Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 127 of 250
Found at i:40934459 original size:20 final size:18
Alignment explanation
Indices: 40934430--40934480 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
40934420 TATTTTGTAT
40934430 TTAATTTTAATTAATGTGA
1 TTAATTTTAATTAAT-TGA
* *
40934449 TTAATTTTTAAATACTTGA
1 TTAA-TTTTAATTAATTGA
40934468 TATAATTTTAATT
1 T-TAATTTTAATT
40934481 TATGACACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (18 bp):
TTAATTTTAATTAATTGA
Found at i:40936199 original size:59 final size:60
Alignment explanation
Indices: 40936114--40936240 Score: 141
Period size: 59 Copynumber: 2.1 Consensus size: 60
40936104 CCTAAATATA
* * * * *
40936114 AAAAAATTCAATAAATTTAGCACTCAATATTAAAAAAAAAT-TCATTTAGTTATAATTCT
1 AAAAATTTCAATAAATTTAGCACTCAACATTAAAAAAAAATGTCAATTAGTCATAACTCT
* * * * *
40936173 AAAAATTTCAATAAATTT-GACCCTCAACATTTACAAAATATGTCAATTAGTCCTAACTCT
1 AAAAATTTCAATAAATTTAG-CACTCAACATTAAAAAAAAATGTCAATTAGTCATAACTCT
40936233 AAAAATTT
1 AAAAATTT
40936241 AAAAGAGAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
58 1 0.02
59 33 0.59
60 22 0.39
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (60 bp):
AAAAATTTCAATAAATTTAGCACTCAACATTAAAAAAAAATGTCAATTAGTCATAACTCT
Found at i:40936676 original size:61 final size:61
Alignment explanation
Indices: 40936563--40936680 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
40936553 TTTTAAAAAA
* * ** ** * *
40936563 TTTTTAGAGTTAGGACTAAATTGACAAATTTTGTAAATGTTGATGGCCAAATTTATTAAAC
1 TTTTTAGAATTAGAACTAAAACGACAAATTTTGTAAACATTAAGGGCCAAATTTATTAAAC
* *
40936624 TTTTTAGAATTAGAACTAAAACGACAATTTTTGTAAACATTAAGGGCTAAATTTATT
1 TTTTTAGAATTAGAACTAAAACGACAAATTTTGTAAACATTAAGGGCCAAATTTATT
40936681 GAATTTTGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAACGACAAATTTTGTAAACATTAAGGGCCAAATTTATTAAAC
Found at i:40938351 original size:22 final size:22
Alignment explanation
Indices: 40938326--40938370 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
40938316 TGTTTAATTA
40938326 TTTTTATTT-AATTAATTATATG
1 TTTTTATTTCAATTAATTA-ATG
*
40938348 TTTTTATTTCATTTAATTAATG
1 TTTTTATTTCAATTAATTAATG
40938370 T
1 T
40938371 GAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTTATTTCAATTAATTAATG
Found at i:40938363 original size:27 final size:28
Alignment explanation
Indices: 40938331--40938385 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
40938321 AATTATTTTT
40938331 ATTTAATTAAT-T-ATATGTTTTTATTTC
1 ATTTAATTAATGTAATAT-TTTTTATTTC
40938358 ATTTAATTAATGTGAATATTTTTTATTT
1 ATTTAATTAATGT-AATATTTTTTATTT
40938386 AAATATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
29 9 0.36
30 4 0.16
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (28 bp):
ATTTAATTAATGTAATATTTTTTATTTC
Found at i:40946146 original size:16 final size:17
Alignment explanation
Indices: 40946114--40946147 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
40946104 TATATACTTA
40946114 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
40946131 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
40946147 T
1 T
40946148 TGAACCTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:40946608 original size:5 final size:5
Alignment explanation
Indices: 40946600--40946633 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
40946590 ATTACATAAT
40946600 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
40946634 AACATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:40947712 original size:24 final size:26
Alignment explanation
Indices: 40947657--40947714 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
40947647 GTTGTCTTTG
* *
40947657 TATAAAAGTAAAATGATTTATTACAT
1 TATAAAATTAAAATGATTTATTAAAT
*
40947683 T-CAAAATTAAAAT-ATTTA-TAAAT
1 TATAAAATTAAAATGATTTATTAAAT
40947706 TATAAAATT
1 TATAAAATT
40947715 CAAACTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 5 0.19
24 11 0.41
25 10 0.37
26 1 0.04
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (26 bp):
TATAAAATTAAAATGATTTATTAAAT
Found at i:40952717 original size:20 final size:20
Alignment explanation
Indices: 40952679--40952718 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
40952669 AGTTGATAAA
*
40952679 ATAAAATTTTTTTATATTTT
1 ATAAAATTTTTTAATATTTT
40952699 ATAAAA-TTTTTAATCATTTT
1 ATAAAATTTTTTAAT-ATTTT
40952719 TATGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAAAATTTTTTAATATTTT
Found at i:40959743 original size:221 final size:221
Alignment explanation
Indices: 40959360--40960025 Score: 1188
Period size: 221 Copynumber: 3.0 Consensus size: 221
40959350 CAACTAGCAG
* * *
40959360 TCTAGTATACAGATGGCACCTCACGAGGCACTGTATGGTTATAAGTGTCGCACTCCCTTATGCTA
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
*
40959425 GACTGAGTTGGGTGAACGACGTATTCTGGGTATGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
*
40959490 TTTTGATTCGAGATCGGTTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
131 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
40959555 CGAGAGATAGAATATTCCGTGAGAGA
196 CGAGAGATAGAATATTCCGTGAGAGA
40959581 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
*
40959646 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAAGACAAGGTCC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
* *
40959711 TTTTGATTCGAGATCGGCTGAAAGCAGCTTCTGATAAGGAGAAGTCATATACAGATTTGAAGCGT
131 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
*
40959776 CGAGAAATAGAATATTCCGTGAGAGA
196 CGAGAGATAGAATATTCCGTGAGAGA
40959802 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
1 TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
* * * *
40959867 GACTGAGTTGGGTGAACGACGTATTATGGGTCTAGAGTTGGTTTCTGAGACTGAGGACAAGGTAC
66 GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
*
40959932 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATCTGAAGCGT
131 TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
* *
40959997 CGAGAGATAGAATATTCTGTGGGAGA
196 CGAGAGATAGAATATTCCGTGAGAGA
40960023 TCT
1 TCT
40960026 TATTTTCCTT
Statistics
Matches: 425, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
221 425 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (221 bp):
TCTAGTATACAGATGGCACCTTACGAGGCACTGTATGGTTGTAAGTGTCGCACTCCCTTATGCTG
GACTGAGTTGGGTGAACGACGTATTCTGGGTCTGGAGTTGGTTTTTGAGACTGAGGACAAGGTCC
TTTTGATTCGAGATCGGCTGAAAGCGGCTTCTGATAAGGAGAAGTCATATGCAGATTTGAAGCGT
CGAGAGATAGAATATTCCGTGAGAGA
Found at i:40963271 original size:16 final size:17
Alignment explanation
Indices: 40963240--40963272 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
40963230 TTCATAACTA
40963240 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
40963257 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
40963273 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:40963639 original size:46 final size:47
Alignment explanation
Indices: 40963568--40963693 Score: 177
Period size: 46 Copynumber: 2.7 Consensus size: 47
40963558 TACCATAGTG
* * * * *
40963568 TCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTA
40963614 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTA
*
40963660 TCTTTCAACCATAGTCTTACACA-TTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAG
40963694 AGAGCACACT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 4 0.05
46 69 0.95
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTA
Found at i:40967269 original size:22 final size:23
Alignment explanation
Indices: 40967234--40967288 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
40967224 TAAAATATAT
* *
40967234 ATAAATATATAATAAAAAATTCA
1 ATAAAAATAAAATAAAAAATTCA
* *
40967257 A-AAAAATAAAATATATAATTCA
1 ATAAAAATAAAATAAAAAATTCA
40967279 ATAAAAATAA
1 ATAAAAATAA
40967289 TAATTTTCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATAAAATAAAAAATTCA
Found at i:40967528 original size:28 final size:27
Alignment explanation
Indices: 40967497--40967565 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
40967487 ATTTTTGAAT
* *
40967497 TTTTTAAAATTTTTTAACTTTTTTTTTA
1 TTTTTAAAATTTTGTAAC-TATTTTTTA
*
40967525 TTTTTGTAAA-TTTGTAACTATTTTTTA
1 TTTTT-AAAATTTTGTAACTATTTTTTA
*
40967552 TTGGTTAAAATTTT
1 TT-TTTAAAATTTT
40967566 AAAATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 13 0.39
28 17 0.52
29 3 0.09
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (27 bp):
TTTTTAAAATTTTGTAACTATTTTTTA
Found at i:40967603 original size:18 final size:19
Alignment explanation
Indices: 40967560--40967607 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
40967550 TATTGGTTAA
40967560 AATTTTAAAATATTTTTTG
1 AATTTTAAAATATTTTTTG
* *
40967579 AAATTTAAACTATTTTTT-
1 AATTTTAAAATATTTTTTG
*
40967597 ATTTTTAAAAT
1 AATTTTAAAAT
40967608 TTGATTTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTTAAAATATTTTTTG
Found at i:40969136 original size:50 final size:50
Alignment explanation
Indices: 40969081--40969186 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 50
40969071 ACATAAATTT
* * *
40969081 AAAAAAAAAGAGGTAT-AGTAGGAAATAAAAGTTTTGGGGGAAAGTGAAAAG
1 AAAAAATAAGAGGTATAAG--GGAAATAAAAGTTTGGGGGGAAAGTAAAAAG
* * * *
40969132 AAAAAATTGAGGGGTTTAAGGGAAGTAAAAGTTTGGGGGGAAAGTAAAAAG
1 AAAAAA-TAAGAGGTATAAGGGAAATAAAAGTTTGGGGGGAAAGTAAAAAG
40969183 AAAA
1 AAAA
40969187 GTTTTGGGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
51 38 0.83
52 6 0.13
53 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.18
Consensus pattern (50 bp):
AAAAAATAAGAGGTATAAGGGAAATAAAAGTTTGGGGGGAAAGTAAAAAG
Found at i:40969207 original size:50 final size:51
Alignment explanation
Indices: 40969101--40969265 Score: 181
Period size: 51 Copynumber: 3.2 Consensus size: 51
40969091 AGGTATAGTA
* * * ** *
40969101 GGAAATAAAAGTTTTGGGGGAAAGTGAAAAGAAAA-AATTGAGGGGTTTAAG
1 GGAAGTAAAAGTTTAGGGGGAAAGTAAAAAGAAAAGTTTTG-GGGGTTTAGG
*
40969152 GGAAGTAAAAGTTTGGGGGGAAAGTAAAAAGAAAAGTTTTGGGGGTTT-GG
1 GGAAGTAAAAGTTTAGGGGGAAAGTAAAAAGAAAAGTTTTGGGGGTTTAGG
** *
40969202 GGAAGTAAAAGTTTTAGGGGGAAAACAAAAGGAAAAAAGTTTTGGGGGTTTGAGG
1 GGAAGTAAAAG-TTTAGGGGGAAAGTAAAA--AGAAAAGTTTTGGGGGTTT-AGG
40969257 GGAAGTAAA
1 GGAAGTAAA
40969266 TTTTTTTAGG
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
50 12 0.12
51 54 0.55
52 3 0.03
53 18 0.18
55 11 0.11
ACGTcount: A:0.41, C:0.01, G:0.36, T:0.22
Consensus pattern (51 bp):
GGAAGTAAAAGTTTAGGGGGAAAGTAAAAAGAAAAGTTTTGGGGGTTTAGG
Found at i:40982479 original size:6 final size:6
Alignment explanation
Indices: 40982469--40982500 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
40982459 TAGAAAGGGT
*
40982469 GGAGAT GGAGAG GGAGAG GGAGAG GGAGAG GG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GG
40982501 GGAGTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.66, T:0.03
Consensus pattern (6 bp):
GGAGAG
Found at i:40982896 original size:23 final size:23
Alignment explanation
Indices: 40982852--40982896 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
40982842 TTATATTTTA
*
