Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 143 of 318
Found at i:44424345 original size:3 final size:3
Alignment explanation
Indices: 44424321--44424388 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
44424311 AATATCCTTG
* * * *
44424321 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
44424369 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
44424389 GTATGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:44424399 original size:23 final size:23
Alignment explanation
Indices: 44424328--44424392 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
44424318 TTGTTATTTT
*
44424328 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTATTAGTA
44424350 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTATTAGTA
*
44424375 TATATTTTTATTATGTAT
1 TATATTATTATTATGTAT
44424393 GTGTATACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.45
24 13 0.34
25 8 0.21
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.58
Consensus pattern (23 bp):
TATATTATTATTATGTATTAGTA
Found at i:44424455 original size:13 final size:13
Alignment explanation
Indices: 44424407--44424456 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
44424397 ATACATATAT
44424407 ATATTTTCATATCTA
1 ATATTTT-AT-TCTA
*
44424422 ATATTTTTATT-TC
1 ATA-TTTTATTCTA
44424435 AT-TTTTATTCTA
1 ATATTTTATTCTA
44424447 ATATTTTATT
1 ATATTTTATT
44424457 AATCTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 7 0.23
12 3 0.10
13 10 0.33
14 1 0.03
15 5 0.17
16 4 0.13
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATTTTATTCTA
Found at i:44424502 original size:3 final size:3
Alignment explanation
Indices: 44424489--44424527 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
44424479 TATTCCAATG
* * *
44424489 TTA TCA TTA TTA TTA TTA TTA TTA TTT TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44424528 GTTTATGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44424755 original size:20 final size:20
Alignment explanation
Indices: 44424726--44424861 Score: 75
Period size: 20 Copynumber: 6.5 Consensus size: 20
44424716 TTTTATGTCG
44424726 TATTATTATATTTTAATATTA
1 TATTA-TATATTTTAATATTA
*
44424747 TATTATATA-ATT-ATA-TA
1 TATTATATATTTTAATATTA
* *
44424764 TACATATATCTTTATATATATTA
1 TA-TTATATATTT-TA-ATATTA
*
44424787 TCATTGTATATATTTTATTATTA
1 T-A-T-TATATATTTTAATATTA
*
44424810 TTAGT-TATATTTTACATTATTA
1 -TATTATATATTTTA-A-TATTA
*
44424832 TA-TATATTTTTCTAATATTA
1 TATTATATATTT-TAATATTA
*
44424852 TATTGTATAT
1 TATTATATAT
44424862 ACTGTTGTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
17 4 0.05
18 8 0.09
19 3 0.03
20 22 0.25
21 20 0.23
22 10 0.11
23 9 0.10
24 4 0.05
25 8 0.09
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTATATATTTTAATATTA
Found at i:44425265 original size:18 final size:19
Alignment explanation
Indices: 44425206--44425301 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 19
44425196 ATATACGTAC
*
44425206 TTATACATACTTAAATATAT
1 TTAT-CATACTTACATATAT
* * *
44425226 TTTTCATA-TTTCATAATTT
1 TTATCATACTTACAT-ATAT
44425245 TTAT-ATACTTACATATAT
1 TTATCATACTTACATATAT
*
44425263 TTATGCATATTTTACATCATA-
1 TTAT-CATA-CTTACAT-ATAT
*
44425284 -TA-CATACTTATATATAT
1 TTATCATACTTACATATAT
44425301 T
1 T
44425302 CTTTATATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.05
17 5 0.09
18 18 0.31
19 15 0.26
20 8 0.14
21 6 0.10
22 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATCATACTTACATATAT
Found at i:44425291 original size:38 final size:36
Alignment explanation
Indices: 44425207--44425301 Score: 93
Period size: 38 Copynumber: 2.6 Consensus size: 36
44425197 TATACGTACT
* *
44425207 TATACATACTTAAATATATTTTTCATATTTCATAATT
1 TATACATACTTAAATATATTTTGCATATTT-ATAATA
* * *
44425244 TTTATATACTTACATATATTTATGCATATTT-TACATCA
1 TATACATACTTAAATATATTT-TGCATATTTATA-AT-A
*
44425282 TATACATACTTATATATATT
1 TATACATACTTAAATATATT
44425302 CTTTATATTC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
36 2 0.04
37 20 0.43
38 25 0.53
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.51
Consensus pattern (36 bp):
TATACATACTTAAATATATTTTGCATATTTATAATA
Found at i:44426361 original size:26 final size:26
Alignment explanation
Indices: 44426332--44426381 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
44426322 CAACAATTGC
44426332 TTTTGA-AAAGTAATTTTAAAAAGTGA
1 TTTTGAGAAA-TAATTTTAAAAAGTGA
* *
44426358 TTTTGAGAAATACTTTTGAAAAGT
1 TTTTGAGAAATAATTTTAAAAAGT
44426382 TTGATTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (26 bp):
TTTTGAGAAATAATTTTAAAAAGTGA
Found at i:44427383 original size:63 final size:62
Alignment explanation
Indices: 44427316--44427448 Score: 148
Period size: 62 Copynumber: 2.1 Consensus size: 62
44427306 TTATTATTAA
*
44427316 ATATAATTAATTTAATCATATTTTAACATAATTATTATT-AAATA-CAATTAA-ATAAAATAAT-
1 ATATAATTAA--TAAT-AT-TTTTAACATAAATATTATTAAAATATCAATTAATA-AAAATAATA
44427377 AT
61 AT
* * *
44427379 ATATAATTTAATAATATTTTTAATATAAATATTATTAAAATATGAATTAATAAAAATCATAAT
1 ATATAA-TTAATAATATTTTTAACATAAATATTATTAAAATATCAATTAATAAAAATAATAAT
44427442 ATATAAT
1 ATATAAT
44427449 ATTATAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
60 17 0.28
61 7 0.11
62 18 0.30
63 15 0.25
64 4 0.07
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (62 bp):
ATATAATTAATAATATTTTTAACATAAATATTATTAAAATATCAATTAATAAAAATAATAAT
Found at i:44430560 original size:50 final size:50
Alignment explanation
Indices: 44430506--44430600 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
44430496 CCGATACTTG
*
44430506 GCTCTCATGAGCTTC-CAATTATTTAGCTCTCAAGAGCTTCCCGATTAATA
1 GCTCTCATGAGCTTCTCAA-TATTTAGCTCGCAAGAGCTTCCCGATTAATA
* * *
44430556 GCTCTCTTGAGCTTCTCGATATTTGGCTCGCAAGAGCTTCCCGAT
1 GCTCTCATGAGCTTCTCAATATTTAGCTCGCAAGAGCTTCCCGAT
44430601 GTTTGGCTCG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 38 0.95
51 2 0.05
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (50 bp):
GCTCTCATGAGCTTCTCAATATTTAGCTCGCAAGAGCTTCCCGATTAATA
Found at i:44430618 original size:50 final size:49
Alignment explanation
Indices: 44430494--44430621 Score: 132
Period size: 50 Copynumber: 2.6 Consensus size: 49
44430484 CTTATAAGCG
* *
44430494 TCCCGATACTTGGCTCTCATGAGCTTCCAATTATTTAGCTCTCAAGAGCT
1 TCCCGAT-TTTGGCTCTCATGAGCTTCCAATTATTTAGCTCGCAAGAGCT
* * * * *
44430544 TCCCGATTAATAGCTCTCTTGAGCTTCTCGA-TATTTGGCTCGCAAGAGCT
1 TCCCGATT-TTGGCTCTCATGAGCTTC-CAATTATTTAGCTCGCAAGAGCT
* *
44430594 TCCCGATGTTTGGCTCGCAAGAGCTTCC
1 TCCCGAT-TTTGGCTCTCATGAGCTTCC
44430622 CGTTATACAG
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
49 1 0.02
50 59 0.94
51 3 0.05
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (49 bp):
TCCCGATTTTGGCTCTCATGAGCTTCCAATTATTTAGCTCGCAAGAGCT
Found at i:44430622 original size:25 final size:25
Alignment explanation
Indices: 44430494--44430623 Score: 111
Period size: 25 Copynumber: 5.2 Consensus size: 25
44430484 CTTATAAGCG
* * *
44430494 TCCCGATACTTGGCTCTCATGAGCT
1 TCCCGATATTTGGCTCGCAAGAGCT
* * *
44430519 T-CCAATTATTTAGCTCTCAAGAGCT
1 TCCCGA-TATTTGGCTCGCAAGAGCT
* * * **
44430544 TCCCGAT-TAATAGCTCTCTTGAGCT
1 TCCCGATAT-TTGGCTCGCAAGAGCT
*
44430569 TCTCGATATTTGGCTCGCAAGAGCT
1 TCCCGATATTTGGCTCGCAAGAGCT
*
44430594 TCCCGATGTTTGGCTCGCAAGAGCT
1 TCCCGATATTTGGCTCGCAAGAGCT
44430619 TCCCG
1 TCCCG
44430624 TTATACAGCT
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
24 4 0.05
25 77 0.91
26 4 0.05
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.32
Consensus pattern (25 bp):
TCCCGATATTTGGCTCGCAAGAGCT
Found at i:44430634 original size:25 final size:25
Alignment explanation
Indices: 44430504--44430671 Score: 95
Period size: 25 Copynumber: 6.7 Consensus size: 25
44430494 TCCCGATACT
* * ** *
44430504 TGGCTCTCATGAGCTTCCAATTATT
1 TGGCTCGCAAGAGCTTCCCGTTATA
* *
44430529 TAGCTCTCAAGAGCTTCCCGATTA-A
1 TGGCTCGCAAGAGCTTCCCG-TTATA
* * ** * * *
44430554 TAGCTCTCTTGAGCTTCTCGATATT
1 TGGCTCGCAAGAGCTTCCCGTTATA
* * *
44430579 TGGCTCGCAAGAGCTTCCCGATGTT
1 TGGCTCGCAAGAGCTTCCCGTTATA
44430604 TGGCTCGCAAGAGCTTCCCGTTATA
1 TGGCTCGCAAGAGCTTCCCGTTATA
** * ** *
44430629 CAGCTCACATTAGCTTCCCATTATA
1 TGGCTCGCAAGAGCTTCCCGTTATA
* *
44430654 TGGCCCGAAAGAGCTTCC
1 TGGCTCGCAAGAGCTTCC
44430672 TATTTACATG
Statistics
Matches: 109, Mismatches: 32, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
24 2 0.02
25 104 0.95
26 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (25 bp):
TGGCTCGCAAGAGCTTCCCGTTATA
Found at i:44430644 original size:75 final size:75
Alignment explanation
Indices: 44430531--44430671 Score: 171
Period size: 75 Copynumber: 1.9 Consensus size: 75
44430521 CAATTATTTA
* * * * * * *
44430531 GCTCTCAAGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCTCGA-TATTTGGCTCGCAAGAGCTT
1 GCTCGCAAGAGCTTCCCGATTAACAGCTCACTTGAGCTTC-CCATTATATGGCCCGAAAGAGCTT
44430595 CCCGATGTTTG
65 CCCGATGTTTG
44430606 GCTCGCAAGAGCTTCCCG-TTATACAGCTCACATT-AGCTTCCCATTATATGGCCCGAAAGAGCT
1 GCTCGCAAGAGCTTCCCGATTA-ACAGCTCAC-TTGAGCTTCCCATTATATGGCCCGAAAGAGCT
44430669 TCC
64 TCC
44430672 TATTTACATG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
74 5 0.09
75 49 0.88
76 2 0.04
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (75 bp):
GCTCGCAAGAGCTTCCCGATTAACAGCTCACTTGAGCTTCCCATTATATGGCCCGAAAGAGCTTC
CCGATGTTTG
Found at i:44433863 original size:33 final size:32
Alignment explanation
Indices: 44433826--44433918 Score: 98
Period size: 33 Copynumber: 2.9 Consensus size: 32
44433816 CCATTTCAAG
** *
44433826 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTAACCTTTCCA-A
* *
44433859 TGGTATACACTAAGTATACCTAACCTTTCCAA
1 TGGTACACACAAAGTATACCTAACCTTTCCAA
* *
44433891 -GTGTACACACAAAGTGTACATAACCTTT
1 TG-GTACACACAAAGTATACCTAACCTTT
44433919 TCAAGTTGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
31 1 0.02
32 23 0.46
33 26 0.52
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (32 bp):
TGGTACACACAAAGTATACCTAACCTTTCCAA
Found at i:44433915 original size:32 final size:33
Alignment explanation
Indices: 44433822--44433929 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 33
44433812 CATTCCATTT
* * ** *
44433822 CAAGTGGTACACACAAAGTATACCTTTCCTTTT
1 CAAGTTGTACACACAAAGTATACATAACCTTTC
* * * *
44433855 CATA-TGGTATACACTAAGTATACCTAACCTTTC
1 CA-AGTTGTACACACAAAGTATACATAACCTTTC
* *
44433888 CAAG-TGTACACACAAAGTGTACATAACCTTTT
1 CAAGTTGTACACACAAAGTATACATAACCTTTC
44433920 CAAGTTGTAC
1 CAAGTTGTAC
