Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 24 of 75
Found at i:7073511 original size:89 final size:89
Alignment explanation
Indices: 7073104--7074264 Score: 1779
Period size: 89 Copynumber: 13.0 Consensus size: 89
7073094 AAATCTGCCA
* *
7073104 TCTTCGATCTGTTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
* *
7073169 AGTACATGAAGACAATATCCGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * * *
7073193 TCTTCGATCTGCTTCACCACCAGTATGGGAAGGCAAGATTTGTTATCTTTGAATCTACTCCATGC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTG-ATCTACTTCACGC
*
7073258 CAGTACATGAAGACAAGATCTGTTT
65 CAGTACATGAAGACAAGATCTGCTT
* ** *
7073283 TCTTCAATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
* *
7073348 AATACATGAAGACAAGATCTGTTTTCT
66 AGTACATGAAGACAAGATCTG--CT-T
* * * *
7073375 TCTTCGATCTATTTCGCCACCAGTATGGAAAGACAAGATCTGCTATCTTCGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
7073440 AGTATATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * *
7073464 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCATGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
7073529 AGTACATGAAGACAAGACCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* ** * * * * *
7073553 TTTTTAATCTGCTTCGCCACTAGTATGGGAAGGCAAGATCTGTTATCTTTGATCCACTTCACGCT
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
7073618 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
** **
7073642 TCTTTAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
**
7073707 AGTACATGAAGACAAGATCCACTT
66 AGTACATGAAGACAAGATCTGCTT
7073731 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
7073796 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* *
7073820 TCTTCGATCTGTTTCGCCACCAGTATGAGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCT
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
7073885 AGT-CTATGAAGACAAGATCTGTTT
66 AGTAC-ATGAAGACAAGATCTGCTT
7073909 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
7073974 AGTACATGAAGACAAGATCCGCTT
66 AGTACATGAAGACAAGATCTGCTT
7073998 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT-ATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
7074062 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
7074086 TCTTCGATCTGTTTTGCCACCAGTATGAGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
7074151 AGT-CTATAAAGACAAGATCTGCTT
66 AGTAC-ATGAAGACAAGATCTGCTT
*
7074175 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCATGCC
1 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
7074240 AGTACATGAAGACAAGATCTACTT
66 AGTACATGAAGACAAGATCTGCTT
7074264 T
1 T
7074265 TTTTTAACCT
Statistics
Matches: 986, Mismatches: 77, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
88 86 0.09
89 736 0.75
90 83 0.08
91 2 0.00
92 79 0.08
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:7075648 original size:13 final size:14
Alignment explanation
Indices: 7075630--7075678 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
7075620 CCTTAGCCTC
7075630 TCCATTTT-ACTTT
1 TCCATTTTCACTTT
*
7075643 TCCATTTTTCAGTTT
1 TCCA-TTTTCACTTT
7075658 T-CATTTTCACTTT
1 TCCATTTTCACTTT
*
7075671 TTCATTTT
1 TCCATTTT
7075679 TCATCTCGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 14 0.45
14 12 0.39
15 5 0.16
ACGTcount: A:0.14, C:0.20, G:0.02, T:0.63
Consensus pattern (14 bp):
TCCATTTTCACTTT
Found at i:7075658 original size:7 final size:7
Alignment explanation
Indices: 7075640--7075682 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
7075630 TCCATTTTAC
*
7075640 TTTTCCA
1 TTTTTCA
7075647 TTTTTCA
1 TTTTTCA
*
7075654 GTTTTCA
1 TTTTTCA
7075661 -TTTTCA
1 TTTTTCA
7075667 CTTTTTCA
1 -TTTTTCA
7075675 TTTTTCA
1 TTTTTCA
7075682 T
1 T
7075683 CTCGTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTTTCA
Found at i:7075662 original size:14 final size:15
Alignment explanation
Indices: 7075640--7075681 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7075630 TCCATTTTAC
7075640 TTTTCCATTTTTCA-G
1 TTTT-CATTTTTCACG
*
7075655 TTTTCA-TTTTCACT
1 TTTTCATTTTTCACG
7075669 TTTTCATTTTTCA
1 TTTTCATTTTTCA
7075682 TCTCGTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 8 0.33
15 10 0.42
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTCATTTTTCACG
Found at i:7080337 original size:19 final size:19
Alignment explanation
Indices: 7080313--7080355 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7080303 AACTATGTTT
* *
7080313 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
7080331 CAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
7080351 AATGC
1 AATGC
7080356 GAAAAGAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:7080404 original size:13 final size:13
Alignment explanation
Indices: 7080386--7080411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7080376 GTTCAAATTT
7080386 TTTACTAGAAAAC
1 TTTACTAGAAAAC
7080399 TTTACTAGAAAAC
1 TTTACTAGAAAAC
7080412 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:7086609 original size:3 final size:3
Alignment explanation
Indices: 7086601--7086629 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7086591 AAGGAATCTT
7086601 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7086630 TAAGCGTAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7091529 original size:113 final size:113
Alignment explanation
Indices: 7091388--7092020 Score: 944
Period size: 113 Copynumber: 5.7 Consensus size: 113
7091378 TAAAAAGAAA
7091388 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
*
7091453 GTGTACTGGGGGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT
66 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTT
7091502 TTTTTTTTTTGTATTTTTTT-TCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
*
7091566 GTGTACTGGGGGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT
66 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTT
7091615 TTTTTTTTTTGTATTTTTTT-TCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
*
7091679 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-------G
66 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT
*
7091720 TTTTTTTTTCGTA--TTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
* * *
7091783 GTGTACTAGGTGCCGGCCATTGACAGGCCAGCATCTAAAATTTTTTTT
66 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT
* *
7091831 TATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTTTCTTTGTA
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT--AATTTTTTTTTCTTTGTA
* * *
7091896 TTGTGTACTGCGTGCCGGCCATTGACAGGCCAGCACCCAAAA-----ATT
64 CTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT
** * *
7091941 TTTTTTCGTAGTATTTTTTTATCTGATTCTGACACG-AAAAAAATAA-TTTTTTTTC-GTGTACT
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
*
7092003 GTGTACTGGGTGCTGGCC
66 GTGTACTGGGTGCCGGCC
7092021 TGCACCCAAA
Statistics
Matches: 485, Mismatches: 22, Indels: 33
0.90 0.04 0.06
Matches are distributed among these distances:
103 5 0.01
104 81 0.17
105 33 0.07
106 9 0.02
107 2 0.00
109 8 0.02
110 34 0.07
111 12 0.02
113 226 0.47
114 20 0.04
115 55 0.11
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (113 bp):
TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT
Found at i:7091746 original size:104 final size:105
Alignment explanation
Indices: 7091615--7092020 Score: 559
Period size: 104 Copynumber: 3.8 Consensus size: 105
7091605 ATTTTTTTTT
* *
7091615 TTTTTTTTTTGTATTTTTTTTCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTG
1 TTTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTG
*
7091680 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAG
66 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
7091720 TTTTTTTTTCGTA-TTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTG
1 TTTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTG
* * * *
7091784 TGTACTAGGTGCCGGCCATTGACAGGCCAGCATCTAAAATTTTTTT
66 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA------A
7091830 TTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTTTCTTTGT
1 TT-TTTTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAAT--AATTTTTTTTTCTTTGT
* *
7091895 ATTGTGTACTGCGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
62 ACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
* *
7091939 TTTTTTTTCGTAGTATTTTTTTATCTGATTCTGACACG-AAAAAAATAA-TTTTTTTTC-GTGTA
1 TTTTTTTT--TCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTA
*
7092001 CTGTGTACTGGGTGCTGGCC
63 CTGTGTACTGGGTGCCGGCC
7092021 TGCACCCAAA
Statistics
Matches: 271, Mismatches: 17, Indels: 26
0.86 0.05 0.08
Matches are distributed among these distances:
104 86 0.32
105 33 0.12
106 9 0.03
107 2 0.01
108 6 0.02
109 10 0.04
110 29 0.11
111 11 0.04
113 30 0.11
115 55 0.20
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (105 bp):
TTTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTG
TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
Found at i:7091777 original size:217 final size:218
Alignment explanation
Indices: 7091388--7092012 Score: 954
Period size: 217 Copynumber: 2.8 Consensus size: 218
7091378 TAAAAAGAAA
7091388 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
* * *
7091453 GTGTACTGGGGGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTTTTTTTTTTGTATTT
66 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA--------ATTTTTTTTTAGTATTT
*
7091518 TTTTTCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTGTACTGGGGGCCGGC
123 TTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTGTACTGGGGGCCGGC
7091583 CATTGACAGGCCAGCACCCAAAATTTTTTTTT
188 CATTGACAGGCCAGCACCCAAAA-TTTTTTTT
7091615 TTTTTTTTTTGTATTTTTTT-TCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
* *
7091679 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAGTTTTTTTTTCGTA-TTTTTATCTG
66 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTAGTATTTTTTATCTG
* *
7091743 ATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTGTACTAGGTGCCGGCCATTGACA
131 ATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTGTACTGGGGGCCGGCCATTGACA
