Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_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: 2797279
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:599548 original size:16 final size:16
Alignment explanation
Indices: 599527--599563 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
599517 ATTATATTTT
599527 TATTATTATTAATAAA
1 TATTATTATTAATAAA
* *
599543 TATTATTATTACTACA
1 TATTATTATTAATAAA
599559 TATTA
1 TATTA
599564 CAGGCCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTATTATTAATAAA
Found at i:601672 original size:138 final size:138
Alignment explanation
Indices: 601431--601777 Score: 552
Period size: 138 Copynumber: 2.5 Consensus size: 138
601421 AAAAATAAAC
* * * *
601431 ATATTTTAATATTTATATATATTTTTAATATTAAGTAATGAGTTATCTTAAAGCATCTAGAAGTC
1 ATATTTTAATATTTATTTAT-TTTTTAATATTAAGAAATGAGTTGTCTTAAAGCACCTAGAAGTC
*
601496 ATTTTCTTCTTAAAAAAATAAAATATCCTACTTTTAAATTATATATTAATCTATTTTTTAATTAT
65 -TTTTTTTCTTAAAAAAATAAAATATCCTACTTTTAAATTATATATTAATCTATTTTTTAATTAT
601561 TTTTAGATAA
129 TTTTAGATAA
* *
601571 ATGTTTTAATATTTATTTATTTTTTAATATTAAGAAATTG-GCTGTCTTAAAGCACCTAGAAGTC
1 ATATTTTAATATTTATTTATTTTTTAATATTAAGAAA-TGAGTTGTCTTAAAGCACCTAGAAGTC
* *
601635 TTTTTTTCTTAAATAAATAAAATGTCCTACTTTTAAATTATATATTAATCTATTTTTTAATTATT
65 TTTTTTTCTTAAAAAAATAAAATATCCTACTTTTAAATTATATATTAATCTATTTTTTAATTATT
601700 TTTAGATAA
130 TTTAGATAA
* * *
601709 ATATTTTATTATTTATTTATTTTTTAATATTAAGAAAAGAGTTGTCTTAAAACACCTAGAAGTCT
1 ATATTTTAATATTTATTTATTTTTTAATATTAAGAAATGAGTTGTCTTAAAGCACCTAGAAGTCT
601774 TTTT
66 TTTT
601778 CTGATATTTC
Statistics
Matches: 191, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
137 1 0.01
138 133 0.70
139 37 0.19
140 20 0.10
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (138 bp):
ATATTTTAATATTTATTTATTTTTTAATATTAAGAAATGAGTTGTCTTAAAGCACCTAGAAGTCT
TTTTTTCTTAAAAAAATAAAATATCCTACTTTTAAATTATATATTAATCTATTTTTTAATTATTT
TTAGATAA
Found at i:601815 original size:2 final size:2
Alignment explanation
Indices: 601799--601841 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
601789 AAATAAATAA
*
601799 AT AT CT AT A- AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
601839 AT A
1 AT A
601842 AATTAATAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:604100 original size:2 final size:2
Alignment explanation
Indices: 604093--604169 Score: 133
Period size: 2 Copynumber: 40.0 Consensus size: 2
604083 AAGTTCCACA
604093 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
604133 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
604170 TAAAACCAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.04
2 69 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:605911 original size:21 final size:23
Alignment explanation
Indices: 605869--605921 Score: 83
Period size: 21 Copynumber: 2.4 Consensus size: 23
605859 GGTTCTACGC
605869 GGTCCTTCGGGACAATTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
605892 GGTCCTTCGGGAC-A-TCTATGT
1 GGTCCTTCGGGACAATTCTATGT
*
605913 GGTCATTCG
1 GGTCCTTCG
605922 AGATAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 15 0.52
22 1 0.03
23 13 0.45
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (23 bp):
GGTCCTTCGGGACAATTCTATGT
