Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 104 of 145
Found at i:34911508 original size:40 final size:40
Alignment explanation
Indices: 34911457--34911540 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
34911447 TTAAGTTAAA
*
34911457 TTTT-CTCCTACCCTAGCCATTCTCCTCCCTTCTCTTATT
1 TTTTACTCCTACCCTAGCCATTCTCCTCCCCTCTCTTATT
34911496 TTTTACTCCTACCCTAGCCATTCTCCTCCCCTCTCTTATT
1 TTTTACTCCTACCCTAGCCATTCTCCTCCCCTCTCTTATT
34911536 TTTTA
1 TTTTA
34911541 TCTCAAAGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.12, C:0.39, G:0.02, T:0.46
Consensus pattern (40 bp):
TTTTACTCCTACCCTAGCCATTCTCCTCCCCTCTCTTATT
Found at i:34913369 original size:11 final size:12
Alignment explanation
Indices: 34913353--34913381 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34913343 TTATTAACGG
34913353 TGAATG-ATATT
1 TGAATGAATATT
34913364 TGAATGAATATT
1 TGAATGAATATT
34913376 TGAATG
1 TGAATG
34913382 TTCTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:34920716 original size:44 final size:42
Alignment explanation
Indices: 34920618--34920718 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 42
34920608 ACCAACATCT
* * *
34920618 CAGACGTGGTCTTACATGTAACCACATATTGATGCCACTATC
1 CAGACGTGGTCTTACACGTAACCACAAATCGATGCCACTATC
*
34920660 CTAGACAG-GGTCTTACACGTAAGTCACAAATCGATGCCAACGT-TC
1 C-AGAC-GTGGTCTTACACGTAA-CCACAAATCGATGCC-AC-TATC
34920705 CAGACGTGGTCTTA
1 CAGACGTGGTCTTA
34920719 GATGATAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
42 1 0.02
43 18 0.37
44 24 0.49
45 5 0.10
46 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
CAGACGTGGTCTTACACGTAACCACAAATCGATGCCACTATC
Found at i:34928015 original size:44 final size:43
Alignment explanation
Indices: 34927908--34928017 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 43
34927898 TCGTACAACA
* * *
34927908 CCAACATCCCAGGCGTGGTCTTACATGTAACCACATATCGATG
1 CCAACATCCCAGACGTGGTCTTACACGTAACCACAAATCGATG
* ** *
34927951 CC-ACTATCCTAGACAAGGTCTTACACGTAAGTCACAAATCGATG
1 CCAAC-ATCCCAGACGTGGTCTTACACGTAA-CCACAAATCGATG
*
34927995 CCAACGTCCCAGACGTGGTCTTA
1 CCAACATCCCAGACGTGGTCTTA
34928018 GATGATAACA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.04
43 22 0.42
44 27 0.51
45 2 0.04
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
CCAACATCCCAGACGTGGTCTTACACGTAACCACAAATCGATG
Found at i:34940418 original size:26 final size:26
Alignment explanation
Indices: 34940385--34940437 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
34940375 ATATGTATAC
* **
34940385 ATACATATATATACTAAAATAAATAT
1 ATACATATAGATAAAAAAATAAATAT
*
34940411 ATACATATAGATAAAAAAATACATAT
1 ATACATATAGATAAAAAAATAAATAT
34940437 A
1 A
34940438 AATAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (26 bp):
ATACATATAGATAAAAAAATAAATAT
Found at i:34940424 original size:18 final size:18
Alignment explanation
Indices: 34940391--34940465 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
34940381 ATACATACAT
34940391 ATATATAC-TA-AAATAA
1 ATATATACATATAAATAA
*
34940407 ATATATACATATAGATAA
1 ATATATACATATAAATAA
* *
34940425 AAAAATACATATAAATAA
1 ATATATACATATAAATAA
* * *
34940443 AAATA-AAATAAAAATAA
1 ATATATACATATAAATAA
*
34940460 TTATAT
1 ATATAT
34940466 TATACTACAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 8 0.17
17 15 0.32
18 24 0.51
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (18 bp):
ATATATACATATAAATAA
Found at i:34942393 original size:173 final size:172
Alignment explanation
Indices: 34942036--34942416 Score: 412
Period size: 173 Copynumber: 2.2 Consensus size: 172
34942026 AATTTGCTAT
* * * *
34942036 CTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
1 CTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAAACGCGATCTGCTATCTACAACTTCA
* * * * * *
34942101 GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTACCATTTCAGGGAGGTAGGATTTGCCATCT
66 GAGAGATAAGATCCAAGGTTGTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGCCAGCT
* * * *
34942166 TTAGTCTGCCTCGCTGCAACTTTAGGAGGATAAGACTTGCTTA
131 TAAATCTGCCTCGC-GCAACTTTAGGAAGATAAGACTTGCGTA
* *
34942209 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAACGGGATCTGCTATCTACAACTTCA
1 CTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAAACGCGATCTGCTATCTACAACTTCA
* * ** ***
34942274 GAGAGATAAGTTCCAAGGTTGTAATCCGCTCCGCTGTAACTTCAGGGAGATAGGATTTGGTGGCT
66 GAGAGATAAGATCCAAGGTTGTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGCCAGCT
* * *
34942339 TAAATCTGCTTC-C-C-ACTATCTTGGAAAGATAAGATTTGCCGT-
131 TAAATCTGCCTCGCGCAACT-T-TAGG-AAGATAAGACTTG-CGTA
* **
34942381 CTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGA
1 CTTAG-TCTGCTCCACTACAACTTCAGGGAGATAAGA
34942417 TCTACAATCT
Statistics
Matches: 173, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
169 3 0.02
170 2 0.01
171 3 0.02
172 28 0.16
173 137 0.79
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (172 bp):
CTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAAACGCGATCTGCTATCTACAACTTCA
GAGAGATAAGATCCAAGGTTGTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGCCAGCT
TAAATCTGCCTCGCGCAACTTTAGGAAGATAAGACTTGCGTA
Found at i:34942412 original size:132 final size:131
Alignment explanation
Indices: 34942301--34942855 Score: 748
Period size: 132 Copynumber: 4.2 Consensus size: 131
34942291 GTTGTAATCC
* * *
34942301 GCTCCGCTGTAACTTCAGGGAGA-TAGGATTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
1 GCTCCGCTGT-AC-TCAGGGAGACAAGG-CTTGGTAGCTTAAATCTGCTTCCCACTATCTTGGAA
* *
34942365 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
63 AGATAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
34942430 ACCT
128 ACCT
* * * * * *
34942434 TCTCTGCTGCTACTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCGCTATTTTGGAAAG
1 GCTCCGCTG-TACTCAGGGAGACAAGGCTTGGTAGCTTAAATCTGCTTCCCACTATCTTGGAAAG
* * * * *
34942499 ATAAGATTTGCTGTCTTTGATCTGCTCCACTACTGCTTAGGGATATAGGATCTACAA-CATTC-T
65 ATAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC-TTCAA
34942562 CC-
129 CCT
* *
34942564 GCT--GCTG--CTCAGGGAGACAAGGCTTTGTAGCTTAAATTTGCTTCCCACTATCTTGGAAAGA
1 GCTCCGCTGTACTCAGGGAGACAAGGCTTGGTAGCTTAAATCTGCTTCCCACTATCTTGGAAAGA
34942625 TAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
66 TAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
34942690 T
131 T
* ** *
34942691 ACTCCGCTGTTGGTCAGGGAGACAAGGCTTGGTAGCTTAAATCTACTTCCCACTATCTTGGAAAG
1 GCTCCGCTG-TACTCAGGGAGACAAGGCTTGGTAGCTTAAATCTGCTTCCCACTATCTTGGAAAG
34942756 ATAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
65 ATAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
34942821 CT
130 CT
* * * * *
34942823 TCTCCGCTACTTCTCAGAGAGACAGGGCTTGGT
1 GCTCCGCT-GTACTCAGGGAGACAAGGCTTGGT
34942856 GTTTCACCGG
Statistics
Matches: 375, Mismatches: 35, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
125 103 0.27
126 3 0.01
127 2 0.01
128 4 0.01
129 4 0.01
130 2 0.01
131 3 0.01
132 241 0.64
133 12 0.03
134 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
GCTCCGCTGTACTCAGGGAGACAAGGCTTGGTAGCTTAAATCTGCTTCCCACTATCTTGGAAAGA
TAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
T
Found at i:34942671 original size:44 final size:44
Alignment explanation
Indices: 34942622--34942805 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
34942612 TATCTTGGAA
* *
34942622 AGATAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGACTTGCCGTCTTTAATCTACTCCACTACTGCTTAGGG
* ** * * * ** * *
34942666 AGATAAGA-TCTACAATCTTCAACCTACTCCGCTGTTGGTCAGGG
1 AGATAAGACT-TGCCGTCTTTAATCTACTCCACTACTGCTTAGGG
* * * *
34942710 AGACAAGGCTTG--GTAGCTTAAATCTACTTCCCACTA-T-CTT-GGAA
1 AGATAAGACTTGCCGT--CTTTAATCTAC-T-CCACTACTGCTTAGG-G
* *
34942754 AGATAAGACTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGACTTGCCGTCTTTAATCTACTCCACTACTGCTTAGGG
34942798 AGATAAGA
1 AGATAAGA
34942806 TCTACAATCT
Statistics
Matches: 99, Mismatches: 29, Indels: 24
0.65 0.19 0.16
Matches are distributed among these distances:
42 7 0.07
43 5 0.05
44 76 0.77
45 5 0.05
46 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGACTTGCCGTCTTTAATCTACTCCACTACTGCTTAGGG
Found at i:34942774 original size:257 final size:257
Alignment explanation
Indices: 34942336--34942812 Score: 801
Period size: 257 Copynumber: 1.9 Consensus size: 257
34942326 GGATTTGGTG
*
34942336 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACT
1 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTCGATCTGCTCCACTACT
* *
34942401 GCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCTGCTGCTACTCAGAGAGACAAGGCTTGG
66 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGAGAGACAAGGCTTGG
* * * * * *
34942466 TGGCTTAAATCTGCTTCCCGCTATTTTGGAAAGATAAGATTTGCTGTCTTTGATCTGCTCCACTA
131 TAGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTTGATCTGCTCCACTA
* *
34942531 CTGCTTAGGGATATAGGATCTACAACATTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTA
196 CTGCTTAGGGAGATAAGATCTACAACATTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTA
* *
34942593 GCTTAAATTTGCTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTTGATCTGCTCCACTACT
1 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTCGATCTGCTCCACTACT
* ** *
34942658 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGGTCAGGGAGACAAGGCTTGG
66 GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGAGAGACAAGGCTTGG
34942723 TAGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTTGATCTGCTCCACTA
131 TAGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTTGATCTGCTCCACTA
34942788 CTGCTTAGGGAGATAAGATCTACAA
196 CTGCTTAGGGAGATAAGATCTACAA
34942813 TCTTCAACCT
Statistics
Matches: 203, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
257 203 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (257 bp):
GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTCGATCTGCTCCACTACT
GCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGAGAGACAAGGCTTGG
TAGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTTGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTACAACATTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTA
Found at i:34944820 original size:90 final size:91
Alignment explanation
Indices: 34944648--34944833 Score: 349
Period size: 90 Copynumber: 2.1 Consensus size: 91
34944638 TCTGCTATTG
34944648 TGCTGTTGTTCAAATTCAATGCATTGTCAGATATAATTCTTTCAGGCATTCCATGTCGACATATG
1 TGCTGTTGTTCAAATTCAATGCATTGTCAGATATAATTCTTTCAGGCATTCCATGTCGACATATG
