Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 114 of 235
Found at i:39095511 original size:17 final size:16
Alignment explanation
Indices: 39095475--39095511 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
39095465 GAAAACCAGT
*
39095475 TAAACCAAAAATCAGT
1 TAAACCAAAAATCAGC
39095491 TAAACCAAAAATCATGC
1 TAAACCAAAAATCA-GC
39095508 TAAA
1 TAAA
39095512 AAAATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.57, C:0.19, G:0.05, T:0.19
Consensus pattern (16 bp):
TAAACCAAAAATCAGC
Found at i:39098955 original size:16 final size:16
Alignment explanation
Indices: 39098931--39098966 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39098921 CGTACTGAGC
*
39098931 GAGAGAGGAGAACCGA
1 GAGAAAGGAGAACCGA
*
39098947 GAGAAAGGAGAACCGG
1 GAGAAAGGAGAACCGA
39098963 GAGA
1 GAGA
39098967 GAGGTTGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.44, T:0.00
Consensus pattern (16 bp):
GAGAAAGGAGAACCGA
Found at i:39100671 original size:46 final size:46
Alignment explanation
Indices: 39100595--39100910 Score: 463
Period size: 46 Copynumber: 6.8 Consensus size: 46
39100585 TGATGTCATA
* * * * *
39100595 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* *** *
39100641 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
39100688 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
39100734 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
39100780 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
39100826 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
39100872 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
39100911 AGCACACTCC
Statistics
Matches: 253, Mismatches: 15, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 214 0.85
47 39 0.15
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:39106854 original size:22 final size:22
Alignment explanation
Indices: 39106826--39106867 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
39106816 GAGGTAGGAA
39106826 TCTGCATCTGTATCTGATATGT
1 TCTGCATCTGTATCTGATATGT
*
39106848 TCTGCATCTGTATTTGATAT
1 TCTGCATCTGTATCTGATAT
39106868 TCTCTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (22 bp):
TCTGCATCTGTATCTGATATGT
Found at i:39108516 original size:46 final size:46
Alignment explanation
Indices: 39108462--39108576 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
39108452 CGAGCTTTTA
*
39108462 CATATGTTGTGGACTTGAGAATACAAGTATAGGTTCTGAGCT-CTAG
1 CATATGTTGTGGACTTGAGAATACAAGTATAGGTTCCGAGCTCCT-G
* * * *
39108508 CA-AGTGTTGCGGACTCGAGAATACAGGTTTAGGTTCCGAGCTCCTG
1 CATA-TGTTGTGGACTTGAGAATACAAGTATAGGTTCCGAGCTCCTG
39108554 CATATGTTGCT-GACTTGAGAATA
1 CATATGTTG-TGGACTTGAGAATA
39108577 TAGGAATATT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.02
46 54 0.93
47 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (46 bp):
CATATGTTGTGGACTTGAGAATACAAGTATAGGTTCCGAGCTCCTG
Found at i:39111222 original size:46 final size:46
Alignment explanation
Indices: 39111172--39111347 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
39111162 TGGTTGAGCA
39111172 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39111218 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39111263 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39111311 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39111348 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39111328 original size:93 final size:93
Alignment explanation
Indices: 39111169--39111340 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
39111159 GGATGGTTGA
* *
39111169 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39111234 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39111262 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39111327 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39111341 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39115728 original size:17 final size:17
Alignment explanation
Indices: 39115702--39115735 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
39115692 CGAATTCCCA
*
39115702 AATTCGCCCCCCCCCCC
1 AATTCCCCCCCCCCCCC
39115719 AATTCCCCCCCCCCCCC
1 AATTCCCCCCCCCCCCC
39115736 TGTTCGCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.74, G:0.03, T:0.12
Consensus pattern (17 bp):
AATTCCCCCCCCCCCCC
Found at i:39115729 original size:16 final size:17
Alignment explanation
Indices: 39115702--39115734 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
39115692 CGAATTCCCA
39115702 AATTCGCCCCCCCCCCC
1 AATTCGCCCCCCCCCCC
39115719 AATTC-CCCCCCCCCCC
1 AATTCGCCCCCCCCCCC
39115735 CTGTTCGCTA
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:0.12, C:0.73, G:0.03, T:0.12
Consensus pattern (17 bp):
AATTCGCCCCCCCCCCC
Found at i:39121411 original size:3 final size:3
Alignment explanation
Indices: 39121397--39121430 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
39121387 AAATTAAGAT
*
39121397 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
39121431 AGAAACAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:39122357 original size:3 final size:3
Alignment explanation
Indices: 39122344--39122380 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
39122334 TGAACTCCTC
*
39122344 TGA TTA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
39122381 TCTGGTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (3 bp):
TGA
Found at i:39125025 original size:13 final size:15
Alignment explanation
Indices: 39125003--39125035 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
39124993 TATTTTAATT
39125003 TTTTCTTTTTGT-TA
1 TTTTCTTTTTGTATA
39125017 TTTTC-TTTTGTATA
1 TTTTCTTTTTGTATA
39125031 TTTTC
1 TTTTC
39125036 ATTCTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTCTTTTTGTATA
Found at i:39131889 original size:232 final size:231
Alignment explanation
Indices: 39131465--39131930 Score: 887
Period size: 232 Copynumber: 2.0 Consensus size: 231
39131455 CTGAGCAGAA
*
39131465 TAGGATTGTTTCTTTGGGTTTTTGTCAAGAATACCAGCCAAACAAGATGACAATTAATACGTCAG
1 TAGGATTGTTTCTTTGGGTTTTTGTCAAGAATACCAGCCAAACAAGATGAAAATTAATACGTCAG
39131530 TGATAAGACCCTAATGAATAATGAGTGATGACACTTTAAGCATAAAAAATGGGCATTTCTCATGA
66 TGATAAGACCCTAATGAATAATGAGTGATGACACTTTAAGCATAAAAAATGGGCATTTCTCATGA
*
39131595 CATTTTACATTCATACCAATGTCATTCATAGTACATCTAGTTAAGAGCATTTGATTCATTTTGAT
131 CATTTTACATTCATACCAATGTCATTCATAGTACATCTAATTAAGAGCATTTGATTCATTTTGAT
*
39131660 CATAGCATCCTAATTATTTGGCATAAGTATCACATC
196 CATACCATCCTAATTATTTGGCATAAGTATCACATC
39131696 TAGGATTGTTTCTTTGGGTTTTTTGTCAAGAATACCAGCCAAACAAGATGAAAATTAATACGTCA
1 TAGGATTGTTTCTTTGGG-TTTTTGTCAAGAATACCAGCCAAACAAGATGAAAATTAATACGTCA
*
39131761 GTGATAAGACCCTGATGAATAATGAGTGATGACACTTTAAGCATAAAAAATGGGCATTTCTCATG
65 GTGATAAGACCCTAATGAATAATGAGTGATGACACTTTAAGCATAAAAAATGGGCATTTCTCATG
39131826 ACATTTTACATTCATACCAATGTCATTCATAGTACATCTAATTAAGAGCATTTGATTCATTTTGA
130 ACATTTTACATTCATACCAATGTCATTCATAGTACATCTAATTAAGAGCATTTGATTCATTTTGA
39131891 TCATACCATCCTAATTATTTGGCATAAGTATCACATC
195 TCATACCATCCTAATTATTTGGCATAAGTATCACATC
39131928 TAG
1 TAG
39131931 CTAGGAGCAT
Statistics
Matches: 230, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
231 18 0.08
232 212 0.92
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (231 bp):
TAGGATTGTTTCTTTGGGTTTTTGTCAAGAATACCAGCCAAACAAGATGAAAATTAATACGTCAG
TGATAAGACCCTAATGAATAATGAGTGATGACACTTTAAGCATAAAAAATGGGCATTTCTCATGA
CATTTTACATTCATACCAATGTCATTCATAGTACATCTAATTAAGAGCATTTGATTCATTTTGAT
CATACCATCCTAATTATTTGGCATAAGTATCACATC
Found at i:39132270 original size:45 final size:46
Alignment explanation
Indices: 39132213--39132309 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 46
39132203 AGTTGCAGGA
* *
39132213 AGCAGA-CTGAAAATTAC-AGATCTTATCTCCATGTATCGGCTATAG
1 AGCAGATCTGAAAATGACGAG-TCTTATCTCCATGTATAGGCTATAG
* *
39132258 AGCAGATC-GAAAATGGCGAGTCTTATCTCCATGTATAGGCTATGG
1 AGCAGATCTGAAAATGACGAGTCTTATCTCCATGTATAGGCTATAG
39132303 AGCAGAT
1 AGCAGAT
39132310 TTTAGCCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
45 43 0.93
46 3 0.07
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (46 bp):
AGCAGATCTGAAAATGACGAGTCTTATCTCCATGTATAGGCTATAG
Found at i:39132371 original size:133 final size:133
Alignment explanation
Indices: 39132090--39132345 Score: 345
Period size: 133 Copynumber: 1.9 Consensus size: 133
39132080 AACAGGCTTC
* * *
39132090 AAATTATAGATCTTATCTCTATGTATCAGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCC
1 AAATTACAGATCTTATCTCCATGTATCAGCTATAGAGCAGATCAGAAATGGCGAGTCTTATCTCC
* * **** * *
39132155 ATGTATCGGGTATGGAACAAATTTTAGCCACTGGTGTTATCCTCCTGAAGTTGCAGGAAGCAGAC
66 ATGTATAGGCTATGGAACAAATTTTAGCCACTAACCTTATCCTCCTGAAGTAGCAAGAAGCAGAC
39132220 TGA
131 TGA
*
39132223 AAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATC-GAAAATGGCGAGTCTTATCTC
1 AAATTACAGATCTTATCTCCATGTATCAGCTATAGAGCAGATCAG-AAATGGCGAGTCTTATCTC
* * *
39132287 CATGTATAGGCTATGGAGCAGATTTTAGCCACTAACCTTAT-CTCTCTGAGGTAGCAAGA
65 CATGTATAGGCTATGGAACAAATTTTAGCCACTAACCTTATCCTC-CTGAAGTAGCAAGA
39132346 GAGTAGGTTG
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
132 4 0.04
133 102 0.96