40982852 ATAATTAATTAAATAAATTATTT
1 ATAATTAATTAAATAAAATATTT
*
40982875 ATAATTGATT-AATACAAATATT
1 ATAATTAATTAAATA-AAATATT
40982897 AGACTGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATAATTAATTAAATAAAATATTT
Found at i:40986311 original size:43 final size:42
Alignment explanation
Indices: 40986253--40986403 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
40986243 CAATGCCAAC
**
40986253 GTCCCAGACTTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCCA-T
* * *
40986296 GTCCTAGACAGGGTCTTACATGAAATTAAATA-CGATGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCC-AT
* * * *
40986338 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC
1 GTCCCAGACAGGGTCTTACATGT-AATCA-AATATCGATGCC-AT
*
40986382 GTCCCAGA-TGCGGTCTTACATG
1 GTCCCAGACAG-GGTCTTACATG
40986404 AAAACACATA
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.31
43 32 0.37
44 28 0.32
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCCAT
Found at i:40990215 original size:49 final size:49
Alignment explanation
Indices: 40990137--40990352 Score: 187
Period size: 49 Copynumber: 4.5 Consensus size: 49
40990127 GATGCTGACA
*
40990137 CCATGTCCCAGACATAGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
* * * *
40990187 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAG-GCCGATG
* * * * **
40990236 CCATGTCCCAGACAGGTCTTACACTGAC--ACAGA-A-C-AAGCTAATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
* * * *
40990280 CCATATCCCAGACAGGTTTTACACTAGCTTGT-ATATCGCGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTT-TCATATAGCGAGGCCGATG
* * *
40990329 -TATGTCCCAGACATGCCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
40990353 AGCTCTCGTC
Statistics
Matches: 130, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
44 28 0.22
45 1 0.01
46 3 0.02
47 2 0.02
48 21 0.16
49 61 0.47
50 14 0.11
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAGGCCGATG
Found at i:40990421 original size:46 final size:46
Alignment explanation
Indices: 40990137--40990444 Score: 170
Period size: 46 Copynumber: 6.5 Consensus size: 46
40990127 GATGCTGACA
* *
40990137 CCATGTCCCAGACATAGTCTTACACTGGCTTTCAT-ATAGCGAGGCCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGC--TC-TGATA-CGAGGCTGATG
*
40990187 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTG-TCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTGA--TA-CGAG-GCT-GATG
* * * * *
40990236 CCATGTCCCAGACAGGTCTTACACTGACACAGA-AC-AAGCTAATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTGATACGAGGCTGATG
* * * *
40990280 CCATATCCCAGACAGGTTTTACACTAGCT-TGTATATCGCGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTG-ATA---CGAGGCTGATG
* * * * * * *
40990329 -TATGTCCCAGACATGCCTTACACTAGCTCTCG-TCCCAATG-TCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCT-GAT-ACGAGGCT-GATG
* *
40990375 -CATGTCCCAGACATGTCTTACACTGGCTCTGATACTGTGGCTGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTGATAC-GAGGCTGATG
* *
40990421 -CATGTCCTAGACAAGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
40990445 AGCATACATA
Statistics
Matches: 202, Mismatches: 36, Indels: 44
0.72 0.13 0.16
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 5 0.02
46 64 0.32
47 4 0.02
48 26 0.13
49 58 0.29
50 15 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTCTGATACGAGGCTGATG
Found at i:40992398 original size:75 final size:75
Alignment explanation
Indices: 40992319--40992521 Score: 219
Period size: 75 Copynumber: 2.7 Consensus size: 75
40992309 TTTGCCCTTG
* * * *
40992319 CTAGTCAAATAAACCAACATATATAATGATATGCCCAGCATTAGTCAGATACACTGGCAAAAGTT
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
40992384 GTG-CTCAGCA
66 GTGCCT-AGCA
* * * * * * * *
40992394 CTAGTCAGATAAATCGATAAACATAATGATGTGCCCAACATTATTCAGATAAACTGACGAAAGTT
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
*
40992459 GTGCCTAGCG
66 GTGCCTAGCA
** * * * *
40992469 CTAGTCGTATAAACCAACAGATATAATGATGTGCCTAGCACTAGTTAGATAAA
1 CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAA
40992522 TTAACGATAT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
75 100 0.98
76 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (75 bp):
CTAGTCAAATAAACCAACAAATATAATGATGTGCCCAGCATTAGTCAGATAAACTGACAAAAGTT
GTGCCTAGCA
Found at i:40994115 original size:48 final size:48
Alignment explanation
Indices: 40994045--40994230 Score: 246
Period size: 48 Copynumber: 3.9 Consensus size: 48
40994035 CATTAGGGTT
40994045 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * *
40994093 TTATAAGATTCCATCTAAGACCATGTCTTGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
40994141 ATATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* ** * * * *
40994189 ATATGTGATTTCGTGTAACACCATGTCTGGGACCTGACATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTG
40994231 ATATGAGACA
Statistics
Matches: 117, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:40996831 original size:32 final size:32
Alignment explanation
Indices: 40996770--40996858 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
40996760 ACTAAGTGTG
**
40996770 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
40996802 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
40996834 TATCTAGGTGTAGTTTGATATAGCC
1 TATATATGTGTAGTTGGATAAAGCC
40996859 TATTAAGATG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 41 0.89
33 3 0.07
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:40997030 original size:26 final size:27
Alignment explanation
Indices: 40997001--40997069 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
40996991 TTTGAGGGAT
*
40997001 GCACTAAGTGTGCGAGTTACA-TT-TAA
1 GCACTAAGTGTGCGAATTA-ATTTCTAA
* *
40997027 GCACTATGTGTGTGAATTAATTTCTAA
1 GCACTAAGTGTGCGAATTAATTTCTAA
*
40997054 GCATTAAGTGTGCGAA
1 GCACTAAGTGTGCGAA
40997070 ATCAGTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 1 0.03
26 18 0.51
27 16 0.46
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAATTTCTAA
Found at i:41005459 original size:12 final size:12
Alignment explanation
Indices: 41005442--41005466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41005432 AACATGACCA
41005442 AAACACATATTT
1 AAACACATATTT
41005454 AAACACATATTT
1 AAACACATATTT
41005466 A
1 A
41005467 GCAATATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
AAACACATATTT
Found at i:41006210 original size:7 final size:7
Alignment explanation
Indices: 41006200--41006231 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
41006190 GCACAATACA
41006200 CAATGAG
1 CAATGAG
41006207 CAATGAG
1 CAATGAG
41006214 CAATGAG
1 CAATGAG
*
41006221 CAATAAG
1 CAATGAG
41006228 CAAT
1 CAAT
41006232 TTTATTGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (7 bp):
CAATGAG
Found at i:41006832 original size:88 final size:88
Alignment explanation
Indices: 41006678--41006855 Score: 268
Period size: 88 Copynumber: 2.0 Consensus size: 88
41006668 ATCGGAAGTA
**
41006678 ATCATTTCCACTTTCTCTACTAATTTTCAGTTTTTTGGAATATAAAAGATATTATTTGGGAGGTT
1 ATCATTTCCACTTTCTCTACTAATTTTCAGCCTTTTGGAATATAAAAGATATTATTTGGGAGGTT
* *
41006743 TTGTTTTCTATAGTTCAAAATCG
66 TTGTTGTCGATAGTTCAAAATCG
** * *
41006766 ATCATTTCCACTTTCTCTACTAATTTTTGGCCTTTTGGAATATGAAAGATATT-TTTTGGAGAGT
1 ATCATTTCCACTTTCTCTACTAATTTTCAGCCTTTTGGAATATAAAAGATATTATTTGGGAG-GT
41006830 TTTGTTGTCGATAGTTCAAAATCG
65 TTTGTTGTCGATAGTTCAAAATCG
41006854 AT
1 AT
41006856 TTTTATGAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 7 0.09
88 74 0.91
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (88 bp):
ATCATTTCCACTTTCTCTACTAATTTTCAGCCTTTTGGAATATAAAAGATATTATTTGGGAGGTT
TTGTTGTCGATAGTTCAAAATCG
Found at i:41009082 original size:5 final size:5
Alignment explanation
Indices: 41009072--41009096 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
41009062 AGAGAAAAAT
41009072 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
41009097 ACTACACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:41016515 original size:22 final size:22
Alignment explanation
Indices: 41016490--41016538 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
41016480 TTTTCACTTG
41016490 TTTAAAAAAATGTTTTAATCAA
1 TTTAAAAAAATGTTTTAATCAA
* * *
41016512 TTT-AAAAATTGTTTTACTCGA
1 TTTAAAAAAATGTTTTAATCAA
41016533 TTTAAA
1 TTTAAA
41016539 CATTTTCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (22 bp):
TTTAAAAAAATGTTTTAATCAA
Found at i:41016557 original size:21 final size:22
Alignment explanation
Indices: 41016533--41016573 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
41016523 TTTTACTCGA
41016533 TTTAAACAT-TTTCACTTGATT
1 TTTAAACATGTTTCACTTGATT
*
41016554 TTTAAACTTGTTTCACTTGA
1 TTTAAACATGTTTCACTTGA
41016574 GTTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTAAACATGTTTCACTTGATT
Found at i:41016725 original size:16 final size:17
Alignment explanation
Indices: 41016685--41016717 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41016675 CTTCATCGAT
*
41016685 TCTTTGTTCAAAAATAA
1 TCTTTATTCAAAAATAA
41016702 TCTTTATTCAAAAATA
1 TCTTTATTCAAAAATA
41016718 TTTTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
TCTTTATTCAAAAATAA
Found at i:41021141 original size:17 final size:18
Alignment explanation
Indices: 41021119--41021158 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
41021109 AGGCCAATTT
*
41021119 GGGCATGTGGGCC-ACAC
1 GGGCATGTAGGCCTACAC
*
41021136 GGGCATGTAGGCCTATAC
1 GGGCATGTAGGCCTACAC
41021154 GGGCA
1 GGGCA
41021159 AGACACACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (18 bp):
GGGCATGTAGGCCTACAC
Found at i:41025044 original size:64 final size:64
Alignment explanation
Indices: 41024963--41025134 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 64
41024953 AGACATTATG
* * *
41024963 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAAACAAGAGAGCTACGAGATAA
* * * * * *
41025027 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAAACAAGAGAGCTACGAGAT
41025092 AA
63 AA
* * *
41025094 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
41025135 GTACAACAGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 25 0.29
66 21 0.24
67 32 0.37
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAAACAAGAGAGCTACGAGATAA
Found at i:41033914 original size:26 final size:26
Alignment explanation
Indices: 41033885--41033945 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
41033875 AGAGCAACCA
* * *
41033885 CCAATTCCCCTGCTGTAGCCTCGAAG
1 CCAATTACCCTACTGCAGCCTCGAAG
41033911 CCAATTACCCTACTGCAGCCTCGAAG
1 CCAATTACCCTACTGCAGCCTCGAAG
41033937 CCAAATTAC
1 CC-AATTAC
41033946 TTTTATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (26 bp):
CCAATTACCCTACTGCAGCCTCGAAG
Found at i:41038962 original size:61 final size:58
Alignment explanation
Indices: 41038890--41039017 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 58
41038880 TTAAATATAA
* *** * * *
41038890 AAAAATTAATAAATTTAACCTTCAGTGTTTACAAAATTTGTCATTTTAGTT-TGAATTCT
1 AAAAATTAATAAAATTAACC-TCAACATTTACAAAATTCGTCAATTTAATTCT-AATTCT