34944713 ATCTCTTTCTTCAAAAACTTACTGAT
66 ATCTCTTTCTTCAAAAACTTACTGAT
34944739 TGCTG-TGTTCAAATTCAATGCATTGTCAGATATAATTCTTTCAGGCATTCCATGTCGACATATG
1 TGCTGTTGTTCAAATTCAATGCATTGTCAGATATAATTCTTTCAGGCATTCCATGTCGACATATG
34944803 ATCCTCTTTCTTC-AAAACTTACTGAT
66 AT-CTCTTTCTTCAAAAACTTACTGAT
34944829 TGCTG
1 TGCTG
34944834 ACTTCGTGAC
Statistics
Matches: 94, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
90 79 0.84
91 15 0.16
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (91 bp):
TGCTGTTGTTCAAATTCAATGCATTGTCAGATATAATTCTTTCAGGCATTCCATGTCGACATATG
ATCTCTTTCTTCAAAAACTTACTGAT
Found at i:34947426 original size:36 final size:36
Alignment explanation
Indices: 34947379--34947451 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
34947369 TTTGTGAGGT
34947379 AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
1 AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
34947415 AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
1 AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
34947451 A
1 A
34947452 AGTCCAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.15, C:0.30, G:0.14, T:0.41
Consensus pattern (36 bp):
AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
Found at i:34949090 original size:12 final size:12
Alignment explanation
Indices: 34949075--34949103 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
34949065 CTTTTTTACT
34949075 CCCCTATTATGA
1 CCCCTATTATGA
34949087 CCCCTATTATGA
1 CCCCTATTATGA
34949099 CCCCT
1 CCCCT
34949104 TTCATAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.41, G:0.07, T:0.31
Consensus pattern (12 bp):
CCCCTATTATGA
Found at i:34951049 original size:24 final size:24
Alignment explanation
Indices: 34951021--34951066 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34951011 ATCATTTTTT
*
34951021 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTGCTTTTGAA
* *
34951045 GCTGCTCCTGCATTTTCTTTTG
1 GCTGCTCATGCATTTGCTTTTG
34951067 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (24 bp):
GCTGCTCATGCATTTGCTTTTGAA
Found at i:34955580 original size:26 final size:26
Alignment explanation
Indices: 34955547--34955599 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
34955537 ATATGTATAC
* **
34955547 ATACATATATATACTAAAATAAATAT
1 ATACATATAGATAAAAAAATAAATAT
*
34955573 ATACATATAGATAAAAAAATACATAT
1 ATACATATAGATAAAAAAATAAATAT
34955599 A
1 A
34955600 AATAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (26 bp):
ATACATATAGATAAAAAAATAAATAT
Found at i:34955586 original size:18 final size:18
Alignment explanation
Indices: 34955553--34955627 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
34955543 ATACATACAT
34955553 ATATATAC-TA-AAATAA
1 ATATATACATATAAATAA
*
34955569 ATATATACATATAGATAA
1 ATATATACATATAAATAA
* *
34955587 AAAAATACATATAAATAA
1 ATATATACATATAAATAA
* * *
34955605 AAATA-AAATAAAAATAA
1 ATATATACATATAAATAA
*
34955622 TTATAT
1 ATATAT
34955628 TATACTACAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 8 0.17
17 15 0.32
18 24 0.51
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (18 bp):
ATATATACATATAAATAA
Found at i:34957045 original size:47 final size:47
Alignment explanation
Indices: 34956990--34957083 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
34956980 ATATATATAT
*
34956990 ATATATATATTATATATC-TTAAAAATATTATGTCTACTAATTGATTA
1 ATATATATATTATATATCTTTAAAAATATT-TGTCTACTAATGGATTA
34957037 ATATATATATTATATATCTTTAAAAATATTTGTCTACTAATGGATTA
1 ATATATATATTATATATCTTTAAAAATATTTGTCTACTAATGGATTA
34957084 CTCTATTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 34 0.76
48 11 0.24
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (47 bp):
ATATATATATTATATATCTTTAAAAATATTTGTCTACTAATGGATTA
Found at i:34958939 original size:3 final size:3
Alignment explanation
Indices: 34958924--34958981 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
34958914 ATAAATAGCT
*
34958924 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34958972 ATA ATA ATA A
1 ATA ATA ATA A
34958982 GACTAGATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34960343 original size:10 final size:10
Alignment explanation
Indices: 34960330--34960380 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
34960320 AAAATGTTTC
34960330 AAAAATATAA
1 AAAAATATAA
* *
34960340 AAAAATCTTA
1 AAAAATATAA
34960350 AAAAATA-AA
1 AAAAATATAA
34960359 TAAAAATATAA
1 -AAAAATATAA
*
34960370 AATAAT-TAA
1 AAAAATATAA
34960379 AA
1 AA
34960381 TTAATAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 6 0.18
10 26 0.76
11 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATATAA
Found at i:34960387 original size:30 final size:29
Alignment explanation
Indices: 34960330--34960390 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
34960320 AAAATGTTTC
34960330 AAAAATATAAAAAAATCTTAAAAAATAAAT
1 AAAAATATAAAAAAA-CTTAAAAAATAAAT
*
34960360 AAAAATATAAAATAA-TTAAAATTAATAAAT
1 AAAAATATAAAAAAACTTAAAA--AATAAAT
34960390 A
1 A
34960391 TTATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 6 0.21
30 22 0.79
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (29 bp):
AAAAATATAAAAAAACTTAAAAAATAAAT
Found at i:34961674 original size:25 final size:23
Alignment explanation
Indices: 34961653--34961696 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34961643 ATATTTTAGG
*
34961653 TCTGCTACTCTAGCACGTTTTTA
1 TCTGCTACCCTAGCACGTTTTTA
* *
34961676 TCTGTTGCCCTAGCACGTTTT
1 TCTGCTACCCTAGCACGTTTT
34961697 GGCTTTTTGG
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:0.14, C:0.27, G:0.16, T:0.43
Consensus pattern (23 bp):
TCTGCTACCCTAGCACGTTTTTA
Found at i:34966498 original size:6 final size:6
Alignment explanation
Indices: 34966484--34966517 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
34966474 TTGTGGAGGA
* *
34966484 ATGTAT ATGTGT ATGTAT ATGTAT ATGAAT ATGT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGT
34966518 GTTTCCTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (6 bp):
ATGTAT
Found at i:34971565 original size:38 final size:38
Alignment explanation
Indices: 34971514--34971586 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
34971504 AAGTCAACCT
*
34971514 AACTCGTGCAAAGTGAAAATTCTCTATAGAAATTCTCA
1 AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTCTCA
34971552 AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTC
1 AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTC
34971587 CCATAAGGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (38 bp):
AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTCTCA
Found at i:34972658 original size:34 final size:34
Alignment explanation
Indices: 34972618--34972697 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
34972608 ATATGTTCAT
*
34972618 ACAACCAATATGCCCAAAGGGCATCTCAATCACA
1 ACAACCAACATGCCCAAAGGGCATCTCAATCACA
34972652 ACAACCAACATGCCCAAAGGGCATCTCAATCACA
1 ACAACCAACATGCCCAAAGGGCATCTCAATCACA
*
34972686 AAAACCAACATG
1 ACAACCAACATG
34972698 TACAACCATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.44, C:0.33, G:0.11, T:0.12
Consensus pattern (34 bp):
ACAACCAACATGCCCAAAGGGCATCTCAATCACA
Found at i:34973357 original size:15 final size:16
Alignment explanation
Indices: 34973328--34973357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34973318 CAAACATGCT
34973328 TTAACACATTATCAAA
1 TTAACACATTATCAAA
34973344 TTAACACA-TATCAA
1 TTAACACATTATCAA
34973358 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:34990154 original size:12 final size:12
Alignment explanation
Indices: 34990137--34990161 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34990127 TGATTCACCA
34990137 ACTAGAACGTGG
1 ACTAGAACGTGG
34990149 ACTAGAACGTGG
1 ACTAGAACGTGG
34990161 A
1 A
34990162 AAGTTGAAGT
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (12 bp):
ACTAGAACGTGG
Found at i:34992007 original size:91 final size:92
Alignment explanation
Indices: 34991836--34992058 Score: 281
Period size: 91 Copynumber: 2.4 Consensus size: 92
34991826 ATTGGTGTAA
* * * * * *
34991836 AAAAAAACCCTCAAGCTTTTTCAAAAAAAGCAATGAAGCCTTTCCTTTTTTTTTTTTACTCTCAA
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTCC-TTTATTTTTTTACACTCAA
*
34991901 TTGAGCACTTGAACTTTCAAAATGCACC
65 TTGAGCACTTGAACTTTCAAAATGAACC
* * *
34991929 AAAAAGGCCCTCAAACTTCTTCAGAAAAAAGCAATTAAGCCTCTGC-TTATTTTTTT-CACTCAA
1 AAAAAGACCCTCAAACTTTTTCA-AAAAAAGCAATTAAGCCTCTCCTTTATTTTTTTACACTCAA
* * *
34991992 TTGGGTACTTGAACTTTCAAAATGAATC
65 TTGAGCACTTGAACTTTCAAAATGAACC
*
34992020 AAAAAGACCCTCAAAATTTTTC-AAAAAAGCAATTAAGCC
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCC
34992059 CCTGGTCTTA
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
89 17 0.15
91 49 0.43
92 9 0.08
93 19 0.17
94 19 0.17
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (92 bp):
AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTCCTTTATTTTTTTACACTCAAT
TGAGCACTTGAACTTTCAAAATGAACC
Found at i:34992115 original size:29 final size:25
Alignment explanation
Indices: 34992082--34992151 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 25
34992072 AAAATTAGAA
34992082 AAAAAGTTATAAAAATTATTAAATTTTAAT
1 AAAAA-TTATAAAAATTA-TAAA--TT-AT
*
34992112 AAAAATATAAAAAAATTATAAATTAT
1 AAAAAT-TATAAAAATTATAAATTAT
34992138 AAAAATTATAAAAA
1 AAAAATTATAAAAA
34992152 ATAAAAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
25 7 0.19
26 8 0.22
27 2 0.05
29 5 0.14
30 15 0.41
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (25 bp):
AAAAATTATAAAAATTATAAATTAT
Found at i:34992142 original size:27 final size:30
Alignment explanation
Indices: 34992092--34992152 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 30
34992082 AAAAAGTTAT
*
34992092 AAAAATTATTAAATTTTAATAAAAATATAA
1 AAAAATTATTAAATTATAATAAAAATATAA
*
34992122 AAAAATTA-TAAATTAT-A-AAAATTATAA
1 AAAAATTATTAAATTATAATAAAAATATAA
34992149 AAAA
1 AAAA
34992153 TAAAAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 13 0.45
28 1 0.03
29 7 0.24
30 8 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAAATTATTAAATTATAATAAAAATATAA
Found at i:34992152 original size:29 final size:30
Alignment explanation
Indices: 34992092--34992152 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
34992082 AAAAAGTTAT
* *
34992092 AAAAATTATTAAATTTTAATAAAAATATAA
1 AAAAATTATTAAATTATAATAAAAATAAAA
*
34992122 AAAAATTA-TAAATTATAA-AAATTATAAAA