Found at i:608205 original size:36 final size:36
Alignment explanation
Indices: 608165--608237 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
608155 AGTTCTGGAA
*
608165 TTAAGTGATAAAAGAATTAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
608201 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
608237 T
1 T
608238 ATAATTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
Found at i:610078 original size:24 final size:24
Alignment explanation
Indices: 610012--610118 Score: 112
Period size: 24 Copynumber: 4.5 Consensus size: 24
610002 ATATTTTATC
610012 TGATTTCTGA-CTTGAATTCTGTTA
1 TGATTTCTGATC-TGAATTCTGTTA
* * *
610036 TGA-TACATTA-CTTGAATTCTATTA
1 TGATTTC-TGATC-TGAATTCTGTTA
*
610060 TGATTTCTGATCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTCTGTTA
* *
610084 TGATATCTGATCTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGTTA
610108 TGATTTCTGAT
1 TGATTTCTGAT
610119 ATCTCCGTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.03
24 64 0.93
25 3 0.04
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTGTTA
Found at i:610083 original size:48 final size:49
Alignment explanation
Indices: 610012--610118 Score: 132
Period size: 48 Copynumber: 2.2 Consensus size: 49
610002 ATATTTTATC
*
610012 TGATTTCTGA-CTTGAATTCTGTTATGATA-CATTA-CTTGAATTCTATTA
1 TGATTTCTGATCTTGAATTCTGTTATGATATC-TGATC-TGAATTCTATTA
* * *
610060 TGATTTCTGATC-TGGATTCTGTTATGATATCTGATCTGAATTCTGTTT
1 TGATTTCTGATCTTGAATTCTGTTATGATATCTGATCTGAATTCTATTA
610108 TGATTTCTGAT
1 TGATTTCTGAT
610119 ATCTCCGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
48 49 0.94
49 3 0.06
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (49 bp):
TGATTTCTGATCTTGAATTCTGTTATGATATCTGATCTGAATTCTATTA
Found at i:617990 original size:21 final size:20
Alignment explanation
Indices: 617942--617989 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
617932 AACGATTTTC
* *
617942 TTTTG-AAAGCAAAAATAGA
1 TTTTGAAAATCAAAAAGAGA
*
617961 TTTTGAAAATCAAAAAGATA
1 TTTTGAAAATCAAAAAGAGA
617981 TTTTGAAAA
1 TTTTGAAAA
617990 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAATCAAAAAGAGA
Found at i:621118 original size:16 final size:17
Alignment explanation
Indices: 621097--621129 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
621087 TCAAAGATAC
*
621097 AGAGTTTTAGA-ATTGA
1 AGAGTTTAAGATATTGA
621113 AGAGTTTAAGATATTGA
1 AGAGTTTAAGATATTGA
621130 GGGTAAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (17 bp):
AGAGTTTAAGATATTGA
Found at i:622093 original size:15 final size:15
Alignment explanation
Indices: 622073--622107 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
622063 TGAACTATAA
622073 AAACAAGAAACCATT
1 AAACAAGAAACCATT
*
622088 AAACAAGAAACTATT
1 AAACAAGAAACCATT
622103 AAACA
1 AAACA
622108 TGACATGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.17, G:0.06, T:0.14
Consensus pattern (15 bp):
AAACAAGAAACCATT
Found at i:623056 original size:21 final size:21
Alignment explanation
Indices: 623032--623078 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
623022 CTGCTCATTG
* *
623032 TCATCCTCATCGTCGTCATCA
1 TCATCCTCATCCTCCTCATCA
*
623053 TCATCCTCCTCCTCCTCATCA
1 TCATCCTCATCCTCCTCATCA
623074 TCATC
1 TCATC
