Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 430 of 438
Found at i:132629988 original size:13 final size:13
Alignment explanation
Indices: 132629970--132629994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132629960 GACTTATATA
132629970 AAAAAATAAAAAT
1 AAAAAATAAAAAT
132629983 AAAAAATAAAAA
1 AAAAAATAAAAA
132629995 CTCAACACTC
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:132635467 original size:203 final size:211
Alignment explanation
Indices: 132635087--132635656 Score: 735
Period size: 203 Copynumber: 2.7 Consensus size: 211
132635077 TATCAAATGT
* * * *
132635087 GACAGTAAGACTTCAGAACCATACGTTCTGTGGGTTTTAAGGAATAAACAATTTAAGCCAGCATC
1 GACAATAAGACTTCAGAACCATACGTTCTGTGGTTTTTAACGAATAAACAATTTAAGCCAACATC
* * * * *
132635152 TTAATTTCATTTAGAGAACACATGAAATGCCAATAACCAACAAGATCATCACCTTGCAAGGACAA
66 TTAATTCCATTTAGAGAACACATGAAATGCCAATAAACAACAAGATCATCACATTGC-A-TACGA
* *
132635217 TCAATAAGCACACTTAACAATATGCAGCCACTCCATGGACCATACTAATCAAACG-CCTTTAACA
129 TCAATAAGCACACTTAACAATACGCAGCCACTCCATGGACAATACTAATCAAA-GTCCTTTAACA
132635281 CCATA-AC-AAGACC-A-A
193 CCATAGACTAAGACCAATA
* * * * * * * **
132635296 -ACAATAAGACTTCAAAACTATATGTACTGTAGTTTTTAATGAATAAACTACGTAAGCCAACATC
1 GACAATAAGACTTCAGAACCATACGTTCTGTGGTTTTTAACGAATAAACAATTTAAGCCAACATC
* * * * *
132635360 -TAAATCCATTTAGAGAACATATAAAATGCCAATAATCAACAGGATCATCACATTGCATA-GA-C
66 TTAATTCCATTTAGAGAACACATGAAATGCCAATAAACAACAAGATCATCACATTGCATACGATC
*
132635422 AATAAGCACACTTAATAATACGCAGCCACTCCATGGACAATACTAATCAAAGTCCTTTAACACCA
131 AATAAGCACACTTAACAATACGCAGCCACTCCATGGACAATACTAATCAAAGTCCTTTAACACCA
* *
132635487 TAGCCTATGACCAAATA
196 TAGACTAAGACC-AATA
*
132635504 TGACAATAAGACTTCAGAACCATACATTCTGTGGTTTTTAACGAATAAACAATTTAAGCCAACAT
1 -GACAATAAGACTTCAGAACCATACGTTCTGTGGTTTTTAACGAATAAACAATTTAAGCCAACAT
* *
132635569 CTTAATTCCATTTAGAGAACACATGAAATGCCAATAAACAAGAAGATCATCACATTGCAATGACT
65 CTTAATTCCATTTAGAGAACACATGAAATGCCAATAAACAACAAGATCATCACATTGC-AT-ACG
132635634 ATCAATAAGCACACTTAACAATA
128 ATCAATAAGCACACTTAACAATA
132635657 AAGAAAATAC
Statistics
Matches: 304, Mismatches: 44, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
202 1 0.00
203 63 0.21
204 2 0.01
205 6 0.02
206 1 0.00
207 50 0.16
208 53 0.17
210 54 0.18
211 50 0.16
212 2 0.01
213 1 0.00
214 1 0.00
215 20 0.07
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (211 bp):
GACAATAAGACTTCAGAACCATACGTTCTGTGGTTTTTAACGAATAAACAATTTAAGCCAACATC
TTAATTCCATTTAGAGAACACATGAAATGCCAATAAACAACAAGATCATCACATTGCATACGATC
AATAAGCACACTTAACAATACGCAGCCACTCCATGGACAATACTAATCAAAGTCCTTTAACACCA
TAGACTAAGACCAATA
Found at i:132637286 original size:31 final size:31
Alignment explanation
Indices: 132637251--132637315 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
132637241 AATAGCCCAA
*
132637251 TGACTTAAATAAAAACTTTTGTATAGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
* *
132637282 TGACTTAAATGAAAACTTTTGAATGGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
132637313 TGA
1 TGA
132637316 TCAAATTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAGTTTAG
Found at i:132642317 original size:37 final size:41
Alignment explanation
Indices: 132642241--132642333 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 41
132642231 ACATTAAAAA
132642241 TTATTTATATTAAAAAAACACTATCATAAATATAATAAATATT
1 TTATTT-TATT-AAAAAACACTATCATAAATATAATAAATATT
*
132642284 TTATTTTATTAAAAAACAC-AT-A-AAA-ATATTAAATATT
1 TTATTTTATTAAAAAACACTATCATAAATATAATAAATATT
*
132642321 TTATTGTATTAAA
1 TTATTTTATTAAA
132642334 TATAATTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
37 23 0.48
38 3 0.06
39 1 0.02
40 2 0.04
41 9 0.19
42 4 0.08
43 6 0.12
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (41 bp):
TTATTTTATTAAAAAACACTATCATAAATATAATAAATATT
Found at i:132645392 original size:46 final size:46
Alignment explanation
Indices: 132645282--132645882 Score: 609
Period size: 46 Copynumber: 12.6 Consensus size: 46
132645272 TTTGACATGA
* * * *
132645282 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
132645332 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * * * *
132645378 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTT-TTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
* *
132645428 TGCCATGGTATCTTTCAATCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * *
132645474 TGCCATGGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
*
132645524 TGCCATGATATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * * *
132645570 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
* * *
132645620 TGCCATGGTATCTTTCAACCATGGTATTATTATTTTTATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * * *
132645666 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
*
132645716 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
** * *
132645762 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* ** * * *
132645808 TGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
132645854 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
132645883 CACATTTCAT
Statistics
Matches: 469, Mismatches: 57, Indels: 54
0.81 0.10 0.09
Matches are distributed among these distances:
45 23 0.05
46 255 0.54
47 9 0.02
49 9 0.02
50 155 0.33
51 18 0.04
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:132645451 original size:96 final size:96
Alignment explanation
Indices: 132645282--132645888 Score: 954
Period size: 96 Copynumber: 6.4 Consensus size: 96
132645272 TTTGACATGA
132645282 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
132645347 CAACCATGGTCTTATTCTTTTCATGTCACGT
66 CAACCATGGTCTTATTCTTTTCATGTCACGT
*
132645378 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTTTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
* *
132645443 CAATCATGGTCTTATTCTTTTCATGTCACAT
66 CAACCATGGTCTTATTCTTTTCATGTCACGT
* *
132645474 TGCCATGGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGATATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
132645539 CAACCATGGTCTTATTCTTTTCATGTCACGT
66 CAACCATGGTCTTATTCTTTTCATGTCACGT
132645570 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
* * *
132645635 CAACCATGGTATTATTATTTTTATGTCACGT
66 CAACCATGGTCTTATTCTTTTCATGTCACGT
132645666 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
*
132645731 CAACCATGGTCTTATTCTTTTCATGTCACAT
66 CAACCATGGTCTTATTCTTTTCATGTCACGT
* * * * *
132645762 TGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCACGTTGCCATGGTATCTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGTTGCCATGGTATCTT
* ** * * *
132645822 TCAACCATGATCTTACACATTTCATATCAGGT
65 TCAACCATGGTCTTATTCTTTTCATGTCACGT
* * * *
132645854 TGCCATGGTATCTTTCAACCATGGTCTTACACATT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATT
132645889 TCATATCAGA
Statistics
Matches: 477, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
91 4 0.01
92 76 0.16
94 4 0.01
96 393 0.82
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.44
Consensus pattern (96 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
CAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:132647965 original size:16 final size:16
Alignment explanation
Indices: 132647946--132647984 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
132647936 AATTTTTCCC
*
132647946 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
132647962 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
132647978 TCTTTCC
1 TTTTTCC
132647985 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:132648036 original size:13 final size:14
Alignment explanation
Indices: 132648018--132648046 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
132648008 CCTTTCTTTC
132648018 TTTTTCTA-TTCTT
1 TTTTTCTATTTCTT
132648031 TTTTTCTATTTCTT
1 TTTTTCTATTTCTT
132648045 TT
1 TT
132648047 ACTTTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTATTTCTT
Found at i:132648058 original size:2 final size:2
Alignment explanation
Indices: 132648051--132648085 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
132648041 TCTTTTACTT
132648051 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
132648086 ATAACTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:132648884 original size:2 final size:2
Alignment explanation
Indices: 132648877--132648904 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
132648867 TACCAAGTGA
132648877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
132648905 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:132659022 original size:42 final size:42
Alignment explanation
Indices: 132658964--132659056 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
132658954 TTCACATTAG
132658964 TTAAT-AAATTTAATAGCTCTTGTTTGAGTCAAGATTGAAAT
1 TTAATAAAATTTAATAGCTCTTGTTTGAGTCAAGATTGAAAT
132659005 TTAATAAAATTTAATAGCTCTTGTTTGAGTCAAGATTGAAAT
1 TTAATAAAATTTAATAGCTCTTGTTTGAGTCAAGATTGAAAT
132659047 TT--TAAAATTT
1 TTAATAAAATTT
132659057 GAAAAATATA
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
40 8 0.16
41 5 0.10
42 38 0.75
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (42 bp):
TTAATAAAATTTAATAGCTCTTGTTTGAGTCAAGATTGAAAT
Found at i:132663982 original size:11 final size:11
Alignment explanation
Indices: 132663966--132663990 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
132663956 AATTTATCGC
132663966 TTATATTATAT
1 TTATATTATAT
132663977 TTATATTATAT
1 TTATATTATAT
132663988 TTA
1 TTA
132663991 ATTTGAAGTG
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATATTATAT
Found at i:132664246 original size:51 final size:51
Alignment explanation
Indices: 132664122--132664254 Score: 121
Period size: 51 Copynumber: 2.6 Consensus size: 51
132664112 ATATTGATAG
132664122 AATATGTAAATATTGTAAAA--TAACA-TTGTTAAATCATGACCAAATTGACAA
1 AATATGTAAATA-T-TAAAAGTTAA-ATTTGTTAAATCATGACCAAATTGACAA
* *** * * *
132664173 AATATGTAAATGTTATGGGTTAAATTTGTTAAATCAAT-ATCAAGTTGACAG
1 AATATGTAAATATTAAAAGTTAAATTTGTTAAATC-ATGACCAAATTGACAA
* *
132664224 GATATGTAAATATTAAAAGTTAATTTTGTTA
1 AATATGTAAATATTAAAAGTTAAATTTGTTA
132664255 CTATATCGAT
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
49 2 0.03
50 2 0.03
51 59 0.91
52 2 0.03
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.37
Consensus pattern (51 bp):
AATATGTAAATATTAAAAGTTAAATTTGTTAAATCATGACCAAATTGACAA
Found at i:132665374 original size:15 final size:16
Alignment explanation
Indices: 132665349--132665387 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
132665339 ATACATTATA
132665349 TTCTTTCAAATTA-CTT
1 TTCTTT-AAATTATCTT
*
132665365 TTCTTTAAATTATTTT
1 TTCTTTAAATTATCTT
132665381 TTCTTTA
1 TTCTTTA
132665388 TTTTAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (16 bp):
TTCTTTAAATTATCTT
Found at i:132666822 original size:6 final size:6
Alignment explanation
Indices: 132666811--132666839 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
132666801 TCGGCTTTTT
132666811 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
132666840 GGTGGGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:132668019 original size:215 final size:216
Alignment explanation
Indices: 132667419--132668476 Score: 1555
Period size: 215 Copynumber: 4.9 Consensus size: 216
132667409 ATGTGAGCCT
* *
132667419 TGAGATAAAACCCGAAGTAGAATTAAGACACATCAATATATATATCCATTTGTATATCTCAATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATC-ATATATATATCCATTTGTATATCTC-----
* ** *
132667484 ATATATATATATAACATACGCATGTCTAGTTAGAATATTTAGACAAGTTGTCGGCCACCTTATCT
60 A-ATATATATAT-ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCT
* * *
132667549 GTAAAATGTGATCATTTTGGCAAATATTCCATATTTAAGAACTTTCCTGGAAAATTTTCTGAAAC
123 GTAAAATGTGATCATTTTAGCAAATATTCCAT-CTTAAGAACTTTCCTGGAAATTTTTCTGAAAC
*
132667614 TATGACCCATCAAGGCTCTTGGCAGAATCG
187 TATGACCCATCAAGGCTCTTAGCAGAATCG
* *
132667644 TAAGATAAAACCTGAAGCAGAATTGAGACACATCAATATATATATATCCATTTGTATATCTCAAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATC---ATATATATATCCATTTGTATATCTCAAT
* * * *
132667709 ATATATACACATACGCATGTGTGGTTAGAATATTTGGACAAGTTGTCCTCTACCTTATCTGTAAA
63 ATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAA
132667774 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACTATGAC
128 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACTATGAC
*
132667839 CCATCAAGGCTCTTAGCAGAATGG
193 CCATCAAGGCTCTTAGCAGAATCG
* *
132667863 TGAGATAAAACCCGAAGCAGAATTGAGACACTTCA-ATATATATCCAATTGTATATCTCAATATA
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCATATATATATCCATTTGTATATCTCAATATA
* *
132667927 TATATACATACGCATGTCTAGTTAGACTATTTGGACAAGTTGTCATCTATCTTATCTGTAAAATG
66 TATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAATG
* *
132667992 TGATTATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCCA
131 TGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACTATGACCCA
* *
132668057 TCAAGACTCTTAGCAGAGTCG
196 TCAAGGCTCTTAGCAGAATCG
* *
132668078 TGAGATAGAACCCGAAGCAGAACTGAGACACATCAATATATATATCCATTTG------T---TAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATC-ATATATATATCCATTTGTATATCTCAATAT
*
132668134 ATATATACATACGCATGTCTAGTTAGAATATTTGGTCAAGTTGTCATCTACCTTATCTGTAAAAT
65 ATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
* *
132668199 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTACTGGAAATTTTTCTGAAACTATGACTC
130 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACTATGACCC
*
132668264 ATCAAGGCTCTTAGCAGAGTCG
195 ATCAAGGCTCTTAGCAGAATCG
* *
132668286 TGAGGTAAAACCCAAAGCAGAATTGAGCCACACCAAT-ATATATATATCCATTTGTATATCTCAA
1 TGAGATAAAACCCGAAGCAGAATTGAG--ACA-C-ATCATATATATATCCATTTGTATATCTCAA
*
132668350 TATATATATACACATACGCGTGTCTAGTTAGAAT-TTTGGACAAGTTGTCATCTACCTTATCTGT
62 TATATATAT--ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGT
132668414 AAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACT
125 AAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACT
132668477 TTTTTTTTCC
Statistics
Matches: 763, Mismatches: 51, Indels: 43
0.89 0.06 0.05
Matches are distributed among these distances:
208 170 0.22
210 20 0.03
211 2 0.00
212 2 0.00
215 199 0.26
216 3 0.00
217 14 0.02
219 98 0.13
220 168 0.22
221 31 0.04
222 1 0.00
225 30 0.04
227 25 0.03
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (216 bp):
TGAGATAAAACCCGAAGCAGAATTGAGACACATCATATATATATCCATTTGTATATCTCAATATA
TATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAATG
TGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACTATGACCCA
TCAAGGCTCTTAGCAGAATCG
Found at i:132668161 original size:423 final size:431
Alignment explanation
Indices: 132667419--132668476 Score: 1596
Period size: 423 Copynumber: 2.4 Consensus size: 431
132667409 ATGTGAGCCT
* *
132667419 TGAGATAAAACCCGAAGTAGAATTAAGACACATCAATATATATATCCATTTGTATATCTCAATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATC-ATATATATATCCATTTGTATATCTC-----
* ** *
132667484 ATATATATATATAACATACGCATGTCTAGTTAGAATATTTAGACAAGTTGTCGGCCACCTTATCT
60 A-ATATATATATAACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCT
* *
132667549 GTAAAATGTGATCATTTTGGCAAATATTCCATATTTAAGAACTTTCCTGGAAAATTTTCTGAAAC
124 GTAAAATGTGATCATTTTAGCAAATATTCCAT-CTTAAGAACTTTCCTGGAAAATTTTCTGAAAC
* * * *
132667614 TATGACCCATCAAGGCTCTTGGCAGAATCGTAAGATAAAACCTGAAGCAGAATTGAGACACATCA
188 TATGACCCATCAAGACTCTTAGCAGAATCGTAAGATAAAACCCGAAGCAGAACTGAGACACATCA
* *
132667679 ATATATATATATCCATTTGTATATCTCAATATATATACACATACGCATGTGTGGTTAGAATATTT
253 ATATATATATATCCATTTG---ATCT-AATATATATA-ACATACGCATGTCTAGTTAGAATATTT
*
132667744 GGACAAGTTGTCCTCTACCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAA
313 GGACAAGTTGTCATCTACCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAA
* *
132667809 CTTTCCTGGAAATTTTTCTGAAACTATGACCCATCAAGGCTCTTAGCAGAATGG
378 CTTTACTGGAAATTTTTCTGAAACTATGACCCATCAAGGCTCTTAGCAGAATCG
* *
132667863 TGAGATAAAACCCGAAGCAGAATTGAGACACTTCA-ATATATATCCAATTGTATATCTCAATATA
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCATATATATATCCATTTGTATATCTCAATATA
* *
132667927 TATAT-ACATACGCATGTCTAGTTAGACTATTTGGACAAGTTGTCATCTATCTTATCTGTAAAAT
66 TATATAACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
*
132667991 GTGATTATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
131 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
* * *
132668056 ATCAAGACTCTTAGCAGAGTCGTGAGATAGAACCCGAAGCAGAACTGAGACACATC-A-ATATAT
196 ATCAAGACTCTTAGCAGAATCGTAAGATAAAACCCGAAGCAGAACTGAGACACATCAATATATAT
*
132668119 ATATCCATTTG-T-T-ATATATAT-ACATACGCATGTCTAGTTAGAATATTTGGTCAAGTTGTCA
261 ATATCCATTTGATCTAATATATATAACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCA
132668180 TCTACCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTACTGGAAAT
326 TCTACCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTACTGGAAAT
* *
132668245 TTTTCTGAAACTATGACTCATCAAGGCTCTTAGCAGAGTCG
391 TTTTCTGAAACTATGACCCATCAAGGCTCTTAGCAGAATCG
* *
132668286 TGAGGTAAAACCCAAAGCAGAATTGAGCCACACCAAT-ATATATATATCCATTTGTATATCTCAA
1 TGAGATAAAACCCGAAGCAGAATTGAG--ACA-C-ATCATATATATATCCATTTGTATATCTCAA
*
132668350 TATATATATACACATACGCGTGTCTAGTTAGAAT-TTTGGACAAGTTGTCATCTACCTTATCTGT
62 TATATATATA-ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGT
*
132668414 AAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACT
126 AAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACT
132668477 TTTTTTTTCC
Statistics
Matches: 570, Mismatches: 37, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
423 163 0.29
425 11 0.02
426 2 0.00
427 35 0.06
428 91 0.16
429 21 0.04
432 17 0.03
433 1 0.00
434 88 0.15
435 76 0.13
436 10 0.02
437 1 0.00
442 22 0.04
443 1 0.00
444 31 0.05
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (431 bp):
TGAGATAAAACCCGAAGCAGAATTGAGACACATCATATATATATCCATTTGTATATCTCAATATA
TATATAACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
ATCAAGACTCTTAGCAGAATCGTAAGATAAAACCCGAAGCAGAACTGAGACACATCAATATATAT
ATATCCATTTGATCTAATATATATAACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCA
TCTACCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTACTGGAAAT
TTTTCTGAAACTATGACCCATCAAGGCTCTTAGCAGAATCG
Found at i:132668251 original size:208 final size:212
Alignment explanation
Indices: 132667485--132668476 Score: 1339
Period size: 208 Copynumber: 4.6 Consensus size: 212
132667475 TCTCAATATA
* ** *
132667485 TATATATATATAACATACGCATGTCTAGTTAGAATATTTAGACAAGTTGTCGGCCACCTTATCTG
1 TATATATATAT-ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTG
* * *
132667550 TAAAATGTGATCATTTTGGCAAATATTCCATATTTAAGAACTTTCCTGGAAAATTTTCTGAAACT
65 TAAAATGTGATCATTTTAGCAAATATTCCAT-CTTAAGAACTTTCCTGGAAATTTTTCTGAAACT
* * * * ** * *
132667615 ATGACCCATCAAGGCTCTTGGCAGAATCGTAAGATAAAACCTGAAGCAGAATTGAGACACATCAA
129 ATGACCCATCAAGACTCTTAGCAGAGTCGTGAGATAAAACCCAAAGCAGAACTGAGACACACCAA
132667680 TATATATATATCCATTTGT
194 TATATATATATCCATTTGT
* * *
132667699 ATATCTCAATATATATACACATACGCATGTGTGGTTAGAATATTTGGACAAGTTGTCCTCTACCT
1 -TA--T--ATATATAT--ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCT
132667764 TATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTG
59 TATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTG
* * * * *
132667829 AAACTATGACCCATCAAGGCTCTTAGCAGAATGGTGAGATAAAACCCGAAGCAGAATTGAGACAC
124 AAACTATGACCCATCAAGACTCTTAGCAGAGTCGTGAGATAAAACCCAAAGCAGAACTGAGACAC
** ** * *
132667894 TTCAATATATATCCA-ATTGTATATCT
189 ACCAATATATAT--ATA-TCCATTTGT
* * *
132667920 CAATATATATATACATACGCATGTCTAGTTAGACTATTTGGACAAGTTGTCATCTATCTTATCTG
1 -TATATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTG
* *
132667985 TAAAATGTGATTATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTA
65 TAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACTA
* * *
132668050 TGACCCATCAAGACTCTTAGCAGAGTCGTGAGATAGAACCCGAAGCAGAACTGAGACACATC-A-
130 TGACCCATCAAGACTCTTAGCAGAGTCGTGAGATAAAACCCAAAGCAGAACTGAGACACACCAAT
132668113 ATATATATATCCATTTG-
195 ATATATATATCCATTTGT
*
132668130 T-TATATATATACATACGCATGTCTAGTTAGAATATTTGGTCAAGTTGTCATCTACCTTATCTGT
1 TATATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGT
*
132668194 AAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTACTGGAAATTTTTCTGAAACTAT
66 AAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACTAT
* * * * *
132668259 GACTCATCAAGGCTCTTAGCAGAGTCGTGAGGTAAAACCCAAAGCAGAATTGAGCCACACCAATA
131 GACCCATCAAGACTCTTAGCAGAGTCGTGAGATAAAACCCAAAGCAGAACTGAGACACACCAATA
132668324 TATATATATCCATTTGTATAT
196 TATATATATCCATTTG----T
*
132668345 CTCAATATATATATACACATACGCGTGTCTAGTTAGAAT-TTTGGACAAGTTGTCATCTACCTTA
1 -T--ATATATATAT--ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTA
132668409 TCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAA
61 TCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAA
132668474 ACT
126 ACT
132668477 TTTTTTTTCC
Statistics
Matches: 699, Mismatches: 56, Indels: 39
0.88 0.07 0.05
Matches are distributed among these distances:
208 175 0.25
209 1 0.00
210 17 0.02
211 5 0.01
212 1 0.00
213 6 0.01
214 1 0.00
215 169 0.24
216 1 0.00
217 9 0.01
219 116 0.17
220 169 0.24
221 29 0.04
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (212 bp):
TATATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGT
AAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACTAT
GACCCATCAAGACTCTTAGCAGAGTCGTGAGATAAAACCCAAAGCAGAACTGAGACACACCAATA
TATATATATCCATTTGT
Found at i:132670768 original size:3 final size:3
Alignment explanation
Indices: 132670760--132670794 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
132670750 TGATTTCTTT
132670760 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
132670795 TTTAGTTCGG
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:132672897 original size:24 final size:23
Alignment explanation
Indices: 132672868--132672919 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 23
132672858 GTAACAAGTC
132672868 CATCTTCTTAGCTTTCACTAGAG
1 CATCTTCTTAGCTTTCACTAGAG
132672891 TCATCTTCTTAGCTTTCACTAGAG
1 -CATCTTCTTAGCTTTCACTAGAG
132672915 CATCT
1 CATCT
132672920 GTGGTGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (23 bp):
CATCTTCTTAGCTTTCACTAGAG
Found at i:132673470 original size:2 final size:2
Alignment explanation
Indices: 132673463--132673491 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
132673453 TGATATTTAA
132673463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
132673492 ATGACCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:132678809 original size:12 final size:14
Alignment explanation
Indices: 132678788--132678820 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
132678778 AATAATTCAG
132678788 TTTTTAGAAATC-A
1 TTTTTAGAAATCAA
132678801 TTTTT-GAAATCAA
1 TTTTTAGAAATCAA
132678814 TTTTTAG
1 TTTTTAG
132678821 TGAAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 11 0.61
14 1 0.06
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (14 bp):
TTTTTAGAAATCAA
Found at i:132681037 original size:22 final size:22
Alignment explanation
Indices: 132680989--132681037 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
132680979 TGAATTATCT
* *
132680989 GTTTTCTTTTAATATTTTATTA
1 GTTTTCTTTTAATATTTAAATA
* * *
132681011 ATTTTCTTTTTATATTTAAATG
1 GTTTTCTTTTAATATTTAAATA
132681033 GTTTT
1 GTTTT
132681038 GAATTTTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.67
Consensus pattern (22 bp):
GTTTTCTTTTAATATTTAAATA
Found at i:132681434 original size:12 final size:12
Alignment explanation
Indices: 132681411--132681459 Score: 62
Period size: 12 Copynumber: 3.8 Consensus size: 12
132681401 TAAATATTTT
132681411 CAATATATTAAAA
1 CAATA-ATTAAAA
132681424 CAATAATTAAAA
1 CAATAATTAAAA
*
132681436 GTAAATAATTAAAA
1 --CAATAATTAAAA
132681450 CAATAATTAA
1 CAATAATTAA
132681460 TATCATGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 16 0.50
13 5 0.16
14 11 0.34
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (12 bp):
CAATAATTAAAA
Found at i:132683092 original size:25 final size:26
Alignment explanation
Indices: 132683058--132683108 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
132683048 TATTATTCTA
132683058 CATTTAAATTTTATT-ATATATATTC
1 CATTTAAATTTTATTGATATATATTC
* *
132683083 CATTTAAATTTTTTTGATTTATATTC
1 CATTTAAATTTTATTGATATATATTC
132683109 AAATATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (26 bp):
CATTTAAATTTTATTGATATATATTC
Found at i:132683095 original size:26 final size:25
Alignment explanation
Indices: 132683058--132683108 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
132683048 TATTATTCTA
132683058 CATTTAAATTTTATT-ATATATATTC
1 CATTTAAATTTT-TTGATATATATTC
*
132683083 CATTTAAATTTTTTTGATTTATATTC
1 CATTTAAA-TTTTTTGATATATATTC
132683109 AAATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (25 bp):
CATTTAAATTTTTTGATATATATTC
Found at i:132689065 original size:26 final size:25
Alignment explanation
Indices: 132689026--132689098 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 25
132689016 ACCCTCCATC
**
132689026 TAATTTATTTATTTTTAATAAATTGA
1 TAATTTATAAATTTTTAATAAATT-A
*
132689052 TAATTTATAAATTTATAAATAAATTA
1 TAATTTATAAATTT-TTAATAAATTA
* * *
132689078 T-CTTTATAAATTATTAGTAAA
1 TAATTTATAAATTTTTAATAAA
132689099 CTATTACAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 6 0.15
25 10 0.26
26 14 0.36
27 9 0.23
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (25 bp):
TAATTTATAAATTTTTAATAAATTA
Found at i:132690291 original size:30 final size:30
Alignment explanation
Indices: 132690256--132690421 Score: 226
Period size: 30 Copynumber: 5.5 Consensus size: 30
132690246 ACCCCAGTTT
* *
132690256 CAACTCCTCCACCCAG-TTCTCCTCCTCCCG
1 CAACTCCACCA-CCAGCTTCTCCACCTCCCG
* *
132690286 CAACTCCACCACCTGCTTCTCCACCTCCTG
1 CAACTCCACCACCAGCTTCTCCACCTCCCG
* *
132690316 CAACTCCACCTCCAGCTTCTCCACCTCCTG
1 CAACTCCACCACCAGCTTCTCCACCTCCCG
*
132690346 CAACTCCACCTCCAGCTTCTCCACCTCCCG
1 CAACTCCACCACCAGCTTCTCCACCTCCCG
* *
132690376 CCACTCCTCCACCAGCTTCTCCACCTCCCG
1 CAACTCCACCACCAGCTTCTCCACCTCCCG
*
132690406 CCACTCCACCACCAGC
1 CAACTCCACCACCAGC
132690422 GACCCCCCCA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
29 3 0.02
30 121 0.98
ACGTcount: A:0.16, C:0.57, G:0.07, T:0.20
Consensus pattern (30 bp):
CAACTCCACCACCAGCTTCTCCACCTCCCG
Found at i:132690292 original size:15 final size:15
Alignment explanation
Indices: 132690274--132690415 Score: 104
Period size: 15 Copynumber: 9.5 Consensus size: 15
132690264 CCACCCAGTT
* *
132690274 CTCCTCCTCCCGCAA
1 CTCCACCTCCTGCAA
* **
132690289 CTCCACCACCTGCTT
1 CTCCACCTCCTGCAA
132690304 CTCCACCTCCTGCAA
1 CTCCACCTCCTGCAA
* **
132690319 CTCCACCTCCAGCTT
1 CTCCACCTCCTGCAA
132690334 CTCCACCTCCTGCAA
1 CTCCACCTCCTGCAA
* **
132690349 CTCCACCTCCAGCTT
1 CTCCACCTCCTGCAA
* *
132690364 CTCCACCTCCCGCCA
1 CTCCACCTCCTGCAA
* * * **
132690379 CTCCTCCACCAGCTT
1 CTCCACCTCCTGCAA
* *
132690394 CTCCACCTCCCGCCA
1 CTCCACCTCCTGCAA
132690409 CTCCACC
1 CTCCACC
132690416 ACCAGCGACC
Statistics
Matches: 97, Mismatches: 30, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 97 1.00
ACGTcount: A:0.15, C:0.58, G:0.06, T:0.21
Consensus pattern (15 bp):
CTCCACCTCCTGCAA
Found at i:132690433 original size:45 final size:45
Alignment explanation
Indices: 132690274--132690436 Score: 146
Period size: 45 Copynumber: 3.6 Consensus size: 45
132690264 CCACCCAGTT
* * * *
132690274 CTCCTCCTCCCGCAACTCCACCACCTGCTTCTCCACCTCCTGCAA
1 CTCCACCTCCAGCCACTCCACCACCTGCTTCTCCACCTCCAGCAA
** * ** **
132690319 CTCCACCTCCAGCTTCTCCACCTCCTGCAACTCCACCTCCAGCTT
1 CTCCACCTCCAGCCACTCCACCACCTGCTTCTCCACCTCCAGCAA
* * * * *
132690364 CTCCACCTCCCGCCACTCCTCCACCAGCTTCTCCACCTCCCGCCA
1 CTCCACCTCCAGCCACTCCACCACCTGCTTCTCCACCTCCAGCAA
* * * *
132690409 CTCCACCACCAGCGACCCCCCCACCTGC
1 CTCCACCTCCAGCCACTCCACCACCTGC
132690437 AACTCCTCCT
Statistics
Matches: 91, Mismatches: 27, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.15, C:0.58, G:0.07, T:0.19
Consensus pattern (45 bp):
CTCCACCTCCAGCCACTCCACCACCTGCTTCTCCACCTCCAGCAA
Found at i:132690442 original size:60 final size:60
Alignment explanation
Indices: 132690256--132690445 Score: 238
Period size: 60 Copynumber: 3.2 Consensus size: 60
132690246 ACCCCAGTTT
* *
132690256 CAACTCCTCCACCCAG-TTCTCCTCCTCCCGCAACTCCACCACCTGCTTCTCCACCTCCTG
1 CAACTCCTCCA-CCAGCTTCTCCACCTCCCGCAACTCCACCACCAGCTTCTCCACCTCCTG
* * * * *
132690316 CAACTCCACCTCCAGCTTCTCCACCTCCTGCAACTCCACCTCCAGCTTCTCCACCTCCCG
1 CAACTCCTCCACCAGCTTCTCCACCTCCCGCAACTCCACCACCAGCTTCTCCACCTCCTG
* * ** * * *
132690376 CCACTCCTCCACCAGCTTCTCCACCTCCCGCCACTCCACCACCAGCGACCCCCCCACCTG
1 CAACTCCTCCACCAGCTTCTCCACCTCCCGCAACTCCACCACCAGCTTCTCCACCTCCTG
132690436 CAACTCCTCC
