Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold322
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: 1390506
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 7 of 9
Found at i:1002963 original size:12 final size:12
Alignment explanation
Indices: 1002946--1002971 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1002936 CAATAGCTTC
1002946 CCTAACCTAACT
1 CCTAACCTAACT
1002958 CCTAACCTAACT
1 CCTAACCTAACT
1002970 CC
1 CC
1002972 AAATGTGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (12 bp):
CCTAACCTAACT
Found at i:1003951 original size:18 final size:19
Alignment explanation
Indices: 1003915--1003951 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1003905 TTGTAAAAGT
1003915 AAATAAAACAACAATGGGA
1 AAATAAAACAACAATGGGA
1003934 AAATAAGAA-AAC-ATGGGA
1 AAATAA-AACAACAATGGGA
1003952 TGATTTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 9 0.53
20 2 0.12
ACGTcount: A:0.62, C:0.08, G:0.19, T:0.11
Consensus pattern (19 bp):
AAATAAAACAACAATGGGA
Found at i:1003966 original size:2 final size:2
Alignment explanation
Indices: 1003959--1003988 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1003949 GGATGATTTG
1003959 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1003989 GGGAAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1008373 original size:142 final size:141
Alignment explanation
Indices: 1008082--1008809 Score: 479
Period size: 137 Copynumber: 5.2 Consensus size: 141
1008072 GTTTTACTAG
* * * * * * * *
1008082 GTCCTACCGCCAATATAGTCAAACAAGGGTAAAAA-GAATTTGACTAGGTCTTAATGCCAATAGA
1 GTCCTAACACCAATACAGTCAAACGAGAGTAAAAACG--TTTAACTAGATCCTAATGCCAATAGA
*** *
1008146 GTCAAACAAGGGTAAAAAAATGTTTGACCAGGTCCTAATGCCAATACGGTCAAACGAGAGTAAAA
64 GTCAAACAAGGGTAAAAAAATGTTTGACCAGGTCCTAATGCCAATAAAATCAAACGAGAGGAAAA
* *
1008211 AGAGTTTGACTAA
129 AGAGTTTAACCAA
* *
1008224 GTCCTAACACCAATACATTCAAACGAGGGTGAAAAACGTTTAACTAGATCCTAATGCCAATAGAG
1 GTCCTAACACCAATACAGTCAAACGAGAGT-AAAAACGTTTAACTAGATCCTAATGCCAATAGAG
** * * *
1008289 TCAAATGAGGGTAAAAAAAATGTTTGACTAGGTTCTAATGCCAATAAAATCAAATGAGAGGAAAA
65 TCAAACAAGGGT-AAAAAAATGTTTGACCAGGTCCTAATGCCAATAAAATCAAACGAGAGGAAAA
*
1008354 AGAGTTTAACCAG
129 AGAGTTTAACCAA
* * * * * *
1008367 GT-CTAACGCCAATACAGTCAAACGAGAGTAAAAAGAGTTTGACGA-AGTCC-AATGCTAATATA
1 GTCCTAACACCAATACAGTCAAACGAGAGTAAAAA-CGTTTAACTAGA-TCCTAATGCCAATAGA
* * * * * * ** *
1008429 GTCAAACAAGGGTGAGAATA-GATTGACCAGG-ACTAATGCCAATACAGCCAAAC-AAAGG---A
64 GTCAAACAAGGGTAAAAAAATGTTTGACCAGGTCCTAATGCCAATAAAATCAAACGAGAGGAAAA
* *
1008488 AGAGTTTGACCAG
129 AGAGTTTAACCAA
* * * * * * * * * *
1008501 GTCCTAACATCAATACAATCAAAC-AAAGGTAAAAAGAGTTTGACAAGGTCCTAACGCAAATACA
1 GTCCTAACACCAATACAGTCAAACGAGA-GTAAAAA-CGTTTAACTAGATCCTAATGCCAATAGA
* * * * ** * * *
1008565 GTTAAACAAGAGTAAAAAGA-GTTTAACCAAATCCTAATGCCAATACAGTCAAACGA-A--AGAA
64 GTCAAACAAGGGTAAAAAAATGTTTGACCAGGTCCTAATGCCAATAAAATCAAACGAGAGGAAAA
* *
1008626 A-AGTTTGACTAA
129 AGAGTTTAACCAA
** * * * * * *
1008638 GTCCTAATGCCAATACAGTCAAACGAAAGTAAAAAGAGTTTGA-TCAGGTTCTAATGCCAATATA
1 GTCCTAACACCAATACAGTCAAACGAGAGTAAAAA-CGTTTAACT-AGATCCTAATGCCAATAGA
* * * * * * *
1008702 ATCAAACGAGAGTAAAAAAA-GTTTGATCAGGTCCTAACGCCAAT-ACATCAAACGAG-GGTGAA
64 GTCAAACAAGGGTAAAAAAATGTTTGACCAGGTCCTAATGCCAATAAAATCAAACGAGAGG-AAA
* * *
1008764 AAGAGTTTGACTAG
128 AAGAGTTTAACCAA
* * * *
1008778 GTCTTAACATCAATACAGTCAAATGAGGGTAA
1 GTCCTAACACCAATACAGTCAAACGAGAGTAA
1008810 GAAGAGTTTG
Statistics
Matches: 470, Mismatches: 95, Indels: 44
0.77 0.16 0.07
Matches are distributed among these distances:
134 17 0.04
135 38 0.08
136 39 0.08
137 119 0.25
138 23 0.05
139 12 0.03
140 39 0.08
141 27 0.06
142 93 0.20
143 62 0.13
144 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (141 bp):
GTCCTAACACCAATACAGTCAAACGAGAGTAAAAACGTTTAACTAGATCCTAATGCCAATAGAGT
CAAACAAGGGTAAAAAAATGTTTGACCAGGTCCTAATGCCAATAAAATCAAACGAGAGGAAAAAG
AGTTTAACCAA
Found at i:1008432 original size:46 final size:47
Alignment explanation
Indices: 1008071--1008823 Score: 598
Period size: 47 Copynumber: 16.2 Consensus size: 47
1008061 AGGATTACTA
* * ** * * *
1008071 AGTTTTACTAGGTCCTACCGCCAATATAGTCAAACAAGGGTAAAAAG
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* * * * * * *
1008118 AATTTGACTAGGTCTTAATGCCAATAGAGTCAAACAAGGGTAAAAAA
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
*
1008165 ATGTTTGACCAGGTCCTAATGCCAATACGGTCAAACGAGAGTAAAAAG
1 A-GTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* * ** * *
1008213 AGTTTGACTAAGTCCTAACACCAATACATTCAAACGAGGGTGAAAAA-
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGT-AAAAAG
* * * * * * * *
1008260 CGTTTAACTAGATCCTAATGCCAATAGAGTCAAATGAGGGTAAAAAAA
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGT-AAAAAG
* * * * * *
1008308 ATGTTTGACTAGGTTCTAATGCCAATAAAATCAAATGAGAGGAAAAAG
1 A-GTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* *
1008356 AGTTTAACCAGGT-CTAACGCCAATACAGTCAAACGAGAGTAAAAAG
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* * * * * * * * *
1008402 AGTTTGACGAAGTCC-AATGCTAATATAGTCAAACAAGGGTGAGAAT
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* * * **
1008448 AGATTGACCAGG-ACTAATGCCAATACAGCCAAAC-A-A--AGGAAG
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
*** * *
1008490 AGTTTGACCAGGTCCTAACATCAATACAATCAAAC-AAAGGTAAAAAG
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGA-GTAAAAAG
* * * * *
1008537 AGTTTGACAAGGTCCTAACGCAAATACAGTTAAACAAGAGTAAAAAG
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* ** *
1008584 AGTTTAACCAAATCCTAATGCCAATACAGTCAAACGA-A--AGAAA-
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* * *
1008627 AGTTTGACTAAGTCCTAATGCCAATACAGTCAAACGAAAGTAAAAAG
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* * * * *
1008674 AGTTTGATCAGGTTCTAATGCCAATATAATCAAACGAGAGTAAAAAA
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* * * *
1008721 AGTTTGATCAGGTCCTAACGCCAATACA-TCAAACGAGGGTGAAAAG
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
* * *** * * *
1008767 AGTTTGACTAGGTCTTAACATCAATACAGTCAAATGAGGGTAAGAAG
1 AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
1008814 AGTTTGACCA
1 AGTTTGACCA
1008824 AGACTAACGC
Statistics
Matches: 567, Mismatches: 122, Indels: 34
0.78 0.17 0.05
Matches are distributed among these distances:
42 14 0.02
43 51 0.09
44 6 0.01
45 2 0.00
46 129 0.23
47 280 0.49
48 52 0.09
49 33 0.06
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (47 bp):
AGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGAGTAAAAAG
Found at i:1008573 original size:90 final size:92
Alignment explanation
Indices: 1008071--1008837 Score: 370
Period size: 95 Copynumber: 8.3 Consensus size: 92
1008061 AGGATTACTA
* * * * * * * *
1008071 AGTTTTACTAGGTCCTACCGCCAATATAGTCAAAC-AAGGGTAAAAAGAATTTGACTAGGTCTTA
1 AGTTTGACAAGGTCCTAACGCCAATACAGTCAAACGAA-AG--AAAAGAGTTTGACCAGGTCCTA
** * * * *
1008135 ATGCCAATAGAGTCAAACAAGGGTAAAAAA
63 ACACCAATACAATCAAACAAAGGTAAAAAG
* * * * * *
1008165 ATGTTTGACCAGGTCCTAATGCCAATACGGTCAAACGAGAGTAAAAAGAGTTTGACTAAGTCCTA
1 A-GTTTGACAAGGTCCTAACGCCAATACAGTCAAACGAAAG--AAAAGAGTTTGACCAGGTCCTA
* * *
1008230 ACACCAATACATTCAAACGAGGGTGAAAAA-
63 ACACCAATACAATCAAACAAAGGT-AAAAAG
* * * * * * * * * *
1008260 CGTTTAACTAGATCCTAATGCCAATAGAGTCAAATGAGGGTAA-AAAAAATGTTTGACTAGGTTC
1 AGTTTGACAAGGTCCTAACGCCAATACAGTCAAACGA----AAGAAAAGA-GTTTGACCAGGTCC
** * * *
1008324 TAATGCCAATAAAATCAAATGAGAGG-AAAAAG
61 TAACACCAATACAATCAAA-CAAAGGTAAAAAG
* * * * *
1008356 AGTTTAACCAGGT-CTAACGCCAATACAGTCAAACGAGAGTAAAAAGAGTTTGACGAAGTCC-AA
1 AGTTTGACAAGGTCCTAACGCCAATACAGTCAAACGAAAG--AAAAGAGTTTGACCAGGTCCTAA
** * * * * * * *
1008419 TGCTAATATAGTCAAACAAGGGTGAGAAT
64 CACCAATACAATCAAACAAAGGTAAAAAG
* * * * * *
1008448 AGATTGACCAGG-ACTAATGCCAATACAGCCAAAC-AAAG-GAAGAGTTTGACCAGGTCCTAACA
1 AGTTTGACAAGGTCCTAACGCCAATACAGTCAAACGAAAGAAAAGAGTTTGACCAGGTCCTAACA
*
1008510 TCAATACAATCAAACAAAGGTAAAAAG
66 CCAATACAATCAAACAAAGGTAAAAAG
* * * **
1008537 AGTTTGACAAGGTCCTAACGCAAATACAGTTAAAC-AAGAGTAAAAAGAGTTTAACCAAATCCTA
1 AGTTTGACAAGGTCCTAACGCCAATACAGTCAAACGAA-AG--AAAAGAGTTTGACCAGGTCCTA
** *
1008601 ATGCCAATACAGTCAAACGAAA-G---AAA-
63 ACACCAATACAATCAAAC-AAAGGTAAAAAG
* * *
1008627 AGTTTGACTAA-GTCCTAATGCCAATACAGTCAAACGAAAGTAAAAAGAGTTTGATCAGGTTCTA
1 AGTTTGAC-AAGGTCCTAACGCCAATACAGTCAAACGAAAG--AAAAGAGTTTGACCAGGTCCTA
** * * *
1008691 ATGCCAATATAATCAAAC-GAGAGTAAAAAA
63 ACACCAATACAATCAAACAAAG-GTAAAAAG
** * *
1008721 AGTTTGATC-AGGTCCTAACGCCAATACA-TCAAACGAGGGTGAAAAGAGTTTGACTAGGTCTTA
1 AGTTTGA-CAAGGTCCTAACGCCAATACAGTCAAACGA--AAGAAAAGAGTTTGACCAGGTCCTA
* * ** * *
1008784 ACATCAATACAGTCAAATGAGGGTAAGAAG
63 ACACCAATACAATCAAACAAAGGTAAAAAG
*
1008814 AGTTTGACCAA-G-ACTAACGCCAAT
1 AGTTTGA-CAAGGTCCTAACGCCAAT
1008838 GCAACCAAAC
Statistics
Matches: 519, Mismatches: 118, Indels: 74
0.73 0.17 0.10
Matches are distributed among these distances:
88 17 0.03
89 31 0.06
90 86 0.17
91 16 0.03
92 58 0.11
93 68 0.13
94 93 0.18
95 104 0.20
96 43 0.08
97 2 0.00
98 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (92 bp):
AGTTTGACAAGGTCCTAACGCCAATACAGTCAAACGAAAGAAAAGAGTTTGACCAGGTCCTAACA
CCAATACAATCAAACAAAGGTAAAAAG
Found at i:1008816 original size:324 final size:328
Alignment explanation
Indices: 1008070--1008849 Score: 813
Period size: 324 Copynumber: 2.4 Consensus size: 328
1008060 TAGGATTACT
* * * * *
1008070 AAGTTTTACTAGGTCCTACCGCCAATATAGTCAAACAAGGGTAAAAAGAATTTGACTAGGTCTTA
1 AAGTTTGACGAGGTCCTAACGCCAATATAGTCAAACAAGGGTGAAAAGAGTTTGACTAGGTCTTA
* * * ** **
1008135 ATGCCAATAGAGTCAAACAAGGGTAAAAAAATGTTTGACCAGGTCCTAATGCCAATACGGTCAAA
66 ATGCCAATACAGTCAAA-AAGGGTAAGAAGA-GTTTGACCAGGTCCTAACACCAATACAATCAAA
* * * * *
1008200 CGAGAGTAAAAAGAGTTTGACTAAGTCCTAACACCAATACATTCAAACGAGGGTGAAAAACGTTT
129 CAAGAGTAAAAAGAGTTTGACTAAGTCCTAACACAAATACATTCAAACAAGAGTGAAAAAAGTTT
* * * * * *
1008265 AACTAGATCCTAATGCCAATAGAGTCAAATGAGGGTAAAAAAAATGTTTGACTAGGTTCTAATGC
194 AACCAAATCCTAATGCCAATACAGTCAAA-GAGCGTAAAAAAAATGTTTGACTAAGTCCTAATGC
* * *
1008330 CAATAAAATCAAATGAGAGGAAAAAGAGTTTAACCAGGTCTAACGCCAATACAGTCAAACGAGAG
258 CAATAAAATCAAACGAAAGGAAAAAGAGTTTAACCAGGTCTAACGCCAATACAATCAAACGAGAG
1008395 TAAAAA
323 TAAAAA
* * * * * * * * *
1008401 GAGTTTGACGAAGTCC-AATGCTAATATAGTCAAACAAGGGTGAGAATAGATTGACCAGGAC-TA
1 AAGTTTGACGAGGTCCTAACGCCAATATAGTCAAACAAGGGTGAAAAGAGTTTGACTAGGTCTTA
* * *
1008464 ATGCCAATACAGCCAAACAA----AGGAAGAGTTTGACCAGGTCCTAACATCAATACAATCAAAC
66 ATGCCAATACAGTCAAA-AAGGGTAAGAAGAGTTTGACCAGGTCCTAACACCAATACAATCAAAC
*
1008525 AA-AGGTAAAAAGAGTTTGAC-AAGGTCCTAACGCAAATACAGTT-AAACAAGAGT-AAAAAGAG
130 AAGA-GTAAAAAGAGTTTGACTAA-GTCCTAACACAAATACA-TTCAAACAAGAGTGAAAAA-AG
*
1008586 TTTAACCAAATCCTAATGCCAATACAGTC-AA-A-CG-AAAGAAAA-GTTTGACTAAGTCCTAAT
191 TTTAACCAAATCCTAATGCCAATACAGTCAAAGAGCGTAAAAAAAATGTTTGACTAAGTCCTAAT
* * * * * * *
1008646 GCCAATACAGTCAAACGAAAGTAAAAAGAGTTTGATCAGGTTCTAATGCCAATATAATCAAACGA
256 GCCAATAAAATCAAACGAAAGGAAAAAGAGTTTAACCAGG-TCTAACGCCAATACAATCAAACGA
1008711 GAGTAAAAA
320 GAGTAAAAA
* *
1008720 AAGTTTGATC-AGGTCCTAACGCCAATACA-TCAAACGAGGGTGAAAAGAGTTTGACTAGGTCTT
1 AAGTTTGA-CGAGGTCCTAACGCCAATATAGTCAAACAAGGGTGAAAAGAGTTTGACTAGGTCTT
*** * * * * * *
1008783 AACATCAATACAGTCAAATGAGGGTAAGAAGAGTTTGACCAAG-ACTAACGCCAATGCAACCAAA
65 AATGCCAATACAGTCAAA-AAGGGTAAGAAGAGTTTGACCAGGTCCTAACACCAATACAATCAAA
1008847 CAA
129 CAA
1008850 TAGAAGAGTT
Statistics
Matches: 366, Mismatches: 71, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
318 49 0.13
319 75 0.20
320 27 0.07
321 1 0.00
323 29 0.08
324 112 0.31
325 6 0.02
329 20 0.05
330 35 0.10
331 12 0.03
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (328 bp):
AAGTTTGACGAGGTCCTAACGCCAATATAGTCAAACAAGGGTGAAAAGAGTTTGACTAGGTCTTA
ATGCCAATACAGTCAAAAAGGGTAAGAAGAGTTTGACCAGGTCCTAACACCAATACAATCAAACA
AGAGTAAAAAGAGTTTGACTAAGTCCTAACACAAATACATTCAAACAAGAGTGAAAAAAGTTTAA
CCAAATCCTAATGCCAATACAGTCAAAGAGCGTAAAAAAAATGTTTGACTAAGTCCTAATGCCAA
TAAAATCAAACGAAAGGAAAAAGAGTTTAACCAGGTCTAACGCCAATACAATCAAACGAGAGTAA
AAA
Found at i:1010421 original size:15 final size:15
Alignment explanation
Indices: 1010401--1010441 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
1010391 CCTCATCTCA
1010401 TTCTTTCTTTTTTTT
1 TTCTTTCTTTTTTTT
1010416 TTCTTT-TTTCTTTTT
1 TTCTTTCTTT-TTTTT
1010431 TTCTTTCTTTT
1 TTCTTTCTTTT
1010442 CACAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTCTTTCTTTTTTTT
Found at i:1010427 original size:18 final size:19
Alignment explanation
Indices: 1010404--1010441 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
1010394 CATCTCATTC
1010404 TTTCTTTTTTT-TTTCTTT
1 TTTCTTTTTTTCTTTCTTT
1010422 TTTCTTTTTTTCTTTCTTT
