCTA
65 TACTTTATA
6077063 CCAAAAACTTTTACTTC
1 CC-AAAACTTTTACTTC
6077080 ACCAAAACCC
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
73 1 0.01
74 34 0.44
75 38 0.49
76 5 0.06
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (73 bp):
CCAAAACTTTTACTTCCCCTCAAAAAATTTAATTTCCCCAAAACCCCCAAAATATTTTTCCTTTT
ACTTTATA
Found at i:6077013 original size:19 final size:19
Alignment explanation
Indices: 6076989--6077033 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6076979 TTACTTTATT
*
6076989 CTCAAAACTTTTACTTCCC
1 CTCAAAACATTTACTTCCC
* *
6077008 CTCAAAAAATTTACTTTCC
1 CTCAAAACATTTACTTCCC
6077027 C-CAAAAC
1 CTCAAAAC
6077034 CTCCTAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (19 bp):
CTCAAAACATTTACTTCCC
Found at i:6077085 original size:18 final size:20
Alignment explanation
Indices: 6077050--6077086 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
6077040 AATATTTTTC
6077050 CTTTTACTTTCTACCAAAAA
1 CTTTTACTTTCTACCAAAAA
6077070 CTTTTAC-TTC-ACCAAAA
1 CTTTTACTTTCTACCAAAA
6077087 CCCCCTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.38
Consensus pattern (20 bp):
CTTTTACTTTCTACCAAAAA
Found at i:6080943 original size:64 final size:64
Alignment explanation
Indices: 6080873--6080996 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
6080863 AATTTAAAAT
*
6080873 TTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTTAAAAAAACAGATTTTTATTTTTAAAC
1 TTTGTTTTAAAATTTTAAAATTTCCTTTAAAATAACTTAAAAAAACAGATTTTTATTTTTAAAC
* *
6080937 TTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACTTAAAAAAACATATTTTTATTTTT
1 TTTGTTTTAAAATTTTAAAATTTCCTTTAAAATAACTTAAAAAAACAGATTTTTATTTTT
6080997 TCGGAATCTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (64 bp):
TTTGTTTTAAAATTTTAAAATTTCCTTTAAAATAACTTAAAAAAACAGATTTTTATTTTTAAAC
Found at i:6083690 original size:25 final size:25
Alignment explanation
Indices: 6083661--6083712 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
6083651 AAGAATAATT
**
6083661 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
6083686 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
6083711 TG
1 TG
6083713 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:6085094 original size:44 final size:44
Alignment explanation
Indices: 6084995--6085086 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
6084985 TGTTCAGGGA
* * * *
6084995 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAATCGATGAGGCACCATAAGAGTCGTACTGC
**
6085039 TACTTCGACTTCGAATCGATGAGGCACCATGTGAGTCGTACTGC
1 TACTTCGACTTCGAATCGATGAGGCACCATAAGAGTCGTACTGC
6085083 TACT
1 TACT
6085087 GTTACTTCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 3 0.07
44 38 0.93
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (44 bp):
TACTTCGACTTCGAATCGATGAGGCACCATAAGAGTCGTACTGC
Found at i:6085383 original size:23 final size:21
Alignment explanation
Indices: 6085352--6085459 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 21
6085342 GGCTTTGCCG
* *
6085352 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
6085373 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
* *
6085396 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACCTCATGTGTCGT
* *
6085417 ATCAAGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
6085438 TTCAGACA-CTTATGTGTTGT
1 ATCAGGCACCTCATGTGTCGT
6085458 AT
1 AT
6085460 ACTGATCAGG
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
20 10 0.14
21 44 0.61
23 18 0.25
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:6085400 original size:21 final size:21
Alignment explanation
Indices: 6085365--6085442 Score: 111
Period size: 21 Copynumber: 3.6 Consensus size: 21
6085355 AGGCACTTTA
6085365 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
6085388 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
6085409 TGTGTCATATCAAGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
6085430 TGTGTCGTTTCAG
1 TGTGTCGTATCAG
6085443 ACACTTATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 41 0.82
23 9 0.18
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:6086324 original size:24 final size:24
Alignment explanation
Indices: 6086265--6086321 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
6086255 AAATCATCAA
6086265 ATTGGGTTTTAAATATTAATGAGT
1 ATTGGGTTTTAAATATTAATGAGT
*
6086289 ATTGGGTTTTAAATTTTAAT-AGGT
1 ATTGGGTTTTAAATATTAATGA-GT
6086313 -TTGGGTTTT
1 ATTGGGTTTT
6086322 TAAGAGTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 10 0.32
24 21 0.68
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (24 bp):
ATTGGGTTTTAAATATTAATGAGT
Found at i:6089177 original size:18 final size:17
Alignment explanation
Indices: 6089139--6089185 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
6089129 GGTATTTACT
*
6089139 TATATTTTA-ATTATAA
1 TATATTTTATATAATAA
*
6089155 GATATTTTATATAAATAA
1 TATATTTTATAT-AATAA
6089173 TATATTATTATAT
1 TATATT-TTATAT
6089186 TAATTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 2 0.08
18 9 0.36
19 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TATATTTTATATAATAA
Found at i:6091874 original size:29 final size:29
Alignment explanation
Indices: 6091841--6091897 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
6091831 CCATCCCGTC
6091841 GTGTGAGGGGAGACAAACCCTAGTCCTTG
1 GTGTGAGGGGAGACAAACCCTAGTCCTTG
6091870 GTGTGAGGGGAGACAAACCCTAGTCCTT
1 GTGTGAGGGGAGACAAACCCTAGTCCTT
6091898 ACTAGGGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (29 bp):
GTGTGAGGGGAGACAAACCCTAGTCCTTG
Found at i:6093945 original size:19 final size:19
Alignment explanation
Indices: 6093894--6093953 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 19
6093884 AAGGAATTAG
6093894 ATTACAA-AAATATATATT
1 ATTACAATAAATATATATT
*
6093912 ATTA-AATAAA-CTATATT
1 ATTACAATAAATATATATT
*
6093929 -TTACAATAAAT-TATATA
1 ATTACAATAAATATATATT
6093946 ATTACAAT
1 ATTACAAT
6093954 TACAATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 3 0.08
17 19 0.53
18 14 0.39
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTACAATAAATATATATT
Found at i:6094059 original size:19 final size:19
Alignment explanation
Indices: 6094037--6094092 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
6094027 TAATTACTAA
6094037 TTTATATATAATATT-ATT
1 TTTATATATAATATTAATT
* **
6094055 TTT-TATTTTGTATTAATT
1 TTTATATATAATATTAATT
*
6094073 TTAATATATAATATTAATT
1 TTTATATATAATATTAATT
6094092 T
1 T
6094093 CAATATTAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 13 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATATATAATATTAATT
Found at i:6094115 original size:21 final size:21
Alignment explanation
Indices: 6094090--6094129 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6094080 ATAATATTAA
*
6094090 TTTCAATATTAACTGTAAAAT
1 TTTCAATATTAACTATAAAAT
6094111 TTTCAATATTAACTATAAA
1 TTTCAATATTAACTATAAA
6094130 TTATGCGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTCAATATTAACTATAAAAT
Found at i:6104459 original size:24 final size:23
Alignment explanation
Indices: 6104432--6104490 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
6104422 ATAGTTTAAA
6104432 ATTTTAAATA-TAATGATAAATGAT
1 ATTTTAAATATTAAT-AT-AATGAT
6104456 A-TTTAAATAATTTAATATAATGAT
1 ATTTTAAAT-A-TTAATATAATGAT
6104480 ATTTGTAAATA
1 ATTT-TAAATA
6104491 ATATACTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
23 7 0.23
24 9 0.30
25 5 0.17
26 9 0.30
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (23 bp):
ATTTTAAATATTAATATAATGAT
Found at i:6106684 original size:3 final size:3
Alignment explanation
Indices: 6106676--6106710 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
6106666 ACATAGTTAA
*
6106676 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6106711 ACAAATTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6108110 original size:11 final size:12