41038949 AACAAATTCAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
1 AA-AAATT-AATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
41039009 AAAAATTAA
1 AAAAATTAA
41039018 AGAAAAAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
58 2 0.03
59 7 0.12
60 37 0.63
61 13 0.22
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (58 bp):
AAAAATTAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
Found at i:41039352 original size:55 final size:55
Alignment explanation
Indices: 41039244--41039353 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
41039234 GCAATTGATT
* * * * ** *
41039244 TAGTTTTCCAACATAATAATTGATTTAAACATATAAGTAATTGATTTAAAAGAAG
1 TAGTTTTCCAACATAACAATCGATTTAAACAAAAAAAAAATCGATTTAAAAGAAG
*
41039299 TAGTTTTCCAACATAACAATCGATTTCAACAAAAAAAAAATCGA-TTAAGAAGAAG
1 TAGTTTTCCAACATAACAATCGATTTAAACAAAAAAAAAATCGATTTAA-AAGAAG
41039354 CAGTATTCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 4 0.09
55 42 0.91
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (55 bp):
TAGTTTTCCAACATAACAATCGATTTAAACAAAAAAAAAATCGATTTAAAAGAAG
Found at i:41041164 original size:27 final size:27
Alignment explanation
Indices: 41041119--41041247 Score: 156
Period size: 27 Copynumber: 4.8 Consensus size: 27
41041109 ACCAGATGCA
41041119 ATAT-TGTGGCAGAGCCACCAGAACAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
41041145 ATATATGTAGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
41041172 ATA-ATCGTGGCATAGCCACCAGAACAG
1 ATATAT-GTGGCAGAGCCACCAGAACAG
* * *
41041199 ATATATATGGCAGAGTCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
41041226 ATA-ATTGTGGCATAGCCACCAG
1 ATATA-TGTGGCAGAGCCACCAG
41041248 GACGCTTCCT
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.08
27 78 0.90
28 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
ATATATGTGGCAGAGCCACCAGAACAG
Found at i:41041189 original size:54 final size:54
Alignment explanation
Indices: 41041108--41041247 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
41041098 GTGACGAAGT
* *
41041108 CACCAGATGCA-AT-ATTGTGGCAGAGCCACCAGAACAGATATATGTAGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATATAGCAGAGC
* * *
41041161 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATATGGCAGAGT
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATAGCAGAGC
41041215 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
41041248 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
52 2 0.03
53 10 0.13
54 67 0.85
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATAGCAGAGC
Found at i:41042714 original size:13 final size:13
Alignment explanation
Indices: 41042696--41042721 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41042686 AGAACACTAC
41042696 TATAAAAGTAATA
1 TATAAAAGTAATA
41042709 TATAAAAGTAATA
1 TATAAAAGTAATA
41042722 CAAAGACTTT
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:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
TATAAAAGTAATA
Found at i:41043945 original size:12 final size:11
Alignment explanation
Indices: 41043916--41043945 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
41043906 TTGTAAACAA
41043916 AAATAAAAAAG
1 AAATAAAAAAG
41043927 AAATAAAAAAG
1 AAATAAAAAAG
41043938 AAACTAAA
1 AAA-TAAA
41043946 GAACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:41044649 original size:44 final size:44
Alignment explanation
Indices: 41044587--41044810 Score: 270
Period size: 44 Copynumber: 5.1 Consensus size: 44
41044577 AGGAACACCG
* ** **
41044587 ATCTGTTATTTTTTATCTGCTCTCTGCAAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGCAGCTACAGAGACGCCAA
* * *
41044631 ATCTGTCATCTTTGATCTGCTCTCTTGACA-ATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTC-TG-CAGCTACAGAGACGCCAA
* * * *
41044676 ATCCGTTATCTTCGATCTGCTCTCCGCTGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGCAGCTACAGAGACGCCAA
* * *
41044720 ATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGCAGCTACAGAGACGCCAA
* *
41044764 ATCTGTTATCTTCGATCTGCTTTCTGCAGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGCAGCTACAGAGACGCCAA
41044808 ATC
1 ATC
41044811 ATCTTGGATT
Statistics
Matches: 159, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.01
44 118 0.74
45 38 0.24
46 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCTGCAGCTACAGAGACGCCAA
Found at i:41045586 original size:138 final size:138
Alignment explanation
Indices: 41044974--41045579 Score: 1059
Period size: 138 Copynumber: 4.4 Consensus size: 138
41044964 GTAAGCACAA
41044974 GGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
1 GGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
* * *
41045039 GCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAATCTACTTCACTGC
66 GCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGC
*
41045104 AACTTCAA
131 AACTTCAG
* * *
41045112 GGAGATAAGACTTGTAACTTCGAACTGTTCTACTGTAACTTCAGAGAGATAAGATCTGTAATTTA
1 GGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
* * * * *
41045177 GCTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCAGTGT
66 GCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGC
41045242 AACTTCAG
131 AACTTCAG
41045250 GGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
1 GGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
*
41045315 GCTTCAATCTGTTCCACTGCAACTCCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGC
66 GCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGC
41045380 AACTTCAG
131 AACTTCAG
*
41045388 GGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
1 GGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
* *
41045453 GCTTCAATCTGTTCCATTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCTACTGC
66 GCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGC
41045518 AACTTCAG
131 AACTTCAG
*
41045526 GGAGATAAGACTTATAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 GGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA
41045580 CTTGTAACTT
Statistics
Matches: 441, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 441 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (138 bp):
GGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
GCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGC
AACTTCAG
Found at i:41045692 original size:138 final size:138
Alignment explanation
Indices: 41045361--41046825 Score: 2133
Period size: 138 Copynumber: 10.6 Consensus size: 138
41045351 GATTTACTAT
* * * * * ** *
41045361 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTGCTCTACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* * * * * * *
41045425 ACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAATCTGTTCCATTGCAACTTCAG-GAAAATA
66 ACTTCAGGGAGATAAGACT-TGT-A---A-CTTCGACCTGCTCTACTGCAACTTCAGAG-AGATA
* *
41045488 AGAT-T-T-A-CTAT
124 AGATCTGTAATTTAG
* * * * * * * * *
41045499 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTT-ATAACTTC-GACCTGCTCTACTGC
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAG-TCTGCTCCACTGC
*
41045562 AACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
65 AACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
41045627 GTAATTTAG
130 GTAATTTAG
* * * *
41045636 CTTCAATCTGTTCCACTGCAACATCAGGGAAATATGATTTTCTATCTTTAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* *
41045701 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTC
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
41045766 TAATTTAG
131 TAATTTAG
* *
41045774 CTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* *
41045839 ACTTCAGGGAGATAAGACTTGTAACTTTGACCTGCTCTACT-CAACTTTAGAGAGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
41045903 TAATTTAG
131 TAATTTAG
* * *
41045911 CTTAAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
41045976 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-CTT
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATC-T
*
41046040 GTAACTTAG
130 GTAATTTAG
*
41046049 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTTCTATCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* *
41046114 ACTTCAAGGAGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
41046179 TAATTTAG
131 TAATTTAG
* *
41046187 CTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
*
41046252 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAAATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
41046317 TAATTTAG
131 TAATTTAG
* * * *
41046325 CTTAAATCTGTTTCACTGCAACTTCAGGGAAATATGATTTGCTATATTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
*
41046390 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
41046455 TAATTTAG
131 TAATTTAG
* * *
41046463 TTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATATTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* * *
41046528 ACTTCAAGGAGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGTGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
41046593 TAATTTAG
131 TAATTTAG
* * * *
41046601 CTTCAATTTATTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* * *
41046666 ACTTCAGGGAGATAAGACTTGTAACTTTGACCTGCTTTACTGCAACTTCAGAGATATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
41046731 TAATTTAG
131 TAATTTAG
* * *
41046739 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATATGATTTGCTATCTTCAGGCTGCTCCACAGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* * *
41046804 ACTTCAAGAAGATAAAACTTGT
66 ACTTCAGGGAGATAAGACTTGT
41046826 GAATTCACCG
Statistics
Matches: 1224, Mismatches: 90, Indels: 26
0.91 0.07 0.02
Matches are distributed among these distances:
133 30 0.02
134 3 0.00
135 1 0.00
136 1 0.00
137 168 0.14
138 1018 0.83
139 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (138 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
TAATTTAG
Found at i:41045701 original size:276 final size:274
Alignment explanation
Indices: 41044978--41046825 Score: 2018
Period size: 276 Copynumber: 6.7 Consensus size: 274
41044968 GCACAAGGAG
* * * *
41044978 ATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCT
1 ATAAGATTTCTAACTTC-ATCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGT-A---A-CT
* * * * * * * *
41045042 TCAATCTGTTCCACTGCAACTTCAG-GAAAATAAGAT-T-T-A-CTATCTTCAATCTACTT-CAC
59 TCGACCTGCTCTACTGCAACTTCAGAG-AGATAAGATCTGTAATTTAGCTTCAATCT-GTTCCAC
* * * * * * * *
41045101 TGCAACTTCAAGGAGATAAGACTTG-TAACTTC-GAACTGTTCTACTGTAACTTCAGAGAGATAA
122 TGCAACTTCAGGGAAATAAGATTTGCTATCTTCAG-TCTGCTCCACTGCAACTTCAGAGAGATAA
* * * * * * *
41045164 GA-TCTGTAATTTAGCTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGAT-T-T--GCTATC
186 GACT-TGT-A---A-CTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGC
* * * * *
41045224 TTCAGTCTGCTCCAGTGTAACTTCAGGGAG
245 TTCAATCTGTTCCACTGCAACTTCAGGGAA
* * * *
41045254 ATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCT
1 ATAAGATTTCTAACTTC-ATCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGT-A---A-CT
* * * * * * * * * *