1 TTTCTTTTTTTCTTTCTTT
1010441 T
1 T
1010442 CACAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (19 bp):
TTTCTTTTTTTCTTTCTTT
Found at i:1010432 original size:19 final size:18
Alignment explanation
Indices: 1010404--1010441 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
1010394 CATCTCATTC
*
1010404 TTTCTTTTTTTTTTCTTT
1 TTTCTTTTTTCTTTCTTT
1010422 TTTCTTTTTTTCTTTCTTT
1 TTTC-TTTTTTCTTTCTTT
1010441 T
1 T
1010442 CACAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTCTTTTTTCTTTCTTT
Found at i:1017792 original size:81 final size:79
Alignment explanation
Indices: 1017675--1017946 Score: 223
Period size: 80 Copynumber: 3.4 Consensus size: 79
1017665 ACGGGACTAA
* * * *
1017675 AGTATCCTCTCGGAGACGGTGA-GGTTAGAGTATCCCTGAAGATGGAAAATTCAATGCTTTTAGA
1 AGTATCCTCTCGAAGA-GG-GAGGGTTGGAGTTTCCCTGAAGATGGAAAATTTAATG-TTTTAGA
*
1017739 AGTAAAAATAGGGTTGG
63 AGTAAAAATAGGGTTAG
* * * *
1017756 AGTATCCTCTCGAAGAGGGCAGGGTTGGAGTTTCCCTAAAGATGAAAAAATTTGATGTTTTTGGA
1 AGTATCCTCTCGAAGAGGG-AGGGTTGGAGTTTCCCTGAAGATG-GAAAATTTAATG-TTTTAGA
**
1017821 AGGGAAAATAGGGTTAG
63 AGTAAAAATAGGGTTAG
* * * *
1017838 AGTATCTTCTCAAAAATGGTG-GGGTTGGAGTATTCCCTGAA-AT-GAAAATTTAGGTGTTTTAG
1 AGTATCCTCTCGAAGA-GG-GAGGGTTGGAGT-TTCCCTGAAGATGGAAAATTTA-ATGTTTTAG
*
1017900 AAGTAAAAA-CGAGGTTAG
62 AAGTAAAAATAG-GGTTAG
* *
1017918 AGTATCCCCTCAAAGATGGTG-GGGTTGGA
1 AGTATCCTCTCGAAGA-GG-GAGGGTTGGA
1017947 ATATCCCCAG
Statistics
Matches: 157, Mismatches: 26, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
79 2 0.01
80 54 0.34
81 36 0.23
82 54 0.34
83 10 0.06
84 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (79 bp):
AGTATCCTCTCGAAGAGGGAGGGTTGGAGTTTCCCTGAAGATGGAAAATTTAATGTTTTAGAAGT
AAAAATAGGGTTAG
Found at i:1017842 original size:82 final size:81
Alignment explanation
Indices: 1017585--1017970 Score: 262
Period size: 82 Copynumber: 4.7 Consensus size: 81
1017575 AAAGAAACGA
* * * * *
1017585 GGTTAGAGTATCCCCTCGGAGATGGTAGGGTTAGAGTATCCCCAAAGATGAAAAATTTGATTTTT
1 GGTTAGAGTATCCTCTCGAAGAGGGTAGGGTTAGAGTATCCCTAAAGATGAAAAATTTGA---TG
* *
1017650 TTTTTGGAAGTAAAAA-CG
63 TTTTTGGAAGGAAAAATAG
* * * * * * ** *
1017668 GGACTAAAGTATCCTCTCGGAGACGGT-GAGGTTAGAGTATCCCTGAAGATGGAAAATTCAATGC
1 GG-TTAGAGTATCCTCTCGAAGAGGGTAG-GGTTAGAGTATCCCTAAAGATGAAAAATTTGATGT
* *
1017732 TTTTAGAAGTAAAAATAG
64 TTTTGGAAGGAAAAATAG
* * * *
1017750 GGTTGGAGTATCCTCTCGAAGAGGGCAGGGTTGGAGTTTCCCTAAAGATGAAAAAATTTGATGTT
1 GGTTAGAGTATCCTCTCGAAGAGGGTAGGGTTAGAGTATCCCTAAAGATG-AAAAATTTGATGTT
*
1017815 TTTGGAAGGGAAAATAG
65 TTTGGAAGGAAAAATAG
* * * * * * * *
1017832 GGTTAGAGTATCTTCTCAAAAATGGTGGGGTTGGAGTATTCCCTGAA-ATG-AAAATTT-AGGTG
1 GGTTAGAGTATCCTCTCGAAGAGGGTAGGGTTAGAGTA-TCCCTAAAGATGAAAAATTTGATGT-
* * *
1017894 TTTTAGAAGTAAAAA-CG
64 TTTTGGAAGGAAAAATAG
* * * * * * * * *
1017911 AGGTTAGAGTATCCCCTCAAAGATGGTGGGGTTGGAATATCCCCAGAGATGAAAATTTTG
1 -GGTTAGAGTATCCTCTCGAAGAGGGTAGGGTTAGAGTATCCCTAAAGATGAAAAATTTG
1017971 GTATTTGGGA
Statistics
Matches: 241, Mismatches: 51, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
79 9 0.04
80 56 0.23
81 58 0.24
82 61 0.25
83 10 0.04
84 47 0.20
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (81 bp):
GGTTAGAGTATCCTCTCGAAGAGGGTAGGGTTAGAGTATCCCTAAAGATGAAAAATTTGATGTTT
TTGGAAGGAAAAATAG
Found at i:1017906 original size:162 final size:160
Alignment explanation
Indices: 1017692--1018087 Score: 419
Period size: 160 Copynumber: 2.5 Consensus size: 160
1017682 TCTCGGAGAC
* * * *
1017692 GGTGAGGTTAGAGTATCCCTGAAGATGGAAAATTCA-ATGCTTTTAGAAGTAAAAA-TAGGGTTG
1 GGTGGGGTTAGAGTATCCCTGAAGAT-GAAAATTTAGGTG-TTTTAGAAGTAAAAACGA-GGTTG
* * * * * *
1017755 GAGTATCCTCTCGAAGAGGGCAGGGTTGGAGTTTCCCTAAAGATGAAAAAATTTGATGT-TTTTG
63 GAGTATCCCCTCAAAGAGGGCAGGGTTGGAATATCCCCAAAGATG-AAAAATTTG--GTATTTGG
* * **
1017819 GAAGGGAAAATA-G-GGTTAG-AGTATCTTCTCAAAAAT
125 GAA-AGAAAA-ACGAGGTT-GCAATATCCCCTCAAAAAT
* *
1017855 GGTGGGGTTGGAGTATTCCCTGAA-ATGAAAATTTAGGTGTTTTAGAAGTAAAAACGAGGTTAGA
1 GGTGGGGTTAGAGTA-TCCCTGAAGATGAAAATTTAGGTGTTTTAGAAGTAAAAACGAGGTTGGA
* ** * * *
1017919 GTATCCCCTCAAAGATGGTGGGGTTGGAATATCCCCAGAGATGAAAATTTTGGTATTTGGGAAAT
65 GTATCCCCTCAAAGAGGGCAGGGTTGGAATATCCCCAAAGATGAAAAATTTGGTATTTGGGAAAG
*
1017984 AAAAACGATGTTGCAATATCCCCTCAAAAAT
130 AAAAACGAGGTTGCAATATCCCCTCAAAAAT
* * *
1018015 AGTGGGGTTAGAGTATCCCTTAAGATGAAAATTTCGGTGTTTTAGAAGTAAAAACGAGGTTGGAG
1 GGTGGGGTTAGAGTATCCCTGAAGATGAAAATTTAGGTGTTTTAGAAGTAAAAACGAGGTTGGAG
1018080 TATCCCCT
66 TATCCCCT
1018088 TGGTGAGGTT
Statistics
Matches: 197, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
158 1 0.01
159 15 0.08
160 84 0.43
161 8 0.04
162 63 0.32
163 18 0.09
164 8 0.04
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (160 bp):
GGTGGGGTTAGAGTATCCCTGAAGATGAAAATTTAGGTGTTTTAGAAGTAAAAACGAGGTTGGAG
TATCCCCTCAAAGAGGGCAGGGTTGGAATATCCCCAAAGATGAAAAATTTGGTATTTGGGAAAGA
AAAACGAGGTTGCAATATCCCCTCAAAAAT
Found at i:1017930 original size:80 final size:80
Alignment explanation
Indices: 1017832--1018087 Score: 309
Period size: 80 Copynumber: 3.2 Consensus size: 80
1017822 GGGAAAATAG
**
1017832 GGTTAGAGTATCTTCTCAAAAATGGTGGGGTTGGAGTATTCCCTGAAATGAAAATTTAGGTGTTT
1 GGTTAGAGTATCCCCTCAAAAATGGTGGGGTTGGAGTATTCCCTGAAATGAAAATTTAGGTGTTT
1017897 TAGAAGTAAAAACGA
66 TAGAAGTAAAAACGA
* * * * * * *
1017912 GGTTAGAGTATCCCCTCAAAGATGGTGGGGTTGGAATATCCCCAGAGATGAAAATTTTGGTATTT
1 GGTTAGAGTATCCCCTCAAAAATGGTGGGGTTGGAGTATTCCCTGAAATGAAAATTTAGGTGTTT
** *
1017977 GGGAAATAAAAACGA
66 TAGAAGTAAAAACGA
* * * * * *
1017992 TGTT-GCAATATCCCCTCAAAAATAGTGGGGTTAGAGTA-TCCCTTAAGATGAAAATTTCGGTGT
1 GGTTAG-AGTATCCCCTCAAAAATGGTGGGGTTGGAGTATTCCCTGAA-ATGAAAATTTAGGTGT
1018055 TTTAGAAGTAAAAACGA
64 TTTAGAAGTAAAAACGA
*
1018072 GGTTGGAGTATCCCCT
1 GGTTAGAGTATCCCCT
1018088 TGGTGAGGTT
Statistics
Matches: 144, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
79 5 0.03
80 138 0.96
81 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (80 bp):
GGTTAGAGTATCCCCTCAAAAATGGTGGGGTTGGAGTATTCCCTGAAATGAAAATTTAGGTGTTT
TAGAAGTAAAAACGA
Found at i:1018588 original size:20 final size:20
Alignment explanation
Indices: 1018563--1018607 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1018553 ATTTTTATTA
*
1018563 AATGAAATATAC-TTATTAGT
1 AATGAAATAT-CGTTATTAGG
1018583 AATGAAATATCGTTATTAGG
1 AATGAAATATCGTTATTAGG
1018603 AATGA
1 AATGA
1018608 TGTTGTTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (20 bp):
AATGAAATATCGTTATTAGG
Found at i:1020788 original size:80 final size:79
Alignment explanation
Indices: 1020609--1021017 Score: 500
Period size: 79 Copynumber: 5.2 Consensus size: 79
1020599 AAGTTTAATA
* * * *
1020609 TTTTGGAGATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTGGAGTATCTCTGATT
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATT
1020674 GTGAAAAATCGATG
66 GTGAAAAATCGATG
* ** * * * *
1020688 TTTTGGACATAAAATTGGGGTTTGAGTATCCCTTCGAAAATAATGGGGTTAGAGTATCCCCCAAT
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTAT-CCCCGAT
*
1020753 TGTGAAAAATTGATG
65 TGTGAAAAATCGATG
* * *
1020768 TTTTGGAAATAAAACCGGGGTTAGAGTATCTCTTCGAAAATAATGGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATT
1020833 GTGAAAAATCAGTAT-
66 GTGAAAAATC-G-ATG
* * * *
1020848 TTTT-GAAATAAAA-CGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCTCTGATT
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* *
1020911 GTAAAAAATCAATG
66 GTGAAAAATCGATG
* ** * * * *
1020925 TTTTAGAAATAAGGCTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* *
1020990 ATGAAAAATCGATA
66 GTGAAAAATCGATG
1021004 TTTTGGAAATAAAA
1 TTTTGGAAATAAAA
1021018 ACATTGATGT
Statistics
Matches: 281, Mismatches: 43, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
76 2 0.01
77 4 0.01
78 59 0.21
79 140 0.50
80 74 0.26
81 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (79 bp):
TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATT
GTGAAAAATCGATG
Found at i:1020973 original size:157 final size:158
Alignment explanation
Indices: 1020617--1021017 Score: 484
Period size: 157 Copynumber: 2.5 Consensus size: 158
1020607 TATTTTGGAG
* * * *
1020617 ATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTGGAGTATCTCTGATTGTGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * * * * *
1020682 TCG-ATGTTTTGGACATAAAATTGGGGTTTGAGTATCCCTTCGAAAATAATGGGGTTAGAGTATC
66 TCGTAT-TTTT-GAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATC
* ** *
1020746 CCCCAATTGTGAAAAATTGATGTTTTGGAA
129 CCCCAATTGTAAAAAATCAATGTTTTAGAA
* * * *
1020776 ATAAAACCGGGGTTAGAGTATCTCTTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
1020841 TCAGTATTTTTGAAATAAAA-CGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT-C
66 TC-GTATTTTTGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCC
* **
1020904 TCTGATTGTAAAAAATCAATGTTTTAGAA
130 CCCAATTGTAAAAAATCAATGTTTTAGAA
** * * * *
1020933 ATAAGGCTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
1020998 TCGATATTTTGGAAATAAAA
66 TCG-TATTTTTGAAATAAAA
1021018 ACATTGATGT
Statistics
Matches: 208, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
156 1 0.00
157 95 0.46
158 36 0.17
159 69 0.33
160 5 0.02
161 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (158 bp):
ATAAAACCGAGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
TCGTATTTTTGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCC
CCAATTGTAAAAAATCAATGTTTTAGAA
Found at i:1023490 original size:50 final size:51
Alignment explanation
Indices: 1023385--1023499 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 51
1023375 CACATTTCTC
* *
1023385 AATGTATCGATACATCTGGGTAAAAATCCAGAATGTATCGATACAATGAAA
1 AATGTATCGATACATCTGGGTAAAAACCCAAAATGTATCGATACAATGAAA
* *
1023436 AATGTATCGATACATTTGGGT-AAAACCCAAAATGTATCGATACAATGAAG
1 AATGTATCGATACATCTGGGTAAAAACCCAAAATGTATCGATACAATGAAA
*
1023486 AATGTATCAATACA
1 AATGTATCGATACA
1023500 AATTGTGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 39 0.66
51 20 0.34
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (51 bp):
AATGTATCGATACATCTGGGTAAAAACCCAAAATGTATCGATACAATGAAA
Found at i:1024240 original size:41 final size:41
Alignment explanation
Indices: 1024194--1024275 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
1024184 AATTAAGCGT
* *
1024194 GTCCTACTCTTTGAAGATAAAGGGAAAAGGAAATAAAGTGC
1 GTCCTACTCTTTGAAGACAAAAGGAAAAGGAAATAAAGTGC
*
1024235 GTCCTACTCTTTGAGGACAAAAGGAAAAGGAAATAAAGTGC
1 GTCCTACTCTTTGAAGACAAAAGGAAAAGGAAATAAAGTGC
1024276 ATCTTGCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (41 bp):
GTCCTACTCTTTGAAGACAAAAGGAAAAGGAAATAAAGTGC
Found at i:1024393 original size:61 final size:61
Alignment explanation
Indices: 1024275--1024842 Score: 684
Period size: 61 Copynumber: 9.4 Consensus size: 61
1024265 AAATAAAGTG
* * * * * *
1024275 CATCTTGCTCTCTGGGGACT-AGAAGATGCCACCAAC-T-TATGGGCTTTGAAAGGAAAAGA
1 CATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
* * * *
1024334 CATCTTGCTCTTTGAGGATTGAAAGGTGCCCCCAACTTGTGTGGGCTTTAAAAGGAAAAGG
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
** * * * *
1024395 TGTCTTGCTCTTCGAGGACTGAAATGTGCCAACAACTTGTGTGGG-TTTAAAAGGAAAAGA
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
* * *
1024455 CATCCTGCTCTTTGAGGACTGAAATGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGG
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
** ** *
1024516 TGT-CTAGCTCTTCAAGGACTGAAAGGTGCCACCAACTTGTGTAGGG-GTTAAAAGGAAAAG-
1 CATCCT-GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGGCTTTAAAAGGAAAAGA
* *
1024576 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGCT-GGTTTTAAAAGGAAAAAA
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG-TGGGCTTTAAAAGGAAAAGA
* * * *
1024637 CATCCTACTCTTCGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
*
1024698 CATCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
** * * * *
1024759 TGTCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGG
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
** *
1024820 TGTCCTGCTCATTGAGGACTGAA
1 CATCCTGCTCTTTGAGGACTGAA
1024843 GGATAAAAGG
Statistics
Matches: 442, Mismatches: 56, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
59 31 0.07
60 104 0.24
61 304 0.69
62 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (61 bp):
CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
Found at i:1024490 original size:121 final size:121
Alignment explanation
Indices: 1024301--1024842 Score: 734
Period size: 121 Copynumber: 4.5 Consensus size: 121
1024291 GACTAGAAGA
* * * * * *
1024301 TGCCACCAACTTATG-GGCTTTGAAAGGAAAAGACATCTTGCTCTTTGAGGATTGAAAGGTGCCC
1 TGCCACCAACTTGTGTGGGTTTAAAAGGAAAAGACATCCTGCTCTTTGAGGACTGAAAGGTGCCA
* * * *