Alignment explanation
Indices: 6108080--6108115 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
6108070 ATGTATTAAT
6108080 TTATTTTTCATA
1 TTATTTTTCATA
*
6108092 TTATTTTTGATA
1 TTATTTTTCATA
6108104 TTATTTTT-ATA
1 TTATTTTTCATA
6108115 T
1 T
6108116 CATGTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (12 bp):
TTATTTTTCATA
Found at i:6108130 original size:23 final size:24
Alignment explanation
Indices: 6108069--6108131 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
6108059 TAATTTATTG
6108069 CATGTATTAATTTATTTTTCATAT
1 CATGTATTAATTTATTTTTCATAT
* * *
6108093 TAT-TTTTGATATTATTTTT-ATAT
1 CATGTATTAAT-TTATTTTTCATAT
6108116 CATGTATTAATTTATT
1 CATGTATTAATTTATT
6108132 GCATGTTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 16 0.52
24 15 0.48
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (24 bp):
CATGTATTAATTTATTTTTCATAT
Found at i:6112404 original size:16 final size:17
Alignment explanation
Indices: 6112357--6112413 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
6112347 TTCGCTGTAT
*
6112357 TGGAATAG-AGACGTAA
1 TGGAATAGAAGGCGTAA
6112373 TGGAATA-AAGGCGTAA
1 TGGAATAGAAGGCGTAA
*
6112389 TGGAATAGAA-GTGTAA
1 TGGAATAGAAGGCGTAA
*
6112405 TGGATTAGA
1 TGGAATAGA
6112414 GGTATAATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 34 0.94
17 2 0.06
ACGTcount: A:0.42, C:0.04, G:0.32, T:0.23
Consensus pattern (17 bp):
TGGAATAGAAGGCGTAA
Found at i:6112672 original size:16 final size:16
Alignment explanation
Indices: 6112635--6112676 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6112625 TTAATCATAT
*
6112635 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
6112651 TT-AAATATATTATAA
1 TTAAAATATATTATAA
6112666 TTAAAATATAT
1 TTAAAATATAT
6112677 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:6112683 original size:14 final size:15
Alignment explanation
Indices: 6112644--6112685 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6112634 TTTAAACATA
*
6112644 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6112659 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6112673 A-TATAATTTAATA
1 ATTATAATTAAATA
6112686 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:6112735 original size:61 final size:60
Alignment explanation
Indices: 6112670--6112938 Score: 193
Period size: 59 Copynumber: 4.5 Consensus size: 60
6112660 TTATAATTAA
6112670 AATATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACT-AAATCAT
* * * * * * * *
6112731 AATATATGATACT-ATAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTA-T-AATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGAAT-TTACTAAATCAT
*
6112790 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACT-AAATCAT
* * * * * * * *
6112851 AATATATGATACT-ATAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTA-T-AATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGAAT-TTACTAAATCAT
6112910 AATATATAATTTAATAAAATTCTTAATAA
1 AATATATAATTTAATAAAATTCTTAATAA
6112939 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 30, Indels: 40
0.69 0.13 0.17
Matches are distributed among these distances:
57 9 0.06
58 8 0.05
59 47 0.30
60 16 0.10
61 46 0.29
62 15 0.09
63 18 0.11
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTAAATCAT
Found at i:6112783 original size:120 final size:120
Alignment explanation
Indices: 6112638--6112938 Score: 584
Period size: 120 Copynumber: 2.5 Consensus size: 120
6112628 ATCATATTTA
6112638 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
*
6112703 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
6112758 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
6112823 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
6112878 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
6112939 NNNNNNNNNN
Statistics
Matches: 179, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 179 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:6112803 original size:14 final size:15
Alignment explanation
Indices: 6112754--6112805 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6112744 ATAAAATATA
6112754 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
6112769 TATTAAATATATTAT
1 AATTAAATATATTAT
6112784 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
6112797 AATTTAATA
1 AATTAAATA
6112806 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:6112923 original size:14 final size:15
Alignment explanation
Indices: 6112874--6112925 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6112864 ATAAAATATA
6112874 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
6112889 TATTAAATATATTAT
1 AATTAAATATATTAT
6112904 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
6112917 AATTTAATA
1 AATTAAATA
6112926 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:6116361 original size:13 final size:13
Alignment explanation
Indices: 6116343--6116403 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
6116333 CTTAAATTTT
6116343 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
6116356 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
6116369 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
6116382 TCAAAAGCATTTC
1 TCAAAAGCACTTC
6116395 TCAAAAGCA
1 TCAAAAGCA
6116404 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:6116404 original size:13 final size:13
Alignment explanation
Indices: 6116338--6116405 Score: 75
Period size: 13 Copynumber: 5.2 Consensus size: 13
6116328 AAACACTTAA
*
6116338 ATTTTTCAAAAGC
1 ATTTCTCAAAAGC
*
6116351 ACTTCTCAAAAGC
1 ATTTCTCAAAAGC
* *
6116364 ACTTT-TCCACAGC
1 A-TTTCTCAAAAGC
*
6116377 ACTTCTCAAAAGC
1 ATTTCTCAAAAGC
6116390 ATTTCTCAAAAGC
1 ATTTCTCAAAAGC
6116403 ATT
1 ATT
6116406 GCCAAACTGG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.31
Consensus pattern (13 bp):
ATTTCTCAAAAGC
Found at i:6122903 original size:23 final size:24
Alignment explanation
Indices: 6122847--6122903 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
6122837 AAGAAAAGAA
*
6122847 ATTT-TTTTATGATGAGCCCTTAG
1 ATTTCTTTTATGATGAGCCCTCAG
*
6122870 TAATTTTTTTTATGATGAGCCCTCAG
1 --ATTTCTTTTATGATGAGCCCTCAG
6122896 -TTTCTTTT
1 ATTTCTTTT
6122904 TTTTCTCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.24
25 4 0.14
26 18 0.62
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (24 bp):
ATTTCTTTTATGATGAGCCCTCAG
Found at i:6123567 original size:35 final size:35
Alignment explanation
Indices: 6123528--6123596 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
6123518 ACTTGCCTCT
6123528 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
6123563 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
6123597 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:6123623 original size:34 final size:35
Alignment explanation
Indices: 6123545--6123624 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
6123535 CTCCCATGCT
* * * * *
6123545 GTCTGCCACCAGCACCACTCCCACTCTCCCATGCT
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
6123580 GTCTGCCACCAGCACCA-TCACACACCCCCATACC
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
*
6123614 GTCTACCACCA
1 GTCTGCCACCA
6123625 CCATGCCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.23, C:0.51, G:0.10, T:0.16
Consensus pattern (35 bp):
GTCTGCCACCAGCACCACTCACACACCCCCATACC
Found at i:6127790 original size:3 final size:3
Alignment explanation
Indices: 6127782--6127849 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
6127772 ATGCATGAAC
* * **
6127782 AAT AAT AAT AAT GAT GAA- AAT GAT AAT -AT AAAT AGC AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
*
6127827 AAT AAC AAT AAT AAT GAAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT A