1 AAAAATTATTAAATTATAATAAA-AATAAAA
34992151 AA
1 AA
34992153 TAAAAAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.11
29 16 0.59
30 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAAATTATTAAATTATAATAAAAATAAAA
Found at i:34992153 original size:10 final size:9
Alignment explanation
Indices: 34992082--34992151 Score: 63
Period size: 10 Copynumber: 7.6 Consensus size: 9
34992072 AAAATTAGAA
34992082 AAAAAGTTAT
1 AAAAA-TTAT
34992092 AAAAATTATT
1 AAAAATTA-T
**
34992102 AAATTTTAAT
1 AAAAATT-AT
*
34992112 AAAAATATAA
1 AAAAAT-TAT
34992122 AAAAATTAT
1 AAAAATTAT
34992131 --AAATTAT
1 AAAAATTAT
34992138 AAAAATTAT
1 AAAAATTAT
34992147 AAAAA
1 AAAAA
34992152 ATAAAAAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
7 7 0.14
9 17 0.35
10 23 0.47
11 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:34992155 original size:16 final size:16
Alignment explanation
Indices: 34992122--34992158 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
34992112 AAAAATATAA
**
34992122 AAAAATTATAAATTAT
1 AAAAATTATAAAAAAT
34992138 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
34992154 AAAAA
1 AAAAA
34992159 AACTGTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:34992210 original size:20 final size:21
Alignment explanation
Indices: 34992182--34992220 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
34992172 TATAGCTTTT
*
34992182 ATTGATTTT-AATTTTTTATA
1 ATTGATTTTCAAATTTTTATA
*
34992202 ATTGTTTTTCAAATTTTTA
1 ATTGATTTTCAAATTTTTA
34992221 ATAAAATCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (21 bp):
ATTGATTTTCAAATTTTTATA
Found at i:34992330 original size:89 final size:89
Alignment explanation
Indices: 34992229--34992423 Score: 234
Period size: 89 Copynumber: 2.2 Consensus size: 89
34992219 TAATAAAATC
* * * * *
34992229 AGGGACTTAATTACTTTTTTTGGAAAA-TTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAG
1 AGGGACTTAATTACTTTTTTT-GAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAA
* * * *
34992293 TATCCAATTGAGTGTAAAAAAAAGT
65 TACCCAAATGAATGCAAAAAAAAGT
* * *
34992318 AGGGGCTTAATTACTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATATATTTTAAAAGTTTAAAT
1 AGGGACTTAATTACTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAAT
34992383 ACCCAAATGAATGCAAAAAAAA--
66 ACCCAAATGAATGCAAAAAAAAGT
**
34992405 AAAGACTTAATTACTTTTT
1 AGGGACTTAATTACTTTTT
34992424 CTTTTTTGAA
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
87 16 0.18
88 5 0.06
89 69 0.77
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (89 bp):
AGGGACTTAATTACTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAAT
ACCCAAATGAATGCAAAAAAAAGT
Found at i:34998863 original size:13 final size:13
Alignment explanation
Indices: 34998845--34998869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34998835 ATCAAATTTG
34998845 TATGTACTCTTTA
1 TATGTACTCTTTA
34998858 TATGTACTCTTT
1 TATGTACTCTTT
34998870 CACTAATAAA
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:34999392 original size:29 final size:29
Alignment explanation
Indices: 34999359--34999426 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
34999349 AACAAATGCA
34999359 ACAATTTCCAGTTTCATTGAAAACAGCAG
1 ACAATTTCCAGTTTCATTGAAAACAGCAG
*
34999388 ACAATTTCCAGTTTCATTGAAAACTGCAG
1 ACAATTTCCAGTTTCATTGAAAACAGCAG
34999417 ACAATTTCCA
1 ACAATTTCCA
34999427 TTGCAACAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (29 bp):
ACAATTTCCAGTTTCATTGAAAACAGCAG
Found at i:35000540 original size:15 final size:15
Alignment explanation
Indices: 35000520--35000548 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35000510 GCAATACAAA
35000520 CATACAAAACAGAAC
1 CATACAAAACAGAAC
35000535 CATACAAAACAGAA
1 CATACAAAACAGAA
35000549 ACCACAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.24, G:0.07, T:0.07
Consensus pattern (15 bp):
CATACAAAACAGAAC
Found at i:35002854 original size:52 final size:52
Alignment explanation
Indices: 35002796--35002900 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
35002786 GAACTAAACC
* *
35002796 CCCTCGAGTGCTAAATTTCTTTCTCAATTAACCAAAAGCAACATTACTTAAA
1 CCCTCGAGTGCTAAATTTCTTTCTCAAATAACCAAAAGCAACATCACTTAAA
* *
35002848 CCCTCGAGTGCTAAATTTCTTTCTCAAATAACCAATAGCAACATCATTTAAA
1 CCCTCGAGTGCTAAATTTCTTTCTCAAATAACCAAAAGCAACATCACTTAAA
35002900 C
1 C
35002901 TTGCATTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (52 bp):
CCCTCGAGTGCTAAATTTCTTTCTCAAATAACCAAAAGCAACATCACTTAAA
Found at i:35003536 original size:16 final size:16
Alignment explanation
Indices: 35003515--35003551 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
35003505 TTCACAATAT
35003515 TTACATTTAGCCTTGC
1 TTACATTTAGCCTTGC
35003531 TTACATTTAGCCTTGC
1 TTACATTTAGCCTTGC
35003547 TTACA
1 TTACA
35003552 CCCTCACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTACATTTAGCCTTGC
Found at i:35004918 original size:21 final size:21
Alignment explanation
Indices: 35004893--35004933 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35004883 GGACTTGAGA
35004893 AATTTTAGATTAGGGATTTTC
1 AATTTTAGATTAGGGATTTTC
* *
35004914 AATTTTGGGTTAGGGATTTT
1 AATTTTAGATTAGGGATTTT
35004934 TGAGTCTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
AATTTTAGATTAGGGATTTTC
Found at i:35016520 original size:2 final size:2
Alignment explanation
Indices: 35016513--35016543 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35016503 TGAAAATTGA
35016513 AT 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 AT A
35016544 ACCTAGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35017199 original size:18 final size:18
Alignment explanation
Indices: 35017164--35017203 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35017154 TGGTGGACGG
* **
35017164 TTTAATTTTTTATTTTAT
1 TTTAATTTTATAAGTTAT
35017182 TTTAATTTTATAAGTTAT
1 TTTAATTTTATAAGTTAT
35017200 TTTA
1 TTTA
35017204 TTATTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTAATTTTATAAGTTAT
Found at i:35017242 original size:3 final size:3
Alignment explanation
Indices: 35017234--35017277 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
35017224 GGTTAAAAAT
*
35017234 ATA ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35017278 TAAAGTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35021383 original size:3 final size:3
Alignment explanation
Indices: 35021375--35021409 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
35021365 TGCTTTCAAA
*
35021375 AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
35021410 AGTGTGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:35023872 original size:11 final size:11
Alignment explanation
Indices: 35023851--35023881 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
35023841 TTATAAATTT
35023851 ATTAATATTTAA
1 ATTAAT-TTTAA
35023863 ATTAATTTTAA
1 ATTAATTTTAA
35023874 ATTAATTT
1 ATTAATTT
35023882 AATGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTAATTTTAA
Found at i:35037733 original size:13 final size:13
Alignment explanation
Indices: 35037696--35037736 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
35037686 TTTTGCTTTA
35037696 CTGCTTTGCTCTG
1 CTGCTTTGCTCTG
35037709 CT--TTGTGCCTCTG
1 CTGCTT-TG-CTCTG
35037722 CTGCTTTGCTCTG
1 CTGCTTTGCTCTG
35037735 CT
1 CT
35037737 TTGCTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.08
12 2 0.08
13 16 0.67
14 2 0.08
15 2 0.08
ACGTcount: A:0.00, C:0.32, G:0.22, T:0.46
Consensus pattern (13 bp):
CTGCTTTGCTCTG
Found at i:35040752 original size:18 final size:18
Alignment explanation
Indices: 35040729--35040768 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35040719 GGAAATGATA
*
35040729 TTCACATTTTAAAGGATG
1 TTCACATTTCAAAGGATG
*
35040747 TTCACATTTCAAATGATG
1 TTCACATTTCAAAGGATG
35040765 TTCA
1 TTCA
35040769 AATTGATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (18 bp):
TTCACATTTCAAAGGATG
Found at i:35041366 original size:72 final size:72
Alignment explanation
Indices: 35041197--35041433 Score: 313
Period size: 72 Copynumber: 3.3 Consensus size: 72
35041187 CAATGCTAAA
* *
35041197 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTAGATATTGAATTTATGTTCTACTTA--TAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGCTTTTTAGATATTGAATTTATGTTCTACTTATTTAT
35041260 GTGTAAT
66 GTGTAAT
* *
35041267 CTAGTTTTATCAATGGCTGTTTATGTTTGCTTTTTAGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGCTTTTTAGATATTGAATTTATGTTCTACTTATTTAT
35041332 GTGTAAT
66 GTGTAAT
* * * * *
35041339 CTAGTTTTATTAGTAGTTGTTTATGTTT-CGTCTTTGGATATTAAATTTATGTTCTACTTATTTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGC-TTTTTAGATATTGAATTTATGTTCTACTTATTTA
* *
35041403 TACT-AAAT
65 T-GTGTAAT
*
35041411 -TAATTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
35041434 TTATGATTTT
Statistics
Matches: 147, Mismatches: 16, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
70 56 0.38
71 21 0.14
72 69 0.47
73 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGCTTTTTAGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:35041449 original size:142 final size:142
Alignment explanation
Indices: 35041197--35041458 Score: 323
Period size: 142 Copynumber: 1.8 Consensus size: 142
35041187 CAATGCTAAA
* * * *
35041197 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTAGATATTGAATTTATGTTCTACTTATATGT
1 CTAGTTTTATCAATAGTTATTTATGTTTCGTCTTTAGATATTAAATTTATGTTCTACTTATATAT
* * * * **
35041262 GTAATCTAGTTTTATCAATGGCTGTTTATGTTTGCTTTTTAGATATTGAATTTATGTTCTACTTA
66 CTAATCTAATTTTATCAATAGCTGTTTATGTTTGCATTTTAGATATAAAATTTATGTTCTACTTA
35041327 TTTATGTGTAAT
131 TTTATGTGTAAT
* * * * *
35041339 CTAGTTTTATTAGTAGTTGTTTATGTTTCGTCTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTATTTATGTTTCGTCTTTAGATATTAAATTTATGTTCTACTTATATAT
* *
35041404 ACTAAAT-TAATTTTATCAATAGTTGTTTAT-TTATG-ATTTTGGATATAAAATTTAT
66 -CT-AATCTAATTTTATCAATAGCTGTTTATGTT-TGCATTTTAGATATAAAATTTAT
35041459 TCATAGGTGA
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
142 74 0.74
143 23 0.23
144 3 0.03
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.54
Consensus pattern (142 bp):
CTAGTTTTATCAATAGTTATTTATGTTTCGTCTTTAGATATTAAATTTATGTTCTACTTATATAT
CTAATCTAATTTTATCAATAGCTGTTTATGTTTGCATTTTAGATATAAAATTTATGTTCTACTTA
TTTATGTGTAAT
Found at i:35043150 original size:17 final size:18
Alignment explanation
Indices: 35043101--35043150 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