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (133 bp):
AAATTACAGATCTTATCTCCATGTATCAGCTATAGAGCAGATCAGAAATGGCGAGTCTTATCTCC
ATGTATAGGCTATGGAACAAATTTTAGCCACTAACCTTATCCTCCTGAAGTAGCAAGAAGCAGAC
TGA
Found at i:39132397 original size:177 final size:177
Alignment explanation
Indices: 39132191--39133062 Score: 1148
Period size: 177 Copynumber: 4.9 Consensus size: 177
39132181 GCCACTGGTG
*
39132191 TTATCCTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTAT
1 TTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTAT
* ** * *
39132256 AGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATAGGCTATGGAGCAGATTTTAGCCACTA
66 GGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTG
* *
39132321 ACCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTC
131 ACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGCC
* * *
39132368 TTATTTTCCTGAAATTGTAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTAT
1 TTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTAT
* * **
39132433 GGAGCAGATAAAAAATGGCGAGTCTTATCTTCATGTATCGGCTATGGAGAAGATTTTAGCCACCA
66 GGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTG
* *
39132498 ACCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTC
131 ACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGCC
39132545 TTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCTA
1 TTATCTTCCTGAAGTTGCAGGAAGCAGACTG-AAAATTACAGATCTTATCTCCATGTATCGGCTA
* * * *
39132610 TGGAGCAGATCAGAAATGGCGAATCTTATCTCCATGTATCTGCTATGGAGCAGATTTTAGCCAAC
65 TGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC-AC
*
39132675 -GACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCC
129 TGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGCC
* ** * *
39132723 TTAACCCCCTATGCAA-TAG--GGTAA-CAGGCTGAAAATTACAGATCTTATCTCCATGTATCGG
1 TTATCTTCC--TG-AAGTTGCAGG-AAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
* * *
39132784 CTATGGAGTAGATAAAAAATGGAGAGTCTTATCTTCATGTATCGGCTATGGAGCAGATTTTAGCC
62 CTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
* * **
39132849 ACTGGCATTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGGGCC
127 ACTGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGCC
* * ** * * *
39132900 TTAAC--CCTTAAGCAGTAGGGTAA-CAGGCTAAAAATTACAGATCTTATCTCCATGTATCGGCT
1 TTATCTTCCTGAAGTTGCA-GG-AAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCT
* * * * * *
39132962 ATGAAGCAGATTAGAAATGGCAAGTCTTATCTCCATGTCTCGGCTATGGAGCAGATTTTAGCCGC
64 ATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCAC
* * * * *
39133027 GGGCCTTATCTATCTGAGGTAGCAAAATAGCAGGTT
129 TGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
39133063 AAAGGTATGA
Statistics
Matches: 626, Mismatches: 58, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
172 2 0.00
173 3 0.00
175 2 0.00
176 132 0.21
177 330 0.53
178 147 0.23
179 4 0.01
180 4 0.01
181 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (177 bp):
TTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTAT
GGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTG
ACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGCC
Found at i:39132757 original size:355 final size:354
Alignment explanation
Indices: 39132191--39133120 Score: 1261
Period size: 355 Copynumber: 2.6 Consensus size: 354
39132181 GCCACTGGTG
39132191 TTATCCTCCTGAAGTTGCAGGAAGCAGACTG-AAAATTACAGATCTTATCTCCATGTATCGGCTA
1 TTAT-CTCCTGAAGTTGCAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCTA
* * *
39132255 TAGAGCAGATC-GAAAATGGCGAGTCTTATCTCCATGTATAGGCTATGGAGCAGATTTTAGCCAC
65 TGGAGCAGATCAG-AAATGGCGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCAC
** * * * **** *
39132319 TAACCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATTTTCC--TGAAA
129 GGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTATGCAA
* *
39132382 TTGTAGG-AAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAA
194 TAG--GGTAA-CAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAA
* * *
39132446 AATGGCGAGTCTTATCTTCATGTATCGGCTATGGAGAAGATTTTAGCCACCAACCTTATCTCTTT
256 AATGGAGAGTCTTATCTTCATGTATCGGCTATGGAGAAGATTTTAGCCACCAACATTATCTCTCT
*
39132511 GAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTC
321 GAGGTAGCAAGAGAGCAGGTTGAAGATACAAGCC
39132545 TTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCTA
1 TTATC-TCCTGAAGTTGCAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCTA
*
39132610 TGGAGCAGATCAGAAATGGCGAATCTTATCTCCATGTATCTGCTATGGAGCAGATTTTAGCCAAC
65 TGGAGCAGATCAGAAATGGCGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC-AC
39132675 -GACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTATGCAA
129 GGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTATGCAA
*
39132739 TAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATAAAAAAT
194 TAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAAT
* ***
39132804 GGAGAGTCTTATCTTCATGTATCGGCTATGGAGCAGATTTTAGCCACTGGCATTATCTCTCTGAG
259 GGAGAGTCTTATCTTCATGTATCGGCTATGGAGAAGATTTTAGCCACCAACATTATCTCTCTGAG
**
39132869 GTAGCAAGAGAGCAGGTTGAAGATACGGGCC
324 GTAGCAAGAGAGCAGGTTGAAGATACAAGCC
* * ** * *
39132900 TTAAC-CCTTAAGCAGTAGGGTAA-CAGGCT-AAAAATTACAGATCTTATCTCCATGTATCGGCT
1 TTATCTCCTGAAGTTGCA-GG-AAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCT
* * * *
39132962 ATGAAGCAGATTAGAAATGGC-AAGTCTTATCTCCATGTCTCGGCTATGGAGCAGATTTTAGCCG
64 ATGGAGCAGATCAGAAATGGCGAA-TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
* * * * * * * *
39133026 CGGGCCTTATCTATCTGAGGTAGCAAAATAGCAGGTTAAAGGTATGAGCCTTAACCCCCTAAGCA
128 CGGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTATGCA
* *
39133091 GTAGGGTAATAGGCTGGAAAA-TACAGATCT
193 ATAGGGTAACAGGCT-GAAAATTACAGATCT
39133121 CCCCTAAAAA
Statistics
Matches: 517, Mismatches: 47, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
352 3 0.01
353 175 0.34
354 41 0.08
355 287 0.56
356 5 0.01
357 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (354 bp):
TTATCTCCTGAAGTTGCAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCGGCTAT
GGAGCAGATCAGAAATGGCGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACGG
ACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTATGCAATA
GGGTAACAGGCTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGG
AGAGTCTTATCTTCATGTATCGGCTATGGAGAAGATTTTAGCCACCAACATTATCTCTCTGAGGT
AGCAAGAGAGCAGGTTGAAGATACAAGCC
Found at i:39133225 original size:84 final size:84
Alignment explanation
Indices: 39133072--39133543 Score: 574
Period size: 84 Copynumber: 5.6 Consensus size: 84
39133062 TAAAGGTATG
*
39133072 AGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGGAAAATACAGATCTCCCCTAAA-AAGTAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAA-TAGT
39133136 GGAGCAGATCGAAGATAGCA
65 GGAGCAGATCGAAGATAGCA
* * * * * *
39133156 AGCCTTAACCTCCTAAGTAGTAGGGTAGCAGGTTGGGAAATACAGATCTCCCCTAAACAATAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAATAGTG
* *
39133221 GAGCAGATCGAAGACAGTA
66 GAGCAGATCGAAGATAGCA
* *
39133240 AGCCTTAACCCCCTACGCAGTAGGGTAACAGGCTGGAAAATACAGATTTCCCCTAAACAATAGTG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAATAGTG
39133305 GAGCAGATCGAAGATAGCA
66 GAGCAGATCGAAGATAGCA
* * * *
39133324 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGGAAATACAGATCTCCCTTAAGCACTAGTG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAATAGTG
* * * **
39133389 AAGTAGATCGAAGATGGTG
66 GAGCAGATCGAAGATAGCA
* * * * *
39133408 AGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGC-AGAAGATTACAGATCTTATCTGCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAA-AATACAGATC---TC-CCCTAAACAA
* * *
39133471 TAGTGGAGCAGATCAAAGACAGTA
61 TAGTGGAGCAGATCGAAGATAGCA
* * *
39133495 AGCCTTACCCCCCTAAGAAGTAGGGAAACAGGCT-GAAAATTACAGATCT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAA-TACAGATCT
39133544 TATCTCCCTA
Statistics
Matches: 333, Mismatches: 46, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
82 2 0.01
83 33 0.10
84 227 0.68
85 3 0.01
86 2 0.01
87 33 0.10
88 33 0.10
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (84 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAATAGTG
GAGCAGATCGAAGATAGCA
Found at i:39133367 original size:252 final size:253
Alignment explanation
Indices: 39133072--39133541 Score: 635
Period size: 252 Copynumber: 1.9 Consensus size: 253
39133062 TAAAGGTATG
* *
39133072 AGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGGAAAATACAGATCTCCCCTAAAAAGTAGTG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAAAACTAGTG
* * * **
39133137 GAGCAGATCGAAGATAGCAAGCCTTAACCTCCTAAGTAGTAGGGTAGCAGGTTGGGAA-A-TACA
66 AAGCAGATCGAAGATAGCAAGCCTTAACC-CCTAAGCAGTAGGGTAACAGG--CAGAAGATTACA
* * *
39133200 GATC-TC-CCCTAAACAATAGTAGAGCAGATCGAAGACAGTAAGCCTTAACCCCCTACGCAGTAG
128 GATCTTCTCCCTAAACAATAGTAGAGCAGATCAAAGACAGTAAGCCTTAACCCCCTAAGAAGTAG
*
39133263 GGTAACAGGCTGGAAAA-TACAGATTTCCCCTAAACAATAGTGGAGCAGATCGAAGATAGCA
193 GGAAACAGGCT-GAAAATTACAGATTTCCCCTAAACAATAGTGGAGCAGATCGAAGATAGCA
* * **
39133324 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGGAAATACAGATCTCCCTTAAGCACTAGTG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAAAACTAGTG
* * **