44433930 CATTTGGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
32 27 0.44
33 33 0.54
34 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (33 bp):
CAAGTTGTACACACAAAGTATACATAACCTTTC
Found at i:44437131 original size:14 final size:15
Alignment explanation
Indices: 44437098--44437131 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44437088 GGAAGAAAGA
*
44437098 GAAAATATTTTTATC
1 GAAAATATTTTTAAC
44437113 GAAAATATTTTTAAC
1 GAAAATATTTTTAAC
44437128 -AAAA
1 GAAAA
44437132 GATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
GAAAATATTTTTAAC
Found at i:44437997 original size:13 final size:13
Alignment explanation
Indices: 44437979--44438014 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
44437969 GTCAATCAGA
44437979 CAGTCAAATATTC
1 CAGTCAAATATTC
*
44437992 CAGTCAAATATTT
1 CAGTCAAATATTC
44438005 CAGTCAAATA
1 CAGTCAAATA
44438015 GTCAACCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (13 bp):
CAGTCAAATATTC
Found at i:44439357 original size:22 final size:22
Alignment explanation
Indices: 44439329--44439380 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
44439319 GGGGAGGTCA
44439329 CGAAACCAACCCAAAACAGCCC
1 CGAAACCAACCCAAAACAGCCC
44439351 CGAAACCAACCCAAAACAGCCC
1 CGAAACCAACCCAAAACAGCCC
44439373 CGAAACCA
1 CGAAACCA
44439381 CCGTTTTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.46, C:0.44, G:0.10, T:0.00
Consensus pattern (22 bp):
CGAAACCAACCCAAAACAGCCC
Found at i:44441046 original size:162 final size:162
Alignment explanation
Indices: 44440750--44441060 Score: 459
Period size: 162 Copynumber: 1.9 Consensus size: 162
44440740 AAACACAAAT
* *
44440750 AAATTTATACAATTTGTCAAGAGTTAAGAATAACAAAGTGAATAGAAAGGGACCAAACAAAACTC
1 AAATTTATACAATTTGTCAAGAGTTAAGAACAACAAAGTGAATAGAAAGGGACCAAACAAAACCC
* *
44440815 GTTTTTAAATGGAGACCAAAACCATTTACCTCTCACAGAGAAAATAGAAAAGGAAAAATAAAAT-
66 ATTTTTAAATGGAGACCAAAACCATTTACCTCTCACAGAGAAAATAGAAAAGGAAAAAGAAAATA
*
44440879 AAAAAAGCATACCTTGAAGGAAACACAAAAAC
131 AAAAAAACATACCTTGAAGGAAACACAAAAAC
* *
44440911 AAATCTTATACAATTTGTCAATAGTTAAGAACAACAAAGTGAATAG-AAGGAGACCAAACGAAAC
1 AAAT-TTATACAATTTGTCAAGAGTTAAGAACAACAAAGTGAATAGAAAGG-GACCAAACAAAAC
* * *
44440975 CCATTTTTAAATGGAGACCAAAGCCATTTACC-CTCA-AGGAGAAAGTAGAAAAGGTAAAAGAAA
64 CCATTTTTAAATGGAGACCAAAACCATTTACCTCTCACA-GAGAAAATAGAAAAGGAAAAAGAAA
44441038 ATTAAAAAAAAACATACCTTGAA
128 A-T-AAAAAAAACATACCTTGAA
44441061 AGAACAAAGA
Statistics
Matches: 134, Mismatches: 10, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
160 1 0.01
161 35 0.26
162 81 0.60
164 17 0.13
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (162 bp):
AAATTTATACAATTTGTCAAGAGTTAAGAACAACAAAGTGAATAGAAAGGGACCAAACAAAACCC
ATTTTTAAATGGAGACCAAAACCATTTACCTCTCACAGAGAAAATAGAAAAGGAAAAAGAAAATA
AAAAAAACATACCTTGAAGGAAACACAAAAAC
Found at i:44441931 original size:82 final size:82
Alignment explanation
Indices: 44441828--44442030 Score: 363
Period size: 82 Copynumber: 2.5 Consensus size: 82
44441818 TGGTATACAT
44441828 ATTTCAA-AAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
1 ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
44441892 TAAGATGTTAACTAACC
66 TAAGATGTTAACTAACC
* *
44441909 ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGTAG
1 ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
44441974 TAAGATGTTAACTAACC
66 TAAGATGTTAACTAACC
* *
44441991 ATTTCAACGAATCATTTCAAAAAATAAACAAAATATGTTA
1 ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
44442031 ATCATCTCAA
Statistics
Matches: 117, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 7 0.06
82 110 0.94
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.29
Consensus pattern (82 bp):
ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
TAAGATGTTAACTAACC
Found at i:44442440 original size:159 final size:154
Alignment explanation
Indices: 44442107--44442579 Score: 481
Period size: 159 Copynumber: 3.0 Consensus size: 154
44442097 CATGCCATCC
* * *
44442107 TTTTTTGGCTTCTAGTTTTCATACTCGTACCAGACTGAGAAAAAAAATCAGAACCCCAAATTAGA
1 TTTTTTGGCTTCTAGTTTT-GTACTCGTACCAGACTAAGAAAAAAAATCAGAAACCCAAATTAGA
* * ** * ** *
44442172 TTTAATTAATTTGGAATAAACATTAAAAAAAGTGTTTACA--ATATACTTGTGATCTGGTTATGT
65 TTTAAATATTTTGGAATTGACATT--AAAAA--GTTTACACGATATACCTGTGATCCAGTTGTGT
* * * *
44442235 TAGGCTGAATGCAT-AGTGTTCTATTGTTCT
126 TAGGTTGAATGCATGA-TGTTATGTTGTT-A
44442265 TTTTTTGGCTTCTAGTTTGTGTACTCGTACCAGACTAAGACCAAAAAAATCAGAAACCCAAATTA
1 TTTTTTGGCTTCTAGTTT-TGTACTCGTACCAGACTAAGA--AAAAAAATCAGAAACCCAAATTA
* * * *
44442330 GATTAAAATATTTTTGAATTGACATTAAAATAGTTTACACGATATACCTGGGATCCAGTTGTATT
63 GATTTAAATATTTTGGAATTGACATTAAAA-AGTTTACACGATATACCTGTGATCCAGTTGTGTT
*
44442395 AGGTTGGATGCATGATGTTATGTTGTTA
127 AGGTTGAATGCATGATGTTATGTTGTTA
*
44442423 TTTTTTGGGCTTATAGTTCTTGTACTCGTACCAGACTAAGATAAAAAAAATTCA-AAACCCAAAT
1 TTTTTT-GGCTTCTAGTT-TTGTACTCGTACCAGACTAAG--AAAAAAAA-TCAGAAACCCAAAT
* * * * *
44442487 TAGATTTTAATATTTTGGAATTGATAATGAAAAAGTATT-TACGATATACCTGTGTTCCTA-TTG
61 TAGATTTAAATATTTTGGAATTGA-CATTAAAAAGT-TTACACGATATACCTGTGATCC-AGTTG
* *
44442550 TGTTAGGTTGAATGCATGATCTTTTGTTGT
123 TGTTAGGTTGAATGCATGATGTTATGTTGT
44442580 GACCAACACC
Statistics
Matches: 267, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
157 7 0.03
158 46 0.17
159 157 0.59
160 56 0.21
161 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.38
Consensus pattern (154 bp):
TTTTTTGGCTTCTAGTTTTGTACTCGTACCAGACTAAGAAAAAAAATCAGAAACCCAAATTAGAT
TTAAATATTTTGGAATTGACATTAAAAAGTTTACACGATATACCTGTGATCCAGTTGTGTTAGGT
TGAATGCATGATGTTATGTTGTTA
Found at i:44446749 original size:12 final size:13
Alignment explanation
Indices: 44446721--44446753 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
44446711 TTATTTCTTT
44446721 TTCTCCATCTACC
1 TTCTCCATCTACC
*
44446734 TTCTCC-TCTTCC
1 TTCTCCATCTACC
44446746 TTCTCCAT
1 TTCTCCAT
44446754 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:44447853 original size:28 final size:28
Alignment explanation
Indices: 44447821--44447885 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
44447811 ATTTACTAGA
*
44447821 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
44447849 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
44447877 ATACCCCTA
1 ATACCCCTA
44447886 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:44448092 original size:29 final size:28
Alignment explanation
Indices: 44447991--44448081 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
44447981 AGGAAGCGTC
44447991 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
44448019 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
44448047 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
44448076 CTGGTG
1 CTGGTG
44448082 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:44448106 original size:56 final size:55
Alignment explanation
Indices: 44447991--44448106 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
44447981 AGGAAGCGTC
* *
44447991 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * *
44448047 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
44448103 CTGG
1 CTGG
44448107 CAACCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.17
56 29 0.56
57 14 0.27
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:44448574 original size:18 final size:18
Alignment explanation
Indices: 44448535--44448575 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
44448525 TAATAAGGCC
* *
44448535 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
44448553 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
44448571 TTTTA
1 TTTTA
44448576 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:44464664 original size:12 final size:13
Alignment explanation
Indices: 44464636--44464668 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
44464626 TTATTTCTTT
44464636 TTCTCCATCTACC
1 TTCTCCATCTACC
*
44464649 TTCTCC-TCTTCC
1 TTCTCCATCTACC
44464661 TTCTCCAT
1 TTCTCCAT
44464669 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:44465768 original size:28 final size:28
Alignment explanation
Indices: 44465736--44465800 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
44465726 ATTTACTAGA
*
44465736 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
44465764 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
44465792 ATACCCCTA
1 ATACCCCTA
44465801 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:44465952 original size:28 final size:28
Alignment explanation
Indices: 44465906--44465996 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
44465896 AGGAAGCGTC
* *
44465906 CTGGTGGCCCTGGCGCAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
44465934 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
* **
44465962 CTGGTGGCACTGCCACAAAACATCTGTAT
1 CTGGTGGCCCTGCCACAAATTATCTGT-T
44465991 CTGGTG
1 CTGGTG
44465997 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (28 bp):
CTGGTGGCCCTGCCACAAATTATCTGTT
Found at i:44466489 original size:18 final size:18
Alignment explanation
Indices: 44466450--44466490 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
44466440 TAATAAGGCC
* *
44466450 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
44466468 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
44466486 TTTTA
1 TTTTA
44466491 TTTTGCTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:44468228 original size:19 final size:19
Alignment explanation
Indices: 44468190--44468233 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
44468180 ATTTTCTAAA
**
44468190 TATTTTTTTAAATTTTAAT
1 TATTTTTTTAAATTGAAAT
*
44468209 TATTTTTTTAAGTTGAAAT
1 TATTTTTTTAAATTGAAAT
44468228 TCATTT
1 T-ATTT
44468234 GCTGATGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTTTAAATTGAAAT
Found at i:44473813 original size:19 final size:19
Alignment explanation
Indices: 44473789--44473835 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
44473779 AATGTCTCTT
*
44473789 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
44473808 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
44473827 TATGCATTA
1 TTTGCATTA
44473836 AATTTCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:44479872 original size:335 final size:335
Alignment explanation
Indices: 44479262--44479931 Score: 1207
Period size: 335 Copynumber: 2.0 Consensus size: 335
44479252 ATAAAGATCT
44479262 AATGTATGTTGCAACCACTAAAGAAGACTCTCAAGAAGGCTATCCTTAGAAACTAAACTGTGACG