1024365 CCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGCTCTTCGAGGACTGAAATG
66 CCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTGCTCTTCGAAGACTGAAAGG
* *
1024421 TGCCAACAACTTGTGTGGGTTTAAAAGGAAAAGACATCCTGCTCTTTGAGGACTGAAATGTGCCA
1 TGCCACCAACTTGTGTGGGTTTAAAAGGAAAAGACATCCTGCTCTTTGAGGACTGAAAGGTGCCA
* *
1024486 CCAACTTATGTGGGCTTTAAAAGGAAAAGGTGT-CTAGCTCTTC-AAGGACTGAAAGG
66 CCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCT-GCTCTTCGAA-GACTGAAAGG
*
1024542 TGCCACCAACTTGTGTAGGGGTTAAAAGGAAAAG-CATCCTGCTCTTTGAGGACTGAAAGGTGCC
1 TGCCACCAACTTGTGT-GGGTTTAAAAGGAAAAGACATCCTGCTCTTTGAGGACTGAAAGGTGCC
* * ** *
1024606 ACCAACTTGTGCT-GGTTTTAAAAGGAAAAAACATCCTACTCTTCGAAGACTGAAAGG
65 ACCAACTTGTG-TGGGCTTTAAAAGGAAAAGATGTCCTGCTCTTCGAAGACTGAAAGG
* *
1024663 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTGAAAGGTGCC
1 TGCCACCAACTTGTGTGGG-TTTAAAAGGAAAAGACATCCTGCTCTTTGAGGACTGAAAGGTGCC
* *
1024728 ACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTGCTCTTTGAAGACTGAAAAG
65 ACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTGCTCTTCGAAGACTGAAAGG
* *** *
1024785 TGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCATTGAGGACTGAA
1 TGCCACCAACTTGTGTGGG-TTTAAAAGGAAAAGACATCCTGCTCTTTGAGGACTGAA
1024843 GGATAAAAGG
Statistics
Matches: 376, Mismatches: 36, Indels: 18
0.87 0.08 0.04
Matches are distributed among these distances:
120 18 0.05
121 207 0.55
122 151 0.40
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (121 bp):
TGCCACCAACTTGTGTGGGTTTAAAAGGAAAAGACATCCTGCTCTTTGAGGACTGAAAGGTGCCA
CCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTGCTCTTCGAAGACTGAAAGG
Found at i:1024514 original size:182 final size:182
Alignment explanation
Indices: 1024275--1024842 Score: 750
Period size: 182 Copynumber: 3.1 Consensus size: 182
1024265 AAATAAAGTG
* * * * * *
1024275 CATCTTGCTCTCTGGGGACT-AGAAGATGCCACCAACTTA--TGGGCTTTGAAAGGAAAAGACAT
1 CATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCAT
* * *
1024337 CTTGCTCTTTGAGGATTGAAAGGTGCCCCCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTG
65 CTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTG
* * *
1024402 CTCTTCGAGGACTGAAATGTGCCAACAACTTGTGTGGGTTTAAAAGGAAAAGA
130 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGTTTAAAAGGAAAAGA
* **
1024455 CATCCTGCTCTTTGAGGACTGAAATGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGTGTC
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATC
* ** * **
1024520 TAGCTCTTCAAGGACTGAAAGGTGCCACCAACTTGTGTAGGG-GTTAAAAGGAAAA-GCATCCTG
66 TTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGGCTTTAAAAGGAAAAGGTGTCCTG
* * *
1024583 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGCTGGTTTTAAAAGGAAAAAA
130 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTG-TGGGTTTAAAAGGAAAAGA
* * * *
1024637 CATCCTACTCTTCGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
1 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATC
*
1024702 TTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTGC
66 TTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGC
* * *
1024767 TCTTTGAAGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGG
131 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGG-TTTAAAAGGAAAAGA
** *
1024820 TGTCCTGCTCATTGAGGACTGAA
1 CATCCTGCTCTTTGAGGACTGAA
1024843 GGATAAAAGG
Statistics
Matches: 331, Mismatches: 49, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
180 32 0.10
181 40 0.12
182 190 0.57
183 69 0.21
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (182 bp):
CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATC
TTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGC
TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGTTTAAAAGGAAAAGA
Found at i:1037579 original size:54 final size:54
Alignment explanation
Indices: 1037522--1037625 Score: 176
Period size: 54 Copynumber: 1.9 Consensus size: 54
1037512 AGGGATTACA
1037522 AAAAAGGG-GAGAAGTATGAATTTTTTAAAG-GGAGAAAATTTGTTAAGGGGTAC
1 AAAAAGGGAGAGAAGTATGAATTTTTTAAAGAGG-GAAAATTTGTTAAGGGGTAC
*
1037575 AAAAAGGGAGAGAAGTATGAATTTTTTAAAGAGGGACAATTTGTTAAGGGG
1 AAAAAGGGAGAGAAGTATGAATTTTTTAAAGAGGGAAAATTTGTTAAGGGG
1037626 AGAAAAATCT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
53 8 0.17
54 38 0.79
55 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.31, T:0.26
Consensus pattern (54 bp):
AAAAAGGGAGAGAAGTATGAATTTTTTAAAGAGGGAAAATTTGTTAAGGGGTAC
Found at i:1039309 original size:34 final size:33
Alignment explanation
Indices: 1039164--1039671 Score: 260
Period size: 34 Copynumber: 15.8 Consensus size: 33
1039154 CTTTTTCCAA
* *
1039164 AAGCCCACGACTCCGTGGCACCTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-T
* ***
1039198 AAGCTCACAACTTAATGGCACCCTTTTTC-TTTT
1 AAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTT
* ** *
1039231 AAGTCCACAACTCTATAGCACC-----C-TTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
1039258 AAGTCGATAACTTCGTGGCACCTTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1039291 ATAGCCCACAACTCCGTGGCACCCTTTTTCCTTTT
1 A-AGCCCACAACTCCGTGGCA-CCTTTTTCTTTTT
* * *
1039326 AAGCCCACAACTACGTGGCACTTTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT-T
* *
1039361 AAGCCCACAACTCTGTGGCACCCTTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-CC-TTTTTCTTTTT
* * *
1039396 AAGTCCATAACTCTGTGGCACC-----C-TTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
1039423 AAGTCCATAACTCCGTAGCACCTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-T
* * *
1039457 AAGCCCATAACTTCGTGACGC-CCTTTTTCCTTTT
1 AAGCCCACAACTCCGTG--GCACCTTTTTCTTTTT
* * *
1039491 AAGCCCATAACTTCGTGG-AAC-----CTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * ** **
1039518 AAGTCTACAACTCTATGGCACCTTTTTCTTTCCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTT-TT
*
1039552 AAGCCCACAACTTCGTGGCACCTTTTT-TTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1039584 AAGTCTACAACTCCGTGGCACC-----C-TTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * * *
1039611 AAGTCCACAACTCCATAGCACTTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-T
* * *
1039645 AAGCCCATAACTCGGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTT
1039672 AAGTCCATAA
Statistics
Matches: 362, Mismatches: 74, Indels: 76
0.71 0.14 0.15
Matches are distributed among these distances:
27 84 0.23
28 3 0.01
32 26 0.07
33 34 0.09
34 135 0.37
35 68 0.19
36 12 0.03
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:1039373 original size:69 final size:68
Alignment explanation
Indices: 1039252--1039610 Score: 237
Period size: 61 Copynumber: 5.5 Consensus size: 68
1039242 TCTATAGCAC
* * *
1039252 CCTTTTAAGTCGATAACTTCGTGGCACCTTTTTCTTTTTATAGCCCACAACTCCGTGGCACCC-T
1 CCTTTTAAGTCCATAAC-TCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTT
1039316 TTTT
65 TTTT
* * * *
1039320 CCTTTTAAGCCCACAACTACGTGGCACTTTTTTTCTTTTCAAAGCCCACAACTCTGTGGCACCCT
1 CCTTTTAAGTCCATAACT-CGTGGCAC-CTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCT
1039385 TTTTT
64 TTTTT
* * *
1039390 CCTTTTAAGTCCATAACTCTGTGGCACC-----CTTTT--AAGTCCATAACTCCGTAGCA-CC-T
1 CCTTTTAAGTCCATAACTC-GTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTT
1039446 TTTT
65 TTTT
* * *
1039450 -CTTTTCAAAGCCCATAACTTCGTGACGC-CCTTTTTCCTTTT--AAGCCCATAACTTCGTGG-A
1 CCTTTT--AAGTCCATAAC-TCGTG--GCACCTTTTT-CTTTTCAAAGCCCACAACTCCGTGGCA
*
1039510 ACC-----T
60 CCCTTTTTT
* * * * *
1039514 --TTTTAAGTCTACAACTCTATGGCACCTTTTTCTTTCCAAAGCCCACAACTTCGTGGCA-CCTT
1 CCTTTTAAGTCCATAACTC-GTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTT
1039576 TTTT
65 TTTT
* * *
1039580 --TTTTAAGTCTACAACTCCGTGGCACCCTTTT
1 CCTTTTAAGTCCATAACT-CGTGGCACCTTTTT
1039611 AAGTCCACAA
Statistics
Matches: 238, Mismatches: 26, Indels: 56
0.74 0.08 0.17
Matches are distributed among these distances:
59 11 0.05
60 14 0.06
61 44 0.18
62 21 0.09
63 6 0.03
64 6 0.03
66 28 0.12
67 3 0.01
68 44 0.18
69 33 0.14
70 28 0.12
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (68 bp):
CCTTTTAAGTCCATAACTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTT
TTT
Found at i:1039428 original size:27 final size:27
Alignment explanation
Indices: 1039390--1039449 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
1039380 ACCCTTTTTT
* *
1039390 CCTTTTAAGTCCATAACTCTGTGGCAC
1 CCTTTTAAGTCCATAACTCCGTAGCAC
1039417 CCTTTTAAGTCCATAACTCCGTAGCAC
1 CCTTTTAAGTCCATAACTCCGTAGCAC
*
1039444 CTTTTT
1 CCTTTT
1039450 CTTTTCAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.37
Consensus pattern (27 bp):
CCTTTTAAGTCCATAACTCCGTAGCAC
Found at i:1039448 original size:165 final size:162
Alignment explanation
Indices: 1039164--1039517 Score: 476
Period size: 165 Copynumber: 2.2 Consensus size: 162
1039154 CTTTTTCCAA
* * * *
1039164 AAGCCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGCTCACAACTTAATGGCACCCTTTTTCTT
1 AAGCCCACAACTACGTGGCACTTTTTTCTTTTCAAAGCCCACAACTTAATGGCACCCTTTTTCTT
* * * * *
1039229 TTAAGTCCACAACTCTATAGCACCCTTTTAAGTCGATAACTTCGTGGCACCTTTTTCTTTTTATA
66 TTAAGTCCACAACTCTATAGCACCCTTTTAAGTCCATAACTCCGTAGCACCTTTTTCTTTTCAAA
*
1039294 GCCCACAACTCCGTGGCACCCTTTTTCCTTTT
131 GCCCACAACTCCGTGACACCCTTTTTCCTTTT
*
1039326 AAGCCCACAACTACGTGGCACTTTTTTTCTTTTCAAAGCCCACAACTCT-GTGGCACCCTTTTTT
1 AAGCCCACAACTACGTGGCAC-TTTTTTCTTTTCAAAGCCCACAACT-TAATGGCACCC-TTTTT
* * *
1039390 CCTTTTAAGTCCATAACTCTGTGGCACCCTTTTAAGTCCATAACTCCGTAGCACCTTTTTCTTTT
63 -CTTTTAAGTCCACAACTCTATAGCACCCTTTTAAGTCCATAACTCCGTAGCACCTTTTTCTTTT
* * *
1039455 CAAAGCCCATAACTTCGTGACGCCCTTTTTCCTTTT
127 CAAAGCCCACAACTCCGTGACACCCTTTTTCCTTTT
* * * *
1039491 AAGCCCATAACTTCGTGGAACCTTTTT
1 AAGCCCACAACTACGTGGCACTTTTTT
1039518 AAGTCTACAA
Statistics
Matches: 167, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
162 19 0.11
163 31 0.19
164 11 0.07
165 106 0.63
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (162 bp):
AAGCCCACAACTACGTGGCACTTTTTTCTTTTCAAAGCCCACAACTTAATGGCACCCTTTTTCTT
TTAAGTCCACAACTCTATAGCACCCTTTTAAGTCCATAACTCCGTAGCACCTTTTTCTTTTCAAA
GCCCACAACTCCGTGACACCCTTTTTCCTTTT
Found at i:1039518 original size:95 final size:94
Alignment explanation
Indices: 1039320--1039739 Score: 407
Period size: 95 Copynumber: 4.5 Consensus size: 94
1039310 CACCCTTTTT
* * * * * *
1039320 CCTTTTAAGCCCACAACTACGTGGCACTTTTTTTCTTTTCAAAGCCCACAAC-TCTGTGGCACCC
1 CCTTTTAAGTCCACAACTCCATAGCAC-CTTTTTCTTTTCAAAGCCCACAACTTC-GT-GCGCCC
1039384 TTTTTTCCTTTTAAGTCCATAAC-TCTGTGGCAC
63 -TTTTTCCTTTTAAGTCCATAACTTC-GTGGCAC
* * *
1039417 CCTTTTAAGTCCATAACTCCGTAGCACCTTTTTCTTTTCAAAGCCCATAACTTCGTGACGCCCTT
1 CCTTTTAAGTCCACAACTCCATAGCACCTTTTTCTTTTCAAAGCCCACAACTTCGTG-CGCCCTT
* *
1039482 TTTCCTTTTAAGCCCATAACTTCGTGGAAC
65 TTTCCTTTTAAGTCCATAACTTCGTGGCAC
* * * * *
1039512 CTTTTTAAGTCTACAACTCTATGGCACCTTTTTCTTTCCAAAGCCCACAACTTCGTG-GCACCTT
1 CCTTTTAAGTCCACAACTCCATAGCACCTTTTTCTTTTCAAAGCCCACAACTTCGTGCGC-CCTT
* * * *
1039576 TTT-TTTTTAAGTCTACAACTCCGTGGCAC
65 TTTCCTTTTAAGTCCATAACTTCGTGGCAC
* * *
1039605 CCTTTTAAGTCCACAACTCCATAGCACTTTTTTCTTTTCAAAGCCCATAAC-TCGGTG-GCAC--
1 CCTTTTAAGTCCACAACTCCATAGCACCTTTTTCTTTTCAAAGCCCACAACTTC-GTGCGCCCTT
*
1039666 ---CCTTTTAAGTCCATAAC-TCTGTCGCAC
65 TTTCCTTTTAAGTCCATAACTTC-GTGGCAC
* * * *
1039693 CCTTTTAAGTCTACAACTTCGTCA-CACCATTTTCTTTTCAAAGCCCA
1 CCTTTTAAGTCCACAACTCCAT-AGCACCTTTTTCTTTTCAAAGCCCA
1039740 TACAAGTTGG
Statistics
Matches: 274, Mismatches: 41, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
87 1 0.00
88 59 0.22
89 1 0.00
92 3 0.01
93 71 0.26
94 7 0.03
95 77 0.28
96 30 0.11
97 25 0.09
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (94 bp):
CCTTTTAAGTCCACAACTCCATAGCACCTTTTTCTTTTCAAAGCCCACAACTTCGTGCGCCCTTT
TTCCTTTTAAGTCCATAACTTCGTGGCAC
Found at i:1039620 original size:27 final size:27
Alignment explanation
Indices: 1039580--1039710 Score: 100
Period size: 27 Copynumber: 4.6 Consensus size: 27
1039570 CACCTTTTTT
*
1039580 TTTTAAGTCTACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
1039607 TTTTAAGTCCACAACTCCATAGCACTTTTTTC
1 TTTTAAGTCCACAACTCCGTGGCAC-----CC
* * *
1039639 TTTTCAAAGCCCATAACTCGGTGGCACCC
1 TTTT--AAGTCCACAACTCCGTGGCACCC
* * *
1039668 TTTTAAGTCCATAACTCTGTCGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1039695 TTTTAAGTCTACAACT
1 TTTTAAGTCCACAACT
1039711 TCGTCACACC
Statistics
Matches: 82, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
27 56 0.68
29 5 0.06
32 5 0.06
34 16 0.20
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:1039720 original size:27 final size:27
Alignment explanation
Indices: 1039663--1039725 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
1039653 AACTCGGTGG
* *
1039663 CACCCTTTTAAGTCCATAACTCTGTCG