623079 ACCACTCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.45, G:0.04, T:0.34
Consensus pattern (21 bp):
TCATCCTCATCCTCCTCATCA
Found at i:625476 original size:108 final size:108
Alignment explanation
Indices: 625287--625502 Score: 432
Period size: 108 Copynumber: 2.0 Consensus size: 108
625277 TAAGTTTTGG
625287 TTCATTTTAGTACCTAAAAATTTCTTTTTCCCCTAAAAAATTTAACGTTAAAATTTGAACGTGGT
1 TTCATTTTAGTACCTAAAAATTTCTTTTTCCCCTAAAAAATTTAACGTTAAAATTTGAACGTGGT
625352 GTTAAAATGAAACAAAAACTAAAGTTTTTAACGAGGCACTAAA
66 GTTAAAATGAAACAAAAACTAAAGTTTTTAACGAGGCACTAAA
625395 TTCATTTTAGTACCTAAAAATTTCTTTTTCCCCTAAAAAATTTAACGTTAAAATTTGAACGTGGT
1 TTCATTTTAGTACCTAAAAATTTCTTTTTCCCCTAAAAAATTTAACGTTAAAATTTGAACGTGGT
625460 GTTAAAATGAAACAAAAACTAAAGTTTTTAACGAGGCACTAAA
66 GTTAAAATGAAACAAAAACTAAAGTTTTTAACGAGGCACTAAA
625503 ATAAAACAAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (108 bp):
TTCATTTTAGTACCTAAAAATTTCTTTTTCCCCTAAAAAATTTAACGTTAAAATTTGAACGTGGT
GTTAAAATGAAACAAAAACTAAAGTTTTTAACGAGGCACTAAA
Found at i:631060 original size:2 final size:2
Alignment explanation
Indices: 631053--631078 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
631043 CCTTCTCATA
631053 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
631079 TATTGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:631345 original size:81 final size:81
Alignment explanation
Indices: 631244--631394 Score: 266
Period size: 81 Copynumber: 1.9 Consensus size: 81
631234 TAAAATATTT
* *
631244 TAAGCATAAACCATCATACATATAAACTTGTATCTAATCTCCAATGCTTTAAAGATAAACTTGGT
1 TAAGCATAAACCATCATACATATAAACTTGTATCTAAACTCCAATGCTTTAAAGATAAAATTGGT
631309 CAAAACAGCGATAATA
66 CAAAACAGCGATAATA
* *
631325 TAAGCATAAACCATCATACATATAAACTTGTATCTAAACTCCAATGCTTTAATGATAAAATTTGT
1 TAAGCATAAACCATCATACATATAAACTTGTATCTAAACTCCAATGCTTTAAAGATAAAATTGGT
631390 CAAAA
66 CAAAA
631395 TGGTTTCGAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.30
Consensus pattern (81 bp):
TAAGCATAAACCATCATACATATAAACTTGTATCTAAACTCCAATGCTTTAAAGATAAAATTGGT
CAAAACAGCGATAATA
Found at i:633479 original size:10 final size:10
Alignment explanation
Indices: 633464--633538 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
633454 CATTTAATAA
633464 ATAAACGAAC
1 ATAAACGAAC
633474 ATAAACGAAC
1 ATAAACGAAC
633484 ----ACGAAC
1 ATAAACGAAC
633490 ATAAACGAAC
1 ATAAACGAAC
* *
633500 ACAAAC-ATAA
1 ATAAACGA-AC
* *
633510 ATGAACAACAGC
1 ATAAACGA-A-C
633522 ATAAACGAAC
1 ATAAACGAAC
633532 ATAAACG
1 ATAAACG
633539 TTGGAGATCC
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.68
11 3 0.06
12 6 0.12
ACGTcount: A:0.59, C:0.21, G:0.11, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:633489 original size:16 final size:16
Alignment explanation
Indices: 633468--633532 Score: 87
Period size: 16 Copynumber: 4.1 Consensus size: 16
633458 TAATAAATAA
633468 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
633484 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
633500 ACAAACATAAATGAAC
1 ACGAACATAAACGAAC
*
633516 AAC-AGCATAAACGAAC
1 -ACGAACATAAACGAAC
633532 A
1 A
633533 TAAACGTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
15 1 0.02
16 41 0.93
17 2 0.05
ACGTcount: A:0.58, C:0.23, G:0.11, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:634630 original size:14 final size:14
