Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
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: 4970990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 21
Found at i:1610117 original size:23 final size:22
Alignment explanation
Indices: 1610082--1610124 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1610072 CATTTTATGA
*
1610082 TATTTTTAAATAAATAAATATTT
1 TATTTATAAATAAA-AAATATTT
*
1610105 TATTTATATATAAAAAATAT
1 TATTTATAAATAAAAAATAT
1610125 ATTAATCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTATAAATAAAAAATATTT
Found at i:1618128 original size:9 final size:9
Alignment explanation
Indices: 1618111--1618141 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1618101 AAATGGTAAT
*
1618111 CATTCTTTA
1 CATTTTTTA
1618120 CATTTTTTA
1 CATTTTTTA
1618129 CATTTTTTA
1 CATTTTTTA
1618138 CATT
1 CATT
1618142 CATTATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (9 bp):
CATTTTTTA
Found at i:1621667 original size:9 final size:10
Alignment explanation
Indices: 1621653--1621699 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
1621643 GCTTGAAGAG
1621653 AAAAAAAT-A
1 AAAAAAATGA
1621662 AAAAAAATGA
1 AAAAAAATGA
*
1621672 AAATGAAATGA
1 AAA-AAAATGA
*
1621683 AAAAATGATGA
1 AAAAA-AATGA
1621694 AAAAAA
1 AAAAAA
1621700 TATATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 8 0.26
10 5 0.16
11 18 0.58
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:1624130 original size:54 final size:54
Alignment explanation
Indices: 1624056--1624247 Score: 303
Period size: 54 Copynumber: 3.6 Consensus size: 54
1624046 GTCACAGCTA
* * * *
1624056 GATGGATGTATTGTCAAATGTTTTACGAACATCAAAACAGAAGCCGCAAGAAGT
1 GATGAATGTGTTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAAGAAAT
* * *
1624110 GATGAATGTGTTGTCAAATGTTTTATGAACATCAAAATAGAAGCCACAGGAAAT
1 GATGAATGTGTTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAAGAAAT
*
1624164 GATGAATGTGTTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACATGAAAT
1 GATGAATGTGTTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAAGAAAT
*
1624218 GATGAATGTGTTGTCAAGTGTTTTACGAAC
1 GATGAATGTGTTGTCAAATGTTTTACGAAC
1624248 CAATAATTAT
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 127 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (54 bp):
GATGAATGTGTTGTCAAATGTTTTACGAACATCAAAACAGAAGCCACAAGAAAT
Found at i:1624598 original size:22 final size:23
Alignment explanation
Indices: 1624570--1624631 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
1624560 ACATTTACAT
1624570 TCTTCAAAGATGATAGATTCTC-
1 TCTTCAAAGATGATAGATTCTCA
1624592 TCTTCAAAGATGATAGATTCTCA
1 TCTTCAAAGATGATAGATTCTCA
*
1624615 T-TT-AAAGATGAAAGATT
1 TCTTCAAAGATGATAGATT
1624632 TATTGGATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 13 0.34
22 24 0.63
23 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (23 bp):
TCTTCAAAGATGATAGATTCTCA
Found at i:1625195 original size:121 final size:121
Alignment explanation
Indices: 1625050--1625474 Score: 545
Period size: 121 Copynumber: 3.6 Consensus size: 121
1625040 TCCAGAGAAA
* *
1625050 GTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
1625114 ATCTTTATTTGATTCTATCACAGAAGAAGATAGATCAACATCAACATTTCCATAAGT
66 ACCTTTGTTTGATTCTATCACAGAA-AAGATAGATCAACATCAACATTTCCATAAGT
* * * *
1625171 GTTCATAATGAGAAGCACTCATCTGAAGAATGAA-AAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC-
** * * **
1625235 AACCTTTTGTTTGAATTC-ATCAC----TCGATGGATC-A-AT----TTTTCCATAGAAA
65 AACC-TTTGTTTG-ATTCTATCACAGAAAAGATAGATCAACATCAACATTTCCATA-AGT
*
1625284 GTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
1625348 ACCTTTGTTTGATTATATCACAGAAAGAGATAGATCAACATCAACATTTCCAGAAGT
66 ACCTTTGTTTGATTCTATCACAGAAA-AGATAGATCAACATCAACATTTCCATAAGT
1625405 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1625470 ACCTT
66 ACCTT
1625475 GCCTTAATTC
Statistics
Matches: 257, Mismatches: 28, Indels: 37
0.80 0.09 0.11
Matches are distributed among these distances:
110 3 0.01
111 13 0.05
112 16 0.06
113 54 0.21
116 9 0.04
117 2 0.01
118 9 0.04
121 80 0.31
122 55 0.21
123 12 0.05
124 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (121 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTGTTTGATTCTATCACAGAAAAGATAGATCAACATCAACATTTCCATAAGT
Found at i:1625308 original size:113 final size:111
Alignment explanation
Indices: 1624900--1625474 Score: 505
Period size: 113 Copynumber: 5.0 Consensus size: 111
1624890 GAAAAGATTC
* *
1624900 GAATCCATACACTCAATGGATCAACATTT-CA-AGAAGAGTTCATAATGAGAAGAACTCATCTGA
1 GAATTCAT-CACTCGATGGATCAACATTTCCATAGAA-AGTTCATAATGAGAAGAACTCATCTGA
* * * *
1624963 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTCGCTC
64 AG-AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTT-GTTT
* * * * *
1625013 GAATTCATCATTCGATGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 GAATTCATCACTCGATGGATCAACATTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
1625078 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAATCTTTATTT
66 AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTGTTT
* ** ** *
1625124 G-ATTCTATCACAGAAGAAGATAGATCAACATCAACATTTCCATA-AGTGTTCATAATGAGAAGC
1 GAATTC-ATCAC---------TCGAT--GGATCAACATTTCCATAGAAAGTTCATAATGAGAAGA
* *
1625187 ACTCATCTGAAGAATGAA-AAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTT
54 ACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC-AACC-TTTGTTT
** *
1625247 GAATTCATCACTCGATGGATCAATTTTTCCATAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 GAATTCATCACTCGATGGATCAACATTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
1625312 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGTTT
66 AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTGTTT
*** * *** *
1625358 GATTATATCA-CAGAAAGAGATAGATCAACATCAACATTTCCAGAAGTGTTCATAATGAGAAGAA
1 GA--AT-TCATC---ACTCGATGGATCAACATTTCCA--T--AGAA-AGTTCATAATGAGAAGAA
*
1625422 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
55 CTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTT
1625475 GCCTTAATTC
Statistics
Matches: 378, Mismatches: 52, Indels: 55
0.78 0.11 0.11
Matches are distributed among these distances:
110 4 0.01
111 15 0.04
112 74 0.20
113 94 0.25
114 11 0.03
116 13 0.03
118 1 0.00
120 8 0.02
121 80 0.21
122 62 0.16
123 12 0.03
124 4 0.01
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.28
Consensus pattern (111 bp):
GAATTCATCACTCGATGGATCAACATTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTGTTT
Found at i:1625328 original size:234 final size:234
Alignment explanation
Indices: 1624919--1625474 Score: 918
Period size: 234 Copynumber: 2.4 Consensus size: 234
1624909 CACTCAATGG
* *
1624919 ATCAACATTTCAAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATA
*
1624984 ATGAGAAGAATTTGTTCAACCTTTCGCTCGAATTCATCATTCGATGCATCAACTTTTCCAGAGAA
66 ATGAGAAGAATTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGAA
*
1625049 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
131 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
1625114 ATCTTTATTTGATTCTATCACAG-AAGAAGATAGATCAAC
196 ACCTTTATTTGATTATATCACAGAAAG-AGATAGATCAAC
* *
1625153 ATCAACATTTCCATAAGTGTTCATAATGAGAAGCACTCATCTGAAGAATGAA-AAGAAATTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATA
* * * * * *
1625217 ATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTCATCACTCGATGGATCAATTTTTCCATAGA
66 ATGAGAAGAATTTGTTC-AACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGA
1625282 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
130 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
1625347 AACCTTTGTTTGATTATATCACAGAAAGAGATAGATCAAC
195 AACCTTTATTTGATTATATCACAGAAAGAGATAGATCAAC
* *
1625387 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATA
*
1625452 ATGAGAAGAACTTGTTCAACCTT
66 ATGAGAAGAATTTGTTCAACCTT
1625475 GCCTTAATTC
Statistics
Matches: 299, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
233 29 0.10
234 240 0.80
235 30 0.10
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (234 bp):
ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATA
ATGAGAAGAATTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAACTTTTCCAGAGAA
AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTATTTGATTATATCACAGAAAGAGATAGATCAAC
Found at i:1625346 original size:20 final size:20
Alignment explanation
Indices: 1625284--1625347 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
1625274 TCCATAGAAA
1625284 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
1625304 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
1625323 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
1625343 GTTCA
1 GTTCA
1625348 ACCTTTGTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:1625859 original size:3 final size:3
Alignment explanation
Indices: 1625833--1625903 Score: 70
Period size: 3 Copynumber: 23.0 Consensus size: 3
1625823 TTTCATCCAT
* * * * *
1625833 TTA TTT TTA TTT TTA TTA TATA TTA TTT TTA TTA ATA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
*
1625879 TTA ATA TATA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA
1625904 AATAAATAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1627081 original size:16 final size:17
Alignment explanation
Indices: 1627060--1627094 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1627050 CAACAATTTG
*
1627060 ATATTTTTCA-TTTAAT
1 ATATTTTACATTTTAAT
1627076 ATATTTTACATTTTAAT
1 ATATTTTACATTTTAAT
1627093 AT
1 AT
1627095 TATTGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTTTACATTTTAAT
Found at i:1627125 original size:9 final size:9
Alignment explanation
Indices: 1627121--1627184 Score: 66
Period size: 8 Copynumber: 7.6 Consensus size: 9
1627111 TTTTATTTTG
1627121 ATTATTATT
1 ATTATTATT
1627130 ATTATTATT
1 ATTATTATT
1627139 -TTATTATT
1 ATTATTATT
1627147 ATT-TT-TT
1 ATTATTATT
*
1627154 ATATATTTTT
1 AT-TATTATT
*
1627164 A-AATTATT
1 ATTATTATT
1627172 ATT-TTATT
1 ATTATTATT
1627180 ATTAT
1 ATTAT
1627185 CTTAAGTCGT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.09
8 25 0.54
9 14 0.30
10 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTATTATT
Found at i:1627129 original size:3 final size:3
Alignment explanation
Indices: 1627121--1627184 Score: 66
Period size: 3 Copynumber: 22.7 Consensus size: 3
1627111 TTTTATTTTG
*
1627121 ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT -TT -TT ATAT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
*
1627164 A-A ATT ATT ATT -TT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
1627185 CTTAAGTCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 9 0.17
3 40 0.77
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:1627144 original size:11 final size:11