6127850 CAAAATTGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 4 0.08
3 40 0.80
4 6 0.12
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6137151 original size:25 final size:25
Alignment explanation
Indices: 6137122--6137172 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
6137112 AACTTTTTTA
6137122 AATTAAGTGACCAAAATAAAAATTT
1 AATTAAGTGACCAAAATAAAAATTT
6137147 AATTAAGTGACCAAAATAAAAATTT
1 AATTAAGTGACCAAAATAAAAATTT
6137172 A
1 A
6137173 CTCATAGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (25 bp):
AATTAAGTGACCAAAATAAAAATTT
Found at i:6149133 original size:1 final size:1
Alignment explanation
Indices: 6149129--6149155 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
6149119 AAGAAAAACT
6149129 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
6149156 CTATGCAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6162002 original size:13 final size:13
Alignment explanation
Indices: 6161984--6162009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6161974 CTTGCAGGGG
6161984 TATGATATTATTT
1 TATGATATTATTT
6161997 TATGATATTATTT
1 TATGATATTATTT
6162010 GTCTTGATGC
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATGATATTATTT
Found at i:6174824 original size:26 final size:27
Alignment explanation
Indices: 6174775--6174827 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6174765 TTTTTGAAGA
*
6174775 CTTTTATTTATTATTTATTATTTTTTT
1 CTTTTATCTATTATTTATTATTTTTTT
6174802 CTTTTATCT-TTATTTATCT-TTTTTTT
1 CTTTTATCTATTATTTAT-TATTTTTTT
6174828 AAATTACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (27 bp):
CTTTTATCTATTATTTATTATTTTTTT
Found at i:6177339 original size:14 final size:14
Alignment explanation
Indices: 6177320--6177346 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6177310 ATACTTGATT
6177320 TGTTCTTAATTATG
1 TGTTCTTAATTATG
6177334 TGTTCTTAATTAT
1 TGTTCTTAATTAT
6177347 TGCTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:6184560 original size:14 final size:14
Alignment explanation
Indices: 6184539--6184580 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
6184529 TTGCAACTTG
*
6184539 CACAACTTGCACAT
1 CACAACTTGCACAA
**
6184553 TGCAACTTGCACAA
1 CACAACTTGCACAA
6184567 CACAACTTGCACAA
1 CACAACTTGCACAA
6184581 TTAGGTAAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.19
Consensus pattern (14 bp):
CACAACTTGCACAA
Found at i:6190784 original size:16 final size:16
Alignment explanation
Indices: 6190761--6190800 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6190751 ATAGAGTTAA
6190761 AAAATTATTCAAATTT
1 AAAATTATTCAAATTT
* *
6190777 ATAATTATTCGAATTT
1 AAAATTATTCAAATTT
6190793 AAAATTAT
1 AAAATTAT
6190801 CTAAACTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (16 bp):
AAAATTATTCAAATTT
Found at i:6203951 original size:52 final size:54
Alignment explanation
Indices: 6203883--6204020 Score: 151
Period size: 53 Copynumber: 2.6 Consensus size: 54
6203873 ATATATCATA
* * * * * *
6203883 CCGATGCCATATCCCAGATATGGTCTTACACGGGAGCAC-T-TATCATTATT-CT
1 CCGATACCATAGCCCAGCTATGGTCTTATACGGGAGCACTTGTATCA-CATTAAT
* *
6203935 CCGATACCATAGCCCAGCTATGGTTTTATAC-GGATCACTTGTATCACATTAAT
1 CCGATACCATAGCCCAGCTATGGTCTTATACGGGAGCACTTGTATCACATTAAT
6203988 CCGA-AGCCATAGCCCAGCTATGGTCTTATACGG
1 CCGATA-CCATAGCCCAGCTATGGTCTTATACGG
6204021 AAATCACTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
51 6 0.08
52 31 0.43
53 34 0.47
54 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (54 bp):
CCGATACCATAGCCCAGCTATGGTCTTATACGGGAGCACTTGTATCACATTAAT
Found at i:6210485 original size:13 final size:13
Alignment explanation
Indices: 6210467--6210494 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6210457 TCAAAGGGGT
6210467 ACACGGCCTGGGC
1 ACACGGCCTGGGC
6210480 ACACGGCCTGGGC
1 ACACGGCCTGGGC
6210493 AC
1 AC
6210495 TCGCCCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.39, G:0.36, T:0.07
Consensus pattern (13 bp):
ACACGGCCTGGGC
Found at i:6217761 original size:186 final size:186
Alignment explanation
Indices: 6217447--6217821 Score: 732
Period size: 186 Copynumber: 2.0 Consensus size: 186
6217437 CATTAATAGC
6217447 ATACATATCACAAGAACAATTTCATATATGCGACACTAGTAAAATAACAATTTATACGAATCTTT
1 ATACATATCACAAGAACAATTTCATATATGCGACACTAGTAAAATAACAATTTATACGAATCTTT
*
6217512 AATATATATATCACACATCATTACCAAATAATATTAACTTTCGATTATAAATAAACTCATTTCAT
66 AATATATATATCACACATCATTACCAAATAATAGTAACTTTCGATTATAAATAAACTCATTTCAT
6217577 TTTCTAGTCCATTCGACTAATATAAATGATTTATACAAATTTACGAACTTATATAT
131 TTTCTAGTCCATTCGACTAATATAAATGATTTATACAAATTTACGAACTTATATAT
6217633 ATACATATCACAAGAACAATTTCATATATGCGACACTAGTAAAATAACAATTTATACGAATCTTT
1 ATACATATCACAAGAACAATTTCATATATGCGACACTAGTAAAATAACAATTTATACGAATCTTT
*
6217698 AATATATATATCACACATCATTACCAGATAATAGTAACTTTCGATTATAAATAAACTCATTTCAT
66 AATATATATATCACACATCATTACCAAATAATAGTAACTTTCGATTATAAATAAACTCATTTCAT
6217763 TTTCTAGTCCATTCGACTAATATAAATGATTTATACAAATTTACGAACTTATATAT
131 TTTCTAGTCCATTCGACTAATATAAATGATTTATACAAATTTACGAACTTATATAT
6217819 ATA
1 ATA
6217822 TGACCAGTAA
Statistics
Matches: 187, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 187 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (186 bp):
ATACATATCACAAGAACAATTTCATATATGCGACACTAGTAAAATAACAATTTATACGAATCTTT
AATATATATATCACACATCATTACCAAATAATAGTAACTTTCGATTATAAATAAACTCATTTCAT
TTTCTAGTCCATTCGACTAATATAAATGATTTATACAAATTTACGAACTTATATAT
Found at i:6222215 original size:15 final size:15
Alignment explanation
Indices: 6222178--6222233 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
6222168 ACTCATAACT
* *
6222178 TATATTATATACATA
1 TATATTATACATATA
*
6222193 TA-ATTATACAT-TT
1 TATATTATACATATA
6222206 TATTATTATAACATATA
1 TA-TATTAT-ACATATA
6222223 TATATTATACA
1 TATATTATACA
6222234 ATTAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 3 0.09
14 7 0.21
15 10 0.30
16 10 0.30
17 3 0.09
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATTATACATATA
Found at i:6222611 original size:43 final size:43
Alignment explanation
Indices: 6222563--6222663 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
6222553 AGCTGTTACA
* * * *
6222563 GTCTTACACGTAATCG-ATTAACGATGTCGATGTCCCAGACATG
1 GTCTTACACGTAATCGCAAT-ACAATGCCAATGTCCCAGACATG
* *
6222606 GTCTTACACGTAATTGCAATACAATGCCAATGTTCCAGACATG
1 GTCTTACACGTAATCGCAATACAATGCCAATGTCCCAGACATG
*
6222649 GTCTTACATGTAATC
1 GTCTTACACGTAATC
6222664 ACATCTCGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
GTCTTACACGTAATCGCAATACAATGCCAATGTCCCAGACATG
Found at i:6229536 original size:20 final size:22
Alignment explanation
Indices: 6229506--6229553 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
6229496 AAATATGCTG
*
6229506 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
6229528 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
6229549 TAAAT
1 TAAAT
6229554 CACTTATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:6230380 original size:33 final size:33
Alignment explanation
Indices: 6230282--6230368 Score: 165
Period size: 33 Copynumber: 2.6 Consensus size: 33
6230272 TGGAAAGGTT
*
6230282 AGGTATACTTTGTGTATACCATATGAAAAGGAA
1 AGGTATACTTTATGTATACCATATGAAAAGGAA
6230315 AGGTATACTTTATGTATACCATATGAAAAGGAA
1 AGGTATACTTTATGTATACCATATGAAAAGGAA
6230348 AGGTATACTTTATGTATACCA
1 AGGTATACTTTATGTATACCA
6230369 CTTGGAAAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (33 bp):
AGGTATACTTTATGTATACCATATGAAAAGGAA
Found at i:6236621 original size:13 final size:13
Alignment explanation
Indices: 6236603--6236628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6236593 AATATTGCAT
6236603 GAAAAATTTTATC
1 GAAAAATTTTATC
6236616 GAAAAATTTTATC
1 GAAAAATTTTATC
6236629 AATTATGTGT
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:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GAAAAATTTTATC