39133389 AAGTAGATCGAAGATGGTGAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAGAT
66 AAGCAGATCGAAGATAGCAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAGAT
* * * * *
39133454 CTTATCTGCCTAAGCAGTAGTGGAGCAGATCAAAGACAGTAAGCCTTACCCCCCTAAGAAGTAGG
131 C-T-TCTCCCTAAACAATAGTAGAGCAGATCAAAGACAGTAAGCCTTAACCCCCTAAGAAGTAGG
39133519 GAAACAGGCTGAAAATTACAGAT
194 GAAACAGGCTGAAAATTACAGAT
39133542 CTTATCTCCC
Statistics
Matches: 187, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
249 3 0.02
250 1 0.01
251 27 0.14
252 83 0.44
254 7 0.04
255 66 0.35
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (253 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAAAACTAGTG
AAGCAGATCGAAGATAGCAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAGAT
CTTCTCCCTAAACAATAGTAGAGCAGATCAAAGACAGTAAGCCTTAACCCCCTAAGAAGTAGGGA
AACAGGCTGAAAATTACAGATTTCCCCTAAACAATAGTGGAGCAGATCGAAGATAGCA
Found at i:39133468 original size:44 final size:43
Alignment explanation
Indices: 39133417--39133561 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 43
39133407 GAGCCTTAAC
39133417 CCCTAAGCAGTAGGGTAACAGGCAGAAGATTACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCAGAAGATTACAGATCTTATCT
* * * * * * *
39133461 GCCTAAGCAGTAGTGGAGCAGATCA-AAGACAGTA-AG-CCTTACCC
1 CCCTAAGCAGTAG-GGAACAG-GCAGAAG--ATTACAGATCTTATCT
* * *
39133505 CCCTAAGAAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCAGAAGATTACAGATCTTATCT
39133549 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
39133562 TGGAGTAGAT
Statistics
Matches: 75, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
42 3 0.04
43 5 0.07
44 58 0.77
45 6 0.08
46 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAACAGGCAGAAGATTACAGATCTTATCT
Found at i:39133576 original size:44 final size:45
Alignment explanation
Indices: 39133445--39133577 Score: 112
Period size: 44 Copynumber: 3.0 Consensus size: 45
39133435 CAGGCAGAAG
* **
39133445 ATTACAGATCTTATCTGCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA-AC
* * * * * * **
39133491 AGTA-AG-CCTTACCCCCCTAAGAAGTAG-GGAAACAGGCTGAAA-
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATTGAAAC
*
39133533 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAC
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAAC
39133578 GAAAATTCCT
Statistics
Matches: 62, Mismatches: 20, Indels: 11
0.67 0.22 0.12
Matches are distributed among these distances:
42 3 0.05
43 5 0.08
44 47 0.76
45 4 0.06
46 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (45 bp):
ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAAC
Found at i:39134320 original size:14 final size:14
Alignment explanation
Indices: 39134301--39134333 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
39134291 TATTTTAATT
39134301 TTTTCTTGTTGT-TA
1 TTTTCTT-TTGTATA
39134315 TTTTCTTTTGTATA
1 TTTTCTTTTGTATA
39134329 TTTTC
1 TTTTC
39134334 ATTCTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (14 bp):
TTTTCTTTTGTATA
Found at i:39134349 original size:10 final size:10
Alignment explanation
Indices: 39134327--39134362 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
39134317 TTCTTTTGTA
39134327 TATTTTCATTC
1 TATTTT-ATTC
39134338 TATTTTATTC
1 TATTTTATTC
39134348 TATTTTATT-
1 TATTTTATTC
39134357 TATTTT
1 TATTTT
39134363 CTCTTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.24
10 13 0.52
11 6 0.24
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTTTATTC
Found at i:39134497 original size:21 final size:20
Alignment explanation
Indices: 39134460--39134498 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
39134450 TATTTGTATA
39134460 TATATATATATAATGTTTTG
1 TATATATATATAATGTTTTG
* *
39134480 TATATCATTTATACTGTTT
1 TATAT-ATATATAATGTTT
39134499 CGTTACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (20 bp):
TATATATATATAATGTTTTG
Found at i:39135373 original size:125 final size:125
Alignment explanation
Indices: 39135155--39135388 Score: 299
Period size: 125 Copynumber: 1.9 Consensus size: 125
39135145 AAAAAACCTC
* * * * *
39135155 TTAAAATGAGGCAATATTCCGTATCTAGAAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCG
1 TTAAAATGAGGCAATATTCCGTATCTAGAAATTCGAGAAACCATGCCCAATCGTGCTAGGTTTCG
** * * *
39135220 ATTTTTCATTTGACTAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTTTCTTAAA
66 ATTTACCATTTGACCAAAAGACAGAATATCCTTTTAAAATTTCATCCATGTTTTCTTAAA
* * * * *
39135280 TTAAAATGAGGCAATATTTCGTATTTGGAAATTCGATAAACCGTGCCCAATCGTGCTAGGTTTCG
1 TTAAAATGAGGCAATATTCCGTATCTAGAAATTCGAGAAACCATGCCCAATCGTGCTAGGTTTCG
* *
39135345 ATTTACCATTTGGCCAAAGAGCCA-AATATCCTTTTAAAATTTCA
66 ATTTACCATTTGACCAAA-AGACAGAATATCCTTTTAAAATTTCA
39135389 AATGCACGAG
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
125 88 0.97
126 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (125 bp):
TTAAAATGAGGCAATATTCCGTATCTAGAAATTCGAGAAACCATGCCCAATCGTGCTAGGTTTCG
ATTTACCATTTGACCAAAAGACAGAATATCCTTTTAAAATTTCATCCATGTTTTCTTAAA
Found at i:39138321 original size:19 final size:19
Alignment explanation
Indices: 39138297--39138334 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39138287 GAAATGAATA
*
39138297 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
39138316 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
39138335 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:39139238 original size:19 final size:19
Alignment explanation
Indices: 39139216--39139254 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
39139206 GTATATATAT
39139216 ATAAAATAA-AGAAAATGAA
1 ATAAAATAACA-AAAATGAA
39139235 ATAAAATAACAAAAATGAA
1 ATAAAATAACAAAAATGAA
39139254 A
1 A
39139255 AATGAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (19 bp):
ATAAAATAACAAAAATGAA
Found at i:39139537 original size:20 final size:20
Alignment explanation
Indices: 39139499--39139537 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39139489 GGTTAGGTTT
* *
39139499 TTTTTTTCTTCATTTTTTTA
1 TTTTTTTATTCATTATTTTA
*
39139519 TTTTTTTATTTATTATTTT
1 TTTTTTTATTCATTATTTT
39139538 GGGTTGTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTTATTCATTATTTTA
Found at i:39145481 original size:48 final size:52
Alignment explanation
Indices: 39145411--39145509 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
39145401 AATAATTATT
39145411 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
39145459 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
39145510 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:39145491 original size:17 final size:17
Alignment explanation
Indices: 39145466--39145499 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
39145456 ATAATTTTAA
*
39145466 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
39145483 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
39145500 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:39145516 original size:17 final size:16
Alignment explanation
Indices: 39145471--39145518 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
39145461 TTTAAATTTT
39145471 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
39145488 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
39145502 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
39145519 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:39145573 original size:54 final size:54
Alignment explanation
Indices: 39145515--39145693 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
39145505 ATAATCATAT
39145515 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
39145569 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
39145632 TA
54 -A
*
39145634 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
39145689 ATTAT
1 ATTAT
39145694 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:39145576 original size:61 final size:61
Alignment explanation
Indices: 39145511--39145698 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
39145501 AGTTATAATC
39145511 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
39145572 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
39145631 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
39145692 ATATATT
1 ATATATT
39145699 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:39145590 original size:18 final size:17
Alignment explanation
Indices: 39145559--39145593 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39145549 ATTATTAAGA
39145559 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
39145576 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
39145594 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:39145632 original size:120 final size:120
Alignment explanation
Indices: 39145508--39145730 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
39145498 ATTAGTTATA
39145508 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
39145573 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
39145628 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
39145693 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
39145731 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:39145707 original size:18 final size:17