* *
7091808 GGCCAGCATCTAAAATTTTTTTT
196 GGCCAGCACCCAAAATTTTTTTT
* *
7091831 TATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTTTCTTTGTA
1 TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT--AATTTTTTTTTCTTTGTA
* *
7091896 TTGTGTACTGCGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTCGTAGTATTTTTTT
64 CTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTT--TAGTA-TTTTTT
*
7091961 ATCTGATTCTGACACG-AAAAAAATAA-TTTTTTTTC-GTGTACTGTGTACTGGG
126 ATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTGTACTGGG
7092013 TGCTGGCCTG
Statistics
Matches: 375, Mismatches: 16, Indels: 21
0.91 0.04 0.05
Matches are distributed among these distances:
216 26 0.07
217 109 0.29
218 12 0.03
219 66 0.18
220 15 0.04
221 13 0.03
222 10 0.03
223 21 0.06
226 83 0.22
227 20 0.05
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (218 bp):
TTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACT
GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTAGTATTTTTTATCTG
ATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTGTACTGGGGGCCGGCCATTGACA
GGCCAGCACCCAAAATTTTTTTT
Found at i:7094748 original size:41 final size:41
Alignment explanation
Indices: 7094691--7094770 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
7094681 TCATCGAATG
* *
7094691 TAATTCAGACTTATTGTCTAGCAGGCTTGATGCCGGTGATA
1 TAATTCAGACTTATTGTCTAGCAGGCTTAATGCCAGTGATA
7094732 TAATTCAGACTTATTGTCTAGCAGGCTTAATGCCAGTGA
1 TAATTCAGACTTATTGTCTAGCAGGCTTAATGCCAGTGA
7094771 AATTATTCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
TAATTCAGACTTATTGTCTAGCAGGCTTAATGCCAGTGATA
Found at i:7099008 original size:29 final size:30
Alignment explanation
Indices: 7098966--7099030 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
7098956 GACATTAATA
* *
7098966 GTCACCCAACTATTAATAAAATT-TTTTTG
1 GTCACCCAAATATTAACAAAATTCTTTTTG
* * *
7098995 GTCACTCAAATATTAGCAAATTTCTTTTTG
1 GTCACCCAAATATTAACAAAATTCTTTTTG
7099025 GTCACC
1 GTCACC
7099031 TAACTATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (30 bp):
GTCACCCAAATATTAACAAAATTCTTTTTG
Found at i:7099216 original size:15 final size:14
Alignment explanation
Indices: 7099174--7099216 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 14
7099164 CAAAATTATC
7099174 TAAGAAATAATGAA
1 TAAGAAATAATGAA
7099188 -AA-AAATAA-GAA
1 TAAGAAATAATGAA
7099199 TAAGAAATCAATGAA
1 TAAGAAAT-AATGAA
7099214 TAA
1 TAA
7099217 AATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.12
12 8 0.32
13 6 0.24
14 2 0.08
15 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (14 bp):
TAAGAAATAATGAA
Found at i:7099218 original size:26 final size:24
Alignment explanation
Indices: 7099174--7099232 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 24
7099164 CAAAATTATC
7099174 TAAGAAATAATGAAAAAAATAAGAA
1 TAAGAAATAATGAAAAAAATAA-AA
*
7099199 TAAGAAATCAATGAATAAAATAAAA
1 TAAGAAAT-AATGAAAAAAATAAAA
7099224 TAA-AAATAA
1 TAAGAAATAA
7099233 CATATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 2 0.06
24 4 0.12
25 13 0.41
26 13 0.41
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (24 bp):
TAAGAAATAATGAAAAAAATAAAA
Found at i:7100643 original size:67 final size:67
Alignment explanation
Indices: 7100562--7100780 Score: 205
Period size: 67 Copynumber: 3.2 Consensus size: 67
7100552 AAGTGAAATA
7100562 AAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATAAAAATTTATTAA
1 AAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATAAAAATTTATTAA
7100627 TG
66 TG
** * ** * * * ** * *
7100629 AAAAT-AATCTTTAGTAAATAAAATTACAT-CTATAAATTTTATTAAAAAATTATCTAAACTAAG
1 AAAATAAAT-TTTAGTTCAT-ATATT-GTTGCAATAAA--ATATTTAAATTTTATATAAA--AAT
* *
7100692 TGA--AATA
59 TTATTAATG
7100699 AAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATAAAAATTTATTAA
1 AAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATAAAAATTTATTAA
7100764 TG
66 TG
7100766 AAAAT-AATCTTTAGT
1 AAAATAAAT-TTTAGT
7100781 AAATAAAATT
Statistics
Matches: 112, Mismatches: 28, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
65 4 0.04
66 6 0.05
67 42 0.38
68 11 0.10
69 11 0.10
70 31 0.28
71 3 0.03
72 4 0.04
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (67 bp):
AAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATAAAAATTTATTAA
TG
Found at i:7100703 original size:137 final size:138
Alignment explanation
Indices: 7100550--7100824 Score: 543
Period size: 137 Copynumber: 2.0 Consensus size: 138
7100540 AGTTTTATTT
7100550 CTAAGTGAAATAAAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATA
1 CTAAGTGAAATAAAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATA
7100615 AAAATTTATTAATGAAAATAATCTTTAGTAAATAAAATTACATCTATAAATTTTATTAAAAA-AT
66 AAAATTTATTAATGAAAATAATCTTTAGTAAATAAAATTACATCTATAAATTTTATTAAAAATAT
7100679 TATCTAAA
131 TATCTAAA
7100687 CTAAGTGAAATAAAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATA
1 CTAAGTGAAATAAAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATA
7100752 AAAATTTATTAATGAAAATAATCTTTAGTAAATAAAATTACATCTATAAATTTTATTAAAAATAT
66 AAAATTTATTAATGAAAATAATCTTTAGTAAATAAAATTACATCTATAAATTTTATTAAAAATAT
7100817 TATCTAAA
131 TATCTAAA
7100825 TTTCAAATGT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 127 0.93
138 10 0.07
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (138 bp):
CTAAGTGAAATAAAAATAAATTTTAGTTCATATATTGTTGCAATAAAATATTTAAATTTTATATA
AAAATTTATTAATGAAAATAATCTTTAGTAAATAAAATTACATCTATAAATTTTATTAAAAATAT
TATCTAAA
Found at i:7102208 original size:4 final size:4
Alignment explanation
Indices: 7102199--7102225 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7102189 TATTCGTCTA
7102199 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
7102226 CAAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:7108708 original size:39 final size:39
Alignment explanation
Indices: 7108649--7108723 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
7108639 ATATGTATTT
* *
7108649 AAATTCATTAATATTATGATATATGAAATATTTAAACTC
1 AAATTCATTAATATTATGATAAATGAAATATATAAACTC
* * *
7108688 AAATTCATTAGTATTGTGATAAATGATATATATAAA
1 AAATTCATTAATATTATGATAAATGAAATATATAAA
7108724 TTTAAAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (39 bp):
AAATTCATTAATATTATGATAAATGAAATATATAAACTC
Found at i:7109150 original size:27 final size:27
Alignment explanation
Indices: 7109112--7109174 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
7109102 AATAATAAAA
7109112 AGGCGGCACCAATGGTGCATTTCCCAT
1 AGGCGGCACCAATGGTGCATTTCCCAT
* *
7109139 AGGCGGCACCAATGGTGCCTTTCTCAT
1 AGGCGGCACCAATGGTGCATTTCCCAT
7109166 AGGCGGCAC
1 AGGCGGCAC
7109175 ATGATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.21
Consensus pattern (27 bp):
AGGCGGCACCAATGGTGCATTTCCCAT
Found at i:7110042 original size:30 final size:30
Alignment explanation
Indices: 7110008--7110069 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
7109998 TATTCTAATG
7110008 TAGTTTAGTAATATAATTAACAATAAAGGA
1 TAGTTTAGTAATATAATTAACAATAAAGGA
7110038 TAGTTTAGTAATATAATTAACAATAAAGGA
1 TAGTTTAGTAATATAATTAACAATAAAGGA
7110068 TA
1 TA
7110070 TTTTTATCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (30 bp):
TAGTTTAGTAATATAATTAACAATAAAGGA
Found at i:7110801 original size:27 final size:27
Alignment explanation
Indices: 7110758--7110820 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
7110748 TTTTAGTCCT
*
7110758 GTGCCGCCTATGGAAAAGGCACCATTG
1 GTGCTGCCTATGGAAAAGGCACCATTG
*
7110785 GTGTTGCCTATGGAAAAGGCACCATTG
1 GTGCTGCCTATGGAAAAGGCACCATTG
7110812 GTGCTGCCT
1 GTGCTGCCT
7110821 TTTTATTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (27 bp):
GTGCTGCCTATGGAAAAGGCACCATTG
Found at i:7128225 original size:13 final size:13
Alignment explanation
Indices: 7128207--7128231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7128197 TATTTTAATA
7128207 TTATTTTGTGTGT
1 TTATTTTGTGTGT
7128220 TTATTTTGTGTG
1 TTATTTTGTGTG
7128232 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:7144772 original size:16 final size:16
Alignment explanation
Indices: 7144751--7144781 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7144741 TATATTACAA
7144751 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
7144767 CATATATATTTGAAA
1 CATATAAATTTGAAA
7144782 ACCTTTTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:7146583 original size:19 final size:19
Alignment explanation
Indices: 7146524--7146586 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 19
7146514 TTTATGATTT
7146524 TTTTAAAAATGTAAATTTTGATA
1 TTTTAAAAAT-T--ATTTTGA-A
* *
7146547 TTTTTATAAA-TATATTGAA
1 -TTTTAAAAATTATTTTGAA
7146566 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
7146585 TT
1 TT
7146587 ATTTCGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 8 0.24
19 11 0.32
20 6 0.18
22 1 0.03
24 8 0.24
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:7146794 original size:133 final size:135
Alignment explanation
Indices: 7146556--7146824 Score: 524
Period size: 133 Copynumber: 2.0 Consensus size: 135
7146546 ATTTTTATAA
7146556 ATATATTGAATTTTAAAAATTATTTTGAATTATTTCGTATTTTTTTAGAGAGTGACTAATTTGTT
1 ATATATTGAATTTTAAAAATTATTTTGAATTATTTCGTATTTTTTTAGAGAGTGACTAATTTGTT
7146621 AATTTTTAAAATTGGCAAGGACCAAAGGGTATTTACACCAATCTAATATTTGAATTA-T-TAATT
66 AATTTTTAAAATTGGCAAGGACCAAAGGGTATTTACACCAATCTAATATTTGAATTATTCTAATT
7146684 ATTCG
131 ATTCG
7146689 ATATATTGAATTTTAAAAATTATTTTGAATTATTTCGTATTTTTTTAGAGAGTGACTAATTTGTT
1 ATATATTGAATTTTAAAAATTATTTTGAATTATTTCGTATTTTTTTAGAGAGTGACTAATTTGTT
7146754 AATTTTTAAAATTGGCAAGGACCAAAGGGTATTTACACCAATCTAATATTTGAATTATTCTAATT
66 AATTTTTAAAATTGGCAAGGACCAAAGGGTATTTACACCAATCTAATATTTGAATTATTCTAATT
7146819 ATTCG
131 ATTCG
7146824 A
1 A
7146825 ATTGTCAAAT
Statistics
Matches: 134, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
133 122 0.91
134 1 0.01
135 11 0.08
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (135 bp):
ATATATTGAATTTTAAAAATTATTTTGAATTATTTCGTATTTTTTTAGAGAGTGACTAATTTGTT
AATTTTTAAAATTGGCAAGGACCAAAGGGTATTTACACCAATCTAATATTTGAATTATTCTAATT