1 AATGTATGTTGCAACCACTAAAGAAGACTCTCAAGAAGGCTATCCTTAGAAACTAAACTGTGACG
* *
44479327 GAGCCTCAAATGTTGTAAATAATAGAATTGGGGTAGTCCTGGTATCCCAAGATGGAGATCATTAT
66 GAGCCTCAAATGCTGTAAATAATAGAATTGGGGTAGTCCTAGTATCCCAAGATGGAGATCATTAT
* *
44479392 CCATTCACTAGTAAATTGGATTTTAATTACACGAACAATATGGTAGAATACGAAGCATGCATCAT
131 CCATTCACTAGTAAATTAGATTTTAATTACACGAACAATATGGTAGAATACAAAGCATGCATCAT
*
44479457 GGGTATCCGTGCAGCCATAAAACGTAACATTAAAGTACTAGAGGTATATGGAGATTCTACATTAG
196 GGGTATCCGTGCAGCCATAAAACGTAACATCAAAGTACTAGAGGTATATGGAGATTCTACATTAG
*
44479522 TGATCTATCAACTCAAAGGTGAATGGGAGACAAGAGACCCCAAATTGATTAATTATTGTAGGCTG
261 TGATCTATCAACTCAAAGGTGAATGAGAGACAAGAGACCCCAAATTGATTAATTATTGTAGGCTG
*
44479587 GTTCTGGAGC
326 GTTCTAGAGC
* *
44479597 AATGTATGTTGCAACCACTAAAGAAGACTCTCAAGAAGGCTATCCTTGGAAACTAAACTTTGACG
1 AATGTATGTTGCAACCACTAAAGAAGACTCTCAAGAAGGCTATCCTTAGAAACTAAACTGTGACG
* *
44479662 GAGCCTCAAATGCTGTGAATAGTAGAATTGGGGTAGTCCTAGTATCCCAAGATGGAGATCATTAT
66 GAGCCTCAAATGCTGTAAATAATAGAATTGGGGTAGTCCTAGTATCCCAAGATGGAGATCATTAT
44479727 CCATTCACTAGTAAATTAGATTTTAATTACACGAACAATATGGTAGAATACAAAGCATGCATCAT
131 CCATTCACTAGTAAATTAGATTTTAATTACACGAACAATATGGTAGAATACAAAGCATGCATCAT
* *
44479792 GGGTATCCGTGCAGCCATATAACGTAACATCAAAGTACTAGAGGTATATGG-GAATTCTGCATTA
196 GGGTATCCGTGCAGCCATAAAACGTAACATCAAAGTACTAGAGGTATATGGAG-ATTCTACATTA
44479856 GTGATCTATCAACTCAAAGGTGAATGAGAGACAAGAGACCCCAAATTGATTAATTATTGTAGGCT
260 GTGATCTATCAACTCAAAGGTGAATGAGAGACAAGAGACCCCAAATTGATTAATTATTGTAGGCT
44479921 GGTTCTAGAGC
325 GGTTCTAGAGC
44479932 TGATTGAAGA
Statistics
Matches: 321, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
334 1 0.00
335 320 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (335 bp):
AATGTATGTTGCAACCACTAAAGAAGACTCTCAAGAAGGCTATCCTTAGAAACTAAACTGTGACG
GAGCCTCAAATGCTGTAAATAATAGAATTGGGGTAGTCCTAGTATCCCAAGATGGAGATCATTAT
CCATTCACTAGTAAATTAGATTTTAATTACACGAACAATATGGTAGAATACAAAGCATGCATCAT
GGGTATCCGTGCAGCCATAAAACGTAACATCAAAGTACTAGAGGTATATGGAGATTCTACATTAG
TGATCTATCAACTCAAAGGTGAATGAGAGACAAGAGACCCCAAATTGATTAATTATTGTAGGCTG
GTTCTAGAGC
Found at i:44482475 original size:94 final size:95
Alignment explanation
Indices: 44482327--44482598 Score: 393
Period size: 94 Copynumber: 2.9 Consensus size: 95
44482317 TTAAAGCCAC
* *
44482327 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTTAATCTTATTTCCCTAAAGTC
1 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTAAAGTC
*
44482392 ACAGTGGAACAGATTAAAGTTACAAGCTAA
66 ACAGTGGAACAGATTAAAGCTACAAGCTAA
* *
44482422 AAATCTTATCTTCCTGAAGTTGCA-TAGAGCAGATTGAAGATGCTAGTCTTATTTCCCTGAAGTC
1 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTAAAGTC
* *
44482486 ACAGTGAAACAGATTAAAGCTACAAGCTAT
66 ACAGTGGAACAGATTAAAGCTACAAGCTAA
* * * * * *
44482516 AAATCTTATCTCCCTGAAGCTGTAGTAGAGCAGATTGAATATGCTAATCTTATTTCCCTTAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTAAAGTC
* * *
44482581 GCAGTGGAGCAGGTTAAA
66 ACAGTGGAACAGATTAAA
44482599 AATAACAAAT
Statistics
Matches: 158, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
94 84 0.53
95 74 0.47
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (95 bp):
AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTAAAGTC
ACAGTGGAACAGATTAAAGCTACAAGCTAA
Found at i:44482625 original size:45 final size:45
Alignment explanation
Indices: 44482284--44482922 Score: 290
Period size: 44 Copynumber: 13.8 Consensus size: 45
44482274 CATCGTGATG
* ***
44482284 AATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATT-AAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* * * ***
44482328 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* * ** *
44482372 AATCTTATTTCCCTAAAGTCACAGTGGAACAGATTAAAGTTACAAGCTAA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA---A-AA--TAACA
* * * * * *
44482423 AATCTTATCTTCCTGAAGTTGCA-TAGAGCAGATTGAAGAT-GCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* * ** * * * *
44482466 AGTCTTATTTCCCTGAAGTCACAGTGAAACAGATTAAAGCTACAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--AATAA-C---A
* * * * * * *
44482517 AATCTTATCTCCCTGAAGCTGTAGTAGAGCAGATTGAATAT-GCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* * *
44482561 AATCTTATTTCCCTTAAGTTGCAGTGGAGCAGGTTAAAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* * * ** * *
44482606 AATCTTATCTCTCTAAAGTTGCAGTAGAATAGATT-AAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* * * *
44482650 AATCTCATAC-CCCTGAAGTTGTAGTGG-GACAGATTGAAGTTATTATAACG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATT-AA---A-AATAACA
* * *** *
44482700 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* * * * * * *
44482744 AACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
* * * * *
44482789 AATCTTATTTCCCTGAAATTGCAGTGGAACAAATTAAAACTACAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---A--A-AAATAACA
* * * * * **
44482840 AGTCTTATCTCTCTGAAGTTGTAGTGGAGGAAATTAAAAATAATG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
*
44482885 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
44482923 GCCACTAACC
Statistics
Matches: 426, Mismatches: 133, Indels: 71
0.68 0.21 0.11
Matches are distributed among these distances:
43 19 0.04
44 170 0.40
45 102 0.24
46 4 0.01
47 1 0.00
48 3 0.01
49 6 0.01
50 41 0.10
51 80 0.19
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
Found at i:44482835 original size:183 final size:183
Alignment explanation
Indices: 44482517--44482953 Score: 458
Period size: 183 Copynumber: 2.4 Consensus size: 183
44482507 ACAAGCTATA
* * * **** * * * *
44482517 AATCTTATCTCCCTGAAGCTGTAGTAGAGCAGATTGAATATGCTAATCTTATTTCCCTTAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTAAAGTTG
* * * **
44482582 CAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCTCTAAAGTTGCAGTAGAATAGATTAAAGTT
66 CAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAACAAATTAAAACT
*
44482647 ACAAA-T-C-TCATA-C-CCCTGAAGTTGTAGT-G-GGACAGATTGAAGTTATTATAACG
131 ACAAATTACATCATATCTCCCTGAAGTTGTAGTGGAGGA-A-ATT-AA---A-AATAACG
* *
44482700 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTAAAGTTG
* * * * * *
44482765 CAGTGGAGCAGGTTGAAGATAGCGAATCTTATTTCCCTGAAA-TTGCAGTGGAACAAATTAAAAC
66 CAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCCCT-AAAGTTGCAGTAGAACAAATTAAAAC
* * *
44482829 TACAAATTACAAGTCTTATCTCTCTGAAGTTGTAGTGGAGGAAATTAAAAATAATG
130 TACAAATTAC-A-TCATATCTCCCTGAAGTTGTAGTGGAGGAAATTAAAAATAACG
* *
44482885 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAACCTTATCTCTCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTAAAGTTG
44482950 CAGT
66 CAGT
44482954 AAGTTAGAAC
Statistics
Matches: 213, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
183 108 0.51
184 4 0.02
185 71 0.33
186 1 0.00
188 4 0.02
189 3 0.01
190 17 0.08
191 2 0.01
192 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (183 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTAAAGTTG
CAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAACAAATTAAAACT
ACAAATTACATCATATCTCCCTGAAGTTGTAGTGGAGGAAATTAAAAATAACG
Found at i:44482868 original size:96 final size:96
Alignment explanation
Indices: 44482747--44482922 Score: 235
Period size: 96 Copynumber: 1.8 Consensus size: 96
44482737 AGCCACTAAC
** * * * *
44482747 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATAGCGAATCTTATTTCCCTGAAATTGCA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAAATTAAAAATAACGAATCTTATCTCCCTGAAATTGCA
44482812 GTGGAACAAATTAAAACTACAAATTACAAGT
66 GTGGAACAAATTAAAACTACAAATTACAAGT
* * * * *
44482843 CTTATCTCTCTGAAGTTGTAGTGGAGGAAATTAAAAATAATGAATCTTATCTCCTTGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAAATTAAAAATAACGAATCTTATCTCCCTGAAATTGCA
* *
44482908 GTGGAGCAGATTAAA
66 GTGGAACAAATTAAA
44482923 GCCACTAACC
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 67 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (96 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAAATTAAAAATAACGAATCTTATCTCCCTGAAATTGCA
GTGGAACAAATTAAAACTACAAATTACAAGT
Found at i:44488542 original size:29 final size:27
Alignment explanation
Indices: 44488510--44488563 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 27
44488500 AATGGAGAAT
44488510 AATTAAATTCCTTAAATA-AATAAAAAAGA
1 AATTAAATT--TTAAATATAA-AAAAAAGA
44488539 AATTAAATTTTAAATATAAAAAAAA
1 AATTAAATTTTAAATATAAAAAAAA
44488564 TACAGGGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 13 0.54
28 2 0.08
29 9 0.38
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (27 bp):
AATTAAATTTTAAATATAAAAAAAAGA
Found at i:44488933 original size:23 final size:24
Alignment explanation
Indices: 44488902--44488959 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
44488892 TTGTATCAAA
*
44488902 AAAAT-AAATATA-ATAAAAATAT
1 AAAATAAAATATATATAAAAAAAT
* * *
44488924 ATAATGAAAT-TATTTAAAAAAAT
1 AAAATAAAATATATATAAAAAAAT
44488947 AAAATAAAATATA
1 AAAATAAAATATA
44488960 GTAGCATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 6 0.21
23 20 0.71
24 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATAAAATATATATAAAAAAAT
Found at i:44490648 original size:19 final size:19
Alignment explanation
Indices: 44490624--44490661 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44490614 TACCTATAAT
44490624 TTTTTTACAATTTTTCCAA
1 TTTTTTACAATTTTTCCAA
44490643 TTTTTTACAATTTTTCCAA
1 TTTTTTACAATTTTTCCAA
44490662 ATGAAACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTTACAATTTTTCCAA
Found at i:44490706 original size:32 final size:32
Alignment explanation
Indices: 44490667--44490731 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
44490657 TCCAAATGAA
44490667 ACACTTACCTACAATTTCAAGTTAACTTATGC
1 ACACTTACCTACAATTTCAAGTTAACTTATGC
44490699 ACACTTACCTACAATTTCAAGTTAACTTATGC
1 ACACTTACCTACAATTTCAAGTTAACTTATGC
44490731 A
1 A
44490732 TGAATTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (32 bp):
ACACTTACCTACAATTTCAAGTTAACTTATGC
Found at i:44491943 original size:19 final size:20
Alignment explanation
Indices: 44491919--44491956 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
44491909 CCATCATCTT
44491919 TTCCTTTTT-CAAAATTTCG
1 TTCCTTTTTCCAAAATTTCG
44491938 TTCCTTTTTCCAAAATTTC
1 TTCCTTTTTCCAAAATTTC
44491957 TGAAGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (20 bp):
TTCCTTTTTCCAAAATTTCG
Found at i:44503315 original size:23 final size:23
Alignment explanation
Indices: 44503285--44503331 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