Alignment explanation
Indices: 634613--634654 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
634603 GATTGGGTTA
*
634613 AACATAAATGAACG
1 AACATAAACGAACG
*
634627 AACATAACCGAACG
1 AACATAAACGAACG
634641 AACATAAACGAACG
1 AACATAAACGAACG
634655 TTCACGAACG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:637706 original size:213 final size:212
Alignment explanation
Indices: 637338--637854 Score: 560
Period size: 213 Copynumber: 2.4 Consensus size: 212
637328 TTTCCAAGGG
* * * * * *
637338 AGGTCTTCAAGTCTAGAAGGAGACCCAAAATTGGTTGTGATTTAGCAATGAAG-AACTACTTCCT
1 AGGTCTTTAAGTCTAGAAGAAGACCC-ACATTGGATGCGATTTAGCAAT-AAGAAACTACTTCCC
* * * * ** **
637402 AGCCTAGATTTCGACATAACTT-A---AGAAGAGCTATTTGTCGACCAAAGTTTTCAAGTTTAGT
64 AGCCTAGATTTCGACATAGCTTAAGTGAGAAGAGCTATATGTCAACCAAAGCTTTCAAGTAAAAA
* ** *
637463 TCCAAGAAGAAAGATACTCAACTTGAGAGCACATTGACTGCATGATAACAATAAGGAACTATCTT
129 TCCAAGAAGAAAGATACTCAACTCGAGAGCACATTGACCACATGATAACAATAAGAAACTATCTT
*
637528 CCAGTCAAAATTCAAATCA
194 CCAGTCAAAATTCAAACCA
* * *
637547 AGGTCTTTAAGTCTAGAAGAAGACCCACATTGGCTGCGATTTAGCAATTAGAAAGTACTTCCCAG
1 AGGTCTTTAAGTCTAGAAGAAGACCCACATTGGATGCGATTTAGCAATAAGAAACTACTTCCCAG
*
637612 CCTAGATTTCGACATAGCTTAAGTCGAGAAGAGCTATATGTCAATCAAAGCTTTCAAGTAAAAAT
66 CCTAGATTTCGACATAGCTTAAGT-GAGAAGAGCTATATGTCAACCAAAGCTTTCAAGTAAAAAT
* * * * * * *
637677 CCACGACGAAGGATACTCAACTCGAGAGCACATTGACCACATGGTAGCAATAATAAACTATCTTT
130 CCAAGAAGAAAGATACTCAACTCGAGAGCACATTGACCACATGATAACAATAAGAAACTATCTTC
* * *
637742 CAGTTAAAATTCTAACCG
195 CAGTCAAAATTCAAACCA
* * ** *
637760 AGGTTTTTAAGTCTAGAAGAAAACAAACATTGGATGCGATTTAGC-ATCAAGGAACTACTTCCCA
1 AGGTCTTTAAGTCTAGAAGAAGACCCACATTGGATGCGATTTAGCAAT-AAGAAACTACTTCCCA
* * * * *
637824 ACCCATATTTTGACATAGATTAAGTTGAGAA
65 GCCTAGATTTCGACATAGCTTAAG-TGAGAA
637855 AAGTTATCTA
Statistics
Matches: 255, Mismatches: 45, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
207 2 0.01
208 49 0.19
209 25 0.10
212 2 0.01
213 176 0.69
214 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (212 bp):
AGGTCTTTAAGTCTAGAAGAAGACCCACATTGGATGCGATTTAGCAATAAGAAACTACTTCCCAG
CCTAGATTTCGACATAGCTTAAGTGAGAAGAGCTATATGTCAACCAAAGCTTTCAAGTAAAAATC
CAAGAAGAAAGATACTCAACTCGAGAGCACATTGACCACATGATAACAATAAGAAACTATCTTCC
AGTCAAAATTCAAACCA
Found at i:644170 original size:6 final size:6
Alignment explanation
Indices: 644159--644192 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
644149 AGAGCAACTC
644159 ATACTA ATACTA ATACTA ATACTA ATACTA ATAC
1 ATACTA ATACTA ATACTA ATACTA ATACTA ATAC
644193 ATGGATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACTA
Found at i:666499 original size:11 final size:11
Alignment explanation
Indices: 666483--666512 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
666473 CAATAGTGGG
666483 AAAAATGGATT
1 AAAAATGGATT
*
666494 AAAAATAGATT
1 AAAAATGGATT
666505 AAAAATGG
1 AAAAATGG
666513 TGTTTGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (11 bp):
AAAAATGGATT
Found at i:668609 original size:23 final size:23
Alignment explanation
Indices: 668583--668627 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
668573 TTAATTCCAT
*
668583 TATATTATTATT-ATTATTTTTAA
1 TATA-TATTATTAACTATTTTTAA