Alignment explanation
Indices: 39145679--39145713 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39145669 ATTATTAAGA
*
39145679 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
39145696 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
39145714 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:39145725 original size:54 final size:54
Alignment explanation
Indices: 39145542--39145727 Score: 142
Period size: 54 Copynumber: 3.2 Consensus size: 54
39145532 TTCATATAAG
* *
39145542 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
* * * *
39145596 AATAATAATTATGT--TATTTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATAT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAATT-ATAT
**
39145659 AAG
53 -TT
* *
39145662 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
39145716 AATAATAATTAT
1 AATAATAATTAT
39145728 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 4 0.04
54 24 0.24
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 12 0.12
65 5 0.05
66 13 0.13
67 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:39145834 original size:144 final size:147
Alignment explanation
Indices: 39145667--39145938 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
39145657 ATAAGAATAT
*
39145667 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
39145732 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
39145794 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
39145811 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
39145876 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
39145939 CAATAATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 91 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:39145851 original size:18 final size:17
Alignment explanation
Indices: 39145823--39145857 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39145813 ATTATTAAGA
*
39145823 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
39145840 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
39145858 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:39146068 original size:44 final size:45
Alignment explanation
Indices: 39146019--39146113 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
39146009 TTACACCTCT
* *
39146019 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
39146063 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
39146108 ATTACA
1 ATTACA
39146114 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:39146113 original size:16 final size:16
Alignment explanation
Indices: 39146092--39146124 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39146082 TTGATTTGCT
*
39146092 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
39146108 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
39146124 A
1 A
39146125 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:39146134 original size:21 final size:21
Alignment explanation
Indices: 39146105--39146147 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
39146095 ACACCTCTAT
*
39146105 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
39146126 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
39146147 T
1 T
39146148 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:39150614 original size:19 final size:20
Alignment explanation
Indices: 39150577--39150615 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
39150567 CAACTAATTG
39150577 GTGATGTAATCATATATTTT
1 GTGATGTAATCATATATTTT
39150597 GTGAT-TAAT-ATATAATTTT
1 GTGATGTAATCATAT-ATTTT
39150616 TAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (20 bp):
GTGATGTAATCATATATTTT
Found at i:39153871 original size:22 final size:23
Alignment explanation
Indices: 39153825--39153872 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
39153815 AAAACATTAG
*
39153825 AAACCAGAAATTTTTGGGATCAA
1 AAACCAGAAATTTTTGGGATAAA
39153848 AAACCAGAAATTTTTGGGA-AAA
1 AAACCAGAAATTTTTGGGATAAA
39153870 AAA
1 AAA
39153873 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (23 bp):
AAACCAGAAATTTTTGGGATAAA
Found at i:39155438 original size:11 final size:11
Alignment explanation
Indices: 39155422--39155446 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39155412 AGTTGGAGCA
39155422 AACCCGAAGGC
1 AACCCGAAGGC
39155433 AACCCGAAGGC
1 AACCCGAAGGC
39155444 AAC
1 AAC
39155447 TGGTGTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.36, G:0.24, T:0.00
Consensus pattern (11 bp):
AACCCGAAGGC
Found at i:39161941 original size:20 final size:18
Alignment explanation
Indices: 39161916--39161952 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
39161906 ATTGCTAAGT
39161916 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
39161936 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
39161953 TATAAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:39162565 original size:46 final size:46
Alignment explanation
Indices: 39162513--39162688 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
39162503 TGGTTGAGCA
39162513 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
39162559 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
39162604 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
39162652 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39162689 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39162669 original size:93 final size:93
Alignment explanation
Indices: 39162510--39162680 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
39162500 GGATGGTTGA
* **
39162510 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39162575 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
39162603 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39162668 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39162681 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39180315 original size:26 final size:26
Alignment explanation
Indices: 39180255--39180309 Score: 89
Period size: 23 Copynumber: 2.2 Consensus size: 26
39180245 TACTTATCAC
39180255 ATATTTTAACCTAGTATAAAATATGA
1 ATATTTTAACCTAGTATAAAATATGA
39180281 ATATTTTAA-CTA-TAT-AAATATGA
1 ATATTTTAACCTAGTATAAAATATGA
39180304 ATATTT
1 ATATTT
39180310 GTTTAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.48
24 3 0.10
25 3 0.10
26 9 0.31
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (26 bp):
ATATTTTAACCTAGTATAAAATATGA
Found at i:39181841 original size:15 final size:15
Alignment explanation
Indices: 39181823--39181857 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
39181813 TAATAATAAT
39181823 AATAACAACAACAAC
1 AATAACAACAACAAC
39181838 AATAACAACAACAAC
1 AATAACAACAACAAC
39181853 AATAA
1 AATAA
39181858 TAATAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (15 bp):
AATAACAACAACAAC
Found at i:39184650 original size:19 final size:20
Alignment explanation
Indices: 39184615--39184652 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39184605 CCCTCATTCT
39184615 AAATAAAAATAAAATATTTC
1 AAATAAAAATAAAATATTTC
*
39184635 AAATAAAAA-AATATATTT
1 AAATAAAAATAAAATATTT
39184653 TACTAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAAAAATAAAATATTTC
Found at i:39186068 original size:21 final size:22
Alignment explanation
Indices: 39186023--39186070 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
39186013 ATTATTCTAT
* *
39186023 TTTTTTTAAATTTCTTTATATA
1 TTTTTTTAAATTTCTTAATAAA
*
39186045 TTTTTTTGAATTT-TTAATAAA
1 TTTTTTTAAATTTCTTAATAAA
39186066 TTTTT
1 TTTTT
39186071 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTTTAAATTTCTTAATAAA
Found at i:39186116 original size:18 final size:19
Alignment explanation
Indices: 39186095--39186135 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
39186085 ATTTTATATT
*
39186095 TTTTATAAA-TATTTTGAA
1 TTTTAAAAACTATTTTGAA
39186113 TTTTAAAAACTATTTTGAA
1 TTTTAAAAACTATTTTGAA
39186132 TTTT
1 TTTT
39186136 TTTATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAACTATTTTGAA
Found at i:39186544 original size:18 final size:19
Alignment explanation
Indices: 39186522--39186566 Score: 83
Period size: 18 Copynumber: 2.4 Consensus size: 19
39186512 GATATATTAA
39186522 AAAATTAAATTAAATTGTT
1 AAAATTAAATTAAATTGTT
39186541 -AAATTAAATTAAATTGTT
1 AAAATTAAATTAAATTGTT
39186559 AAAATTAA
1 AAAATTAA
39186567 GTTTAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AAAATTAAATTAAATTGTT
Found at i:39186561 original size:13 final size:13
Alignment explanation
Indices: 39186526--39186550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39186516 TATTAAAAAA
39186526 TTAAATTAAATTG
1 TTAAATTAAATTG
39186539 TTAAATTAAATT
1 TTAAATTAAATT
39186551 AAATTGTTAA
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTAAATTAAATTG
Found at i:39192612 original size:117 final size:117
Alignment explanation
Indices: 39192406--39192635 Score: 397
Period size: 117 Copynumber: 2.0 Consensus size: 117
39192396 CCGAATTGAC
* * *
39192406 AATTGATGGAGATTACCGAAGCAACCTAATCACCCATAATTAGATTTGATTTATTCTTCCTTTTT
1 AATTGATGGAGATTACCGAAACAAACTAATCACCCATAATCAGATTTGATTTATTCTTCCTTTTT
*