41045318 TCAATCTGTTCCACTGCAACTCCAG-GAAAATAAGAT-T-T-A-CTATCTTCAGTCTGCTCCACT
59 TCGACCTGCTCTACTGCAACTTCAGAG-AGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACT
* * * ** *
41045378 GCAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGA
123 GCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGA
* * * * * * *
41045442 -TCTGTAATTTAGCTTCAATCTGTTCCATTGCAACTTCAG-GAAAATAAGAT-T-T-A-CTATCT
188 CT-TGT-A---A-CTTCGACCTGCTCTACTGCAACTTCAGAG-AGATAAGATCTGTAATCTAGCT
* * * *
41045501 TCAGTCTGCTCTACTGCAACTTCAGGGAG
246 TCAATCTGTTCCACTGCAACTTCAGGGAA
* * * *
41045530 ATAAGACTTATAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACC
1 ATAAGATTTCTAACTTC-ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACC
*
41045595 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACAT
65 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTT
* * * *
41045660 CAGGGAAATATGATTTTCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
130 CAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAA
* * * *
41045725 CTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTCTAATTTAGCTTCAATCTGTTCTAC
195 CTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTCCAC
41045790 TGCAACTTCAGGGAA
260 TGCAACTTCAGGGAA
* * *
41045805 ATAAGATTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTGAC
1 ATAAGATTT-CTAACTTCA-TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGAC
* *
41045870 CTGCTCTACT-CAACTTTAGAGAGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTGCAACT
64 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACT
* * *
41045934 TCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTA
129 TCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTA
41045999 ACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-CTTGTAA-CTTAGCTTCAATCTGTTC
194 ACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATC-TGTAATC-TAGCTTCAATCTGTTC
41046062 CACTGCAACTTCAGGGAA
257 CACTGCAACTTCAGGGAA
* *
41046080 ATAAGATTTTCTATCTTCAGTCTGCTCCACTGCAACTTCA-AGGAGATAAGACTTGTAACTTTGA
1 ATAAGA-TTTCTAACTTCA-TCTGCTCCACTGCAACTTCAGA-GAGATAAGACTTGTAACTTCGA
*
41046144 CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTACAAC
63 CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAAC
* *
41046209 TTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
128 TTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGT
* * * *
41046274 AACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAAATCTGTAATTTAGCTTAAATCTGTTTC
193 AACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTCC
41046339 ACTGCAACTTCAGGGAA
258 ACTGCAACTTCAGGGAA
* *
41046356 ATATGATTTGCTATA-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGA
1 ATAAGATTT-CTA-ACTTCA-TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGA
* *
41046420 CCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGTTTCAATCTGTTCCACTGCAAC
63 CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAAC
* *
41046485 TTCAAGGAAATAAGATTTGCTATATTCAGTCTGCTCCACTGCAACTTCA-AGGAGATAAGACTTG
128 TTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGA-GAGATAAGACTTG
* * * * *
41046549 TAACTTTGACCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTAATTTAGCTTCAATTTATTC
192 TAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTC
*
41046614 CACTGCAACTTCAGGAAA
257 CACTGCAACTTCAGGGAA
* * *
41046632 ATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTGAC
1 ATAAGATTT-CTAACTTC-ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGAC
* *
41046697 CTGCTTTACTGCAACTTCAGAGATATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACT
64 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACT
* * * *
41046762 TCAGGGAAATATGATTTGCTATCTTCAGGCTGCTCCACAGCAACTTCA-AGAAGATAAAACTTGT
129 TCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAG-AGATAAGACTTGT
41046826 GAATTCACCG
Statistics
Matches: 1430, Mismatches: 109, Indels: 66
0.89 0.07 0.04
Matches are distributed among these distances:
271 59 0.04
272 6 0.00
273 2 0.00
274 3 0.00
275 338 0.24
276 1018 0.71
277 4 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (274 bp):
ATAAGATTTCTAACTTCATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCT
GCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTC
AGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAAC
TTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGCTTCAATCTGTTCCACT
GCAACTTCAGGGAA
Found at i:41045839 original size:414 final size:419
Alignment explanation
Indices: 41044998--41046825 Score: 2013
Period size: 414 Copynumber: 4.4 Consensus size: 419
41044988 TAACTTCGAC
* * * *
41044998 CTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAATCTGTTCCACTGCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTAATTTAGCTTCAACCTGCTCCACTGCAAC
* * * * *
41045062 TTCAG-GAAAATAAGAT-T-T-A-CTATCTTCAATCTACT-TCACTGCAACTTCAAGGAGATAAG
65 TTCAGAG-AAATAAGATCTGTAATCTAGCTTAAATCTGCTCTCACTGCAACTTCAGGGAAATAAG
* * * * * *
41045121 ACTTGTAACTTC-GAACTGTTCTACTGTAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAA
129 ACTTATAACTTCAG-TCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGT-A---A-CTTCGA
* * * * * * * * *
41045184 TCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCT-A--T--CTTCAGTCTGCTCCAGTGTAA
187 CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TAATTTAGCTTCAATCTGTTCCACTGCAA
* * * * * *
41045244 CTTCAGGGAGATAAGA-CTTGTAACTTC-GACCTGCTCTACTGCAACTTC-AGAGAGATAAGA-T
251 CTTCAGGGAAATAAGATTTTCTATCTTCAG-TCTGCTCCACTGCAACTTCAAG-GAGATAAGACT
* * * * * * * *
41045305 CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTCCAG-GAAAATAAGAT-T-T-A-CTATCTTC
314 -TGT-A---A-CTTCGACCTGCTCTACTGCAACTTCAGAG-AGATAAGATCTGTAATTTAGCTTC
* * * * * *
41045365 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAAC
372 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAAT
* * * * *
41045412 CTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAATCTGTTCCATTGCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTAATTTAGCTTCAACCTGCTCCACTGCAAC
* * * *
41045476 TTCAG-GAAAATAAGAT-T-T-A-CTATCTTCAGTCTGCTCT-ACTGCAACTTCAGGGAGATAAG
65 TTCAGAG-AAATAAGATCTGTAATCTAGCTTAAATCTGCTCTCACTGCAACTTCAGGGAAATAAG
* *
41045535 ACTTATAACTTC-GACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCT
129 ACTTATAACTTCAG-TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCT
*
41045599 CTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACATCAGG
193 CTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGG
* * *
41045664 GAAATATGATTTTCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTC
258 GAAATAAGATTTTCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTC
* * *
41045729 GACCTACTCTACTGCAACTTCAGAGAGATAAGATCTCTAATTTAGCTTCAATCTGTTCTACTGCA
323 GACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCA
* *
41045794 ACTTCAGGGAAATAAGATTTACTATCTTCAGT
388 ACTTCAGGGAAATAAGATTTGCTATCTTCAAT
*
41045826 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTT-G-----ACCTGCTCTACT-CAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-TTTAGCTTCAACCTGCTCCACTGCAAC
* * * * *
41045884 TTTAGAGAGATAAGATCTGTAATTTAGCTTAAATCTGTTC-CACTGCAACTTCAGGAAAATAAGA
65 TTCAGAGAAATAAGATCTGTAATCTAGCTTAAATCTGCTCTCACTGCAACTTCAGGGAAATAAGA
* * *
41045948 TTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTC
130 CTTA-TAACTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTC
*
41046013 TACTGCAACTTCAGAGAGATAAGA-CTTGTAACTTAGCTTCAATCTGTTCCACTGCAACTTCAGG
194 TACTGCAACTTCAGAGAGATAAGATC-TGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGG
*
41046077 GAAATAAGATTTTCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTT
258 GAAATAAGATTTTCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTC
*
41046142 GACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTACA
323 GACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCA
41046207 ACTTCAGGGAAATAAGATTTGCTATCTTCAAT
388 ACTTCAGGGAAATAAGATTTGCTATCTTCAAT
* *
41046239 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-CTTCGACCTGCTCTACTGCAACT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTAGCTTCAACCTGCTCCACTGCAACT
* * * * * *
41046299 TCAGAGAGATAAAATCTGTAATTTAGCTTAAATCTG-TTTCACTGCAACTTCAGGGAAATATGAT
66 TCAGAGAAATAAGATCTGTAATCTAGCTTAAATCTGCTCTCACTGCAACTTCAGGGAAATAAGAC
* * *
41046363 TTGCTATA-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTACTC
131 TT-ATA-ACTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTC
* *
41046427 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGTTTCAATCTGTTCCACTGCAACTTCAAGG
194 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGG
* * *
41046492 AAATAAGATTTGCTATATTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTG
259 AAATAAGATTTTCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCG
* * *
41046557 ACCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTAATTTAGCTTCAATTTATTCCACTGCAA
324 ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAA
*
41046622 CTTCAGGAAAATAAGATTTGCTATCTTCAAT
389 CTTCAGGGAAATAAGATTTGCTATCTTCAAT
**
41046653 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTT-G-----ACCTGCTTTACTGCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-TTTAGCTTCAACCTGCTCCACTGCAAC
* * * * *
41046712 TTCAGAGATATAAGATCTGTAATTTAGCTTCAATCTGTTC-CACTGCAACTTCAGGGAAATATGA
65 TTCAGAGAAATAAGATCTGTAATCTAGCTTAAATCTGCTCTCACTGCAACTTCAGGGAAATAAGA
* * * * * *
41046776 TTTGCTATCTTCAGGCTGCTCCACAGCAACTTCA-AGAAGATAAAACTTGT
130 CTT-ATAACTTCAGTCTGCTCCACTGCAACTTCAGAG-AGATAAGACTTGT
41046826 GAATTCACCG
Statistics
Matches: 1260, Mismatches: 106, Indels: 96
0.86 0.07 0.07
Matches are distributed among these distances:
408 17 0.01
409 75 0.06
410 5 0.00
411 3 0.00
412 39 0.03
413 384 0.30
414 725 0.58
415 12 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (419 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTAGCTTCAACCTGCTCCACTGCAACT
TCAGAGAAATAAGATCTGTAATCTAGCTTAAATCTGCTCTCACTGCAACTTCAGGGAAATAAGAC
TTATAACTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTA
CTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAA
ATAAGATTTTCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCGAC
CTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACT
TCAGGGAAATAAGATTTGCTATCTTCAAT
Found at i:41050770 original size:19 final size:19
Alignment explanation
Indices: 41050746--41050812 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
41050736 GGGAAAATCT
*
41050746 AATGCAAATGATGCAATAC
1 AATGCAAATGATGCAATGC
*
41050765 AATGCATATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
41050784 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
41050803 AATGCAAATG
1 AATGCAAATG
41050813 CATGGGATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:41050783 original size:5 final size:5
Alignment explanation
Indices: 41050756--41050814 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
41050746 AATGCAAATG
*
41050756 ATGCA ATACA ATGCA TATG-- ATGCA ATGCA ATGCA CATG-- ATGCA ATGCA