Alignment explanation
Indices: 1627113--1627184 Score: 78
Period size: 11 Copynumber: 6.4 Consensus size: 11
1627103 TTAATTTCTT
1627113 TTATTTTGATTA
1 TTATTTT-ATTA
1627125 TTA--TTATTA
1 TTATTTTATTA
1627134 TTATTTTATTA
1 TTATTTTATTA
1627145 TTATTTT-TTA
1 TTATTTTATTA
1627155 TATATTTTTAAATTA
1 T-TA-TTTT--ATTA
1627170 TTATTTTATTA
1 TTATTTTATTA
1627181 TTAT
1 TTAT
1627185 CTTAAGTCGT
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
9 7 0.13
10 6 0.11
11 23 0.43
12 7 0.13
13 4 0.08
14 2 0.04
15 4 0.08
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:1627390 original size:23 final size:23
Alignment explanation
Indices: 1627355--1627398 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1627345 CATTTTCTGA
* *
1627355 TATTTTTAAATAAATAAATATTT
1 TATTTATAAATAAAAAAATATTT
*
1627378 TATTTATATATAAAAAAATAT
1 TATTTATAAATAAAAAAATAT
1627399 ATTAATCTAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTATAAATAAAAAAATATTT
Found at i:1628392 original size:9 final size:9
Alignment explanation
Indices: 1628375--1628405 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1628365 AAATGACAAT
*
1628375 CATTCTTTA
1 CATTTTTTA
1628384 CATTTTTTA
1 CATTTTTTA
1628393 CATTTTTTA
1 CATTTTTTA
1628402 CATT
1 CATT
1628406 ATTATTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (9 bp):
CATTTTTTA
Found at i:1633851 original size:20 final size:22
Alignment explanation
Indices: 1633805--1633867 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
1633795 TACATCTACA
1633805 CTCTTCAAAAATGATAGATTCT
1 CTCTTCAAAAATGATAGATTCT
* *
1633827 CTCTTCAAAGATGATATATTCT
1 CTCTTCAAAAATGATAGATTCT
* * *
1633849 CT-TTTAAATATGAAAGATT
1 CTCTTCAAAAATGATAGATT
1633868 TATTGGATTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (22 bp):
CTCTTCAAAAATGATAGATTCT
Found at i:1634276 original size:113 final size:114
Alignment explanation
Indices: 1634116--1634646 Score: 639
Period size: 113 Copynumber: 4.6 Consensus size: 114
1634106 TACCAGGAAG
* * *
1634116 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATTAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
1634181 AACCTTTTGCTTGAATTCATC-GTTCGATGGATTAACTTTTCCAGAGGA
66 AACCTTTTGCTTGAATTCATCAGTTCGATGGATCAACTTTTCCAGAGGA
*
1634229 AGTTCATAATGAGAAGAAATCATCTGAAGAATGG-AGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* ** * * * *
1634293 CAATCTTTTGCTCAAATTCATCACTT-GATGGATCAACATTGCCAG-GTGG
65 CAACCTTTTGCTTGAATTCATCAGTTCGATGGATCAACTTTTCCAGAG-GA
* * * * *
1634342 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATATTGAGAAGCATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
1634407 AACCTTTTGCTTGAATTCATCA-CTCGATGGATCAAATTTTCCAGAGGA
66 AACCTTTTGCTTGAATTCATCAGTTCGATGGATCAACTTTTCCAGAGGA
* * *
1634455 AGTTCATAATGAGAAGAACTCATATGAAG-AGGAAGAAGAAGTTCATAATGAGAATAACGTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** *
1634519 AACC-TTTGTTTG-ATTCTATCACAGAAAGAGACAGATCAGCATCAACTTTTCCAGAGGA
66 AACCTTTTGCTTGAATTC-AT--C----AG-TTC-GAT--GGATCAACTTTTCCAGAGGA
*
1634577 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAATAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1634641 AACCTT
66 AACCTT
1634647 CGTTTGATTC
Statistics
Matches: 358, Mismatches: 41, Indels: 28
0.84 0.10 0.07
Matches are distributed among these distances:
110 4 0.01
111 9 0.03
112 37 0.10
113 213 0.59
114 5 0.01
117 1 0.00
119 1 0.00
120 3 0.01
122 84 0.23
123 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (114 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTGAATTCATCAGTTCGATGGATCAACTTTTCCAGAGGA
Found at i:1634572 original size:122 final size:122
Alignment explanation
Indices: 1634437--1634717 Score: 458
Period size: 122 Copynumber: 2.3 Consensus size: 122
1634427 CACTCGATGG
*
1634437 ATCAAATTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATA
*
1634502 ATGAGAATAACGTGTTCAACCTTTGTTTGATTCTATCACAGAAA-GAGACAGATCAGC
66 ATGAGAATAACGTGTTCAACCTTCGTTTGATTCTATCACA-AAAGGAGACAGATCAGC
*
1634559 ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATA
* * *
1634624 ATGAGAATAACTTGTTCAACCTTCGTTTGATTCTATCACAAAAGGAGATAGATTAGC
66 ATGAGAATAACGTGTTCAACCTTCGTTTGATTCTATCACAAAAGGAGACAGATCAGC
* * *
1634681 ATCAACATTTCCAGAAG-TGTTCATAATGAGAAGAACT
1 ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACT
1634718 TGTTCAACCT
Statistics
Matches: 149, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
121 22 0.15
122 127 0.85
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.26
Consensus pattern (122 bp):
ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATA
ATGAGAATAACGTGTTCAACCTTCGTTTGATTCTATCACAAAAGGAGACAGATCAGC
Found at i:1638268 original size:19 final size:19
Alignment explanation
Indices: 1638240--1638281 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
1638230 AAAACCAGAA
*
1638240 CCCC-AGGGGGTATCAATT
1 CCCCTAGGGGGAATCAATT
*
1638258 CCCCTAGGGGGAATCAGTT
1 CCCCTAGGGGGAATCAATT
1638277 CCCCT
1 CCCCT
1638282 TCAAAGGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.21
Consensus pattern (19 bp):
CCCCTAGGGGGAATCAATT
Found at i:1638310 original size:22 final size:23
Alignment explanation
Indices: 1638263--1638313 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
1638253 CAATTCCCCT
1638263 AGGGGGAATCAGTTCCCCTTCAA
1 AGGGGGAATCAGTTCCCCTTCAA
*
1638286 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCAGTTCCCCTTCAA
1638308 AGGGGG
1 AGGGGG
1638314 TATTGATTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.22, C:0.24, G:0.35, T:0.20
Consensus pattern (23 bp):
AGGGGGAATCAGTTCCCCTTCAA
Found at i:1638329 original size:23 final size:23
Alignment explanation
Indices: 1638263--1638329 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
1638253 CAATTCCCCT
1638263 AGGGGGAATC-AGTTCCCCTTCAA
1 AGGGGGAATCGA-TTCCCCTTCAA
*
1638286 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGATTCCCCTTCAA
* *
1638308 AGGGGGTATTGATTCCCTCTTC
1 AGGGGGAATCGATTCCC-CTTC
1638330 CCTATAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.39
23 23 0.61
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.27
Consensus pattern (23 bp):
AGGGGGAATCGATTCCCCTTCAA
Found at i:1644666 original size:3 final size:3
Alignment explanation
Indices: 1644660--1644742 Score: 87
Period size: 3 Copynumber: 28.0 Consensus size: 3
1644650 TTTTCATTTG
* * * * * * * *
1644660 ATT ATT ATT ATT ATT ATC ATC ATC ATC ATC ATC ATC ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1644708 A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1644743 TACAAACAGA
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:1644879 original size:24 final size:24
Alignment explanation
Indices: 1644852--1644897 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1644842 TCTAGCCGCT
*
1644852 AGCAATCATCCACTGTTGGATCCC
1 AGCAATCATCCACCGTTGGATCCC
1644876 AGCAATCATCCACCGTTGGATC
1 AGCAATCATCCACCGTTGGATC
1644898 TGATAAGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (24 bp):
AGCAATCATCCACCGTTGGATCCC
Found at i:1646995 original size:18 final size:18
Alignment explanation
Indices: 1646972--1647009 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1646962 AATCTGTGAC
1646972 ACCTATAACCTGCATGAT
1 ACCTATAACCTGCATGAT
*
1646990 ACCTATAATCTGCATGAT
1 ACCTATAACCTGCATGAT
1647008 AC
1 AC
1647010 AGTATACAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
ACCTATAACCTGCATGAT
Found at i:1647177 original size:4 final size:4
Alignment explanation
Indices: 1647168--1648888 Score: 2692
Period size: 4 Copynumber: 432.0 Consensus size: 4
1647158 AGATGGGAAA
1647168 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647216 TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647262 TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647308 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647356 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647404 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1647452 TATG TATG TATG TATG TATG TATG TATG TATG TATG TGATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T-ATG TATG TATG
1647501 TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
1647548 TATG TATG TATG TATG TATG TATG TATG CATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647596 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
1647644 TATG TATG CATG GATG TATG TATG CATG TATG CATG GATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
1647692 CATG TATG CATG CATG TATG TATG CATG TATG CATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
1647740 TATG TATG CATG CATG TATG TATG TATG TATG CATG TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
1647788 TATG CATG CATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647836 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647884 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1647932 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1647980 TATG TATG TATG TATG TATG TATG TATG -ATG TATG TATA TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1648027 TATG TATG TATG TATG TATGG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TAT-G TATG TATG TATG TATG TATG TATG TATG
1648076 TATG TATG TATG TATG T-TG T-TG TATG TATG TATG TATG T-TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1648121 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1648169 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1648217 TATG TATG TATG TATG TCTG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1648265 TATG TATG TATG TATG -ATG TATG TATG CATATG CATG TATG -ATG TATG
1 TATG TATG TATG TATG TATG TATG TATG --TATG TATG TATG TATG TATG
1648313 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
1648361 TATG TATG TATG TATG TATG TATG CATG TATG CATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1648409 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
1648457 TATG CATG GATG TATG TATG CATG TATG CATG GATG TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
1648505 TATG CATG CATG TATG TATG CATG TATG CATG CATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
1648553 TATG CATG CATG TATG TATG TATG TATG CATG CATG TATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
1648601 CATG TATG TATG TATG CATG TATG TATG TATG TATG TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
1648649 TATG CATG TATG CATG TATG CATG TATG CATG TATG CATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * ** *
1648697 TATG CATG TATG TATG CATG TATG TATG TATG TATG CCTG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
1648745 TATG CATG TATG CATG TAT- TCATG TATG CATG TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG T-ATG TATG TATG TATG TATG TATG TATG