44503275 CTGCGAAGTT
44503285 ATCAGCACCATCAGTTATCCCTA
1 ATCAGCACCATCAGTTATCCCTA
*
44503308 ATCAGCACCCTCAGTTATCCCTA
1 ATCAGCACCATCAGTTATCCCTA
44503331 A
1 A
44503332 GGTCATCCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.26
Consensus pattern (23 bp):
ATCAGCACCATCAGTTATCCCTA
Found at i:44506688 original size:8 final size:8
Alignment explanation
Indices: 44506677--44506704 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
44506667 TAAAAATATA
44506677 AATTTTGT
1 AATTTTGT
44506685 AATTTTGT
1 AATTTTGT
44506693 AATTTTGT
1 AATTTTGT
44506701 AATT
1 AATT
44506705 ACTACTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (8 bp):
AATTTTGT
Found at i:44507211 original size:21 final size:20
Alignment explanation
Indices: 44507187--44507230 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
44507177 ATTTATCTCC
* *
44507187 AATCTTAATGAATATAAAGAA
1 AATCATAATAAATA-AAAGAA
*
44507208 AATCATAATAAATAAAATAA
1 AATCATAATAAATAAAAGAA
44507228 AAT
1 AAT
44507231 ACATTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (20 bp):
AATCATAATAAATAAAAGAA
Found at i:44519310 original size:25 final size:25
Alignment explanation
Indices: 44519272--44519455 Score: 280
Period size: 25 Copynumber: 7.4 Consensus size: 25
44519262 AGTTAAGCTT
44519272 GTTAAA-TTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
44519296 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
44519321 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
44519346 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
* * *
44519371 GTTAAATTTGCTCTTAATATTTTCG
1 GTTAAATTTGTTCTTAATAATTCCG
* * *
44519396 ATTAAATTTGCTCTTAATATTTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
* *
44519421 GTTAAATTTGCTCTTAATATTTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
*
44519446 ATTAAATTTG
1 GTTAAATTTG
44519456 CCCTTATTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
24 6 0.04
25 146 0.96
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (25 bp):
GTTAAATTTGTTCTTAATAATTCCG
Found at i:44520336 original size:45 final size:45
Alignment explanation
Indices: 44520272--44520495 Score: 385
Period size: 45 Copynumber: 5.0 Consensus size: 45
44520262 ATATCGTACA
* *
44520272 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAT
1 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAT
44520317 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAT
1 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAT
* *
44520362 ATACTATTCGGGCCCTTGAGCCTAGCAGGCTATAATGCCGGTGAT
1 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAT
*
44520407 ATACTATTCGGGCCTTTGAGCCTAGTAGGTTATAATGCCGGTGAT
1 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAT
* *
44520452 ATACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCAGTGA
1 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGA
44520496 ATTGATATCG
Statistics
Matches: 169, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 169 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (45 bp):
ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAT
Found at i:44522896 original size:19 final size:20
Alignment explanation
Indices: 44522846--44522889 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
44522836 AAATAGATAT
*
44522846 TTATT-TAAATATTAAATTA
1 TTATTATAATTATTAAATTA
*
44522865 TTGTTATAATTATT-AATTA
1 TTATTATAATTATTAAATTA
44522884 TTATTA
1 TTATTA
44522890 ATATTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATTATAATTATTAAATTA
Found at i:44523298 original size:20 final size:20
Alignment explanation
Indices: 44523261--44523300 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44523251 ACAGGGGACG
* **
44523261 GAAAGAAAGAAAGGAGAAAA
1 GAAAGAAAAAAAAAAGAAAA
44523281 GAAAGAAAAAAAAAAGAAAA
1 GAAAGAAAAAAAAAAGAAAA
44523301 TTGAAAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
GAAAGAAAAAAAAAAGAAAA
Found at i:44542927 original size:39 final size:40
Alignment explanation
Indices: 44542826--44542927 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
44542816 TATTAGAATG
* *
44542826 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
44542866 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCGA-TTGACT
44542906 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGG
44542928 TACTTGGGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
38 1 0.02
39 14 0.25
40 39 0.68
41 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
Found at i:44546488 original size:25 final size:25
Alignment explanation
Indices: 44546445--44546526 Score: 114
Period size: 25 Copynumber: 3.3 Consensus size: 25
44546435 ATTTAATATC
44546445 AAGGGCTTATGCCCCAGTTTATTGAA
1 AAGGGCTT-TGCCCCAGTTTATTGAA
**
44546471 AAGGGCTTTGCCCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTATTGAA
44546496 AAGGGCTTTGCCCCAG-TTATT-AA
1 AAGGGCTTTGCCCCAGTTTATTGAA
44546519 AAGAGGCT
1 AAG-GGCT
44546527 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
25 31 0.61
26 8 0.16
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTATTGAA
Found at i:44546739 original size:42 final size:42
Alignment explanation
Indices: 44546658--44546746 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
44546648 GTAGTCTCCC
* * ** *
44546658 CAAATGGGCTTGCATACATTCATTGGTATTTCATATGATATT
1 CAAATAGGCTTGCATACATCCATTGACATTACATATGATATT
*
44546700 CAAATAGGCTTGCATACATCCATTGACATTACATGTGATATT
1 CAAATAGGCTTGCATACATCCATTGACATTACATATGATATT
*
44546742 GAAAT
1 CAAAT
44546747 GGGCCTATGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (42 bp):
CAAATAGGCTTGCATACATCCATTGACATTACATATGATATT
Found at i:44546809 original size:31 final size:31
Alignment explanation
Indices: 44546774--44546848 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
44546764 CATTTACAGT
*
44546774 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
44546805 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
44546836 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
44546849 TAGTAACCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:44549074 original size:27 final size:27
Alignment explanation
Indices: 44549035--44549142 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
44549025 TTAGAATACT
*
44549035 TTAGTTTACTAAAATTACCAAAATACCC
1 TTAGTTT-GTAAAATTACCAAAATACCC
* **
44549063 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACCAAAATACCC
* *
44549090 -TCGATTTGTAAAATTACTAAAATA-CC
1 TTAG-TTTGTAAAATTACCAAAATACCC
** *
44549116 TTCAACTTGTAAAATTACCAAAGTACC
1 TT-AGTTTGTAAAATTACCAAAATACC
44549143 TCCGATTTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 4 0.06
27 52 0.81
28 8 0.12
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACCAAAATACCC
Found at i:44549149 original size:54 final size:54
Alignment explanation
Indices: 44549044--44549150 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 54
44549034 TTTAGTTTAC
** *
44549044 TAAAATTACCAAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTTAACTTGTAAAAATACTCAAATACCCTCGATTTG
* *
44549098 TAAAATTACTAAAATA-CCTTCAACTTGTAAAATTAC-CAAAGTA-CCTCCGATTT
1 TAAAATTACCAAAATACCCTT-AACTTGTAAAAATACTCAAA-TACCCT-CGATTT
44549151 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
53 10 0.22
54 35 0.78
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTTAACTTGTAAAAATACTCAAATACCCTCGATTTG
Found at i:44549158 original size:27 final size:27
Alignment explanation
Indices: 44549128--44549187 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
44549118 CAACTTGTAA
44549128 AATTACCAAAGTACCTCCGATTTACAG
1 AATTACCAAAGTACCTCCGATTTACAG
**** *
44549155 AATTACCGTTTTACCTCCGATTTACAT
1 AATTACCAAAGTACCTCCGATTTACAG
44549182 AATTAC
1 AATTAC
44549188 AGTTTTAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCTCCGATTTACAG
Found at i:44549192 original size:27 final size:27
Alignment explanation
Indices: 44549139--44549349 Score: 162
Period size: 27 Copynumber: 7.8 Consensus size: 27
44549129 ATTACCAAAG
44549139 TACCTCCGATTTACAGAATTACCGTTT
1 TACCTCCGATTTACAGAATTACCGTTT
* *
44549166 TACCTCCGATTTACATAATTACAGTTT
1 TACCTCCGATTTACAGAATTACCGTTT
* *
44549193 TAACC-CCGATTTACATAATTGCCGTTT
1 T-ACCTCCGATTTACAGAATTACCGTTT
* * *
44549220 TACCTTCGACTTATAGAATTACCGTTT
1 TACCTCCGATTTACAGAATTACCGTTT
* * *
44549247 TACC-CTCAATTTATAGAATTACCATTT
1 TACCTC-CGATTTACAGAATTACCGTTT
* * **
44549274 TACC-CTCGATTTATAAAATTACTATTT
1 TACCTC-CGATTTACAGAATTACCGTTT
** **
44549301 TACC-CTTAATTTACAGAATTATTGTTT
1 TACCTC-CGATTTACAGAATTACCGTTT
* *
44549328 TACC-CTCAATTTACAAAATTAC
1 TACCTC-CGATTTACAGAATTAC
44549350 TAAAATACCC
Statistics
Matches: 156, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
26 3 0.02
27 150 0.96
28 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCTCCGATTTACAGAATTACCGTTT
Found at i:44549202 original size:54 final size:54
Alignment explanation
Indices: 44549147--44549349 Score: 214
Period size: 54 Copynumber: 3.8 Consensus size: 54
44549137 AGTACCTCCG
* *
44549147 ATTTACAGAATTACCGTTTTA-CCTCCGATTTACATAATTACAGTTTTAACCC-CG
1 ATTTACAGAATTACCGTTTTACCCT-CGATTTACAAAATTACAGTTTT-ACCCTCA
* * * * * * *
44549201 ATTTACATAATTGCCGTTTTACCTTCGACTTATAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACAGTTTTACCCTCA
* * * *
44549255 ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACTA-TTTTACCCTTA
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC-AGTTTTACCCTCA
** *
44549309 ATTTACAGAATTATTGTTTTACCCTCAATTTACAAAATTAC
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC
44549350 TAAAATACCC
Statistics
Matches: 123, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 4 0.03
54 117 0.95
55 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (54 bp):
ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACAGTTTTACCCTCA
Found at i:44549259 original size:81 final size:80
Alignment explanation
Indices: 44549139--44549349 Score: 221
Period size: 81 Copynumber: 2.6 Consensus size: 80
44549129 ATTACCAAAG
* * *
44549139 TACCTCCGATTTACAGAATTACCGTTTTA-CCTCCGATTTACATAATTACAGTTTTAACCC-CGA
1 TACCTTCGATTTACAGAATTACCGTTTTACCCT-CAATTTACAAAATTACA-TTTT-ACCCTCGA
* * *
44549202 TTTACATAATTGCCGTTT
63 TTTACAAAATTACCATTT
* * * *
44549220 TACCTTCGACTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATT
1 TACCTTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTA-CATTTTACCCTCGATT
* *
44549285 TATAAAATTACTATTT
65 TACAAAATTACCATTT
* **
44549301 TACCCTT-AATTTACAGAATTATTGTTTTACCCTCAATTTACAAAATTAC