1 CAACTCCTCC
132690446 TGCTACCCCA
Statistics
Matches: 109, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 4 0.04
60 105 0.96
ACGTcount: A:0.16, C:0.57, G:0.07, T:0.19
Consensus pattern (60 bp):
CAACTCCTCCACCAGCTTCTCCACCTCCCGCAACTCCACCACCAGCTTCTCCACCTCCTG
Found at i:132693159 original size:29 final size:31
Alignment explanation
Indices: 132693126--132693184 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 31
132693116 CTTCCCCCTC
132693126 CCTTCTCTCTC-TTTTTTTT-CTTCTCTCTT
1 CCTTCTCTCTCTTTTTTTTTCCTTCTCTCTT
132693155 CCTTCTCTCTCTTTTTTTTTCCTTCTCTCT
1 CCTTCTCTCTCTTTTTTTTTCCTTCTCTCT
132693185 CTTTTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 8 0.29
31 9 0.32
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (31 bp):
CCTTCTCTCTCTTTTTTTTTCCTTCTCTCTT
Found at i:132693167 original size:20 final size:20
Alignment explanation
Indices: 132693144--132693187 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
132693134 CTCTTTTTTT
132693144 TCTTCTCTCTTCCTTCTCTC
1 TCTTCTCTCTTCCTTCTCTC
* * *
132693164 TCTTTTTTTTTCCTTCTCTC
1 TCTTCTCTCTTCCTTCTCTC
132693184 TCTT
1 TCTT
132693188 TTTTTTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TCTTCTCTCTTCCTTCTCTC
Found at i:132693172 original size:31 final size:29
Alignment explanation
Indices: 132693126--132693184 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
132693116 CTTCCCCCTC
*
132693126 CCTTCTCTCTCTTTTTTTTCTTCTCTCTT
1 CCTTCTCTCTCTTTTTTTCCTTCTCTCTT
132693155 CCTTCTCTCTCTTTTTTTTTCCTTCTCTCT
1 CCTTCTCTCTC--TTTTTTTCCTTCTCTCT
132693185 CTTTTTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
31 16 0.59
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (29 bp):
CCTTCTCTCTCTTTTTTTCCTTCTCTCTT
Found at i:132693188 original size:20 final size:19
Alignment explanation
Indices: 132693153--132693202 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
132693143 TTCTTCTCTC
132693153 TTCCTTCTCTCTCTTTTTTT
1 TTCCTTCTCTCTC-TTTTTT
132693173 TTCCTTCTCTCTCTTTTTT
1 TTCCTTCTCTCTCTTTTTT
*
132693192 TTCTTTCTCTC
1 TTCCTTCTCTC
132693203 CTCACCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCCTTCTCTCTCTTTTTT
Found at i:132693815 original size:22 final size:24
Alignment explanation
Indices: 132693789--132693836 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
132693779 ATGTTGTTAA
*
132693789 TTTATTA-CTTTA-TTTTAATATT
1 TTTATTATATTTACTTTTAATATT
*
132693811 TTTATTATATTTACTTTTTATATT
1 TTTATTATATTTACTTTTAATATT
132693835 TT
1 TT
132693837 AATATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 11 0.50
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTATTATATTTACTTTTAATATT
Found at i:132693917 original size:23 final size:24
Alignment explanation
Indices: 132693885--132693929 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
132693875 ATATTTTTTA
132693885 TTTTATATATATATATGTATATGT
1 TTTTATATATATATATGTATATGT
*
132693909 TTTTA-ATATATTTATGTATAT
1 TTTTATATATATATATGTATAT
132693930 ACTTATGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (24 bp):
TTTTATATATATATATGTATATGT
Found at i:132694149 original size:19 final size:19
Alignment explanation
Indices: 132694125--132694161 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
132694115 CTATTTTATA
*
132694125 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
132694144 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
132694162 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:132694270 original size:20 final size:20
Alignment explanation
Indices: 132694166--132694271 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 20
132694156 ATCATTATTA
132694166 TTTATATATATATGTATGTA-
1 TTTATATAT-TATGTATGTAT
* *
132694186 TTTATATAGCGTATGAATAGT-T
1 TTTATATA--TTATGTAT-GTAT
* * * *
132694208 TTTATATTATTATCATTTCTAA
1 TTTATA-TATTAT-GTATGTAT
*
132694230 TATATATATTA--TATGTAT
1 TTTATATATTATGTATGTAT
132694248 TTTATATATTATGTATGTAT
1 TTTATATATTATGTATGTAT
132694268 TTTA
1 TTTA
132694272 ATGTTATTAG
Statistics
Matches: 64, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
18 14 0.22
20 19 0.30
21 15 0.23
22 14 0.22
23 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTATATATTATGTATGTAT
Found at i:132694561 original size:37 final size:35
Alignment explanation
Indices: 132694496--132694565 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
132694486 TTATATATAG
132694496 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
132694533 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
132694566 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:132694700 original size:25 final size:24
Alignment explanation
Indices: 132694672--132694727 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
132694662 GTTATATTTT
*
132694672 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
132694697 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
132694720 CACTATTA
1 CACTATTA
132694728 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:132704273 original size:13 final size:13
Alignment explanation
Indices: 132704255--132704280 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132704245 TTGTCCTAGT
132704255 GATTAAATTAAAA
1 GATTAAATTAAAA
132704268 GATTAAATTAAAA
1 GATTAAATTAAAA
132704281 ATAAGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
GATTAAATTAAAA
Found at i:132708222 original size:15 final size:15
Alignment explanation
Indices: 132708197--132708262 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
132708187 AATTTAAGAT
* *
132708197 AAAATTTAAAATATA
1 AAAATATAAAAAATA
132708212 AAAA-ATAAAAATAATA
1 AAAATAT-AAAA-AATA
* *
132708228 AAAATTTTAAAAATA
1 AAAATATAAAAAATA
132708243 AAAATATAAAAAATA
1 AAAATATAAAAAATA
*
132708258 TAAAT
1 AAAAT
132708263 TTAACTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 1 0.02
15 29 0.71
16 10 0.24
17 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATATAAAAAATA
Found at i:132708231 original size:24 final size:24
Alignment explanation
Indices: 132708204--132708261 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
132708194 GATAAAATTT
132708204 AAAATATAAAAAATAAAAATA-ATA
1 AAAATATAAAAAATAAAAATATA-A
* *
132708228 AAAATTTTAAAAATAAAAATATAA
1 AAAATATAAAAAATAAAAATATAA
132708252 AAAATATAAA
1 AAAATATAAA
132708262 TTTAACTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAATATAAAAAATAAAAATATAA
Found at i:132710551 original size:78 final size:78
Alignment explanation
Indices: 132710422--132710575 Score: 308
Period size: 78 Copynumber: 2.0 Consensus size: 78
132710412 ATTTCTATGG
132710422 TTAAATATTGATAAACACTGACTACATCTTCATATCTCCTTGGATTCCTTGAGCTGAAGAAACAT
1 TTAAATATTGATAAACACTGACTACATCTTCATATCTCCTTGGATTCCTTGAGCTGAAGAAACAT
132710487 AATTTTCCTTTGC
66 AATTTTCCTTTGC
132710500 TTAAATATTGATAAACACTGACTACATCTTCATATCTCCTTGGATTCCTTGAGCTGAAGAAACAT
1 TTAAATATTGATAAACACTGACTACATCTTCATATCTCCTTGGATTCCTTGAGCTGAAGAAACAT
132710565 AATTTTCCTTT
66 AATTTTCCTTT
132710576 ATTCTTCAGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (78 bp):
TTAAATATTGATAAACACTGACTACATCTTCATATCTCCTTGGATTCCTTGAGCTGAAGAAACAT
AATTTTCCTTTGC
Found at i:132715836 original size:45 final size:45
Alignment explanation
Indices: 132715772--132715861 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
132715762 ATTTCATTCC
132715772 TCAGTGCCAACTCACTGAGTTTTACCTTTTTCATTCAGCTGATAG
1 TCAGTGCCAACTCACTGAGTTTTACCTTTTTCATTCAGCTGATAG
132715817 TCAGTGCCAACTCACTGAGTTTTACCTTTTTCATTCAGCTGATAG
1 TCAGTGCCAACTCACTGAGTTTTACCTTTTTCATTCAGCTGATAG
132715862 CAGGTTCAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (45 bp):
TCAGTGCCAACTCACTGAGTTTTACCTTTTTCATTCAGCTGATAG
Found at i:132719600 original size:30 final size:30
Alignment explanation
Indices: 132719546--132719633 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
132719536 AAAAAAAGCA
**
132719546 GTTTAATT-AAAGTTTTAAAAAATTTTGAGG
1 GTTTAATTGAAA-TTTTTCAAAATTTTGAGG
* * *
132719576 GTTTGA-TGAGAATTTTTGAAAATTTAGAGG
1 GTTTAATTGA-AATTTTTCAAAATTTTGAGG
*
132719606 GTTTAATTGAAATTTTTCAAAAATTTGA
1 GTTTAATTGAAATTTTTCAAAATTTTGA
132719634 AAGGTATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 1 0.02
30 41 0.87
31 5 0.11
ACGTcount: A:0.38, C:0.01, G:0.18, T:0.43
Consensus pattern (30 bp):
GTTTAATTGAAATTTTTCAAAATTTTGAGG
Found at i:132721977 original size:21 final size:21
Alignment explanation
Indices: 132721925--132721977 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
132721915 TATAAAAAAT
132721925 ATTATATTAATTATATATTTAA
1 ATTATATT-ATTATATATTTAA
*
132721947 ATAATAATTA-TATATATTTATA
1 ATTAT-ATTATTATATATTTA-A
*
132721969 TTTATATTA
1 ATTATATTA
132721978 AATTACTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATATTATTATATATTTAA
Found at i:132723226 original size:2 final size:2
Alignment explanation
Indices: 132723221--132723247 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
132723211 GAGAGGAGAG
132723221 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
132723248 GAGATCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:132725494 original size:20 final size:20
Alignment explanation
Indices: 132725446--132725487 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
132725436 CGATGAAAAC
132725446 GTAAACTTATTAATAATTTA
1 GTAAACTTATTAATAATTTA
132725466 GTAAACTTATTAATAATTTA
1 GTAAACTTATTAATAATTTA
132725486 GT
1 GT
132725488 GACCTTAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
GTAAACTTATTAATAATTTA
Found at i:132725581 original size:16 final size:15