* * * *
1648793 CATG TATG TATG TATG TATG TATA TATG TATG TATG TATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
1648841 CATG TATG TATG TATG TATA TATG TATG TATG CATG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1648889 CATGCATGCA
Statistics
Matches: 1595, Mismatches: 106, Indels: 32
0.92 0.06 0.02
Matches are distributed among these distances:
2 4 0.00
3 22 0.01
4 1556 0.98
5 9 0.01
6 4 0.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (4 bp):
TATG
Found at i:1652384 original size:35 final size:35
Alignment explanation
Indices: 1652305--1652474 Score: 193
Period size: 35 Copynumber: 4.9 Consensus size: 35
1652295 GGTGAAAGAA
*
1652305 GAACGAAAGGAAGCATC-AGCACTTTGGATTC-AGT
1 GAACGAAAGGAAGCATCGA-CACTTTCGATTCAAGT
* *
1652339 GAACGGAAGGAAGTATCGACACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
* * *
1652374 GAACGAAAGGAAGCATCGGCACTTTTGATTCAAGAA
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAG-T
* *
1652410 GAACGAAAGGAAGCATCGGCACTTTCGACTCAAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
* **
1652445 GAACGGAATAAAGCATCCG-CACTTTCGATT
1 GAACGAAAGGAAGCAT-CGACACTTTCGATT
1652475 TAATTATTCA
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
34 26 0.22
35 57 0.49
36 34 0.29
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (35 bp):
GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
Found at i:1652447 original size:71 final size:69
Alignment explanation
Indices: 1652305--1652474 Score: 214
Period size: 71 Copynumber: 2.4 Consensus size: 69
1652295 GGTGAAAGAA
* * * * *
1652305 GAACGAAAGGAAGCATCAGCACTTTGGATTCAGTGAACGGAAGGAAGTATCGACACTTTCGATTC
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAGAGAACGAAAGGAAGCATCGACACTTTCGACTC
1652370 AAGT
66 AAGT
* * *
1652374 GAACGAAAGGAAGCATCGGCACTTTTGATTCAAGAAGAACGAAAGGAAGCATCGGCACTTTCGAC
1 GAACGAAAGGAAGCATCAGCACTTTCGATTC-AG-AGAACGAAAGGAAGCATCGACACTTTCGAC
1652439 TCAAGT
64 TCAAGT
* ** *
1652445 GAACGGAATAAAGCATCCGCACTTTCGATT
1 GAACGAAAGGAAGCATCAGCACTTTCGATT
1652475 TAATTATTCA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
69 29 0.33
70 2 0.02
71 56 0.64
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (69 bp):
GAACGAAAGGAAGCATCAGCACTTTCGATTCAGAGAACGAAAGGAAGCATCGACACTTTCGACTC
AAGT
Found at i:1656621 original size:28 final size:28
Alignment explanation
Indices: 1656580--1656686 Score: 169
Period size: 28 Copynumber: 3.8 Consensus size: 28
1656570 AGAGTCGAGG
1656580 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
* *
1656608 ATTCTACGTGGTCCTTCGGGATATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
*
1656636 GTTCTACGTGGTCCTTAGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
* *
1656664 GTTCTATGTGGTCCTTCAGGACA
1 GTTCTACGTGGTCCTTCGGGACA
1656687 AATTATATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (28 bp):
GTTCTACGTGGTCCTTCGGGACATATGT
Found at i:1660545 original size:22 final size:22
Alignment explanation
Indices: 1660519--1660570 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
1660509 ATAGCTCGTA
1660519 TAAAATGCA-CATAAGTGCCACG
1 TAAAATGCACCA-AAGTGCCACG
**
1660541 TAAAAATGCACCAAAGTGCCATT
1 T-AAAATGCACCAAAGTGCCACG
1660564 TAAAATG
1 TAAAATG
1660571 TCCCGAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 7 0.27
23 17 0.65
24 2 0.08
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.21
Consensus pattern (22 bp):
TAAAATGCACCAAAGTGCCACG
Found at i:1660547 original size:23 final size:24
Alignment explanation
Indices: 1660515--1660561 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
1660505 CACCATAGCT
1660515 CGTATAAAATGCA-CATAAGTGCCA
1 CGTATAAAATGCACCA-AAGTGCCA
1660539 CGTA-AAAATGCACCAAAGTGCCA
1 CGTATAAAATGCACCAAAGTGCCA
1660562 TTTAAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (24 bp):
CGTATAAAATGCACCAAAGTGCCA
Found at i:1665882 original size:3 final size:3
Alignment explanation
Indices: 1665874--1665918 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
1665864 TTACTATATT
1665874 TAA TAA TAA TAA TAA TAAA TAA TAA T-A TAA TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1665918 T
1 T
1665919 TAATTAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1665898 original size:19 final size:17
Alignment explanation
Indices: 1665875--1665918 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
1665865 TACTATATTT
1665875 AATAATAATAATAAT-A
1 AATAATAATAATAATAA
1665891 AATAATAAT-ATAATAA
1 AATAATAATAATAATAA
1665907 AATAATAATAAT
1 AATAATAATAAT
1665919 TAATTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.19
16 19 0.73
17 2 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:1665937 original size:29 final size:26
Alignment explanation
Indices: 1665874--1665928 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 26
1665864 TTACTATATT
1665874 TAATAATAATAATAATAAATAATAATA
1 TAATAA-AATAATAATAAATAATAATA
*
1665901 TAATAAAATAATAATAATTAATTAATA
1 TAATAAAATAATAATAAATAA-TAATA
1665928 T
1 T
1665929 GGGTAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
TAATAAAATAATAATAAATAATAATA
Found at i:1666491 original size:114 final size:114
Alignment explanation
Indices: 1666146--1666807 Score: 1064
Period size: 114 Copynumber: 5.8 Consensus size: 114
1666136 GATAGAGTTA
*
1666146 TTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTAT
* * * * * * * *
1666211 GAACTCTAC-CTGGCAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGA
63 GAAC-CTTCTCTGGAAATGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
*
1666262 TTGAACAAGTTCTT-TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
1666326 -CTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAATGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
1666374 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
1666439 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAATGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
1666488 TTGAACAAATTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 TTGAACAAA-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * *
1666553 ACTTTCTCTGGAAATGATGATCCATCAA-ATGATGAATTCAGGTAAAAGG
65 ACCTTCTCTGGAAATGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
*
1666602 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
1666667 CTTTCTCTGGAAATGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAATGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
1666716 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
1666781 CTTTCTCTGGAAATGATGATCCATCAA
66 CCTTCTCTGGAAATGATAATCCATCAA
1666808 ATGATAGATT
Statistics
Matches: 517, Mismatches: 23, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
110 3 0.01
111 17 0.03
112 52 0.10
113 132 0.26
114 195 0.38
115 105 0.20
116 13 0.03
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (114 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGAAATGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
Found at i:1666648 original size:24 final size:23
Alignment explanation
Indices: 1666613--1666657 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
1666603 TGAACAAATT
1666613 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
1666637 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
1666658 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:1667742 original size:83 final size:83
Alignment explanation
Indices: 1667598--1668284 Score: 1311
Period size: 83 Copynumber: 8.3 Consensus size: 83
1667588 CTTATTTCTA
*
1667598 CTATGAGCAAATTCATCTTACAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1667663 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1667681 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1667746 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
1667764 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1667829 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1667847 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1667912 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1667930 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCATATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1667995 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
1668013 CTATGAGTAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1668078 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
1668096 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1668161 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1668179 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1668244 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
1668262 CTATGAGCAAATTCATCTTCCAA
1 CTATGAGCAAATTCATCTTCCAA
1668285 TTAATGTTTG
Statistics
Matches: 591, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 591 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:1668925 original size:16 final size:17
Alignment explanation
Indices: 1668889--1668925 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1668879 GAATTTTCAA
1668889 AAATAAATTGAATCTTG
1 AAATAAATTGAATCTTG
1668906 -AATAAATTGAA-CTTG
1 AAATAAATTGAATCTTG
1668921 AAATA
1 AAATA
1668926 GATAGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.32
Consensus pattern (17 bp):
AAATAAATTGAATCTTG
Found at i:1669256 original size:6 final size:6
Alignment explanation
Indices: 1669245--1669295 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
1669235 CTTGACCCCC
*
1669245 CTTTTT CTTTTTACT CTTTTT CTTTTT CTCTTTT TTTTTT C-TTTT CTTTTT
1 CTTTTT C-TTTT--T CTTTTT CTTTTT CT-TTTT CTTTTT CTTTTT CTTTTT
1669296 TCTTCATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 5 0.13
6 18 0.47
7 9 0.24
8 4 0.11
9 2 0.05
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:1669265 original size:15 final size:14
Alignment explanation
Indices: 1669245--1669298 Score: 69
Period size: 15 Copynumber: 4.0 Consensus size: 14
1669235 CTTGACCCCC
1669245 CTTTTTCTTTTTACT
1 CTTTTTCTTTTT-CT
1669260 CTTTTTCTTTTTCT
1 CTTTTTCTTTTTCT
1669274 CTTTTT-TTTTTCT
1 CTTTTTCTTTTTCT
*
1669287 -TTTCT-TTTTTCT
1 CTTTTTCTTTTTCT
1669299 TCATTTTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
12 11 0.29
13 7 0.18
14 8 0.21
15 12 0.32
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (14 bp):
CTTTTTCTTTTTCT
Found at i:1669287 original size:11 final size:12
Alignment explanation
Indices: 1669247--1669299 Score: 63
Period size: 12 Copynumber: 4.2 Consensus size: 12
1669237 TGACCCCCCT
1669247 TTTTCTTTTTACTC
1 TTTTCTTTTT--TC
1669261 TTTTTCTTTTTCTC
1 -TTTTCTTTTT-TC
1669275 TTTT-TTTTTTC
1 TTTTCTTTTTTC
1669286 TTTTCTTTTTTC
1 TTTTCTTTTTTC
1669298 TT
1 TT
1669300 CATTTTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.16
12 14 0.38
13 4 0.11
14 3 0.08
15 10 0.27