Found at i:6237921 original size:33 final size:33
Alignment explanation
Indices: 6237832--6237923 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
6237822 GGCTATGTAC
* **
6237832 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTATACCACTTGGAAAGGAAAGGTAT
* *
6237864 ATTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTATACCACT-TGGAAAGGAAAGGTAT
6237897 ACTTTGTGTATACCACTTGGAAAGGAA
1 ACTTTGTGTATACCACTTGGAAAGGAA
6237924 TGTACACTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 11 0.22
33 38 0.76
34 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.34
Consensus pattern (33 bp):
ACTTTGTGTATACCACTTGGAAAGGAAAGGTAT
Found at i:6247578 original size:49 final size:49
Alignment explanation
Indices: 6247330--6247638 Score: 173
Period size: 46 Copynumber: 6.5 Consensus size: 49
6247320 TACGTGCGCT
* * * *
6247330 AGTGTAAGACATGTCTGGGACAT-GCAT-TAGC-C-ACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAG-ATGAAAGCC
* * * * * * * *
6247376 AGTGTAAGACATGTCTGGGACAT-GTAACGGCATTG--AGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * ** * *
6247422 AGTGTAAGACATGTCTAGGACAT-GCATC-AGCTTCGCGATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGA-CCTCGATAGATGA-AAGCC
* * * * * * * *
6247470 AGTGTAAGACTTGTCTGGAACATGGCGTC-AGCTTG-TTG-TG--TGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * *
6247514 AGTGTAAGACTTGTCTTGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * *
6247563 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGCTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
6247612 AGTGTAAGACTATGTCTGGGACATGGC
1 AGTGTAAGAC-ATGTCTGGGACATGGC
6247639 GTCGGCATCT
Statistics
Matches: 201, Mismatches: 45, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
44 27 0.13
45 2 0.01
46 64 0.32
47 5 0.02
48 29 0.14
49 59 0.29
50 15 0.07
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:6251227 original size:10 final size:10
Alignment explanation
Indices: 6251212--6251275 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
6251202 GTCCACGTAT
6251212 AATTTATAAA
1 AATTTATAAA
6251222 AATTTA-AAA
1 AATTTATAAA
*
6251231 AA-ATA-AAA
1 AATTTATAAA
*
6251239 AATTTTAAAAA
1 AA-TTTATAAA
6251250 AATTTATAAA
1 AATTTATAAA
6251260 AACTTT-TAGAA
1 AA-TTTATA-AA
6251271 AATTT
1 AATTT
6251276 TTATCAATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 7 0.15
9 5 0.11
10 22 0.48
11 12 0.26
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AATTTATAAA
Found at i:6251241 original size:17 final size:18
Alignment explanation
Indices: 6251219--6251252 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6251209 TATAATTTAT
6251219 AAAAA-TTTAAAAAAATA
1 AAAAATTTTAAAAAAATA
6251236 AAAAATTTTAAAAAAAT
1 AAAAATTTTAAAAAAAT
6251253 TTATAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTTTAAAAAAATA
Found at i:6251272 original size:11 final size:10
Alignment explanation
Indices: 6251214--6251276 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 10
6251204 CCACGTATAA
6251214 TTTATAAAAA-
1 TTTA-AAAAAT
6251224 TTTAAAAAA-
1 TTTAAAAAAT
*
6251233 -ATAAAAAAT
1 TTTAAAAAAT
6251242 TTTAAAAAAAT
1 TTT-AAAAAAT
*
6251253 TTATAAAAACT
1 TT-TAAAAAAT
*
6251264 TTTAGAAAAT
1 TTTAAAAAAT
6251274 TTT
1 TTT
6251277 TATCAATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 7 0.16
9 5 0.11
10 14 0.32
11 17 0.39
12 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
TTTAAAAAAT
Found at i:6259801 original size:20 final size:21
Alignment explanation
Indices: 6259753--6259801 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
6259743 AACATGTATG
*
6259753 TATATAC-TATATATTTTTAT
1 TATATACGTATACATTTTTAT
*
6259773 TATATTACGTATACGTTTTTA-
1 TATA-TACGTATACATTTTTAT
6259794 TATATACG
1 TATATACG
6259802 CTATGCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 7 0.28
22 10 0.40
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (21 bp):
TATATACGTATACATTTTTAT
Found at i:6271997 original size:43 final size:44
Alignment explanation
Indices: 6271943--6272034 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
6271933 GCCTCAGCGA
* * *
6271943 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGT-GCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
* * *
6271986 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCGCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
6272030 AGCAG
1 AGCAG
6272035 GCTAAATGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 30 0.71
44 12 0.29
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
Found at i:6272572 original size:42 final size:41
Alignment explanation
Indices: 6272520--6272633 Score: 174
Period size: 42 Copynumber: 2.7 Consensus size: 41
6272510 GGAGCAGCTA
*
6272520 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
1 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAATC
* *
6272562 AAAGCTACAGCAGATCTCCTTGAAGTTTTAGTGGATTAATC
1 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATTAATC
*
6272603 GAAGCCACAGCAAGATCTCCTTGAAGTTTCA
1 AAAGCCACAGC-AGATCTCCTTGAAGTTTCA
6272634 ATAGGATTGA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 15 0.23
42 50 0.77
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (41 bp):
AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATTAATC
Found at i:6274673 original size:20 final size:21
Alignment explanation
Indices: 6274625--6274673 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
6274615 AACATGTATG
*
6274625 TATATAC-TATATATTTTTAT
1 TATATACGTATACATTTTTAT
*
6274645 TATATTACGTATACGTTTTTA-
1 TATA-TACGTATACATTTTTAT
6274666 TATATACG
1 TATATACG
6274674 CTATGCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 7 0.28
22 10 0.40
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (21 bp):
TATATACGTATACATTTTTAT
Found at i:6281529 original size:30 final size:31
Alignment explanation
Indices: 6281495--6281555 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
6281485 TTCAAGAAAA
* *
6281495 TTCTTTAATC-AATTATCTATTTGACCAATT
1 TTCTTTAATCAAATTATCTAGTTGAACAATT
*
6281525 TTCTTTAATCAAATTCTCTAGTTGAACAATT
1 TTCTTTAATCAAATTATCTAGTTGAACAATT
6281556 CTTATGACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (31 bp):
TTCTTTAATCAAATTATCTAGTTGAACAATT
Found at i:6283802 original size:16 final size:16
Alignment explanation
Indices: 6283777--6283809 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6283767 TTATTTATAT
*
6283777 TTATTCATATAATAAA
1 TTATTAATATAATAAA
6283793 TTATTAATATAATAAA
1 TTATTAATATAATAAA
6283809 T
1 T
6283810 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:6283813 original size:22 final size:22
Alignment explanation
Indices: 6283788--6283831 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6283778 TATTCATATA
6283788 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
6283810 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
6283832 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:6283944 original size:15 final size:15
Alignment explanation
Indices: 6283924--6283980 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
6283914 ATTCAATATT
6283924 AATATTTTAATAATA
1 AATATTTTAATAATA
*
6283939 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
6283958 AATATATTAATAATA
1 AATATTTTAATAATA
*
6283973 AATGTTTT
1 AATATTTT
6283981 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:6285089 original size:24 final size:22
Alignment explanation
Indices: 6285062--6285115 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
6285052 GAATTGATGA
6285062 TGAATTGAAATGAGATTATGAAAT
1 TGAATTGAAATGAGA-TATG-AAT
*
6285086 TGAATGTGAAATGATATATGAAT
1 TGAAT-TGAAATGAGATATGAAT
*
6285109 TGGATTG
1 TGAATTG
6285116 TATAATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 7 0.26
24 9 0.33