35043091 CATTTTAAAA
35043101 TAAAATAATACAAATTTGT
1 TAAAATAATAC-AATTTGT
*
35043120 TAAAAGCAAT--AATTT-T
1 TAAAA-TAATACAATTTGT
35043136 TAAAATAATACAATT
1 TAAAATAATACAATT
35043151 GTGTCAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
15 3 0.12
16 6 0.23
17 9 0.35
19 5 0.19
20 3 0.12
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (18 bp):
TAAAATAATACAATTTGT
Found at i:35047621 original size:22 final size:23
Alignment explanation
Indices: 35047591--35047637 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
35047581 AAGTTGGTTA
35047591 TTTACATGTTTAGGG-CTTAGGG
1 TTTACATGTTTAGGGTCTTAGGG
* *
35047613 TTTAGATGTTTAGGGTTTTAGGG
1 TTTACATGTTTAGGGTCTTAGGG
35047636 TT
1 TT
35047638 GGGATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (23 bp):
TTTACATGTTTAGGGTCTTAGGG
Found at i:35047726 original size:28 final size:29
Alignment explanation
Indices: 35047695--35047762 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 29
35047685 GATTTTGGAG
*
35047695 AAAATAAATTGGGTTTTAGGA-ATTTTAA
1 AAAATAAATTAGGTTTTAGGATATTTTAA
* * *
35047723 AAAATAAATTAGGTTTTATGATTTTTTTA
1 AAAATAAATTAGGTTTTAGGATATTTTAA
35047752 AAAATAAATTA
1 AAAATAAATTA
35047763 AATTAGGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.43
Consensus pattern (29 bp):
AAAATAAATTAGGTTTTAGGATATTTTAA
Found at i:35047831 original size:28 final size:27
Alignment explanation
Indices: 35047784--35047838 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
35047774 ATTGTTTATA
35047784 AAAAATAAATTAGAGCTTAGGGATTTTT
1 AAAAATAAATTAGAGCTTAGGG-TTTTT
* * *
35047812 AAAAATAAATTTGTGTTTAGGGTTTTT
1 AAAAATAAATTAGAGCTTAGGGTTTTT
35047839 GTAATAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (27 bp):
AAAAATAAATTAGAGCTTAGGGTTTTT
Found at i:35048136 original size:124 final size:127
Alignment explanation
Indices: 35047910--35048178 Score: 363
Period size: 125 Copynumber: 2.2 Consensus size: 127
35047900 TTTTGTTCAG
**
35047910 TCAGCAAAAGTACT-AAAAAAGCTCCCAGCTGGATGCTATTTTTCTAAAGTAGTTTCTAAAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTATTTTTCTAAAGTAGTTTCTAAAAAAA
* * * *
35047974 TAATTTTGAGAAGATGATTCTGAAAAATAGGGTCAAAAA-TGCTTTAAGCATGATGCACT-T
66 TAATTTTGAGAAGATGATTCTAAAAAATAGGGTCAAAAAGCGCTTCAAGCAGGATGCACTGT
* * *
35048034 TCAGCAAAAATACTGAAAAAAGCTCCCA-CATGGACATTATTTTTCTACAGTAGTTTCT-AAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCAGC-TGGACACTATTTTTCTAAAGTAGTTTCTAAAAAA
* * *
35048097 ATAATTTTGAGAAGATGGTTCTAAAAAATTAGTGT-AAAAAGCGCTTCAAGCAGGATGTACTGT
65 ATAATTTTGAGAAGATGATTCTAAAAAA-TAGGGTCAAAAAGCGCTTCAAGCAGGATGCACTGT
35048160 T-AGCAAAAGTACTGAAAAA
1 TCAGCAAAAGTACTGAAAAA
35048179 TGGAAGAGTG
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
124 50 0.39
125 75 0.59
126 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (127 bp):
TCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTATTTTTCTAAAGTAGTTTCTAAAAAAA
TAATTTTGAGAAGATGATTCTAAAAAATAGGGTCAAAAAGCGCTTCAAGCAGGATGCACTGT
Found at i:35049211 original size:59 final size:59
Alignment explanation
Indices: 35049092--35049223 Score: 171
Period size: 59 Copynumber: 2.2 Consensus size: 59
35049082 TCTATTACCT
* *
35049092 TATTTAAAAGAACTTATATTTTATTAAATAGGACAAAATATAAAAACAATTTGTATAAATA
1 TATTTAAAA-AAATTATATTTTATTAAATA-GACAAAATATAAAAACAATTTGTACAAATA
* *
35049153 TATTTAAAACAAATTCTATTTTATTAAAT-GA-AATAATATAAAAACAGTTTGTACAAATA
1 TATTTAAAA-AAATTATATTTTATTAAATAGACAA-AATATAAAAACAATTTGTACAAATA
35049212 TA-TTAAAAAAAT
1 TATTTAAAAAAAT
35049224 AAATACATGT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
57 4 0.06
58 8 0.12
59 27 0.42
61 26 0.40
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (59 bp):
TATTTAAAAAAATTATATTTTATTAAATAGACAAAATATAAAAACAATTTGTACAAATA
Found at i:35051363 original size:12 final size:11
Alignment explanation
Indices: 35051348--35051386 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
35051338 AGTTTTTTTG
35051348 AGAAATTTAGAA
1 AGAAATTTAG-A
35051360 AGAAATTTAGA
1 AGAAATTTAGA
35051371 AGAAA-TTA-A
1 AGAAATTTAGA
35051380 AGAAATT
1 AGAAATT
35051387 GTATGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.23
10 4 0.15
11 6 0.23
12 10 0.38
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (11 bp):
AGAAATTTAGA
Found at i:35051704 original size:29 final size:30
Alignment explanation
Indices: 35051646--35051706 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
35051636 TTTTGGCCCA
** *
35051646 TTCCGATAAATAAAGTTTAAAGTGGCCCAT
1 TTCCGATAAATAAAGTGGAAAGTGGACCAT
35051676 TTCCG-TAAATAAAGTAGGAAA-TGGACCAT
1 TTCCGATAAATAAAGT-GGAAAGTGGACCAT
35051705 TT
1 TT
35051707 TTAGTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (30 bp):
TTCCGATAAATAAAGTGGAAAGTGGACCAT
Found at i:35056596 original size:1 final size:1
Alignment explanation
Indices: 35056548--35056577 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
35056538 GGAACTTTCC
35056548 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35056578 CCAAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:35056602 original size:1 final size:1
Alignment explanation
Indices: 35056592--35056623 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
35056582 AATATTTGGA
*
35056592 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35056624 GCAGAGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:35061768 original size:107 final size:108
Alignment explanation
Indices: 35061572--35061787 Score: 425
Period size: 107 Copynumber: 2.0 Consensus size: 108
35061562 TATTAATTTT
35061572 TTTATATAATTTTTAAATATATATATAATACATTGAAAATATTAAAAACATTAAAATAAATGTTT
1 TTTATATAATTTTTAAATATATATATAATACATTGAAAATATTAAAAACATTAAAATAAATGTTT
35061637 CTCAACAAATTGAAATTAAATTAAAAAAAACTTTATACTTAAA
66 CTCAACAAATTGAAATTAAATTAAAAAAAACTTTATACTTAAA
35061680 TTTATATAA-TTTTAAATATATATATAATACATTGAAAATATTAAAAACATTAAAATAAATGTTT
1 TTTATATAATTTTTAAATATATATATAATACATTGAAAATATTAAAAACATTAAAATAAATGTTT
35061744 CTCAACAAATTGAAATTAAATTAAAAAAAACTTTATACTTAAA
66 CTCAACAAATTGAAATTAAATTAAAAAAAACTTTATACTTAAA
35061787 T
1 T
35061788 AATACAAAAA
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 99 0.92
108 9 0.08
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (108 bp):
TTTATATAATTTTTAAATATATATATAATACATTGAAAATATTAAAAACATTAAAATAAATGTTT
CTCAACAAATTGAAATTAAATTAAAAAAAACTTTATACTTAAA
Found at i:35066976 original size:40 final size:40
Alignment explanation
Indices: 35066932--35067019 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 40
35066922 GCTTTTAGAA
*
35066932 GCGCTAGGAAAAACGCCGCTAAAGA-CAAGGACCTTTAGCG
1 GCGCTAGCAAAAACGCCGCTAAAGAGC-AGGACCTTTAGCG
** *
35066972 GCGCTTTTCTCACAAACGCCGCTAAAGAGCAGGACCTTTAGCG
1 GCGC---TAGCAAAAACGCCGCTAAAGAGCAGGACCTTTAGCG
35067015 GCGCT
1 GCGCT
35067020 TTTCCCACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
40 5 0.12
43 34 0.85
44 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (40 bp):
GCGCTAGCAAAAACGCCGCTAAAGAGCAGGACCTTTAGCG
Found at i:35067107 original size:129 final size:129
Alignment explanation
Indices: 35066964--35067409 Score: 506
Period size: 129 Copynumber: 3.5 Consensus size: 129
35066954 AGACAAGGAC
*
35066964 CTTTAGCGGCGCTTTTCTC-ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCCAC
1 CTTTAGCGGCGC-TTTCTCGACAAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
35067028 AAACGCCGCTAAAGAACCTGATCTTTAGAGGCGCTTTCTCCACAAACGCGGCTAAAGAACCTAAT
65 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTAAT
* * ** * *
35067093 CTTTAGCGGCGCTTTCTCTACAAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTTTCCACA
1 CTTTAGCGGCGCTTTCTCGACAAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTTTCCCACA
* **
35067158 AACGCCGCTAAAGAACCTG-TGCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAATCTGGT
66 AACGCCGCTAAAGAACCTGAT-CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTAAT
* * * * *** * *
35067222 CTTTAACGGCGCTTTCTCCACAAACGCCGCAAAAGACCCCTATCTTTAGCGGCAC-TTTCTCCAC
1 CTTTAGCGGCGCTTTCTCGACAAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTTTC-CCAC
* * * * * **
35067286 AAACGCCGCAAAAGACCCTCATCTTTAGCGGCGCTTTCTACACAAACGCCGCTAAAGACCCTTCT
65 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTAAT
* ** * * *
35067351 CTTTAGTGGCATTTTTGTCGA-AAACGCCGCTAAAG-GCCAAGACCTTTAGTGGCGTTTTT
1 CTTTAGCGGC-GCTTTCTCGACAAACGCCGCTAAAGAG-CAAGACCTTTAGCGGCGCTTTT
35067410 TTTTAAAACG
Statistics
Matches: 269, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
128 10 0.04
129 249 0.93
130 10 0.04
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (129 bp):
CTTTAGCGGCGCTTTCTCGACAAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTTTCCCACA
AACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTAAT
Found at i:35067347 original size:43 final size:43
Alignment explanation
Indices: 35066942--35067343 Score: 526
Period size: 43 Copynumber: 9.3 Consensus size: 43
35066932 GCGCTAGGAA
** *
35066942 AAACGCCGCTAAAG-ACAAGGACCTTTAGCGGCGCTTT-TCTCAC
1 AAACGCCGCTAAAGAAC-CTGATCTTTAGCGGCGCTTTCTC-CAC
* ** *
35066985 AAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTT-TCCCAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCT-CCAC
*
35067028 AAACGCCGCTAAAGAACCTGATCTTTAGAGGCGCTTTCTCCAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
* * *
35067071 AAACGCGGCTAAAGAACCTAATCTTTAGCGGCGCTTTCTCTAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
*
35067114 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
35067157 AAACGCCGCTAAAGAACCTG-TGCTTTAGCGGCGCTTTCTCCAC
1 AAACGCCGCTAAAGAACCTGAT-CTTTAGCGGCGCTTTCTCCAC
* * *
35067200 AAACGCCGCTAAAGAATCTGGTCTTTAACGGCGCTTTCTCCAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
* * *
35067243 AAACGCCGCAAAAGACCCCT-ATCTTTAGCGGCACTTTCTCCAC
1 AAACGCCGCTAAAGA-ACCTGATCTTTAGCGGCGCTTTCTCCAC
* * * *
35067286 AAACGCCGCAAAAGACCCTCATCTTTAGCGGCGCTTTCTACAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
35067329 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
35067344 CCCTTCTCTT
Statistics
Matches: 326, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
42 5 0.02
43 315 0.97
44 6 0.02
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
Found at i:35067376 original size:43 final size:41
Alignment explanation
Indices: 35067007--35067385 Score: 184
Period size: 43 Copynumber: 8.8 Consensus size: 41
35066997 AGAGCAGGAC
* ** * * *