1 TA-CCTTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTAC
44549350 TAAAATACCC
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
80 5 0.05
81 94 0.87
82 9 0.08
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (80 bp):
TACCTTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACATTTTACCCTCGATTT
ACAAAATTACCATTT
Found at i:44549359 original size:54 final size:54
Alignment explanation
Indices: 44549247--44549361 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
44549237 ATTACCGTTT
* * * * ***
44549247 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACTATTT
1 TACCCTTAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTAAAA
***
44549301 TACCCTTAATTTACAGAATTATTGTTTTACCCTCAATTTACAAAATTACTAAAA
1 TACCCTTAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTAAAA
44549355 TACCCTT
1 TACCCTT
44549362 GGTTTGTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (54 bp):
TACCCTTAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTAAAA
Found at i:44549372 original size:27 final size:27
Alignment explanation
Indices: 44549342--44549580 Score: 171
Period size: 27 Copynumber: 8.8 Consensus size: 27
44549332 CTCAATTTAC
44549342 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * *
44549369 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
*
44549396 AAAATTACGAAAATACCAC-TGGTTTGT
1 AAAATTACTAAAATACC-CTTGGTTTGT
* *** *
44549423 GAAATTA-TCAAAATACCCTCAATCTGT
1 AAAATTACT-AAAATACCCTTGGTTTGT
* * * *
44549450 AAAATTACCAAAATACTCTTGATTTAT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * **
44549477 AAAGTTAC-AGAAATACCCTTGACTTCCT
1 AAAATTACTA-AAATACCCTTG-GTTTGT
** **
44549505 AAAAATTA-TAGAAATACTATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTGGTTTGT
*
44549533 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * *
44549560 AGATTTACTAAAACACCCTTG
1 AAAATTACTAAAATACCCTTG
44549581 TAGGATGAAA
Statistics
Matches: 164, Mismatches: 39, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
26 2 0.01
27 138 0.84
28 7 0.04
29 17 0.10
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTGT
Found at i:44549675 original size:27 final size:27
Alignment explanation
Indices: 44549598--44549675 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
44549588 AAATGACTAA
* *
44549598 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
44549625 AA-AGCCCCTGTAGGGTAAAGTGACCTT
1 AATA-CCCCTGTATGGTAAAATGACCGT
44549652 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
44549676 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:44550486 original size:38 final size:33
Alignment explanation
Indices: 44550421--44550490 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
44550411 GGGCATGGCA
44550421 TTTTGCATACATGACATGTTGCATTGGGTTGGG
1 TTTTGCATACATGACATGTTGCATTGGGTTGGG
44550454 TTTTGCATACATGACATGTTGCATTGGGTTGGG
1 TTTTGCATACATGACATGTTGCATTGGGTTGGG
44550487 TTTT
1 TTTT
44550491 TATATGGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.17, C:0.11, G:0.29, T:0.43
Consensus pattern (33 bp):
TTTTGCATACATGACATGTTGCATTGGGTTGGG
Found at i:44550589 original size:52 final size:51
Alignment explanation
Indices: 44550511--44550646 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
44550501 GAGGAAGTGC
*
44550511 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
44550563 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
44550614 AAAAGGG-TTTTGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
44550647 AGGCCTTCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 10 0.12
51 21 0.26
52 36 0.44
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:44550608 original size:25 final size:26
Alignment explanation
Indices: 44550511--44550646 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
44550501 GAGGAAGTGC
44550511 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
44550537 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
44550563 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
44550589 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
44550614 AAAAGGG-TTTTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
44550637 AAAAGAGGCT
1 AAAAG-GGCT
44550647 AGGCCTTCAG
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 29 0.30
26 56 0.58
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:44550838 original size:42 final size:42
Alignment explanation
Indices: 44550779--44550868 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
44550769 TAGTCTCCCC
* * ** *
44550779 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGCCTTGCATACATCCATTGACATTACATATGATATTG
*
44550821 AAATGGCCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGCCTTGCATACATCCATTGACATTACATATGATATTG
44550863 AAATGG
1 AAATGG
44550869 GCCTATGGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (42 bp):
AAATGGCCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:44550932 original size:31 final size:31
Alignment explanation
Indices: 44550894--44550972 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
44550884 CGTTTACAGT
44550894 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
*
44550925 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
*
44550956 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCAGCCCAGT
44550973 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGAAATGATTTATGA
Found at i:44566527 original size:134 final size:134
Alignment explanation
Indices: 44566163--44566533 Score: 435
Period size: 134 Copynumber: 2.8 Consensus size: 134
44566153 GCTAATTATG
*
44566163 ATCACGACTAGTATTATTAAAGCTTGCTGATTTACGATCATAGCTTAAGTTCACTAATTTACA-A
1 ATCACGACTAGTATTATTAAAGCTTGTTGATTTACGATCATAGCTTAAGTTCACTAATTTA-AGA
* * *
44566227 TCATGAACAGTTCATTTTGAGTTCATTGATTTATGATCACTAATTCATTCAAAATGTTCGTTGAT
65 TCATGAACAGTTCATTTTGAGTTCATTGATTTATGATCACTAATCCATTCAAAATATTCGCTGAT
**
44566292 TTATG
130 TTACA
* * * * *
44566297 ATTATC-ACTGGTATTATTAAAGCTTGTTGATTTACAATCATAGCTTAAGTTCACTAAATTACGA
1 ATCA-CGACTAGTATTATTAAAGCTTGTTGATTTACGATCATAGCTTAAGTTCACTAATTTAAGA
* * * * * *
44566361 TCATGAACAATTCATTTTGATTTTACTGATTTACGATCGC-AACTCCATTCAAACA-ATTCGCTG
65 TCATGAACAGTTCATTTTGAGTTCATTGATTTATGATCACTAA-TCCATTCAAA-ATATTCGCTG
44566424 ATTTACA
128 ATTTACA
* * ** * * *
44566431 ATCACGACTAGTATTATTAAAGCTTGTTGATTTACGGTCACATTTTAAGTTAATTGATTTAAGAT
1 ATCACGACTAGTATTATTAAAGCTTGTTGATTTACGATCATAGCTTAAGTTCACTAATTTAAGAT
* * *
44566496 CATGAATAGTTCATTTTGAGTTCGTTAATTTATGATCA
66 CATGAACAGTTCATTTTGAGTTCATTGATTTATGATCA
44566534 TGACTAGTAG
Statistics
Matches: 194, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
133 3 0.02
134 189 0.97
135 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (134 bp):
ATCACGACTAGTATTATTAAAGCTTGTTGATTTACGATCATAGCTTAAGTTCACTAATTTAAGAT
CATGAACAGTTCATTTTGAGTTCATTGATTTATGATCACTAATCCATTCAAAATATTCGCTGATT
TACA
Found at i:44566599 original size:36 final size:36
Alignment explanation
Indices: 44566484--44566605 Score: 97
Period size: 36 Copynumber: 3.4 Consensus size: 36
44566474 TTTAAGTTAA
* * * *
44566484 TTGATTTAAGATCATGAATAGTTCATTTTGAGTTCG
1 TTGATTTATGATCATGAACAATTTATTTTGAGTTCG
* * * ** * *
44566520 TTAATTTATGATCATG-ACTA-GTAGTATTAAATTTTG
1 TTGATTTATGATCATGAACAATTTA-T-TTTGAGTTCG
44566556 CTT-ATTTATGATCATGAACAATTTATTTTGAGTTCG
1 -TTGATTTATGATCATGAACAATTTATTTTGAGTTCG
44566592 TTGATTTATGATCA
1 TTGATTTATGATCA
44566606 CTACTCCATT
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
34 1 0.02
35 4 0.06
36 50 0.79
37 6 0.10
38 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.47
Consensus pattern (36 bp):
TTGATTTATGATCATGAACAATTTATTTTGAGTTCG
Found at i:44571662 original size:47 final size:47
Alignment explanation
Indices: 44571578--44572027 Score: 687
Period size: 47 Copynumber: 9.6 Consensus size: 47
44571568 TATTTGAATA
44571578 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44571627 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44571674 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44571723 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
44571770 AATGTGACAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44571817 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44571866 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44571913 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-G-G-TG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
44571957 -A--TGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44572001 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44572028 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 18, Indels: 22
0.90 0.04 0.05
Matches are distributed among these distances:
41 31 0.08
42 1 0.00
43 2 0.01
44 4 0.01
45 2 0.01
46 1 0.00
47 230 0.62
49 102 0.27
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44571690 original size:96 final size:94
Alignment explanation
Indices: 44571578--44572027 Score: 687
Period size: 96 Copynumber: 4.8 Consensus size: 94
44571568 TATTTGAATA
44571578 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
44571643 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
44571674 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
44571739 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
44571770 AATGTGACAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
44571835 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
44571866 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
44571931 TGTGATAAGGCCTAATGGCCGA-G-G-TG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
44571957 -A--TGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
44572019 TGTGATAAG
66 TGTGATAAG
44572028 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 16, Indels: 12
0.92 0.04 0.03
Matches are distributed among these distances:
88 62 0.18
90 1 0.00
91 2 0.01
92 1 0.00
93 1 0.00
94 73 0.22
96 196 0.58
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44571753 original size:143 final size:143
Alignment explanation
Indices: 44571578--44572027 Score: 727
Period size: 143 Copynumber: 3.2 Consensus size: 143
44571568 TATTTGAATA
44571578 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
44571643 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
44571708 ATGGCCGATGTGATG
129 ATGGCCGATGTGATG
*
44571723 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGACAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