25 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (22 bp):
TGAATTGAAATGAGATATGAAT
Found at i:6287529 original size:62 final size:62
Alignment explanation
Indices: 6287421--6287594 Score: 260
Period size: 62 Copynumber: 2.8 Consensus size: 62
6287411 TAACTCCTGG
* * * *
6287421 TACCATAATAGTACACAAATTGACAGTTCA-AGTAGCAGATTGAACATTTTATGAAAGTATACA
1 TACCA-AATAATACACAAATTGATAGTTCATA-TAACACATTGAACATTTTATGAAAGTATACA
*
6287484 TACCAAATAATACACAAATTGATAGTTCATATATCACATTGAACATTTTATGAAAGTATACA
1 TACCAAATAATACACAAATTGATAGTTCATATAACACATTGAACATTTTATGAAAGTATACA
* *
6287546 TACCAAATAATACACAAATTGATAGTTCATATAACACGTTGGACATTTT
1 TACCAAATAATACACAAATTGATAGTTCATATAACACATTGAACATTTT
6287595 CAAAGTATAG
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
62 97 0.94
63 6 0.06
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (62 bp):
TACCAAATAATACACAAATTGATAGTTCATATAACACATTGAACATTTTATGAAAGTATACA
Found at i:6292634 original size:3 final size:3
Alignment explanation
Indices: 6292621--6292669 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
6292611 CAAATGTGAC
6292621 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6292667 AAT
1 AAT
6292670 GTAGTAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:6293043 original size:30 final size:30
Alignment explanation
Indices: 6293007--6293126 Score: 195
Period size: 30 Copynumber: 4.0 Consensus size: 30
6292997 CTAGCCTTTG
*
6293007 CCACCACCAACTCCACTAGCCACAATTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6293037 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
6293067 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
6293097 CCACCATCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6293127 ATAAACAATA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 86 1.00
ACGTcount: A:0.26, C:0.47, G:0.07, T:0.20
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:6293070 original size:18 final size:18
Alignment explanation
Indices: 6293047--6293100 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
6293037 CCACCACCAA
6293047 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
6293065 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
6293077 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
6293095 CTCCAC
1 CTCCAC
6293101 CATCTACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:6293621 original size:22 final size:23
Alignment explanation
Indices: 6293572--6293617 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
6293562 TTTTTTTTGT
6293572 TATTATTATATTTTTTAATATTA
1 TATTATTATATTTTTTAATATTA
6293595 TATTATATATATTCTTTTAATAT
1 TATTAT-TATATT-TTTTAATAT
6293618 ATTAGGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTATATTTTTTAATATTA
Found at i:6293665 original size:25 final size:25
Alignment explanation
Indices: 6293637--6293786 Score: 112
Period size: 25 Copynumber: 6.0 Consensus size: 25
6293627 ATTCTAAATT
*
6293637 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATAT-TTAATA
* *
6293662 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* *
6293687 CTATATTATTTATATATATTTTTACATG
1 CTATATTATGTATATATA--TTTA-ATA
* *
6293715 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * *
6293738 -TATATTATGTATGTAT-TGTTTACA
1 CTATATTATGTATATATAT-TTAATA
* *
6293762 CTATATTATGTACATATTTTTAATA
1 CTATATTATGTATATATATTTAATA
6293787 TTATCACGTT
Statistics
Matches: 99, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
22 15 0.15
23 3 0.03
24 4 0.04
25 56 0.57
26 1 0.01
27 4 0.04
28 16 0.16
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:6293750 original size:26 final size:26
Alignment explanation
Indices: 6293640--6293753 Score: 78
Period size: 27 Copynumber: 4.4 Consensus size: 26
6293630 CTAAATTCTA
* * *
6293640 TATTACGTATATA-TATATTATACTAT
1 TATTATGTATATATTTTAATATA-TAT
6293666 T-TTATGTATATATCTTTAATACTATAT
1 TATTATGTATATAT-TTTAATA-TATAT
* *
6293693 TATT-TATATATATTTTTACATGT-TA-
1 TATTATGTATATA-TTTTA-ATATATAT
*
6293718 TCTTATGTATATATTTTAAT-TATAT
1 TATTATGTATATATTTTAATATATAT
6293743 TATGTATGTAT
1 TAT-TATGTAT
6293754 TGTTTACACT
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
23 1 0.01
24 4 0.06
25 20 0.29
26 17 0.24
27 21 0.30
28 7 0.10
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (26 bp):
TATTATGTATATATTTTAATATATAT
Found at i:6293959 original size:16 final size:15
Alignment explanation
Indices: 6293935--6293982 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
6293925 TAATTATTAT
*
6293935 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
6293951 TATTTTAATATTTTA
1 TATTTTAATATTTTA
6293966 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
6293982 T
1 T
6293983 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:6293970 original size:7 final size:8
Alignment explanation
Indices: 6293935--6293986 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
6293925 TAATTATTAT
*
6293935 TATTCTAA
1 TATTTTAA
*
6293943 TATTTTGA
1 TATTTTAA
6293951 TATTTTAA
1 TATTTTAA
6293959 TATTTT-A
1 TATTTTAA
6293966 TATTTTATA
1 TATTTTA-A
*
6293975 TATTTTAT
1 TATTTTAA
6293983 TATT
1 TATT
6293987 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:6300427 original size:126 final size:125
Alignment explanation
Indices: 6300195--6300447 Score: 452
Period size: 126 Copynumber: 2.0 Consensus size: 125
6300185 TCATGGACAG
* *
6300195 ATTCTCAGGGTATAATCAGATCAAGATGGCCCCTAAGGATATGGAGAAAATTACCTTCGTAACAA
1 ATTCTCAGGGTATAATCAGATCAAGATGGCCCCTAAGGATATGGAGAAAACTACATTCGTAACAA
6300260 TGTGGGGAACATTCTGCTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACAT
66 TGTGGGGAACATTCTGCTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACAT
* *
6300320 ATNTCTCGGGGTATAATCAGATCAAGATGGCCCCTGAGGATATGGAGAAAACTACATTCGTAACA
1 AT-TCTCAGGGTATAATCAGATCAAGATGGCCCCTAAGGATATGGAGAAAACTACATTCGTAACA
*
6300385 ATGTGGGGAACATTCTGCTACAAGGTGATGCCATTTGGGTTAAAGAATGCTGGGGCAACAT
65 ATGTGGGGAACATTCTGCTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACAT
6300446 AT
1 AT
6300448 CAGAGGGCTA
Statistics
Matches: 122, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
125 2 0.02
126 120 0.98
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (125 bp):
ATTCTCAGGGTATAATCAGATCAAGATGGCCCCTAAGGATATGGAGAAAACTACATTCGTAACAA
TGTGGGGAACATTCTGCTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACAT
Found at i:6303960 original size:77 final size:77
Alignment explanation
Indices: 6303872--6304444 Score: 1071
Period size: 77 Copynumber: 7.5 Consensus size: 77
6303862 TCTGTCTTTC
6303872 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
6303937 TTTATTTTATCA
66 TTTATTTTATCA
6303949 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
6304014 TTTATTTTATCA
66 TTTATTTTATCA
6304026 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
6304091 TTTATTTTATCA
66 TTTATTTTATCA
6304103 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
6304168 TTTATTTTATCA
66 TTTATTTTATCA
6304180 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
6304245 TTTATTTTATCA
66 TTTATTTTATCA
6304257 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
6304322 TTTATTTTATCA
66 TTTATTTTATCA
* *
6304334 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTC-AAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
**
6304398 TTCTGCTTT-TC-
66 TT-TATTTTATCA
*
6304409 AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
6304445 TCTAGAGCCA
Statistics
Matches: 490, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
75 35 0.07
76 7 0.01
77 448 0.91
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
TTTATTTTATCA
Found at i:6304152 original size:154 final size:154
Alignment explanation
Indices: 6303872--6305282 Score: 1235
Period size: 154 Copynumber: 8.9 Consensus size: 154
6303862 TCTGTCTTTC
*