ATTCG
Found at i:7153307 original size:3 final size:3
Alignment explanation
Indices: 7153299--7153351 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
7153289 ATATGTAAGT
*
7153299 ATA ATA ATA ATA GTA AGTA AT- ATA ATA ATA ATTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
7153345 AGTA ATA
1 A-TA ATA
7153352 GTAGCAACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7153316 original size:18 final size:17
Alignment explanation
Indices: 7153294--7153351 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 17
7153284 TATATATATG
*
7153294 TAAGTATAATAATAATAG
1 TAAGT-TAATAATAATAA
7153312 TAAG-TAAT-ATAATAA
1 TAAGTTAATAATAATAA
7153327 TAA-TTAATAATAATAA
1 TAAGTTAATAATAATAA
7153343 TAAG-TAATA
1 TAAGTTAATA
7153352 GTAGCAACGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 13 0.36
16 19 0.53
18 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (17 bp):
TAAGTTAATAATAATAA
Found at i:7157696 original size:6 final size:6
Alignment explanation
Indices: 7157685--7157710 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7157675 CATGTGTGTG
7157685 TTTGCT TTTGCT TTTGCT TTTGCT TT
1 TTTGCT TTTGCT TTTGCT TTTGCT TT
7157711 GGAGATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTGCT
Found at i:7175189 original size:13 final size:13
Alignment explanation
Indices: 7175173--7175225 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
7175163 TTTAAACCAA
*
7175173 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
*
7175186 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
7175199 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
7175212 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
7175225 A
1 A
7175226 TTGCCAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 5 0.15
13 24 0.73
14 4 0.12
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7188992 original size:18 final size:18
Alignment explanation
Indices: 7188971--7189006 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7188961 TTATATGCGA
7188971 ATTTGATTTTGTATTTTT
1 ATTTGATTTTGTATTTTT
* *
7188989 ATTTTATTTTTTATTTTT
1 ATTTGATTTTGTATTTTT
7189007 TTATTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (18 bp):
ATTTGATTTTGTATTTTT
Found at i:7205486 original size:5 final size:5
Alignment explanation
Indices: 7205471--7205508 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
7205461 CTCTCTTATA
*
7205471 ATAAT -TAAT ATAAT ATAAT ATAAT ATAAC ATACAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATA
7205509 TTAATTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:7206119 original size:19 final size:19
Alignment explanation
Indices: 7206095--7206134 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7206085 TTGTTTTTGT
*
7206095 TTTCACTATTTTGTTACTA
1 TTTCACTATTATGTTACTA
*
7206114 TTTCACTATTATGTTGCTA
1 TTTCACTATTATGTTACTA
7206133 TT
1 TT
7206135 ATTTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTCACTATTATGTTACTA
Found at i:7209819 original size:17 final size:17
Alignment explanation
Indices: 7209783--7209829 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
7209773 AATTTAGAAT
*
7209783 AATTTT-TGAATTAGTG
1 AATTTTGTGATTTAGTG
*
7209799 AATTTTGTGATTTATTG
1 AATTTTGTGATTTAGTG
7209816 AATTTTGTGATTTA
1 AATTTTGTGATTTA
7209830 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (17 bp):
AATTTTGTGATTTAGTG
Found at i:7209905 original size:19 final size:18
Alignment explanation
Indices: 7209881--7209917 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
7209871 AGACCTCGAG
7209881 TTCATAAACCAAGCCATAA
1 TTCAT-AACCAAGCCATAA
*
7209900 TTCATAAGCAAGCCATAA
1 TTCATAACCAAGCCATAA
7209918 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (18 bp):
TTCATAACCAAGCCATAA
Found at i:7211231 original size:46 final size:46
Alignment explanation
Indices: 7211161--7211249 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
7211151 CATGGGAAAG
* *
7211161 TGTGAAACGTAGGTATGGTATTTCAATGAAGAAAACCATACTGGGT
1 TGTGAAAAGTAAGTATGGTATTTCAATGAAGAAAACCATACTGGGT
* *
7211207 TGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTG
1 TGTGAAAAGTAAGTATGGTATTTCAATGAAGAAAACCATACTG
7211250 AGTTATAGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAAGTATGGTATTTCAATGAAGAAAACCATACTGGGT
Found at i:7213694 original size:32 final size:31
Alignment explanation
Indices: 7213658--7213726 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
7213648 TTTGGATCAA
7213658 GACTAAAATTTCA-AAACTCGAAAAATAAAAAG
1 GACTAAAA-TTCACAAACTCGAAAAAT-AAAAG
* * *
7213690 GACTAAAATTGACCAACTCGAAAAATACAAG
1 GACTAAAATTCACAAACTCGAAAAATAAAAG
7213721 GACTAA
1 GACTAA
7213727 GATTAATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.17
Consensus pattern (31 bp):
GACTAAAATTCACAAACTCGAAAAATAAAAG
Found at i:7223758 original size:21 final size:21
Alignment explanation
Indices: 7223719--7223758 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7223709 GCATATCCAT
* *
7223719 ATCACATTTATCAGGAAAAGG
1 ATCACATTTATAAGAAAAAGG
*
7223740 ATCATATTTATAAGAAAAA
1 ATCACATTTATAAGAAAAA
7223759 AGAGAAGGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (21 bp):
ATCACATTTATAAGAAAAAGG
Found at i:7227628 original size:89 final size:88
Alignment explanation
Indices: 7227472--7227674 Score: 228
Period size: 89 Copynumber: 2.3 Consensus size: 88
7227462 TTTAATCCAT
** * * * *
7227472 TCCACTGCAACGCCAAGGAAATAAGATTTGTAATTTCAATCTGCCCCAATGCAACTTCAGAGAGA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCAATTTCAATCTGCCCCAATACAACTTCAGAGAGA
7227537 TAAGA-TTGATTTATTCAGTTTGC
66 TAAGACTTGATTTATT-AGTTTGC
* * * * * * *
7227560 TCCACTGTAACTTTAGGGAAATAAGATTCGCCATCTTCAGTCTGCCCCACTACAACTTCAGGGGG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCAAT-TTCAATCTGCCCCAATACAACTTCAGAGAG
* *
7227625 ATAAGACTTGCTTTCTTAGTTTGC
65 ATAAGACTTGATTTATTAGTTTGC
* *
7227649 TCCGCTGCAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAAATAAGA
7227675 CTAGATGCGA
Statistics
Matches: 94, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
88 26 0.28
89 60 0.64
90 8 0.09
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGCAATTTCAATCTGCCCCAATACAACTTCAGAGAGA
TAAGACTTGATTTATTAGTTTGC
Found at i:7227676 original size:44 final size:44
Alignment explanation
Indices: 7227521--7227674 Score: 166
Period size: 44 Copynumber: 3.5 Consensus size: 44
7227511 TCTGCCCCAA
* * *
7227521 TGCAACTTCAGAGAGATAAGATTGATTTATTCAGTTTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTGCTTTCTTCAGTTTGCTCCAC
* * * ** * *
7227565 TGTAACTTTAGGGAAATAAGATTCGCCATCTTCAGTCTGCCCCAC
1 TGCAACTTCAGGGAGATAAGATT-GCTTTCTTCAGTTTGCTCCAC
* * *
7227610 TACAACTTCAGGGGGATAAGACTTGCTTTCTT-AGTTTGCTCCGC
1 TGCAACTTCAGGGAGATAAGA-TTGCTTTCTTCAGTTTGCTCCAC
7227654 TGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAAGA
7227675 CTAGATGCGA
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
44 47 0.55
45 37 0.43
46 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTGCTTTCTTCAGTTTGCTCCAC
Found at i:7227771 original size:44 final size:43
Alignment explanation
Indices: 7227691--7227804 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 43
7227681 GCGATCTGCT
* *
7227691 CTCTGCAACTTCAGAGAGATAAGATCTATTATTTTAACCCGCTC
1 CTCTGCAACTTCAGGGAGATAAGAT-TATTACTTTAACCCGCTC
* * * *
7227735 CGT-TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTC
1 C-TCTGCAACTTCAGGGAGATAAGATTATT-ACTTTAACCCGCTC
* *
7227779 CTCTGCAACTTTAGGGAAATAAGATT
1 CTCTGCAACTTCAGGGAGATAAGATT
7227805 CGCCATCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
43 5 0.09
44 52 0.90
45 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (43 bp):
CTCTGCAACTTCAGGGAGATAAGATTATTACTTTAACCCGCTC
Found at i:7227856 original size:172 final size:173
Alignment explanation
Indices: 7227653--7228016 Score: 525
Period size: 172 Copynumber: 2.1 Consensus size: 173
7227643 GTTTGCTCCG
* * *
7227653 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
1 CTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATAT
* ** * *
7227718 ATTATTTTAACCCGCTCCGTTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCTCT
66 ATGATTTTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACT
* * *
7227783 GCAACTTTAGGGAAATAAGATTCGCCATCTTCAGT-C-TGCCCA
131 ACAACTTCAGGGAAATAAGATTCGCCATCTTCAATCCAT-CCCA
*
7227825 CTGCAACTTCAAGGAGATAAGACTGGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATAT
1 CTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATAT
* * * * *
7227890 GTGGTTTTAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACT
66 ATGATTTTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACT
* *
7227955 ACAACTTCAGGGAGATAAGATTCGCCATCTTCAATCCATTCCA
131 ACAACTTCAGGGAAATAAGATTCGCCATCTTCAATCCATCCCA
*
7227998 CTACAACTTCAAGGAGATA
1 CTGCAACTTCAAGGAGATA
7228017 GGATTTGTGG
Statistics
Matches: 170, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
172 147 0.86
173 22 0.13
174 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (173 bp):
CTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATAT
ATGATTTTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACT
ACAACTTCAGGGAAATAAGATTCGCCATCTTCAATCCATCCCA
Found at i:7227926 original size:44 final size:43
Alignment explanation
Indices: 7227740--7227975 Score: 185
Period size: 44 Copynumber: 5.5 Consensus size: 43
7227730 CGCTCCGTTG
* * * *
7227740 CAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCTCTG
1 CAACTTCAGGGAGATAAGA-TATTGGCTTCAATCTGCTCCACTA
* * * * * *
7227784 CAACTTTAGGGAAATAAGAT-TCGCCATCTTCAGTCTGC-CCACTG
1 CAACTTCAGGGAGATAAGATATTG---GCTTCAATCTGCTCCACTA
* * * * * *
7227828 CAACTTCAAGGAGATAAG--ACTGGATGCGATCTGCT-CTCTA
1 CAACTTCAGGGAGATAAGATATTGGCTTCAATCTGCTCCACTA
* * * *
7227868 CAACTTCAGAGAGATAAGATATGTGGTTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATAT-TGGCTTCAATCTGCTCCACTA
* *
7227912 TAACTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGA-TATTGGCTTCAATCTGCTCCACTA
7227956 CAACTTCAGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
7227976 TCGCCATCTT
Statistics