35067007 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCCT-CT
* * * * * * * *
35067050 CTTTAGAGGCGCTTTCTCCACAAACGCGGCTAAAGAACCTAAT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCCT-CT
** * * * *
35067093 CTTTAGCGGCGCTTTCTCTACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGCATTTTTTC-ACAAACGCCGCAAAAGACCCT-CT
* * * * *
35067136 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACCTGT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCCTCT
* * * * ** *
35067178 GCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAATCTGGT
1 -CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCCT-CT
* * * * *
35067222 CTTTAACGGCGCTTTCTCCACAAACGCCGCAAAAGACCCCTAT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGA-CCCTCT
* *
35067265 CTTTAGCGGCACTTTCTCCACAAACGCCGCAAAAGACCCTCAT
1 CTTTAGCGGCA-TTTTTTCACAAACGCCGCAAAAGACCCTC-T
* * * *
35067308 CTTTAGCGGCGCTTTCTACACAAACGCCGCTAAAGACCCTTCT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCC-TCT
* *
35067351 CTTTAGTGGCATTTTTGTCGA-AAACGCCGCTAAAG
1 CTTTAGCGGCATTTTT-TC-ACAAACGCCGCAAAAG
35067386 GCCAAGACCT
Statistics
Matches: 290, Mismatches: 35, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
42 12 0.04
43 267 0.92
44 11 0.04
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTTCACAAACGCCGCAAAAGACCCTCT
Found at i:35067514 original size:21 final size:21
Alignment explanation
Indices: 35067485--35067576 Score: 103
Period size: 21 Copynumber: 4.4 Consensus size: 21
35067475 TTTTACGTTG
*
35067485 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
35067506 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
35067527 CTCTGTTTCCCTCGTTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
35067548 CTCTGCTTCTCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
*
35067569 ATCTGCTT
1 CTCTGCTT
35067577 TAAGCTGCTG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.05, C:0.40, G:0.16, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:35067713 original size:66 final size:65
Alignment explanation
Indices: 35067538--35067717 Score: 227
Period size: 66 Copynumber: 2.7 Consensus size: 65
35067528 TCTGTTTCCC
* * * *
35067538 TCGTTGCAGCCTCTGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATAC
1 TCGTTG-AACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATAC
35067603 TT
64 TT
* *
35067605 TCGTTGAACCTCGGCTTCTCTCGCTGCTGCATCCACTTTAAGTTGTAGCTGGAGTTCTTCATATC
1 TCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-C
35067670 TT
64 TT
* * * *
35067672 T-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 TCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGTG
35067718 TAATTTGCTC
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 88 0.88
67 10 0.10
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (65 bp):
TCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTT
Found at i:35084091 original size:21 final size:20
Alignment explanation
Indices: 35084035--35084095 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
35084025 TGATCAGTAG
*
35084035 ACGACACATAAGTGCCTGTA
1 ACGACACATAAGTGCCTGAA
* *
35084055 ACGACACACGAGGTGCCTGAA
1 ACGACACA-TAAGTGCCTGAA
35084076 ACGACACATAAAGTGCCTGA
1 ACGACACAT-AAGTGCCTGA
35084096 TCGGCAAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 8 0.24
21 26 0.76
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (20 bp):
ACGACACATAAGTGCCTGAA
Found at i:35084734 original size:118 final size:114
Alignment explanation
Indices: 35084529--35084760 Score: 401
Period size: 118 Copynumber: 2.0 Consensus size: 114
35084519 ACCATCAATT
* *
35084529 CCAACATTAATTTATAACAATAATAAAATTTCTATCTAATTTATACTTTAATTCCAATTTAATCC
1 CCAACATTAATTTATAACAATAATAAAAGTTCTATCTAATTTATACTTTAATTCCAACTTAATCC
35084594 TAACTAAATTTATTTACTTTTCTAATTTAATTCACACTCTATTTCTATTC
66 TAACTAAATTTATTTACTTTTCTAATTTAATTCACAC-CTATTTCTATTC
*
35084644 CCAACATTAATTTATAATAATAATAATAAAAGTTCTATCTAATTTATACTTTAATTCCAACTTAA
1 CCAACATTAA-TT-T-ATAACAATAATAAAAGTTCTATCTAATTTATACTTTAATTCCAACTTAA
35084709 TCCTAACTAAATTTATTTACTTTTCTAATTTAATTCACACCTATTTCTATTC
63 TCCTAACTAAATTTATTTACTTTTCTAATTTAATTCACACCTATTTCTATTC
35084761 AAATTTCTTC
Statistics
Matches: 111, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
115 10 0.09
116 2 0.02
117 13 0.12
118 86 0.77
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.45
Consensus pattern (114 bp):
CCAACATTAATTTATAACAATAATAAAAGTTCTATCTAATTTATACTTTAATTCCAACTTAATCC
TAACTAAATTTATTTACTTTTCTAATTTAATTCACACCTATTTCTATTC
Found at i:35099892 original size:27 final size:27
Alignment explanation
Indices: 35099849--35100163 Score: 222
Period size: 27 Copynumber: 11.7 Consensus size: 27
35099839 GACATTTTGT
*
35099849 TAGCCTCTGTGGCAAACTCTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * *
35099876 TAGCCTTTATGGTAAACTTTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * **
35099903 TATCCTCTATGGCGAACTCTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * *
35099930 TAGCCGCTGTGGCT-AACTTTGAAATAA
1 TAGCCTCTGTGG-TAAACTCTGAAAGAA
** *
35099957 TAGGATTTGTGGCT-AACTCTGAAAGAA
1 TAGCCTCTGTGG-TAAACTCTGAAAGAA
** * * * *
35099984 TAGGATTTATGGCAAACTTTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * * *
35100011 TATCCTTTGTGGCAAACTTTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* *
35100038 TATCCTCTGTGGTGAAA-TATGAAAGAA
1 TAGCCTCTGTGGT-AAACTCTGAAAGAA
* *
35100065 TAACCTCTGTGGTGAACTCTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* ** * *
35100092 TATCCTCCATGATGAACTCTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * * * *
35100119 TATCCTCTATTGTGAACTCTAAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* *
35100146 TAGCCTTTGTGGTGAACT
1 TAGCCTCTGTGGTAAACT
35100164 ATAACATACC
Statistics
Matches: 238, Mismatches: 46, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 233 0.98
28 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (27 bp):
TAGCCTCTGTGGTAAACTCTGAAAGAA
Found at i:35099934 original size:54 final size:54
Alignment explanation
Indices: 35099852--35100151 Score: 280
Period size: 54 Copynumber: 5.6 Consensus size: 54
35099842 ATTTTGTTAG
* *
35099852 CCTCTGTGGCAAACTCTGAAAGAATAGCCTTTATGGTAAACTTTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGTAAACTTTGAAAGAATAT
* * * * *
35099906 CCTCTATGGCGAACTCTGAAAGAATAGCCGCTGTGGCT-AACTTTGAAATAATAG
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGG-TAAACTTTGAAAGAATAT
** * * ** * *
35099960 GATTTGTGGCTAACTCTGAAAGAATAGGATTTATGGCAAACTTTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGTAAACTTTGAAAGAATAT
* * * * * * *
35100014 CCTTTGTGGCAAACTTTGAAAGAATATCCTCTGTGGTGAAA-TATGAAAGAATAA
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGT-AAACTTTGAAAGAATAT
* * * * * *
35100068 CCTCTGTGGTGAACTCTGAAAGAATATCCTCCATGATGAACTCTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGTAAACTTTGAAAGAATAT
* * * *
35100122 CCTCTATTGTGAACTCTAAAAGAATAGCCT
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCT
35100152 TTGTGGTGAA
Statistics
Matches: 196, Mismatches: 46, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
53 2 0.01
54 190 0.97
55 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (54 bp):
CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGTAAACTTTGAAAGAATAT
Found at i:35099984 original size:81 final size:81
Alignment explanation
Indices: 35099849--35100098 Score: 261
Period size: 81 Copynumber: 3.1 Consensus size: 81
35099839 GACATTTTGT
* * * *
35099849 TAGCCTCTGTGGCAAACTCTGAAAGAATAGCCTTTATGGTAAACTTTGAAAGAATATCCTCTATG
1 TAGCCTCTGTGGCAAACTTTGAAAGAATAGCCTTTGTGGTAAACTATGAAAGAATAACCTCTATG
35099914 GCGAACTCTGAAAGAA
66 GCGAACTCTGAAAGAA
* * * ** * *** *
35099930 TAGCCGCTGTGGCTAACTTTGAAATAATAGGATTTGTGGCT-AACTCTGAAAGAATAGGATTTAT
1 TAGCCTCTGTGGCAAACTTTGAAAGAATAGCCTTTGTGG-TAAACTATGAAAGAATAACCTCTAT
* *
35099994 GGCAAACTTTGAAAGAA
65 GGCGAACTCTGAAAGAA
* * * * *
35100011 TATCCTTTGTGGCAAACTTTGAAAGAATATCCTCTGTGGTGAAA-TATGAAAGAATAACCTCTGT
1 TAGCCTCTGTGGCAAACTTTGAAAGAATAGCCTTTGTGGT-AAACTATGAAAGAATAACCTCTAT
*
35100075 GGTGAACTCTGAAAGAA
65 GGCGAACTCTGAAAGAA
*
35100092 TATCCTC
1 TAGCCTC
35100099 CATGATGAAC
Statistics
Matches: 133, Mismatches: 33, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
80 1 0.01
81 129 0.97
82 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (81 bp):
TAGCCTCTGTGGCAAACTTTGAAAGAATAGCCTTTGTGGTAAACTATGAAAGAATAACCTCTATG
GCGAACTCTGAAAGAA
Found at i:35102870 original size:31 final size:32
Alignment explanation
Indices: 35102817--35102881 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
35102807 ATAAGTATTA
*
35102817 TTAAGTATTTATTGGTTTTGGCTT-GTAATTT
1 TTAAGTATTTATTGGTTTTGGCTTGGTAACTT
*
35102848 TTAATTATTT-TTGGTTTGTGGCTTGGTAACTT
1 TTAAGTATTTATTGGTTT-TGGCTTGGTAACTT
35102880 TT
1 TT
35102882 CTTTTGGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 15 0.50
32 8 0.27
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.58
Consensus pattern (32 bp):
TTAAGTATTTATTGGTTTTGGCTTGGTAACTT
Found at i:35103428 original size:27 final size:27
Alignment explanation
Indices: 35103390--35103705 Score: 294
Period size: 27 Copynumber: 11.7 Consensus size: 27
35103380 CAAAGCCCTT
* * * *
35103390 AACTTTGAAAGACTAACCTTTGTGGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
* *
35103417 AACTTTGAAAGAATAACCCCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
* *
35103444 AACTCTAAAAGAATAACCTCTATAGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
35103471 AACTCTGAAAGAATAACCTCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
* * *
35103498 AACTATGAAAGAATATCCTCTATGATG
1 AACTCTGAAAGAATAACCTCTATGGTG
* * **
35103525 AACTCTGAAAGAATATCCTCTATAGCA
1 AACTCTGAAAGAATAACCTCTATGGTG
* * *
35103552 AACTCTGAAAGAATAACCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGTG
* * *
35103579 AACTATGAAAGAATAGCCT-T-CGTGTCG
1 AACTCTGAAAGAATAACCTCTATG-GT-G
* * * * * *
35103606 AATTCTTAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGTG
* *
35103633 AATTCTGAAAGAATAACCTCTGTGGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
* ** * *
35103660 AACTCTAAAAGAATAGTCTTTATGGCG
1 AACTCTGAAAGAATAACCTCTATGGTG
35103687 AACTCTGAAAGAATAACCT
1 AACTCTGAAAGAATAACCT
35103706 TTGTGGCGAA
Statistics
Matches: 239, Mismatches: 46, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
25 1 0.00
26 2 0.01
27 233 0.97
28 2 0.01