6303872 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
6303937 TTTATTTTATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 TTTATTTTATC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
6304002 ATATTTTCAAATTT-TATTTTATCA
130 GTATTTTCAAATTTCTATTTTATCA
*
6304026 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
6304091 TTTATTTTATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 TTTATTTTATC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
6304156 ATATTTTCAAATTT-TATTTTATCA
130 GTATTTTCAAATTTCTATTTTATCA
*
6304180 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
6304245 TTTATTTTATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 TTTATTTTATC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
6304310 ATATTTTCAAATTT-TATTTTATCA
130 GTATTTTCAAATTTCTATTTTATCA
*
6304334 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTC-AAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
** * * * *
6304398 TTCTGCTTT-TCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCT-AGAGCCACACATC
66 TT-TATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGC-T-
** * *
6304461 GAGGTCCTTTCAAATTCTGTTTTTAATTTTTTTAAAATTTA
127 GAGGTATTTTCAAA-----TTTCT-A---TTTT---A-TCA
* * * *
6304502 TGTGTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGT
1 --------AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
* *
6304565 TTTC-CATTTCTATTTTTAATTTCTGTTTTAATTCAAAAAATCAGCTCATATTGCGAGAGGTGAG
58 TTTCAAATTT-TA-TTTT-A--TC-------A---AAAAAATCAACTCATATTGCGAGAGGTGAG
* * * * *
6304629 TTGAACCTCA--AGACGCTAAGGTGTTTTC-CATTTCTATTTTCAATTTCTGTTTTA
108 TTGAGCCTCAGGACACGCTGAGGTATTTTCAAATTTCTATTTT--A--TC------A
* * * **
6304683 ATTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTCAAGTA-ACATTGAGGTATTTTC
1 A---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTC
* * * * *
6304747 -AA-TTTA--TCATC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACCCGTT
62 AAATTTTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * * **
6304807 AAGGTATTTTCAATTTGTGCTCAATTTATGTTTT
127 GAGGTATTTTCAAATT-T-CT--ATTT-T-ATCA
** * * *
6304841 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAA
* * * * * * * *
6304906 CTTCTCTTTT-TCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGA
64 ATTTTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * *
6304970 GGTAGTTT-AAATTTCT-GTTCATC-
129 GGTATTTTCAAATTTCTATTTTATCA
* * *
6304993 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAA
* * * * * * * *
6305057 CTTCTCTTTT-TCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGA
64 ATTTTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * *
6305121 GGTAGTTT-AAATTTCT-GTTCATC-
129 GGTATTTTCAAATTTCTATTTTATCA
* * *
6305144 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAAGTGTTTTC-A
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAA
* * * * * *
6305207 A-TTTATGTTTTTCAAAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTA
64 ATTTTAT-TTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
6305271 AAGTATTTTCAA
128 AGGTATTTTCAA
6305283 TTAATGTTTT
Statistics
Matches: 1085, Mismatches: 98, Indels: 150
0.81 0.07 0.11
Matches are distributed among these distances:
149 3 0.00
150 4 0.00
151 262 0.24
152 44 0.04
153 9 0.01
154 383 0.35
155 38 0.04
156 1 0.00
157 14 0.01
158 3 0.00
159 43 0.04
160 7 0.01
161 66 0.06
162 2 0.00
163 1 0.00
164 7 0.01
166 4 0.00
167 2 0.00
168 2 0.00
170 2 0.00
172 1 0.00
173 2 0.00
174 24 0.02
175 9 0.01
176 77 0.07
177 3 0.00
178 15 0.01
179 7 0.01
181 1 0.00
184 1 0.00
185 8 0.01
186 2 0.00
187 3 0.00
189 34 0.03
190 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (154 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
TTTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TATTTTCAAATTTCTATTTTATCA
Found at i:6304275 original size:231 final size:230
Alignment explanation
Indices: 6303872--6305282 Score: 1217
Period size: 231 Copynumber: 5.9 Consensus size: 230
6303862 TCTGTCTTTC
*
6303872 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
6303937 TT-TATTTTATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
66 TTCTATTTTATC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
6304001 GATATTTTCAAATTTTATTTTATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
130 GATATTTTCAAATTTTATTTTATC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
6304066 AGGACACGCTGAGATATTTTCAAATTTTATTTTATCA
194 AGGACACGCTGAGGTATTTTCAAATTTTATTTTATCA
*
6304103 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
6304168 TT-TATTTTATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
66 TTCTATTTTATC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
6304232 GATATTTTCAAATTTTATTTTATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
130 GATATTTTCAAATTTTATTTTATC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
6304297 AGGACACGCTGAGATATTTTCAAATTTTATTTTATCA
194 AGGACACGCTGAGGTATTTTCAAATTTTATTTTATCA
*
6304334 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTC-AAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
** * * * *
6304398 TTCTGCTTT-TCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCT-AGAGCCACACATC
66 TTCTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGC-T-
* ** *
6304461 GAGGTCCTTTCAAATTCTGTTTTTAATTTTTTTAAAATTTATGTGTTTCAAAAAAATCAGCTCAT
128 GAGATATTTTCAAA------TTTT-A------T----TTTA------TCAAAAAAATCAACTCAT
* * * *
6304526 ATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGTTTTC-CATTTCTATTTTTAATTTC
170 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATTT-TA-TTTT-A--TC
6304588 TGTTTTA
230 ------A
* * * * *
6304595 ATTCAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTAAGGTGTTTTC-
1 A---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* * *
6304657 CATTTCTATTTTCAATTTCTGTTTTAATTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAA
63 AATTTCTATTTT--A--TC-------A---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* ** * * *
6304722 CCTCAAGTA-ACATTGAGGTATTTTC-AA-TTTA--TCATC-AAAAAATCAACTCATATTACGAG
114 CCTC-AGGACACGCTGAGATATTTTCAAATTTTATTTTATCAAAAAAATCAACTCATATTGCGAG
* * * * * * **
6304781 AGGTGAGTTGAGCCTCAAGACCCGTTAAGGTATTTTCAATTTGTGCTCAATTTATGTTTT
178 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATT-T--T--ATTT-T-ATCA
** * * *
6304841 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTC-A
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAA
* * * * * * *
6304905 ACTTCTCTTTT-TCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTG
64 ATTTCTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* * * *
6304969 AGGTAGTTT-AAATTTCT-GTTCATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
129 AGATATTTTCAAATTT-TATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * * * *
6305031 CGGGTCACACGTTGAGGTGTTTTCAACTTCTCTTTT-TC-
193 CAGG--ACACGCTGAGGTATTTTCAAATTTTATTTTATCA
* * * * * *
6305069 AACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGTAGTTT-AAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
* * *
6305133 TTCT-GTTCATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
66 TTCTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTG
* * *
6305196 A-AGTGTTTTC-AA-TTTATGTTTTTCAAAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGCC
129 AGA-TATTTTCAAATTTTAT-TTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * * *
6305258 TCGGGGCATGCTAAAGTATTTTCAA
192 TCAGGACACGCTGAGGTATTTTCAA
6305283 TTAATGTTTT
Statistics
Matches: 982, Mismatches: 111, Indels: 179
0.77 0.09 0.14
Matches are distributed among these distances:
225 40 0.04
226 39 0.04
227 18 0.02
228 79 0.08
229 43 0.04
230 8 0.01
231 309 0.31
232 51 0.05
233 2 0.00
234 2 0.00
235 45 0.05
237 23 0.02
238 1 0.00
242 2 0.00
243 36 0.04
244 1 0.00
247 61 0.06