Matches: 145, Mismatches: 37, Indels: 21
0.71 0.18 0.10
Matches are distributed among these distances:
40 26 0.18
42 3 0.02
43 14 0.10
44 90 0.62
45 12 0.08
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
CAACTTCAGGGAGATAAGATATTGGCTTCAATCTGCTCCACTA
Found at i:7227954 original size:128 final size:128
Alignment explanation
Indices: 7227740--7227974 Score: 294
Period size: 128 Copynumber: 1.8 Consensus size: 128
7227730 CGCTCCGTTG
* * * *
7227740 CAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCTCTGCAACTTTAGGGAAATAAGATT
1 CAACTTCAGAGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT
* * * *
7227805 CGCCATCTTCAGTCTGCCCACTGCAACTTCAAGGAGATAAGACTGGATGCGATCTGCTCTCTA
66 CACCAGCTTCAATCTGCCCACTACAACTTCAAGGAGATAAGACTGGATGCGATCTGCTCTCTA
* * * *
7227868 CAACTTCAGAGAGATAAGA-TATGTGGTTTTAATCTGCTCCACTGTAACTTCAGGGAGATAGGAT
1 CAACTTCAGAGAGATAAGATTAT-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGAT
*** *
7227932 T-ATTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
65 TCACCAGCTTCAATCTGC-CCACTACAACTTCAAGGAGATAAGA
7227975 TTCGCCATCT
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
127 13 0.15
128 76 0.85
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (128 bp):
CAACTTCAGAGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT
CACCAGCTTCAATCTGCCCACTACAACTTCAAGGAGATAAGACTGGATGCGATCTGCTCTCTA
Found at i:7232612 original size:44 final size:44
Alignment explanation
Indices: 7232564--7232655 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
7232554 AACACTAAAA
7232564 AATCTAAAATAATAATTTTTTTGTTTTCTCACTCTTTTAAAATT
1 AATCTAAAATAATAATTTTTTTGTTTTCTCACTCTTTTAAAATT
*
7232608 AATCTAAAATAATAATTTTTTTGTTTTCTCCCTCTTTTAAAATT
1 AATCTAAAATAATAATTTTTTTGTTTTCTCACTCTTTTAAAATT
7232652 AATC
1 AATC
7232656 CTCAACGTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (44 bp):
AATCTAAAATAATAATTTTTTTGTTTTCTCACTCTTTTAAAATT
Found at i:7235610 original size:650 final size:653
Alignment explanation
Indices: 7234363--7235634 Score: 2363
Period size: 650 Copynumber: 1.9 Consensus size: 653
7234353 GTATTAAACC
7234363 GAGTTATAAAATTTCATACAGATTAAAACTTTCAAATTATTATCTTCGAATCGCTAATTAGGGCT
1 GAGTTATAAAATTTCATACAGATTAAAACTTTCAAATTATTATCTTCGAATCGCTAATTAGGGCT
7234428 TACAAGGCCCAATATATATATACTCATTCGATCCAAGCCTTATAGCTATCACCATTTGTTCATTT
66 TACAAGGCCCAATATATATATACTCATTCGATCCAAGCCTTATAGCTATCACCATTTGTTCATTT
7234493 CATAACCATATATGAACTTATAATCCTTCACTTTCTCGTCATATAAATATATCAATTATTACTTG
131 CATAACCATATATGAACTTATAA--C-TCACTTTCTCGTCATATAAATATATCAATTATTACTTG
7234558 CTTCTCGCGAGTACTTGAATTGATCCATATCATTTCATATTCTCGTATCGTCATATTTTTCCTAT
193 CTTCTCGCGAGTACTTGAATTGATCCATATCATTTCATATTCTCGTATCGTCATATTTTTCCTAT
7234623 TAAACCATGGTAATATATTAAATATTCAATATCTTGTAAAGATTGGCTAATCTATCCCATATACT
258 TAAACCATGGTAATATATTAAATATTCAATATCTTGTAAAGATTGGCTAATCTATCCCATATACT
7234688 TTCACACAGATTATCACAATTCACAAGTCTTATCATTTCAAAGCTTATAAGACACATGTGCATAT
323 TTCACACAGATTATCACAATTCACAAGTCTTATCATTTCAAAGCTTATAAGACACATGTGCATAT
7234753 CTATACTAACTCGTATGAGTCTCATACTCATTCATATACTCAATAAATCCGTTAAATCATTTCAG
388 CTATACTAACTCGTATGAGTCTCATACTCATTCATATACTCAATAAATCCGTTAAATCATTTCAG
7234818 CATTGAAGAATCCACATTATGTCAGAAACAATACTAATAACAATCATAAATCTTTTCATATTAAT
453 CATTGAAGAATCCACATTATGTCAGAAACAATACTAATAACAATCATAAATCTTTTCATATTAAT
* * *
7234883 TTCATATATCACTTACTGAACTTCAAATATCATTTCATAGATATGTAACTCTCTAACACATCTTG
518 TTCATATATCACTTACTGAACTTCAAATATCATTTCATAAATATGCAACTCACTAACACATCTTG
7234948 CCATATACAATATCCAATTGGTGAAATCACTTAATTGGATTAATTGGATTCAACTTCAATAATCA
583 CCATATACAATATCCAATTGGTGAAATCACTTAATTGGATTAATTGGATTCAACTTCAATAATCA
7235013 CAGACT
648 CAGACT
*
7235019 GAGTTATAAAATTTCATACAGATTAAAACTTTCAAATTATTATCTTTGAATCGCTAATTAGGGCT
1 GAGTTATAAAATTTCATACAGATTAAAACTTTCAAATTATTATCTTCGAATCGCTAATTAGGGCT
*
7235084 TACAAGGCCTAATATATATATACTCATTCGATCCAAGCCTTATAGCTATCACCATTTGTTCATTT
66 TACAAGGCCCAATATATATATACTCATTCGATCCAAGCCTTATAGCTATCACCATTTGTTCATTT
* * ** *
7235149 CATATCTATATATGAACTTATAA-TC-C-TTCTCGTCATATGGATTTATCAATTATTACTTGCTT
131 CATAACCATATATGAACTTATAACTCACTTTCTCGTCATATAAATATATCAATTATTACTTGCTT
**
7235211 CTCGCGAGTACTTGAATTGATCTGTATCATTTCATATTCTCGTATCGTCATATTTTTCCTATTAA
196 CTCGCGAGTACTTGAATTGATCCATATCATTTCATATTCTCGTATCGTCATATTTTTCCTATTAA
7235276 ACCATGGTAATATATTAAATATTCAATATCTTGTAAAGATTGGCTAATCTATCCCATATACTTTC
261 ACCATGGTAATATATTAAATATTCAATATCTTGTAAAGATTGGCTAATCTATCCCATATACTTTC
7235341 ACACAGATTATCACAATTCACAAGTCTTATCATTTCAAAGCTTATAAGACACATGTGCATATCTA
326 ACACAGATTATCACAATTCACAAGTCTTATCATTTCAAAGCTTATAAGACACATGTGCATATCTA
7235406 TACTAACTCGTATGAGTCTCATACTCATTCATATACTCAATAAATCCGTTAAATCATTTCAGCAT
391 TACTAACTCGTATGAGTCTCATACTCATTCATATACTCAATAAATCCGTTAAATCATTTCAGCAT
7235471 TGAAGAATCCACATTATGTCAGAAACAATACTAATAACAATCATAAATCTTTTCATATTAATTTC
456 TGAAGAATCCACATTATGTCAGAAACAATACTAATAACAATCATAAATCTTTTCATATTAATTTC
*
7235536 ATATATCACTTACTGAACTTCAAATATCA-TTCAATAAATATGCAATTCACTAACACATCTTGCC
521 ATATATCACTTACTGAACTTCAAATATCATTTC-ATAAATATGCAACTCACTAACACATCTTGCC
7235600 ATATACAATATCCAATTGGTGAAATCACTTAATTG
585 ATATACAATATCCAATTGGTGAAATCACTTAATTG
7235635 AATTCAACTT
Statistics
Matches: 602, Mismatches: 13, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
649 3 0.00
650 447 0.74
651 1 0.00
652 2 0.00
656 149 0.25
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (653 bp):
GAGTTATAAAATTTCATACAGATTAAAACTTTCAAATTATTATCTTCGAATCGCTAATTAGGGCT
TACAAGGCCCAATATATATATACTCATTCGATCCAAGCCTTATAGCTATCACCATTTGTTCATTT
CATAACCATATATGAACTTATAACTCACTTTCTCGTCATATAAATATATCAATTATTACTTGCTT
CTCGCGAGTACTTGAATTGATCCATATCATTTCATATTCTCGTATCGTCATATTTTTCCTATTAA
ACCATGGTAATATATTAAATATTCAATATCTTGTAAAGATTGGCTAATCTATCCCATATACTTTC
ACACAGATTATCACAATTCACAAGTCTTATCATTTCAAAGCTTATAAGACACATGTGCATATCTA
TACTAACTCGTATGAGTCTCATACTCATTCATATACTCAATAAATCCGTTAAATCATTTCAGCAT
TGAAGAATCCACATTATGTCAGAAACAATACTAATAACAATCATAAATCTTTTCATATTAATTTC
ATATATCACTTACTGAACTTCAAATATCATTTCATAAATATGCAACTCACTAACACATCTTGCCA
TATACAATATCCAATTGGTGAAATCACTTAATTGGATTAATTGGATTCAACTTCAATAATCACAG
ACT
Found at i:7237052 original size:23 final size:23
Alignment explanation
Indices: 7237026--7237101 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
7237016 ATAAGTGCCA
*
7237026 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
7237049 CACTGATACGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
7237072 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
7237095 CACTGAT
1 CACTGAT
7237102 CAATAACACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:7237359 original size:18 final size:17
Alignment explanation
Indices: 7237327--7237365 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
7237317 ATTTTTCTTC
*
7237327 CACATTCAAATATAATT
1 CACATTCAAAAATAATT
7237344 CACATATCAAAAATAATT
1 CACAT-TCAAAAATAATT
7237362 CACA
1 CACA
7237366 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (17 bp):
CACATTCAAAAATAATT
Found at i:7244834 original size:24 final size:24
Alignment explanation
Indices: 7244806--7244858 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7244796 ATTAGTAAGT
* *
7244806 TAAATAAACTATGCTAATAAATGC
1 TAAATAAACTATACTAATAAATAC
* * *
7244830 TAAATATATTATACTAGTAAATAC
1 TAAATAAACTATACTAATAAATAC
7244854 TAAAT
1 TAAAT
7244859 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:7245270 original size:91 final size:91
Alignment explanation
Indices: 7245170--7245499 Score: 362
Period size: 91 Copynumber: 3.6 Consensus size: 91
7245160 ATGAATTCAT
** * ** * *
7245170 AACAATTAAAATTGTCATTTTACCACTTTC-AGACATCATTTTTAGCACCTTTAAATATCATCAA
1 AACAATTAAAACGGTCATTTAACCACTTTCGA-ACATCATTTAAATCACCTTTAAGTATCATCAA
* *
7245234 GGCATACAATCAAACACCATAATTTTC
65 AGCATACAATCAGACACCATAATTTTC
* * * * *
7245261 AGCAATTAAAACGGTCATTTAACAACTTTCGAATATCATTTAAATCACATTTAAGCATCATCAAC
1 AACAATTAAAACGGTCATTTAACCACTTTCGAACATCATTTAAATCACCTTTAAGTATCATCAA-
* *
7245326 A-CATACATTCAGACACCATAATTTCC
65 AGCATACAATCAGACACCATAATTTTC
* * * * * *
7245352 AACAATTAAAACGGCCAATTAA-CATCTTTTAGAA-ATAATTTAAATCACCTTTGAGTATCATTA
1 AACAATTAAAACGGTCATTTAACCA-C-TTTCGAACATCATTTAAATCACCTTTAAGTATCATCA
7245415 AAGCATACAATCAGACACCATAATTTTC
64 AAGCATACAATCAGACACCATAATTTTC
** * *
7245443 AACAATTAAAATTGTCATCTAACCACTTTCGAACATCATTTAAATCACATTTAAGTA
1 AACAATTAAAACGGTCATTTAACCACTTTCGAACATCATTTAAATCACCTTTAAGTA
7245500 GCACATTTCA
Statistics
Matches: 195, Mismatches: 37, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
90 8 0.04
91 178 0.91
92 9 0.05
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (91 bp):
AACAATTAAAACGGTCATTTAACCACTTTCGAACATCATTTAAATCACCTTTAAGTATCATCAAA
GCATACAATCAGACACCATAATTTTC
Found at i:7247105 original size:27 final size:28
Alignment explanation
Indices: 7247061--7247116 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
7247051 CCGCTACATG
* *
7247061 TTTTTTATTATACTTAATTTTTATTTTA
1 TTTTTTATTATACTTAATTATAATTTTA
7247089 TTTTTTATT-TA-TCTAATTATAATTTTA
1 TTTTTTATTATACT-TAATTATAATTTTA
7247116 T
1 T
7247117 AATATAACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.04
27 15 0.60
28 9 0.36
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTTTTATTATACTTAATTATAATTTTA
Found at i:7251518 original size:15 final size:14
Alignment explanation
Indices: 7251493--7251527 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
7251483 ATTTGATTTT
7251493 TAAATTAATTAAAC
1 TAAATTAATTAAAC
7251507 TAAATGTAATTAAAC
1 TAAAT-TAATTAAAC
*
7251522 AAAATT
1 TAAATT
7251528 TTACTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (14 bp):
TAAATTAATTAAAC
Found at i:7252550 original size:15 final size:14
Alignment explanation
Indices: 7252525--7252559 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
7252515 ATTTAATTTT
7252525 TAAATTAATTAAAC
1 TAAATTAATTAAAC
7252539 TAAATGTAATTAAAC
1 TAAAT-TAATTAAAC
*
7252554 AAAATT
1 TAAATT
7252560 TTACTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (14 bp):
TAAATTAATTAAAC
Found at i:7252736 original size:93 final size:93
Alignment explanation
Indices: 7252631--7252817 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