1 CACCCTTTTAAGTCCACAACTCTGTCA
*
1039690 CACCCTTTTAAGTCTACAACT-TCGTCA
1 CACCCTTTTAAGTCCACAACTCT-GTCA
*
1039717 CACCATTTT
1 CACCCTTTT
1039726 CTTTTCAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.24, C:0.33, G:0.08, T:0.35
Consensus pattern (27 bp):
CACCCTTTTAAGTCCACAACTCTGTCA
Found at i:1039806 original size:32 final size:31
Alignment explanation
Indices: 1039728--1039988 Score: 166
Period size: 32 Copynumber: 8.2 Consensus size: 31
1039718 ACCATTTTCT
* * * * *
1039728 TTTC-AAAGCCCATACAAGTTGGTGGCACCC
1 TTTCTAAAGCCCACACAAGTCGATGGAAACC
*
1039758 TTCCTAAAGCCCACACAAGTCGATGGTAAACC
1 TTTCTAAAGCCCACACAAGTCGATGG-AAACC
* * *
1039790 TTTCCAAAGCCTACACAAGTCGTTGGAAACC
1 TTTCTAAAGCCCACACAAGTCGATGGAAACC
* * * * * * *
1039821 CTTCCAAAGCCCATACAAATTGGTGGCAACGC
1 TTTCTAAAGCCCACACAAGTCGATGGAAAC-C
* * * *
1039853 -TTCTTAAAGCCTATATAAGTCGATGGCAACCC
1 TTTC-TAAAGCCCACACAAGTCGATGG-AAACC
* * * *
1039885 TTCTCTAAAGCCTACACAAGTTGGTGGCAACC
1 TT-TCTAAAGCCCACACAAGTCGATGGAAACC
* * *
1039917 CTTCTTAAAGCCCACATAAGTCGATGGCAACCC
1 TTTC-TAAAGCCCACACAAGTCGATGG-AAACC
* * *
1039950 TTCTCTAAAGCCCACACAAGTCGGTGGCAACT
1 TT-TCTAAAGCCCACACAAGTCGATGGAAACC
1039982 TTTCTAA
1 TTTCTAA
1039989 GCCTAATGTC
Statistics
Matches: 177, Mismatches: 44, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
30 3 0.02
31 56 0.32
32 69 0.39
33 45 0.25
34 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (31 bp):
TTTCTAAAGCCCACACAAGTCGATGGAAACC
Found at i:1039921 original size:65 final size:64
Alignment explanation
Indices: 1039732--1039980 Score: 270
Period size: 65 Copynumber: 3.9 Consensus size: 64
1039722 TTTTCTTTTC
* * * * * * *
1039732 AAAGCCCATACAAGTTGGTGGC-ACCCTTCCTAAAGCCCACACAAGTCGATGGTAAACCTT-TCC
1 AAAGCCCACACAAGTCGATGGCAACCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT-T
* * * * * * *
1039795 AAAGCCTACACAAGTCGTTGGAAACCCTTCC-AAAGCCCATACAAATTGGTGGCAACGCTTCTT
1 AAAGCCCACACAAGTCGATGGCAACCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
* * * * *
1039858 AAAGCCTATATAAGTCGATGGCAACCCTTCTCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTT
1 AAAGCCCACACAAGTCGATGGCAACCCTTC-CTAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
*
1039923 AAAGCCCACATAAGTCGATGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 AAAGCCCACACAAGTCGATGGCAACCCTTC-CTAAAGCCCACACAAGTCGGTGGCAAC
1039981 TTTTCTAAGC
Statistics
Matches: 157, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
63 65 0.41
64 10 0.06
65 82 0.52
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (64 bp):
AAAGCCCACACAAGTCGATGGCAACCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
Found at i:1040105 original size:52 final size:51
Alignment explanation
Indices: 1039997--1040544 Score: 410
Period size: 52 Copynumber: 10.6 Consensus size: 51
1039987 AAGCCTAATG
* * *
1039997 TCGCTGGCCTTGAATCAGCACATTGGCACC-TTCTCTC-TTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTATCTTTAAGTCCAATA
* *
1040046 TCGCTGGCCTTTAATCAGCATATTGGCGCCTTTATTATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TTATCTTTAAGTCCAATA
* * * * * *
1040098 TCACTGGCCTTAAATCAGCATATTAGCGCCTTTATCATCTTTAAGTCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TTATCTTTAAGTCCAATA
* * * * * * * * *
1040150 TCACTGGCTTTTAATTAGCACATTGGCATCTTTTTCTTTCTTAAGTCTAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTATCT-TTAAGTCCAATA
* *
1040202 TCGCTGGCCTTGAATCAGCATA-TGGCACCTTTGTCATCTTTAAGTCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TTATCTTTAAGTCCAATA
* * * * *
1040253 TCGCTAGCCTTGAATCGGCACATT-GCACCTTTTTCTTTCTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTATCT-TTAAGTCCAATA
* * * * **
1040304 TCGTTGGCCTTAAATCAGCATATTAGCA-CTTTTATCATCTTTAATTCTGATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTT-T-ATCTTTAAGTCCAATA
* * * * * * * *
1040356 TCACTGGCTTTGAGTTAACATATTGGCA--TTTTTAACATTCCTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTATC-TT--TAAGTCCAATA
* * * * * * * *
1040408 TCGCTGGCCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTTATCTTTAAGTCCAATA
* * * * * *
1040460 TCGTTGG-CTGTGAATCAGCACATTGGCATTCTTTGTATCTTTAAGCCCAACA
1 TCGCTGGCCT-TGAATCAGCATATTGGCA-CCTTTTTATCTTTAAGTCCAATA
* *
1040512 TCGCTGGCCTTGAATCAGTATATTGGCATCTTT
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1040545 ATCATTCTTC
Statistics
Matches: 393, Mismatches: 88, Indels: 34
0.76 0.17 0.07
Matches are distributed among these distances:
49 29 0.07
50 8 0.02
51 98 0.25
52 247 0.63
53 4 0.01
54 2 0.01
55 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (51 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTATCTTTAAGTCCAATA
Found at i:1040194 original size:104 final size:104
Alignment explanation
Indices: 1039997--1040549 Score: 505
Period size: 104 Copynumber: 5.4 Consensus size: 104
1039987 AAGCCTAATG
* * *
1039997 TCGCTGGCCTTGAATCAGCACATTGGCACC-TTCTC-TC-TTAAGTCCAATATCGCTGGCCTTT-
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGG-CTTTG
* ** * *
1040058 AATCAGCATATTGGCGCCTTTAT-TATCTTTAAGTCCAATA
65 AATCAGCACATTGGCATCTTTTTCTTTC-TTAAGTCCAATA
* * * * * *
1040098 TCACTGGCCTTAAATCAGCATATTAGCGCCTTTATCATCTTTAAGTCCAATGTCACTGGCTTTTA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCTTTGA
* *
1040163 ATTAGCACATTGGCATCTTTTTCTTTCTTAAGTCTAATA
66 ATCAGCACATTGGCATCTTTTTCTTTCTTAAGTCCAATA
* * *
1040202 TCGCTGGCCTTGAATCAGCATA-TGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTAGCCTTGA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCTTTGA
* *
1040266 ATCGGCACATT-GCACCTTTTTCTTTCTTAAGTCCAATA
66 ATCAGCACATTGGCATCTTTTTCTTTCTTAAGTCCAATA
* * * * * ** * *
1040304 TCGTTGGCCTTAAATCAGCATATTAGCACTTTTATCATCTTTAATTCTGATATCACTGGCTTTGA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCTTTGA
* * * * * * * * *
1040369 GTTAACATATTGGCAT-TTTTAACATTCCTAAGCCCAATG
66 ATCAGCACATTGGCATCTTTT-TCTTTCTTAAGTCCAATA
* * * * * * * *
1040408 TCGCTGGCCTTGAATTAGCACATTGGCA-TTCTTCTCATCTTCAAGTCTAATGTCGTTGGCTGTG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCT-TTATCATCTTTAAGTCCAATGTCGCTGGCTTTG
* * * * *
1040472 AATCAGCACATTGGCAT-TCTTTGTATCTTTAAGCCCAACA
65 AATCAGCACATTGGCATCTTTTTCTTTC-TTAAGTCCAATA
* *
1040512 TCGCTGGCCTTGAATCAGTATATTGGCATCTTTATCAT
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
1040550 TCTTCTTATC
Statistics
Matches: 360, Mismatches: 81, Indels: 19
0.78 0.18 0.04
Matches are distributed among these distances:
101 25 0.07
102 49 0.14
103 96 0.27
104 186 0.52
105 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (104 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCTTTGA
ATCAGCACATTGGCATCTTTTTCTTTCTTAAGTCCAATA
Found at i:1040585 original size:61 final size:61
Alignment explanation
Indices: 1040486--1040616 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
1040476 AGCACATTGG
* * * * *
1040486 CATTCTTTGTATCTTTAAGCCCAACATCGCTGGCCTTGAATCAGTATATTGGCATCTTTAT
1 CATTCTTTGTATCTTCAAGCCCAACATCGCTAGCCTTGAATCAGCATATTGCCACCTTTAT
* * * * *
1040547 CATTCTTCT-TATCTTCAAGCCCAATATTGCTAGTCTTGAATTAGCATATTGCCACCTTTGT
1 CATTCTT-TGTATCTTCAAGCCCAACATCGCTAGCCTTGAATCAGCATATTGCCACCTTTAT
1040608 CATTCTTTG
1 CATTCTTTG
1040617 CATCCTTAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
60 1 0.02
61 56 0.97
62 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (61 bp):
CATTCTTTGTATCTTCAAGCCCAACATCGCTAGCCTTGAATCAGCATATTGCCACCTTTAT
Found at i:1040632 original size:61 final size:61
Alignment explanation
Indices: 1040486--1040632 Score: 154
Period size: 61 Copynumber: 2.4 Consensus size: 61
1040476 AGCACATTGG
* * * * * *
1040486 CATTCTTTGTATCTTTAAGCCCAACATCGCTGGCCTTGAATCAGTATATTGGCATCTTTAT
1 CATTCTTTGTATCCTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGCCACCTTTAT
* * * *
1040547 CATTCTTCT-TAT-CTTCAAGCCCAATATTGCTAGTCTTGAATTAGCATATTGCCACCTTTGT
1 CATTCTT-TGTATCCTT-AAGCCCAATATCGCTAGCCTTGAATCAGCATATTGCCACCTTTAT
* *
1040608 CATTCTTTGCATCCTTAAGTCCAAT
1 CATTCTTTGTATCCTTAAGCCCAAT
1040633 GTCATTTACC
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
60 3 0.04
61 63 0.90
62 4 0.06
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.40
Consensus pattern (61 bp):
CATTCTTTGTATCCTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGCCACCTTTAT
Found at i:1040778 original size:52 final size:52
Alignment explanation
Indices: 1040644--1041096 Score: 280
Period size: 52 Copynumber: 8.4 Consensus size: 52
1040634 TCATTTACCT
** * *
1040644 TGAATCAATACATTGGCATTCTTCTCATCTTCGAGTCTAATGTCTCTGGCCG
1 TGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCCG
** * * *
1040696 TGAATCAATACATTGGCATTCTTCACATCTTCAAGTCTAATTTTGCTGGCCG
1 TGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCCG
* * * ** *
1040748 TGAATCAGCACATTGGCATTCTTCGT-ATCTTTAAGCCCAACATCGCTGGCCT
1 TGAATCAGCACATTGGCATTCTTC-TCATCTTCAAGTCTAATGTCGCTGGCCG
* * * * * ** * *
1040800 TGAATTAGCATATTAGCATCTTTATCATTCTTATCATCTTTAAGCCCGATATCGTTGGCCG
1 TGAATCAGCACATTGGCA----T-TC-TTC---TCATCTTCAAGTCTAATGTCGCTGGCCG
* * * * * ** *
1040861 TGAATCAGCATATTGCCACCGTTATCATTCTTTACATCTTTAAGTCCAATGTTGCTTACCT
1 TGAATCAGCACATTGGCA----T-TC-TTC--T-CATCTTCAAGTCTAATGTCGCTGGCCG
* * ** *
1040922 TGAATCAGTACATTGGCATTCTTCTTATCTTCAAGTCTAATGTCATTGGCCA
1 TGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCCG
* *
1040974 TGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTAGTCG
1 TGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCCG
* * * * ** *
1041026 TGAATCAACACATTGGCATTCTTCGCATCATT-AAGCCCAACATCGCTGGCCT
1 TGAATCAGCACATTGGCATTCTTCTCATC-TTCAAGTCTAATGTCGCTGGCCG
* *
1041078 TGAATTAGCATATTGGCAT
1 TGAATCAGCACATTGGCAT
1041097 CTTTATCATT
Statistics
Matches: 321, Mismatches: 68, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
52 222 0.69
53 3 0.01
55 3 0.01
56 3 0.01
57 3 0.01
58 3 0.01
60 3 0.01
61 81 0.25
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
TGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCCG
Found at i:1040859 original size:61 final size:61
Alignment explanation
Indices: 1040774--1040909 Score: 168
Period size: 61 Copynumber: 2.2 Consensus size: 61
1040764 CATTCTTCGT
* * * *
1040774 ATCTTTAAGCCCAACATCGCTGGCCTTGAATTAGCATATTAG-CATCTTTATCATTC-TTATC
1 ATCTTTAAGCCCAACATCGCTGGCCGTGAATCAGCATATT-GCCACCGTTATCATTCTTTA-C
* * *
1040835 ATCTTTAAGCCCGATATCGTTGGCCGTGAATCAGCATATTGCCACCGTTATCATTCTTTAC
1 ATCTTTAAGCCCAACATCGCTGGCCGTGAATCAGCATATTGCCACCGTTATCATTCTTTAC
*
1040896 ATCTTTAAGTCCAA
1 ATCTTTAAGCCCAA
1040910 TGTTGCTTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
60 1 0.02
61 60 0.94
62 3 0.05
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (61 bp):
ATCTTTAAGCCCAACATCGCTGGCCGTGAATCAGCATATTGCCACCGTTATCATTCTTTAC
Found at i:1040874 original size:278 final size:278
Alignment explanation
Indices: 1040404--1041232 Score: 1210
Period size: 278 Copynumber: 3.0 Consensus size: 278
1040394 TCCTAAGCCC
* * * * *
1040404 AATGTCGCTGGCCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGTTGGCT
1 AATGTCTCTGGCCATGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCC
* * *
1040469 GTGAATCAGCACATTGGCATTCTTTGTATCTTTAAGCCCAACATCGCTGGCCTTGAATCAGTATA
66 GTGAATCAGCACATTGGCATTCTTCGTATCTTTAAGCCCAACATCGCTGGCCTTGAATTAGCATA
* * * *
1040534 TTGGCATCTTTATCATTCTTCTTATCTTCAAGCCCAATATTGCTAGTCTTGAATTAGCATATTGC
131 TTGGCATCTTTATCATTCTTCTCATCTTCAAGCCCAATATCGCTGGTCGTGAATTAGCATATTGC
* * ** *
1040599 CACCTTTGTCATTCTTTGCATCCTTAAGTCCAATGTCATTTACCTTGAATCAATACATTGGCATT
196 CACCTTTATCATTCTTTGCATCTTTAAGTCCAATGTCGCTTACCTTGAATCAGTACATTGGCATT
*
1040664 CTTCTCATCTTCGAGTCT
261 CTTCTCATCTTCAAGTCT
* ** * * *
1040682 AATGTCTCTGGCCGTGAATCAATACATTGGCATTCTTCACATCTTCAAGTCTAATTTTGCTGGCC
1 AATGTCTCTGGCCATGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCC
1040747 GTGAATCAGCACATTGGCATTCTTCGTATCTTTAAGCCCAACATCGCTGGCCTTGAATTAGCATA
66 GTGAATCAGCACATTGGCATTCTTCGTATCTTTAAGCCCAACATCGCTGGCCTTGAATTAGCATA
* * * * * * *
1040812 TTAGCATCTTTATCATTCTTATCATCTTTAAGCCCGATATCGTTGGCCGTGAATCAGCATATTGC
131 TTGGCATCTTTATCATTCTTCTCATCTTCAAGCCCAATATCGCTGGTCGTGAATTAGCATATTGC
* * *
1040877 CACCGTTATCATTCTTTACATCTTTAAGTCCAATGTTGCTTACCTTGAATCAGTACATTGGCATT
196 CACCTTTATCATTCTTTGCATCTTTAAGTCCAATGTCGCTTACCTTGAATCAGTACATTGGCATT
*
1040942 CTTCTTATCTTCAAGTCT
261 CTTCTCATCTTCAAGTCT
* *
1040960 AATGTCAT-TGGCCATGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTAGT
1 AATGTC-TCTGGCCATGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGC
* * *
1041024 CGTGAATCAACACATTGGCATTCTTCGCATCATTAAGCCCAACATCGCTGGCCTTGAATTAGCAT
65 CGTGAATCAGCACATTGGCATTCTTCGTATCTTTAAGCCCAACATCGCTGGCCTTGAATTAGCAT
*
1041089 ATTGGCATCTTTATCATTCTTCTCATCTTCAAGCCCAATATCGCTGGTTGTGAATTAGCATATTG