248 6 0.01
249 13 0.01
250 6 0.01
251 18 0.02
252 7 0.01
253 43 0.04
254 6 0.01
255 2 0.00
261 2 0.00
262 24 0.02
264 37 0.04
266 1 0.00
267 5 0.01
274 3 0.00
275 9 0.01
276 1 0.00
277 37 0.04
279 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (230 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
TTCTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
ATATTTTCAAATTTTATTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACGCTGAGGTATTTTCAAATTTTATTTTATCA
Found at i:6304623 original size:88 final size:88
Alignment explanation
Indices: 6304511--6304728 Score: 400
Period size: 88 Copynumber: 2.5 Consensus size: 88
6304501 ATGTGTTTCA
*
6304511 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCT
1 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTAAGGTGTTTTCCATTTCT
*
6304576 ATTTTTAATTTCTGTTTTAATTC
66 ATTTTCAATTTCTGTTTTAATTC
6304599 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTAAGGTGTTTTCCATTTCT
1 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTAAGGTGTTTTCCATTTCT
6304664 ATTTTCAATTTCTGTTTTAATTC
66 ATTTTCAATTTCTGTTTTAATTC
* *
6304687 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTCAAG
1 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG
6304729 TAACATTGAG
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 126 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (88 bp):
AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTAAGGTGTTTTCCATTTCT
ATTTTCAATTTCTGTTTTAATTC
Found at i:6304785 original size:71 final size:71
Alignment explanation
Indices: 6304685--6304822 Score: 206
Period size: 71 Copynumber: 1.9 Consensus size: 71
6304675 CTGTTTTAAT
* * *
6304685 TCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTCAAGTA-ACATTGAGGTATTTTCAA
1 TCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAAG-ACACATTAAGGTATTTTCAA
6304749 TTTATCA
65 TTTATCA
* * *
6304756 TCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACCCGTTAAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAAGACACATTAAGGTATTTTCAAT
6304821 TT
66 TT
6304823 GTGCTCAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.02
71 59 0.98
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (71 bp):
TCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAAGACACATTAAGGTATTTTCAAT
TTATCA
Found at i:6305014 original size:151 final size:151
Alignment explanation
Indices: 6304843--6305259 Score: 744
Period size: 151 Copynumber: 2.8 Consensus size: 151
6304833 TATGTTTTTC
6304843 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTCAACT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTCAACT
6304908 TCTCTTTTTCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGT
66 TCTCTTTTTCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGT
6304973 AGTTTAAATTTCTGTTCATCA
131 AGTTTAAATTTCTGTTCATCA
6304994 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTCAACT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTCAACT
6305059 TCTCTTTTTCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGT
66 TCTCTTTTTCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGT
6305124 AGTTTAAATTTCTGTTCATCA
131 AGTTTAAATTTCTGTTCATCA
* * *
6305145 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAAGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTCAACT
* * * * * * *
6305210 TATGTTTTTCAAAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGCCTC
66 TCTCTTTTTCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTC
6305260 GGGGCATGCT
Statistics
Matches: 256, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
151 256 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (151 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTGTTTTCAACT
TCTCTTTTTCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGT
AGTTTAAATTTCTGTTCATCA
Found at i:6305095 original size:77 final size:76
Alignment explanation
Indices: 6304827--6305262 Score: 571
Period size: 77 Copynumber: 5.8 Consensus size: 76
6304817 CAATTTGTGC
*
6304827 TCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
6304891 TTGAGGTGTTT
66 TTGAGGTGTTT
* * * * * *
6304902 TCAACTTCTCTTTTTCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGG--ACAC
1 TCAATTTCTGTTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
6304965 GTTGAGGTAG-TT
65 GTTGAGGT-GTTT
* **
6304977 TAAATTTCTGTTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
6305042 TTGAGGTGTTT
66 TTGAGGTGTTT
* * * * * *
6305053 TCAACTTCTCTTTTTCAACAAAATCCACTCATGTTGCGAGAGGTGAATTGAGCCTCAGG--ACAC
1 TCAATTTCTGTTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
6305116 GTTGAGGTAG-TT
65 GTTGAGGT-GTTT
* **
6305128 TAAATTTCTGTTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
* *
6305193 CTGAAGTGTTT
66 TTGAGGTGTTT
* *
6305204 TCAATTTATGTTTTTCAAAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
6305263 GCATGCTAAA
Statistics
Matches: 308, Mismatches: 41, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
74 72 0.23
75 69 0.22
76 54 0.18
77 113 0.37
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (76 bp):
TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
TTGAGGTGTTT
Found at i:6305383 original size:88 final size:88
Alignment explanation
Indices: 6305199--6305520 Score: 273
Period size: 87 Copynumber: 3.7 Consensus size: 88
6305189 CACGCTGAAG
* **
6305199 TGTTTTCAATTTATGTTTTTCAAAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGCCTCGGG-
1 TGTTTTAAATTTATGTTTTTC--AAAAATCAACGCATATTGCGAGAAATGAGTTGAGCCTCGGGT
* * * *
6305263 -GCATGCTAAAGTATTTTCAATTAATG
64 CACATGCTGAGGTATTTTCAA--AATC
* * * * *
6305289 TTTTTTAAATTTATGCTTTTCAAGAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCA
1 TGTTTTAAATTTATGTTTTTCAAAAATCAACGCATATTGCGAGAAATGAGTTGAGCCTCGGGTCA
* *
6305354 CATACCGAGGTATTTTCAAAATC
66 CATGCTGAGGTATTTTCAAAATC
* * * *
6305377 TGTTTTACAAATTT-TG-TTTT-AAAAATCAACGCATTTTGCGAGAAGTGAGTTGAGCCTTGGCT
1 TGTTTT--AAATTTATGTTTTTCAAAAATCAACGCATATTGCGAGAAATGAGTTGAGCCTCGGGT
* * **
6305439 CACGTGCTGAGCTATTTTCAATTTC
64 CACATGCTGAGGTATTTTCAAAATC
* * * * **
6305464 TATTTT-AATGTATATTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGA-CCTC
1 TGTTTTAAATTTATGTTTTTCAAA-AATCAACGCATATTGCGAGAAATGAGTTGAGCCTC
6305521 ACAATCACAT
Statistics
Matches: 188, Mismatches: 37, Indels: 18
0.77 0.15 0.07
Matches are distributed among these distances:
84 4 0.02
85 1 0.01
86 10 0.05
87 84 0.45
88 48 0.26
89 2 0.01
90 39 0.21
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (88 bp):
TGTTTTAAATTTATGTTTTTCAAAAATCAACGCATATTGCGAGAAATGAGTTGAGCCTCGGGTCA
CATGCTGAGGTATTTTCAAAATC
Found at i:6306209 original size:30 final size:30
Alignment explanation
Indices: 6306173--6306271 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
6306163 CTAGCCTTTG
* *
6306173 CCACCACCAACTCCACTAGCTACAATTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6306203 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
6306233 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6306263 CCACCACCA
1 CCACCACCA
6306272 CTTGTACCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.27, C:0.48, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:6306236 original size:18 final size:18
Alignment explanation
Indices: 6306213--6306266 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
6306203 CCACCACCAA
6306213 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
6306231 CTCCACT----AC-C-TA
1 CTCCACTAGCCACACTTG
6306243 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
6306261 CTCCAC
1 CTCCAC
6306267 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:6306418 original size:22 final size:22
Alignment explanation
Indices: 6306388--6306495 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
6306378 TTTTTACATG
*