7252621 ATATAAGACA
7252631 ACATAATTCTTCTCTTTTCTTACATGAAAAACATGATGAACAACACCCACAATTTTTGTTAGATT
1 ACATAATTCTTCTCTTTTCTTACATGAAAAACATGATGAACAACACCCACAATTTTTGTTAGATT
7252696 TTTTTGGGTTAAAAACATTTATTATTTT
66 TTTTTGGGTTAAAAACATTTATTATTTT
7252724 ACATAATTCTTCTCTTTTCTTACATGAAAAACATGATGAACAACACCCACAATTTTTGTTAGATT
1 ACATAATTCTTCTCTTTTCTTACATGAAAAACATGATGAACAACACCCACAATTTTTGTTAGATT
*
7252789 TTTTTGGGTTATAAACATTTATTATTTT
66 TTTTTGGGTTAAAAACATTTATTATTTT
7252817 A
1 A
7252818 TTGAATTAAT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (93 bp):
ACATAATTCTTCTCTTTTCTTACATGAAAAACATGATGAACAACACCCACAATTTTTGTTAGATT
TTTTTGGGTTAAAAACATTTATTATTTT
Found at i:7258506 original size:21 final size:19
Alignment explanation
Indices: 7258436--7258508 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
7258426 GTCAAAAAAT
*
7258436 AATTTAAAATATCATA-AAA
1 AATTTAAAA-ATAATATAAA
*
7258455 ATATTTAATAA-AA-ATAAA
1 A-ATTTAAAAATAATATAAA
*
7258473 AATTTAAAGATAATATAAA
1 AATTTAAAAATAATATAAA
7258492 AATTCATAAAAATAATA
1 AATT--TAAAAATAATA
7258509 AACATTAGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
17 8 0.19
18 7 0.16
19 11 0.26
20 7 0.16
21 10 0.23
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (19 bp):
AATTTAAAAATAATATAAA
Found at i:7259272 original size:20 final size:20
Alignment explanation
Indices: 7259234--7259272 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7259224 AAATTTGATA
**
7259234 TTTTTAAAAAAATTGAAATT
1 TTTTTAAAAAAATAAAAATT
7259254 TTTTTAAAAAAATAAAAAT
1 TTTTTAAAAAAATAAAAAT
7259273 AAAAGATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
TTTTTAAAAAAATAAAAATT
Found at i:7263273 original size:7 final size:7
Alignment explanation
Indices: 7263261--7263289 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
7263251 TCCCCCATGT
7263261 TTAGCAA
1 TTAGCAA
7263268 TTAGCAA
1 TTAGCAA
7263275 TTAGCAA
1 TTAGCAA
7263282 TTAGCAA
1 TTAGCAA
7263289 T
1 T
7263290 ATTCATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (7 bp):
TTAGCAA
Found at i:7273449 original size:46 final size:46
Alignment explanation
Indices: 7273381--7273469 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
7273371 AGAATACAAT
7273381 AGAAATATTTTGCATTTCCTAAATCTCTAAATCATTATTGAGCATA
1 AGAAATATTTTGCATTTCCTAAATCTCTAAATCATTATTGAGCATA
*
7273427 AGAAATATTTTGCATTTTCTAAATCTCTAAATCATTATTGAGC
1 AGAAATATTTTGCATTTCCTAAATCTCTAAATCATTATTGAGC
7273470 CATTGATTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (46 bp):
AGAAATATTTTGCATTTCCTAAATCTCTAAATCATTATTGAGCATA
Found at i:7283581 original size:20 final size:20
Alignment explanation
Indices: 7283526--7283582 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
7283516 AAAACCCAGT
*
7283526 AAGTATCAATATTTTTATAT
1 AAGTATCAATATTTTTATAA
* **
7283546 GAGTATTGATATTTTTATAA
1 AAGTATCAATATTTTTATAA
*
7283566 AAGTATCAATAATTTTA
1 AAGTATCAATATTTTTA
7283583 AAACGAGATT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (20 bp):
AAGTATCAATATTTTTATAA
Found at i:7291256 original size:53 final size:53
Alignment explanation
Indices: 7291193--7291301 Score: 164
Period size: 53 Copynumber: 2.1 Consensus size: 53
7291183 ATGAATTAAT
* *
7291193 TTTTGGTACAGTCAAACATCTATTGTAACAAGTTGTACTATAAAAGATCCATA
1 TTTTGATACAGTCAAACATCTACTGTAACAAGTTGTACTATAAAAGATCCATA
* * * *
7291246 TTTTGATACAGTCAAACATCTACTGTAGCAGGTTGTACTATAAAATATTCATA
1 TTTTGATACAGTCAAACATCTACTGTAACAAGTTGTACTATAAAAGATCCATA
7291299 TTT
1 TTT
7291302 ACATTTATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (53 bp):
TTTTGATACAGTCAAACATCTACTGTAACAAGTTGTACTATAAAAGATCCATA
Found at i:7299182 original size:21 final size:21
Alignment explanation
Indices: 7299158--7299199 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7299148 CTTTTTGTTC
* *
7299158 AATTAATTATCGTAACTTTAA
1 AATTAATTAACGAAACTTTAA
*
7299179 AATTTATTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
7299200 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:7308446 original size:370 final size:370
Alignment explanation
Indices: 7307760--7308501 Score: 1378
Period size: 370 Copynumber: 2.0 Consensus size: 370
7307750 TCCTGGCTTA
7307760 TCACATTCGGCCAATACACATATATATCCACAAAATTCAATTCAACAAATAACATTTATACATTT
1 TCACATTCGGCCAATACACATATATATCCACAAAATTCAATTCAACAAATAACATTTATACATTT
7307825 GCAAATTTAACAACATTTATATGCTTATGGACTTACCTCGGATATCGATGGACGGAATAATTGAC
66 GCAAATTTAACAACATTTATATGCTTATGGACTTACCTCGGATATCGATGGACGGAATAATTGAC
7307890 TATTCGTTTATTTTTGTTTTTCCCCGATCCAGTTCCGTTTTCTTTGGTTCTTGATCTAAACATAT
131 TATTCGTTTATTTTTGTTTTTCCCCGATCCAGTTCCGTTTTCTTTGGTTCTTGATCTAAACATAT
**
7307955 TCAAATTCAACCCTTTTATTCATCAAATAATTTGATTTAATCCAAAAACACATAAATGAGAAAAT
196 TCAAATTCAACCCTTTTATTCATCAAATAATTCAATTTAATCCAAAAACACATAAATGAGAAAAT
* * *
7308020 TACCATTTTGCCTTTGACATTTTACACTTTTTGCAATTTAGTCCCTATTGCATAAAACTCAAAAT
261 TACCATTTTGCCCTTGACATTTTACACTTTTTACAATTTAGTCCCTATTACATAAAACTCAAAAT
7308085 ACACAAAATTTGCATATATCATGCGAGGG-CTGAATATTCATAGGC
326 ACACAAAATTTGCATATATCATGCGAGGGAC-GAATATTCATAGGC
7308130 TCACATTCGGCCAATACACATATATATCCACAAAATTCAATTCAACAAATAACATTTATACATTT
1 TCACATTCGGCCAATACACATATATATCCACAAAATTCAATTCAACAAATAACATTTATACATTT
7308195 GCAAATTTAACAACATTTATATGCTTATGGACTTACCTCGGATATCGATGGACGGAATAATTGAC
66 GCAAATTTAACAACATTTATATGCTTATGGACTTACCTCGGATATCGATGGACGGAATAATTGAC
7308260 TATTCGTTTATTTTTGTTTTTCCCCGATCCAGTTCCGTTTTCTTTGGTTCTTGATCTAAACATAT
131 TATTCGTTTATTTTTGTTTTTCCCCGATCCAGTTCCGTTTTCTTTGGTTCTTGATCTAAACATAT
* *
7308325 TCAAATTCAACCCTTTTATTCATCAAATCATTCAATTTAATCCAAAAACACATAAATGGGAAAAT
196 TCAAATTCAACCCTTTTATTCATCAAATAATTCAATTTAATCCAAAAACACATAAATGAGAAAAT
*
7308390 TACCATTTTGCCCTTGACATTTTATACTTTTTACAATTTAGTCCCTATTACATAAAACTCAAAAT
261 TACCATTTTGCCCTTGACATTTTACACTTTTTACAATTTAGTCCCTATTACATAAAACTCAAAAT
* *
7308455 ACACAAAATTTTCATATATCATGCTAGGGACGAATATTCATAGGC
326 ACACAAAATTTGCATATATCATGCGAGGGACGAATATTCATAGGC
7308500 TC
1 TC
7308502 TATACAAGTC
Statistics
Matches: 361, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
370 360 1.00
371 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (370 bp):
TCACATTCGGCCAATACACATATATATCCACAAAATTCAATTCAACAAATAACATTTATACATTT
GCAAATTTAACAACATTTATATGCTTATGGACTTACCTCGGATATCGATGGACGGAATAATTGAC
TATTCGTTTATTTTTGTTTTTCCCCGATCCAGTTCCGTTTTCTTTGGTTCTTGATCTAAACATAT
TCAAATTCAACCCTTTTATTCATCAAATAATTCAATTTAATCCAAAAACACATAAATGAGAAAAT
TACCATTTTGCCCTTGACATTTTACACTTTTTACAATTTAGTCCCTATTACATAAAACTCAAAAT
ACACAAAATTTGCATATATCATGCGAGGGACGAATATTCATAGGC
Found at i:7308942 original size:25 final size:25
Alignment explanation
Indices: 7308906--7308955 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
7308896 TTATTTGTTT
*
7308906 TATTATACCA-TTATAATATAATATA
1 TATTATAACATTTATAA-ATAATATA
7308931 TATTATAACATTTATAAATAATATA
1 TATTATAACATTTATAAATAATATA
7308956 AAAACCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTATAACATTTATAAATAATATA
Found at i:7309299 original size:30 final size:30
Alignment explanation
Indices: 7309263--7309319 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
7309253 GCTGTTACAA
* *
7309263 TGTCACCTGGCTGTGTGTCACACATGGCCG
1 TGTCACCTGGCTATGAGTCACACATGGCCG
*
7309293 TGTCACCTGGCTATGAGTCATACATGG
1 TGTCACCTGGCTATGAGTCACACATGG
7309320 TTGAGACACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (30 bp):
TGTCACCTGGCTATGAGTCACACATGGCCG
Found at i:7310281 original size:25 final size:25
Alignment explanation
Indices: 7310232--7310360 Score: 118
Period size: 25 Copynumber: 5.2 Consensus size: 25
7310222 TACATGTATA
* * *
7310232 CTCATACGAGCTGTA-AACAGTAAG
1 CTCATGCGAGCTGAACAACAGGAAG
* * *
7310256 CTCCTCCGAGCTGAATAACAGGAAG
1 CTCATGCGAGCTGAACAACAGGAAG
* *
7310281 CTCATGTGAGCTGAACAA-TGGAAAG
1 CTCATGCGAGCTGAACAACAGG-AAG
**
7310306 CTCATGCGAGCTGAACAATGGGAAG
1 CTCATGCGAGCTGAACAACAGGAAG
** *
7310331 CTCATGCGAGCTGAGTATCAGGAAG
1 CTCATGCGAGCTGAACAACAGGAAG
7310356 CTCAT
1 CTCAT
7310361 AAGAGTTGAA
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
24 14 0.16
25 70 0.81
26 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
CTCATGCGAGCTGAACAACAGGAAG
Found at i:7311383 original size:25 final size:25
Alignment explanation
Indices: 7311347--7311396 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
7311337 TTATTTGTTT
*
7311347 TATTATACCA-TTATAATATAATATA
1 TATTATAACATTTATAA-ATAATATA
7311372 TATTATAACATTTATAAATAATATA
1 TATTATAACATTTATAAATAATATA
7311397 AAAACCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTATAACATTTATAAATAATATA
Found at i:7311740 original size:30 final size:30
Alignment explanation
Indices: 7311704--7311760 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
7311694 GCTGTTACAA
* *
7311704 TGTCACCTGGCTGTGTGTCACACATGGCCG
1 TGTCACCTGGCTATGAGTCACACATGGCCG
*
7311734 TGTCACCTGGCTATGAGTCATACATGG
1 TGTCACCTGGCTATGAGTCACACATGG
7311761 TTGAGACACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (30 bp):
TGTCACCTGGCTATGAGTCACACATGGCCG
Found at i:7312722 original size:25 final size:25
Alignment explanation
Indices: 7312673--7312801 Score: 118
Period size: 25 Copynumber: 5.2 Consensus size: 25
7312663 TACATGTATA
* * *
7312673 CTCATACGAGCTGTA-AACAGTAAG
1 CTCATGCGAGCTGAACAACAGGAAG
* * *
7312697 CTCCTCCGAGCTGAATAACAGGAAG
1 CTCATGCGAGCTGAACAACAGGAAG
* *
7312722 CTCATGTGAGCTGAACAA-TGGAAAG
1 CTCATGCGAGCTGAACAACAGG-AAG
**
7312747 CTCATGCGAGCTGAACAATGGGAAG
1 CTCATGCGAGCTGAACAACAGGAAG
** *
7312772 CTCATGCGAGCTGAGTATCAGGAAG
1 CTCATGCGAGCTGAACAACAGGAAG
7312797 CTCAT
1 CTCAT
7312802 AAGAGTTGAA
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
24 14 0.16
25 70 0.81
26 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
CTCATGCGAGCTGAACAACAGGAAG
Found at i:7327596 original size:9 final size:9
Alignment explanation
Indices: 7327579--7327615 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7327569 TGACTTTTCG
7327579 AATTCGAAT
1 AATTCGAAT
*
7327588 AACTCGAAT
1 AATTCGAAT
7327597 AATTCGAAT
1 AATTCGAAT
7327606 AATTCGAAT
1 AATTCGAAT
7327615 A
1 A