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:1669289 original size:18 final size:18
Alignment explanation
Indices: 1669245--1669296 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 18
1669235 CTTGACCCCC
1669245 CTTTTTCTTTTTACTCTTTTT
1 CTTTTTCTTTTT--T-TTTTT
1669266 CTTTTTCTCTTTTTTTTTT
1 CTTTTTCT-TTTTTTTTTT
1669285 C-TTTTCTTTTTT
1 CTTTTTCTTTTTT
1669297 CTTCATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 6 0.20
20 1 0.03
21 8 0.27
22 4 0.13
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (18 bp):
CTTTTTCTTTTTTTTTTT
Found at i:1669292 original size:16 final size:16
Alignment explanation
Indices: 1669246--1669296 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
1669236 TTGACCCCCC
1669246 TTTTTCTTTTTACTCTTTT
1 TTTTTC-TTTT-CT-TTTT
* *
1669265 TCTTT-TTCTCTTTTT
1 TTTTTCTTTTCTTTTT
1669280 TTTTTCTTTTCTTTTT
1 TTTTTCTTTTCTTTTT
1669296 T
1 T
1669297 CTTCATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 8 0.30
16 12 0.44
17 3 0.11
19 4 0.15
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTT
Found at i:1669294 original size:23 final size:24
Alignment explanation
Indices: 1669262--1669310 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
1669252 TTTTTACTCT
**
1669262 TTTTCTTTTTCTCTTTTTTTTTTC
1 TTTTCTTTTTCTCTTCATTTTTTC
1669286 TTTTCTTTTT-TCTTCATTTTTTC
1 TTTTCTTTTTCTCTTCATTTTTTC
1669309 TT
1 TT
1669311 CAAGCATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTCTTTTTCTCTTCATTTTTTC
Found at i:1682677 original size:21 final size:21
Alignment explanation
Indices: 1682635--1682677 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1682625 TAAAATATCC
* **
1682635 CGAATGACCACATATATGTCT
1 CGAATGACCACATAGAAATCT
1682656 CGAATGACCACATAGAAATCT
1 CGAATGACCACATAGAAATCT
1682677 C
1 C
1682678 CTTAAGGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (21 bp):
CGAATGACCACATAGAAATCT
Found at i:1684315 original size:29 final size:30
Alignment explanation
Indices: 1684242--1684325 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
1684232 CAACCCTACC
* * *
1684242 TAAAATATTCTAATTAAGTCCCTAAACTTT
1 TAAAATTTTCTAATTTAGTCACTAAACTTT
*
1684272 T-TAATTTATCTAATTTAGTCACTAAA-TTT
1 TAAAATTT-TCTAATTTAGTCACTAAACTTT
*
1684301 TAAAATTTTATAATTT-GATCACTAA
1 TAAAATTTTCTAATTTAG-TCACTAA
1684326 CCCGATGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.02
29 22 0.49
30 22 0.49
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (30 bp):
TAAAATTTTCTAATTTAGTCACTAAACTTT
Found at i:1697277 original size:36 final size:36
Alignment explanation
Indices: 1697237--1697377 Score: 201
Period size: 36 Copynumber: 3.9 Consensus size: 36
1697227 AACACCATCT
*
1697237 TCCATCTCCATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
1697273 TCCATCACCATTATCACGCCTTTATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
1697309 TCCATCTCCATTATCACGCCTATATCGTCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * * *
1697345 TCCACCACCATTATCACACCCATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
1697378 ACTTATAAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.28, C:0.38, G:0.04, T:0.30
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:1697858 original size:14 final size:15
Alignment explanation
Indices: 1697824--1697870 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1697814 AATTTGGAGT
1697824 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
1697839 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
1697853 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
1697870 G
1 G
1697871 TGAAGCAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:1701383 original size:36 final size:36
Alignment explanation
Indices: 1701343--1701483 Score: 192
Period size: 36 Copynumber: 3.9 Consensus size: 36
1701333 AACACCATCT
* *
1701343 TCCATCTCTATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
1701379 TCCATCACCATTATCACGCCTTTATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * * *
1701415 TCCATCTCTATTATCACGCCTATATCGTCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
1701451 TCCACCACCATTATCACGCCCATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
1701484 ACTTATAAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 91 1.00
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:1701481 original size:72 final size:72
Alignment explanation
Indices: 1701343--1701483 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 72
1701333 AACACCATCT
* **
1701343 TCCATCTCTATTATCACGCCTATATCATCACCATAGTCCATCACCATTATCACGCCTTTATCATC
1 TCCATCTCTATTATCACGCCTATATCATCACCATAGTCCACCACCATTATCACGCCCATATCATC
1701408 ACCATAG
66 ACCATAG
* * *
1701415 TCCATCTCTATTATCACGCCTATATCGTCACCATATTCCACCACCATTATCACGCCCATATTATC
1 TCCATCTCTATTATCACGCCTATATCATCACCATAGTCCACCACCATTATCACGCCCATATCATC
1701480 ACCA
66 ACCA
1701484 ACTTATAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (72 bp):
TCCATCTCTATTATCACGCCTATATCATCACCATAGTCCACCACCATTATCACGCCCATATCATC
ACCATAG
Found at i:1714597 original size:21 final size:21
Alignment explanation
Indices: 1714573--1714612 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1714563 TATAAAAAAT
1714573 TATTTTTATTAAATATTTTGG
1 TATTTTTATTAAATATTTTGG
* *
1714594 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATATTTT
1714613 AAATAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TATTTTTATTAAATATTTTGG
Found at i:1716316 original size:29 final size:30
Alignment explanation
Indices: 1716247--1716318 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
1716237 CTGTTTAAGG
1716247 TATATTTTA-TT-ATATTTAATATTTTGTT
1 TATATTTTATTTAATATTTAATATTTTGTT
* *
1716275 TTTAATTTATTTAAGTATTTAA-ATTTT-TT
1 TATATTTTATTTAA-TATTTAATATTTTGTT
1716304 TATATTTTATTTAAT
1 TATATTTTATTTAAT
1716319 TAATTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 8 0.22
29 16 0.43
30 6 0.16
31 7 0.19
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (30 bp):
TATATTTTATTTAATATTTAATATTTTGTT
Found at i:1718284 original size:13 final size:14
Alignment explanation
Indices: 1718266--1718295 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1718256 TATTTAGTTG
1718266 TTTATTG-AATTTT
1 TTTATTGTAATTTT
1718279 TTTATTGTAATTTT
1 TTTATTGTAATTTT
1718293 TTT
1 TTT
1718296 TATTTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
TTTATTGTAATTTT
Found at i:1718307 original size:16 final size:15
Alignment explanation
Indices: 1718266--1718299 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1718256 TATTTAGTTG
1718266 TTTATTG-AA-TTTT
1 TTTATTGTAATTTTT
1718279 TTTATTGTAATTTTT
1 TTTATTGTAATTTTT
1718294 TTTATT
1 TTTATT
1718300 TATCATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 2 0.11
15 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTATTGTAATTTTT
Found at i:1720329 original size:18 final size:18
Alignment explanation
Indices: 1720300--1720358 Score: 79
Period size: 17 Copynumber: 3.4 Consensus size: 18
1720290 TGACTTGGCA
1720300 TATC-ACTTCAGTGGACC
1 TATCGACTTCAGTGGACC
* *
1720317 TATCGATTTCAGTGG-CA
1 TATCGACTTCAGTGGACC
1720334 TATC-ACTTCAGTGGACC
1 TATCGACTTCAGTGGACC
1720351 TATCGACT
1 TATCGACT
1720359 CTCGAATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 9 0.26
17 14 0.40
18 12 0.34
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (18 bp):
TATCGACTTCAGTGGACC
Found at i:1720345 original size:16 final size:16
Alignment explanation
Indices: 1720295--1720347 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
1720285 CATGATGACT
1720295 TGGCATATCACTTCAG
1 TGGCATATCACTTCAG
* *
1720311 TGGACCTATCGATTTCAG
1 TGG-CATATC-ACTTCAG
1720329 TGGCATATCACTTCAG
1 TGGCATATCACTTCAG
1720345 TGG
1 TGG
1720348 ACCTATCGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 12 0.39
17 10 0.32
18 9 0.29
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (16 bp):
TGGCATATCACTTCAG
Found at i:1724518 original size:17 final size:17
Alignment explanation
Indices: 1724496--1724544 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
1724486 TGGCGAGGAG
1724496 AAGAAAAGTGAAAAAGA
1 AAGAAAAGTGAAAAAGA
1724513 AAG-AAA--GAAGAAA-A
1 AAGAAAAGTGAA-AAAGA
*
1724527 AAGAAAAGTGAAGAAGA
1 AAGAAAAGTGAAAAAGA
1724544 A
1 A
1724545 GATGGGGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 5 0.19
17 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.04
Consensus pattern (17 bp):
AAGAAAAGTGAAAAAGA
Found at i:1727232 original size:29 final size:35
Alignment explanation
Indices: 1727200--1727265 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 35
1727190 TATTTTTATT
1727200 TTAT-ATT-TAAAACAT--ATTAAT-ATAT-TTTA
1 TTATCATTATAAAACATTAATTAATAATATATTTA
*
1727229 TTATCATTATAAAATATTAATTAATAATATATTTA
1 TTATCATTATAAAACATTAATTAATAATATATTTA
1727264 TT
1 TT
1727266 GATAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
29 4 0.13
30 3 0.10
31 7 0.23
33 6 0.20
34 4 0.13
35 6 0.20
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (35 bp):
TTATCATTATAAAACATTAATTAATAATATATTTA
Found at i:1727363 original size:29 final size:31
Alignment explanation
Indices: 1727326--1727393 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
1727316 ATTGTATTTC
* *
1727326 AATAATATTTAATAATT-ATT-TATAAAATT
1 AATATTATTTAATAATTCATTAAATAAAATT
*
1727355 AATATTATTTAATAATTCATTAAATAATATT
1 AATATTATTTAATAATTCATTAAATAAAATT
1727386 AA-ATTATT
1 AATATTATT
1727394 GATATTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 16 0.47
30 9 0.26
31 9 0.26
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
AATATTATTTAATAATTCATTAAATAAAATT
Found at i:1727483 original size:30 final size:30
Alignment explanation
Indices: 1727448--1727524 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
1727438 ATATTTTAAT
*
1727448 TTAATATTTTTATAATATGTTAATAAATAA
1 TTAATATATTTATAATATGTTAATAAATAA
* * * *
1727478 TTAATAATATTTAT-TTTTTTTAATAACTAA
1 TTAAT-ATATTTATAATATGTTAATAAATAA
1727508 TTAATATAATTTATAAT
1 TTAATAT-ATTTATAAT
1727525 GGTTTTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 2 0.05
30 28 0.74
31 8 0.21
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
TTAATATATTTATAATATGTTAATAAATAA
Found at i:1728958 original size:30 final size:29
Alignment explanation
Indices: 1728924--1728986 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 29
1728914 CTTTCATCCA
1728924 CATCTTTACTTAGC-ATATATTATGCATATG
1 CATCTTTACTTAGCTA-ATA-TATGCATATG
1728954 CATCTTTACTTAGCTAATCATATGCATATG
1 CATCTTTACTTAGCTAAT-ATATGCATATG
1728984 CAT
1 CAT
1728987 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (29 bp):
CATCTTTACTTAGCTAATATATGCATATG
Found at i:1739330 original size:235 final size:235
Alignment explanation
Indices: 1738912--1739386 Score: 923