Alignment explanation
Indices: 132725540--132725593 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
132725530 AATAAATTTT
132725540 TATTTTTA-TTTA-A
1 TATTTTTATTTTATA
132725553 TATTTATTAATTTTATA
1 TATTT-TT-ATTTTATA
132725570 TACTTTTTATTTTATA
1 TA-TTTTTATTTTATA
*
132725586 AATTTTTA
1 TATTTTTA
132725594 AACATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 5 0.14
14 2 0.06
15 7 0.20
16 13 0.37
17 5 0.14
18 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTATTTTATA
Found at i:132727606 original size:55 final size:55
Alignment explanation
Indices: 132727506--132727609 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
132727496 TTAAGGATAC
* * *
132727506 CATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGACAATTGATAAGGTTTATAAGGCAAGGAAAT
* *
132727561 CATGTAAGACCATGTCAAGACATGGC-ATTGATAA-GTTACTATAAGGCAA
1 CATGTAAGACCATGCCAAGACATGACAATTGATAAGGTT--TATAAGGCAA
132727610 AGGTCCCATG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
53 3 0.07
54 7 0.17
55 32 0.76
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGACATGACAATTGATAAGGTTTATAAGGCAAGGAAAT
Found at i:132727904 original size:16 final size:16
Alignment explanation
Indices: 132727883--132727913 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
132727873 ATAAATTTGA
132727883 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
132727899 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
132727914 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:132732810 original size:11 final size:11
Alignment explanation
Indices: 132732794--132732820 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
132732784 TTCTCCATTG
132732794 GGGGTGGGGGT
1 GGGGTGGGGGT
132732805 GGGGTGGGGGT
1 GGGGTGGGGGT
132732816 GGGGT
1 GGGGT
132732821 TAGGGTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (11 bp):
GGGGTGGGGGT
Found at i:132732826 original size:17 final size:17
Alignment explanation
Indices: 132732792--132732826 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
132732782 TTTTCTCCAT
*
132732792 TGGGGGTGGGGGTGGGG
1 TGGGGGTGGGGGTAGGG
*
132732809 TGGGGGTGGGGTTAGGG
1 TGGGGGTGGGGGTAGGG
132732826 T
1 T
132732827 TAGTGTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.00, G:0.74, T:0.23
Consensus pattern (17 bp):
TGGGGGTGGGGGTAGGG
Found at i:132737595 original size:2 final size:2
Alignment explanation
Indices: 132737588--132737614 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
132737578 ATAAGTTATG
132737588 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 A
132737615 ATTTTTAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:132737830 original size:19 final size:19
Alignment explanation
Indices: 132737807--132737906 Score: 84
Period size: 19 Copynumber: 5.3 Consensus size: 19
132737797 TAGTATGATA
132737807 ATTTTATAATTTTT-TACAT
1 ATTTTATAATTTTTCTA-AT
* *
132737826 TTTTTAT-ATTTTTTTACA-
1 ATTTTATAATTTTTCTA-AT
* *
132737844 ACTTTATAATATTTTATAAT
1 ATTTTATAAT-TTTTCTAAT
*
132737864 ATTTTCT-ATTTTTCTATAT
1 ATTTTATAATTTTTCTA-AT
132737883 ATTTTATAATTTTTCTAAT
1 ATTTTATAATTTTTCTAAT
132737902 -TTTTA
1 ATTTTA
132737907 ATAAATGTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
18 22 0.33
19 25 0.37
20 20 0.30
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTATAATTTTTCTAAT
Found at i:132737896 original size:9 final size:9
Alignment explanation
Indices: 132737804--132737976 Score: 67
Period size: 9 Copynumber: 19.0 Consensus size: 9
132737794 TTCTAGTATG
132737804 ATAA-TTTT
1 ATAATTTTT
132737812 ATAATTTTT
1 ATAATTTTT
132737821 -TACATTTTT
1 ATA-ATTTTT
132737830 -TATATTTTT
1 ATA-ATTTTT
* **
132737839 TTACAACTTT
1 ATA-ATTTTT
132737849 ATAATATTTT
1 ATAAT-TTTT
132737859 ATAATATTTT
1 ATAAT-TTTT
*
132737869 CT-ATTTTT
1 ATAATTTTT
*
132737877 CTATATATTTT
1 ATA-AT-TTTT
132737888 ATAATTTTT
1 ATAATTTTT
*
132737897 CTAATTTTT
1 ATAATTTTT
* *
132737906 AATAAATGTT
1 -ATAATTTTT
132737916 A-AATTTTTT
1 ATAA-TTTTT
* *
132737925 ATTAAAATTTA
1 A-T-AATTTTT
132737936 ATAA--TTT
1 ATAATTTTT
*
132737943 ATAACTTTT
1 ATAATTTTT
*
132737952 ATTATTTTT
1 ATAATTTTT
132737961 AT--TTTTT
1 ATAATTTTT
*
132737968 ATCATTTTT
1 ATAATTTTT
132737977 TTTGCCACAT
Statistics
Matches: 129, Mismatches: 20, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
7 13 0.10
8 14 0.11
9 57 0.44
10 33 0.26
11 10 0.08
12 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:132738877 original size:22 final size:22
Alignment explanation
Indices: 132738849--132738892 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
132738839 AATATTAATT
132738849 TTTTATTTT-TTTAAATTATTTA
1 TTTTATTTTATTTAAA-TATTTA
*
132738871 TTTTATTTTATTTTAATATTTA
1 TTTTATTTTATTTAAATATTTA
132738893 ATACTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTATTTTATTTAAATATTTA
Found at i:132741734 original size:2 final size:2
Alignment explanation
Indices: 132741727--132741764 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
132741717 TCTTTTCTTC
*
132741727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
132741765 TTTATAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:132748887 original size:17 final size:17
Alignment explanation
Indices: 132748867--132748899 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
132748857 ATATTTATTT
132748867 ATAATTAAT-ATAAAATA
1 ATAA-TAATAATAAAATA
132748884 ATAATAATAATAAAAT
1 ATAATAATAATAAAAT
132748900 TAAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATAATAATAAAATA
Found at i:132749730 original size:24 final size:24
Alignment explanation
Indices: 132749702--132749750 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
132749692 AAAGTCATCA
132749702 ACCAATAGAATTATTACACGTACT
1 ACCAATAGAATTATTACACGTACT
132749726 ACCAATAGAATTATTACACGTACT
1 ACCAATAGAATTATTACACGTACT
132749750 A
1 A
132749751 TGTTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (24 bp):
ACCAATAGAATTATTACACGTACT
Found at i:132751794 original size:16 final size:16
Alignment explanation
Indices: 132751773--132751806 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
132751763 GAGTAAACGT
132751773 GGAAGAAAG-GAAGAAG
1 GGAAGAAAGTG-AGAAG
132751789 GGAAGAAAGTGAGAAG
1 GGAAGAAAGTGAGAAG
132751805 GG
1 GG
132751807 GCAAAGGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (16 bp):
GGAAGAAAGTGAGAAG
Found at i:132763542 original size:125 final size:125
Alignment explanation
Indices: 132763413--132763726 Score: 466
Period size: 125 Copynumber: 2.5 Consensus size: 125
132763403 GCCAAATGGT
132763413 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCATT
* *
132763478 TTAATTTAAGAAAACATGGATGAAATTCCAAAAGGATATTCTGTATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATAGACGAAATTCCAAAAGGATATTCTGTATTTTAGTCGAATGAA
* * * * **
132763538 AAATCGAAATCCAACACAATTGGGCACGATTTATCGAACTTCCAAATACAAAATATTGCCTCGCT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCATT
* * *
132763603 TTAATTTAAGAGAACATAGACGAAATTTCAAAAGGATATTTTGTATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATAGACGAAATTCCAAAAGGATATTCTGTATTTTAGTCGAATGAA
* * * * * * *
132763663 AAATCGAAACCCAGCACGATTGGGTACGATCTCTCAAACTTCCAAACACGAAAGATTTCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCAT
132763727 GTTGAGGGGG
Statistics
Matches: 165, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
125 165 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCATT
TTAATTTAAGAAAACATAGACGAAATTCCAAAAGGATATTCTGTATTTTAGTCGAATGAA
Found at i:132764337 original size:29 final size:26
Alignment explanation
Indices: 132764273--132764324 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
132764263 AGCCAAATTG
* *
132764273 TACATAAATAAATTTTAAAGAAAATA
1 TACATAAATAAATCTAAAAGAAAATA
*
132764299 TATAT-AATAAATCTAAAAGAAAATA
1 TACATAAATAAATCTAAAAGAAAATA
132764324 T
1 T
132764325 TTACATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
TACATAAATAAATCTAAAAGAAAATA
Found at i:132769114 original size:22 final size:21
Alignment explanation
Indices: 132769075--132769136 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
132769065 TTTTATCGAT
*
132769075 GATTAATTAAAAAT-TTTAATA
1 GATTAAATAAAAATATTTAA-A
132769096 GATTAAATAAAAATATTTAAA
1 GATTAAATAAAAATATTTAAA
*
132769117 -ACTAAATAATAAA-ATTTAAA
1 GATTAAATAA-AAATATTTAAA
132769137 TGTTGAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.41
21 17 0.46
22 5 0.14
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (21 bp):
GATTAAATAAAAATATTTAAA
Found at i:132769122 original size:20 final size:20
Alignment explanation
Indices: 132769099--132769136 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
132769089 TTTAATAGAT
132769099 TAAATAA-AAATATTTAAAAC
1 TAAATAATAAA-ATTTAAAAC
132769119 TAAATAATAAAATTTAAA
1 TAAATAATAAAATTTAAA
132769137 TGTTGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAATAATAAAATTTAAAAC
Found at i:132781513 original size:16 final size:17
Alignment explanation
Indices: 132781492--132781525 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
132781482 TAGTTTTTTC
*
132781492 TTTAAAATTAT-AATTT
1 TTTAAAAATATAAATTT
132781508 TTTAAAAATATAAATTT
1 TTTAAAAATATAAATTT
132781525 T
1 T
132781526 AGAACTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAAAATATAAATTT
Found at i:132781562 original size:19 final size:20
Alignment explanation
Indices: 132781540--132781583 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
132781530 CTTTTATTAA
132781540 TATTTAGAA-TCTTGAAAAT
1 TATTTAGAATTCTTGAAAAT
* *