*
668606 TATATATTTTTAACTATTTTTA
1 TATATATTATTAACTATTTTTA
668628 TATCTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TATATATTATTAACTATTTTTAA
Found at i:669338 original size:24 final size:23
Alignment explanation
Indices: 669311--669422 Score: 80
Period size: 23 Copynumber: 5.1 Consensus size: 23
669301 TTAATATAAC
669311 AATAATAATAATAATAGATAAATA
1 AATAATAATAA-AATAGATAAATA
*
669335 AAT-ATAAATAAATTTAG-TAAA-A
1 AATAAT-AATAAA-ATAGATAAATA
* * *
669357 ACAAAATAATAAAATGGAAAAATA
1 A-ATAATAATAAAATAGATAAATA
*
669381 AAT-A-AATAAAA-A-ATAAAAA
1 AATAATAATAAAATAGATAAATA
669400 AATAA-AATAAAATAG-TAAATA
1 AATAATAATAAAATAGATAAATA
669421 AA
1 AA
669423 AAATGAAATG
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
19 8 0.12
20 8 0.12
21 15 0.22
22 5 0.07
23 18 0.26
24 15 0.22
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (23 bp):
AATAATAATAAAATAGATAAATA
Found at i:669387 original size:16 final size:15
Alignment explanation
Indices: 669374--669431 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
669364 AATAAAATGG
669374 AAAAATAAATAAATA
1 AAAAATAAATAAATA
*
669389 AAAAATAAAAAAATA
1 AAAAATAAATAAATA
669404 AAATAA-AATAGTAAATA
1 AAA-AATAA-A-TAAATA
669421 AAAAATGAAAT
1 AAAAAT-AAAT
669432 GAAAAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 19 0.53
16 6 0.17
17 9 0.25
18 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAAATAAATAAATA
Found at i:669419 original size:36 final size:35
Alignment explanation
Indices: 669353--669425 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 35
669343 TAAATTTAGT
*
669353 AAAAACAAAATAATAAAATGGAAAAATAAATAAATA
1 AAAAACAAAAAAATAAAAT-GAAAAATAAATAAATA
* *
669389 AAAAATAAAAAAATAAAAT--AAAAT-AGTAAATA
1 AAAAACAAAAAAATAAAATGAAAAATAAATAAATA
669421 AAAAA
1 AAAAA
669426 TGAAATGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 12 0.35
33 5 0.15
36 17 0.50
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (35 bp):
AAAAACAAAAAAATAAAATGAAAAATAAATAAATA
Found at i:669425 original size:19 final size:20
Alignment explanation
Indices: 669375--669431 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
669365 ATAAAATGGA
669375 AAAATAAATAAATAAAA-AAT
1 AAAATAAA-AAATAAAATAAT
* *
669395 AAAAAAATAAAATAAAATAGT
1 AAAATAA-AAAATAAAATAAT
*
669416 -AAATAAAAAATGAAAT
1 AAAATAAAAAATAAAAT
669432 GAAAAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 9 0.29
20 19 0.61
21 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAATAAAAAATAAAATAAT
Found at i:669426 original size:24 final size:24
Alignment explanation
Indices: 669359--669425 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
669349 TAGTAAAAAC
**
669359 AAAATAATAAAATGGAAAAATAAAT
1 AAAATAA-AAAATAAAAAAATAAAT
669384 -AAATAAAAAATAAAAAAATAAAAT
1 AAAATAAAAAATAAAAAAAT-AAAT
**
669408 AAAATAGTAAATAAAAAA
1 AAAATAAAAAATAAAAAA
669426 TGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.31
24 10 0.28
25 15 0.42
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (24 bp):
AAAATAAAAAATAAAAAAATAAAT
Found at i:670645 original size:7 final size:7
Alignment explanation
Indices: 670636--670674 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
670626 AACAAACAAA
*
670636 AATAAAA
1 AATAAAT
*
670643 AATAAGT
1 AATAAAT