Period size: 235 Copynumber: 2.0 Consensus size: 235
1738902 TTTTTATCAT
*
1738912 AAATACGGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
1 AAATACAGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
*
1738977 CTCCCTACAAATAATTTCATCCCTTGAATTACCTTAGCTAAACAACTGCAGAAACTGAGCTCTCA
66 CTCCCTACAAATAATTTCATCCCCTGAATTACCTTAGCTAAACAACTGCAGAAACTGAGCTCTCA
1739042 TCGACTCTTTCGTCTCCCAAGTTGCCTCCTTAGTATTGTGGTTATGCCACAACACTTTTACCAAT
131 TCGACTCTTTCGTCTCCCAAGTTGCCTCCTTAGTATTGTGGTTATGCCACAACACTTTTACCAAT
1739107 GGAATAGACTTGTTTCAAAGAACTTTCACATCGCTAGCCA
196 GGAATAGACTTGTTTCAAAGAACTTTCACATCGCTAGCCA
1739147 AAATACAGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
1 AAATACAGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
1739212 CTCCCTACAAATAATTTCATCCCCTGAATTACCTTAGCTAAACAACTGCAGAAACTGAGCTCTCA
66 CTCCCTACAAATAATTTCATCCCCTGAATTACCTTAGCTAAACAACTGCAGAAACTGAGCTCTCA
1739277 TCGACTCTTTCGTCTCCCAAGTTGCCTCCTTAGTATTGTGGTTATGCCACAACACTTTTACCAAT
131 TCGACTCTTTCGTCTCCCAAGTTGCCTCCTTAGTATTGTGGTTATGCCACAACACTTTTACCAAT
*
1739342 GGAATAGACTTGTTTCGAAGAACTTTCACATCGCTAGCCA
196 GGAATAGACTTGTTTCAAAGAACTTTCACATCGCTAGCCA
1739382 AAATA
1 AAATA
1739387 TTAATCGATT
Statistics
Matches: 237, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
235 237 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (235 bp):
AAATACAGAAATTTACTTGAAATCAACCCTAACTACCAGATTCAACTTTAGGGCGTTACAACTCT
CTCCCTACAAATAATTTCATCCCCTGAATTACCTTAGCTAAACAACTGCAGAAACTGAGCTCTCA
TCGACTCTTTCGTCTCCCAAGTTGCCTCCTTAGTATTGTGGTTATGCCACAACACTTTTACCAAT
GGAATAGACTTGTTTCAAAGAACTTTCACATCGCTAGCCA
Found at i:1744175 original size:22 final size:21
Alignment explanation
Indices: 1744147--1744206 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
1744137 ATACATGAAG
* *
1744147 GGGTATCGATACCCTAA-TAG
1 GGGTATCGATACCATAAGTAA
*
1744167 GGTAGTATCGTTACCATAAGTAA
1 GG--GTATCGATACCATAAGTAA
1744190 GGGTATCGATACC-TAAG
1 GGGTATCGATACCATAAG
1744207 GGCCAGAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.18
21 10 0.30
22 13 0.39
23 4 0.12
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (21 bp):
GGGTATCGATACCATAAGTAA
Found at i:1744175 original size:94 final size:94
Alignment explanation
Indices: 1743985--1744206 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 94
1743975 GCAATGTGGC
* * * *
1743985 ATCGATACCATGGTAAGGGTATCGATACTAATAAACATCGAATCTAATTTGGGTATTTATACCTA
1 ATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAAGCTAATTTGGGTATTGATACATA
* * *
1744050 GATGGGGTATCGGTACCATACATATGGGT
66 GAAGGGGTATCGATACCATACATAGGGGT
* * * ** *
1744079 ATCGATACCATGGTGAGGGTATTGATACTAGGCTACATCGAAGCTAATTTTGGTATTGATACAT-
1 ATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAAGCTAATTTGGGTATTGATACATA
*
1744143 GAAGGGGTATCGATACCCTA-ATAGGGTAGT
66 GAAGGGGTATCGATACCATACATAGGG--GT
* *
1744173 ATCGTTACCATAAGTAAGGGTATCGATACCTAAG
1 ATCGATACCAT-GGTAAGGGTATCGATA-CTAAG
1744207 GGCCAGAAAC
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
92 5 0.05
93 17 0.16
94 66 0.63
95 13 0.12
96 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (94 bp):
ATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAAGCTAATTTGGGTATTGATACATA
GAAGGGGTATCGATACCATACATAGGGGT
Found at i:1744896 original size:79 final size:79
Alignment explanation
Indices: 1744578--1744889 Score: 394
Period size: 79 Copynumber: 3.9 Consensus size: 79
1744568 TAATGAATAC
* *
1744578 AAGAATAATGCATATGGGTGCATTAGTGGCATAAAATGATGCCTTAGCTGATATGTATACGGGTA
1 AAGAATAATGCATATGGGTGCATTAGTGGCATGAAATGATGCCTTAGCTGATATGTATATGGGTA
*
1744643 CATTATCGACATAA
66 CATTATCAACATAA
* * *
1744657 CAA-AATAATTCATATGGGTGCATTAGTGGCATG-AATGGATGCCCTAGCTGATATATATATGGG
1 -AAGAATAATGCATATGGGTGCATTAGTGGCATGAAAT-GATGCCTTAGCTGATATGTATATGGG
* *
1744720 TACATTATTAGCATAA
64 TACATTATCAACATAA
* *** * *
1744736 AAGAATAATGCATATGGGTGCATTATTGGCATTTGAGGATGCCTTAGCTGATATGTATATTGGTA
1 AAGAATAATGCATATGGGTGCATTAGTGGCATGAAATGATGCCTTAGCTGATATGTATATGGGTA
1744801 CATTATCAACATAA
66 CATTATCAACATAA
* * * * * * * *
1744815 AAGAATAATACATATGGGTGCATTATTGCCATGAAATGATGCCATAGTTGAAATGCATATGGGTG
1 AAGAATAATGCATATGGGTGCATTAGTGGCATGAAATGATGCCTTAGCTGATATGTATATGGGTA
1744880 CATTATCAAC
66 CATTATCAAC
1744890 GGAAAAGTAT
Statistics
Matches: 199, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
78 5 0.03
79 191 0.96
80 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (79 bp):
AAGAATAATGCATATGGGTGCATTAGTGGCATGAAATGATGCCTTAGCTGATATGTATATGGGTA
CATTATCAACATAA
Found at i:1744909 original size:45 final size:45
Alignment explanation
Indices: 1744860--1745121 Score: 307
Period size: 45 Copynumber: 5.8 Consensus size: 45
1744850 ATGATGCCAT
* *
1744860 AGTTGAAATGCATATGGGTGCATTATCAACGGAAAAGTATACTAG
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAG
* * *
1744905 AGTTGAAATGCATATGGATGCATTATCAACA-TAAAGTATACTAG
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAG
* * * *
1744949 AGTTGAAATG-ATTATGGGTGCATTAT-AAAAAAAAACGTATGCTAG
1 AGTTGAAATGCA-TATGGGTACATTATCAACAGAAAA-GTATACTAG
* * * *
1744994 AGTTGAAATGTATATCGGTACATAATCAACAGAAAAGGATACTATG
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTA-G
* * * *
1745040 -GTTGAAATGAATATGGGTACATTATCTACATAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAG
1745084 AGTTGAAAATGCATATGGGTACATTATCAACAGAAAAG
1 AGTTG-AAATGCATATGGGTACATTATCAACAGAAAAG
1745122 ATGTTAAAGT
Statistics
Matches: 185, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
43 4 0.02
44 38 0.21
45 105 0.57
46 38 0.21
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAG
Found at i:1744994 original size:89 final size:89
Alignment explanation
Indices: 1744860--1745121 Score: 307
Period size: 89 Copynumber: 2.9 Consensus size: 89
1744850 ATGATGCCAT
** *
1744860 AGTTGAAATGCATATGGGTGCATTATCAACGGAAAAGTATACTAGAGTTGAAATGCATATGGATG
1 AGTTGAAATG-ATATGGGTGCATTATCAACAAAAAAGTATACTAGAGTTGAAATGCATATGG-TA
* *
1744925 CATTATCAACA-TAAAGTATACTA-G
64 CATTATCAACAGAAAAGGATACTATG
* * *
1744949 AGTTGAAATGATTATGGGTGCATTAT-AAAAAAAAACGTATGCTAGAGTTGAAATGTATATCGGT
1 AGTTGAAATGA-TATGGGTGCATTATCAACAAAAAA-GTATACTAGAGTTGAAATGCATAT-GGT
*
1745013 ACATAATCAACAGAAAAGGATACTATG
63 ACATTATCAACAGAAAAGGATACTATG
* * * *
1745040 -GTTGAAATGAATATGGGTACATTATCTACATAAAAGTATACTATAGTTGAAAATGCATATGGGT
1 AGTTGAAATG-ATATGGGTGCATTATCAACAAAAAAGTATACTAGAGTTG-AAATGCATAT-GGT
1745104 ACATTATCAACAGAAAAG
63 ACATTATCAACAGAAAAG
1745122 ATGTTAAAGT
Statistics
Matches: 147, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
88 7 0.05
89 57 0.39
90 46 0.31
91 37 0.25
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (89 bp):
AGTTGAAATGATATGGGTGCATTATCAACAAAAAAGTATACTAGAGTTGAAATGCATATGGTACA
TTATCAACAGAAAAGGATACTATG
Found at i:1745071 original size:134 final size:136
Alignment explanation
Indices: 1744860--1745110 Score: 348
Period size: 134 Copynumber: 1.9 Consensus size: 136
1744850 ATGATGCCAT
* * * * * * *
1744860 AGTTGAAATGCATATGGGTGCATTATCAACGGAAAAGTATACTAGAGTTGAAATGCATATGGATG
1 AGTTGAAATGCATATCGGTACATAATCAACAGAAAAGGATACTAGAGTTGAAATGAATATGGATA
*
1744925 CATTATCAACAT-AAAGTATACTAGAGTTG-AAATG-ATTATGGGTGCATTATAAAAAAAAACGT
66 CATTATCAACATAAAAGTATACTAGAGTTGAAAATGCA-TATGGGTACATTATAAAAAAAAACGT
1744987 ATGCTAG
130 ATGCTAG
* *
1744994 AGTTGAAATGTATATCGGTACATAATCAACAGAAAAGGATACTATG-GTTGAAATGAATATGGGT
1 AGTTGAAATGCATATCGGTACATAATCAACAGAAAAGGATACTA-GAGTTGAAATGAATATGGAT
* *
1745058 ACATTATCTACATAAAAGTATACTATAGTTGAAAATGCATATGGGTACATTAT
65 ACATTATCAACATAAAAGTATACTAGAGTTGAAAATGCATATGGGTACATTAT
1745111 CAACAGAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
134 65 0.64
135 17 0.17
136 18 0.18
137 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (136 bp):
AGTTGAAATGCATATCGGTACATAATCAACAGAAAAGGATACTAGAGTTGAAATGAATATGGATA
CATTATCAACATAAAAGTATACTAGAGTTGAAAATGCATATGGGTACATTATAAAAAAAAACGTA
TGCTAG
Found at i:1745699 original size:80 final size:80
Alignment explanation
Indices: 1745583--1745740 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 80
1745573 AGTAATGGGA
* * **
1745583 TAACTTGCAATTGACATAAAGGTGTCAATTATGCCAGTTAGAT-AATAGTTAAGTACCGTTGAGT
1 TAACTTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAGAGTTAAAAACCGTTGAGT
1745647 AAAAGAATAAAGGTC
66 AAAAGAATAAAGGTC
*
1745662 TAACTGTGCAATTTG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAAGAGTTAAAAACTGTTGA
1 TAACT-TGCAA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAGAGTTAAAAACCGTTGA
*
1745726 GTAAGAGAATAAAGG
64 GTAAAAGAATAAAGG
1745741 AGTTTTAATG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
79 5 0.07
80 33 0.47
81 32 0.46
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (80 bp):
TAACTTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAGAGTTAAAAACCGTTGAGT
AAAAGAATAAAGGTC
Found at i:1750243 original size:20 final size:20
Alignment explanation
Indices: 1750218--1750271 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1750208 CCAAGCAATG
*
1750218 TGGTATCAATACCATGGTAA
1 TGGTATCGATACCATGGTAA
1750238 TGGTATCGATACCATGGTAA
1 TGGTATCGATACCATGGTAA
*
1750258 GGGTATCGATACCA
1 TGGTATCGATACCA
1750272 GTAAACATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (20 bp):
TGGTATCGATACCATGGTAA
Found at i:1750421 original size:21 final size:22
Alignment explanation
Indices: 1750397--1750455 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 22
1750387 TGAAACATTA
* *
1750397 AGGGCGTATCGATACCCTAA-T
1 AGGGCGTATCGATACCATAAGC
*
1750418 AGGGTAC-TATCGATATCATAAGC
1 AGGG--CGTATCGATACCATAAGC
1750441 AGGG-GTATCGATACC
1 AGGGCGTATCGATACC
1750456 TAACGGCCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
21 13 0.43
22 12 0.40
23 5 0.17
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (22 bp):
AGGGCGTATCGATACCATAAGC
Found at i:1750904 original size:45 final size:44
Alignment explanation
Indices: 1750839--1750976 Score: 129
Period size: 45 Copynumber: 3.3 Consensus size: 44
1750829 AGAATAATAC
*
1750839 ATATGGGTGCATTAGTGGCATGAAAGGATGCCGTAGTTGATATGT
1 ATATGGGTACATTAGTGGCATGAAAGGATGCC-TAGTTGATATGT
*
1750884 ATATGGGTACATTA-TCGGCAT-AACA-GA-----A--T-A-ATGC
1 ATATGGGTACATTAGT-GGCATGAA-AGGATGCCTAGTTGATATGT
*
1750918 ATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGTTGATATGT
1 ATATGGGTACATTAGTGGCATGAAAGGATGCC-TAGTTGATATGT
1750963 ATATGGGTACATTA
1 ATATGGGTACATTA
1750977 TCAGTATAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 30
0.68 0.05 0.28
Matches are distributed among these distances:
34 22 0.30
35 6 0.08
36 1 0.01
38 1 0.01
41 1 0.01
43 1 0.01
44 6 0.08
45 35 0.48
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.31
Consensus pattern (44 bp):
ATATGGGTACATTAGTGGCATGAAAGGATGCCTAGTTGATATGT
Found at i:1750960 original size:79 final size:79
Alignment explanation