29 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (27 bp):
AACTCTGAAAGAATAACCTCTATGGTG
Found at i:35103715 original size:81 final size:81
Alignment explanation
Indices: 35103390--35103705 Score: 346
Period size: 81 Copynumber: 3.9 Consensus size: 81
35103380 CAAAGCCCTT
* * * * * * * *
35103390 AACTTTGAAAGACTAACCTTTGTGGTGAACTTTGAAAGAATAACCCCTATGGTGAACTCTAAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCTATGGCGAACTCTGAAAG
*
35103455 AATAACCTCTATAGTG
66 AATAACCTCTATAGCG
* * **
35103471 AACTCTGAAAGAATAACCTCTATGGTGAACTATGAAAGAATATCCTCTATGATGAACTCTGAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCTATGGCGAACTCTGAAAG
* *
35103536 AATATCCTCTATAGCA
66 AATAACCTCTATAGCG
* * * * * *
35103552 AACTCTGAAAGAATAACCTTTGTGGCGAACTATGAAAGAATAGCCT-TCGTGTCGAATTCTTAAA
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCT-ATGGCGAACTCTGAAA
* * * *
35103616 GAATAGCCTTTGTGGCG
65 GAATAACCTCTATAGCG
* * * * *
35103633 AATTCTGAAAGAATAACCTCTGTGGTGAACTCTAAAAGAATAGTCTTTATGGCGAACTCTGAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCTATGGCGAACTCTGAAAG
35103698 AATAACCT
66 AATAACCT
35103706 TTGTGGCGAA
Statistics
Matches: 196, Mismatches: 37, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
80 1 0.01
81 194 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (81 bp):
AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCTATGGCGAACTCTGAAAG
AATAACCTCTATAGCG
Found at i:35106184 original size:124 final size:123
Alignment explanation
Indices: 35106018--35106247 Score: 352
Period size: 124 Copynumber: 1.9 Consensus size: 123
35106008 TTACAATTTG
* * *
35106018 ATTACCAGCTATCATCTAAGTAAAGCTAACATGGTAGCTAATGTATTAAGCCAGAAATCTTTGTT
1 ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTT-TT
* * *
35106083 TTTTTAAAGCAATGAACACTCATCTGACTTTGCAACGTGATGGGAAATGTTACGATCTA
65 TTTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATGGGAAATGTTACGATCTA
** *
35106142 ATTACCAACTATCATCTGGGTAAACCTAACATGGTAGCTAATGCATTAAGCCATAAATCTTTTTT
1 ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTTTT
* *
35106207 TTTTGAAGCAATGAACACTTATCTAAATTTGAAACGTGATG
66 TTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATG
35106248 ATTCTATTCT
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
123 39 0.41
124 56 0.59
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (123 bp):
ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTTTT
TTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATGGGAAATGTTACGATCTA
Found at i:35107967 original size:19 final size:18
Alignment explanation
Indices: 35107943--35107999 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
35107933 AGTAAACTGT
35107943 GTTAATTATAATTAAGTTA
1 GTTAATTATAATTAA-TTA
*
35107962 GTTAATTATAGTTAATTA
1 GTTAATTATAATTAATTA
* *
35107980 GACTAATTATTGATTAATTA
1 G-TTAATTA-TAATTAATTA
35108000 ATGGTTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 4 0.12
19 20 0.62
20 8 0.25
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (18 bp):
GTTAATTATAATTAATTA
Found at i:35108947 original size:22 final size:22
Alignment explanation
Indices: 35108919--35108973 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
35108909 AGCATTTCTG
**
35108919 TGCTCTCTGATTAACACTTTAA
1 TGCTCTCTGATTAACACTACAA
* * *
35108941 TGCTCTCTGTTTAGCACTACAG
1 TGCTCTCTGATTAACACTACAA
35108963 TGCTCTCTGAT
1 TGCTCTCTGAT
35108974 GTGGTGTAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (22 bp):
TGCTCTCTGATTAACACTACAA
Found at i:35109767 original size:18 final size:19
Alignment explanation
Indices: 35109740--35109782 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
35109730 GTACTCTTGA
* *
35109740 ATAAACAATCAATT-TCAG
1 ATAAATAATCAATTAACAG
*
35109758 ATAAATAATCACTTAACAG
1 ATAAATAATCAATTAACAG
35109777 ATAAAT
1 ATAAAT
35109783 TGGTTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAATAATCAATTAACAG
Found at i:35113622 original size:25 final size:25
Alignment explanation
Indices: 35113588--35113662 Score: 132
Period size: 25 Copynumber: 3.0 Consensus size: 25
35113578 TTAGGAGTCG
35113588 TCCACTTCGATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
35113613 TCCACTTCGATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
* *
35113638 TCCACTCCAATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
35113663 ATTTCCCCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.33, C:0.37, G:0.15, T:0.15
Consensus pattern (25 bp):
TCCACTTCGATGCCCAAGACAAAGC
Found at i:35120195 original size:749 final size:747
Alignment explanation
Indices: 35118758--35120254 Score: 2791
Period size: 749 Copynumber: 2.0 Consensus size: 747
35118748 CTCAAGGGAG
*
35118758 GATTTTCGTAAGGAATTTCAATAGCAGAATCTGGACATCAAGTCAATGCGCGATGTATGTTATGG
1 GATTTTCGTAAGGAATTTCAAGAGCAGAATCTGGACATCAAGTCAATGCGCGATGTATGTTATGG
35118823 TTTAAAAACACAAAATCTTATTTTAGAAAATGAATCTCTGTGTATTTAACGTATATGTTAACGAA
66 TTTAAAAACACAAAATCTTATTTTAGAAAATGAATCTCTGTGTATTTAACGTATATGTTAACGAA
*
35118888 TCCTCCCCCATATTGTAAATTTGGGCACTTCATTTTCTAATCAAATCATGAGAAAAAAAAAGTGT
131 TCCTCCCCCATATTGTAAATTTGGGCACTTCATTTTCTAATCAAATAATGAG-AAAAAAAAGTGT
*
35118953 TTTTTTTTTTTACTTATATGGTTTTTTTTTTAAATTATTATTGGGATTTTGAAGGTGGAGAAATG
195 TTTTTTTTTTTACTTATAGGGTTTTTTTTTTAAATTATTATTGGGATTTTGAAGGTGGAGAAATG
*
35119018 TATGGCAAGATTGCAAAAGTTGCAGTTAACAGTTGCAGGAGGGTCTAAGGTTATATCAGGGTGAG
260 TATGGCAAGATTGCAAAAGTTGCAGTTAACAGTTGCAAGAGGGTCTAAGGTTATATCAGGGTGAG
35119083 TTTAAGTCCAAGAAGTACTAGGGGTTATACGAGGACTACTCCCAAATGCAAGAAAGAGTCCTTGA
325 TTTAAGTCCAAGAAGTACTAGGGGTTATACGAGGACTACTCCCAAATGCAAGAAAGAGTCCTTGA
35119148 GGTAAGATCAAATTTTGGTTTGTCTTCAACTGTGCCAAAAGGTTCAGTCTTTTTGTTTTGCATAC
390 GGTAAGATCAAATTTTGGTTTGTCTTCAACTGTGCCAAAAGGTTCAGTCTTTTTGTTTTGCATAC
35119213 TAAATTAGGTCGTTTTCAATTTGAAGGATGAAGAACTCTACTCCAAGGAAATCACCAGTTGGGAA
455 TAAATTAGGTCGTTTTCAATTTGAAGGATGAAGAACTCTACTCCAAGGAAATCACCAGTTGGGAA
35119278 GTTTCCAGCCACTGTAGGAGGTATATCCCTCTTATTTTCTTTATATTTTTAAATTTTGTGGCCTA
520 GTTTCCAGCCACTGTAGGAGGTATATCCCTCTTATTTTCTTTATATTTTTAAATTTTGTGGCCTA
35119343 GTTTCCCTCTCTTGAGCATTGTTTCTTGAATTTATCATTCATTTTGAATTTCCTATATAAATATC
585 GTTTCCCTCTCTTGAGCATTGTTTCTTGAATTTATCATTCATTTTGAATTTCCTATATAAATATC
35119408 CACTACAAGGTAACTTTTAGAATGCCATATTTGTCTACCTCTTGTACTCTCTTGCACTTGAGTGT
650 CACTACAAGGTAACTTTTAGAATGCCATATTTGTCTACCTCTTGTACTCTCTTGCACTTGAGTGT
35119473 GGTTAGATACATATATACCCTAAACCCAATTAA
715 GGTTAGATACATATATACCCTAAACCCAATTAA
35119506 GATTTTCGTAAGGAATTTCAAGAGCAGAAT-TCGGACATCAAGTCAATGCGCGATGTATGTTATG
1 GATTTTCGTAAGGAATTTCAAGAGCAGAATCT-GGACATCAAGTCAATGCGCGATGTATGTTATG
35119570 GTTTAAAAACACAAAATCTTATTTTAGAAAATGAATCTCTGTGTATTTAACGTATATGTTAACGA
65 GTTTAAAAACACAAAATCTTATTTTAGAAAATGAATCTCTGTGTATTTAACGTATATGTTAACGA
* * *
35119635 ATCCTCCCCGATATTGTAACTTTGGGCACTTCATTTTCTAATTAAATAATGAG-AAAAAAAGTGT
130 ATCCTCCCCCATATTGTAAATTTGGGCACTTCATTTTCTAATCAAATAATGAGAAAAAAAAGTGT
* *
35119699 TTTTTTTTTTTACTTATGGGGTTTTTGCTTTTTTAATTATTATTGGGATTTTGAAGGTGGAGAAA
195 TTTTTTTTTTTACTTATAGGGTTTTT--TTTTTAAATTATTATTGGGATTTTGAAGGTGGAGAAA
* * *
35119764 TGTATGGCAAGATTGCAAGAGTTGTAGTTAACGGTTGCAAGAGGGTCTAAGGTTATATCAGGGGT
258 TGTATGGCAAGATTGCAAAAGTTGCAGTTAACAGTTGCAAGAGGGTCTAAGGTTATATCA-GGGT
* * * *
35119829 GAGTTTAAGTCCAAGAAGTACTAGGGGTTATATGAGGACTAGTCTCAAATGCAAGCAAGAGTCCT
322 GAGTTTAAGTCCAAGAAGTACTAGGGGTTATACGAGGACTACTCCCAAATGCAAGAAAGAGTCCT
35119894 TGAGGTAAGATCAAATTTTGGTTTGTCTTCAACTGTGCCAAAAGGTTCAGTCTTTTTGTTTTGCA
387 TGAGGTAAGATCAAATTTTGGTTTGTCTTCAACTGTGCCAAAAGGTTCAGTCTTTTTGTTTTGCA
35119959 TACTAAATTAGGTCGTTTTCAATTTGAAGGATGAAGAACTCTACTCCAAGGAAATCACCAGTTGG
452 TACTAAATTAGGTCGTTTTCAATTTGAAGGATGAAGAACTCTACTCCAAGGAAATCACCAGTTGG
35120024 GAAGTTTCCAGCCACTGTAGGAGGTATATCCCTCTTATTTTCTTTATATTTTTAAATTTTGTGGC
517 GAAGTTTCCAGCCACTGTAGGAGGTATATCCCTCTTATTTTCTTTATATTTTTAAATTTTGTGGC
35120089 CTAGTTTCCCTCTCTTGAGCATTGTTTCTTGAATTTATCATTCATTTTGAATTTCCTATATAAAT
582 CTAGTTTCCCTCTCTTGAGCATTGTTTCTTGAATTTATCATTCATTTTGAATTTCCTATATAAAT
35120154 ATCCACTACAAGGTAACTTTTAGAATGCCATATTTGTCTACCTCTTGTACTCTCTTGCACTTGAG
647 ATCCACTACAAGGTAACTTTTAGAATGCCATATTTGTCTACCTCTTGTACTCTCTTGCACTTGAG
35120219 TGTGGTTAGATACATATATACCCTAAACCCAATTAA
712 TGTGGTTAGATACATATATACCCTAAACCCAATTAA
35120255 ACTAGCTTTC
Statistics
Matches: 729, Mismatches: 16, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
746 35 0.05
747 1 0.00
748 267 0.37
749 426 0.58
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (747 bp):
GATTTTCGTAAGGAATTTCAAGAGCAGAATCTGGACATCAAGTCAATGCGCGATGTATGTTATGG
TTTAAAAACACAAAATCTTATTTTAGAAAATGAATCTCTGTGTATTTAACGTATATGTTAACGAA
TCCTCCCCCATATTGTAAATTTGGGCACTTCATTTTCTAATCAAATAATGAGAAAAAAAAGTGTT
TTTTTTTTTTACTTATAGGGTTTTTTTTTTAAATTATTATTGGGATTTTGAAGGTGGAGAAATGT
ATGGCAAGATTGCAAAAGTTGCAGTTAACAGTTGCAAGAGGGTCTAAGGTTATATCAGGGTGAGT
TTAAGTCCAAGAAGTACTAGGGGTTATACGAGGACTACTCCCAAATGCAAGAAAGAGTCCTTGAG
GTAAGATCAAATTTTGGTTTGTCTTCAACTGTGCCAAAAGGTTCAGTCTTTTTGTTTTGCATACT
AAATTAGGTCGTTTTCAATTTGAAGGATGAAGAACTCTACTCCAAGGAAATCACCAGTTGGGAAG
TTTCCAGCCACTGTAGGAGGTATATCCCTCTTATTTTCTTTATATTTTTAAATTTTGTGGCCTAG
TTTCCCTCTCTTGAGCATTGTTTCTTGAATTTATCATTCATTTTGAATTTCCTATATAAATATCC
ACTACAAGGTAACTTTTAGAATGCCATATTTGTCTACCTCTTGTACTCTCTTGCACTTGAGTGTG
GTTAGATACATATATACCCTAAACCCAATTAA
Found at i:35131256 original size:35 final size:35
Alignment explanation
Indices: 35131198--35131296 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 35
35131188 ATAAATTTAG
* **
35131198 TATAAATACAATTTAATTTATATTTTATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTATTATTTGAT
* *
35131234 T-TAAATATAATTTGTAAAATATTTTGA-TATTTTAT
1 TATAAATATAATTT-AAAAATATTTT-ATTATTTGAT
*
35131269 TATGAATATAATTTAAAAATATTTTATT
1 TATAAATATAATTTAAAAATATTTTATT
35131297 GTATATTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
34 1 0.02
35 37 0.71
36 14 0.27
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTATTATTTGAT
Found at i:35133174 original size:16 final size:15
Alignment explanation
Indices: 35133151--35133185 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
35133141 ACGAAAATAT
35133151 AAAGGAAAGAAAGAG
1 AAAGGAAAGAAAGAG
*
35133166 AAAGAGAAAGAAAGAT
1 AAAG-GAAAGAAAGAG
35133182 AAAG
1 AAAG
35133186 TTGACATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
AAAGGAAAGAAAGAG
Found at i:35137605 original size:43 final size:43
Alignment explanation
Indices: 35137543--35137625 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
35137533 GTACAGGTTA