130 ATTGGCATCTTTATCATTCTTCTCATCTTCAAGCCCAATATCGCTGGTCGTGAATTAGCATATTG
* * * * *
1041154 GCACCTTTATCATTTTTTGCATCTTTAAGTCTAATGTCGCTTACCTTGAATTAGTACATTGGCAC
195 CCACCTTTATCATTCTTTGCATCTTTAAGTCCAATGTCGCTTACCTTGAATCAGTACATTGGCAT
* *
1041219 TCTCCCCATCTTCA
260 TCTTCTCATCTTCA
1041233 TTATCTTTAA
Statistics
Matches: 486, Mismatches: 64, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
278 485 1.00
279 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (278 bp):
AATGTCTCTGGCCATGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGGCC
GTGAATCAGCACATTGGCATTCTTCGTATCTTTAAGCCCAACATCGCTGGCCTTGAATTAGCATA
TTGGCATCTTTATCATTCTTCTCATCTTCAAGCCCAATATCGCTGGTCGTGAATTAGCATATTGC
CACCTTTATCATTCTTTGCATCTTTAAGTCCAATGTCGCTTACCTTGAATCAGTACATTGGCATT
CTTCTCATCTTCAAGTCT
Found at i:1041143 original size:61 final size:61
Alignment explanation
Indices: 1041042--1041218 Score: 187
Period size: 61 Copynumber: 2.9 Consensus size: 61
1041032 AACACATTGG
*
1041042 CATTCTTCGCATCATTAAGCCCAACATCGCTGGCCTTGAATTAGCATATTGGCATCTTTAT
1 CATTCTTCGCATCATTAAGCCCAACATCGCTGGCCTTGAATTAGCATATTGGCACCTTTAT
* * *
1041103 CATTCTTCTCATC-TTCAAGCCCAATATCGCTGG-TTGTGAATTAGCATATTGGCACCTTTAT
1 CATTCTTCGCATCATT-AAGCCCAACATCGCTGGCCT-TGAATTAGCATATTGGCACCTTTAT
* * * * * ** ** * *
1041164 CATTTTTTGCATCTTTAAGTCTAATGTCGCTTACCTTGAATTAGTACATTGGCAC
1 CATTCTTCGCATCATTAAGCCCAACATCGCTGGCCTTGAATTAGCATATTGGCAC
1041219 TCTCCCCATC
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
60 3 0.03
61 91 0.94
62 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (61 bp):
CATTCTTCGCATCATTAAGCCCAACATCGCTGGCCTTGAATTAGCATATTGGCACCTTTAT
Found at i:1042589 original size:25 final size:25
Alignment explanation
Indices: 1042561--1042612 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1042551 TACTTTTATG
1042561 ATATCTCTAAATACTTGTGTTATTA
1 ATATCTCTAAATACTTGTGTTATTA
1042586 ATATCTCTAAATACTTGTGTTATTA
1 ATATCTCTAAATACTTGTGTTATTA
1042611 AT
1 AT
1042613 GTCTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.48
Consensus pattern (25 bp):
ATATCTCTAAATACTTGTGTTATTA
Found at i:1042926 original size:20 final size:20
Alignment explanation
Indices: 1042901--1042956 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
1042891 AATTTCCCAA
*
1042901 AATGTATCGATACATTGATT
1 AATGTATCGATACATCGATT
1042921 AATGTATCGATACATCGATT
1 AATGTATCGATACATCGATT
*
1042941 AATATATCGATACATC
1 AATGTATCGATACATC
1042957 TAGAAAACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATCGATT
Found at i:1043013 original size:33 final size:33
Alignment explanation
Indices: 1042970--1043034 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1042960 AAAACCCAGG
1042970 TGTATCGATACTGCATTCTTAGTATCGATACAC
1 TGTATCGATACTGCATTCTTAGTATCGATACAC
* * *
1043003 TGTATTGATACTGCATTCTTTGTATTGATACA
1 TGTATCGATACTGCATTCTTAGTATCGATACA
1043035 AGGGTACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACTGCATTCTTAGTATCGATACAC
Found at i:1045705 original size:20 final size:19
Alignment explanation
Indices: 1045682--1045732 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
1045672 CACACCTAGA
*
1045682 TGTATCGATACATATTGCTT
1 TGTATCGATACATATT-CAT
*
1045702 TGTATCGATACATGTTCAT
1 TGTATCGATACATATTCAT
*
1045721 TATATCGATACA
1 TGTATCGATACA
1045733 CACTAACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATATTCAT
Found at i:1045728 original size:19 final size:20
Alignment explanation
Indices: 1045684--1045732 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
1045674 CACCTAGATG
* *
1045684 TATCGATACATATTGCTTTG
1 TATCGATACATATTGCATTA
*
1045704 TATCGATACATGTT-CATTA
1 TATCGATACATATTGCATTA
1045723 TATCGATACA
1 TATCGATACA
1045733 CACTAACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (20 bp):
TATCGATACATATTGCATTA
Found at i:1045837 original size:20 final size:20
Alignment explanation
Indices: 1045792--1045846 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1045782 ATATCGATAC
*
1045792 AATGTATCGATACATGAAGG
1 AATGTATCGATACATGAAGA
* * *
1045812 ATTGTATTGATACATGATGA
1 AATGTATCGATACATGAAGA
1045832 AATGTATCGATACAT
1 AATGTATCGATACAT
1045847 TAAGCCCAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATGAAGA
Found at i:1047751 original size:2 final size:2
Alignment explanation
Indices: 1047744--1047784 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1047734 ATCTTTTCTT
1047744 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1047785 TGTGAAGCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1050920 original size:4 final size:4
Alignment explanation
Indices: 1050913--1050942 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1050903 GTTTATTTAT
*
1050913 ATCC ATCC ATTC ATCC ATCC ATCC ATCC AT
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC AT
1050943 TTATTTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.43, G:0.00, T:0.30
Consensus pattern (4 bp):
ATCC
Found at i:1051433 original size:1 final size:1
Alignment explanation
Indices: 1051427--1051452 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1051417 AGGTGTGGTG
1051427 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
1051453 CCCATAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1054284 original size:2 final size:2
Alignment explanation
Indices: 1054277--1054306 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1054267 ATTCTTAATG
*
1054277 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1054307 TTTGTTGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1055354 original size:2 final size:2
Alignment explanation
Indices: 1055347--1055374 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1055337 CAACAAATTA
1055347 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1055375 TCCTTGCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1056630 original size:13 final size:13
Alignment explanation
Indices: 1056612--1056637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1056602 TACACCAAGT
1056612 ATGTATCGATACA
1 ATGTATCGATACA
1056625 ATGTATCGATACA
1 ATGTATCGATACA
1056638 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1056635 original size:32 final size:33
Alignment explanation
Indices: 1056594--1056657 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1056584 TAGCCAAACT
* **
1056594 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1056626 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1056658 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1057159 original size:34 final size:35
Alignment explanation
Indices: 1057096--1057162 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1057086 CTAAGTGATT
1057096 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1057132 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1057163 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1062202 original size:13 final size:13
Alignment explanation
Indices: 1062184--1062209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1062174 TACACCAAGT
1062184 ATGTATCGATACA
1 ATGTATCGATACA
1062197 ATGTATCGATACA
1 ATGTATCGATACA
1062210 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1062207 original size:32 final size:33
Alignment explanation
Indices: 1062166--1062229 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1062156 TAGCCAAACT
* **
1062166 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1062198 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1062230 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1062731 original size:34 final size:35
Alignment explanation
Indices: 1062668--1062734 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1062658 CTAAGTGATT
1062668 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1062704 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1062735 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1066233 original size:21 final size:20
Alignment explanation
Indices: 1066190--1066234 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1066180 GACATGGATT
* *
1066190 GATACATTCACTTATGTATC
1 GATACATTCACTAATGAATC
1066210 GATACATTCACTAATTGAATC
1 GATACATTCACTAA-TGAATC
1066231 GATA
1 GATA
1066235 AAAATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (20 bp):
GATACATTCACTAATGAATC
Found at i:1068992 original size:20 final size:20
Alignment explanation
Indices: 1068967--1069020 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1068957 CTACCACTGT
* *
1068967 TTGTATCGATACATGGTACA
1 TTGTATCGATACATAGTAAA
1068987 TTGTATCGATACATAGTAAA
1 TTGTATCGATACATAGTAAA
**
1069007 AAGTATCGATACAT
1 TTGTATCGATACAT
1069021 TGTCCTAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAGTAAA
Found at i:1069401 original size:19 final size:19
Alignment explanation
Indices: 1069377--1069426 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1069367 AAATAGTAAC
1069377 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1069396 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
1069415 TGTATCGATACA
1 TGTATCGATACA
1069427 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1069481 original size:20 final size:20
Alignment explanation
Indices: 1069456--1069530 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
1069446 CTGCCAAGGA
* *
1069456 AATGTATCGATGCATTACTT
1 AATGTATCGATACATTACTC
*
1069476 AATGTATTGATACATTACTC
1 AATGTATCGATACATTACTC
1069496 AATGTATCGATACATTACTC
1 AATGTATCGATACATTACTC
1069516 AATGTATCGATACAT
1 AATGTATCGATACAT
1069531 GCAGGCAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTACTC
Found at i:1072973 original size:22 final size:24
Alignment explanation
Indices: 1072947--1072994 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
1072937 GCATTCAACC
*
1072947 TTGGGTTATAATT-TTTAAGA-AT
1 TTGGGATATAATTCTTTAAGAGAT
1072969 TTGGGATATAATTCTTTAAGAGAT
1 TTGGGATATAATTCTTTAAGAGAT
1072993 TT
1 TT
1072995 AGAGGTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.52
23 7 0.30
24 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (24 bp):
TTGGGATATAATTCTTTAAGAGAT
Found at i:1079931 original size:21 final size:21
Alignment explanation
Indices: 1079902--1079941 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1079892 AGAGAGCTTT
*
1079902 AAATATTATCAAGGGGGAGAA
1 AAATATTATCAAGAGGGAGAA
* *
1079923 AAATTTTATTAAGAGGGAG
1 AAATATTATCAAGAGGGAG
1079942 TTCTATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.28, T:0.25
Consensus pattern (21 bp):
AAATATTATCAAGAGGGAGAA
Found at i:1082171 original size:20 final size:20
Alignment explanation
Indices: 1082134--1082171 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1082124 AAGTCCTAAC
*
1082134 TAAGGAAAATAATGAATTAA
1 TAAGGAAAATAATAAATTAA
1082154 TAAGGAAAAATAA-AAATT
1 TAAGG-AAAATAATAAATT
1082172 TGCATGAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (20 bp):
TAAGGAAAATAATAAATTAA
Found at i:1090770 original size:33 final size:32
Alignment explanation
Indices: 1090709--1090771 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
1090699 ACAATTCGCT
*
1090709 GTGTATCGATACCAAGATCATGTATCGATATA
1 GTGTATCGATACAAAGATCATGTATCGATATA
1090741 GTGTATCGATACAAAGCAAT-ATGTATCGATA
1 GTGTATCGATACAAAG--ATCATGTATCGATA
1090772 CTTCTAGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 11 0.39
34 2 0.07
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (32 bp):
GTGTATCGATACAAAGATCATGTATCGATATA
Found at i:1090785 original size:20 final size:21
Alignment explanation
Indices: 1090762--1090800 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1090752 CAAAGCAATA
1090762 TGTATCGATAC-TTCTAGGTC
1 TGTATCGATACTTTCTAGGTC
1090782 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
1090801 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGTC
Found at i:1100010 original size:52 final size:52
Alignment explanation
Indices: 1099932--1100080 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 52
1099922 CGAAATATGA
*
1099932 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTAGGC
** *
1099984 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTAGGC
** *
1100036 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACA
1100081 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 87 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTAGGC
Found at i:1100087 original size:13 final size:13
Alignment explanation
Indices: 1100069--1100093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1100059 CAAAGATTAG
1100069 TGTATCGATACAA
1 TGTATCGATACAA
1100082 TGTATCGATACA
1 TGTATCGATACA
1100094 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1100171 original size:33 final size:33
Alignment explanation