132781559 TATTTTGAATTTTTGAAAAT
1 TATTTAGAATTCTTGAAAAT
132781579 TATTT
1 TATTT
132781584 TAACATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (20 bp):
TATTTAGAATTCTTGAAAAT
Found at i:132785257 original size:19 final size:20
Alignment explanation
Indices: 132785233--132785273 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
132785223 TTTTTCTGTA
*
132785233 TTTGTTTCATAGAAAAT-AG
1 TTTGTTTAATAGAAAATGAG
132785252 TTTGTTTAATAGAAAATGAG
1 TTTGTTTAATAGAAAATGAG
132785272 TT
1 TT
132785274 ACAAGTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (20 bp):
TTTGTTTAATAGAAAATGAG
Found at i:132785517 original size:22 final size:22
Alignment explanation
Indices: 132785492--132785535 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
132785482 TAGTCTTATA
132785492 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
132785514 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
132785536 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:132785648 original size:15 final size:15
Alignment explanation
Indices: 132785628--132785684 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
132785618 TTCAATTATT
132785628 AATATTTTAATAATA
1 AATATTTTAATAATA
*
132785643 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
132785662 AATATATTAATAATA
1 AATATTTTAATAATA
*
132785677 AATGTTTT
1 AATATTTT
132785685 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:132785657 original size:19 final size:19
Alignment explanation
Indices: 132785630--132785666 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
132785620 CAATTATTAA
*
132785630 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
132785649 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
132785667 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:132785748 original size:30 final size:30
Alignment explanation
Indices: 132785712--132785782 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
132785702 ATATGTCATA
132785712 AGTCTATGTACACTTTACAGATTTGTAATT
1 AGTCTATGTACACTTTACAGATTTGTAATT
132785742 AGTCTATGTACACTTTACAGATTTGTAATT
1 AGTCTATGTACACTTTACAGATTTGTAATT
*
132785772 AGTCTTTGTAC
1 AGTCTATGTAC
132785783 TTTTATTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (30 bp):
AGTCTATGTACACTTTACAGATTTGTAATT
Found at i:132786190 original size:14 final size:14
Alignment explanation
Indices: 132786171--132786209 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
132786161 CTAAGAAAGT
132786171 AAATCATTTTCCAG
1 AAATCATTTTCCAG
**
132786185 AAATCATTTTCTGG
1 AAATCATTTTCCAG
*
132786199 AAGTCATTTTC
1 AAATCATTTTC
132786210 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:132795922 original size:42 final size:42
Alignment explanation
Indices: 132795830--132795924 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
132795820 CACTAAAAGT
* *
132795830 CATTACCTTTAGCATCACTTTTCCTACAAACGCCGCTATAAA
1 CATTACCTTTAGCAGCACTTTTCCTACAAACGCCGCTAAAAA
*
132795872 -ATGGACCTTTAGCAGCACTTTT-CTCACAAACGCCGCTAAAAA
1 CAT-TACCTTTAGCAGCACTTTTCCT-ACAAACGCCGCTAAAAA
132795914 CATTACCTTTA
1 CATTACCTTTA
132795925 AAAAAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 4 0.09
42 40 0.87
43 2 0.04
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.29
Consensus pattern (42 bp):
CATTACCTTTAGCAGCACTTTTCCTACAAACGCCGCTAAAAA
Found at i:132796692 original size:23 final size:23
Alignment explanation
Indices: 132796661--132797259 Score: 506
Period size: 23 Copynumber: 26.1 Consensus size: 23
132796651 AAATAAGTAC
* *
132796661 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
132796684 TTAAGCACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAGCAT
*
132796707 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
132796731 TT-AACA-TCTCAA-TTACCAACAT
1 TTAAACACT-TCAATTTA-CAGCAT
* *
132796753 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
132796775 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
132796798 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
132796821 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
132796844 TTAAGCCCTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
132796867 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* **
132796890 TCAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAGCA-T
132796914 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
132796936 TTCAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
132796959 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
132796983 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
132797005 TAAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
132797029 TT-AACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
132797051 CTAAACACTTAAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* **
132797074 TCAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAGCA-T
132797098 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
132797120 TAAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * * *
132797144 TT-GACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCAT
* * *
132797166 TTATACACCTCAA-TTACAACGA-
1 TTAAACACTTCAATTTACAGC-AT
* * *
132797188 TAAAACA-TCTCAATTTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
132797211 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
132797234 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
132797257 TTA
1 TTA
132797260 CTACTAATAT
Statistics
Matches: 463, Mismatches: 88, Indels: 50
0.77 0.15 0.08
Matches are distributed among these distances:
22 47 0.10
23 401 0.87
24 15 0.03
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:132802164 original size:15 final size:15
Alignment explanation
Indices: 132802130--132802205 Score: 66
Period size: 14 Copynumber: 5.1 Consensus size: 15
132802120 AAATATGAAC
* *
132802130 TAAAATATTAAATAT
1 TAAAATTTTAAATTT
132802145 T-AAATTTTAAATTT
1 TAAAATTTTAAATTT
* *
132802159 TAAAATTTTTTATTTT
1 TAAAA-TTTTAAATTT
**
132802175 TAAAATTTTTTATTT
1 TAAAATTTTAAATTT
132802190 T-AAATTTTAAAATTT
1 TAAAATTTT-AAATTT
132802205 T
1 T
132802206 TTTTTGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
14 19 0.38
15 18 0.36
16 13 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAAAATTTTAAATTT
Found at i:132802175 original size:16 final size:16
Alignment explanation
Indices: 132802156--132802190 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
132802146 AAATTTTAAA
132802156 TTTTAAAATTTTTTAT
1 TTTTAAAATTTTTTAT
132802172 TTTTAAAATTTTTTAT
1 TTTTAAAATTTTTTAT
132802188 TTT
1 TTT
132802191 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAAAATTTTTTAT
Found at i:132802190 original size:38 final size:38
Alignment explanation
Indices: 132802147--132802234 Score: 126
Period size: 38 Copynumber: 2.3 Consensus size: 38
132802137 TTAAATATTA
*
132802147 AATTTTAAATTTTAAAATTTTTTATTTTTAAAATTTTT-T
1 AATTTTAAATTTTAAAA-TTTTT-TTTTGAAAATTTTTAT
132802186 -ATTTTAAATTTTAAAATTTTTTTTTGAAAATTTTTAT
1 AATTTTAAATTTTAAAATTTTTTTTTGAAAATTTTTAT
132802223 AATTTTTAAATT
1 AA-TTTTAAATT
132802235 AACATATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
36 13 0.29
37 6 0.13
38 17 0.38
39 9 0.20
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (38 bp):
AATTTTAAATTTTAAAATTTTTTTTTGAAAATTTTTAT
Found at i:132802196 original size:7 final size:7
Alignment explanation
Indices: 132802132--132802205 Score: 58
Period size: 7 Copynumber: 10.0 Consensus size: 7
132802122 ATATGAACTA
*
132802132 AAATATT
1 AAATTTT
*
132802139 AAATATT
1 AAATTTT
132802146 AAATTTT
1 AAATTTT
132802153 AAATTTT
1 AAATTTT
132802160 AAAATTTTT
1 -AAA-TTTT
* *
132802169 TATTTTT
1 AAATTTT
132802176 AAAATTTT
1 -AAATTTT
**
132802184 TTATTTT
1 AAATTTT
132802191 AAATTTT
1 AAATTTT
132802198 AAAATTTT
1 -AAATTTT
132802206 TTTTTGAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
7 34 0.63
8 16 0.30
9 4 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AAATTTT
Found at i:132802220 original size:23 final size:23
Alignment explanation
Indices: 132802170--132802229 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
132802160 AAAATTTTTT
*
132802170 ATTTTTAAAATTTTTTATTTTAA
1 ATTTTTAAAATTTTTTATTTAAA
132802193 A-TTTTAAAATTTTTT-TTTGAAA
1 ATTTTTAAAATTTTTTATTT-AAA
*
132802215 ATTTTTATAATTTTT
1 ATTTTTAAAATTTTT
132802230 AAATTAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 3 0.09
22 17 0.52
23 13 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTTTAAAATTTTTTATTTAAA
Found at i:132803053 original size:15 final size:15
Alignment explanation
Indices: 132803018--132803055 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
132803008 AACCCTTAAA
132803018 CCATAAACCATAATT
1 CCATAAACCATAATT
132803033 CC-TAAACACATAA-T
1 CCATAAAC-CATAATT
132803047 CCATAAACC
1 CCATAAACC
132803056 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAAACCATAATT
Found at i:132803060 original size:22 final size:22
Alignment explanation
Indices: 132803011--132803060 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
132803001 AAACCCCAAC
*
132803011 CCTTAAACCATAAACCATAATT
1 CCTTAAACCATAAACCATAATA
*
132803033 CC-TAAACACATAATCCATAA-A
1 CCTTAAAC-CATAAACCATAATA
132803054 CCTTAAA
1 CCTTAAA
132803061 ATAGTAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (22 bp):
CCTTAAACCATAAACCATAATA
Found at i:132803098 original size:14 final size:14
Alignment explanation
Indices: 132803079--132803109 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
132803069 TCATACACTT