44571788 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
44571853 GGCCGATGTGATG
131 GGCCGATGTGATG
44571866 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
44571931 TGTGATAAGGCCTAATGGCCGA-G-G-TG-A--TGAAAGTG--TATATATGTGACAGGGCCGAGT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* *
44571988 GGCCAACGTGATG
131 GGCCGATGTGATG
* *
44572001 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44572028 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
135 54 0.18
137 8 0.03
139 1 0.00
140 2 0.01
141 1 0.00
142 1 0.00
143 214 0.73
145 12 0.04
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:44571999 original size:41 final size:41
Alignment explanation
Indices: 44571917--44572000 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
44571907 GTGATGAATG
* * * *
44571917 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAGGTGA
1 TGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGA
* *
44571958 TGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGA
1 TGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGA
44571999 TG
1 TG
44572001 GATGTGAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (41 bp):
TGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGA
Found at i:44581232 original size:21 final size:21
Alignment explanation
Indices: 44581208--44581249 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
44581198 GAAGAGGGTG
44581208 ATTAAAAACTAAGATTTTAAA
1 ATTAAAAACTAAGATTTTAAA
44581229 ATTAAAAACTAAGATTTTAAA
1 ATTAAAAACTAAGATTTTAAA
44581250 CTAAGTAACT
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:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTAAAAACTAAGATTTTAAA
Found at i:44585443 original size:40 final size:40
Alignment explanation
Indices: 44585383--44585606 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
44585373 TATTCGGATG
44585383 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
44585423 ATATCCGGGCTAAGTACCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
44585466 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
44585506 ATATCCGGGCTAAGTCCCGACGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
44585546 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
44585586 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
44585607 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:44585531 original size:83 final size:80
Alignment explanation
Indices: 44585387--44585606 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
44585377 CGGATGATAT
* * **
44585387 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTACCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
44585452 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
44585470 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGACGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
44585535 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
44585550 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
44585607 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 15 0.12
80 45 0.36
81 2 0.02
83 62 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:44587217 original size:31 final size:32
Alignment explanation
Indices: 44587153--44587232 Score: 153
Period size: 32 Copynumber: 2.5 Consensus size: 32
44587143 ATCAAAAACC
44587153 ATAAAATTTTATAAAAAGATACATATTTTTTT
1 ATAAAATTTTATAAAAAGATACATATTTTTTT
44587185 ATAAAATTTTATAAAAAGATACATA-TTTTTT
1 ATAAAATTTTATAAAAAGATACATATTTTTTT
44587216 ATAAAATTTTATAAAAA
1 ATAAAATTTTATAAAAA
44587233 TTACTTTCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 23 0.48
32 25 0.52
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (32 bp):
ATAAAATTTTATAAAAAGATACATATTTTTTT
Found at i:44591709 original size:40 final size:40
Alignment explanation
Indices: 44591665--44591887 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
44591655 GCTCCTCGTT
*
44591665 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
44591705 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
44591745 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
44591785 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
44591824 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
44591865 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
44591888 ACAGCATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.27
40 105 0.65
41 8 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:44591849 original size:79 final size:80
Alignment explanation
Indices: 44591665--44591888 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
44591655 GCTCCTCGTT
* * *
44591665 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
44591729 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
44591745 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44591809 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
44591824 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
44591885 CGGA
63 CGGA
44591889 CAGCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
78 12 0.09
79 60 0.47
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:44592984 original size:13 final size:13
Alignment explanation
Indices: 44592966--44592990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44592956 AGGATGAGCA
44592966 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
44592979 TTTTTTTTCTTT
1 TTTTTTTTCTTT
44592991 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:44599686 original size:40 final size:40
Alignment explanation
Indices: 44599642--44599864 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
44599632 GCTCCTCGTT
*
44599642 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
44599682 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
44599722 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
44599762 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
44599801 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
44599842 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
44599865 ACAGCATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.27
40 105 0.65
41 8 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:44599826 original size:79 final size:80
Alignment explanation
Indices: 44599642--44599865 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
44599632 GCTCCTCGTT
* * *
44599642 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
44599706 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
44599722 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44599786 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
44599801 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
44599862 CGGA
63 CGGA
44599866 CAGCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
78 12 0.09
79 60 0.47
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:44605624 original size:108 final size:108
Alignment explanation
Indices: 44605435--44605652 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 108
44605425 GACGACAATC
44605435 CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
1 CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
44605500 ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACAG
66 ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACAG
*
44605543 CTGAGAAAGCCAAATTTTGGCTTGAAAATATGCTTCGGGTATTTGATGAGCTTTCTTGCACACCG
1 CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
44605608 ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACAG
66 ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACAG
44605651 CT
1 CT
44605653 TATCAGTGGT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (108 bp):
CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACAG
Found at i:44619951 original size:321 final size:321
Alignment explanation
Indices: 44619413--44620054 Score: 1029
Period size: 321 Copynumber: 2.0 Consensus size: 321
44619403 AATTATATGC
*
44619413 TAAGTTCAGCAGAAGTGAATTTTGGCTTCGAGAGGTTGGGTTCTTAGGTCACATAATGCTGGGTG
1 TAAGTTCAGCAGAAGTGAATTTTGGCTTCGAGAGGTCGGGTTCTTAGGTCACATAATGCTGGGTG
* *
44619478 ATGGCATCCGAGTTGATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCCGCTAAATAATGTA
66 ATGGCATCCGAGTTAATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCCGCCAAATAATGTA
44619543 ACTGAGGTTAGAAGCTTCTTGGACTTAGACAGTTACTACCAACGCTTTGTAAAAGGATTTTCTAT
131 ACTGAGGTTAGAAGCTTCTTGGACTTAGACAGTTACTACCAACGCTTTGTAAAAGGATTTTCTAT
*
44619608 GATAGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCAGAAAAATTTC
196 GATAGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCAGAAAAATGTC
* * *
44619673 AGCAAAGTTTCGAGAAATTAAGGACATTCCCAACAGAAGCTCTAATTTTAGTGCAACCCGA
261 AGCAAAGTTTCGAGAAATTAAAGACATTCCCAACAGAAGCTCCAATTTCAGTGCAACCCGA
* * **
44619734 TAAGTTCAGCCA-AAGTGAATTTTGGCTTTGAGAGGTCGGGTTCTTGGGTCACATGGTG-TCGGG
1 TAAGTTCAG-CAGAAGTGAATTTTGGCTTCGAGAGGTCGGGTTCTTAGGTCACATAATGCT-GGG
* *
44619797 TGATGGCATTCGAGTTAATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCTGCCAAATAATG
64 TGATGGCATCCGAGTTAATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCCGCCAAATAATG
* * *
44619862 TAACTGGGGTTAGAAGCTTCTTGGACTTAGTCAGTTACTACCAACGCTTTGT-AAAGGGTGTTTC
129 TAACTGAGGTTAGAAGCTTCTTGGACTTAGACAGTTACTACCAACGCTTTGTAAAAGGAT-TTTC
* *
44619926 TATGATTGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCGGAAAAAT
193 TATGATAGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCAGAAAAAT
* * * * *
44619991 GTCAGGAGAGTTTCGAGAAATTAAAGACATTGCTAACAGAAGCTCCAGTTTCAGTGCAACCCGA
258 GTCAGCAAAGTTTCGAGAAATTAAAGACATTCCCAACAGAAGCTCCAATTTCAGTGCAACCCGA
44620055 GCCGAGAAAA
Statistics
Matches: 295, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
320 7 0.02
321 286 0.97
322 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (321 bp):
TAAGTTCAGCAGAAGTGAATTTTGGCTTCGAGAGGTCGGGTTCTTAGGTCACATAATGCTGGGTG
ATGGCATCCGAGTTAATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCCGCCAAATAATGTA
ACTGAGGTTAGAAGCTTCTTGGACTTAGACAGTTACTACCAACGCTTTGTAAAAGGATTTTCTAT
GATAGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCAGAAAAATGTC
AGCAAAGTTTCGAGAAATTAAAGACATTCCCAACAGAAGCTCCAATTTCAGTGCAACCCGA
Found at i:44626841 original size:21 final size:23
Alignment explanation
Indices: 44626817--44626858 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
44626807 TGCCAAACTC
44626817 ATCAAATGGAAA-CA-GAATCAA
1 ATCAAATGGAAAGCACGAATCAA