Indices: 1100134--1100200 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1100124 AGTAGCTTAA
1100134 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1100167 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1100200 A
1 A
1100201 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1100174 original size:13 final size:13
Alignment explanation
Indices: 1100156--1100180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1100146 CAAAAAAATA
1100156 TGTATCGATACAT
1 TGTATCGATACAT
1100169 TGTATCGATACA
1 TGTATCGATACA
1100181 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1102553 original size:51 final size:51
Alignment explanation
Indices: 1102458--1102554 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
1102448 GAAAATAACG
* * * *
1102458 GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAGGCAA
1 GGGTTGAAGTATCCCCGATTATGAAAAATAGATGATTTAAAAATAAGGCAA
*
1102509 GGGTTGAAGTGTCCCCGATTAT-AGAAAATAGATG-TTTCAAAAATAA
1 GGGTTGAAGTATCCCCGATTATGA-AAAATAGATGATTT-AAAAATAA
1102555 AATCGAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
50 4 0.10
51 35 0.90
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (51 bp):
GGGTTGAAGTATCCCCGATTATGAAAAATAGATGATTTAAAAATAAGGCAA
Found at i:1102653 original size:51 final size:51
Alignment explanation
Indices: 1102586--1102704 Score: 177
Period size: 51 Copynumber: 2.3 Consensus size: 51
1102576 GTGAAAATAA
*
1102586 TGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTT-AGAAATAAGGC
1 TGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGA-AAATAAAGC
* * *
1102637 TGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGAAAATAAAGC
1 TGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGAAAATAAAGC
*
1102688 TAGGGTTGGAGTATCCC
1 TGGGGTTGGAGTATCCC
1102705 CTCAGAAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 60 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGAAAATAAAGC
Found at i:1102682 original size:130 final size:129
Alignment explanation
Indices: 1102433--1102731 Score: 336
Period size: 130 Copynumber: 2.3 Consensus size: 129
1102423 AATAGCGGGG
* * *
1102433 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAG
1 TTGGAGTATCCCCT-GAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTAG
* * *
1102498 AAATAAGGCAAGGGTTGAAGTGTCCCCGATTATAGAAAATAGATGTTTCAAAAATAAAATCGA-G
65 AAATAAGGCAAGGGTTGAAGTATCCCCGATTATAGAAAATAGATATTTCAAAAAT-AAAGCGAGG
1102562 A
129 A
* * * *
1102563 TTGGAGTATCCTCGTGAAAATAATGGGGTTGGAGTATCCCTAATTATGAGAAATCAAT-ATTTTA
1 TTGGAGTATCC-CCTGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTTA
** * * ** *
1102627 GAAATAAGGCTGGGGTTGAAGTATCCCTGATTGT-GAGAAATCA-ATATTTTGAAAATAAAGCTA
64 GAAATAAGGCAAGGGTTGAAGTATCCCCGATTATAGA-AAAT-AGATATTTCAAAAATAAAGCGA
*
1102690 GGG
127 GGA
*
1102693 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCC
1 TTGGAGTATCCCCTGA-AAATAACGGGGTTGGAGTATCC
1102732 TCGAAGAAAT
Statistics
Matches: 142, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
129 11 0.08
130 128 0.90
131 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (129 bp):
TTGGAGTATCCCCTGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTAGA
AATAAGGCAAGGGTTGAAGTATCCCCGATTATAGAAAATAGATATTTCAAAAATAAAGCGAGGA
Found at i:1102723 original size:28 final size:28
Alignment explanation
Indices: 1102690--1102763 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
1102680 AATAAAGCTA
**
1102690 GGGTTGGAGTATCCCCTCAGAAATAACG
1 GGGTTGGAGTATCCCCGAAGAAATAACG
*
1102718 GGGTTGGAGTATCCTCGAAGAAATAACG
1 GGGTTGGAGTATCCCCGAAGAAATAACG
*
1102746 GGGTTAGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
1102764 TTGTGAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAAGAAATAACG
Found at i:1102950 original size:79 final size:79
Alignment explanation
Indices: 1102810--1103018 Score: 247
Period size: 79 Copynumber: 2.6 Consensus size: 79
1102800 TTGGAAATCT
* * * * * * *
1102810 CCGATTATGGAGAATTGGTGTTTTAGAAATAAAACCGAGGTTGTAGTATCCCCTCGGAAATAACG
1 CCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTAGAAAATAACG
1102875 GGGTTAGAGTATCC
66 GGGTTAGAGTATCC
* * * *
1102889 CCGATTATGAAAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGTATTCCCTAGAAAATAATG
1 CCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTAGAAAATAACG
* *
1102954 GGGTTGGAGTATTC
66 GGGTTAGAGTATCC
* * * * * *
1102968 TCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 CCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCC
1103019 TCGATTATGG
Statistics
Matches: 108, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 108 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (79 bp):
CCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTAGAAAATAACG
GGGTTAGAGTATCC
Found at i:1103022 original size:51 final size:51
Alignment explanation
Indices: 1102956--1103076 Score: 172
Period size: 51 Copynumber: 2.4 Consensus size: 51
1102946 AAATAATGGG
* * *
1102956 GTTGGAGTATTCTCGATTGT-GAAAAGTCGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTATGGAAAA-TCGGTGTTTTAGAAATAAAATCGGA
* *
1103007 GTTGGAGTATCCTCGATTATGGAAAATGGGTGTTTTAGAAATAACATCGGA
1 GTTGGAGTATCCTCGATTATGGAAAATCGGTGTTTTAGAAATAAAATCGGA
*
1103058 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCTCGATTA
1103077 AAAAAAATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 58 0.92
52 5 0.08
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCTCGATTATGGAAAATCGGTGTTTTAGAAATAAAATCGGA
Found at i:1103084 original size:51 final size:50
Alignment explanation
Indices: 1102984--1103124 Score: 158
Period size: 51 Copynumber: 2.8 Consensus size: 50
1102974 GTGAAAAGTC
* ***
1102984 GGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCTCGATTATGGAAAATG
1 GGTGTTTTGGAAAT-AAATCGGAGTTGGAGTATCCCCGATTAAAAAAAATG
* *
1103035 GGTGTTTTAGAAATAACATCGGAGTTGGAGTATCCCCGATTAAAAAAAATT
1 GGTGTTTTGGAAATAA-ATCGGAGTTGGAGTATCCCCGATTAAAAAAAATG
* * *
1103086 GATGTTTTGGAAATGAAA-CCGAGGTTGAAGTATCCCCGA
1 GGTGTTTTGGAAAT-AAATCGGA-GTTGGAGTATCCCCGA
1103125 GATGAAAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 5 0.06
51 70 0.91
52 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTGTTTTGGAAATAAATCGGAGTTGGAGTATCCCCGATTAAAAAAAATG
Found at i:1105480 original size:13 final size:13
Alignment explanation
Indices: 1105462--1105491 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1105452 TATAATAAGT
1105462 AATGTATCGATAC
1 AATGTATCGATAC
1105475 AATGTATCGATAC
1 AATGTATCGATAC
1105488 AATG
1 AATG
1105492 AGCATTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1105484 original size:33 final size:33
Alignment explanation
Indices: 1105442--1105511 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1105432 TACATTGTAA
* *
1105442 AATGTATCGATATAATAAGTAATGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
* *
1105475 AATGTATCGATACAATGAGCATTGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
1105508 AATG
1 AATG
1105512 AACAATGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (33 bp):
AATGTATCGATACAATAAGCAATGTATCGATAC
Found at i:1105502 original size:20 final size:20
Alignment explanation
Indices: 1105473--1105529 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1105463 ATGTATCGAT
1105473 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
* *
1105493 GCATTGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1105513 ACAATGTATCAATACAA
1 ACAATGTATCGATACAA
1105530 ATTACGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1105502 original size:53 final size:53
Alignment explanation
Indices: 1105422--1105529 Score: 130
Period size: 53 Copynumber: 2.0 Consensus size: 53
1105412 AAAATGCTTG
* * * *
1105422 AATGTATCGATACATTGTAAAATGTATCGATATAAT-AAGTAATGTATCGATAC
1 AATGTATCGATACAATGTAAAATGTATCGATACAATGAA-CAATGTATCAATAC
* *
1105475 AATGTATCGATACAATG-AGCATTGTATCGATACAATGAACAATGTATCAATAC
1 AATGTATCGATACAATGTA-AAATGTATCGATACAATGAACAATGTATCAATAC
1105528 AA
1 AA
1105530 ATTACGAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.02
53 44 0.94
54 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (53 bp):
AATGTATCGATACAATGTAAAATGTATCGATACAATGAACAATGTATCAATAC
Found at i:1106209 original size:40 final size:41
Alignment explanation
Indices: 1106126--1106227 Score: 122
Period size: 40 Copynumber: 2.5 Consensus size: 41
1106116 GTCCCACTTT
*
1106126 TTGAGGACAAAGG-AAAAGAGAATGAAATAGGTCTCGCTCC
1 TTGAGGACAAAGGAAAAAGAGAAAGAAATAGGTCTCGCTCC
*
1106166 TTGAGGACAAAGGAAAAAGA-AAAGAAA-AGTGTC-CTGCTTC
1 TTGAGGACAAAGGAAAAAGAGAAAGAAATAG-GTCTC-GCTCC
*
1106206 TTGAGGGCAAAGTGAAAAAGAG
1 TTGAGGACAAAG-GAAAAAGAG
1106228 TACGTCCTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
39 3 0.06
40 37 0.69
41 14 0.26
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGAGAAAGAAATAGGTCTCGCTCC
Found at i:1106374 original size:45 final size:44
Alignment explanation
Indices: 1106249--1106424 Score: 175
Period size: 42 Copynumber: 4.1 Consensus size: 44
1106239 TTTCGAGGAT
*
1106249 AAAGA-AAAAAAGGAAAACGAAA-TGCGTCCTACTCTTTGAGGAC-
1 AAAGAGAAAAAA-GAAAA-TAAAGTGCGTCCTACTCTTTGAGGACA
* *
1106292 AAA-AGAAAAAAGAAAATAAAGTGCGTCTTGCTCTTTGAGGACA
1 AAAGAGAAAAAAGAAAATAAAGTGCGTCCTACTCTTTGAGGACA
** * *
1106335 AAAGAGAAAATAAGGGAATGAAGTGTGTCCTACTCTTTGAGGAC-
1 AAAGAGAAAA-AAGAAAATAAAGTGCGTCCTACTCTTTGAGGACA
* * * * *
1106379 AAAG-GAGAGAGGAAAATAAAGTGCGTCATGCTCTTTGAGGACA
1 AAAGAGAAAAAAGAAAATAAAGTGCGTCCTACTCTTTGAGGACA
1106422 AAA
1 AAA
1106425 AAGTGCCACC
Statistics
Matches: 109, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 3 0.03
42 51 0.47
43 18 0.17
44 10 0.09
45 27 0.25
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.19
Consensus pattern (44 bp):
AAAGAGAAAAAAGAAAATAAAGTGCGTCCTACTCTTTGAGGACA
Found at i:1106492 original size:61 final size:61
Alignment explanation
Indices: 1106407--1106642 Score: 298
Period size: 61 Copynumber: 3.8 Consensus size: 61
1106397 AAGTGCGTCA
** *
1106407 TGCTCTTTGAGGACAAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-AGAAAGGTGTCC
1 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAAGGTGTCC
* * * *
1106468 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTATCT
1 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGTGTCC
* * *
1106529 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGGGTGGGCTTTGAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGTGTCC
* *
1106590 TGCTCTTTGAGGACTTAGAAAAGTGCCACTAGCTTGTGCTGGGCTTT-AAAAGA
1 TGCTCTTTGAGGAC-T-GAAAAGTGCCACCAACTTGTG-TGGGCTTTGAAAAGA
1106643 CGTTCTGCTC
Statistics
Matches: 151, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
61 115 0.76
62 11 0.07
63 17 0.11
64 8 0.05
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (61 bp):
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGTGTCC
Found at i:1106539 original size:122 final size:124
Alignment explanation
Indices: 1106407--1106665 Score: 331
Period size: 122 Copynumber: 2.1 Consensus size: 124
1106397 AAGTGCGTCA
* *
1106407 TGCTCTTTGAGGAC-AAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-AGAAAGGTGTCCTG
1 TGCTCTTTGAGGACTAAAAAA-TGCCACCAACTCGGGTGGGCTTTGAAAAGA-AAAGGCGTCCTG
*
1106470 CTCTTTGAGGAC-T-GAAAGGTGCCACCAACTTGTG-TGGGCTTTGAAAAGAAAAAGTATCT
64 CTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGCTGGGCTTT-AAAAGAAAAAGTATCT
** * *
1106529 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGAAAAGGCGTCCTGCT
1 TGCTCTTTGAGGACTAAAAAATGCCACCAACTCGGGTGGGCTTTGAAAAGAAAAGGCGTCCTGCT
* * *
1106594 CTTTGAGGACTTAGAAAAGTGCCACTAGCTTGTGCTGGGCTTTAAAAG---ACGT-TC-
66 CTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGCTGGGCTTTAAAAGAAAAAGTATCT
1106648 TGCTCTTTGAGGACTAAA
1 TGCTCTTTGAGGACTAAA
1106666 GGGTGAAAGG
Statistics
Matches: 120, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
119 16 0.13
120 2 0.02
121 3 0.03
122 62 0.52
123 6 0.05
124 23 0.19
125 8 0.07
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (124 bp):
TGCTCTTTGAGGACTAAAAAATGCCACCAACTCGGGTGGGCTTTGAAAAGAAAAGGCGTCCTGCT
CTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGCTGGGCTTTAAAAGAAAAAGTATCT
Found at i:1106783 original size:57 final size:57
Alignment explanation
Indices: 1106681--1106879 Score: 222
Period size: 57 Copynumber: 3.4 Consensus size: 57
1106671 AAAGGAGAGA
**
1106681 GCATCCTACTCTTTGAGGACT--AGGAAATGCCACCAACTTGTGTGGGCTTCAAAAG
1 GCATCCTACTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTCAAAAG
* *
1106736 GCATCCTACTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA
1 GCATCCTACTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGC-TT-----CAAAAG
* * * * * *
1106799 GCGTCCTGCTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTACTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTCAAAAG
**
1106856 GTGTCCTACTCTTTGAGGACTAAA
1 GCATCCTACTCTTTGAGGACTAAA
1106880 GGGCGAAAGG
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
55 21 0.17
57 48 0.40
58 2 0.02
62 2 0.02
63 48 0.40
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (57 bp):
GCATCCTACTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTCAAAAG
Found at i:1106799 original size:158 final size:153
Alignment explanation
Indices: 1106531--1106819 Score: 343
Period size: 152 Copynumber: 1.8 Consensus size: 153
1106521 AAGTATCTTG
* * *
1106531 CTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTT---A-CAAAAGGCATCCTACTCT
* * * * * *
1106596 TTGAGGACTTAGAAAAGTGCCACTAGCTTGTGCTGGGCTTTAAAAGACGTTCTGCTCTTTGAGGA
62 TTGAGGACTAAAAAAAATGCCACCAACTTGTGCTGGGCTTTAAAAG-CGTCCTGCTCTTTGAGGA
1106661 CTAAAGGGTGAAAGGAGAGAGCATCCTA
126 CTAAAGGGTGAAAGGAGAGAGCATCCTA
*
1106689 CTCTTTGAGGACTAGG-AAATGCCACCAACTTGTGTGGGC-TT-CAAAAGGCATCCTACTCTTTG
1 CTCTTTGAGGACT-GGAAAATGCCACCAACTTGGGTGGGCTTTACAAAAGGCATCCTACTCTTTG
1106751 AGGACTAAAAAAAATGCCACCAACTTGTG-TGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGA
65 AGGACTAAAAAAAATGCCACCAACTTGTGCTGGGCTTT-------AAAAGCGTCCTGCTCTTTGA
1106815 GGACT
123 GGACT
1106820 TAGAAAAGTG
Statistics
Matches: 113, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
151 8 0.07
152 42 0.37
157 21 0.19
158 40 0.35
159 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (153 bp):
CTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTACAAAAGGCATCCTACTCTTTGA
GGACTAAAAAAAATGCCACCAACTTGTGCTGGGCTTTAAAAGCGTCCTGCTCTTTGAGGACTAAA
GGGTGAAAGGAGAGAGCATCCTA
Found at i:1106966 original size:95 final size:96
Alignment explanation
Indices: 1106788--1106974 Score: 297
Period size: 95 Copynumber: 2.0 Consensus size: 96
1106778 TGTGGGCTTT
1106788 GAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 GAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
1106853 AAGGTGTCCTACTCTTTGAGGACTAAAGGGC
66 AAGGTATCCTACTCTTTGAGGACTAAAGGGC
* * **
1106884 GAAAGGAGAGAGCTGTCCTGCTCTTTGAGGAC-T-GGGAAGTGCCACCAACTTGTGTGGGCTTTA
1 GAAAGGAAAAAGC-GTCCTGCTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
*
1106947 AAAGGTATCCTGCTCTTTGAGGACTAAA
65 AAAGGTATCCTACTCTTTGAGGACTAAA
1106975 AAAAATGCCA
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
95 54 0.64
96 12 0.14
97 18 0.21
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
GAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
AAGGTATCCTACTCTTTGAGGACTAAAGGGC
Found at i:1107044 original size:214 final size:214
Alignment explanation
Indices: 1106463--1107096 Score: 934
Period size: 215 Copynumber: 2.9 Consensus size: 214
1106453 AAAAGAAAGG
*
1106463 TGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTATC
1 TGTCCTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG-----GTATC
* ** *
1106528 TTGCTCTTTGAGGACT--GGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGAAAAGGCGTCCT
59 CTGCTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
* * * *
1106591 GCTCTTTGAGGACTTAGAAAAGTGCCACTAGCTTGTGCTGGGCTTTAAAAGACGTTCTGCTCTTT
124 GCTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTG-TGGGCTTTAAAAGGCGTCCTGCTCTTT
*
1106656 GAGGACTAAAGGGTGAAAGGAGAGAGC
188 GAGGACTAAAGGGCGAAAGGAGAGAGC
* * * * * *
1106683 -ATCCTACTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTCAAAAGGCATCCTACTC
1 TGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTC
*
1106747 TTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTT
65 TTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTT
* *
1106812 TGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTACTCTTTGAGGACT
130 TGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
1106877 AAAGGGCGAAAGGAGAGAGC
195 AAAGGGCGAAAGGAGAGAGC
1106897 TGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTC
1 TGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTC
*
1106962 TTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTCCTCTT
65 TTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTT
* * *
1107027 TGAGGAC-TAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAATGCGTCTTGCTCTTTGAGGACT
130 TGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
1107091 GAAAGG
195 -AAAGG
1107097 TGCCACCAAC
Statistics
Matches: 376, Mismatches: 33, Indels: 15
0.89 0.08 0.04
Matches are distributed among these distances:
213 18 0.05
214 101 0.27
215 210 0.56
218 5 0.01
219 39 0.10
220 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (214 bp):
TGTCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCT
TTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTT
GAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA
AAGGGCGAAAGGAGAGAGC
Found at i:1107114 original size:55 final size:56
Alignment explanation
Indices: 1106898--1107151 Score: 269
Period size: 55 Copynumber: 4.3 Consensus size: 56
1106888 GGAGAGAGCT
** * *
1106898 GTCCTGCTCTTTGAGGACT-GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGT
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * *
1106953 ATCCTGCTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACT-AGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
* *
1107016 GTCCTCCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAATGC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * *
1107072 GTCTTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1107133 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
1107152 TAAGGGTGAA
Statistics
Matches: 167, Mismatches: 18, Indels: 22
0.81 0.09 0.11
Matches are distributed among these distances:
55 45 0.27
56 22 0.13
57 26 0.16
60 1 0.01
61 23 0.14
62 28 0.17
63 22 0.13
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (56 bp):
GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
Found at i:1107143 original size:117 final size:117
Alignment explanation
Indices: 1106898--1107151 Score: 366
Period size: 117 Copynumber: 2.2 Consensus size: 117
1106888 GGAGAGAGCT
** *
1106898 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
* *
1106963 TTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGC
66 TTGAGGACT-AAAAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
1107016 GTCCTCCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAATGCGTCTTGCTC
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTC
* **
1107081 TTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGC
65 TTTGAGGACTAAAAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGC
1107133 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
1107152 TAAGGGTGAA
Statistics
Matches: 121, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
117 55 0.45
118 18 0.15
119 48 0.40
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (117 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
TTGAGGACTAAAAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:1107243 original size:100 final size:100
Alignment explanation
Indices: 1107070--1107367 Score: 472
Period size: 100 Copynumber: 3.0 Consensus size: 100
1107060 GCTTTGAAAT
* * *
1107070 GCGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1107135 CCTGCTCTTTGAGGACTTAAGGGTGAAAGGAGAGA
66 CCTGCTCTTTGAGGACTTAAGGGTGAAAGGAGAGA
*
1107170 GCGTCCTGCTCTTTGAGGACTAAAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
1107235 CCTGCTCTTTGAGGACTAAAGGGTGAAAGGAAAGA
66 CCTGCTCTTTGAGGACTTAAGGGTGAAAGGAGAGA
* * *
1107270 GCGTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* **
1107335 CCTGCTCTTTAAGGA-TTGAAAAGTGAAAGGAGA
66 CCTGCTCTTTGAGGACTT-AAGGGTGAAAGGAGA
1107368 AAGTTTAGAT
Statistics
Matches: 182, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
99 1 0.01
100 181 0.99
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (100 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTTAAGGGTGAAAGGAGAGA
Found at i:1107265 original size:39 final size:40
Alignment explanation
Indices: 1107221--1107296 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
1107211 GTGGGCTTTA
*
1107221 AAAGGAAA-AGGCGTCCTGCTCTTTGAGGACTA-AAGGGTG
1 AAAGGAAAGA-GCGTCCTGCTCTTTGAAGACTAGAAGGGTG
1107260 AAAGGAAAGAGCGTCCTGCTCTTTGAAGACTAGAAGG
1 AAAGGAAAGAGCGTCCTGCTCTTTGAAGACTAGAAGG
1107297 TGCCACCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.20
Consensus pattern (40 bp):
AAAGGAAAGAGCGTCCTGCTCTTTGAAGACTAGAAGGGTG
Found at i:1108354 original size:10 final size:9
Alignment explanation
Indices: 1108340--1108407 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
1108330 CTTTTCTCTC
*
1108340 TTTTTTCTT
1 TTTTTTGTT
*
1108349 TGTTTTG-T
1 TTTTTTGTT
1108357 TTTTTTGTT
1 TTTTTTGTT
*
1108366 TTTTATGTT
1 TTTTTTGTT
*
1108375 TTTTTTGGT
1 TTTTTTGTT
1108384 TTTTTTGTT
1 TTTTTTGTT
1108393 GTTTTTTGTT
1 -TTTTTTGTT
1108403 TTTTT
1 TTTTT
1108408 GAAAAAGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 7 0.14
9 34 0.68
10 9 0.18
ACGTcount: A:0.01, C:0.01, G:0.13, T:0.84
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:1108362 original size:17 final size:17
Alignment explanation
Indices: 1108340--1108379 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1108330 CTTTTCTCTC
1108340 TTTTTTCTTTGTTT-TGT
1 TTTTTTCTTT-TTTATGT
*
1108357 TTTTTTGTTTTTTATGT
1 TTTTTTCTTTTTTATGT
1108374 TTTTTT
1 TTTTTT
1108380 TGGTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTTTTATGT
Found at i:1108364 original size:8 final size:8
Alignment explanation
Indices: 1108340--1108408 Score: 75
Period size: 8 Copynumber: 7.9 Consensus size: 8
1108330 CTTTTCTCTC
*
1108340 TTTTTTCT
1 TTTTTTGT
1108348 TTGTTTTGT
1 TT-TTTTGT
1108357 TTTTTTGT
1 TTTTTTGT
1108365 TTTTTATGTT
1 TTTTT-TG-T
1108375 TTTTTTGGT
1 TTTTTT-GT
1108384 TTTTTTGTT
1 TTTTTTG-T
1108393 GTTTTTTGT
1 -TTTTTTGT
1108402 TTTTTTG
1 TTTTTTG
1108409 AAAAAGAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
8 21 0.39
9 19 0.35
10 14 0.26
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.83
Consensus pattern (8 bp):
TTTTTTGT
Found at i:1118621 original size:52 final size:52
Alignment explanation
Indices: 1118472--1118601 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1118462 CCGAAATATA
*
1118472 AAAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
1 AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
* * *
1118524 CAAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
1 AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
1118576 AAAATTTGCCTGCATGTATCGATACA
1 AAAATTTGCCTGCATGTATCGATACA
1118602 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGG
Found at i:1118628 original size:13 final size:13
Alignment explanation
Indices: 1118610--1118634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1118600 CAAAGATCAG
1118610 TGTATCGATACAA
1 TGTATCGATACAA
1118623 TGTATCGATACA
1 TGTATCGATACA
1118635 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1118720 original size:32 final size:32
Alignment explanation
Indices: 1118679--1118747 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
1118669 AGCTTCGTAG
1118679 CGATACATTGTATCGATACAAA-ACTTATATAT
1 CGATACATTGTATCGATA-AAACACTTATATAT
* *
1118711 CGATACATTGTATCGATAAAACATTTATGTAT
1 CGATACATTGTATCGATAAAACACTTATATAT
1118743 CGATA
1 CGATA
1118748 AAAATCGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 3 0.09
32 31 0.91
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATAAAACACTTATATAT
Found at i:1124600 original size:51 final size:51
Alignment explanation
Indices: 1124505--1124601 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
1124495 AAAAATAACG
* * * *
1124505 GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAGGCAA
1 GGGTTGAAGTATCCCCGATTATGAAAAATAGATGATTTAAAAATAAGGCAA
*
1124556 GGGTTGAAGTGTCCCCGATTAT-AGAAAATAGATG-TTTCAAAAATAA
1 GGGTTGAAGTATCCCCGATTATGA-AAAATAGATGATTT-AAAAATAA
1124602 AATCGAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
50 4 0.10
51 35 0.90
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (51 bp):
GGGTTGAAGTATCCCCGATTATGAAAAATAGATGATTTAAAAATAAGGCAA
Found at i:1124700 original size:51 final size:51
Alignment explanation
Indices: 1124634--1124731 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
1124624 TGAAAATAAT
* *
1124634 GGGGTTGGAGTATCCCCAATTATAAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGAAATATCCCCAATTATAAGAAATCAATATTTTAGAAATAAGGCC
** * * *
1124685 GGGGTTGAAATATCCCTGATTGTGAGAAATCAATATTTTGGAAATAA
1 GGGGTTGAAATATCCCCAATTATAAGAAATCAATATTTTAGAAATAA
1124732 AGTTGGGGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (51 bp):
GGGGTTGAAATATCCCCAATTATAAGAAATCAATATTTTAGAAATAAGGCC
Found at i:1124730 original size:130 final size:129