7327616 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7334571 original size:5 final size:5
Alignment explanation
Indices: 7334561--7334586 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7334551 CTCGAAAATT
7334561 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
7334587 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:7341048 original size:18 final size:18
Alignment explanation
Indices: 7341025--7341066 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7341015 GCCAGGTGCA
* *
7341025 TATCCTAGCCCTTGTATG
1 TATCCTAACCCTTATATG
7341043 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
7341061 TTTCCT
1 TATCCT
7341067 TTTCCCAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:7348438 original size:11 final size:11
Alignment explanation
Indices: 7348402--7348478 Score: 77
Period size: 11 Copynumber: 7.0 Consensus size: 11
7348392 TCCCACTTTT
*
7348402 TCAATTCACTC
1 TCAATTCTCTC
* *
7348413 ACAACTCTCTC
1 TCAATTCTCTC
7348424 TCAATTCAT-TC
1 TCAATTC-TCTC
*
7348435 TCAATCCTCTC
1 TCAATTCTCTC
7348446 TCAATTCTCTC
1 TCAATTCTCTC
*
7348457 TTAATTCT-TAC
1 TCAATTCTCT-C
7348468 TCAATTCTCTC
1 TCAATTCTCTC
7348479 AGTTCAATCT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
10 2 0.04
11 49 0.92
12 2 0.04
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:7348439 original size:33 final size:33
Alignment explanation
Indices: 7348402--7348479 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
7348392 TCCCACTTTT
*
7348402 TCAATTCACTCACAACTCTCTCTCAATTCATT-C
1 TCAATTCTCTCACAACTCTCTCTCAATTC-TTAC
* * * *
7348435 TCAATCCTCTCTCAATTCTCTCTTAATTCTTAC
1 TCAATTCTCTCACAACTCTCTCTCAATTCTTAC
7348468 TCAATTCTCTCA
1 TCAATTCTCTCA
7348480 GTTCAATCTC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (33 bp):
TCAATTCTCTCACAACTCTCTCTCAATTCTTAC
Found at i:7352866 original size:28 final size:27
Alignment explanation
Indices: 7352828--7352887 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
7352818 TTTTCTATAC
* *
7352828 ATATATATATACGCATAGTTTTTTTTT
1 ATATATATATACACATAGGTTTTTTTT
* *
7352855 ATATATAATATACATATGGGTTTTTTTT
1 ATATAT-ATATACACATAGGTTTTTTTT
7352883 ATATA
1 ATATA
7352888 GGTATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.53
Consensus pattern (27 bp):
ATATATATATACACATAGGTTTTTTTT
Found at i:7355067 original size:32 final size:32
Alignment explanation
Indices: 7355030--7355095 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
7355020 TTCTCTCTCC
*
7355030 AAAATCGGCCTAATCCAATAAATTTTTAAAAA
1 AAAATCGACCTAATCCAATAAATTTTTAAAAA
* * ** *
7355062 AAAATCGACTTAGTCTGATAATTTTTTAAAAA
1 AAAATCGACCTAATCCAATAAATTTTTAAAAA
7355094 AA
1 AA
7355096 TTTCAGCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (32 bp):
AAAATCGACCTAATCCAATAAATTTTTAAAAA
Found at i:7355382 original size:2 final size:2
Alignment explanation
Indices: 7355375--7355403 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7355365 GAGCTTGCAA
7355375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7355404 AGTAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7355504 original size:3 final size:3
Alignment explanation
Indices: 7355498--7355528 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7355488 ATAATGAGTA
7355498 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7355529 GTATCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7362590 original size:21 final size:21
Alignment explanation
Indices: 7362547--7362591 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7362537 TTAATCATAA
*
7362547 TTAATTAAATAATTATAATAT
1 TTAATTAAATAATTATAACAT
*
7362568 TTAA-TAAATAAATTATACCAT
1 TTAATTAAAT-AATTATAACAT
7362589 TTA
1 TTA
7362592 TATTGATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAATTAAATAATTATAACAT
Found at i:7363659 original size:16 final size:16
Alignment explanation
Indices: 7363634--7363664 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7363624 AATTTTAATT
7363634 AATTAATTAATTTTCC
1 AATTAATTAATTTTCC
*
7363650 AATTAGTTAATTTTC
1 AATTAATTAATTTTC
7363665 TTAACTCGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (16 bp):
AATTAATTAATTTTCC
Found at i:7363659 original size:20 final size:18
Alignment explanation
Indices: 7363620--7363661 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
7363610 AAACATCATA
7363620 AATTAATTTTAATTAATT
1 AATTAATTTTAATTAATT
*
7363638 AATTAATTTTCCAATTAGTT
1 AATTAATTTT--AATTAATT
7363658 AATT
1 AATT
7363662 TTCTTAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTAATTTTAATTAATT
Found at i:7366329 original size:21 final size:21
Alignment explanation
Indices: 7366290--7366329 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7366280 TGGGTTCTTC
*
7366290 TTTCTTTCTATTTTCTTTTTA
1 TTTCTTTCTAGTTTCTTTTTA
*
7366311 TTTCTTTCT-GTTTCGTTTT
1 TTTCTTTCTAGTTTCTTTTT
7366330 GCTTTTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTCTTTCTAGTTTCTTTTTA
Found at i:7369894 original size:19 final size:19
Alignment explanation
Indices: 7369867--7369905 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7369857 TTAATAGATA
* *
7369867 TTTTATTTTTTATTTTTTC
1 TTTTATTTTTAATATTTTC
*
7369886 TTTTCTTTTTAATATTTTC
1 TTTTATTTTTAATATTTTC
7369905 T
1 T
7369906 ATAGTGTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTTAATATTTTC
Found at i:7371819 original size:16 final size:16
Alignment explanation
Indices: 7371776--7371819 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
7371766 TGCTATTTTG
*
7371776 TTTTCTTGTTTTTCTC
1 TTTTATTGTTTTTCTC
*
7371792 TTTTATTTTTTTTCTC
1 TTTTATTGTTTTTCTC
7371808 TTATT-TTGTTTT
1 TT-TTATTGTTTT
7371820 GACCGAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTATTGTTTTTCTC
Found at i:7372660 original size:54 final size:53
Alignment explanation
Indices: 7372596--7373075 Score: 439
Period size: 54 Copynumber: 8.8 Consensus size: 53
7372586 AGTTATGGGC
*
7372596 AAATGATCGAAATACCCCGTAGGGTAAAATAACTGAAATACCCCCGATAGGGTA
1 AAATGATCGAAATACCCCGAAGGGTAAAATAACTGAAATACCCCCGA-AGGGTA
* * *
7372650 AAATGATCGAAATACCCTCAAAGGGTAAAATAACTGAAATACACCCGAAAGGTA
1 AAATGATCGAAATACCC-CGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTA
* * * * *
7372704 AAATGATCGAAATACCCTCGAATGGTAAAATGACTAAAATACCCTCGAAGGATA
1 AAATGATCGAAATACCC-CGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTA
* * *
7372758 AAATGACCGAAATACCCTCGAAGGGTAAAATGA-TCGAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCC-CGAAGGGTAAAATAACT-GAAATACCCCCGAAGGGTA
* *
7372812 AAATGATCGAAATACCCTCGAAGAGTAAAATAACCGAAATACCAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCC-CGAAGGGTAAAATAACTGAAATA-C----CCC-CGAAGGGTA
* * * ** **
7372872 AAATTATCGAAATACTCTC---GGGTAAAATTACCAAAATACCCTTGAAGGGTA
1 AAATGATCGAAATAC-CCCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTA
* * * *
7372923 AAATTATCGAAATACCCCTGAAAGGTAAAATTA-TCAAAATACCCCCGAAGGGTA
1 AAATGATCGAAATACCCC-GAAGGGTAAAATAACT-GAAATACCCCCGAAGGGTA
* * * * * *
7372977 AAATTAACGAAATACCTTCGAAGGGTAAAATTATTGAAATACCCCCGAAGGATA
1 AAATGATCGAAATACC-CCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTA
* * * * **
7373031 AAATTACCGAAATACCCCCAAATGGTAAAATAACTGTTATACCCC
1 AAATGATCGAAATA-CCCCGAAGGGTAAAATAACTGAAATACCCC
7373076 TAGGAGTTGA
Statistics
Matches: 362, Mismatches: 46, Indels: 36
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.01
51 23 0.06
52 2 0.01
53 1 0.00
54 258 0.71
55 32 0.09
56 1 0.00
57 16 0.04
59 2 0.01
60 24 0.07
61 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (53 bp):
AAATGATCGAAATACCCCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTA
Found at i:7372688 original size:27 final size:27
Alignment explanation
Indices: 7372596--7373066 Score: 351
Period size: 27 Copynumber: 17.3 Consensus size: 27
7372586 AGTTATGGGC
*
7372596 AAATGA-TCGAAATACCC-CGTAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* *
7372622 AAATAACTGAAATACCCCCGATAGGGTA
1 AAATGACTGAAATACCCTCGA-AGGGTA
*
7372650 AAATGA-TCGAAATACCCTCAAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* *
7372677 AAATAACTGAAATACACC-CGAAAGGTA
1 AAATGACTGAAATAC-CCTCGAAGGGTA
*
7372704 AAATGA-TCGAAATACCCTCGAATGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* *
7372731 AAATGACTAAAATACCCTCGAAGGATA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
7372758 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
7372785 AAATGA-TCGAAATACCCTCGAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
*
7372812 AAATGA-TCGAAATACCCTCGAAGAGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* *
7372839 AAATAACCGAAATACCAATACCCTCGAAGGGTA
1 AAATGACTG----A--AATACCCTCGAAGGGTA
* *
7372872 AAATTA-TCGAAATACTCTC---GGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* ** *
7372896 AAATTACCAAAATACCCTTGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* *
7372923 AAATTA-TCGAAATACCC-CTGAAAGGTA
1 AAATGACT-GAAATACCCTC-GAAGGGTA
* * *
7372950 AAATTA-TCAAAATACCCCCGAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* *
7372977 AAATTAAC-GAAATACCTTCGAAGGGTA
1 AAA-TGACTGAAATACCCTCGAAGGGTA
* * * *
7373004 AAATTATTGAAATACCCCCGAAGGATA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * * * *
7373031 AAATTACCGAAATACCCCCAAATGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
7373058 AAATAACTG
1 AAATGACTG
7373067 TTATACCCCT
Statistics
Matches: 367, Mismatches: 50, Indels: 55
0.78 0.11 0.12
Matches are distributed among these distances:
24 19 0.05
26 19 0.05
27 276 0.75
28 29 0.08
29 1 0.00
31 1 0.00
33 22 0.06
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGAAGGGTA
Found at i:7372744 original size:81 final size:80
Alignment explanation
Indices: 7372604--7373066 Score: 404
Period size: 81 Copynumber: 5.7 Consensus size: 80
7372594 GCAAATGATC
* * *
7372604 GAAATACCCCGTAGGGTAAAA-TAACTGAAATACCCCCGATAGGGTAAAATGA-TCGAAATACCC
1 GAAATACCCCGAAAGGTAAAATTATC-GAAATACCCCCGA-AGGGTAAAATGACT-GAAATACCC
*
7372667 TCAAAGGGTAAAATAACT
63 TCGAAGGGTAAAATAACT
* * * *
7372685 GAAATACACCCGAAAGGTAAAATGATCGAAATACCCTCGAATGGTAAAATGACTAAAATACCCTC