132803079 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
132803093 TAAACCCTAAACTA
1 TAAACCCTAAACCA
132803107 TAA
1 TAA
132803110 TGATAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:132803234 original size:22 final size:22
Alignment explanation
Indices: 132803208--132803252 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
132803198 TTAATCTAAG
*
132803208 CCCTAAACTCAT-AATCCTTAAA
1 CCCTAAA-TCATAAATCCTAAAA
132803230 CCCTAAATCATAAATCCTAAAA
1 CCCTAAATCATAAATCCTAAAA
132803252 C
1 C
132803253 ATAAACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.24
Consensus pattern (22 bp):
CCCTAAATCATAAATCCTAAAA
Found at i:132803248 original size:14 final size:14
Alignment explanation
Indices: 132803226--132803264 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
132803216 TCATAATCCT
*
132803226 TAAACCCTAAATCA
1 TAAACCCTAAAACA
*
132803240 TAAATCCTAAAACA
1 TAAACCCTAAAACA
*
132803254 TAAACCATAAA
1 TAAACCCTAAA
132803265 CCATTAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAAACA
Found at i:132803257 original size:21 final size:22
Alignment explanation
Indices: 132803211--132803264 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
132803201 ATCTAAGCCC
* *
132803211 TAAACTCAT-AATCCTTAAACCC
1 TAAA-TCATAAATCCTTAAAACA
132803233 TAAATCATAAATCC-TAAAACA
1 TAAATCATAAATCCTTAAAACA
*
132803254 TAAACCATAAA
1 TAAATCATAAA
132803265 CCATTAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAATCATAAATCCTTAAAACA
Found at i:132803353 original size:25 final size:25
Alignment explanation
Indices: 132803307--132803354 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
132803297 AACACCTAAA
*
132803307 CCTTAAACCCCAACCCTCAAACCAC
1 CCTTAAACCACAACCCTCAAACCAC
*
132803332 CCTTAAACCATAATCCCT-AAACC
1 CCTTAAACCACAA-CCCTCAAACC
132803355 CATAATCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.17
Consensus pattern (25 bp):
CCTTAAACCACAACCCTCAAACCAC
Found at i:132803357 original size:15 final size:15
Alignment explanation
Indices: 132803335--132803368 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
132803325 AAACCACCCT
*
132803335 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
132803349 TAAACCCATAATCCA
1 TAAACCCATAATCCA
132803364 TAAAC
1 TAAAC
132803369 TTTGAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:132808359 original size:53 final size:54
Alignment explanation
Indices: 132808260--132808366 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
132808250 TGAAAGTAAA
* **
132808260 AAAAAATATAATTTGTCATTCTTCTAAAGGAAAGAAATAAGGATGACGTGGAAT
1 AAAAAATATAATTTATCATTCTTCTAAAGGAAAGAAATAAAAATGACGTGGAAT
* * *
132808314 AAAAAATATAATTTATTATTTTTCT-ATGAGAAA-AAATAAAAATGACGTGGAAT
1 AAAAAATATAATTTATCATTCTTCTAAAG-GAAAGAAATAAAAATGACGTGGAAT
132808367 TAGAGTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 20 0.43
54 26 0.57
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.31
Consensus pattern (54 bp):
AAAAAATATAATTTATCATTCTTCTAAAGGAAAGAAATAAAAATGACGTGGAAT
Found at i:132817145 original size:3 final size:3
Alignment explanation
Indices: 132817137--132817194 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
132817127 AATGGAAATT
*
132817137 ATA ATA ATA ATA ATA ATA ACA 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
132817185 ATA ATA ATA A
1 ATA ATA ATA A
132817195 AACTTATGAA
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:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:132820055 original size:25 final size:25
Alignment explanation
Indices: 132820027--132820074 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
132820017 GGCCGGGTTG
132820027 GGGTAAATTTTTTTGGCCCGGGCTC
1 GGGTAAATTTTTTTGGCCCGGGCTC
132820052 GGGTAAATTTTTTTGGCCCGGGC
1 GGGTAAATTTTTTTGGCCCGGGC
132820075 CCGGCCCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.19, G:0.33, T:0.35
Consensus pattern (25 bp):
GGGTAAATTTTTTTGGCCCGGGCTC
Found at i:132820086 original size:26 final size:25
Alignment explanation
Indices: 132820031--132820080 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
132820021 GGGTTGGGGT
* **
132820031 AAATTTTTTTGGCCCGGGCTCGGGT
1 AAATTTTTTTGGCCCGGGCCCGGCC
132820056 AAATTTTTTTGGCCCGGGCCCGGCC
1 AAATTTTTTTGGCCCGGGCCCGGCC
132820081 CGAATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.26, G:0.30, T:0.32
Consensus pattern (25 bp):
AAATTTTTTTGGCCCGGGCCCGGCC
Found at i:132820168 original size:20 final size:19
Alignment explanation
Indices: 132820114--132820171 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
132820104 TTTTTAATTA
132820114 TATTTATATTTT-AATTTT
1 TATTTATATTTTCAATTTT
* **
132820132 AATTTTAATATAATCAATTTT
1 TA-TTT-ATATTTTCAATTTT
132820153 TATTATATATTTTCAATTT
1 TATT-TATATTTTCAATTT
132820172 GTGTATTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 3 0.10
20 18 0.60
21 8 0.27
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATATTTTCAATTTT
Found at i:132820201 original size:40 final size:40
Alignment explanation
Indices: 132820157--132820237 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
132820147 AATTTTTATT
132820157 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
132820197 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
132820237 A
1 A
132820238 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:132823020 original size:45 final size:46
Alignment explanation
Indices: 132822925--132823145 Score: 299
Period size: 46 Copynumber: 4.8 Consensus size: 46
132822915 TGGTTGAGCA
*
132822925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
132822971 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
132823016 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
132823061 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
132823109 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
132823146 GCGGGTTACA
Statistics
Matches: 157, Mismatches: 8, Indels: 20
0.85 0.04 0.11
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 47 0.30
46 65 0.41
47 29 0.18
48 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:132826119 original size:15 final size:15
Alignment explanation
Indices: 132826099--132826167 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
132826089 GTATCTTGGG
132826099 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
132826114 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
132826129 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
132826144 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
132826159 TTTCTTTAT
1 TTTCTTTAT
132826168 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:132826168 original size:30 final size:30
Alignment explanation
Indices: 132826090--132826177 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
132826080 CATAGTATCG
* * * *
132826090 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
132826120 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
132826150 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
132826178 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:132828149 original size:46 final size:46
Alignment explanation
Indices: 132828093--132828268 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
132828083 TGGTTGAGCA
*
132828093 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
132828139 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
132828184 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
132828232 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
132828269 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:132828249 original size:93 final size:93
Alignment explanation
Indices: 132828090--132828260 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
132828080 GGATGGTTGA
* * *
132828090 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
132828155 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
132828183 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
132828248 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
132828261 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:132831685 original size:33 final size:32
Alignment explanation
Indices: 132831631--132831743 Score: 109
Period size: 33 Copynumber: 3.4 Consensus size: 32
132831621 CTTGAGCCAA
* **
132831631 GAGGAGTAGAATATGGAGGTGGATATGGGCCGG
1 GAGGAGTAGAGTACAGAGGTGGATA-GGGCCGG
* * **
132831664 GAGGAGTAGAGTACAGCGGTGGATACGGCTTTG
1 GAGGAGTAGAGTACAGAGGTGGATAGGGC-CGG
* *
132831697 GAGGAGTTGAGTACATAGGTGGATACGGGCCGG
1 GAGGAGTAGAGTACAGAGGTGGATA-GGGCCGG
*
132831730 AAGGAGTAGAGTAC
1 GAGGAGTAGAGTAC
132831744 TGAGATAAAT
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
32 3 0.05
33 57 0.90
34 3 0.05
ACGTcount: A:0.27, C:0.10, G:0.44, T:0.19
Consensus pattern (32 bp):
GAGGAGTAGAGTACAGAGGTGGATAGGGCCGG
Found at i:132834568 original size:35 final size:35
Alignment explanation
Indices: 132834524--132834691 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
132834514 TCCTCATTGA
** *
132834524 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* ***
132834559 AATGCCATACCTACATTTTTTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACA-TTTCACAACTCAGTAT-G----GAT
*
132834600 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
132834635 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
132834670 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
132834692 CTTTTCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
35 72 0.62
36 16 0.14
39 1 0.01
40 14 0.12
41 14 0.12