*
44626838 ATCAACTGGAAAGCACGAATC
1 ATCAAATGGAAAGCACGAATC
44626859 TCGAACCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.14
Consensus pattern (23 bp):
ATCAAATGGAAAGCACGAATCAA
Found at i:44637196 original size:17 final size:18
Alignment explanation
Indices: 44637125--44637216 Score: 82
Period size: 18 Copynumber: 5.1 Consensus size: 18
44637115 TTTCAAAAAA
*
44637125 TAATATTTTTTATATAAATT
1 TAATA-TTTTTATA-AATTT
* *
44637145 T-ATATTTTTTATGATTTT
1 TAATA-TTTTTATAAATTT
*
44637163 TAATAATTTTATAAATTT
1 TAATATTTTTATAAATTT
*
44637181 TAACATTTTTAT-AATTT
1 TAATATTTTTATAAATTT
*
44637198 TAATTTTTTTAT-AATTT
1 TAATATTTTTATAAATTT
44637215 TA
1 TA
44637217 TAACTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
17 22 0.36
18 24 0.39
19 14 0.23
20 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (18 bp):
TAATATTTTTATAAATTT
Found at i:44637224 original size:17 final size:17
Alignment explanation
Indices: 44637132--44637226 Score: 70
Period size: 17 Copynumber: 5.4 Consensus size: 17
44637122 AAATAATATT
* *
44637132 TTTTATATAAATTTATAT
1 TTTT-TATAATTTTATAA
*
44637150 TTTTTATGATTTT-TAA
1 TTTTTATAATTTTATAA
44637166 TAATTTTATAAATTTTA-ACA
1 T--TTTTAT-AATTTTATA-A
*
44637186 TTTTTATAATTTTA-ATT
1 TTTTTATAATTTTATA-A
44637203 TTTTTATAATTTTATAA
1 TTTTTATAATTTTATAA
44637220 CTTTTTA
1 -TTTTTA
44637227 AAATATATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.05
17 29 0.46
18 23 0.37
19 6 0.10
20 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (17 bp):
TTTTTATAATTTTATAA
Found at i:44637225 original size:10 final size:9
Alignment explanation
Indices: 44637143--44637226 Score: 68
Period size: 9 Copynumber: 9.4 Consensus size: 9
44637133 TTTATATAAA
*
44637143 TTTATATTT
1 TTTATAATT
*
44637152 TTTATGATT
1 TTTATAATT
44637161 TTTAATAA-T
1 TTT-ATAATT
*
44637170 TTTATAAAT
1 TTTATAATT
44637179 TTTA-ACATT
1 TTTATA-ATT
44637188 TTTATAATT
1 TTTATAATT
* *
44637197 TTAAT-TTT
1 TTTATAATT
44637205 TTTATAA-T
1 TTTATAATT
44637213 TTTATAACTT
1 TTTATAA-TT
44637223 TTTA
1 TTTA
44637227 AAATATATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 19 0.32
9 32 0.53
10 9 0.15
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:44637239 original size:43 final size:43
Alignment explanation
Indices: 44637159--44637240 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
44637149 TTTTTTATGA
* * *
44637159 TTTTTAATAATTTTATAAATTTTAACATTTTTATAATTTTAAT
1 TTTTTAATAATTTTATAAATTTTAAAATATATATAATTTTAAT
* *
44637202 TTTTTTATAATTTTATAACTTTTTAAAATATAT-TAATTT
1 TTTTTAATAATTTTATAA-ATTTTAAAATATATATAATTT
44637241 AAAAAAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 23 0.70
44 10 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (43 bp):
TTTTTAATAATTTTATAAATTTTAAAATATATATAATTTTAAT
Found at i:44639885 original size:32 final size:32
Alignment explanation
Indices: 44639832--44639894 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 32
44639822 TGATGTAACT
44639832 CATCTTTTTCCTTACACAAAAAAGAAGAAGAA
1 CATCTTTTTCCTTACACAAAAAAGAAGAAGAA
*
44639864 CATC-TTTTCCTTGCACAAAAAAGAAGAAGAA
1 CATCTTTTTCCTTACACAAAAAAGAAGAAGAA
44639895 AAGAGCTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (32 bp):
CATCTTTTTCCTTACACAAAAAAGAAGAAGAA
Found at i:44643429 original size:25 final size:25
Alignment explanation
Indices: 44643375--44643434 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
44643365 TAAAAAAAGA
*
44643375 AATATATAAAAGAGTTAAAATAAAT
1 AATATATAAAACAGTTAAAATAAAT
*
44643400 AATATATAAAGACAGTTTAAATAAAT
1 AATATATAAA-ACAGTTAAAATAAAT
44643426 ATATATATA
1 A-ATATATA
44643435 TAAATATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 10 0.32
26 14 0.45
27 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (25 bp):
AATATATAAAACAGTTAAAATAAAT
Found at i:44644002 original size:36 final size:36
Alignment explanation
Indices: 44643969--44644036 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
44643959 AGAATAAAGT
44643969 AAAAACTAAATA-TAAA-AA-TAAATAAATAAATAAA
1 AAAAACT-AATAGTAAACAAGTAAATAAATAAATAAA
* *
44644003 AGAACCTAATAGTAAACAAGTAAATAAATAAATA
1 AAAAACTAATAGTAAACAAGTAAATAAATAAATA
44644037 TTATGTAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.14
34 9 0.31
35 2 0.07
36 14 0.48
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (36 bp):
AAAAACTAATAGTAAACAAGTAAATAAATAAATAAA
Found at i:44644061 original size:3 final size:3
Alignment explanation
Indices: 44644053--44644081 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44644043 AACCGTCTAA
44644053 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44644082 ATATTATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44647011 original size:103 final size:103
Alignment explanation
Indices: 44646881--44647178 Score: 506
Period size: 103 Copynumber: 2.9 Consensus size: 103
44646871 AAAAGGATAC
*
44646881 TTTAGGTTTAATCGAGAAAAATCGAAGCCCTGTAAGTTAGGTCACGATTCCTCGAATTTCCTAAA
1 TTTAGGTTTAA-CGAGAAAAATCGAAGCCCTGTAAGTTAGGACACGATTCCTCGAATTTCCTAAA
* *
44646946 ATGCGTAATATTGCCTTATTTAGAAAGGATACTTGGCTA
65 ACGCGAAATATTGCCTTATTTAGAAAGGATACTTGGCTA
44646985 TTTAGGTTTAACGAGAAAAATCGAAGCCCTGTAAGTTAGGACACGATTCCTCGAATTTCCTAAAA
1 TTTAGGTTTAACGAGAAAAATCGAAGCCCTGTAAGTTAGGACACGATTCCTCGAATTTCCTAAAA
44647050 CGCGAAATATTGCCTTATTTAGAAAGGATACTTGGCTA
66 CGCGAAATATTGCCTTATTTAGAAAGGATACTTGGCTA
* * * *
44647088 TTTAAGTTTAACGAGAAAAATCGAAGCCCCGTAAGTTAGGGCACTATTCCTCGAATTTCCTAAAA
1 TTTAGGTTTAACGAGAAAAATCGAAGCCCTGTAAGTTAGGACACGATTCCTCGAATTTCCTAAAA
* *
44647153 CGCAAAATATTGTCTTATTTAGAAAG
66 CGCGAAATATTGCCTTATTTAGAAAG
44647179 TTCTCTTTTT
Statistics
Matches: 185, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
103 174 0.94
104 11 0.06
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (103 bp):
TTTAGGTTTAACGAGAAAAATCGAAGCCCTGTAAGTTAGGACACGATTCCTCGAATTTCCTAAAA
CGCGAAATATTGCCTTATTTAGAAAGGATACTTGGCTA
Found at i:44647514 original size:23 final size:19
Alignment explanation
Indices: 44647463--44647511 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
44647453 AAGACCAATG
44647463 AATTAAATAATATATAACA
1 AATTAAATAATATATAACA
*
44647482 ATTTTAAATATATATATAAAGCA
1 A-ATTAAATA-ATATAT-AA-CA
44647505 AATTAAA
1 AATTAAA
44647512 ATAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.29
21 6 0.25
22 7 0.29
23 3 0.12
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
AATTAAATAATATATAACA
Found at i:44647529 original size:16 final size:15
Alignment explanation
Indices: 44647504--44647533 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44647494 TATATAAAGC
44647504 AAATTAAAATAAATA
1 AAATTAAAATAAATA
44647519 AAATGTAAAATAAAT
1 AAAT-TAAAATAAAT
44647534 TTTAAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AAATTAAAATAAATA
Found at i:44647695 original size:21 final size:22
Alignment explanation
Indices: 44647669--44647709 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
44647659 AGTATAAAAT
44647669 AAGT-AATATATAA-AAAACCTA
1 AAGTAAATA-ATAATAAAACCTA
44647690 AAGTAAATAATAATAAAACC
1 AAGTAAATAATAATAAAACC
44647710 ATTTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.63, C:0.10, G:0.05, T:0.22
Consensus pattern (22 bp):
AAGTAAATAATAATAAAACCTA
Found at i:44655410 original size:63 final size:66
Alignment explanation
Indices: 44655341--44655466 Score: 168
Period size: 66 Copynumber: 2.0 Consensus size: 66
44655331 AACAATATAA
* ** * *
44655341 TGGTTTTGCCTTTTAAC-TT-AATGA-GTAAACATTTATCAAAATAACATAGTTTTGTCTTTTAA
1 TGGTTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAACATAGTTTTATCTTTTAA
44655403 C
66 C
* *
44655404 TGGTTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAGCGTAGTTTTATCTTTT
1 TGGTTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAACATAGTTTTATCTTTT
44655467 CTTATTCGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
63 16 0.30
64 2 0.04
65 3 0.06
66 32 0.60
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (66 bp):
TGGTTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAACATAGTTTTATCTTTTAA
C
Found at i:44655411 original size:17 final size:17
Alignment explanation
Indices: 44655389--44655421 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44655379 AAATAACATA
*
44655389 GTTTTGTCTTTTAACTG
1 GTTTTGACTTTTAACTG
44655406 GTTTTGACTTTTAACT
1 GTTTTGACTTTTAACT
44655422 TTAAAAAAGG
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:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
GTTTTGACTTTTAACTG
Found at i:44655973 original size:10 final size:10
Alignment explanation
Indices: 44655960--44655989 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
44655950 ATAAATTATA
44655960 TCATTTTAGT
1 TCATTTTAGT
44655970 TCATTTTAGT
1 TCATTTTAGT
44655980 TCATTTTAGT
1 TCATTTTAGT
44655990 CTTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (10 bp):
TCATTTTAGT
Found at i:44662359 original size:24 final size:26
Alignment explanation
Indices: 44662332--44662393 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 26
44662322 TTGAATTTAA
44662332 TTTTTATTTTAT-TCAGATTT-G-TAT
1 TTTTTATTTTATGT-AGATTTAGTTAT
*
44662356 TTTTTATTTTATGTAGATTTAAGTTTT
1 TTTTTATTTTATGTAGATTT-AGTTAT
44662383 TTTTTATTTTA
1 TTTTTATTTTA
44662394 AATTTATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 18 0.55
25 1 0.03
26 1 0.03
27 13 0.39
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (26 bp):
TTTTTATTTTATGTAGATTTAGTTAT
Found at i:44662406 original size:24 final size:23
Alignment explanation
Indices: 44662280--44662406 Score: 69
Period size: 23 Copynumber: 5.2 Consensus size: 23
44662270 TGAACTTAGT
*
44662280 TTTTTTTTTTACGTTAAATGTTAATA
1 TTTTTTTTTTA-TTTAAAT-TT-ATA
* *
44662306 TTTTTATATTTGAGTATTGAATTTA-A
1 TTTTT-T-TTTTA-T-TTAAATTTATA
* * * *
44662332 TTTTTATTTTATTCAGATTTGTA
1 TTTTTTTTTTATTTAAATTTATA
* *
44662355 TTTTTTATTTTATGTAGATTTA-A
1 TTTTTT-TTTTATTTAAATTTATA
*
44662378 GTTTTTTTTTATTTTAAATTTATA
1 TTTTTTTTTTA-TTTAAATTTATA
44662402 TTTTT
1 TTTTT
44662407 GATATATTAG
Statistics
Matches: 76, Mismatches: 18, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
22 10 0.13
23 21 0.28
24 21 0.28
26 11 0.14
27 2 0.03
28 6 0.08
29 5 0.07
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (23 bp):
TTTTTTTTTTATTTAAATTTATA
Found at i:44662639 original size:13 final size:14
Alignment explanation
Indices: 44662621--44662653 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
44662611 TATATTTTTC