39192471 AATCTTTTAAATTTTAATCTTTTATGTTGTTTTATTTTTATCATTATATGAA
66 AATCTTTTAAATTTTAATCTTTTATGTTGTTTTACTTTTATCATTATATGAA
* *
39192523 AATTGATGGAGATTACCGAAACAAACTAATCACCCATAATCATATTTGATTTATTCTTCTTTTTT
1 AATTGATGGAGATTACCGAAACAAACTAATCACCCATAATCAGATTTGATTTATTCTTCCTTTTT
*
39192588 AATCTTTTAAATTTTATTCTTTTATGTTGTTTTACTTTTATCATTATA
66 AATCTTTTAAATTTTAATCTTTTATGTTGTTTTACTTTTATCATTATA
39192636 AAACCCCAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 106 1.00
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (117 bp):
AATTGATGGAGATTACCGAAACAAACTAATCACCCATAATCAGATTTGATTTATTCTTCCTTTTT
AATCTTTTAAATTTTAATCTTTTATGTTGTTTTACTTTTATCATTATATGAA
Found at i:39205377 original size:43 final size:43
Alignment explanation
Indices: 39205316--39205397 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
39205306 AGAGGACCAG
39205316 TTGGAAATAGACATGTTTGGATCATATTGCATATAATTTTCAT
1 TTGGAAATAGACATGTTTGGATCATATTGCATATAATTTTCAT
* *
39205359 TTGGAAATAGACATGTTTGGATTATATTGCATGTAATTT
1 TTGGAAATAGACATGTTTGGATCATATTGCATATAATTT
39205398 ACATACTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (43 bp):
TTGGAAATAGACATGTTTGGATCATATTGCATATAATTTTCAT
Found at i:39207204 original size:25 final size:26
Alignment explanation
Indices: 39207169--39207235 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
39207159 ACACACCATA
*
39207169 GCTCTCTTGAGCTTTC-CGATACTTG
1 GCTCTCATGAGCTTTCTCGATACTTG
*
39207194 GCTCTCATGAGC-TTCTCGATATTTG
1 GCTCTCATGAGCTTTCTCGATACTTG
*
39207219 GCT-TGCAAGAGCTTTCT
1 GCTCT-CATGAGCTTTCT
39207236 GATGTACAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.11
25 28 0.78
26 4 0.11
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (26 bp):
GCTCTCATGAGCTTTCTCGATACTTG
Found at i:39207327 original size:75 final size:75
Alignment explanation
Indices: 39207176--39207330 Score: 168
Period size: 75 Copynumber: 2.1 Consensus size: 75
39207166 ATAGCTCTCT
* * * * * * *
39207176 TGAGCTTTCCGATACTTGGCTCTCATGAGCTTCTCGATATTTGGCTTGCAAGAGCTTTCTGATGT
1 TGAGCTTTCCGATACTTGGCTCACACGAGCTTCCCGATATATGGCTTGAAAGAACTTTCTCATGT
*
39207241 ACAGCTTGTA
66 ACAGCTAGTA
* * * * * *
39207251 TGAGCTTTCTGTTACTTTGCTCACACGAGCTTCCCGTTATATGTCTTGAAAGAACTTTC-CATTT
1 TGAGCTTTCCGATACTTGGCTCACACGAGCTTCCCGATATATGGCTTGAAAGAACTTTCTCATGT
39207315 ACATGCTAGTA
66 ACA-GCTAGTA
39207326 TGAGC
1 TGAGC
39207331 ATACAAGTAC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
74 6 0.09
75 59 0.91
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (75 bp):
TGAGCTTTCCGATACTTGGCTCACACGAGCTTCCCGATATATGGCTTGAAAGAACTTTCTCATGT
ACAGCTAGTA
Found at i:39215766 original size:35 final size:35
Alignment explanation
Indices: 39215723--39215856 Score: 160
Period size: 35 Copynumber: 3.8 Consensus size: 35
39215713 GTTTGGCGTG
* *
39215723 TTTCGGTTGGACCAACTCTTATGAGCATTGGCATA
1 TTTCGGTTGGACTAGCTCTTATGAGCATTGGCATA
* * *
39215758 TTTTGGTTGGACTAGCTCTTATGAGCATTGGCGTG
1 TTTCGGTTGGACTAGCTCTTATGAGCATTGGCATA
* * *
39215793 TTTCGGTTGGATTAGCTCTTATGAGCACTGGCATG
1 TTTCGGTTGGACTAGCTCTTATGAGCATTGGCATA
* * * *
39215828 TTACGATTAGACTAGCTCTTGTGAGCATT
1 TTTCGGTTGGACTAGCTCTTATGAGCATT
39215857 TGATGTGTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 84 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.37
Consensus pattern (35 bp):
TTTCGGTTGGACTAGCTCTTATGAGCATTGGCATA
Found at i:39215841 original size:70 final size:70
Alignment explanation
Indices: 39215715--39215856 Score: 194
Period size: 70 Copynumber: 2.0 Consensus size: 70
39215705 TACTCTTTGT
* ** * *
39215715 TTGGCGTGTTTCGGTTGGACCAACTCTTATGAGCATTGGCATATTTTGGTTGGACTAGCTCTTAT
1 TTGGCGTGTTTCGGTTGGACCAACTCTTATGAGCACTGGCATATTACGATTAGACTAGCTCTTAT
39215780 GAGCA
66 GAGCA
** * * *
39215785 TTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCACTGGCATGTTACGATTAGACTAGCTCTTGT
1 TTGGCGTGTTTCGGTTGGACCAACTCTTATGAGCACTGGCATATTACGATTAGACTAGCTCTTAT
39215850 GAGCA
66 GAGCA
39215855 TT
1 TT
39215857 TGATGTGTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.37
Consensus pattern (70 bp):
TTGGCGTGTTTCGGTTGGACCAACTCTTATGAGCACTGGCATATTACGATTAGACTAGCTCTTAT
GAGCA
Found at i:39216014 original size:22 final size:22
Alignment explanation
Indices: 39215968--39216032 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
39215958 TGGTAAGGTA
*
39215968 ATGTTCAATGAAAGT-ATG-TTT
1 ATGTTC-ATGAAATTGATGATTT
39215989 ATGTTCATGAAATTGATGATTT
1 ATGTTCATGAAATTGATGATTT
*
39216011 ATGTTCATGAAGTTGATGATTT
1 ATGTTCATGAAATTGATGATTT
39216033 CAAATGATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.17
21 9 0.22
22 24 0.60
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.45
Consensus pattern (22 bp):
ATGTTCATGAAATTGATGATTT
Found at i:39221055 original size:40 final size:40
Alignment explanation
Indices: 39220968--39221071 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
39220958 ACTCGATATC
* * *
39220968 TCACACACTAAGTGCCGTACATAGCTAAATCTATCTCAAA
1 TCACACACTAAGTGCCATATATAGCTAAAGCTATCTCAAA
* **
39221008 TCACACACTAAGTGCCATATATAGCTAAAGCTATGTTGAA
1 TCACACACTAAGTGCCATATATAGCTAAAGCTATCTCAAA
** *
39221048 TTGCACACTAAGTGTCATATATAG
1 TCACACACTAAGTGCCATATATAG
39221072 TGTCATATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATAGCTAAAGCTATCTCAAA
Found at i:39221075 original size:12 final size:12
Alignment explanation
Indices: 39221058--39221084 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39221048 TTGCACACTA
39221058 AGTGTCATATAT
1 AGTGTCATATAT
39221070 AGTGTCATATAT
1 AGTGTCATATAT
39221082 AGT
1 AGT
39221085 CGAAGCTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (12 bp):
AGTGTCATATAT
Found at i:39221879 original size:6 final size:6
Alignment explanation
Indices: 39221868--39221909 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
39221858 GAGACCTTTA
*
39221868 TTTTTC TTTTTC TTTTTC TTTCTTT TCTTTTC -TTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTT-TTC T-TTTTC TTTTTC TTTTT
39221910 GGGCCTCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 5 0.16
6 19 0.61
7 5 0.16
8 2 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:39221891 original size:4 final size:5
Alignment explanation
Indices: 39221869--39221908 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
39221859 AGACCTTTAT
39221869 TTTTC TTTTTC TTTT- TCTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC -TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC TTTT
39221909 TGGGCCTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.03
5 25 0.78
6 6 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:39222443 original size:145 final size:148
Alignment explanation
Indices: 39222280--39222569 Score: 410
Period size: 148 Copynumber: 2.0 Consensus size: 148
39222270 ATTTTTTTTT
* * **
39222280 AAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGA-TTTTTAGTCATATTAA-AGGAAAT
1 AAAAAAAAAGAAAATTTAGATTTTTAAAATAAAAATAT-ATTTTTTAGTCATATTAAGAAAAAAT
* *
39222343 TT-AA-TTCTTAAAACAAAGTTTTGATCTTTTTCAATTATTTCAAAATAAA-TTTTAGATTTTTA
65 TTAAATTTCTTAAAACAAAGTTTTGATCTTTTTAAACTATTTCAAAATAAAGTTTT-GATTTTTA
*
39222405 AGAAAAATAGTGATTTTAAA
129 AGAAAAATAGTAATTTTAAA
* * *
39222425 AAAAAAAAAGAAAATTTAGATTTTTAAAATAAAATTCTATTTTTTAGTCATTTTAAGAAAAAATT
1 AAAAAAAAAGAAAATTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATATTAAGAAAAAATT
* *
39222490 TAAATTTTTTAAAACAAAGTTTTGATCTTTTTAAACTATTTTAAAATAAAGTTTTGATTTTTAAG
66 TAAATTTCTTAAAACAAAGTTTTGATCTTTTTAAACTATTTCAAAATAAAGTTTTGATTTTTAAG
*
39222555 AAATATAGTAATTTT
131 AAAAATAGTAATTTT
39222570 TTAAAAGAAA
Statistics
Matches: 127, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
144 1 0.01
145 49 0.39
146 7 0.06
147 2 0.02
148 64 0.50
149 4 0.03
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (148 bp):
AAAAAAAAAGAAAATTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATATTAAGAAAAAATT
TAAATTTCTTAAAACAAAGTTTTGATCTTTTTAAACTATTTCAAAATAAAGTTTTGATTTTTAAG
AAAAATAGTAATTTTAAA
Found at i:39222523 original size:31 final size:31
Alignment explanation
Indices: 39222488--39222551 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 31
39222478 TAAGAAAAAA
*
39222488 TTTAAA-TTTTTTAAAACAAAGTTTTGATCTT
1 TTTAAACTATTTTAAAACAAAGTTTTGAT-TT
*
39222519 TTTAAACTATTTTAAAATAAAGTTTTGATTT
1 TTTAAACTATTTTAAAACAAAGTTTTGATTT
39222550 TT
1 TT
39222552 AAGAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (31 bp):
TTTAAACTATTTTAAAACAAAGTTTTGATTT
Found at i:39225795 original size:47 final size:47
Alignment explanation
Indices: 39225726--39225909 Score: 359
Period size: 47 Copynumber: 3.9 Consensus size: 47
39225716 TTTTGTTTTA
*
39225726 TTTTAGGTAAAGCGATAGATAACCATTTATATGGCCTATGTATTCTG
1 TTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTCTG
39225773 TTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTCTG
1 TTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTCTG
39225820 TTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTCTG
1 TTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTCTG
39225867 TTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTAT
1 TTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTAT
39225910 GCAAAGAGAT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 136 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (47 bp):
TTTTAGGTAAAACGATAGATAACCATTTATATGGCCTATGTATTCTG
Found at i:39227262 original size:48 final size:48
Alignment explanation
Indices: 39227191--39227371 Score: 211
Period size: 48 Copynumber: 3.8 Consensus size: 48
39227181 CATTAAGGGA
* * *
39227191 TACTTTGATTTAGCTTCAGGCCATTATATCGGCACTTCGGGTGTGAGT
1 TACTTTGATTTAGCTTCGGGCCATGATATCAGCACTTCGGGTGTGAGT
* *
39227239 TACTTTGATTTGGCTTCGGGCCATGATATCAGCACTTCGGGTGTGAAT
1 TACTTTGATTTAGCTTCGGGCCATGATATCAGCACTTCGGGTGTGAGT
* * * * * *
39227287 T-TTATTGATTTGGCTTCGGGCCATGATATTAGCACTTCTGGTGCGAGA
1 TACT-TTGATTTAGCTTCGGGCCATGATATCAGCACTTCGGGTGTGAGT
* * * *
39227335 TACATTGAGTTAGCTTTGGGCCATGATATGAGCACTT
1 TACTTTGATTTAGCTTCGGGCCATGATATCAGCACTT
39227372 AATGTGCGAT
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
47 1 0.01
48 113 0.99
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (48 bp):
TACTTTGATTTAGCTTCGGGCCATGATATCAGCACTTCGGGTGTGAGT
Found at i:39227359 original size:96 final size:96
Alignment explanation
Indices: 39227195--39227371 Score: 237
Period size: 96 Copynumber: 1.8 Consensus size: 96
39227185 AAGGGATACT
* * * * * * *
39227195 TTGATTTAGCTTCAGGCCATTATATCGGCACTTCGGGTGTGAGTTACTTTGATTTGGCTTCGGGC
1 TTGATTTAGCTTCAGGCCATGATATCAGCACTTCGGGTGCGAGATACATTGAGTTAGCTTCGGGC
39227260 CATGATATCAGCACTTCGGGTGTGAATTTTA
66 CATGATATCAGCACTTCGGGTGTGAATTTTA
* * * * *
39227291 TTGATTTGGCTTCGGGCCATGATATTAGCACTTCTGGTGCGAGATACATTGAGTTAGCTTTGGGC
1 TTGATTTAGCTTCAGGCCATGATATCAGCACTTCGGGTGCGAGATACATTGAGTTAGCTTCGGGC
*
39227356 CATGATATGAGCACTT
66 CATGATATCAGCACTT
39227372 AATGTGCGAT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 68 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (96 bp):
TTGATTTAGCTTCAGGCCATGATATCAGCACTTCGGGTGCGAGATACATTGAGTTAGCTTCGGGC
CATGATATCAGCACTTCGGGTGTGAATTTTA
Found at i:39233623 original size:3 final size:3
Alignment explanation
Indices: 39233615--39233639 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
39233605 TATGTATACA
39233615 TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT T
39233640 TTTTTAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:39241584 original size:35 final size:35
Alignment explanation
Indices: 39241557--39241722 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
39241547 CATGGCAAAG
*
39241557 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
39241592 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
39241627 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
39241667 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
39241702 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
39241723 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:39241676 original size:75 final size:75
Alignment explanation
Indices: 39241557--39241727 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
39241547 CATGGCAAAG
** *
39241557 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
39241616 CCATACTGAGC
65 CCATACCGAGC
39241627 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
39241692 CATACCGAGT
66 CATACCGAGC
**
39241702 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
39241728 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:39251569 original size:55 final size:55
Alignment explanation
Indices: 39251428--39251570 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 55
39251418 ACGACATGGC
* * * *
39251428 TGTGGTTGAGCCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTTGAAGAAT
1 TGTGGTTGAACCTGTCAAAACAACACGGGCGTGCGACACGCCCGTATTGAACAAT
* * * * * ** *
39251483 CGTGGGTGAACCTGTTAAAACAGCACAGGCGTGTTACACGCCCGTATCT-AACAGT
1 TGTGGTTGAACCTGTCAAAACAACACGGGCGTGCGACACGCCCGTAT-TGAACAAT
**
39251538 TGTGGTTGAACCTGTCAAATGAACACGGGCGTG
1 TGTGGTTGAACCTGTCAAAACAACACGGGCGTG
39251571 GGGCTTTCAT
Statistics
Matches: 68, Mismatches: 19, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
55 67 0.99
56 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (55 bp):
TGTGGTTGAACCTGTCAAAACAACACGGGCGTGCGACACGCCCGTATTGAACAAT
Found at i:39252283 original size:18 final size:18
Alignment explanation
Indices: 39252262--39252300 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
39252252 ACTTCTTCGA
39252262 ATTTGTTTACCTATTATT
1 ATTTGTTTACCTATTATT
*
39252280 ATTTGTTTATCTATTATT
1 ATTTGTTTACCTATTATT
39252298 ATT
1 ATT
39252301 ATTCATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTGTTTACCTATTATT
Found at i:39254164 original size:33 final size:33
Alignment explanation
Indices: 39254127--39254192 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
39254117 TTGAATTAAA
*
39254127 ACATAGGCATTTATGTATTGATTGTTTAAACTT
1 ACATAGGCATTTATGCATTGATTGTTTAAACTT
39254160 ACATAGGCATTTATGCATTGATTGTTTAAACTT
1 ACATAGGCATTTATGCATTGATTGTTTAAACTT
39254193 TAAGACATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (33 bp):
ACATAGGCATTTATGCATTGATTGTTTAAACTT
Found at i:39269356 original size:18 final size:19
Alignment explanation
Indices: 39269322--39269357 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39269312 TGAGGAAAAT
39269322 CTCAAACACACAAATGAAA
1 CTCAAACACACAAATGAAA
*
39269341 CTCAAACAGA-AAATGAA
1 CTCAAACACACAAATGAA
39269358 GAAATAGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.22, G:0.08, T:0.11
Consensus pattern (19 bp):
CTCAAACACACAAATGAAA
Found at i:39272529 original size:14 final size:14
Alignment explanation
Indices: 39272510--39272551 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
39272500 ACTGTGTTTT
39272510 TATATATATATGTG
1 TATATATATATGTG
*
39272524 TATATATATATTTCG
1 TATATATATATGT-G
39272539 TATAT-TA-ATGTG
1 TATATATATATGTG
39272551 T
1 T
39272552 GTTGAAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 2 0.08
13 3 0.12
14 14 0.56
15 6 0.24
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (14 bp):
TATATATATATGTG
Found at i:39277179 original size:25 final size:23
Alignment explanation
Indices: 39277150--39277196 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
39277140 AATAAAAAAC
*
39277150 TTTAAAATATAATAAATCAAATATA
1 TTTAAAACATAA-AAA-CAAATATA
39277175 TTTAAAACATAAAAACAAATAT
1 TTTAAAACATAAAAACAAATAT
39277197 TAAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 11 0.52
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATATA
Found at i:39277451 original size:17 final size:18
Alignment explanation
Indices: 39277408--39277453 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
39277398 CTAAAGTTAC
*
39277408 TTAAAATTAAAAATAAAT
1 TTAATATTAAAAATAAAT
* *
39277426 TT-TTTTTAAAAAT-AAT
1 TTAATATTAAAAATAAAT
39277442 TTAATATTAAAA
1 TTAATATTAAAA
39277454 TCGAGCCGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATATTAAAAATAAAT
Found at i:39279059 original size:24 final size:20
Alignment explanation
Indices: 39279008--39279047 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
39278998 TCGTGGGAGT
*
39279008 TAACAAGTCTACCAGAATGA
1 TAACAATTCTACCAGAATGA
39279028 TAACAATTCTACCAGAATGA
1 TAACAATTCTACCAGAATGA
39279048 CATAATCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (20 bp):
TAACAATTCTACCAGAATGA
Found at i:39280652 original size:25 final size:25
Alignment explanation
Indices: 39280624--39280672 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
39280614 TTGCTTGAAC
39280624 TTCTCAA-TATATGGCTATTCGGAGT
1 TTCTCAATTA-ATGGCTATTCGGAGT
* *
39280649 TTCTCGATTAATGGCTCTTCGGAG
1 TTCTCAATTAATGGCTATTCGGAG
39280673 CTACTCGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (25 bp):
TTCTCAATTAATGGCTATTCGGAGT
Found at i:39282609 original size:43 final size:43
Alignment explanation
Indices: 39282545--39282628 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
39282535 TGAGGTATAT
* * *
39282545 AGCATTCGAGCTCGTTAAGAGGTCTGAGTTCATTATGGATGCA
1 AGCATCCGAGCTCGTTAAGAGGTCCGAGTTCATTATAGATGCA
* *
39282588 AGCATCCGAGCTTGTTGAGAGGTCCGAGTTCATTATAGATG
1 AGCATCCGAGCTCGTTAAGAGGTCCGAGTTCATTATAGATG
39282629 TGTTACATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
AGCATCCGAGCTCGTTAAGAGGTCCGAGTTCATTATAGATGCA
Found at i:39290416 original size:43 final size:43
Alignment explanation
Indices: 39290334--39290417 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
39290324 TAAGGTATAT
* *
39290334 AGCATCCGAGCTCGTTGAGAGGACCGAGATTATTATGGATGTA
1 AGCATCCGAGCTCGTTGAGAGGACCGAGATCATGATGGATGTA
* * * * *
39290377 AGCATCTGAGCTCGTTGAGAGGTCTGAGCTCATGGTGGATG
1 AGCATCCGAGCTCGTTGAGAGGACCGAGATCATGATGGATG
39290418 CGATTCATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (43 bp):
AGCATCCGAGCTCGTTGAGAGGACCGAGATCATGATGGATGTA
Found at i:39296311 original size:12 final size:12
Alignment explanation
Indices: 39296294--39296318 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39296284 ACCCAAAACC
39296294 CTTAGCCCAAAA
1 CTTAGCCCAAAA
39296306 CTTAGCCCAAAA
1 CTTAGCCCAAAA
39296318 C
1 C
39296319 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:39296964 original size:10 final size:10
Alignment explanation
Indices: 39296944--39297001 Score: 71