670650 AATAAAT
1 AATAAAT
670657 AAT-AAT
1 AATAAAT
670663 AATAAAT
1 AATAAAT
670670 AATAA
1 AATAA
670675 TAAAAACACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:670810 original size:36 final size:36
Alignment explanation
Indices: 670766--670948 Score: 227
Period size: 36 Copynumber: 5.2 Consensus size: 36
670756 TCAAAAAAAA
*
670766 TCAAAATGTTTTAAAAACTATATATAATATATATTT
1 TCAAAATGTTTTAAAAACTATATATTATATATATTT
* *
670802 TTAAAATGTTTTAAAAAC----TA-TATA-A-GTTT
1 TCAAAATGTTTTAAAAACTATATATTATATATATTT
670831 TCAAAATGTTTTAAAAACTATATATTATATATATTT
1 TCAAAATGTTTTAAAAACTATATATTATATATATTT
*
670867 TCAAAATGTTTTAAAAACTATATATTATATACATTT
1 TCAAAATGTTTTAAAAACTATATATTATATATATTT
* *
670903 TCAAATTTATTTTAAAAAAACTATATATTATATATATATT
1 TCAAA-ATGTTTT--AAAAACTATATATTATATATAT-TT
670943 TCAAAA
1 TCAAAA
670949 ACAATTTTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
29 20 0.16
30 1 0.01
31 3 0.02
32 2 0.02
33 2 0.02
34 4 0.03
35 1 0.01
36 60 0.48
37 5 0.04
39 21 0.17
40 7 0.06
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (36 bp):
TCAAAATGTTTTAAAAACTATATATTATATATATTT
Found at i:670831 original size:29 final size:29
Alignment explanation
Indices: 670799--670854 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
670789 ATAATATATA
*
670799 TTTTTAAAATGTTTTAAAAACTATATAAG
1 TTTTCAAAATGTTTTAAAAACTATATAAG
670828 TTTTCAAAATGTTTTAAAAACTATATA
1 TTTTCAAAATGTTTTAAAAACTATATA
670855 TTATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (29 bp):
TTTTCAAAATGTTTTAAAAACTATATAAG
Found at i:670841 original size:65 final size:65
Alignment explanation
Indices: 670766--670890 Score: 232
Period size: 65 Copynumber: 1.9 Consensus size: 65
670756 TCAAAAAAAA
*
670766 TCAAAATGTTTTAAAAACTATATATAATATATATTTTTAAAATGTTTTAAAAACTATATAAGTTT
1 TCAAAATGTTTTAAAAACTATATATAATATATATTTTCAAAATGTTTTAAAAACTATATAAGTTT
*
670831 TCAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATA
1 TCAAAATGTTTTAAAAACTATATATAATATATATTTTCAAAATGTTTTAAAAACTATATA
670891 TTATATACAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (65 bp):
TCAAAATGTTTTAAAAACTATATATAATATATATTTTCAAAATGTTTTAAAAACTATATAAGTTT
Found at i:671847 original size:85 final size:85
Alignment explanation
Indices: 671693--672694 Score: 1146
Period size: 85 Copynumber: 11.8 Consensus size: 85
671683 ATGTGTCATC
* * * * ** * *
671693 GAGCTGAATGGAATCGAACCCGACA-ATTTTTGTTGACAGATAGCTTTTCTCGAC-TGAAGTTAT
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTG-AGCTAT
* * * *
671756 GTTGTAAATATGACATGCCCTT
64 GCTGTAAATTTGATATGCCTTT
* * * *
671778 AAGCTGAATGGAATCGAACTCGAAGGTATTTGTTGACAGATAGCCCTTTTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
671843 TGTAAATTTGATGTGCCTTT
66 TGTAAATTTGATATGCCTTT
* ** * * * *
671863 GAGCTGAATGTAATCGAACTTGAAGGTCTTTACTGATAGATAACCCTTCTCGTCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
671928 TGTAAGTTTGACATGCCTTT
66 TGTAAATTTGATATGCCTTT
* *
671948 GAGCTGAATGTAATCGAACTTGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* * **
672013 ATGTAGATTTGATATATCTTT
65 CTGTAAATTTGATATGCCTTT
* ** * *
672034 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGATAGATATTCATTCTCGCCTTGAGCTATA
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