Indices: 1750824--1751135 Score: 439
Period size: 79 Copynumber: 4.0 Consensus size: 79
1750814 AAACTAATGA
* * *
1750824 ATAAAAGAATAATACATATGGGTGCATTAGTGGCATGAAAGGATGCCGTAGTTGATATGTATATG
1 ATAAAAGAATAATGCATATGGGTACATTAGTGGCATGAAAGGATGCCTTAGTTGATATGTATATG
*
1750889 GGTACATTATCGGC
66 GGTACATTATCAGC
* *
1750903 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGTTGATATGTATATG
1 ATAAAAGAATAATGCATATGGGTACATTAGTGGCATGAAAGGATGCCTTAGTTGATATGTATATG
*
1750968 GGTACATTATCAGT
66 GGTACATTATCAGC
* * * *
1750982 ATAAAAGAATAAT--ATATGGGTACAGTATTGGCATGAAAGGATTCCTTAGCTGATATGTATATG
1 ATAAAAGAATAATGCATATGGGTACATTAGTGGCATGAAAGGATGCCTTAGTTGATATGTATATG
* *
1751045 GATATATTATCAGC
66 GGTACATTATCAGC
* * * * *
1751059 ATAAAAGAATAATGCATATGGGTACATTATTGACATGAAAGGATGCCATAGTTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTACATTAGTGGCATGAAAGGATGCCTTAGTTGATATGTATATG
*
1751124 GGTGCATTATCA
66 GGTACATTATCA
1751136 ATAGAAAAGT
Statistics
Matches: 207, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
77 69 0.33
79 138 0.67
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTACATTAGTGGCATGAAAGGATGCCTTAGTTGATATGTATATG
GGTACATTATCAGC
Found at i:1751123 original size:156 final size:157
Alignment explanation
Indices: 1750824--1751144 Score: 455
Period size: 156 Copynumber: 2.0 Consensus size: 157
1750814 AAACTAATGA
* * *
1750824 ATAAAAGAATAATACATATGGGTGCATTAGTGGCATGAAAGGATGCCGTAGTTGATATGTATATG
1 ATAAAAGAATAATA-ATATGGGTACAGTAGTGGCATGAAAGGATGCCGTAGCTGATATGTATATG
* * * * * *
1750889 GGTACATTATCGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAG
65 GATACATTATCAGCATAAAAGAATAATGCATATGGGTACATTAGTGACATGAAAGGATGCCATAG
* * *
1750954 TTGATATGTATATGGGTACATTATCAGT
130 TTGAAATGCATATGGGTACATTATCAAT
* * *
1750982 ATAAAAGAATAAT-ATATGGGTACAGTATTGGCATGAAAGGATTCCTTAGCTGATATGTATATGG
1 ATAAAAGAATAATAATATGGGTACAGTAGTGGCATGAAAGGATGCCGTAGCTGATATGTATATGG
* *
1751046 ATATATTATCAGCATAAAAGAATAATGCATATGGGTACATTATTGACATGAAAGGATGCCATAGT
66 ATACATTATCAGCATAAAAGAATAATGCATATGGGTACATTAGTGACATGAAAGGATGCCATAGT
*
1751111 TGAAATGCATATGGGTGCATTATCAAT
131 TGAAATGCATATGGGTACATTATCAAT
*
1751138 AGAAAAG
1 ATAAAAG
1751145 TACACTAGAG
Statistics
Matches: 144, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
156 131 0.91
158 13 0.09
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.30
Consensus pattern (157 bp):
ATAAAAGAATAATAATATGGGTACAGTAGTGGCATGAAAGGATGCCGTAGCTGATATGTATATGG
ATACATTATCAGCATAAAAGAATAATGCATATGGGTACATTAGTGACATGAAAGGATGCCATAGT
TGAAATGCATATGGGTACATTATCAAT
Found at i:1751133 original size:45 final size:45
Alignment explanation
Indices: 1751069--1751368 Score: 246
Period size: 45 Copynumber: 6.7 Consensus size: 45
1751059 ATAAAAGAAT
* * * *
1751069 AATGCATATGGGTACATTATTGACAT-G-AAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTA-TCA-ATAGAAAAGGATACCAGAGTTGA
* * * *
1751114 AATGCATATGGGTGCATTATCAATAGAAAAGTACACTAGAGTTAA
1 AATGCATATGGGTGCATTATCAATAGAAAAGGATACCAGAGTTGA
* * *
1751159 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
1 AATGCATATGGGTGCATTATCAATAGAAAAGGATACCAGAGTTGA
* * *
1751204 AATGCATATGGGTGCATTATCAATAGAAAAGTATGCTAGAGTTGA
1 AATGCATATGGGTGCATTATCAATAGAAAAGGATACCAGAGTTGA
* * * * * * *
1751249 AATGTATATGGGTACATTGTCAACAAAAAAGTATACTATG-GTTGA
1 AATGCATATGGGTGCATTATCAATAGAAAAGGATACCA-GAGTTGA
* * * * * * * ** *
1751294 AATGAATATGAGTACATTATCTACATAAAAGTATAATATAGTTGA
1 AATGCATATGGGTGCATTATCAATAGAAAAGGATACCAGAGTTGA
* * *
1751339 AATGCATATGGATACATTATCAACAGAAAA
1 AATGCATATGGGTGCATTATCAATAGAAAA
1751369 TATGTTAAAG
Statistics
Matches: 220, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
43 2 0.01
44 3 0.01
45 214 0.97
46 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAATAGAAAAGGATACCAGAGTTGA
Found at i:1751202 original size:90 final size:91
Alignment explanation
Indices: 1751069--1751368 Score: 374
Period size: 90 Copynumber: 3.3 Consensus size: 91
1751059 ATAAAAGAAT
** * * *
1751069 AATGCATATGGGTACATTATTGACATG-AAAGGATGCCAT-AGTTGAAATGCATATGGGTGCATT
1 AATGCATATGGGTACATTATCAACA-GAAAAGTATACTATGAGTTGAAATGCATATGGGTGCATT
* *
1751132 ATCAATAGAAAAGTACACTAGAGTTAA
65 ATCAATAGAAAAGTATACTAGAGTTGA
*
1751159 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTA-GAGTTGAAATGCATATGGGTGCATTA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATACTATGAGTTGAAATGCATATGGGTGCATTA
*
1751223 TCAATAGAAAAGTATGCTAGAGTTGA
66 TCAATAGAAAAGTATACTAGAGTTGA
* * * * * *
1751249 AATGTATATGGGTACATTGTCAACAAAAAAGTATACTATG-GTTGAAATGAATATGAGTACATTA
1 AATGCATATGGGTACATTATCAACAGAAAAGTATACTATGAGTTGAAATGCATATGGGTGCATTA
* * * * *
1751313 TCTACATAAAAGTATAATATAGTTGA
66 TCAATAGAAAAGTATACTAGAGTTGA
*
1751339 AATGCATATGGATACATTATCAACAGAAAA
1 AATGCATATGGGTACATTATCAACAGAAAA
1751369 TATGTTAAAG
Statistics
Matches: 181, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
89 1 0.01
90 179 0.99
91 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (91 bp):
AATGCATATGGGTACATTATCAACAGAAAAGTATACTATGAGTTGAAATGCATATGGGTGCATTA
TCAATAGAAAAGTATACTAGAGTTGA
Found at i:1751312 original size:135 final size:135
Alignment explanation
Indices: 1751069--1751372 Score: 364
Period size: 135 Copynumber: 2.3 Consensus size: 135
1751059 ATAAAAGAAT
* * * *
1751069 AATGCATATGGGTACATTATTGACAT-G-AAAGGATGCCATAGTTGAAATGCATATGGGTGCATT
1 AATGCATATGGGTACATTA-TCA-ATAGAAAAGTATGCCAGAGTTGAAATGCATATGGGTACATT
* * * * * *
1751132 ATCAATAGAAAAGTACACTAGAGTTAAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTA
64 ATCAACAAAAAAGTACACTAGAGTTAAAATGAATATGAGTACATTATCAACAGAAAAGTATAATA
1751197 GAGTTGA
129 GAGTTGA
* * * *
1751204 AATGCATATGGGTGCATTATCAATAGAAAAGTATGCTAGAGTTGAAATGTATATGGGTACATTGT
1 AATGCATATGGGTACATTATCAATAGAAAAGTATGCCAGAGTTGAAATGCATATGGGTACATTAT
* * * * *
1751269 CAACAAAAAAGTATACTATG-GTTGAAATGAATATGAGTACATTATCTACATAAAAGTATAATAT
66 CAACAAAAAAGTACACTA-GAGTTAAAATGAATATGAGTACATTATCAACAGAAAAGTATAATAG
1751333 AGTTGA
130 AGTTGA
* *
1751339 AATGCATATGGATACATTATCAACAGAAAA-TATG
1 AATGCATATGGGTACATTATCAATAGAAAAGTATG
1751373 TTAAAGTTTA
Statistics
Matches: 144, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
133 2 0.01
134 7 0.05
135 134 0.93
136 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (135 bp):
AATGCATATGGGTACATTATCAATAGAAAAGTATGCCAGAGTTGAAATGCATATGGGTACATTAT
CAACAAAAAAGTACACTAGAGTTAAAATGAATATGAGTACATTATCAACAGAAAAGTATAATAGA
GTTGA
Found at i:1751989 original size:81 final size:81
Alignment explanation
Indices: 1751837--1751989 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
1751827 ATGGCCTAGT
* ** *
1751837 TGTGCAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAGTATCGTTGAGTAAA
1 TGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAACATCGTTCAGTAAA
*
1751902 ATAATAATGGTATAAC
66 AGAATAATGGTATAAC
* * * * * *
1751918 TGTGCAATTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAAGAGTTAAACATTGTTCAGTAAG
1 TGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAACATCGTTCAGTAAA
1751983 AGAATAA
66 AGAATAA
1751990 AGGAATTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
TGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAACATCGTTCAGTAAA
AGAATAATGGTATAAC
Found at i:1753979 original size:18 final size:18
Alignment explanation
Indices: 1753958--1753993 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1753948 CTTCCATCCG
*
1753958 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1753976 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1753994 GTCATTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1755220 original size:18 final size:18
Alignment explanation
Indices: 1755197--1755234 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1755187 CGGTCAACGA
* *
1755197 GTCGGGTCAATGGGTCGG
1 GTCGGGTAAACGGGTCGG
1755215 GTCGGGTAAACGGGTCGG
1 GTCGGGTAAACGGGTCGG
1755233 GT
1 GT
1755235 AAAGGGGTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.16, G:0.50, T:0.21
Consensus pattern (18 bp):
GTCGGGTAAACGGGTCGG
Found at i:1755228 original size:13 final size:13
Alignment explanation
Indices: 1755212--1755247 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1755202 GTCAATGGGT
1755212 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
1755225 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
*
1755238 GGGGTCGGGT
1 CGGGTCGGGT
1755248 CGAGTCGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.14, G:0.53, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:1755246 original size:18 final size:17
Alignment explanation
Indices: 1755197--1755249 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
1755187 CGGTCAACGA
*
1755197 GTCGGGTCAATGGGTCGG
1 GTCGGGT-AAAGGGTCGG
1755215 GTCGGGTAAA----CGG
1 GTCGGGTAAAGGGTCGG
1755228 GTCGGGTAAAGGGGTCGG
1 GTCGGGTAAA-GGGTCGG
1755246 GTCG
1 GTCG
1755250 AGTCGGGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 13 0.45
17 2 0.07
18 14 0.48
ACGTcount: A:0.15, C:0.15, G:0.51, T:0.19
Consensus pattern (17 bp):
GTCGGGTAAAGGGTCGG
Found at i:1756835 original size:18 final size:18
Alignment explanation
Indices: 1756812--1756847 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1756802 CTTCCATACG
*
1756812 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1756830 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1756848 GTCCTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1760211 original size:18 final size:18
Alignment explanation
Indices: 1760190--1760224 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1760180 TTTCATCCGG
*
1760190 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
1760208 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
1760225 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:1761571 original size:18 final size:19
Alignment explanation
Indices: 1761548--1761599 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
1761538 CGGTCAACGA
1761548 GTCGGGTCAACGGGTCT-G
1 GTCGGGTCAACGGGTCTGG
1761566 GTCGGGTCAACGGGT-TGG
1 GTCGGGTCAACGGGTCTGG
*
1761584 GTCGGGTGAACGGGTC
1 GTCGGGTCAACGGGTC
1761600 AGGTAAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.12, C:0.19, G:0.48, T:0.21
Consensus pattern (19 bp):
GTCGGGTCAACGGGTCTGG
Found at i:1766660 original size:83 final size:82
Alignment explanation
Indices: 1766553--1766874 Score: 392
Period size: 83 Copynumber: 4.0 Consensus size: 82
1766543 AACTATATGC
* * * *
1766553 TTAATATT-TAAATTTAAACAATATTATTATCTATTTAGATTTAGATATTAAAAGAGTCTTGGTT
1 TTAATATTATAAATTTAAAAAATATTATAATCTATTTAAATTTAGATATTAAAAGAGTTTTGGTT
1766617 GGAG-AAAATCTCTCATGT
66 GGAGTAAAA-CTCTCA-GT
1766635 TTAATATTATAAATTTAAAAAATATTATAATCTATTTAAATTTAGATATTAAAA-AGTTTTGGTT
1 TTAATATTATAAATTTAAAAAATATTATAATCTATTTAAATTTAGATATTAAAAGAGTTTTGGTT