Period size: 10 Copynumber: 5.8 Consensus size: 10
39296934 GTATTTCTAT
*
39296944 TATATACATA
1 TATATATATA
*
39296954 TATACATATA
1 TATATATATA
*
39296964 TATTTATATA
1 TATATATATA
*
39296974 TATATATATT
1 TATATATATA
*
39296984 TATATATATT
1 TATATATATA
39296994 TATATATA
1 TATATATA
39297002 GTATTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 42 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATATATA
Found at i:39296982 original size:8 final size:8
Alignment explanation
Indices: 39296944--39297001 Score: 71
Period size: 8 Copynumber: 7.2 Consensus size: 8
39296934 GTATTTCTAT
*
39296944 TATATACA
1 TATATATA
*
39296952 TATATACA
1 TATATATA
*
39296960 TATATATT
1 TATATATA
39296968 TATATATA
1 TATATATA
*
39296976 TATATATT
1 TATATATA
39296984 TATATATA
1 TATATATA
*
39296992 TTTATATA
1 TATATATA
39297000 TA
1 TA
39297002 GTATTATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (8 bp):
TATATATA
Found at i:39297008 original size:12 final size:11
Alignment explanation
Indices: 39296941--39297008 Score: 65
Period size: 10 Copynumber: 6.5 Consensus size: 11
39296931 TGTGTATTTC
*
39296941 TATTATATACA
1 TATTATATATA
*
39296952 TA-TATACATA
1 TATTATATATA
*
39296962 TA-TATTTATA
1 TATTATATATA
39296972 TA-TATATATA
1 TATTATATATA
39296982 T-TTATATATA
1 TATTATATATA
39296992 T-TTATATATA
1 TATTATATATA
39297002 GTATTAT
1 -TATTAT
39297009 TATTTACTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
10 42 0.86
11 3 0.06
12 4 0.08
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (11 bp):
TATTATATATA
Found at i:39297009 original size:16 final size:14
Alignment explanation
Indices: 39296944--39297001 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
39296934 GTATTTCTAT
* *
39296944 TATATACATATATA
1 TATATATATTTATA
*
39296958 CATATATATTTATA
1 TATATATATTTATA
*
39296972 TATATATA--TATT
1 TATATATATTTATA
39296984 TATATATATTTATA
1 TATATATATTTATA
39296998 TATA
1 TATA
39297002 GTATTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 11 0.31
14 25 0.69
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATATATTTATA
Found at i:39299218 original size:19 final size:19
Alignment explanation
Indices: 39299196--39299242 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
39299186 CTTCCTTTCT
39299196 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
39299215 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
39299234 TTTGCATTA
1 TTTGCATTA
39299243 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:39308055 original size:68 final size:68
Alignment explanation
Indices: 39307970--39308240 Score: 409
Period size: 68 Copynumber: 4.0 Consensus size: 68
39307960 AAATCAAATA
* **
39307970 TCTTCTCCCTGAAATGGCGTTAGAGCTGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
39308035 ATC
66 ATC
* * *
39308038 TCTTTTCCCTAAAATGGCGTTAGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
39308103 ATC
66 ATC
* * * *
39308106 TCTTCTCCCTGATATGGCGTTGGAGCGGCTAAAAGCCATAACAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
39308171 ATC
66 ATC
* * *
39308174 TCTTCTGCCTGAAATGGCGTT-GAAGCAGCTAAAAGCCACAACAGATTTCCTTGAAGTTTCAGTG
1 TCTTCTCCCTGAAATGGCGTTAG-AGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTG
39308238 GAT
65 GAT
39308241 TAATCGAAGC
Statistics
Matches: 185, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
67 1 0.01
68 184 0.99
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (68 bp):
TCTTCTCCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:39308611 original size:12 final size:12
Alignment explanation
Indices: 39308594--39308618 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39308584 ACCCAAAACC
39308594 CTTAGCCCAAAA
1 CTTAGCCCAAAA
39308606 CTTAGCCCAAAA
1 CTTAGCCCAAAA
39308618 C
1 C
39308619 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:39309128 original size:3 final size:3
Alignment explanation
Indices: 39309114--39309199 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
39309104 GAGCTTTGTT
* *
39309114 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
39309158 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
39309200 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:39309152 original size:27 final size:27
Alignment explanation
Indices: 39309113--39309199 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
39309103 AGAGCTTTGT
39309113 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
39309140 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
39309165 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
39309191 -TTATATTAT
1 TTTATATTAT
39309200 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 9 0.19
27 13 0.27
28 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:39309174 original size:21 final size:18
Alignment explanation
Indices: 39309114--39309203 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
39309104 GAGCTTTGTT
*
39309114 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
39309134 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
39309152 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
39309173 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
39309191 TTA-TATTATATAT
1 TTATTATT-TATAT
39309204 GCCCTCTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.43
19 9 0.15
20 10 0.16
21 12 0.20
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:39309446 original size:18 final size:19
Alignment explanation
Indices: 39309405--39309466 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 19
39309395 CTATTACTAT
* *
39309405 TATTATTATATATTAGTGTA
1 TATTTTTATATA-TAGTATA
*
39309425 TATTTTTATGTATA-TATA
1 TATTTTTATATATAGTATA
39309443 TA-TTTTATATATAGTAT-
1 TATTTTTATATATAGTATA
39309460 TATTTTT
1 TATTTTT
39309467 TATTACTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 12 0.33
18 12 0.33
19 2 0.06
20 10 0.28
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TATTTTTATATATAGTATA
Found at i:39309556 original size:2 final size:2
Alignment explanation
Indices: 39309551--39309580 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
39309541 GTATTTCTAT
*
39309551 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39309581 GTATTATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:39310575 original size:13 final size:13
Alignment explanation
Indices: 39310557--39310584 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39310547 GAACCTTAAT
39310557 ACCTTCAATTGCA
1 ACCTTCAATTGCA
39310570 ACCTTCAATTGCA
1 ACCTTCAATTGCA
39310583 AC
1 AC
39310585 TTTTTGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (13 bp):
ACCTTCAATTGCA
Found at i:39310683 original size:13 final size:13
Alignment explanation
Indices: 39310665--39310689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39310655 ATGAAGTGTT
39310665 GAAGATCAAGCTG
1 GAAGATCAAGCTG
39310678 GAAGATCAAGCT
1 GAAGATCAAGCT
39310690 ACTGCAATAT
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:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (13 bp):
GAAGATCAAGCTG
Found at i:39310965 original size:28 final size:28
Alignment explanation
Indices: 39310925--39310990 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
39310915 CTTTCCTAAT
39310925 TGTGCAAGTTGTGATTTGCAAGTTGCAA
1 TGTGCAAGTTGTGATTTGCAAGTTGCAA
*
39310953 TGTGCAAGTTGTGATTTGCAAGTTGTAA
1 TGTGCAAGTTGTGATTTGCAAGTTGCAA
*
39310981 TGTACAAGTT
1 TGTGCAAGTT
39310991 ATGCAAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.38
Consensus pattern (28 bp):
TGTGCAAGTTGTGATTTGCAAGTTGCAA
Found at i:39310988 original size:14 final size:14
Alignment explanation
Indices: 39310925--39310990 Score: 78
Period size: 14 Copynumber: 4.7 Consensus size: 14
39310915 CTTTCCTAAT
*
39310925 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTAA
* *
39310939 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTAA
*
39310953 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTAA
*
39310967 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTAA
*
39310981 TGTACAAGTT
1 TGTGCAAGTT
39310991 ATGCAAATTG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.38
Consensus pattern (14 bp):
TGTGCAAGTTGTAA
Found at i:39312899 original size:6 final size:7
Alignment explanation
Indices: 39312872--39312898 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
39312862 TTAAATTTAA
39312872 ATTTTTT
1 ATTTTTT
39312879 ATTTTTT
1 ATTTTTT
39312886 ATTTTTT
1 ATTTTTT
39312893 ATTTTT
1 ATTTTT
39312899 AAAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:39330967 original size:27 final size:26
Alignment explanation
Indices: 39330937--39331016 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 26
39330927 TCTAAGTTCA
39330937 TATATTTTTGAAAATTTTTAAGGTTTT
1 TATATTTTTGAAAATTTTTAA-GTTTT
* * *
39330964 TATATTTTT-ATAAATTTCTAAATTTA
1 TATATTTTTGA-AAATTTTTAAGTTTT
*
39330990 TATATATTTG-AAATATTTTAAGTTTT
1 TATATTTTTGAAAAT-TTTTAAGTTTT
39331016 T
1 T
39331017 CTTTATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
25 4 0.09
26 21 0.49
27 18 0.42
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (26 bp):