*
35137543 TGCTTCAGTTTATTAGATGATGCACTATGTGTGCCAGTATAGT
1 TGCTTCAGTATATTAGATGATGCACTATGTGTGCCAGTATAGT
* *
35137586 TGCTTCAGTATATTTGATGATGCACTGTGTGTGCCAGTAT
1 TGCTTCAGTATATTAGATGATGCACTATGTGTGCCAGTAT
35137626 GCACTATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (43 bp):
TGCTTCAGTATATTAGATGATGCACTATGTGTGCCAGTATAGT
Found at i:35138795 original size:20 final size:19
Alignment explanation
Indices: 35138770--35138823 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
35138760 TCCCAAAAAC
35138770 CCTCAAAAATTTTTATTTT
1 CCTCAAAAATTTTTATTTT
*
35138789 ACCTCAAAAACTTTTATTTT
1 -CCTCAAAAATTTTTATTTT
* *
35138809 CCCCCAAAATTTTTA
1 CCTCAAAAATTTTTA
35138824 CTCCCTCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (19 bp):
CCTCAAAAATTTTTATTTT
Found at i:35140923 original size:24 final size:24
Alignment explanation
Indices: 35140884--35140934 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
35140874 TCAAAGTAAG
** *
35140884 TTTTAAATGTTGTCCAAAATATGT
1 TTTTAAATGTCATCCAAAACATGT
*
35140908 TTTTAAATGTCATCCAAAGCATGT
1 TTTTAAATGTCATCCAAAACATGT
35140932 TTT
1 TTT
35140935 AAGAATTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (24 bp):
TTTTAAATGTCATCCAAAACATGT
Found at i:35141637 original size:35 final size:35
Alignment explanation
Indices: 35141598--35141784 Score: 137
Period size: 35 Copynumber: 5.4 Consensus size: 35
35141588 AGGCACCCAT
*
35141598 TTGTCGATTATACCAACCAGTGTTGGGCACATCTA
1 TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
* *
35141633 TTGTCGGTTATACCGACCAGTGCTT-GGTACATCTA
1 TTGTCGATTATACCGACCAGTG-TTGGGCACATCTA
* * * * * *
35141668 TTATTGGTTTTACCGACCAGTGCTGGACACATCTA
1 TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
* ** * * ** *
35141703 TTGTTGATTATATTGACCAATGCTACGCACATTTA
1 TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
* * * * *
35141738 TTGTCAATTTTACC--CTAGTCTTGGGCACATTTA
1 TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
*
35141771 TTGTCGATTTTACC
1 TTGTCGATTATACC
35141785 AGCCAGCGCA
Statistics
Matches: 119, Mismatches: 31, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
33 26 0.22
34 1 0.01
35 90 0.76
36 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (35 bp):
TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
Found at i:35149106 original size:17 final size:15
Alignment explanation
Indices: 35149056--35149110 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
35149046 AGTACCATTG
*
35149056 AATAAATAATCAATTT
1 AATAAATAAT-TATTT
35149072 CAGATAAATAATTATTT
1 -A-ATAAATAATTATTT
35149089 AATAAATAAATTAGTTT
1 AATAAAT-AATTA-TTT
35149106 AATAA
1 AATAA
35149111 TCGAAGTATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
17 13 0.38
18 9 0.26
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (15 bp):
AATAAATAATTATTT
Found at i:35151459 original size:23 final size:24
Alignment explanation
Indices: 35151406--35151465 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
35151396 TTATTAACAT
35151406 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
***
35151430 TGTTCGTGAACATGTTTGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
35151453 TGTTCGTGAACAT
1 TGTTCGTGAACAT
35151466 TAAACAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 14 0.42
24 19 0.58
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:35156709 original size:11 final size:12
Alignment explanation
Indices: 35156693--35156731 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
35156683 GCAAATTGGA
35156693 TAAATTAA-TAT
1 TAAATTAATTAT
35156704 TAAATTAATTAT
1 TAAATTAATTAT
*
35156716 ATAAAATAATTAT
1 -TAAATTAATTAT
35156729 TAA
1 TAA
35156732 TCTAATCGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 8 0.32
12 6 0.24
13 11 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATTAATTAT
Found at i:35164406 original size:29 final size:29
Alignment explanation
Indices: 35164373--35164437 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
35164363 GCAGTTTAAT
*
35164373 TTTTTTTCTTTTATGTTCTTTGAACTTTC
1 TTTTTTTCTTTTATGTTCTTTAAACTTTC
35164402 TTTTTTTCTTTTATGTTCTTTAAACTTTC
1 TTTTTTTCTTTTATGTTCTTTAAACTTTC
35164431 TTTTTTT
1 TTTTTTT
35164438 TTATTCTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.11, C:0.12, G:0.05, T:0.72
Consensus pattern (29 bp):
TTTTTTTCTTTTATGTTCTTTAAACTTTC
Found at i:35165320 original size:25 final size:25
Alignment explanation
Indices: 35165291--35165342 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
35165281 AAAATTGGTA
35165291 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
35165316 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
35165341 AG
1 AG
35165343 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:35167788 original size:14 final size:14
Alignment explanation
Indices: 35167745--35167789 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
35167735 ATTTTACAGA
35167745 ACAGTAAAACATTTT
1 ACAG-AAAACATTTT
* *
35167760 CCAGAAATCATTTT
1 ACAGAAAACATTTT
*
35167774 ACGGAAAACATTTT
1 ACAGAAAACATTTT
35167788 AC
1 AC
35167790 TGCCAAACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 22 0.88
15 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (14 bp):
ACAGAAAACATTTT
Found at i:35171025 original size:14 final size:15
Alignment explanation
Indices: 35170993--35171025 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
35170983 TAAATAATTT
35170993 TTATATTTAAAAAAC
1 TTATATTTAAAAAAC
35171008 TTATATTTAAAAAA-
1 TTATATTTAAAAAAC
35171022 TTAT
1 TTAT
35171026 GCACTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATATTTAAAAAAC
Found at i:35171055 original size:16 final size:16
Alignment explanation
Indices: 35171034--35171073 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
35171024 ATGCACTTTT
35171034 ATTTTAAATATATATA
1 ATTTTAAATATATATA
* *
35171050 ATTTTAAATTTTTATA
1 ATTTTAAATATATATA
*
35171066 TTTTTAAA
1 ATTTTAAA
35171074 ATTGACAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAAATATATATA
Found at i:35171551 original size:103 final size:103
Alignment explanation
Indices: 35171372--35171578 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 103
35171362 AAGGAGACCT
35171372 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
1 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
*
35171437 TGAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
66 TGAGAGATCAAGAAGGACTAGGATTAGTCATAAAATTG
*
35171475 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTCGTGGTGAATCTTAGTTTTCAAGGCGAGT
1 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
*
35171540 TGAGAGATCAAGAAGGACTAGGGTTAGTCATAAAATTG
66 TGAGAGATCAAGAAGGACTAGGATTAGTCATAAAATTG
35171578 A
1 A
35171579 GGATGAGTAA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (103 bp):
AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
TGAGAGATCAAGAAGGACTAGGATTAGTCATAAAATTG
Found at i:35173584 original size:9 final size:9
Alignment explanation
Indices: 35173570--35173615 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
35173560 TATAGTTTGA
35173570 TATTCGAAT
1 TATTCGAAT
35173579 TATTCGAAT
1 TATTCGAAT
35173588 TATTCGAAT
1 TATTCGAAT
*
35173597 TATTCGAGT
1 TATTCGAAT
35173606 TATTCGAAT
1 TATTCGAAT
35173615 T
1 T
35173616 CGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:35174467 original size:27 final size:26
Alignment explanation
Indices: 35174437--35174505 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
35174427 AATTAATATA
*
35174437 TTTCCTTTTTTTTTCTTTTTCCCT-TT
1 TTTCCTTTTTTTTTCATTTT-CCTGTT
*
35174463 CTTTCCCTTGTTTTTTCATTTTCCTGTT
1 -TTT-CCTTTTTTTTTCATTTTCCTGTT
*
35174491 TTTCCTTTTTCTTTC
1 TTTCCTTTTTTTTTC
35174506 CCATTTTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.28
27 9 0.25
28 17 0.47
ACGTcount: A:0.01, C:0.25, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTCCTTTTTTTTTCATTTTCCTGTT
Found at i:35176459 original size:23 final size:23
Alignment explanation
Indices: 35176416--35176468 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
35176406 AGTGCTATTG
35176416 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
35176439 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
35176462 ATCAGTG
1 ATCAGTG
35176469 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:35184039 original size:22 final size:22
Alignment explanation
Indices: 35183997--35184039 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35183987 AAAACAGGCT
**
35183997 TTTAGCGGCGCTTTTTTAAGCC
1 TTTAGCGGCGCTTTTAGAAGCC
35184019 TTTAGCGGCGCTTTTAGAAGC
1 TTTAGCGGCGCTTTTAGAAGC
35184040 GCCAGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
TTTAGCGGCGCTTTTAGAAGCC
Found at i:35184510 original size:43 final size:43
Alignment explanation
Indices: 35184075--35184497 Score: 611
Period size: 43 Copynumber: 9.8 Consensus size: 43
35184065 GCGTCGCTAA
* ** *
35184075 CTTTAGCGGCGCTTT-TCTCACAAACGCCGCTAAAGAGCAGGAC
1 CTTTAGCGGCGCTTTCTC-CACAAACGCCGCTAAAGAACCTGAT
35184118 CTTTAGCGGCGCTTT-TCCCACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGCGCTTTCT-CCACAAACGCCGCTAAAGAACCTGAT
*
35184161 CTTTAGCGGCGCTTTCTCCACAAACGCGGCTAAAGAACCTGAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
*
35184204 CTTTAGCGGCCCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
*
35184247 ATTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
*
35184290 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACCTG-T
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
* * *
35184332 GCTTTAGCGGCGCTTTCTCTACAAACGCCGCTAAAGAATCTGGT
1 -CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
* * * *
35184376 CTTTAGCGGCGTTTTCTCCACAAACGCCACAAAAGACCCCT-AT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGA-ACCTGAT
* * *
35184419 CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGACCCTTAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
*
35184462 CTTTAGCGGCGCTTTCTACACAAACGCCGCTAAAGA
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGA
35184498 CCCTTCTCTT
Statistics
Matches: 349, Mismatches: 25, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
42 5 0.01
43 339 0.97
44 5 0.01
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
Found at i:35184951 original size:42 final size:42
Alignment explanation
Indices: 35184888--35184980 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
35184878 TTTGACGCTG