1 ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA
41050804 ATGCAA ATGCA
1 ATGC-A ATGCA
41050815 TGGGATGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
3 6 0.13
5 28 0.62
6 11 0.24
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:41050825 original size:24 final size:24
Alignment explanation
Indices: 41050775--41050828 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
41050765 AATGCATATG
*
41050775 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
41050799 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
41050823 ATGCAA
1 ATGCAA
41050829 AAGAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:41050826 original size:38 final size:38
Alignment explanation
Indices: 41050746--41050829 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
41050736 GGGAAAATCT
*
41050746 AATGCAAATGATGCAATACAATGCATATGATGCAATGC
1 AATGCAAATGATGCAATACAATGCAAATGATGCAATGC
* * **
41050784 AATGCACATGATGCAATGCAATGCAAATGCATGGGATG-
1 AATGCAAATGATGCAATACAATGCAAATG-ATGCAATGC
41050822 AATGCAAA
1 AATGCAAA
41050830 AGAAAGAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 33 0.85
39 6 0.15
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (38 bp):
AATGCAAATGATGCAATACAATGCAAATGATGCAATGC
Found at i:41054434 original size:12 final size:11
Alignment explanation
Indices: 41054405--41054434 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
41054395 TTGTAAACAA
41054405 AAATAAAAAAG
1 AAATAAAAAAG
41054416 AAATAAAAAAG
1 AAATAAAAAAG
41054427 AAACTAAA
1 AAA-TAAA
41054435 GAACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:41054503 original size:13 final size:14
Alignment explanation
Indices: 41054476--41054508 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
41054466 GAAATCCACC
41054476 TTTTCTTTGTGTTT
1 TTTTCTTTGTGTTT
*
41054490 TTTTCTTT-TTTTT
1 TTTTCTTTGTGTTT
41054503 TTTTCT
1 TTTTCT
41054509 GAAATCCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTCTTTGTGTTT
Found at i:41056423 original size:26 final size:26
Alignment explanation
Indices: 41056392--41056499 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
41056382 TGAAATGTCC
* *
41056392 ATCATGGAACATTTAACTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
41056418 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
41056444 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
41056470 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
41056496 ATCA
1 ATCA
41056500 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:41063245 original size:11 final size:10
Alignment explanation
Indices: 41063196--41063257 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 10
41063186 TATAAGATTT
41063196 AAAATTAT-A
1 AAAATTATAA
41063205 AAAATATATAA
1 AAAAT-TATAA
*
41063216 AAACTTCATAA
1 AAAATT-ATAA
*
41063227 ACAA--ATAA
1 AAAATTATAA
41063235 AAAA-TATATA
1 AAAATTATA-A
41063245 AAAATTATAA
1 AAAATTATAA
41063255 AAA
1 AAA
41063258 TGTATTGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.16
9 8 0.19
10 13 0.30
11 15 0.35
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATTATAA
Found at i:41063257 original size:9 final size:9
Alignment explanation
Indices: 41063178--41063258 Score: 69
Period size: 9 Copynumber: 8.7 Consensus size: 9
41063168 AAATTGTAAA
41063178 AAAAATTAT
1 AAAAATTAT
*
41063187 ATAAGATT-T
1 A-AAAATTAT
41063196 -AAAATTAT
1 AAAAATTAT
41063204 AAAAATATAT
1 AAAAAT-TAT
41063214 AAAAACTTCAT
1 AAAAA-TT-AT
*
41063225 AAACAAATA-
1 AAA-AATTAT
41063234 AAAAATATAT
1 AAAAAT-TAT
41063244 AAAAATTAT
1 AAAAATTAT
41063253 AAAAAT
1 AAAAAT
41063259 GTATTGCATT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
7 5 0.08
8 3 0.05
9 21 0.36
10 21 0.36
11 7 0.12
12 2 0.03
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:41065631 original size:121 final size:121
Alignment explanation
Indices: 41065417--41065661 Score: 454
Period size: 121 Copynumber: 2.0 Consensus size: 121
41065407 AGTCGAAGTA
* * *
41065417 AGATGAGAAGTTTACTGATTGTTTTAACCAACAACGGTGTTGTTGGTAGAGGACAGACTCTTTGT
1 AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
41065482 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
66 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
*
41065538 AGATGAAAAGTTTACTGATTGTTTTAGCCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
1 AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
41065603 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
66 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
41065659 AGA
1 AGA
41065662 CACAGCCTGA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (121 bp):
AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
Found at i:41069887 original size:29 final size:30
Alignment explanation
Indices: 41069842--41069901 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
41069832 TAAAAAAAAG
41069842 TAAATTTTTTTTTGAAATCAAGAACAAACC
1 TAAATTTTTTTTTGAAATCAAGAACAAACC
41069872 TAAA-TTTTTTTTGAAATCAAGAACAAACC
1 TAAATTTTTTTTTGAAATCAAGAACAAACC
41069901 T
1 T
41069902 GGGCAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (30 bp):
TAAATTTTTTTTTGAAATCAAGAACAAACC
Found at i:41072395 original size:28 final size:30
Alignment explanation
Indices: 41072348--41072404 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
41072338 TATTTTATTA
41072348 TTAATTTTGTTATTATTTTA-AAGGCATTTG
1 TTAATTTTGTTATTATTTTAGAA-GCATTTG
41072378 TTAATTTT-TT-TTATTTTAGAAGCATTT
1 TTAATTTTGTTATTATTTTAGAAGCATTT
41072405 ACTTGTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 8 0.31
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAGAAGCATTTG
Found at i:41073381 original size:18 final size:18
Alignment explanation
Indices: 41073358--41073400 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
41073348 CCACGTTAGT
*
41073358 AAAAAAGTATATTTT-CAA
1 AAAAAAATAT-TTTTACAA
*
41073376 AAAAAAATCTTTTTACAA
1 AAAAAAATATTTTTACAA
41073394 AAAAAAA
1 AAAAAAA
41073401 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAAATATTTTTACAA
Found at i:41091161 original size:39 final size:39
Alignment explanation
Indices: 41091102--41091264 Score: 227
Period size: 39 Copynumber: 4.2 Consensus size: 39
41091092 TTTAACCCGA
** * *
41091102 ATATTTTTCCAGCACGTAGCCTGCAGACCTCAAGTCTGG
1 ATATTTTTCCAGCATATAGCCTGCAGACCTCATGTCCGG
* * *
41091141 ATATATTTCTAGCATATAGCCTGCGGACCTCATGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCAGACCTCATGTCCGG
* * *
41091180 ATATTTTTCCAGCATATAGCTTGCAAACCTCATGTCTGG
1 ATATTTTTCCAGCATATAGCCTGCAGACCTCATGTCCGG
*
41091219 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCAGACCTCATGTCCGG
41091258 ATATTTT
1 ATATTTT
41091265 CAATCTCATA
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (39 bp):
ATATTTTTCCAGCATATAGCCTGCAGACCTCATGTCCGG
Found at i:41091210 original size:78 final size:78
Alignment explanation
Indices: 41091102--41091264 Score: 263
Period size: 78 Copynumber: 2.1 Consensus size: 78
41091092 TTTAACCCGA
* * *
41091102 ATATTTTTCCAGCACGTAGCCTGCAGACCTCAAGTCTGGATATATTTCTAGCATATAGCCTGCGG
1 ATATTTTTCCAGCACATAGCCTGCAAACCTCAAGTCTGGATATATTTCCAGCATATAGCCTGCGG
41091167 ACCTCATGTCCGG
66 ACCTCATGTCCGG
* * * *
41091180 ATATTTTTCCAGCATATAGCTTGCAAACCTCATGTCTGGATATTTTTCCAGCATATAGCCTGCGG
1 ATATTTTTCCAGCACATAGCCTGCAAACCTCAAGTCTGGATATATTTCCAGCATATAGCCTGCGG
41091245 ACCTCATGTCCGG
66 ACCTCATGTCCGG
41091258 ATATTTT
1 ATATTTT
41091265 CAATCTCATA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (78 bp):
ATATTTTTCCAGCACATAGCCTGCAAACCTCAAGTCTGGATATATTTCCAGCATATAGCCTGCGG
ACCTCATGTCCGG
Found at i:41098301 original size:19 final size:19
Alignment explanation
Indices: 41098274--41098310 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41098264 TTTTGGATAC
*
41098274 TATTGACATGTCAGTAAGT
1 TATTCACATGTCAGTAAGT
41098293 TATTCACATGTCAGTAAG
1 TATTCACATGTCAGTAAG
41098311 CCCGGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (19 bp):
TATTCACATGTCAGTAAGT
Found at i:41111813 original size:57 final size:57
Alignment explanation
Indices: 41111744--41111874 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 57
41111734 TCGATTTTGA
*
41111744 AAATGGCACTTAGTGTGCGAGTTA-CTGAGGACGACACTTAGTGTGCGAAACATCCAG
1 AAATGGCACTTAGTGTGCGAATTATC-GAGGACGACACTTAGTGTGCGAAACATCCAG
* * * * * *
41111801 AAATGGCTCTTAGTGAGCGAATTATCGAGGATGGCACTTAGTGTGCGAGATATCCAG
1 AAATGGCACTTAGTGTGCGAATTATCGAGGACGACACTTAGTGTGCGAAACATCCAG
* *
41111858 -GACGGCACTTAGTGTGC
1 AAATGGCACTTAGTGTGC
41111875 AATACATCCG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 13 0.21
57 48 0.77
58 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (57 bp):
AAATGGCACTTAGTGTGCGAATTATCGAGGACGACACTTAGTGTGCGAAACATCCAG
Found at i:41111843 original size:28 final size:28
Alignment explanation
Indices: 41111746--41111874 Score: 118
Period size: 28 Copynumber: 4.6 Consensus size: 28
41111736 GATTTTGAAA
* *
41111746 ATGGCACTTAGTGTGCGAGTTA-CTGAGG
1 ATGGCACTTAGTGTGCGAATTATC-CAGG
* * ** *
41111774 ACGACACTTAGTGTGCGAAACATCCAGAA
1 ATGGCACTTAGTGTGCGAATTATCCAG-G
* * *
41111803 ATGGCTCTTAGTGAGCGAATTATCGAGG
1 ATGGCACTTAGTGTGCGAATTATCCAGG
41111831 ATGGCACTTAGTGTGCGAGA-TATCCAGG
1 ATGGCACTTAGTGTGCGA-ATTATCCAGG
*
41111859 ACGGCACTTAGTGTGC
1 ATGGCACTTAGTGTGC
41111875 AATACATCCG
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
28 57 0.72
29 22 0.28
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAATTATCCAGG
Found at i:41114106 original size:78 final size:77
Alignment explanation
Indices: 41113934--41114173 Score: 281
Period size: 78 Copynumber: 3.1 Consensus size: 77
41113924 TTGAATGATG
* * * * *
41113934 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
41113998 TGTCGAGTACTAA
65 TGTCGAGTACTAA
*
41114011 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
41114073 TGTGCGAGTTACTAAA
65 TGT-CGAG-TACT-AA
* * * *
41114089 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
*
41114154 GAACGAGTAGCTATA
66 G-TCGAGTA-CTA-A
41114169 TCCGG
1 TCCGG
41114174 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 11, Indels: 19
0.82 0.06 0.11
Matches are distributed among these distances:
75 14 0.10
76 15 0.11
77 29 0.21
78 44 0.31
79 13 0.09
80 26 0.18
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (77 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTCGAGTACTAA
Found at i:41114168 original size:40 final size:39
Alignment explanation
Indices: 41113934--41114154 Score: 274
Period size: 40 Copynumber: 5.7 Consensus size: 39
41113924 TTGAATGATG
* * *
41113934 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
41113974 TCCGGACTAAGAT-CCGAAGGCATTTGT-CGAG-TACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
41114011 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
41114050 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
41114089 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