* *
1766699 GGAGTAAAACTCTTAGGA
66 GGAGTAAAACTCTCA-GT
* **
1766717 TTAATATTATAAATTTTAAAAAA-ATTATAATCTTTTTAAATTTAGATATTAAAAGAGTTTTTTT
1 TTAATATTATAAA-TTTAAAAAATATTATAATCTATTTAAATTTAGATATTAAAAGAGTTTTGGT
*
1766781 TAGAGTAAAACTCTCAGAT
65 TGGAGTAAAACTCTCAG-T
* * * * *
1766800 TTAATATTTTAAATTTAAAAGATATTACAATATA-TT---TTTAGATA-TAAAGAGAGTTTTAGT
1 TTAATATTATAAATTTAAAAAATATTATAATCTATTTAAATTTAGATATTAAA-AGAGTTTTGGT
1766860 TGGAGTAAAACTCTC
65 TGGAGTAAAACTCTC
1766875 TCGAATATCC
Statistics
Matches: 212, Mismatches: 21, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
78 4 0.02
79 31 0.15
82 81 0.38
83 96 0.45
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.43
Consensus pattern (82 bp):
TTAATATTATAAATTTAAAAAATATTATAATCTATTTAAATTTAGATATTAAAAGAGTTTTGGTT
GGAGTAAAACTCTCAGT
Found at i:1769204 original size:13 final size:12
Alignment explanation
Indices: 1769169--1769211 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
1769159 TCCAATTTTC
1769169 TTTCTTTCTTA-
1 TTTCTTTCTTAT
1769180 TTT-TTTCTTTAT
1 TTTCTTTC-TTAT
1769192 TTTCTTTCATTAT
1 TTTCTTTC-TTAT
1769205 TTTCTTT
1 TTTCTTT
1769212 TCACAATGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 4 0.14
11 6 0.21
12 3 0.11
13 15 0.54
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCTTTCTTAT
Found at i:1769816 original size:9 final size:8
Alignment explanation
Indices: 1769802--1769838 Score: 51
Period size: 7 Copynumber: 4.8 Consensus size: 8
1769792 ATTCTTCTAT
1769802 TTTATTTA
1 TTTATTTA
1769810 CTTTATTTA
1 -TTTATTTA
1769819 TTT-TTTA
1 TTTATTTA
1769826 TTTATTT-
1 TTTATTTA
1769833 TTTATT
1 TTTATT
1769839 ATCCACTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 13 0.48
8 6 0.22
9 8 0.30
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTATTTA
Found at i:1769818 original size:4 final size:4
Alignment explanation
Indices: 1769802--1769838 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
1769792 ATTCTTCTAT
1769802 TTTA TTTA CTTTA TTTA TTT- TTTA TTTA TTT- TTTA TT
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1769839 ATCCACTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 6 0.20
4 20 0.67
5 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1769826 original size:20 final size:18
Alignment explanation
Indices: 1769801--1769838 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
1769791 AATTCTTCTA
1769801 TTTTATTTACTTTATTTATT
1 TTTTATTTA-TTT-TTTATT
1769821 TTTTATTTATTTTTTATT
1 TTTTATTTATTTTTTATT
1769839 ATCCACTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTTATTTTTTATT
Found at i:1769827 original size:11 final size:11
Alignment explanation
Indices: 1769811--1769838 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1769801 TTTTATTTAC
1769811 TTTATTTATTT
1 TTTATTTATTT
1769822 TTTATTTATTT
1 TTTATTTATTT
1769833 TTTATT
1 TTTATT
1769839 ATCCACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:1771430 original size:31 final size:31
Alignment explanation
Indices: 1771387--1771473 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
1771377 CTTTTGGAAA
* *
1771387 AAAAGTTGAAAGTTTAGGTGCTAAAACATACC
1 AAAA-TTGAAAGTTTAGGTACTAAAACAGACC
* *
1771419 AAAATTGAAAGTGTAGGTACTAAAACGGACC
1 AAAATTGAAAGTTTAGGTACTAAAACAGACC
* * *
1771450 AAAAATGATAGTTTAGGCACTAAA
1 AAAATTGAAAGTTTAGGTACTAAA
1771474 CGAGTAGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 43 0.91
32 4 0.09
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAATTGAAAGTTTAGGTACTAAAACAGACC
Found at i:1773022 original size:28 final size:28
Alignment explanation
Indices: 1772984--1773052 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
1772974 ATATATATAT
*
1772984 ATATGATAATATATACAATTATTTCAAAA-
1 ATAT-ATAATATATACAATT-TTTAAAAAC
* *
1773013 ATATATAATATATATAGTTTTTAAAAAC
1 ATATATAATATATACAATTTTTAAAAAC
1773041 ATATATAATATA
1 ATATATAATATA
1773053 ATATATAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.19
28 25 0.69
29 4 0.11
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (28 bp):
ATATATAATATATACAATTTTTAAAAAC
Found at i:1773094 original size:74 final size:75
Alignment explanation
Indices: 1773009--1773176 Score: 199
Period size: 74 Copynumber: 2.3 Consensus size: 75
1772999 CAATTATTTC
1773009 AAAA-ATATATAATATATATAGTTTTTAAAAACATA-TAT-AAT-ATA-ATATATAGTTTTTTAA
1 AAAACATATATAATATATATA-TTTTTAAAAACATATTATAAATCATATATATATAG-TTTTTAA
*
1773069 AATGGCTTTTTTG
64 AAT-GATTTTTTG
* *
1773082 AAAACATATAT-A-ATATA-ATTTTTGAAAACATATTTTTGAAATCATATATATATAGTTTTTAA
1 AAAACATATATAATATATATATTTTTAAAAACATA-TTAT-AAATCATATATATATAGTTTTTAA
1773144 AATGATTTTTTG
64 AATGATTTTTTG
*
1773156 AAAACGTATATAATATATATA
1 AAAACATATATAATATATATA
1773177 AATATTTGAA
Statistics
Matches: 81, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
70 13 0.16
71 1 0.01
72 7 0.09
73 5 0.06
74 27 0.33
75 14 0.17
76 13 0.16
77 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (75 bp):
AAAACATATATAATATATATATTTTTAAAAACATATTATAAATCATATATATATAGTTTTTAAAA
TGATTTTTTG
Found at i:1773118 original size:14 final size:14
Alignment explanation
Indices: 1773099--1773128 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1773089 ATATAATATA
1773099 ATTTTTGAAAACAT
1 ATTTTTGAAAACAT
*
1773113 ATTTTTGAAATCAT
1 ATTTTTGAAAACAT
1773127 AT
1 AT
1773129 ATATATAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (14 bp):
ATTTTTGAAAACAT
Found at i:1773118 original size:38 final size:37
Alignment explanation
Indices: 1773048--1773172 Score: 130
Period size: 38 Copynumber: 3.3 Consensus size: 37
1773038 AACATATATA
1773048 ATATAATATATAGTTTTTTAAAATGGC-TTTTTTGAAAACAT
1 ATATAATATA-A--TTTTTAAAAT--CATTTTTTGAAAACAT
*
1773089 ATATAATATAATTTTTGAAAA-CATATTTTTGAAATCAT
1 ATATAATATAATTTTT-AAAATCAT-TTTTTGAAAACAT
* * *
1773127 ATAT-ATATAGTTTTTAAAATGATTTTTTGAAAACGT
1 ATATAATATAATTTTTAAAATCATTTTTTGAAAACAT
1773163 ATATAATATA
1 ATATAATATA
1773173 TATAAATATT
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
36 20 0.27
37 18 0.24
38 21 0.28
39 4 0.05
40 1 0.01
41 10 0.14
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (37 bp):
ATATAATATAATTTTTAAAATCATTTTTTGAAAACAT
Found at i:1773192 original size:20 final size:20
Alignment explanation
Indices: 1773167--1773212 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1773157 AAACGTATAT
1773167 AATATATATAAATATTTGAA
1 AATATATATAAATATTTGAA
* * * *
1773187 AATATATTTTAGTTTTTGAA
1 AATATATATAAATATTTGAA
1773207 AATATA
1 AATATA
1773213 ATATCTATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (20 bp):
AATATATATAAATATTTGAA
Found at i:1773269 original size:12 final size:11
Alignment explanation
Indices: 1773249--1773326 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 11
1773239 AGTGTATGTA
*
1773249 TTATTTATTAT
1 TTATATATTAT
1773260 GTTATATATTAT
1 -TTATATATTAT
1773272 TTATAGTATTAT
1 TTATA-TATTAT
1773284 TTAT-TATT-T
1 TTATATATTAT
*
1773293 TATATTTATTAT
1 T-TATATATTAT
*
1773305 ATTACTTTATTAT
1 -TTA-TATATTAT
*
1773318 TTATTTATT
1 TTATATATT
1773327 TGTTTAATTA
Statistics
Matches: 59, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
9 2 0.03
10 7 0.12
11 15 0.25
12 26 0.44
13 9 0.15
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (11 bp):
TTATATATTAT
Found at i:1773290 original size:38 final size:38
Alignment explanation
Indices: 1773247--1773326 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 38
1773237 ATAGTGTATG
1773247 TATTA-TTTATTATGTTA-TATATTA-TTTA-TAGTATTATT
1 TATTATTTTA-TAT-TTATTATATTACTTTATTA-T-TTATT
1773285 TATTATTTTATATTTATTATATTACTTTATTATTTATT
1 TATTATTTTATATTTATTATATTACTTTATTATTTATT
1773323 TATT
1 TATT
1773327 TGTTTAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
37 3 0.08
38 24 0.63
39 9 0.24
40 2 0.05
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (38 bp):
TATTATTTTATATTTATTATATTACTTTATTATTTATT
Found at i:1773315 original size:31 final size:31
Alignment explanation
Indices: 1773247--1773327 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 31
1773237 ATAGTGTATG
* *
1773247 TATTATTTATTATGTTATATATTATTTATAG
1 TATTATTTATTATTTTATATATTATTTATAC
1773278 TATTATTTATTATTTTATAT-TTATTATATTAC
1 TATTATTTATTATTTTATATATTATT-TA-TAC
1773310 TTTATTATTTATTTATTT
1 --TATTATTTA-TTATTT
1773328 GTTTAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 5 0.12
31 21 0.49
32 2 0.05
34 9 0.21
35 6 0.14
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (31 bp):
TATTATTTATTATTTTATATATTATTTATAC
Found at i:1773338 original size:20 final size:20
Alignment explanation
Indices: 1773247--1773326 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 20
1773237 ATAGTGTATG
1773247 TATTA-TTTATTATGTTA-TA
1 TATTACTTTATTAT-TTATTA
1773266 TATTA-TTTA-TAGTATTATT-
1 TATTACTTTATTA-T-TTATTA
*
1773285 TATTATTTTA-TATTTATTA
1 TATTACTTTATTATTTATTA
1773304 TATTACTTTATTATTTATT-
1 TATTACTTTATTATTTATTA
1773323 TATT
1 TATT
1773327 TGTTTAATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.13
19 32 0.59
20 15 0.28
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (20 bp):
TATTACTTTATTATTTATTA
Found at i:1774467 original size:22 final size:22
Alignment explanation
Indices: 1774442--1774491 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
1774432 TTAATCCTTT
**
1774442 TTTATTATTTATTTTATTTTAA
1 TTTATTACCTATTTTATTTTAA
* *
1774464 TTTAATACCTATTTTATTTTAT
1 TTTATTACCTATTTTATTTTAA
1774486 TTTATT
1 TTTATT
1774492 TAACATTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTATTACCTATTTTATTTTAA
Found at i:1780768 original size:13 final size:13
Alignment explanation
Indices: 1780747--1780780 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1780737 TAATGGGAAT
*
1780747 TTTGAAAACTATG
1 TTTGAAAACGATG
*
1780760 TTTGTAAACGATG
1 TTTGAAAACGATG
1780773 TTTGAAAA
1 TTTGAAAA
1780781 TCAATATGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (13 bp):
TTTGAAAACGATG
Found at i:1781308 original size:44 final size:44
Alignment explanation
Indices: 1781248--1781356 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
1781238 TGTATCGATG
* ** *
1781248 CACTG-CATAGTGTATCGATGCACATTGAAGGAATGTGTCGGTG
1 CACTGTCATAGTGTATCGATGCACATTCAAGGAATGCATCGGTA
* *
1781291 CACCT-TCATAGTGTATCGATGCATATTCAAGGGATGCATCGGTA
1 CA-CTGTCATAGTGTATCGATGCACATTCAAGGAATGCATCGGTA
*
1781335 CACTGTC-TTGTGTATCGATGCA
1 CACTGTCATAGTGTATCGATGCA
1781357 TTTATCACAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
43 18 0.32
44 38 0.68
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (44 bp):
CACTGTCATAGTGTATCGATGCACATTCAAGGAATGCATCGGTA
Found at i:1787057 original size:27 final size:26
Alignment explanation
Indices: 1787025--1787081 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
1787015 GCCATGAGTG