1 GAAATAC-CCCGAAAGGTAAAATTATCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCTC
* * *
7372750 GAAGGATAAAATGACC
65 GAAGGGTAAAATAACT
* * *
7372766 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGA-TCGAAATACCCT
1 GAAATACCC-CGAAAGGTAAAATTATCGAAATACCCCCGAAGGGTAAAATGACT-GAAATACCCT
* *
7372830 CGAAGAGTAAAATAACC
64 CGAAGGGTAAAATAACT
* * * * **
7372847 GAAATACCAATACCCTCGAAGGGTAAAATTATCGAAATACTCTC---GGGTAAAATTACCAAAAT
1 G----A--AATACCC-CGAAAGGTAAAATTATCGAAATACCCCCGAAGGGTAAAATGACTGAAAT
* *
7372909 ACCCTTGAAGGGTAAAATTA-T
59 ACCCTCGAAGGGTAAAATAACT
* * *
7372930 CGAAATACCCCTGAAAGGTAAAATTATCAAAATACCCCCGAAGGGTAAAATTAAC-GAAATACCT
1 -GAAATACCCC-GAAAGGTAAAATTATCGAAATACCCCCGAAGGGTAAAA-TGACTGAAATACCC
* *
7372994 TCGAAGGGTAAAATTATT
63 TCGAAGGGTAAAATAACT
* * * *
7373012 GAAATACCCCCG-AAGGATAAAATTACCGAAATACCCCCAAATGGTAAAATAACTG
1 GAAATA-CCCCGAAAGG-TAAAATTATCGAAATACCCCCGAAGGGTAAAATGACTG
7373067 TTATACCCCT
Statistics
Matches: 322, Mismatches: 38, Indels: 44
0.80 0.09 0.11
Matches are distributed among these distances:
77 1 0.00
78 30 0.09
80 12 0.04
81 177 0.55
82 33 0.10
83 2 0.01
84 32 0.10
85 1 0.00
87 34 0.11
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (80 bp):
GAAATACCCCGAAAGGTAAAATTATCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCTCG
AAGGGTAAAATAACT
Found at i:7372864 original size:33 final size:33
Alignment explanation
Indices: 7372822--7372886 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
7372812 AAATGATCGA
7372822 AATACCCTCGAAGAGTAAAATAACCGAAATACC
1 AATACCCTCGAAGAGTAAAATAACCGAAATACC
* * *
7372855 AATACCCTCGAAGGGTAAAATTATCGAAATAC
1 AATACCCTCGAAGAGTAAAATAACCGAAATAC
7372887 TCTCGGGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (33 bp):
AATACCCTCGAAGAGTAAAATAACCGAAATACC
Found at i:7373267 original size:26 final size:26
Alignment explanation
Indices: 7373237--7373287 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7373227 TTGCCATATA
*
7373237 TACTGCTATTGGCAGCCTT-GCTGCGC
1 TACTGCTACTGGCAG-CTTCGCTGCGC
*
7373263 TACTGTTACTGGCAGCTTCGCTGCG
1 TACTGCTACTGGCAGCTTCGCTGCG
7373288 TCATTATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.12, C:0.29, G:0.27, T:0.31
Consensus pattern (26 bp):
TACTGCTACTGGCAGCTTCGCTGCGC
Found at i:7373460 original size:30 final size:31
Alignment explanation
Indices: 7373419--7373477 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
7373409 ACTGCATTGT
*
7373419 ACTGATTACTGTATTGGGC-TAGGGCCCACTC
1 ACTGATTACTGTACTGGGCTTA-GGCCCACTC
7373450 ACTG-TTACTGTACTGGGCTTAGGCCCAC
1 ACTGATTACTGTACTGGGCTTAGGCCCAC
7373478 ACCATACTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (31 bp):
ACTGATTACTGTACTGGGCTTAGGCCCACTC
Found at i:7374015 original size:19 final size:20
Alignment explanation
Indices: 7373963--7374005 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
7373953 TTCCAAAATT
7373963 AAGAAACAAGTTTTATCAAC
1 AAGAAACAAGTTTTATCAAC
7373983 AAGAAACAAGTTTTATCAAC
1 AAGAAACAAGTTTTATCAAC
7374003 AAG
1 AAG
7374006 TGTAAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (20 bp):
AAGAAACAAGTTTTATCAAC
Found at i:7375597 original size:17 final size:18
Alignment explanation
Indices: 7375567--7375617 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
7375557 CATTTCATGT
* *
7375567 CATTTGCTATTTCAATAG
1 CATTTGCCACTTCAATAG
* *
7375585 CATTT-CCACTTCAACAT
1 CATTTGCCACTTCAATAG
*
7375602 CATTTGCCATTTCAAT
1 CATTTGCCACTTCAAT
7375618 TTCAATAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.41
Consensus pattern (18 bp):
CATTTGCCACTTCAATAG
Found at i:7388033 original size:12 final size:12
Alignment explanation
Indices: 7388016--7388045 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7388006 TTGAATCGAG
7388016 GATGATGGTGAT
1 GATGATGGTGAT
*
7388028 GATGATGTTGAT
1 GATGATGGTGAT
7388040 GATGAT
1 GATGAT
7388046 AAAGTGGACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (12 bp):
GATGATGGTGAT
Found at i:7390247 original size:5 final size:5
Alignment explanation
Indices: 7390237--7390264 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7390227 ACAATCATCG
7390237 GATCC GATCC GATCC GATCC GATCC GAT
1 GATCC GATCC GATCC GATCC GATCC GAT
7390265 ACTCTTACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (5 bp):
GATCC
Found at i:7392981 original size:12 final size:12
Alignment explanation
Indices: 7392964--7392993 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7392954 AAAAAATATA
7392964 AATTTAATTTCC
1 AATTTAATTTCC
*
7392976 AATTTAATTTCT
1 AATTTAATTTCC
7392988 AATTTA
1 AATTTA
7392994 TTTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:7410755 original size:12 final size:12
Alignment explanation
Indices: 7410738--7410767 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7410728 AAAAAATATA
7410738 AATTTAATTTCC
1 AATTTAATTTCC
*
7410750 AATTTAATTTCT
1 AATTTAATTTCC
7410762 AATTTA
1 AATTTA
7410768 TTTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:7413260 original size:18 final size:19
Alignment explanation
Indices: 7413228--7413265 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
7413218 CCAATTCAAA
7413228 CCCAAGCATTCAACCCAAC
1 CCCAAGCATTCAACCCAAC
*
7413247 CCCAAGTATT-AACCCAAC
1 CCCAAGCATTCAACCCAAC
7413265 C
1 C
7413266 TAATTACCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.37, C:0.45, G:0.05, T:0.13
Consensus pattern (19 bp):
CCCAAGCATTCAACCCAAC
Found at i:7413404 original size:9 final size:9
Alignment explanation
Indices: 7413390--7413420 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7413380 GTAGTGATTC
7413390 AATTCGGTT
1 AATTCGGTT
*
7413399 AATTCGGGT
1 AATTCGGTT
7413408 AATTCGGTT
1 AATTCGGTT
7413417 AATT
1 AATT
7413421 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7421770 original size:12 final size:12
Alignment explanation
Indices: 7421753--7421782 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7421743 AAAAAATATA
7421753 AATTTAATTTCC
1 AATTTAATTTCC
*
7421765 AATTTAATTTCT
1 AATTTAATTTCC
7421777 AATTTA
1 AATTTA
7421783 TTTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:7425523 original size:3 final size:3
Alignment explanation
Indices: 7425515--7425546 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7425505 ATCTATCCTT
7425515 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7425547 TAACTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7430091 original size:23 final size:23
Alignment explanation
Indices: 7430053--7430096 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7430043 CGGAACATTG
*
7430053 CCAAAGCGAATAATAGGACACCA
1 CCAAAGCGAATAATAGAACACCA
* *
7430076 CCAAAGCGGATGATAGAACAC
1 CCAAAGCGAATAATAGAACAC
7430097 TATTGAAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.25, G:0.20, T:0.09
Consensus pattern (23 bp):
CCAAAGCGAATAATAGAACACCA
Found at i:7432092 original size:48 final size:48
Alignment explanation
Indices: 7432038--7432190 Score: 145
Period size: 48 Copynumber: 3.2 Consensus size: 48
7432028 TAATTAAAAT
7432038 ATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGA
1 ATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGA
* **** * * *
7432086 ATTTATAAAAATTCACATATTTTTA-ATA-ATTTCATAATAATTAATT-AAT--
1 ATTTATAATAA---A-ATATCGCAAGATACAGTT--TAATATTTTATTAAATGA
7432135 ATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGA
1 ATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGA
7432183 ATTTATAA
1 ATTTATAA
7432191 AAATTCACAT
Statistics
Matches: 78, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
45 15 0.19
46 7 0.09
47 3 0.04
48 18 0.23
49 10 0.13
50 3 0.04
51 7 0.09
52 15 0.19
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.42
Consensus pattern (48 bp):
ATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGA
Found at i:7432094 original size:45 final size:45
Alignment explanation
Indices: 7432045--7432192 Score: 115
Period size: 45 Copynumber: 3.1 Consensus size: 45
7432035 AATATTTATA
7432045 ATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAATTT
1 ATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAATTT
* * * * * *
7432090 ATAAAA-ATTCACATATTTTTAATA-ATTTCATAATAATTAATT-AAT-ATTTAT
1 ATAAAATA-TCGCA-A-----GATACAGTT--TAATATTTTATTAAATGAATT-T
7432141 AATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAATTT
1 -ATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAATTT
7432187 ATAAAA
1 ATAAAA
7432193 ATTCACATAT
Statistics
Matches: 76, Mismatches: 12, Indels: 30
0.64 0.10 0.25
Matches are distributed among these distances:
44 1 0.01
45 26 0.34
46 8 0.11
47 6 0.08
50 6 0.08
51 8 0.11
52 20 0.26
53 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (45 bp):
ATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAATTT
Found at i:7432142 original size:97 final size:98
Alignment explanation
Indices: 7432023--7432219 Score: 378
Period size: 97 Copynumber: 2.0 Consensus size: 98
7432013 AATTGATTAT
7432023 ATAATTAATTAAAATATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAAT
1 ATAATTAATT-AAATATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAAT
7432088 TTATAAAAATTCACATATTTTTAATAATTTCATA
65 TTATAAAAATTCACATATTTTTAATAATTTCATA
7432122 ATAATTAATT-AATATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAATT
1 ATAATTAATTAAATATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAATT
7432186 TATAAAAATTCACATATTTTTAATAATTTCATA
66 TATAAAAATTCACATATTTTTAATAATTTCATA
7432219 A
1 A
7432220 AAGTAAAATT
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
97 88 0.90
99 10 0.10
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (98 bp):
ATAATTAATTAAATATTTATAATAAAATATCGCAAGATACAGTTTAATATTTTATTAAATGAATT
TATAAAAATTCACATATTTTTAATAATTTCATA
Found at i:7436678 original size:26 final size:26
Alignment explanation
Indices: 7436637--7436700 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
7436627 CATAGCTCAC
*
7436637 ATGAGC-TTCCCATTTATGTACTCGT
1 ATGAGCATTCCCGTTTATGTACTCGT
* *
7436662 ATGAGCATTCCCGTTTATGTGCTTGT
1 ATGAGCATTCCCGTTTATGTACTCGT
7436688 ATGAGCATTCCCG
1 ATGAGCATTCCCG