Alignment explanation
Indices: 1124445--1124766 Score: 314
Period size: 130 Copynumber: 2.5 Consensus size: 129
1124435 ACATCTCCCG
*
1124445 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTCAAAAATAACGGGGT
1 ATGAGAAA--TAATATTTTGGAAATAA-AATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGT
* * * * *
1124509 TGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCGA
63 TGGAGTATCCCCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAATATCCCCGA
1124574 TT
128 TT
* *** * * * * *
1124576 AT-AGAAAATAGATGTTTCAAAAATAAAATCGAGATTGGAGTATCCTCGT-GAAAATAATGGGGT
1 ATGAG-AAATA-ATATTTTGGAAATAAAATCGGGGTTGGAGTATCC-CCTCAAAAATAACGGGGT
** *
1124639 TGGAGTATCCCCAATTAT-AAGAAATCAAT-ATTTTAGAAATAAGGCCGGGGTTGAAATATCCCT
63 TGGAGTATCCCCAATTATGAA-AAATCAATGA-TTTAGAAATAAGGCAAGGGTTGAAATATCCCC
1124702 GATT
126 GATT
* * * *
1124706 GTGAGAAATCAATATTTTGGAAATAAAGTTGGGGTTGGAGTATCCCCT-ATGAAATAACGGG
1 ATGAGAAAT-AATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCA-AAAATAACGGG
1124767 TGAGTATCCT
Statistics
Matches: 151, Mismatches: 31, Indels: 19
0.75 0.15 0.09
Matches are distributed among these distances:
129 9 0.06
130 132 0.87
131 10 0.07
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (129 bp):
ATGAGAAATAATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGG
AGTATCCCCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAATATCCCCGATT
Found at i:1124773 original size:25 final size:23
Alignment explanation
Indices: 1124743--1124798 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 23
1124733 GTTGGGGTTG
1124743 GAGTATCCCCTATGAAATAACGGGT
1 GAGTATCCCCTATG-AAT-ACGGGT
1124768 GAGTAT--CCTATGAATACGGGT
1 GAGTATCCCCTATGAATACGGGT
1124789 GAGTATCCCC
1 GAGTATCCCC
1124799 GATTGTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 12 0.41
22 3 0.10
23 8 0.28
25 6 0.21
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (23 bp):
GAGTATCCCCTATGAATACGGGT
Found at i:1124852 original size:51 final size:51
Alignment explanation
Indices: 1124792--1124900 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
1124782 TACGGGTGAG
* * **
1124792 TATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATTGGAGTTGGAA
1 TATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCGGAGTTGGAA
* * * * *
1124843 TATCCCCGATTGTGGAGAATTTGTATTTTAGAAATAAAACCGGGGTTGGAG
1 TATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCGGAGTTGGAA
1124894 TATCCCC
1 TATCCCC
1124901 TCGGAAATAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (51 bp):
TATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAACCGGAGTTGGAA
Found at i:1124955 original size:79 final size:79
Alignment explanation
Indices: 1124868--1125055 Score: 236
Period size: 79 Copynumber: 2.4 Consensus size: 79
1124858 AGAATTTGTA
* * *
1124868 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATT
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTAGAAAATAACGAGGTTAGAGTATCCCCGATT
* *
1124933 ATGAAAAAT-TGATG
66 ATGAAAAGTCAG-TG
* * * *
1124947 TTTTAGAAATAAAACTGGGGTTGGAGTATTCCCTAGAAAATAACGAGGTTGGAGTATCTCCGATT
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTAGAAAATAACGAGGTTAGAGTATCCCCGATT
*
1125012 GTGAAAAGTCAGTG
66 ATGAAAAGTCAGTG
* *
1125026 TTTT-GAAAATAAAATCGGAGTTGGAGTATC
1 TTTTAG-AAATAAAACCGGGGTTGGAGTATC
1125056 TCCGATTATG
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
78 1 0.01
79 91 0.98
80 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (79 bp):
TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTAGAAAATAACGAGGTTAGAGTATCCCCGATT
ATGAAAAGTCAGTG
Found at i:1125055 original size:51 final size:51
Alignment explanation
Indices: 1124994--1125114 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 51
1124984 AAATAACGAG
*
1124994 GTTGGAGTATCTCCGATTGT-GAAAAGTCAGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCTCCGATTATGGAAAA-TCAGTGTTTTAG-AAATAAAATCGGA
**
1125045 GTTGGAGTATCTCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCTCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
* *
1125096 GTTGAAGTATCCCCGATTA
1 GTTGGAGTATCTCCGATTA
1125115 AAAAAAATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
51 57 0.90
52 6 0.10
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCTCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
Found at i:1125122 original size:51 final size:50
Alignment explanation
Indices: 1125023--1125162 Score: 156
Period size: 51 Copynumber: 2.7 Consensus size: 50
1125013 TGAAAAGTCA
* ***
1125023 GTGTTTTGAAAATAAAATCGGAGTTGGAGTATCTCCGATTATGGAAAATGG
1 GTGTTTTG-AAATAAAATCGGAGTTGGAGTATCCCCGATTAAAAAAAATGG
* *
1125074 GTGTTTTAGAAATAAAATCGGAGTTGAAGTATCCCCGATTAAAAAAAATTG
1 GTGTTTT-GAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAAAAAATGG
* * *
1125125 ATGTTTTGGAAATGAAACTAGGA-TTGGAGTATCCCCGA
1 GTGTTTT-GAAAT-AAAATCGGAGTTGGAGTATCCCCGA
1125163 GATGAAAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 68 0.89
52 8 0.11
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (50 bp):
GTGTTTTGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAAAAAATGG
Found at i:1126149 original size:100 final size:100
Alignment explanation
Indices: 1125976--1126265 Score: 467
Period size: 100 Copynumber: 2.9 Consensus size: 100
1125966 CATGTGTTCA
*
1125976 TTTGAGGACT-GAAAGGTGCCACCAACTAGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
1 TTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
* *
1126040 GAGGACTAAAGGGTGAAAGGAGAAAGCGTCTTGCTC
65 GAGGACTAAAGGGTGAAAGGAGAAAGCATCCTGCTC
* *
1126076 TTTGAGGACTAGACGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTG
1 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTG
*
1126141 AGGACTAAAGGGTGAAAGGAGAGAGCATCCTGCTC
66 AGGACTAAAGGGTGAAAGGAGAAAGCATCCTGCTC
*
1126176 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTTTG
1 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTG
* *
1126241 AGGACTGAAA-AGTGAAAGGAAAAAG
66 AGGACT-AAAGGGTGAAAGGAGAAAG
1126266 TTTAGATACC
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
100 172 0.98
101 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (100 bp):
TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTG
AGGACTAAAGGGTGAAAGGAGAAAGCATCCTGCTC
Found at i:1127254 original size:16 final size:15
Alignment explanation
Indices: 1127237--1127330 Score: 84
Period size: 16 Copynumber: 6.2 Consensus size: 15
1127227 CTTTTCTCTC
*
1127237 TTTTTTCTTTG-TTT
1 TTTTTTTTTTGTTTT
* *
1127251 TCTTTGTTTTGTTTT
1 TTTTTTTTTTGTTTT
1127266 TTTGTTTTTTTGTTTT
1 TTT-TTTTTTTGTTTT
*
1127282 TTTGTTTTTTTATGTTT
1 TTT-TTTTTTTGT-TTT
*
1127299 TTTTTGTTTT-TTTT
1 TTTTTTTTTTGTTTT
* *
1127313 GTTGTTTTTTGTTTT
1 TTTTTTTTTTGTTTT
1127328 TTT
1 TTT
1127331 GAAAAAGAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
14 18 0.28
15 12 0.18
16 29 0.45
17 6 0.09
ACGTcount: A:0.01, C:0.02, G:0.12, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTGTTTT
Found at i:1127268 original size:1 final size:1
Alignment explanation
Indices: 1127237--1127330 Score: 62
Period size: 1 Copynumber: 94.0 Consensus size: 1
1127227 CTTTTCTCTC
* * * * * * * * * *
1127237 TTTTTTCTTTGTTTTCTTTGTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTATGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
1127302 TTGTTTTTTTTGTTGTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1127331 GAAAAAGAAT
Statistics
Matches: 65, Mismatches: 28, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.01, C:0.02, G:0.12, T:0.85
Consensus pattern (1 bp):
T
Found at i:1127270 original size:8 final size:8
Alignment explanation
Indices: 1127237--1127331 Score: 100
Period size: 9 Copynumber: 10.9 Consensus size: 8
1127227 CTTTTCTCTC
*
1127237 TTTTTTCT
1 TTTTTTGT
*
1127245 TTGTTTTCT
1 TT-TTTTGT
1127254 TTGTTTTGT
1 TT-TTTTGT
1127263 TTTTTTGT
1 TTTTTTGT
1127271 TTTTTTGT
1 TTTTTTGT
1127279 TTTTTTGTT
1 TTTTTTG-T
1127288 TTTTTATGTT
1 TTTTT-TG-T
1127298 TTTTTTGTT
1 TTTTTTG-T
1127307 TTTTTTGTT
1 TTTTTTG-T
1127316 GTTTTTTGT
1 -TTTTTTGT
1127325 TTTTTTG
1 TTTTTTG
1127332 AAAAAGAATG
Statistics
Matches: 82, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
8 30 0.37
9 36 0.44
10 16 0.20
ACGTcount: A:0.01, C:0.02, G:0.13, T:0.84
Consensus pattern (8 bp):
TTTTTTGT
Found at i:1127331 original size:18 final size:17
Alignment explanation
Indices: 1127237--1127330 Score: 109
Period size: 19 Copynumber: 5.3 Consensus size: 17
1127227 CTTTTCTCTC
* *
1127237 TTTTTTCTTTGTTTTCTT
1 TTTTTTGTTT-TTTTGTT
*
1127255 TGTTTTGTTTTTTTG-T
1 TTTTTTGTTTTTTTGTT
1127271 TTTTTTGTTTTTTTGTT
1 TTTTTTGTTTTTTTGTT
1127288 TTTTTATGTTTTTTTTGTT
1 TTTTT-TG-TTTTTTTGTT
1127307 TTTTTTGTTGTTTTTTGTT
1 TTTTTTG-T-TTTTTTGTT
1127326 TTTTT
1 TTTTT
1127331 GAAAAAGAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.22
17 10 0.15
18 14 0.21
19 29 0.43
ACGTcount: A:0.01, C:0.02, G:0.12, T:0.85
Consensus pattern (17 bp):
TTTTTTGTTTTTTTGTT
Found at i:1133213 original size:20 final size:21
Alignment explanation
Indices: 1133169--1133222 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1133159 CTACCACTAT
*
1133169 TTGTATCGATACATGGCACAA
1 TTGTATCGATACATGGAACAA
*
1133190 -TGTATCGATACAT-GAAGAA
1 TTGTATCGATACATGGAACAA
*
1133209 TTGTATCAATACAT
1 TTGTATCGATACAT
1133223 TGCCTCAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACATGGAACAA
Found at i:1136323 original size:24 final size:24
Alignment explanation
Indices: 1136292--1136350 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
1136282 CCATCATAGC
**
1136292 CTTCTTCTTTGGCTTATTTAAATT
1 CTTCTTCTTCAGCTTATTTAAATT
1136316 CTTCTTCTTCAGCTTATTTAAATT
1 CTTCTTCTTCAGCTTATTTAAATT
1136340 CTTCTTCTTCA
1 CTTCTTCTTCA
1136351 ATGTCGGACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.17, C:0.22, G:0.05, T:0.56
Consensus pattern (24 bp):
CTTCTTCTTCAGCTTATTTAAATT
Found at i:1136541 original size:3 final size:3
Alignment explanation
Indices: 1136533--1136563 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1136523 CAAGTCAACT
*
1136533 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1136564 TATCTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:1136568 original size:9 final size:9
Alignment explanation
Indices: 1136531--1136569 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
1136521 TCCAAGTCAA
1136531 CTTCATCAT
1 CTTCATCAT
*
1136540 CATCATCAT
1 CTTCATCAT
*
1136549 CATCATCAT
1 CTTCATCAT
*
1136558 CTTCATTAT
1 CTTCATCAT
1136567 CTT
1 CTT
1136570 TGATGATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTCATCAT
Found at i:1139126 original size:14 final size:14
Alignment explanation
Indices: 1139086--1139140 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
1139076 CACATGTATC
1139086 GATACATGAACAGT
1 GATACATGAACAGT
*
1139100 G----ATGAACAAT
1 GATACATGAACAGT
*
1139110 GATACATGAATAGT
1 GATACATGAACAGT
1139124 GATACATGAACAGT
1 GATACATGAACAGT
1139138 GAT
1 GAT
1139141 GAACATTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
10 9 0.27
14 24 0.73
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.24
Consensus pattern (14 bp):
GATACATGAACAGT
Found at i:1143886 original size:32 final size:34
Alignment explanation
Indices: 1143802--1143896 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 34
1143792 TCGAATTGTT
* *
1143802 TATCTTT-AAGGCTAAGGTATAACCT-TACAACC
1 TATCTTTCAAGGCTAAGATAGAACCTCTACAACC
1143834 TATCTTTTACAAAGGCTAAGATAGAACCTCTAC-A-C
1 TATC-TTT-C-AAGGCTAAGATAGAACCTCTACAACC
1143869 TATCTTTCAAGGCTAAGATAGAACCTCT
1 TATCTTTCAAGGCTAAGATAGAACCTCT
1143897 CAATCACTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
32 24 0.43
33 4 0.07
34 3 0.05
35 5 0.09
36 17 0.30
37 3 0.05
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (34 bp):
TATCTTTCAAGGCTAAGATAGAACCTCTACAACC
Found at i:1144351 original size:10 final size:10
Alignment explanation
Indices: 1144336--1144377 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
1144326 ATATCGATAC
1144336 ATGAACAGTG
1 ATGAACAGTG
*
1144346 ATGAACA-TAC
1 ATGAACAGT-G
1144356 ATGAACAGTG
1 ATGAACAGTG
*
1144366 ATGAACGGTG
1 ATGAACAGTG
1144376 AT
1 AT
1144378 ACATGAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 1 0.04
10 25 0.93
11 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1144357 original size:20 final size:20
Alignment explanation
Indices: 1144332--1144371 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1144322 TAATATATCG
1144332 ATACATGAACAGTGATGAAC
1 ATACATGAACAGTGATGAAC
1144352 ATACATGAACAGTGATGAAC
1 ATACATGAACAGTGATGAAC
1144372 GGTGATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (20 bp):
ATACATGAACAGTGATGAAC
Done.