41114129 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41114155 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 9, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
37 28 0.17
38 31 0.19
39 31 0.19
40 68 0.41
41 6 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:41120449 original size:19 final size:18
Alignment explanation
Indices: 41120408--41120449 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
41120398 GTCTAGAAGT
41120408 AATT-ATGAATGTGTGAA
1 AATTCATGAATGTGTGAA
*
41120425 ATTTCATGAATGTGTGGAA
1 AATTCATGAATGTGT-GAA
41120444 AATTCA
1 AATTCA
41120450 AGCTTCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
19 8 0.38
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (18 bp):
AATTCATGAATGTGTGAA
Found at i:41134956 original size:29 final size:27
Alignment explanation
Indices: 41134938--41135007 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
41134928 ATATTAAGTC
41134938 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
41134965 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
41134993 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
41135008 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:41135001 original size:28 final size:28
Alignment explanation
Indices: 41134938--41135035 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
41134928 ATATTAAGTC
*
41134938 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
41134965 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41134993 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
41135022 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41135036 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41143032 original size:29 final size:27
Alignment explanation
Indices: 41143014--41143083 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
41143004 ATATTAAGTC
41143014 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
41143041 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
41143069 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
41143084 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:41143077 original size:28 final size:28
Alignment explanation
Indices: 41143014--41143111 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
41143004 ATATTAAGTC
*
41143014 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
41143041 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41143069 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
41143098 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41143112 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41154033 original size:65 final size:66
Alignment explanation
Indices: 41153929--41154075 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
41153919 TATATTCACT
* *
41153929 ATTTATATATATATTACAAGTTTTTAATAAATAATAAATTA-TTTTTGAGTTTTTACACATTTAA
1 ATTTATATATATTTTACAAGTTTTTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAA
41153993 A
66 A
* * * *
41153994 ATTTATATATATTTTA-GATTTTATTAATAAATAATAAATTATTTTTTGATTTTTTAAACATTTG
1 ATTTATATATATTTTACAAGTTT-TTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTA
41154058 AA
65 AA
*
41154060 ATCTATATATATTTTA
1 ATTTATATATATTTTA
41154076 AAAACTTTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
64 4 0.05
65 33 0.45
66 36 0.49
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (66 bp):
ATTTATATATATTTTACAAGTTTTTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAA
A
Found at i:41154093 original size:9 final size:9
Alignment explanation
Indices: 41154070--41154104 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
41154060 ATCTATATAT
41154070 ATTTTAAAA
1 ATTTTAAAA
41154079 ACTTTTAAAA
1 A-TTTTAAAA
41154089 ATTTTAAAA
1 ATTTTAAAA
41154098 ATTTTAA
1 ATTTTAA
41154105 TTTTTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:41154742 original size:21 final size:21
Alignment explanation
Indices: 41154716--41154758 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41154706 AATTGAATTG
* *
41154716 ATTTTTTTACAAATTTTTAATA
1 ATTTTTATA-AAAATTTTAATA
41154738 ATTTTTATAAAAATTTTAATA
1 ATTTTTATAAAAATTTTAATA
41154759 TTATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTATAAAAATTTTAATA
Found at i:41157094 original size:12 final size:12
Alignment explanation
Indices: 41157077--41157110 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
41157067 CTGCCCGTCC
41157077 ATATTAATTTTT
1 ATATTAATTTTT
*
41157089 ATATTATTTTTT
1 ATATTAATTTTT
41157101 ATA-TAATTTT
1 ATATTAATTTT
41157111 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:41159731 original size:22 final size:22
Alignment explanation
Indices: 41159699--41159766 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
41159689 GTCCCTAGGT
*
41159699 CACACGAGCGTGTGCCT-CTATC
1 CACACGGGCGTGTGCCTCCT-TC
41159721 CACACGGGCGTGAT-CCTCCTTC
1 CACACGGGCGTG-TGCCTCCTTC
* *
41159743 CATAAGGGCGTGTGCC-CC-TC
1 CACACGGGCGTGTGCCTCCTTC
41159763 CACA
1 CACA
41159767 TAGGCATGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.13
21 3 0.08
22 28 0.72
23 3 0.08
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.21
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTCCTTC
Found at i:41161448 original size:40 final size:40
Alignment explanation
Indices: 41161354--41161498 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
41161344 TACTCGAATG
*
41161354 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
41161395 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
41161435 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
41161475 ATATTCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
41161499 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:41173303 original size:19 final size:19
Alignment explanation
Indices: 41173281--41173319 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
41173271 TATGTATTTC
41173281 TTATTCATT-TTTATTTTAT
1 TTATT-ATTCTTTATTTTAT
*
41173300 TTATTATTCTTTGTTTTAT
1 TTATTATTCTTTATTTTAT
41173319 T
1 T
41173320 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (19 bp):
TTATTATTCTTTATTTTAT
Found at i:41173321 original size:22 final size:21
Alignment explanation
Indices: 41173263--41173328 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
41173253 CCCTTCACTT
41173263 ATTTTATTTATGTATTTCTTATTC
1 ATTTT-TTTAT-TATTT-TTATTC
41173287 ATTTTTATT-TTATTTATTATTC
1 ATTTTT-TTATTATTT-TTATTC
41173309 -TTTGTTTTATTATTTTTATT
1 ATTT-TTTTATTATTTTTATT
41173329 TCCCTTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 10 0.26
22 19 0.50
23 2 0.05
24 7 0.18
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.73
Consensus pattern (21 bp):
ATTTTTTTATTATTTTTATTC
Found at i:41173524 original size:3 final size:3
Alignment explanation
Indices: 41173516--41173563 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
41173506 TTGTGTTTTC
*
41173516 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
41173564 ATTTTTAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:41175756 original size:29 final size:28
Alignment explanation
Indices: 41175715--41175772 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
41175705 TTCCCTTTTC
41175715 ATTAAGAACAAAGCTAAACAGTGGATGA
1 ATTAAGAACAAAGCTAAACAGTGGATGA
* *
41175743 ATTAAGGAACAAAGCTAAATAGTGGTTGA
1 ATTAA-GAACAAAGCTAAACAGTGGATGA
41175772 A
1 A
41175773 CTCGTTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.21
Consensus pattern (28 bp):
ATTAAGAACAAAGCTAAACAGTGGATGA
Found at i:41178424 original size:94 final size:94
Alignment explanation
Indices: 41178261--41178444 Score: 305
Period size: 94 Copynumber: 2.0 Consensus size: 94
41178251 GCGACATGCC
* * *
41178261 CGTGTCTAACACCCGTGGCCAAACCTGTCAAATTAACACGGGCGTGGGGTTTTCATACACGGGCG
1 CGTGTCTAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCG
*
41178326 TAGGAGAAGTGAACAACGCCAGCCATGGG
66 TAGGAGAAGCGAACAACGCCAGCCATGGG
* * *
41178355 CGTGTTTAACACCCGTGGCCAAACCTGTCAAATTAACACTAGCGTGGAGTTTTCATACACAGGCT
1 CGTGTCTAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCG
41178420 TAGGAGAAGCGAACAACGCCAGCCA
66 TAGGAGAAGCGAACAACGCCAGCCA
41178445 GGTCGTGCGA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 83 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (94 bp):
CGTGTCTAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCG
TAGGAGAAGCGAACAACGCCAGCCATGGG
Found at i:41184633 original size:39 final size:39
Alignment explanation
Indices: 41184590--41184798 Score: 301
Period size: 39 Copynumber: 5.3 Consensus size: 39
41184580 GGTCTTTAAC
** * *
41184590 CCGGATATTTTTCCAGCACGTAGCCTGCAGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
41184629 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
41184668 TCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
41184707 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
41184746 CCGGATATTTTTCCAGCATATAGCCTGTGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
41184785 CCGGATATATTTTC
1 CCGGATAT-TTTTC
41184799 AATCTCATAC
Statistics
Matches: 150, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 145 0.97
40 5 0.03
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:41184701 original size:78 final size:78
Alignment explanation
Indices: 41184590--41184796 Score: 360
Period size: 78 Copynumber: 2.7 Consensus size: 78
41184580 GGTCTTTAAC
** * *
41184590 CCGGATATTTTTCCAGCACGTAGCCTGCAGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCT
41184655 GCGGATCTCATGT
66 GCGGATCTCATGT
*
41184668 TCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCT
41184733 GCGGATCTCATGT
66 GCGGATCTCATGT
*
41184746 CCGGATATTTTTCCAGCATATAGCCTGTGGACCTCATGTCCGGATATATTT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTT
41184797 TCAATCTCAT
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 122 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (78 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCT
GCGGATCTCATGT
Found at i:41192643 original size:14 final size:14
Alignment explanation
Indices: 41192624--41192651 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41192614 AATGAGGTTA
41192624 GGAGATAAGTTTTT
1 GGAGATAAGTTTTT
41192638 GGAGATAAGTTTTT
1 GGAGATAAGTTTTT
41192652 CGAGTAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GGAGATAAGTTTTT
Found at i:41194179 original size:11 final size:11
Alignment explanation
Indices: 41194163--41194192 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
41194153 CTCTTTTAAC
41194163 CATTTAAAATT
1 CATTTAAAATT
41194174 CATTTAAAATT
1 CATTTAAAATT
*
41194185 CACTTAAA
1 CATTTAAA
41194193 TTAAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (11 bp):
CATTTAAAATT
Found at i:41195619 original size:14 final size:14
Alignment explanation
Indices: 41195620--41195658 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
41195610 ATAAAATTTA
*
41195620 AAAATTT-AAAACT
1 AAAATTTAAAAAAT
*
41195633 ATAATTTAAAAAAT
1 AAAATTTAAAAAAT
41195647 AAAATTTAAAAA
1 AAAATTTAAAAA