TATATTTTTGAAAATTTTTAAGTTTT
Found at i:39331002 original size:53 final size:53
Alignment explanation
Indices: 39330907--39331016 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 53
39330897 AAATCTCATA
* *
39330907 TTTTATATTTTTATAAATCATCTAAGTTCATATATTTTTGAAA-ATTTTTAAGGT
1 TTTTATATTTTTATAAATCATCTAAATTCATATATATTTGAAATA-TTTTAA-GT
* *
39330961 TTTTATATTTTTATAAAT-TTCTAAATTTATATATATTTGAAATATTTTAAGT
1 TTTTATATTTTTATAAATCATCTAAATTCATATATATTTGAAATATTTTAAGT
39331013 TTTT
1 TTTT
39331017 CTTTATAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 6 0.12
53 26 0.51
54 19 0.37
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (53 bp):
TTTTATATTTTTATAAATCATCTAAATTCATATATATTTGAAATATTTTAAGT
Found at i:39333316 original size:72 final size:72
Alignment explanation
Indices: 39333199--39333382 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
39333189 ACAACTTGAC
*
39333199 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
39333264 ACTAACA
66 ACTAACA
39333271 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
39333336 ACTAACA
66 ACTAACA
39333343 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
39333383 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:39333391 original size:3 final size:3
Alignment explanation
Indices: 39333383--39333417 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
39333373 ATTACATCCA
39333383 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
39333418 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:39337755 original size:3 final size:3
Alignment explanation
Indices: 39337747--39337880 Score: 268
Period size: 3 Copynumber: 44.7 Consensus size: 3
39337737 ATTACATCCA
39337747 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
39337795 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
39337843 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
39337881 AACATGTGAT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 131 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:39351807 original size:21 final size:21
Alignment explanation
Indices: 39351775--39351815 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
39351765 GAACATTTGG
39351775 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
39351796 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
39351816 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:39358620 original size:28 final size:28
Alignment explanation
Indices: 39358576--39358630 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
39358566 GATGGGTCAC
* *
39358576 TCCGATAGGGTCGAAAGTCAAAATAAAT
1 TCCGATAAGGTCAAAAGTCAAAATAAAT
*
39358604 TCCGATAAGGTCAAAAGTGAAAATAAA
1 TCCGATAAGGTCAAAAGTCAAAATAAA
39358631 CTTTAGTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (28 bp):
TCCGATAAGGTCAAAAGTCAAAATAAAT
Found at i:39359452 original size:26 final size:27
Alignment explanation
Indices: 39359391--39359452 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
39359381 ACCTTGGGCT
* * *
39359391 GTTTTATTTTGTGTTTTTTTGCTTTCG
1 GTTTGATTTTGTGTTTCTCTGCTTTCG
* *
39359418 GTTTG-TTTTGTGTTTCTCTGTTTTTG
1 GTTTGATTTTGTGTTTCTCTGCTTTCG
39359444 G-TTGATTTT
1 GTTTGATTTT
39359453 TCTGGTAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.10
26 22 0.76
27 4 0.14
ACGTcount: A:0.03, C:0.06, G:0.21, T:0.69
Consensus pattern (27 bp):
GTTTGATTTTGTGTTTCTCTGCTTTCG
Found at i:39362469 original size:46 final size:45
Alignment explanation
Indices: 39362419--39362644 Score: 281
Period size: 46 Copynumber: 4.9 Consensus size: 45
39362409 TTTCTGAAAT
*
39362419 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
* * * *
39362464 TGAAATGTGTAAGACCATGGATGAAAGATACCATGGCAACATAATGG
1 -GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-A
* *
39362511 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TA
* * * *
39362557 GAAATGAATAAGACCATGGTTGAAAGATGCCAGGGCAACATGACA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
* * * *
39362602 GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 G-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
39362645 TTGAAGATAA
Statistics
Matches: 158, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 156 0.99
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (45 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
Found at i:39363467 original size:19 final size:19
Alignment explanation
Indices: 39363432--39363470 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
39363422 AATATTTTCC
*
39363432 CATAAAAATGATTAAAAAT
1 CATAAAAATGATAAAAAAT
*
39363451 CATAAAAATTGAAAAAAAAT
1 CATAAAAA-TGATAAAAAAT
39363471 TATCTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (19 bp):
CATAAAAATGATAAAAAAT
Found at i:39363536 original size:29 final size:31
Alignment explanation
Indices: 39363479--39363536 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
39363469 ATTATCTCAA
*
39363479 AATATAAAATATTATATTTTTTTATATAATT
1 AATATAAAATATTATAATTTTTTATATAATT
39363510 AATA-AAACATATT-TAATTTTTT-TATAA
1 AATATAAA-ATATTATAATTTTTTATATAA
39363537 AAACGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 11 0.44
31 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
AATATAAAATATTATAATTTTTTATATAATT
Found at i:39363614 original size:28 final size:29
Alignment explanation
Indices: 39363573--39363627 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
39363563 ATAAAAAATA
*
39363573 AAAAAATATT-AAAATTGATATAAATTTAT
1 AAAAAATATTAAAAATT-AAATAAATTTAT
*
39363602 AAAAATTA-TAAAAATTAAATAAATTT
1 AAAAAATATTAAAAATTAAATAAATTT
39363628 GAACTAGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAAATATTAAAAATTAAATAAATTTAT
Found at i:39363626 original size:9 final size:9
Alignment explanation
Indices: 39363553--39363618 Score: 71
Period size: 9 Copynumber: 7.2 Consensus size: 9
39363543 ATTAAAGTTC
39363553 TATAAAAAT
1 TATAAAAAT
*
39363562 TATAAAAAA
1 TATAAAAAT
*
39363571 TA-AAAAAA
1 TATAAAAAT
*
39363579 TATTAAAAT
1 TATAAAAAT
*
39363588 TGATATAAATT
1 T-ATA-AAAAT
39363599 TATAAAAAT
1 TATAAAAAT
39363608 TATAAAAAT
1 TATAAAAAT
39363617 TA
1 TA
39363619 AATAAATTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
8 8 0.17
9 30 0.62
10 5 0.10
11 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:39370931 original size:53 final size:53
Alignment explanation
Indices: 39370851--39370957 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
39370841 AGTAAATAAG
*
39370851 TTAGTTATAGTTTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
1 TTAGTTATAGTCTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
39370904 TTAGTTATAGTCTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
1 TTAGTTATAGTCTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
39370957 T
1 T
39370958 ATCACGTATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.52
Consensus pattern (53 bp):
TTAGTTATAGTCTTTTGCTTTACTTTTCATGTCTGAGATTTGGTATAGATATA
Found at i:39383574 original size:28 final size:26
Alignment explanation
Indices: 39383533--39383595 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 26
39383523 GAAATACTCT
* *
39383533 TTTCAATATTCAGTATAGTTTTCTTTC
1 TTTCAATTTTCAGTATAG-TTTCATTC
39383560 TATTCAATTTTCAGTATAGTTTCATTC
1 T-TTCAATTTTCAGTATAGTTTCATTC
39383587 TTTCAATTT
1 TTTCAATTT
39383596 ACAACAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 8 0.24
27 9 0.27
28 16 0.48
ACGTcount: A:0.24, C:0.14, G:0.06, T:0.56
Consensus pattern (26 bp):
TTTCAATTTTCAGTATAGTTTCATTC
Found at i:39386569 original size:90 final size:88
Alignment explanation
Indices: 39386400--39386622 Score: 254
Period size: 90 Copynumber: 2.5 Consensus size: 88
39386390 TTAAGGATGC
* * * * * *
39386400 AAAAAGCTCTCAAAATTTTTCAAAAAAGTAATTAAGCCCTACTTTTTTTTACACTTATTTTGGTA
1 AAAAAGCCCTCAAAACTTTTCAAAAAAGCAATTAAGCCTTACTTTTTTTTACACTCAATTTGGTA
* *
39386465 TTTGAATTTTCAAAATGCATAAA
66 CTTGAACTTTCAAAATGCATAAA
* *
39386488 AAAAAGCCCTCAAACCTTTTCAAGAAAAGCAATTAAGCTCTTACTTTTTTTTGCACTCAATTTGG
1 AAAAAGCCCTCAAAACTTTTCAA-AAAAGCAATTAAGC-CTTACTTTTTTTTACACTCAATTTGG
*
39386553 TACTT-AAGCTTTCAAAATGCATCAA
64 TACTTGAA-CTTTCAAAATGCATAAA
* * * *
39386578 AAAGA-CCCT-AAAACATTTAAAAAAAACAATTAAGCCCTTACTTTT
1 AAAAAGCCCTCAAAACTTTTCAAAAAAGCAATTAAG-CCTTACTTTT
39386623 ATTAAAAATT
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
87 21 0.18
88 30 0.26
89 19 0.17
90 45 0.39
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (88 bp):
AAAAAGCCCTCAAAACTTTTCAAAAAAGCAATTAAGCCTTACTTTTTTTTACACTCAATTTGGTA
CTTGAACTTTCAAAATGCATAAA
Found at i:39386745 original size:20 final size:20
Alignment explanation
Indices: 39386715--39386787 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 20
39386705 TATTTAAAAT
*
39386715 TAAAAAA-ATATAAAAATCG
1 TAAAAAATATATAAAAATTG
*
39386734 TAAAAAATATAT-AAAATTT
1 TAAAAAATATATAAAAATTG
* *
39386753 TATAAAATTTTATAAAAATTG
1 TA-AAAAATATATAAAAATTG
39386774 TAAAAAAT-TATAAA
1 TAAAAAATATATAAA
39386788 TATAAAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 20 0.44
20 17 0.38
21 8 0.18
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAAAATATATAAAAATTG
Done.