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:132834614 original size:76 final size:73
Alignment explanation
Indices: 132834519--132834691 Score: 210
Period size: 76 Copynumber: 2.4 Consensus size: 73
132834509 GGTTTTCCTC
** * * ***
132834519 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTTTTTAA
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACA-TTTCACAA
132834583 CTCAGTATGG
64 CTCAGTATGG
*
132834593 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
132834658 CTCAGTATGG
64 CTCAGTATGG
132834668 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
132834692 CTTTTCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 1 0.01
75 23 0.26
76 41 0.47
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:132836456 original size:22 final size:22
Alignment explanation
Indices: 132836422--132836485 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
132836412 TCAACATTTT
*
132836422 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
132836444 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
*
132836465 AATTACATTATATAAAAATTA
1 AA-TA-AATATATAAAAATTA
132836486 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 10 0.29
24 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:132836479 original size:15 final size:16
Alignment explanation
Indices: 132836459--132836490 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
132836449 ATATATAATA
132836459 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
132836474 ATATAAAAATTACATT
1 ATATAAAAATTACATT
132836490 A
1 A
132836491 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:132836775 original size:112 final size:112
Alignment explanation
Indices: 132836548--132836872 Score: 478
Period size: 113 Copynumber: 2.9 Consensus size: 112
132836538 ATACTAAAAC
* * *
132836548 AAAATAACTATAAAATTA-TTTTTTAAATACATTACTAAAAAAAATCACAATACATTAATACACA
1 AAAATAGCTATAAAATTATTTTTTTAAATATATTACT-AAAAAAATCACAATACACTAAT--A-A
132836612 CTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAAT
62 CTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
132836661 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT-ACTA
1 AAAATAGCTATAAAATTATTTTTTT-AAATATATTACTAAAAAAATCACAATACACTAATAACTA
132836725 AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
65 AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
132836773 AAAATAGCTATAAATTTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTA
1 AAAATAGCTATAAAATTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATA-ACTA
* * *
132836838 AACTACTAAGCACTAACAATTTATATAACCAAATC
65 AACCACTAAACACTAACAATTTATATAACCTAATC
132836873 AACTATAAAA
Statistics
Matches: 193, Mismatches: 13, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
110 23 0.12
111 32 0.17
112 50 0.26
113 52 0.27
114 25 0.13
115 11 0.06
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (112 bp):
AAAATAGCTATAAAATTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATAACTAA
ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:132836944 original size:92 final size:91
Alignment explanation
Indices: 132836780--132836951 Score: 226
Period size: 100 Copynumber: 1.8 Consensus size: 91
132836770 AATAAAATAG
*
132836780 CTATAAATTTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTACT
1 CTATAAAATTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATA-AC--AACTAC-
132836845 AAGCACTAACAATTTATATAACCAAATCAA
62 AAGCACTAACAATTTATATAACCAAATCAA
132836875 CTATAAAATTATTTTTTTAAAAATATATTATTACTAAAAAAATCACAATACACTAAT-AC-ACTA
1 CTATAAAATTATTTTTTT---AA-ATA-TATTACTAAAAAAATCACAATACACTAATAACAACTA
132836938 -AA-CACTAACAATTT
61 CAAGCACTAACAATTT
132836952 GTAATCTAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
92 12 0.17
93 2 0.03
95 21 0.30
98 4 0.06
99 3 0.04
100 29 0.41
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.34
Consensus pattern (91 bp):
CTATAAAATTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATAACAACTACAAGC
ACTAACAATTTATATAACCAAATCAA
Found at i:132837173 original size:22 final size:22
Alignment explanation
Indices: 132837148--132837194 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
132837138 TTTTTTTCTT
*
132837148 CTTCTTTCTTCTTCTCCTTCAC
1 CTTCCTTCTTCTTCTCCTTCAC
*
132837170 CTTCCTTCTTCTTCTCCTTCTC
1 CTTCCTTCTTCTTCTCCTTCAC
132837192 CTT
1 CTT
132837195 TCTCTCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (22 bp):
CTTCCTTCTTCTTCTCCTTCAC
Found at i:132841898 original size:17 final size:16
Alignment explanation
Indices: 132841876--132841909 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
132841866 ACAATGACAA
132841876 TATTTATATTTATAATT
1 TATTTAT-TTTATAATT
*
132841893 TATTTATTTTTTAATT
1 TATTTATTTTATAATT
132841909 T
1 T
132841910 TAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTATTTTATAATT
Found at i:132841915 original size:18 final size:16
Alignment explanation
Indices: 132841876--132841923 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
132841866 ACAATGACAA
*
132841876 TATTTATATTTATAATT
1 TATTTAT-TTTTTAATT
132841893 TATTTATTTTTTAATTT
1 TATTTATTTTTTAA-TT
*
132841910 TAATTTTTTTTTTA
1 T-ATTTATTTTTTA
132841924 TAATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 10 0.37
18 11 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTATTTTTTAATT
Found at i:132842459 original size:28 final size:29
Alignment explanation
Indices: 132842419--132842475 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
132842409 ACTGTTATGT
*
132842419 TAACTACTATTTTGTTATT-ATTTTGTTA
1 TAACTACTATTTTATTATTAATTTTGTTA
* * *
132842447 TAACTATTGTTTTATTGTTAATTTTGTTA
1 TAACTACTATTTTATTATTAATTTTGTTA
132842476 ATATTTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.25, C:0.05, G:0.09, T:0.61
Consensus pattern (29 bp):
TAACTACTATTTTATTATTAATTTTGTTA
Found at i:132850536 original size:22 final size:23
Alignment explanation
Indices: 132850492--132850537 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
132850482 TAAAATTTAG
**
132850492 AAAACTATATAAATAATCTAAAA
1 AAAACTATATAAATAATAAAAAA
*
132850515 AAAAC-ATATAAATTATAAAAAA
1 AAAACTATATAAATAATAAAAAA
132850537 A
1 A
132850538 TTATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (23 bp):
AAAACTATATAAATAATAAAAAA
Found at i:132851050 original size:29 final size:26
Alignment explanation
Indices: 132851029--132851079 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
132851019 CATTGACTGG
132851029 GGACCCAATGTTAACCAAGCATTGAC
1 GGACCCAATGTTAACCAAGCATTGAC
* * *
132851055 GGTCCCCATGTTGACCAAGCATTGA
1 GGACCCAATGTTAACCAAGCATTGA
132851080 TCGGCCATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (26 bp):
GGACCCAATGTTAACCAAGCATTGAC
Found at i:132851271 original size:19 final size:19
Alignment explanation
Indices: 132851249--132851286 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
132851239 TCAAATAATA
132851249 TATAAAAATTGAAAAAGGT
1 TATAAAAATTGAAAAAGGT
* *
132851268 TATAAAACTTTAAAAAGGT
1 TATAAAAATTGAAAAAGGT
132851287 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (19 bp):
TATAAAAATTGAAAAAGGT
Found at i:132851350 original size:15 final size:15
Alignment explanation
Indices: 132851332--132851361 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
132851322 TTAAATAAAT
132851332 TTTTAGAATTATATA
1 TTTTAGAATTATATA
*
132851347 TTTTAGAATTTTATA
1 TTTTAGAATTATATA
132851362 AAAAATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTTAGAATTATATA
Found at i:132851481 original size:15 final size:14
Alignment explanation
Indices: 132851463--132851508 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
132851453 ATTATCTTAT
132851463 TTTTTATAAATTTTA
1 TTTTTAT-AATTTTA
132851478 TTTTTATAA--TT-
1 TTTTTATAATTTTA
132851489 TTTTTATAATTTATA
1 TTTTTATAATTT-TA
132851504 TTTTT
1 TTTTT
132851509 TTTCTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 9 0.33
12 2 0.07
13 1 0.04
14 3 0.11
15 12 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTATAATTTTA
Found at i:132851503 original size:18 final size:20
Alignment explanation
Indices: 132851479--132851530 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
132851469 TAAATTTTAT
132851479 TTTTATAATTTTTTTATA-A
1 TTTTATAATTTTTTTATAGA
* *
132851498 -TTTATATTTTTTTTCTAGA
1 TTTTATAATTTTTTTATAGA
132851517 TTTTATATATTTTT
1 TTTTATA-ATTTTT
132851531 CTAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 15 0.56
19 1 0.04
20 6 0.22
21 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTATAATTTTTTTATAGA
Found at i:132851539 original size:20 final size:20
Alignment explanation
Indices: 132851479--132851548 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
132851469 TAAATTTTAT
* *
132851479 TTTTATA-ATTTTTTTATAA
1 TTTTATATATTTTTCTAAAA
* *
132851498 -TTTATATTTTTTTTCT-AGA
1 TTTTATA-TATTTTTCTAAAA
132851517 TTTTATATATTTTTCTAAAA
1 TTTTATATATTTTTCTAAAA
*
132851537 TTTTATGTATTT
1 TTTTATATATTT
132851549 ATTTCCATCT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 6 0.15
19 9 0.22
20 25 0.62
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTATATATTTTTCTAAAA
Found at i:132855161 original size:26 final size:27
Alignment explanation
Indices: 132855118--132855169 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
132855108 TATTATTTTA
*
132855118 ATTATCTTATTTTAATATTACTATTAT
1 ATTATATTATTTTAATATTACTATTAT
*
132855145 ATTATATT-TTTTAATATTATTATTA
1 ATTATATTATTTTAATATTACTATTA
132855170 CTATCACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTATATTATTTTAATATTACTATTAT
Done.