41195659 TTTAAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTTAAAAAAT
Found at i:41195624 original size:13 final size:13
Alignment explanation
Indices: 41195620--41195659 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
41195610 ATAAAATTTA
*
41195620 AAAATTTAAAACT
1 AAAATTTAAAAAT
*
41195633 ATAATTTAAAAAAT
1 AAAATTT-AAAAAT
41195647 AAAATTTAAAAAT
1 AAAATTTAAAAAT
41195660 TTAAAACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTTAAAAAT
Found at i:41195625 original size:8 final size:8
Alignment explanation
Indices: 41195574--41195694 Score: 67
Period size: 8 Copynumber: 15.5 Consensus size: 8
41195564 AGAAATAATT
41195574 ATTTAAAA
1 ATTTAAAA
*
41195582 TATTAAAAA
1 -ATTTAAAA
*
41195591 ATTAAAGATA
1 ATTTAA-A-A
41195601 ATTTAAAA
1 ATTTAAAA
*
41195609 A-AT-AAA
1 ATTTAAAA
41195615 ATTTAAAA
1 ATTTAAAA
41195623 ATTT-AAA
1 ATTTAAAA
* *
41195630 A-CT-ATA
1 ATTTAAAA
41195636 ATTTAAAA
1 ATTTAAAA
*
41195644 A-AT-AAA
1 ATTTAAAA
41195650 ATTTAAAA
1 ATTTAAAA
41195658 ATTTAAAA
1 ATTTAAAA
* * *
41195666 CTATATAA
1 ATTTAAAA
41195674 ATTTCAAAA
1 ATTT-AAAA
*
41195683 ATCTAAAA
1 ATTTAAAA
41195691 ATTT
1 ATTT
41195695 TGGAAAACAA
Statistics
Matches: 85, Mismatches: 18, Indels: 19
0.70 0.15 0.16
Matches are distributed among these distances:
6 12 0.14
7 9 0.11
8 43 0.51
9 15 0.18
10 6 0.07
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (8 bp):
ATTTAAAA
Found at i:41195644 original size:35 final size:35
Alignment explanation
Indices: 41195577--41195670 Score: 147
Period size: 35 Copynumber: 2.7 Consensus size: 35
41195567 AATAATTATT
* *
41195577 TAAAATATTAAAAAATT-AAA-GATAATTTAAAAAA
1 TAAAAT-TTAAAAATTTAAAACTATAATTTAAAAAA
41195611 TAAAATTTAAAAATTTAAAACTATAATTTAAAAAA
1 TAAAATTTAAAAATTTAAAACTATAATTTAAAAAA
41195646 TAAAATTTAAAAATTTAAAACTATA
1 TAAAATTTAAAAATTTAAAACTATA
41195671 TAAATTTCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
33 9 0.16
34 9 0.16
35 38 0.68
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (35 bp):
TAAAATTTAAAAATTTAAAACTATAATTTAAAAAA
Found at i:41195646 original size:22 final size:22
Alignment explanation
Indices: 41195600--41195644 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
41195590 AATTAAAGAT
41195600 AATTTAAAAAATAAAATTTAAA
1 AATTTAAAAAATAAAATTTAAA
* *
41195622 AATTT-AAAACTATAATTTAAA
1 AATTTAAAAAATAAAATTTAAA
41195643 AA
1 AA
41195645 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTTAAAAAATAAAATTTAAA
Found at i:41195935 original size:21 final size:22
Alignment explanation
Indices: 41195909--41195956 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
41195899 TTTAGATTTC
*
41195909 ATAAATATTGT-TAAAGAGT-TA
1 ATAAATATTCTCTAAA-AGTATA
41195930 ATAAATATTCTCTAAAAGTATA
1 ATAAATATTCTCTAAAAGTATA
41195952 ATAAA
1 ATAAA
41195957 ATACTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
ATAAATATTCTCTAAAAGTATA
Found at i:41199367 original size:22 final size:21
Alignment explanation
Indices: 41199310--41199351 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
41199300 ATTTTTCGAA
41199310 GAAATTGGTTTAAAAAAAGAT
1 GAAATTGGTTTAAAAAAAGAT
41199331 GAAATTGGTTTAAAAAAAGAT
1 GAAATTGGTTTAAAAAAAGAT
41199352 ACATTAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (21 bp):
GAAATTGGTTTAAAAAAAGAT
Found at i:41200186 original size:76 final size:76
Alignment explanation
Indices: 41200060--41200213 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
41200050 CCAAATAGAT
41200060 TAAAGATATCCTATGAGGGTAACACACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
1 TAAAGATATCCTATGAGGGTAACACACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
41200125 TTTCCTAATGG
66 TTTCCTAATGG
*
41200136 TAAAGATATCCTATGAGGGTAACATACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
1 TAAAGATATCCTATGAGGGTAACACACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
41200201 TTTCCTAATGG
66 TTTCCTAATGG
41200212 TA
1 TA
41200214 TGTAATAAGG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (76 bp):
TAAAGATATCCTATGAGGGTAACACACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
TTTCCTAATGG
Found at i:41216068 original size:58 final size:58
Alignment explanation
Indices: 41215974--41216089 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
41215964 CGGTGCCTCT
* *
41215974 GTTTGCACTTTGGTGCCTATGTTAGCATTTCGATGCTCTCTAGTGTAATTGGGCTAGC
1 GTTTGCACTTTGGTGCCTATGTTAGCATTTCAATGCTCTCTAGTATAATTGGGCTAGC
* * *
41216032 GTTTGCA-TTTCGGTGCCTATGTTAGCATTTTAATGCTCTCTAGTATGATTGGGTTAGC
1 GTTTGCACTTT-GGTGCCTATGTTAGCATTTCAATGCTCTCTAGTATAATTGGGCTAGC
41216090 TGAGTATCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 3 0.06
58 49 0.94
ACGTcount: A:0.16, C:0.17, G:0.25, T:0.41
Consensus pattern (58 bp):
GTTTGCACTTTGGTGCCTATGTTAGCATTTCAATGCTCTCTAGTATAATTGGGCTAGC
Found at i:41217781 original size:38 final size:38
Alignment explanation
Indices: 41217711--41217794 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
41217701 CACGAAATGA
* *
41217711 ATCCTAGCACACGAAGTGCATATTGACCCACAAAGCGC
1 ATCCTAGCACACGAAGTGAATATTGACACACAAAGCGC
* * *
41217749 ATCCTGGCACACGAAGTGAATCTT-ATCACACAAAGTGC
1 ATCCTAGCACACGAAGTGAATATTGA-CACACAAAGCGC
*
41217787 ATCTTAGC
1 ATCCTAGC
41217795 GCATAAGCGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.03
38 37 0.97
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (38 bp):
ATCCTAGCACACGAAGTGAATATTGACACACAAAGCGC
Found at i:41217784 original size:19 final size:19
Alignment explanation
Indices: 41217756--41217792 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41217746 CGCATCCTGG
*
41217756 CACACGAAGTGAATCTTAT
1 CACACAAAGTGAATCTTAT
*
41217775 CACACAAAGTGCATCTTA
1 CACACAAAGTGAATCTTA
41217793 GCGCATAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (19 bp):
CACACAAAGTGAATCTTAT
Found at i:41224971 original size:30 final size:30
Alignment explanation
Indices: 41224937--41224998 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
41224927 ATGGCATGTC
41224937 ATGAAAACAGCAGCCGCAAAGAATGCAATG
1 ATGAAAACAGCAGCCGCAAAGAATGCAATG
*
41224967 ATGAAAACAGCAGCCGCAAAGAATGCGATG
1 ATGAAAACAGCAGCCGCAAAGAATGCAATG
41224997 AT
1 AT
41224999 CATTCAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (30 bp):
ATGAAAACAGCAGCCGCAAAGAATGCAATG
Found at i:41228370 original size:25 final size:22
Alignment explanation
Indices: 41228325--41228371 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
41228315 TTTTACAACT
41228325 TTAGAAATATAACCATTAGAGA
1 TTAGAAATATAACCATTAGAGA
*
41228347 TTAGAACTCATAACACATTTAGAGA
1 TTAGAAAT-ATAAC-CA-TTAGAGA
41228372 ATTTTGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 5 0.24
24 2 0.10
25 7 0.33
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (22 bp):
TTAGAAATATAACCATTAGAGA
Found at i:41235425 original size:173 final size:172
Alignment explanation
Indices: 41235130--41235459 Score: 489
Period size: 173 Copynumber: 1.9 Consensus size: 172
41235120 TTTCTACATT
* * * *
41235130 ATTGATTATTCAGTGATTTTACCATATTGAGCTATGCTCATAATGTTTTGTAGTTTGGCAGATGG
1 ATTGATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACGG
* * * *
41235195 GTTATGGGGAACTCGTGGTGTGTAGTGAATGGTATAAGTAGGAAATTTTTAGCATTGCATCAAGT
66 GTTATAGAGAACGCGTGGTGTGTAGCGAATGGTATAAGTAGGAAATTTTTAGCATTGCATCAAGT
41235260 GCACGACATATTCGAATGTTATTGATTGATGCAATACACGAC
131 GCACGACATATTCGAATGTTATTGATTGATGCAATACACGAC
* *
41235302 ATTGTATTATTCAGTGGTTTTACGACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACG
1 ATTG-ATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACG
* * * * * **
41235367 GGTTATAGAGAACGCGTGGTGTGTAGCGGATGGTATAGGTAGGAACTTTTTTGCATTGCGTCATT
65 GGTTATAGAGAACGCGTGGTGTGTAGCGAATGGTATAAGTAGGAAATTTTTAGCATTGCATCAAG
*
41235432 TGCATGACATATTCGAATGTTATTGATT
130 TGCACGACATATTCGAATGTTATTGATT
41235460 TATGTTACGC
Statistics
Matches: 139, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
172 4 0.03
173 135 0.97
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (172 bp):
ATTGATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACGG
GTTATAGAGAACGCGTGGTGTGTAGCGAATGGTATAAGTAGGAAATTTTTAGCATTGCATCAAGT
GCACGACATATTCGAATGTTATTGATTGATGCAATACACGAC
Found at i:41237778 original size:55 final size:53
Alignment explanation
Indices: 41237653--41237842 Score: 224
Period size: 55 Copynumber: 3.5 Consensus size: 53
41237643 AACTTACCAT
* * *
41237653 TGCCATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGAG-A-CCTTGCCTTATAGAACTCATCAA
* *
41237706 TGCCATGCCTTGGCATGGTCTTACATGAGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGAGACC-TTGCCTTATAG-AACTCATCAA
* **
41237761 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACAT-ATCAA
1 TGCCATGCCTTGACATGGTCTTACATGA-GACCTTGCCTTATAGAAC-TCATCAA
*
41237815 TGCCATGCCTTGGCATGGTCTTACATGA
1 TGCCATGCCTTGACATGGTCTTACATGA
41237843 TATCCTTATC
Statistics
Matches: 119, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
52 2 0.02
53 33 0.28
54 36 0.30
55 46 0.39
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGAGACCTTGCCTTATAGAACTCATCAA
Found at i:41237883 original size:47 final size:47
Alignment explanation
Indices: 41237828--41237949 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
41237818 CATGCCTTGG
* * *
41237828 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTTCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
41237875 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
41237922 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
41237950 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:41247966 original size:48 final size:48
Alignment explanation
Indices: 41247890--41248116 Score: 211
Period size: 48 Copynumber: 4.8 Consensus size: 48
41247880 TAGGGTTATC
* *
41247890 TGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGATA
*
41247938 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCT-ATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCAT-TGATA
* * * * * *
41247986 TTTGATCCCATATAAGACTATATCTGGGATATGACATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGATA
* * * * *
41248034 TGAGA-CGTCGTGTAAGACCATAG-CTGGG-C-T---ATCGGC-TTCGATC
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGACATTGGCATT-GATA
* *
41248077 TGTGATCCCATGTAAGACCCTGTCTGGGATATGACATTGG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGG
41248117 AATCTTACTA
Statistics
Matches: 142, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.01
43 28 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 107 0.75
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGATA
Found at i:41251798 original size:47 final size:46
Alignment explanation
Indices: 41251694--41251906 Score: 163
Period size: 47 Copynumber: 4.6 Consensus size: 46
41251684 TATACGTACT
* *
41251694 GATGCATGTCCCAGACATGTCTTACACTAGCATGAA-A-C-TTA-GCC
1 GATGCATGTCCCAGACACGTCTTACACTGGC-T-AACATCATTAGGCC
*
41251738 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCAT-TAGGCC
** * *
41251785 GATGCATGTCCCAGACATATCTTACACTGGC--AC-TCACCTCTACGCT