44662621 TTTATATAT-AATA
1 TTTATATATAAATA
44662634 TTTATATATCAAATA
1 TTTATATAT-AAATA
44662649 TTTAT
1 TTTAT
44662654 TTTCTTCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:44662897 original size:13 final size:13
Alignment explanation
Indices: 44662879--44662903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44662869 TAAAAGAGTA
44662879 ATGAATTAAAAAG
1 ATGAATTAAAAAG
44662892 ATGAATTAAAAA
1 ATGAATTAAAAA
44662904 TAAAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
ATGAATTAAAAAG
Found at i:44667076 original size:28 final size:29
Alignment explanation
Indices: 44667045--44667140 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
44667035 AATGTTAGTG
44667045 TGAA-AAAAAATAAAAAAAAATTTAATGT
1 TGAATAAAAAATAAAAAAAAATTTAATGT
*** * *
44667073 TGAATAAAAAA-AAGAAGTTACTTTATTGT
1 TGAATAAAAAATAA-AAAAAAATTTAATGT
44667102 TGAATAAAAAAT-AAAAAAAATTTAATGT
1 TGAATAAAAAATAAAAAAAAATTTAATGT
44667130 TGAATAAAAAA
1 TGAATAAAAAA
44667141 AGGTAAATTA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
28 27 0.49
29 28 0.51
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (29 bp):
TGAATAAAAAATAAAAAAAAATTTAATGT
Found at i:44667097 original size:29 final size:27
Alignment explanation
Indices: 44667045--44667141 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 27
44667035 AATGTTAGTG
*
44667045 TGAAAAAAAATAAAAAAAAATTTAATGT
1 TGAATAAAAA-AAAAAAAAATTTAATGT
** * *
44667073 TGAATAAAAAAAAGAAGTTACTTTATTGT
1 TGAATAAAAAAAA-AA-AAAATTTAATGT
44667102 TGAATAAAAAATAAAAAAAATTTAATGT
1 TGAATAAAAAA-AAAAAAAATTTAATGT
44667130 TGAATAAAAAAA
1 TGAATAAAAAAA
44667142 GGTAAATTAC
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 4 0.07
28 30 0.53
29 21 0.37
30 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.28
Consensus pattern (27 bp):
TGAATAAAAAAAAAAAAAATTTAATGT
Found at i:44667243 original size:30 final size:31
Alignment explanation
Indices: 44667207--44667275 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
44667197 TGATTTCAAT
*
44667207 TCAATCATTCAAC-TT-TTGAAAAATAACAAA
1 TCAATCATT-AACGTTATCGAAAAATAACAAA
* *
44667237 TCAATCACTAACGTTATCGAAAAATGACAAA
1 TCAATCATTAACGTTATCGAAAAATAACAAA
44667268 TCAATCAT
1 TCAATCAT
44667276 CCATTAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 10 0.30
31 20 0.61
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.28
Consensus pattern (31 bp):
TCAATCATTAACGTTATCGAAAAATAACAAA
Found at i:44668357 original size:13 final size:13
Alignment explanation
Indices: 44668339--44668372 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44668329 TCTTTATTTT
*
44668339 TCCATTTTTCTTG
1 TCCATTTCTCTTG
44668352 TCCATTTCTCTTG
1 TCCATTTCTCTTG
*
44668365 TCGATTTC
1 TCCATTTC
44668373 CATCTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.26, G:0.09, T:0.56
Consensus pattern (13 bp):
TCCATTTCTCTTG
Found at i:44674748 original size:27 final size:27
Alignment explanation
Indices: 44674717--44674866 Score: 158
Period size: 27 Copynumber: 5.6 Consensus size: 27
44674707 TAAATTGTAC
*
44674717 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
44674744 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
44674770 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* * * *
44674798 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
44674825 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
44674852 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44674867 GACTCAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:44674857 original size:81 final size:81
Alignment explanation
Indices: 44674718--44674866 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
44674708 AAATTGTACA
* *
44674718 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
44674783 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** * *
44674799 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTG
1 GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
44674863 TGCG
65 TGCG
44674867 GACTCAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44678757 original size:22 final size:23
Alignment explanation
Indices: 44678732--44678777 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44678722 CAACCAAATC
44678732 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
44678754 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
44678777 A
1 A
44678778 CGTCATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:44678783 original size:23 final size:22
Alignment explanation
Indices: 44678739--44678788 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
44678729 ATCAATTCAA
*
44678739 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
44678761 GCATATTTAT-AAGATAACGTCAT
1 -CATATTT-TCAAGATAAAGTCAT
44678784 CATAT
1 CATAT
44678789 ATCTAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:44686574 original size:23 final size:23
Alignment explanation
Indices: 44686530--44686574 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44686520 ATCAATTCAA
*
44686530 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
44686553 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
44686575 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:44689657 original size:45 final size:44
Alignment explanation
Indices: 44689576--44689719 Score: 146
Period size: 45 Copynumber: 3.2 Consensus size: 44
44689566 CGTAGTTGAA
44689576 ACTATGGCATTAAACCGGAATGAATAAGAGCATAGTTGAAAGAT
1 ACTATGGCATTAAACCGGAATGAATAAGAGCATAGTTGAAAGAT
* * **
44689620 ACTATGGCATTAAATCTG-ATGCGAATAAGATTATAGTTGAAAGAT
1 ACTATGGCATTAAACCGGAAT--GAATAAGAGCATAGTTGAAAGAT
* * * * * * *
44689665 ACTATAGCAATACATCGACAATGAATAAGACCATAGTTAAAAGAT
1 ACTATGGCATTAAACCG-GAATGAATAAGAGCATAGTTGAAAGAT
*
44689710 AGTATGGCAT
1 ACTATGGCAT
44689720 CACTTCGAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
43 2 0.02
44 16 0.20
45 61 0.75
47 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (44 bp):
ACTATGGCATTAAACCGGAATGAATAAGAGCATAGTTGAAAGAT
Found at i:44689738 original size:45 final size:45
Alignment explanation
Indices: 44689594--44689741 Score: 120
Period size: 45 Copynumber: 3.3 Consensus size: 45
44689584 ATTAAACCGG
* * * * *
44689594 AATGAATAAGAGCATAGTTGAAAGATACTATGGCATTAAATCTG-A
1 AATGAATAAGACCATAGTTAAAAGATACTATAGCAATACATC-GAA
*** ** * *
44689639 TGCGAATAAGATTATAGTTGAAAGATACTATAGCAATACATCGAC
1 AATGAATAAGACCATAGTTAAAAGATACTATAGCAATACATCGAA
* * *
44689684 AATGAATAAGACCATAGTTAAAAGATAGTATGGC-ATCACTTCGAA
1 AATGAATAAGACCATAGTTAAAAGATACTATAGCAAT-ACATCGAA
*
44689729 AATGTATAAGACC
1 AATGAATAAGACC
44689742 GTGGTTGGAA
Statistics
Matches: 81, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
44 3 0.04
45 78 0.96
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (45 bp):
AATGAATAAGACCATAGTTAAAAGATACTATAGCAATACATCGAA
Found at i:44692996 original size:14 final size:14
Alignment explanation
Indices: 44692977--44693003 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44692967 TATGTTTAAT
44692977 AACATTAATTTTTG
1 AACATTAATTTTTG
44692991 AACATTAATTTTT
1 AACATTAATTTTT
44693004 TCACCGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AACATTAATTTTTG
Found at i:44695369 original size:343 final size:345
Alignment explanation
Indices: 44694722--44695406 Score: 934
Period size: 343 Copynumber: 2.0 Consensus size: 345
44694712 TATGCCATTA
* * * * *
44694722 TAATGAAAATAAGTCTTTCCCTACCTCATTCTTTCCTTCGACAACCCTTCCTGCTTTATCCTGTA
1 TAATGAAAATAAGTCTCTCCCTACCTCATTCTCTCATTCGACAACCCTTCCTGCATTATCCTATA
* *
44694787 AACATTTATTACTATTCAAATGCTTTCTCTATGTTGCAAATCGATAAAAAAAGATATGTTCCTTC
66 AACATTTAATACCATTCAAATGCTTTCTCTATGTTGCAAATCGATAAAAAAAGATATGTTCCTTC
44694852 CCCGAATTTCAACCAGTCTACTCTCACACACAACTCCCAATACAACTCCTCTTTGTTCGCCTCAA
131 CCCGAATTTCAACCAGTCTACTCTCACACACAACTCCCAATACAACTCCTCTTTGTTCGCCTCAA
*
44694917 GATTCATAGCTACTTCACATCCACTAGCTCCATCAACACATCATCCGTTGGGTACAAAGGGCTTA
196 GATTCATAGCTACTTCACATCCACTAGCTCCATCAACACATCATCCGTTGGGTACAAAAGGCTTA
* * * * * *
44694982 AGTGATCAAGTTGAGATCGAAGAGTTTGTATTATAAGCC-TTTTTTCTCGATGAATTTGTTGAAA
261 ACTGATCAAGTTGAGATCGAAGAGTTTGCATCATAAGCCTTTTTTTCTCGACGAATCTATTGAAA
44695046 CCACCTGTTTAACCCTTCAC
326 CCACCTGTTTAACCCTTCAC
* *
44695066 TAAT-AAAATTAAGTCTCTCTC-ACCTCATTCTCTCATTCGACAACCTTTCCCT-CATTATCCTA
1 TAATGAAAA-TAAGTCTCTCCCTACCTCATTCTCTCATTCGACAACCCTT-CCTGCATTATCCTA
* * *
44695128 TGAACATTTAATACCATTC-AATCGCTTTCTCTATGTTGCAAATTGAT-AAAAAAGATGTGTTCC
64 TAAACATTTAATACCATTCAAAT-GCTTTCTCTATGTTGCAAATCGATAAAAAAAGATATGTTCC
* * * * **** *
44695191 TATCCCTGAATTTCAACCAGTTTGCTCTCGCACGTTGCTCCTAATACAACTCCTCTTTGTTCGCC
128 T-TCCCCGAATTTCAACCAGTCTACTCTCACACACAACTCCCAATACAACTCCTCTTTGTTCGCC
* * * * *
44695256 TTAAGATTCATAGCTAACTTTACATCCACTAGCTCCATCAACACGTCATCTGTTGGGTACAAAAT
192 TCAAGATTCATAGCT-ACTTCACATCCACTAGCTCCATCAACACATCATCCGTTGGGTACAAAAG
* * * *
44695321 GCTTAACTGATCAAGTTGAGATTGAAGAGTTTGCATCGTATG-CTTTTTTTCTTGACGAATCTAT
256 GCTTAACTGATCAAGTTGAGATCGAAGAGTTTGCATCATAAGCCTTTTTTTCTCGACGAATCTAT
*
44695385 TGAAACCACTTGTTTAACCCTT
321 TGAAACCACCTGTTTAACCCTT
44695407 TATTGACGAA
Statistics
Matches: 297, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
342 19 0.06
343 144 0.48
344 134 0.45
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (345 bp):
TAATGAAAATAAGTCTCTCCCTACCTCATTCTCTCATTCGACAACCCTTCCTGCATTATCCTATA
AACATTTAATACCATTCAAATGCTTTCTCTATGTTGCAAATCGATAAAAAAAGATATGTTCCTTC
CCCGAATTTCAACCAGTCTACTCTCACACACAACTCCCAATACAACTCCTCTTTGTTCGCCTCAA
GATTCATAGCTACTTCACATCCACTAGCTCCATCAACACATCATCCGTTGGGTACAAAAGGCTTA
ACTGATCAAGTTGAGATCGAAGAGTTTGCATCATAAGCCTTTTTTTCTCGACGAATCTATTGAAA
CCACCTGTTTAACCCTTCAC
Found at i:44703527 original size:5 final size:5
Alignment explanation
Indices: 44703517--44703543 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
44703507 CTATATCCAA
44703517 AACTG AACTG AACTG AACTG AACTG AA
1 AACTG AACTG AACTG AACTG AACTG AA
44703544 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
AACTG
Found at i:44706586 original size:29 final size:29
Alignment explanation
Indices: 44706553--44706610 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
44706543 AGCTACCTAT
** *
44706553 TGTATGTAGTGCGTTGTTGGAAGGAGATA
1 TGTATGTAGTAAGTTGCTGGAAGGAGATA
44706582 TGTATGTAGTAAGTTGCTGGAAGGAGATA
1 TGTATGTAGTAAGTTGCTGGAAGGAGATA
44706611 GAGTGAAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.36, T:0.33
Consensus pattern (29 bp):
TGTATGTAGTAAGTTGCTGGAAGGAGATA
Done.