* *
1787025 CATCGATGCATGGTCTGTGCATCGGTA
1 CATCGATGAATGGTATGTGCAT-GGTA
1787052 CATCGATGAATGGTATGTGCATGGTA
1 CATCGATGAATGGTATGTGCATGGTA
1787078 CATC
1 CATC
1787082 AAGAGCATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (26 bp):
CATCGATGAATGGTATGTGCATGGTA
Found at i:1789004 original size:180 final size:181
Alignment explanation
Indices: 1788702--1789063 Score: 685
Period size: 180 Copynumber: 2.0 Consensus size: 181
1788692 TTTATTTATA
1788702 TTTCAATAAAAGACGCAATTTTTCTTTCTGGCAAACATTTATTCCTTTCATTTATTCTTTCATGT
1 TTTCAATAAAAGACGCAATTTTTCTTTCTGGCAAACATTTATTCCTTTCATTTATTCTTTCATGT
1788767 ATAATATATTTGTTTCTACGTTCTATATGGAATATTTTTCCTCTCGCATATATATATTTTCCCTC
66 ATAATATATTTGTTTCTACGTTCTATATGGAATATTTTTCCTCTCGCATATATATA--TTCCCTC
1788832 TTTTT-TTTAA-GTCTTTGGATATTAATGATGTGGATAATGATGATTC-GAAC
129 TTTTTCTTTAAGGTCTTTGGATATTAATGATGTGGATAATGATGATTCTGAAC
1788882 TTTCAATAAAAGACGCAATTTTTCTTTCTGGCAAACATTTATTCCTTTCATTTATTCTTTCATGT
1 TTTCAATAAAAGACGCAATTTTTCTTTCTGGCAAACATTTATTCCTTTCATTTATTCTTTCATGT
1788947 ATAATATATTTGTTTCTACGTTCTATATGGAATATTTTTCCTCTCGCATATATATATTCCCTCTT
66 ATAATATATTTGTTTCTACGTTCTATATGGAATATTTTTCCTCTCGCATATATATATTCCCTCTT
1789012 TTTCTTTAAGGTCTTTGGATATTAATGATGTGGATAATGATGATTCTGAAC
131 TTTCTTTAAGGTCTTTGGATATTAATGATGTGGATAATGATGATTCTGAAC
1789063 T
1 T
1789064 GGAGATCAAT
Statistics
Matches: 179, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
178 12 0.07
179 5 0.03
180 157 0.88
181 5 0.03
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (181 bp):
TTTCAATAAAAGACGCAATTTTTCTTTCTGGCAAACATTTATTCCTTTCATTTATTCTTTCATGT
ATAATATATTTGTTTCTACGTTCTATATGGAATATTTTTCCTCTCGCATATATATATTCCCTCTT
TTTCTTTAAGGTCTTTGGATATTAATGATGTGGATAATGATGATTCTGAAC
Found at i:1794219 original size:24 final size:23
Alignment explanation
Indices: 1794192--1794236 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1794182 CGTAATATAT
1794192 ATATTTTGAAATATATATTATAAC
1 ATATTTTGAAATATA-ATTATAAC
**
1794216 ATATTTTTTAATATAATTATA
1 ATATTTTGAAATATAATTATA
1794237 GTTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTGAAATATAATTATAAC
Found at i:1794252 original size:16 final size:17
Alignment explanation
Indices: 1794221--1794254 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1794211 ATAACATATT
*
1794221 TTTTAATATAATTATAG
1 TTTTAATATAAATATAG
1794238 TTTTAA-ATAAATATAG
1 TTTTAATATAAATATAG
1794254 T
1 T
1794255 GTACATATTA
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:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTTAATATAAATATAG
Found at i:1794322 original size:23 final size:24
Alignment explanation
Indices: 1794271--1794329 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
1794261 ATTATTTATA
* * *
1794271 TATTATATATATTATAGTATTATT
1 TATTATTTATTTTATAGTATAATT
1794295 TATTATTTATTTTATA-TATAATT
1 TATTATTTATTTTATAGTATAATT
1794318 TATTATTTATTT
1 TATTATTTATTT
1794330 GTTTGTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TATTATTTATTTTATAGTATAATT
Found at i:1794327 original size:7 final size:7
Alignment explanation
Indices: 1794260--1794328 Score: 54
Period size: 7 Copynumber: 9.6 Consensus size: 7
1794250 ATAGTGTACA
1794260 TATTATT
1 TATTATT
1794267 TA-TATAT
1 TATTAT-T
*
1794274 TA-TATA
1 TATTATT
*
1794280 TATTATAG
1 TATTAT-T
1794288 TATTATT
1 TATTATT
1794295 TATTATT
1 TATTATT
1794302 TATT-TT
1 TATTATT
1794308 ATATATAATT
1 -TAT-T-ATT
1794318 TATTATT
1 TATTATT
1794325 TATT
1 TATT
1794329 TGTTTGTTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
6 7 0.13
7 32 0.62
8 8 0.15
9 3 0.06
10 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (7 bp):
TATTATT
Found at i:1798247 original size:5 final size:6
Alignment explanation
Indices: 1798225--1798254 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1798215 TTCACACTCA
*
1798225 CTTTTC CTTTTT CTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
1798255 AACACTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:1807946 original size:20 final size:20
Alignment explanation
Indices: 1807913--1807963 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1807903 AATTTTAAAA
1807913 AGATTCCACCCCAGGGGGTAC
1 AGATTCC-CCCCAGGGGGTAC
1807934 AGATTCCCCCCAGGGGGTAC
1 AGATTCCCCCCAGGGGGTAC
1807954 AGATTCCCCC
1 AGATTCCCCC
1807964 TGCAGGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.22, C:0.37, G:0.25, T:0.16
Consensus pattern (20 bp):
AGATTCCCCCCAGGGGGTAC
Found at i:1808043 original size:22 final size:21
Alignment explanation
Indices: 1807999--1808079 Score: 94
Period size: 21 Copynumber: 3.8 Consensus size: 21
1807989 AGATTGTCCA
1807999 GGGGATACAGATT-CCCCCCAG
1 GGGGA-ACAGATTCCCCCCCAG
1808020 GGGGAACAGATTCCCCCCCAAG
1 GGGGAACAGATTCCCCCCC-AG
*
1808042 GGGGTATC-GATTCCCCCCCAG
1 GGGG-AACAGATTCCCCCCCAG
* *
1808063 GGGGTACCGATTCCCCC
1 GGGGAACAGATTCCCCC
1808080 ATGTCTAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
20 8 0.15
21 26 0.49
22 17 0.32
23 2 0.04
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (21 bp):
GGGGAACAGATTCCCCCCCAG
Found at i:1809590 original size:19 final size:20
Alignment explanation
Indices: 1809566--1809613 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1809556 AATGATTTTC
*
1809566 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1809585 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1809605 TTTTGAAAA
1 TTTTGAAAA
1809614 GGATTAGAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1809596 original size:211 final size:213
Alignment explanation
Indices: 1809176--1809599 Score: 748
Period size: 211 Copynumber: 2.0 Consensus size: 213
1809166 AAGAAGAACT
1809176 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
1 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
1809241 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
66 ATTCATATACATTTGATGAGTT--AAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
1809306 AACACCAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTCTTTGAAAACAAAAAT
129 AACACCAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTCTTTGAAAACAAAAAT
1809371 AGATTTTGAAAGCCAAAACC
194 AGATTTTGAAAGCCAAAACC
* *
1809391 AACAAAGGTGGTGTCTCTATTGGCTCGTGATGAGCCCGAGGTATCTTCTAACTCAAATGAATTTA
1 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
**
1809456 ATTCATAT-GTTTTGATGAGTT-AGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG-A
66 ATTCATATACATTTGATGAGTTAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATGAA
1809518 CACCAATATAAG-AAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAAAAT
131 CACCAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGA-TTTC-TTTGAAAACAAAAAT
1809582 AGATTTTGAAAGCCAAAA
194 AGATTTTGAAAGCCAAAA
1809600 TGAAATTTTG
Statistics
Matches: 203, Mismatches: 4, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
209 31 0.15
210 17 0.08
211 73 0.36
214 11 0.05
215 71 0.35
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (213 bp):
AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
ATTCATATACATTTGATGAGTTAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATGAA
CACCAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTCTTTGAAAACAAAAATAG
ATTTTGAAAGCCAAAACC
Found at i:1811053 original size:22 final size:21
Alignment explanation
Indices: 1811006--1811047 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1810996 ATCAGATTGT
*
1811006 CCAGGTGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
1811027 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
1811048 TGCAGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.38, G:0.26, T:0.17
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:1811121 original size:22 final size:21
Alignment explanation
Indices: 1811083--1811164 Score: 110
Period size: 21 Copynumber: 3.8 Consensus size: 21
1811073 AGATTGTCCA
1811083 GGGGATACAGATTCCCCCCCAG
1 GGGGA-ACAGATTCCCCCCCAG
1811105 GGGGAACAGATTCCCCCCCAAG
1 GGGGAACAGATTCCCCCCC-AG
* *
1811127 GGGGTACCGATTCCCCCCCAG
1 GGGGAACAGATTCCCCCCCAG
* *
1811148 GGGGTACCGATTCCCCC
1 GGGGAACAGATTCCCCC
1811165 TGTCTAATAG
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
21 33 0.58
22 24 0.42
ACGTcount: A:0.20, C:0.39, G:0.28, T:0.13
Consensus pattern (21 bp):
GGGGAACAGATTCCCCCCCAG
Found at i:1811139 original size:43 final size:43
Alignment explanation
Indices: 1811082--1811164 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
1811072 CAGATTGTCC
1811082 AGGGGATACAGATTCCCCCCCAGGGGGAACAGATTCCCCCCCA
1 AGGGGATACAGATTCCCCCCCAGGGGGAACAGATTCCCCCCCA
* * * *
1811125 AGGGGGTACCGATTCCCCCCCAGGGGGTACCGATTCCCCC
1 AGGGGATACAGATTCCCCCCCAGGGGGAACAGATTCCCCC
1811165 TGTCTAATAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.20, C:0.39, G:0.28, T:0.13
Consensus pattern (43 bp):
AGGGGATACAGATTCCCCCCCAGGGGGAACAGATTCCCCCCCA
Found at i:1812638 original size:218 final size:218
Alignment explanation
Indices: 1812260--1812693 Score: 823
Period size: 218 Copynumber: 2.0 Consensus size: 218
1812250 AAGAAGAACT
1812260 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
1 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
1812325 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
66 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
*
1812390 AACACTAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
131 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
1812455 AATAGATTTTGAAAGCCAAAACC
196 AATAGATTTTGAAAGCCAAAACC
*
1812478 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCGAGGTATCTTCTAACTCAAATGAATTTA
1 AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
** *
1812543 ATTCATATATGTTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCTTG
66 ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
1812608 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
131 AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
1812673 AATAGATTTTGAAAGCCAAAA
196 AATAGATTTTGAAAGCCAAAA
1812694 TGAAATTTTG
Statistics
Matches: 211, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
218 211 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (218 bp):
AACAAAGGTGGTGTCTCTAATGGCTCGTGATGAGCCCAAGGTATCTTCTAACTCAAATGAATTTA
ATTCATATACATTTGATGAGTTACAAGATGCTTTTAATAGGTTATATTCGGAGTTTGAGACCATG
AACACCAAATATAAGAAAATGATTTCAAAATTTAAAATTGAAAATGATTTTCTTTTGAAAACAAA
AATAGATTTTGAAAGCCAAAACC
Found at i:1812684 original size:19 final size:20
Alignment explanation
Indices: 1812660--1812707 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1812650 AATGATTTTC
*
1812660 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1812679 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1812699 TTTTGAAAA
1 TTTTGAAAA
1812708 AAGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Done.