6306388 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
6306410 TTATATTATGTATGTATTGTTTACA
1 TTATATTATGTATATA-T-TTTA-A
* *
6306435 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
6306458 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
6306478 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
6306496 ATGTAGTATT
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 20 0.29
23 11 0.16
24 8 0.12
25 16 0.24
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:6306462 original size:20 final size:20
Alignment explanation
Indices: 6306437--6306495 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
6306427 TGTTTACACT
6306437 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
6306457 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
6306480 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
6306496 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:6306634 original size:16 final size:15
Alignment explanation
Indices: 6306610--6306644 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
6306600 TAATTATTAT
6306610 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
6306626 TATTTTAATATTTTA
1 TATTCTAATATTTTA
6306641 TATT
1 TATT
6306645 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:6307384 original size:6 final size:6
Alignment explanation
Indices: 6307373--6307405 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6307363 AAAATATAAT
*
6307373 AAAATA AAAATA AAAA-A GAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
6307406 ACAGAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:6307396 original size:17 final size:17
Alignment explanation
Indices: 6307374--6307406 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6307364 AAATATAATA
6307374 AAATAAAAATAAAAAAG
1 AAATAAAAATAAAAAAG
6307391 AAATAAAAATAAAAAA
1 AAATAAAAATAAAAAA
6307407 CAGAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (17 bp):
AAATAAAAATAAAAAAG
Found at i:6307405 original size:18 final size:18
Alignment explanation
Indices: 6307374--6307415 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6307364 AAATATAATA
6307374 AAATAAAAATAAAAA-AG
1 AAATAAAAATAAAAACAG
6307391 AAATAAAAATAAAAAACAG
1 AAATAAAAAT-AAAAACAG
6307410 -AATAAA
1 AAATAAA
6307416 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 11 0.48
19 2 0.09
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (18 bp):
AAATAAAAATAAAAACAG
Found at i:6309359 original size:86 final size:85
Alignment explanation
Indices: 6309259--6309709 Score: 307
Period size: 86 Copynumber: 5.2 Consensus size: 85
6309249 ATGCCAAATC
*
6309259 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGTGCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTAAAA-CATCTGAAGGTTAGATCTGCTATGTATCTGTGCTCCGTTGA
6309324 AATAGAGATGCCAGATCTGTT
65 AATAGAGATGCCAGATCTGTT
** * * * * * * * * *
6309345 ATCTTAAATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCC
1 ATCTTGGATCTGCTTC--AGT-AAAACATCTGAAGGTTAGATCTGCTATGT-ATC--TGTGCTCC
* * *
6309410 -TTGTAAACACAAGAATTCC-GAATC----
60 GTTG-AAATA-GAG-ATGCCAG-ATCTGTT
* *
6309434 ATGTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCT-CTCCGTCG
1 ATCTTGGATCTGCTTCAGTA-AAACATCTGAAGGTTAGATCTGCTATGTATCTG-TGCTCCGTTG
*
6309498 AAATGGAGATGCCAGATCTGTT
64 AAATAGAGATGCCAGATCTGTT
* * * * * * * * *
6309520 ATCTTGGATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATATGTTCC
1 ATCTTGGATCTGCTTC--AGT-AAAACATCTGAAGGTTAGATCTGCTATGT-ATC--TGTGCTCC
* * *
6309585 -TTGTAAACACAAGAATGCCAAATC----
60 GTTG-AAATA-GAG-ATGCCAGATCTGTT
*
6309609 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTGCTATGTATCTGCT-CTCCGTTG
1 ATCTTGGATCTGCTTCAGTA-AAACATCTGAAGGTTAGATCTGCTATGTATCTG-TGCTCCGTTG
*
6309673 AAATGGAGATGCCAGATCTGTT
64 AAATAGAGATGCCAGATCTGTT
6309695 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
6309710 TGGTGTGAGA
Statistics
Matches: 269, Mismatches: 61, Indels: 70
0.67 0.15 0.17
Matches are distributed among these distances:
82 16 0.06
83 5 0.02
84 14 0.05
85 7 0.03
86 50 0.19
87 49 0.18
88 48 0.18
89 37 0.14
90 5 0.02
91 17 0.06
92 5 0.02
93 16 0.06
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (85 bp):
ATCTTGGATCTGCTTCAGTAAAACATCTGAAGGTTAGATCTGCTATGTATCTGTGCTCCGTTGAA
ATAGAGATGCCAGATCTGTT
Found at i:6309422 original size:175 final size:175
Alignment explanation
Indices: 6309201--6309837 Score: 1017
Period size: 175 Copynumber: 3.6 Consensus size: 175
6309191 CGTAATACGT
* * * * ** * * *
6309201 GAAAGCCAAATCTACTGTGTCTTTGATTTCCTCTTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
6309266 ATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTG-TGCTCCGTCGAAATAG
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTGCT-CTCCGTCGAAATGG
**
6309329 AGATGCCAGATCTGTTATCTTAAATCTGCTTCGGTGTGAGAACATCC
129 AGATGCCAGATCTGTTATCTTGGATCTGCTTCGGTGTGAGAACATCC
* * *
6309376 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATTCCGAATCATGTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
6309441 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
6309506 ATGCCAGATCTGTTATCTTGGATCTGCTTCGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTCGGTGTGAGAACATCC
*
6309551 GAAAGTCAAATCTGCTATGTCTTCGATATGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
6309616 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTGCTATGTATCTGCTCTCCGTTGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
*
6309681 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTCGGTGTGAGAACATCC
* *
6309726 GAAAGTCAAATCTGCGATGTATTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * *
6309791 ATCTGCTTCAGTATAAACAACTGAAGGTTAGATTTTCTATGTGTCTG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTG
6309838 ATTTGCTCCT
Statistics
Matches: 432, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
175 428 0.99
176 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTCGGTGTGAGAACATCC
Found at i:6309798 original size:89 final size:88
Alignment explanation
Indices: 6309352--6309799 Score: 356
Period size: 89 Copynumber: 5.1 Consensus size: 88
6309342 GTTATCTTAA
*
6309352 ATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAA
1 ATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTATTCGA-TTGTTCCTTGTAAA
* * *
6309417 CACAAGAATTCCGAATCATGTTGG
65 CACAAGAATGCCAAATCATCTTGG
* * * * * * *
6309441 ATCTGCTTCAGTAT-A-AACATCTGAAGGTTAGATCTGCTATGTA-TC---TGCTCTCCGTCG-A
1 ATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTATTCGATTG-T-TCC-TTGTA
*** *
6309499 AA-TGGAG-ATGCCAGATCTGTTATCTTGG
63 AACACAAGAATGCCAAATC----ATCTTGG
*
6309527 ATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATATGTTCCTTGTAAA
1 ATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTATTCGAT-TGTTCCTTGTAAA
6309592 CACAAGAATGCCAAATCATCTTGG
65 CACAAGAATGCCAAATCATCTTGG
* * * * * * *
6309616 ATCTGCTTCAGTAT-A-AACATCTGAAGGTTAGATTTGCTATGTA-TC---TGCTCTCCGTTG-A
1 ATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTATTCGATTG-T-TCC-TTGTA
*** *
6309674 AA-TGGAG-ATGCCAGATCTGTTATCTTGG
63 AACACAAGAATGCCAAATC----ATCTTGG
* *
6309702 ATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCGATGTATTCGATTTGTTCCTTGTAAA
1 ATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTATTCGA-TTGTTCCTTGTAAA
6309767 CACAAGAATGCCAAATCATCTTGG
65 CACAAGAATGCCAAATCATCTTGG
6309791 ATCTGCTTC
1 ATCTGCTTC
6309800 AGTATAAACA
Statistics
Matches: 272, Mismatches: 53, Indels: 68
0.69 0.13 0.17
Matches are distributed among these distances:
82 20 0.07
83 6 0.02
84 12 0.04
85 5 0.02
86 40 0.15
87 47 0.17
88 47 0.17
89 50 0.18
90 5 0.02
91 12 0.04
92 6 0.02
93 22 0.08
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (88 bp):
ATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTATTCGATTGTTCCTTGTAAAC
ACAAGAATGCCAAATCATCTTGG
Done.