1 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCA--T-TAGGCC
* ** * * * *
41251831 GATGCCATGTCCCAAACGTGGTCTTACACGGGCTATCATGA-TACGGCT
1 GATG-CATGTCCCAGAC-ACGTCTTACACTGGCTAACATCATTA-GGCC
41251879 GATGCATGTCCCAGACACGTCTTACACT
1 GATGCATGTCCCAGACACGTCTTACACT
41251907 AGCCCTCGTC
Statistics
Matches: 136, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 33 0.24
45 3 0.02
46 19 0.14
47 56 0.41
48 18 0.13
50 1 0.01
51 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (46 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATTAGGCC
Found at i:41251893 original size:94 final size:92
Alignment explanation
Indices: 41251641--41251958 Score: 311
Period size: 94 Copynumber: 3.4 Consensus size: 92
41251631 GGGTTAAGTT
* * * * * * *
41251641 GCCGCTGCCATGTCCCAGACATGGTCTTACACTAGATCTCGTGTATACGTACTGATGCATGTCCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATG-ATACG-GCTGATGCATGTCCC
*
41251706 AGACATGTCTTACACTAGCA-TGAAACTTA
64 AGACATGTCTTACACTAGCACT-CAACTTA
* * * * *
41251735 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTAACATCAT-CGAGGCCGATGCATGTCCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGATAC--GGCTGATGCATGTCCC
* * *
41251797 AGACATATCTTACACTGGCACTCACCTCTA
64 AGACATGTCTTACACTAGCACTCAACT-TA
* * *
41251827 CGCTGATGCCATGTCCCAAACGTGGTCTTACACGGGCTATCATGATACGGCTGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGATACGGCTGATGCATGTCCCA
* * **
41251892 GACACGTCTTACACTAGCCCTCGTCTTAA
65 GACATGTCTTACACTAGCACTCAACTT-A
*
41251921 TGCCGATGCCATGTCCCAAACATGGTCTTATACTGGCT
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
41251959 TTCACATAAC
Statistics
Matches: 182, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
90 1 0.01
91 36 0.20
92 18 0.10
93 20 0.11
94 87 0.48
95 19 0.10
96 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGATACGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCAACTTA
Found at i:41258386 original size:48 final size:48
Alignment explanation
Indices: 41258319--41258547 Score: 229
Period size: 48 Copynumber: 4.9 Consensus size: 48
41258309 AGGTTATGTA
*
41258319 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
*
41258367 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * * * *
41258415 TGATCCCATATAAGACTATATCTGGGATATGACATTGGAATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * * * * * *
41258463 AGA-CGTCGTGTTAGACCATAG-CTGGG---T--TATCGGCTTCGATCTG
1 TGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATG
* *
41258506 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
41258548 TTACTATGTG
Statistics
Matches: 143, Mismatches: 29, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
43 29 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 110 0.77
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Found at i:41269971 original size:10 final size:10
Alignment explanation
Indices: 41269924--41269971 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
41269914 CTATCGAAAG
*
41269924 TAATGAAAAT
1 TAATTAAAAT
*
41269934 TAATAAAAAT
1 TAATTAAAAT
41269944 TAATTATAAAGT
1 TAATTA-AAA-T
41269956 TAATTAAAAT
1 TAATTAAAAT
*
41269966 TCATTA
1 TAATTA
41269972 TGTTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 20 0.61
11 6 0.18
12 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (10 bp):
TAATTAAAAT
Found at i:41273486 original size:22 final size:22
Alignment explanation
Indices: 41273461--41273504 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
41273451 TGATTATAAT
* *
41273461 TAATATATATTATAATATATTA
1 TAATAGATATAATAATATATTA
* *
41273483 TAATGGATATAATTATATATTA
1 TAATAGATATAATAATATATTA
41273505 ATGATTATCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
TAATAGATATAATAATATATTA
Found at i:41278114 original size:34 final size:34
Alignment explanation
Indices: 41278071--41278138 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
41278061 GAGTTCAACC
*
41278071 AGGCTCAAGCTTTATCCCTTAAAGAATATGGGAA
1 AGGCTCAAGCTCTATCCCTTAAAGAATATGGGAA
*
41278105 AGGCTCAAGCTCTATCCCTTAACGAATATGGGAA
1 AGGCTCAAGCTCTATCCCTTAAAGAATATGGGAA
41278139 CAGCTTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (34 bp):
AGGCTCAAGCTCTATCCCTTAAAGAATATGGGAA
Found at i:41284302 original size:40 final size:40
Alignment explanation
Indices: 41284185--41284304 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
41284175 ACATTAGACT
* * * * *
41284185 GAAGCTATCTCGGTATCGCACACTTAGTGCCACATAAAGCT
1 GAAGCTATCTC-GAATCGCACACTAAGTGCCAAATATAGCC
* * * *
41284226 GAAACTAT-TCTAATTCGCACACTAACTGCTC-TATATAGCC
1 GAAGCTATCTCGAA-TCGCACACTAAGTGC-CAAATATAGCC
*
41284266 GAAGCTATCTCGAAACGCACACTAAGTGCCAAATATAGC
1 GAAGCTATCTCGAATCGCACACTAAGTGCCAAATATAGC
41284305 AGATTTGTCG
Statistics
Matches: 62, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
39 2 0.03
40 48 0.77
41 12 0.19
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
GAAGCTATCTCGAATCGCACACTAAGTGCCAAATATAGCC
Found at i:41289976 original size:16 final size:17
Alignment explanation
Indices: 41289946--41289977 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41289936 AGGCATGGAA
41289946 AGAATGAAGAAAATGAG
1 AGAATGAAGAAAATGAG
41289963 AGAATGAA-AAAATGA
1 AGAATGAAGAAAATGA
41289978 ATGGATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (17 bp):
AGAATGAAGAAAATGAG
Found at i:41290735 original size:38 final size:38
Alignment explanation
Indices: 41290693--41290769 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
41290683 TATTTTTAAG
41290693 TAAAAATGTGGTAAAATGACTAGAAAAACCCTATACAA
1 TAAAAATGTGGTAAAATGACTAGAAAAACCCTATACAA
41290731 TAAAAATGTGGTAAAATGACTAGAAAAACCCTATACAA
1 TAAAAATGTGGTAAAATGACTAGAAAAACCCTATACAA
41290769 T
1 T
41290770 TTAGAGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.22
Consensus pattern (38 bp):
TAAAAATGTGGTAAAATGACTAGAAAAACCCTATACAA
Found at i:41291537 original size:8 final size:8
Alignment explanation
Indices: 41291524--41291576 Score: 52
Period size: 8 Copynumber: 6.1 Consensus size: 8
41291514 AAAAATGATC
*
41291524 AAAAAAGT
1 AAAAAAAT
41291532 AAAAAAAT
1 AAAAAAAT
*
41291540 AGAAAAAT
1 AAAAAAAT
41291548 AAGAAAAAT
1 AA-AAAAAT
41291557 AAAGAAGAATT
1 AAA-AA-AA-T
41291568 AAAAAAAT
1 AAAAAAAT
41291576 A
1 A
41291577 TTTTTTGGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 18 0.47
9 12 0.32
10 4 0.11
11 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:41291562 original size:19 final size:19
Alignment explanation
Indices: 41291531--41291576 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
41291521 ATCAAAAAAG
41291531 TAAAAAAAT--AGAA-AAA
1 TAAAAAAATAAAGAAGAAA
*
41291547 TAAGAAAAATAAAGAAGAAT
1 TAA-AAAAATAAAGAAGAAA
41291567 TAAAAAAATA
1 TAAAAAAATA
41291577 TTTTTTGGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.12
17 6 0.24
19 11 0.44
20 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (19 bp):
TAAAAAAATAAAGAAGAAA
Found at i:41294155 original size:33 final size:33
Alignment explanation
Indices: 41294113--41294179 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
41294103 AAAAAAGTAA
41294113 TAAAAAAAACAATAACAACAACAAGCATTATAT
1 TAAAAAAAACAATAACAACAACAAGCATTATAT
*
41294146 TAAAAAAAACAATAACAACAACGAGCATTATAT
1 TAAAAAAAACAATAACAACAACAAGCATTATAT
41294179 T
1 T
41294180 TCTTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.61, C:0.15, G:0.04, T:0.19
Consensus pattern (33 bp):
TAAAAAAAACAATAACAACAACAAGCATTATAT
Found at i:41294789 original size:147 final size:144
Alignment explanation
Indices: 41294374--41294850 Score: 579
Period size: 147 Copynumber: 3.2 Consensus size: 144
41294364 AAGTTTTGAA
* * *
41294374 TTAAAAAAAACAGTTTAGATTTTAAAAATAAAAAAATAT-TTTTTTTAGTCATTTTAAAGGAAAG
1 TTAAAAAGAA-AGTTTAGATTTTAAAAA-ATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAT
* *
41294438 TTTAAATTTTTAAAATAAAGTTTTCATTTTTTCAACTATTTCAAAATAAAAGCTTTATTCTTTAA
64 TTTAAATTTTTAAACTAAAGTTTTGATTTTTTCAACTATTTCAAAATAAAAGCTTTA-TCTTTAA
41294503 GAAAAGTAGTGATTTTT
128 GAAAAGTAGTGATTTTT
** * * *
41294520 AAAAAAAAATAAAGAGAGTTTACATTTTTAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGG
1 -----TTAA-AAAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGG
* * * **
41294585 AAATTTTAAATTTTAATAAC-AAAATTTTGATTTTTTTCAACAATTTTGAAATAAAAGCTTTTAT
60 AAATTTTAAATTTTTA-AACTAAAGTTTTGA-TTTTTTCAACTATTTCAAAATAAAAGC-TTTAT
41294649 CTTTAAGAAAAGTAGTGATTTTT
122 CTTTAAGAAAAGTAGTGATTTTT
* *
41294672 TTAAAAGAGAAAGTTTAGAATTTAAAAAATAAAAATATGTGTTTTTAGTCATTTTAAAGGAAAAT
1 TTAAAA-AGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGG-AAAT
* *
41294737 TTTAAATTTTTAAACTAAAGTTTTGATCTTTTTCAACTATTTCAAAAT-AAAGCATTGATTTTTA
64 TTTAAATTTTTAAACTAAAGTTTTGAT-TTTTTCAACTATTTCAAAATAAAAGC-TTTATCTTTA
41294801 AGAAAAGTAGTGA-TTTT
127 AGAAAAGTAGTGATTTTT
* *
41294818 TTAAAAAAAAACTTT-GATTTTAAAAAA-AAAAAT
1 TTAAAAAGAAAGTTTAGATTTTAAAAAATAAAAAT
41294851 TTTGGCCACC
Statistics
Matches: 284, Mismatches: 33, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
143 6 0.02
144 11 0.04
145 7 0.02
146 12 0.04
147 80 0.28
148 41 0.14
150 9 0.03
151 60 0.21
152 54 0.19
153 4 0.01
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (144 bp):
TTAAAAAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAATTT
TAAATTTTTAAACTAAAGTTTTGATTTTTTCAACTATTTCAAAATAAAAGCTTTATCTTTAAGAA
AAGTAGTGATTTTT
Found at i:41294835 original size:21 final size:21
Alignment explanation
Indices: 41294811--41294854 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
41294801 AGAAAAGTAG
**
41294811 TGATTTTTTAAAAAAAAACTT
1 TGATTTTAAAAAAAAAAACTT
*
41294832 TGATTTTAAAAAAAAAAATTT
1 TGATTTTAAAAAAAAAAACTT
41294853 TG
1 TG
41294855 GCCACCGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (21 bp):
TGATTTTAAAAAAAAAAACTT
Found at i:41295309 original size:31 final size:34
Alignment explanation
Indices: 41295261--41295323 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 34
41295251 ATTATTTACA
*
41295261 CTTATATATTCTCTTTC-ATT-TGCA-TTTATGC
1 CTTATATATTCTATTTCAATTATGCACTTTATGC
41295292 CTTATATATT-TAATTTCAATTATGCACTTTAT
1 CTTATATATTCT-ATTTCAATTATGCACTTTAT
41295324 TTTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 1 0.04
31 14 0.52
32 3 0.11
33 4 0.15
34 5 0.19
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (34 bp):
CTTATATATTCTATTTCAATTATGCACTTTATGC
Found at i:41295352 original size:36 final size:37
Alignment explanation
Indices: 41295296--41295379 Score: 152
Period size: 36 Copynumber: 2.3 Consensus size: 37
41295286 TTATGCCTTA
41295296 TATATTTAATTTCAATTATGCACTTTATTTTAATATTT
1 TATATTT-ATTTCAATTATGCACTTTATTTTAATATTT
41295334 TATATTTATTT-AATTATGCACTTTATTTTAATATTT
1 TATATTTATTTCAATTATGCACTTTATTTTAATATTT
41295370 TATATTTATT
1 TATATTTATT
41295380 CACACTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 35 0.76
37 4 0.09
38 7 0.15
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (37 bp):
TATATTTATTTCAATTATGCACTTTATTTTAATATTT
Done.