7436701 AATTTGAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 6 0.17
26 29 0.83
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
ATGAGCATTCCCGTTTATGTACTCGT
Found at i:7438384 original size:29 final size:30
Alignment explanation
Indices: 7438316--7438386 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
7438306 TTCATGTCCA
*
7438316 GAGTTTTGCCACAGAGACATTTCCTTTCAT
1 GAGTTTTGCCACAGAGACATTACCTTTCAT
* * * * *
7438346 -AGGTTCGCCACATAGGC-TTACCTTTCCT
1 GAGTTTTGCCACAGAGACATTACCTTTCAT
7438374 GAGTTTTGCCACA
1 GAGTTTTGCCACA
7438387 AAAGCATTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
28 9 0.28
29 23 0.72
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (30 bp):
GAGTTTTGCCACAGAGACATTACCTTTCAT
Found at i:7438450 original size:29 final size:28
Alignment explanation
Indices: 7438418--7438553 Score: 103
Period size: 29 Copynumber: 4.7 Consensus size: 28
7438408 TACTCGCCAC
*
7438418 AAAGGCTTTCCTTTCCAAAGTTTTGCCAT
1 AAAGGCTTTCCTTT-CAAAGTTTTACCAT
* * * *
7438447 AAAGGCATTTCCTTTCAAAGGTTCACTAC
1 AAAGGC-TTTCCTTTCAAAGTTTTACCAT
* * * *
7438476 ATAGGCTTACCATTTCTAAGTTTTTCCAT
1 AAAGGCTTTCC-TTTCAAAGTTTTACCAT
* *
7438505 AAAGGCTTT-CTTGTCCAGAGTTTTAACAT
1 AAAGGCTTTCCTT-T-CAAAGTTTTACCAT
*
7438534 AGAGGCATTTCCTTTCAAAG
1 AAAGGC-TTTCCTTTCAAAG
7438554 GTTCACCACA
Statistics
Matches: 80, Mismatches: 21, Indels: 12
0.71 0.19 0.11
Matches are distributed among these distances:
27 2 0.03
28 6 0.08
29 57 0.71
30 12 0.15
31 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (28 bp):
AAAGGCTTTCCTTTCAAAGTTTTACCAT
Found at i:7438572 original size:87 final size:87
Alignment explanation
Indices: 7438413--7438604 Score: 255
Period size: 87 Copynumber: 2.2 Consensus size: 87
7438403 TTCAGTACTC
** *
7438413 GCCACAAAGGCTTTCCTTTCCAAAGTTTTGCCATAAAGGCATTTCCTTTCAAAGGTTCACTACAT
1 GCCACAAAGGCTTTCCTTTCCAAAGTTTTAACATAAAGGCATTTCCTTTCAAAGGTTCACCACAT
*
7438478 AGGCTTACCATTT-CTAAGTTTT
66 AGACTTACC-TTTCCTAAGTTTT
* * * *
7438500 TCCATAAAGGCTTT-CTTGTCCAGAGTTTTAACATAGAGGCATTTCCTTTCAAAGGTTCACCACA
1 GCCACAAAGGCTTTCCTT-TCCAAAGTTTTAACATAAAGGCATTTCCTTTCAAAGGTTCACCACA
*
7438564 TTGACTTACCTTTCCTAAGTTTT
65 TAGACTTACCTTTCCTAAGTTTT
7438587 GCCACAAAGG-TATTCCTT
1 GCCACAAAGGCT-TTCCTT
7438605 AAAATTCAGT
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
86 7 0.08
87 80 0.89
88 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (87 bp):
GCCACAAAGGCTTTCCTTTCCAAAGTTTTAACATAAAGGCATTTCCTTTCAAAGGTTCACCACAT
AGACTTACCTTTCCTAAGTTTT
Found at i:7442777 original size:26 final size:27
Alignment explanation
Indices: 7442747--7442810 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
7442737 ATAAAAATTT
*
7442747 AATTAATTACGA-AAATGGGAT-GAGAA
1 AATTAATTACGAGAAATAGGATAG-GAA
7442773 AATTAATTAC-AGAAATAGGATATGGAA
1 AATTAATTACGAGAAATAGGATA-GGAA
7442800 AATTAATTACG
1 AATTAATTACG
7442811 GGAATGAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.03
26 18 0.55
27 13 0.39
28 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTAATTACGAGAAATAGGATAGGAA
Found at i:7443523 original size:21 final size:21
Alignment explanation
Indices: 7443497--7443541 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7443487 TTTGTTGCTC
* *
7443497 TATTTTTTTAATAGGAGCTAA
1 TATTTTTGTAATAGAAGCTAA
*
7443518 TATTTTTGTAATAGAAGCTGA
1 TATTTTTGTAATAGAAGCTAA
7443539 TAT
1 TAT
7443542 ATATATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (21 bp):
TATTTTTGTAATAGAAGCTAA
Found at i:7445057 original size:155 final size:155
Alignment explanation
Indices: 7444767--7445073 Score: 407
Period size: 155 Copynumber: 2.0 Consensus size: 155
7444757 GTAAAAGACA
* * *** * * *
7444767 TGCCTACCATTCCTGTATCGATCTTAATTGTTGACATGCAAGCCCGGTTTTAGTACAGAGTGTCA
1 TGCCCACCATTCCTATATCGATCTTAATTACCGACATGCAAGCCCGATTTCAATACAGAGTGTCA
* ** *
7444832 TACAGGAAAGCATGGTGGGCTAAACAGATTGCGATAGAATAGTTGTATGGAGAATGGTATGTGTT
66 TACAGGAAAGCATGGTGGGCTAAACAGATTGCGATAGAATAGTTGTATGGAGAATGGGATGCATC
* * *
7444897 GTACAATAAATTTCAGGGGTGGACT
131 ATACAACAAACTTCAGGGGTGGACT
* * *
7444922 TGCCCACCATTCCTATATCGGTCTTGATTACCGACATGCAAGCCTGATTTCAATACAGAGTGTCA
1 TGCCCACCATTCCTATATCGATCTTAATTACCGACATGCAAGCCCGATTTCAATACAGAGTGTCA
* * * * *
7444987 TATAGGGAAGCATGGTGGGCTAAACAGATTGCGATGGAATAGTTGTATGGATATTGGGATGCATC
66 TACAGGAAAGCATGGTGGGCTAAACAGATTGCGATAGAATAGTTGTATGGAGAATGGGATGCATC
7445052 ATACAACAAACTTCAGGGGTGG
131 ATACAACAAACTTCAGGGGTGG
7445074 TTAGTCGCGA
Statistics
Matches: 129, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
155 129 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (155 bp):
TGCCCACCATTCCTATATCGATCTTAATTACCGACATGCAAGCCCGATTTCAATACAGAGTGTCA
TACAGGAAAGCATGGTGGGCTAAACAGATTGCGATAGAATAGTTGTATGGAGAATGGGATGCATC
ATACAACAAACTTCAGGGGTGGACT
Found at i:7450083 original size:15 final size:16
Alignment explanation
Indices: 7450071--7450101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7450061 ATTTGGGCTA
7450071 AGTGTAATTGGGCCAT
1 AGTGTAATTGGGCCAT
*
7450087 ATTGTAATTGGGCCA
1 AGTGTAATTGGGCCA
7450102 CCGTTTTAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (16 bp):
AGTGTAATTGGGCCAT
Found at i:7450383 original size:13 final size:13
Alignment explanation
Indices: 7450365--7450395 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7450355 AATTTGAAAT
*
7450365 ATTAAATCTTAAA
1 ATTAAATCTAAAA
7450378 ATTAAATCTAAAA
1 ATTAAATCTAAAA
7450391 ATTAA
1 ATTAA
7450396 GAATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTAAATCTAAAA
Found at i:7450427 original size:17 final size:17
Alignment explanation
Indices: 7450402--7450444 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7450392 TTAAGAATAA
* *
7450402 ATTAAAATATAAACATT
1 ATTATAATATAAAAATT
7450419 -TATATAATATAAAAATT
1 AT-TATAATATAAAAATT
7450436 ATTATAATA
1 ATTATAATA
7450445 AACAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTATAATATAAAAATT
Found at i:7452027 original size:9 final size:9
Alignment explanation
Indices: 7452013--7452067 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
7452003 TAATTAATTA
7452013 AAATTTTTT
1 AAATTTTTT
7452022 AAA--TTTT
1 AAATTTTTT
7452029 AAATTTTTT
1 AAATTTTTT
7452038 -AATATTTTT
1 AAAT-TTTTT
* *
7452047 ATATGTTTT
1 AAATTTTTT
*
7452056 GAATTTTTT
1 AAATTTTTT
7452065 AAA
1 AAA
7452068 AAATTAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
7 7 0.19
8 3 0.08
9 24 0.67
10 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (9 bp):
AAATTTTTT
Found at i:7452034 original size:16 final size:17
Alignment explanation
Indices: 7452013--7452045 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7452003 TAATTAATTA
7452013 AAATTTTTTAA-ATTTT
1 AAATTTTTTAATATTTT
7452029 AAATTTTTTAATATTTT
1 AAATTTTTTAATATTTT
7452046 TATATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AAATTTTTTAATATTTT
Found at i:7455207 original size:15 final size:16
Alignment explanation
Indices: 7455195--7455225 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7455185 ATTTGGGCTA
7455195 AGTGTAATTGGGCCAT
1 AGTGTAATTGGGCCAT
*
7455211 ATTGTAATTGGGCCA
1 AGTGTAATTGGGCCA
7455226 CCGTTTTAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (16 bp):
AGTGTAATTGGGCCAT
Found at i:7455507 original size:13 final size:13
Alignment explanation
Indices: 7455489--7455519 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7455479 AATTTGAAAT
*
7455489 ATTAAATCTTAAA
1 ATTAAATCTAAAA
7455502 ATTAAATCTAAAA
1 ATTAAATCTAAAA
7455515 ATTAA
1 ATTAA
7455520 GAATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTAAATCTAAAA
Found at i:7455551 original size:17 final size:17
Alignment explanation
Indices: 7455526--7455568 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7455516 TTAAGAATAA
* *
7455526 ATTAAAATATAAACATT
1 ATTATAATATAAAAATT
7455543 -TATATAATATAAAAATT
1 AT-TATAATATAAAAATT
7455560 ATTATAATA
1 ATTATAATA
7455569 AACAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTATAATATAAAAATT
Found at i:7455705 original size:130 final size:131
Alignment explanation
Indices: 7455548--7455809 Score: 517
Period size: 130 Copynumber: 2.0 Consensus size: 131
7455538 ACATTTATAT
7455548 AATATAAAAATTATTATAATAAACAATAAAAAACATTCCTTAAAACTATCAAACTTTCACCAACA
1 AATATAAAAATTATTATAATAAACAATAAAAAACATTCCTTAAAACTATCAAACTTTCACCAACA
7455613 CAAACCAATTTTTCCCACCCAAATTTCCACCCGCCAATTTTATTTATTTATTTATTTTTGTTTTC
66 CAAACCAATTTTTCCCACCCAAATTTCCACCCGCCAATTTTATTTATTTATTTATTTTTGTTTTC
7455678 A
131 A
7455679 AATATAAAAA-TATTATAATAAACAATAAAAAACATTCCTTAAAACTATCAAACTTTCACCAACA
1 AATATAAAAATTATTATAATAAACAATAAAAAACATTCCTTAAAACTATCAAACTTTCACCAACA
7455743 CAAACCAATTTTTCCCACCCAAATTTCCACCCGCCAATTTTATTTATTTATTTATTTTTGTTTTC
66 CAAACCAATTTTTCCCACCCAAATTTCCACCCGCCAATTTTATTTATTTATTTATTTTTGTTTTC
7455808 A
131 A
7455809 A
1 A
7455810 CCTCAATTTC
Statistics
Matches: 131, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 121 0.92
131 10 0.08
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.36
Consensus pattern (131 bp):
AATATAAAAATTATTATAATAAACAATAAAAAACATTCCTTAAAACTATCAAACTTTCACCAACA
CAAACCAATTTTTCCCACCCAAATTTCCACCCGCCAATTTTATTTATTTATTTATTTTTGTTTTC
A
Found at i:7457281 original size:9 final size:9
Alignment explanation
Indices: 7457267--7457321 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
7457257 TAATTAATTA
7457267 AAATTTTTT
1 AAATTTTTT
7457276 AAA--TTTT
1 AAATTTTTT
7457283 AAATTTTTT
1 AAATTTTTT
7457292 -AATATTTTT
1 AAAT-TTTTT
* *
7457301 ATATGTTTT
1 AAATTTTTT
*
7457310 GAATTTTTT
1 AAATTTTTT
7457319 AAA
1 AAA
7457322 AAATTAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
7 7 0.19
8 3 0.08
9 24 0.67
10 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (9 bp):
AAATTTTTT
Found at i:7457288 original size:16 final size:17
Alignment explanation
Indices: 7457267--7457299 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7457257 TAATTAATTA
7457267 AAATTTTTTAA-ATTTT
1 AAATTTTTTAATATTTT
7457283 AAATTTTTTAATATTTT
1 AAATTTTTTAATATTTT
7457300 TATATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AAATTTTTTAATATTTT
Done.