**
35184888 CTCTGCTTCCCTCGCTACAGCCTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTACAGCCTCTACTTCCCTCGCTGCAGC
* * * *
35184930 CTCTGCTTCCCTC-TTAGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTA-CAGCCTCTACTTCCCTCGCTGCAGC
35184972 CTCTGCTTC
1 CTCTGCTTC
35184981 TCTTGCTGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.08, C:0.44, G:0.14, T:0.34
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTACAGCCTCTACTTCCCTCGCTGCAGC
Found at i:35184981 original size:21 final size:21
Alignment explanation
Indices: 35184888--35184999 Score: 91
Period size: 21 Copynumber: 5.3 Consensus size: 21
35184878 TTTGACGCTG
*
35184888 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
35184909 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
35184930 CTCTGCTTCCCTC-TTAGCAGC
1 CTCTGCTTCCCTCGCT-GCAGC
* * * *
35184951 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
35184972 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
35184993 ATCTGCT
1 CTCTGCT
35185000 CTAAGCTGCT
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
20 1 0.01
21 71 0.97
22 1 0.01
ACGTcount: A:0.07, C:0.43, G:0.15, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:35185061 original size:66 final size:66
Alignment explanation
Indices: 35184971--35185115 Score: 204
Period size: 66 Copynumber: 2.2 Consensus size: 66
35184961 CTCGCTGCCG
* *
35184971 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
35185034 GAA
64 GAA
* * * *
35185037 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
35185102 A
66 A
35185103 CCTCAGCTTCTCT
1 CCTCAGCTTCTCT
35185116 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:35189202 original size:16 final size:16
Alignment explanation
Indices: 35189181--35189216 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
35189171 TCTTGCAAGT
*
35189181 TTATGTATAATGTAGG
1 TTATGTATAATGTAAG
35189197 TTATGTATAATGTAAG
1 TTATGTATAATGTAAG
35189213 TTAT
1 TTAT
35189217 TATGTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.47
Consensus pattern (16 bp):
TTATGTATAATGTAAG
Found at i:35189270 original size:53 final size:54
Alignment explanation
Indices: 35189190--35189296 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 54
35189180 TTTATGTATA
*
35189190 ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTTA-TTATACAAGTT
1 ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTAAGTTATACAAGTT
*
35189243 ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTAAGTTATGCAAGTT
1 ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTAAGTTATACAAGTT
35189297 TATATATAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 41 0.80
54 10 0.20
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.48
Consensus pattern (54 bp):
ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTAAGTTATACAAGTT
Found at i:35189284 original size:20 final size:20
Alignment explanation
Indices: 35189220--35189289 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
35189210 AAGTTATTAT
**
35189220 GTTATTATGTTATTATACAA
1 GTTATTATGTTATTATGTAA
*
35189240 GTTATGTAGGTTATGTATAATGTAA
1 GTTAT-TATGTTA--T-T-ATGTAA
35189265 GTTATTATGTTATTATGTAA
1 GTTATTATGTTATTATGTAA
35189285 GTTAT
1 GTTAT
35189290 GCAAGTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 16 0.39
21 7 0.17
22 1 0.02
23 1 0.02
24 7 0.17
25 9 0.22
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.50
Consensus pattern (20 bp):
GTTATTATGTTATTATGTAA
Found at i:35193682 original size:36 final size:36
Alignment explanation
Indices: 35193635--35193703 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
35193625 CGGTGCCGTT
*
35193635 TTAAGAAACTTTAATCCATAGTTCTGGCGTTTTGTC
1 TTAAGAAACTTTAATCCATAGTTCCGGCGTTTTGTC
* *
35193671 TTAAGAAACTTTAATTCATATTTCCGGCGTTTT
1 TTAAGAAACTTTAATCCATAGTTCCGGCGTTTT
35193704 CCGGAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (36 bp):
TTAAGAAACTTTAATCCATAGTTCCGGCGTTTTGTC
Found at i:35194332 original size:21 final size:20
Alignment explanation
Indices: 35194308--35194348 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
35194298 TCTAAGCCCT
*
35194308 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
35194329 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
35194349 TAGTCCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:35195335 original size:41 final size:42
Alignment explanation
Indices: 35195246--35195338 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 42
35195236 TAAAATGTTT
* *
35195246 TTAGCGGCGC-TTAAGCAGAAACGCCGCGAAAACCCAGAACA
1 TTAGCGGCGCTTTAAGCAAAAACACCGCGAAAACCCAGAACA
* * * * **
35195287 TTTGCGGCGCTTTAA-CAAAAACACCGCTAAAACCTATATTA
1 TTAGCGGCGCTTTAAGCAAAAACACCGCGAAAACCCAGAACA
35195328 TTAGCGGCGCT
1 TTAGCGGCGCT
35195339 AATCTAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
41 38 0.90
42 4 0.10
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.19
Consensus pattern (42 bp):
TTAGCGGCGCTTTAAGCAAAAACACCGCGAAAACCCAGAACA
Found at i:35196375 original size:21 final size:21
Alignment explanation
Indices: 35196349--35196417 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
35196339 AAAAAAGAAA
*
35196349 AAAAGAAAAAAAATAAAATGGG
1 AAAAGAAAAAAAA-AAAAGGGG
* *
35196371 -AAAGAGAAAGAAAAAAGGGG
1 AAAAGAAAAAAAAAAAAGGGG
*
35196391 AAAAGGAAAAAAAAAAGAAAGGG
1 AAAA-GAAAAAAAAAA-AAGGGG
35196414 AAAA
1 AAAA
35196418 ATAGAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 7 0.18
21 13 0.34
22 9 0.24
23 9 0.24
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAAAGGGG
Found at i:35196391 original size:20 final size:20
Alignment explanation
Indices: 35196356--35196407 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
35196346 AAAAAAAGAA
*
35196356 AAAAAATAAAATGGG-AAAGAG
1 AAAAAA-AAAAGGGGAAAAG-G
*
35196377 AAAGAAAAAAGGGGAAAAGG
1 AAAAAAAAAAGGGGAAAAGG
35196397 AAAAAAAAAAG
1 AAAAAAAAAAG
35196408 AAAGGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAGGGGAAAAGG
Found at i:35197046 original size:61 final size:65
Alignment explanation
Indices: 35196972--35197107 Score: 172
Period size: 68 Copynumber: 2.1 Consensus size: 65
35196962 TTGCATCGTC
* *
35196972 TCATAATGTTGAAAAC-AAA-ATTTCT-A-GCTGATTTTAATTTCAGTTTTTCACCAAAACTTTT
1 TCATAATGTTGAAAACAAAATATTTCTCATACTGATTTTAATTTCAATTTTTCACCAAAACTTTT
* *
35197033 TCATAATGTTGAAAACAAAAGTTTATTTCTCATACTGATTTTATTTTCAATTTTTCACCAAGACT
1 TCATAATGTTGAAAACAAAA---TATTTCTCATACTGATTTTAATTTCAATTTTTCACCAAAACT
35197098 TTT
63 TTT
*
35197101 TAATAAT
1 TCATAAT
35197108 TTGTAGTCTT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
61 16 0.25
62 3 0.05
66 6 0.10
67 1 0.02
68 37 0.59
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (65 bp):
TCATAATGTTGAAAACAAAATATTTCTCATACTGATTTTAATTTCAATTTTTCACCAAAACTTTT
Found at i:35203165 original size:16 final size:16
Alignment explanation
Indices: 35203144--35203183 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
35203134 CCTACTCCCT
* *
35203144 CCCAATTTAAACTCAG
1 CCCAATTTAAACCCAA
*
35203160 CCCAATATAAACCCAA
1 CCCAATTTAAACCCAA
35203176 CCCAATTT
1 CCCAATTT
35203184 TTTCTTAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.23
Consensus pattern (16 bp):
CCCAATTTAAACCCAA
Found at i:35203734 original size:3 final size:3
Alignment explanation
Indices: 35203726--35203770 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
35203716 TGTGCTGTGA
35203726 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
35203771 TCTCATTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:35203930 original size:4 final size:4
Alignment explanation
Indices: 35203921--35203954 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
35203911 TTAGTTGTCT
35203921 ATTA ATTA ATTA ATTA ATTA ATTA A--A ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
35203955 TGTAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:35204266 original size:9 final size:9
Alignment explanation
Indices: 35204237--35204306 Score: 95
Period size: 9 Copynumber: 7.6 Consensus size: 9
35204227 AAAAATGTTT
35204237 TAATTCGGG
1 TAATTCGGG
35204246 TAATGTTCGGG
1 TAA--TTCGGG
*
35204257 TAATTTGGG
1 TAATTCGGG
*
35204266 TAATTCGGA
1 TAATTCGGG
*
35204275 TAAGTCGGG
1 TAATTCGGG
35204284 TAATTCGGG
1 TAATTCGGG
35204293 TAATTCGGG
1 TAATTCGGG
35204302 TAATT
1 TAATT
35204307 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
9 44 0.83
11 9 0.17
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:35210603 original size:7 final size:7
Alignment explanation
Indices: 35210591--35210620 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
35210581 TAATAACAAT
35210591 TAATATA
1 TAATATA
35210598 TAATATA
1 TAATATA
35210605 TAATATA
1 TAATATA
35210612 TAATATA
1 TAATATA
35210619 TA
1 TA
35210621 TTAATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATATA
Found at i:35214869 original size:56 final size:50
Alignment explanation
Indices: 35214825--35215010 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
35214815 CATTGAGGTT
*
35214825 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGCTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCGAG
** *
35214875 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACT-GGCACCGAG
** * * * *
35214925 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCG-AG
* * ** *
35214974 AAGAAAAATCCCATGTAAGACCATGTTTGGGACATGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
35215011 ATTTGGCATG
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 33 0.28
50 81 0.70
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCGAG
Found at i:35227193 original size:22 final size:22
Alignment explanation
Indices: 35227168--35227212 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
35227158 TACCCCATTG
**
35227168 AAATGGATATATATGAAGAATT
1 AAATGGATATATACAAAGAATT
* *
35227190 AAATGTATGTATACAAAGAATT
1 AAATGGATATATACAAAGAATT
35227212 A
1 A
35227213 GTTATTCATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.31
Consensus pattern (22 bp):
AAATGGATATATACAAAGAATT
Found at i:35229129 original size:20 final size:18
Alignment explanation
Indices: 35229097--35229133 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
35229087 AAGGAAATCA
35229097 CATATTTAAAATACATATG
1 CATATTTAAAATA-ATATG
35229116 CATATTTAAAAATAATAT
1 CATATTT-AAAATAATAT
35229134 ATAATGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (18 bp):
CATATTTAAAATAATATG
Done.