672099 CTGTAAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * * * * *
672120 GAGTTGAATGTAATAGAACTCAAAGGTCTTTGCTGATATATAACCCTTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
672185 TGTAAATTTGATATGTCTTT
66 TGTAAATTTGATATGCCTTT
* * *
672205 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGCTGACAGATAGCCCTTATCGCCTTGAACTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
672270 TGCAAATTTGATAT-CTATTT
66 TGTAAATTTGATATGC-CTTT
* * * * *
672290 GAGCTGAATGTAATCGAGCTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATA
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
**
672355 CTGCGAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * * *
672376 GAGCTGAATGTAATCAAACTTGCAGGTCTTGGTTGACAAATAGCCCTTCTTGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
672441 TGCAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * * * * * *
672461 GAGCTGAGTGTAATCAAACCCGAAGGTCTTGGTTGAAAGATAGCCTTTCTTGCCTTGAGTTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* * * *
672526 TGCAAATTTTATGTGCGTTT
66 TGTAAATTTGATATGCCTTT
*
672546 GAGCTGAATGTAATCGAACTCGAAGGTCTTAGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
672611 TGCAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * * * *
672631 GAGTTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAAATAACCCTTCACGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
672695 ATGCCAATAT
Statistics
Matches: 782, Mismatches: 129, Indels: 12
0.85 0.14 0.01
Matches are distributed among these distances:
84 1 0.00
85 564 0.72
86 216 0.28
87 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCTTT
Found at i:672052 original size:256 final size:256
Alignment explanation
Indices: 671779--672694 Score: 1194
Period size: 256 Copynumber: 3.6 Consensus size: 256
671769 CATGCCCTTA
* * * *
671779 AGCTGAATGGAATCGAACTCGAAGGT-ATTTGTTGACAGATAGCCCTTTTCGCCTTGAGCTATGC
1 AGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATAC
* * * * * * *
671843 TGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTTGAAGGTCTTTACTGATAGATAACC
66 TGCAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGCTGACAAATAACC
* * * *
671908 CTTCTCGTCTTGAGTTATGCTGTAAGTTTGACATGCCTTTGAGCTGAATGTAATCGAACTTGAAG
131 CTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
* * *
671973 GTCTTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTATGATGTAGATTTGATATATCTTTG
196 GTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGATGCAAATTTGATATATCTTTG
* ** *
672035 AGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGATAGATATTCATTCTCGCCTTGAGCTATAC
1 AGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATAC
* * * * *
672100 TGTAAATTTGATATGCCTTTGAGTTGAATGTAAT-AGAACTCAAAGGTCTTTGCTGATATATAAC
66 TGCAAATTTGATATGCCTTTGAGCTGAATGTAATCA-AACTCGAAGGTCTTTGCTGACAAATAAC
*
672164 CCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGTCTTTGAGCTGAATGTAATCGAACTCGAA
130 CCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAA
* * * * * *
672229 GGTCTTTGCTGACAGATAGCCCTTATCGCCTTGAACTATGCTGCAAATTTGATATCTATTTG
195 GGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGATGCAAATTTGATATATCTTTG
* * * *
672291 AGCTGAATGTAATCGAGCTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATAC
1 AGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATAC
* * * * * *
672356 TGCGAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTTGCAGGTCTTGGTTGACAAATAGCC
66 TGCAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGCTGACAAATAACC
* * * * * *
672421 CTTCTTGCCTTGAGCTATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGTAATCAAACCCGAAG
131 CTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
* * * * * * *
672486 GTCTTGGTTGAAAGATAGCCTTTCTTGCCTTGAGTTATGTTGCAAATTT--TATGTGCGTTTG
196 GTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGATGCAAATTTGATATAT-C-TTTG
* *
672547 AGCTGAATGTAATCGAACTCGAAGGTC-TTAGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1 AGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATAC
* * *
672611 TGCAAATTTGATATGCCTTTGAGTTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAAATAACC
66 TGCAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGCTGACAAATAACC
*
672676 CTTCACGCCTTGAGTTATG
131 CTTCTCGCCTTGAGTTATG
672695 ATGCCAATAT
Statistics
Matches: 574, Mismatches: 81, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
254 4 0.01
255 106 0.18
256 312 0.54
257 152 0.26
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (256 bp):
AGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATAC
TGCAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGCTGACAAATAACC
CTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
GTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGATGCAAATTTGATATATCTTTG
Found at i:673312 original size:21 final size:21
Alignment explanation
Indices: 673286--673327 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
673276 CTTTTCTTTT
673286 ATATTAGAAGGGGAAAAAGGA
1 ATATTAGAAGGGGAAAAAGGA
673307 ATATTAGAAGGGGAAAAAGGA
1 ATATTAGAAGGGGAAAAAGGA
673328 TGTGGGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.14
Consensus pattern (21 bp):
ATATTAGAAGGGGAAAAAGGA
Found at i:674055 original size:96 final size:97
Alignment explanation
Indices: 673881--674078 Score: 281
Period size: 96 Copynumber: 2.1 Consensus size: 97
673871 GGATAGCTCA
* * * * **
673881 ATATTATAATCACCTTTATCAGGCTAGTTGACTCTCATCCATAAAGCCGGGGTGTTTAACCAATT
1 ATATAATAATCACCTTTATCAGGCTAGCTGAATCTCATCCATAAAACCGGGGCATTTAACCAATT
* *
673946 GCTTTAGAGGGACAGCTCAAGCTTTATTATAT
66 GCTCTAGAAGGACAGCTCAAGCTTTATTATAT
* * *
673978 -TATAATAATCGCCTTTATCAGGCTAGCTGAATCTTATCCATAAAACTGGGGCATTTAACCAATT
1 ATATAATAATCACCTTTATCAGGCTAGCTGAATCTCATCCATAAAACCGGGGCATTTAACCAATT
*
674042 GCTCTAGAAGGACAGCTCAAGCTTTATTGTAT
66 GCTCTAGAAGGACAGCTCAAGCTTTATTATAT
674074 ATATA
1 ATATA
674079 TAAAATTATA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 84 0.95
97 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (97 bp):
ATATAATAATCACCTTTATCAGGCTAGCTGAATCTCATCCATAAAACCGGGGCATTTAACCAATT
GCTCTAGAAGGACAGCTCAAGCTTTATTATAT
Found at i:677213 original size:6 final size:6
Alignment explanation
Indices: 677204--677230 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
677194 TGAAAATTAA
677204 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
677231 ATATTCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:677414 original size:14 final size:14
Alignment explanation
Indices: 677350--677458 Score: 52
Period size: 14 Copynumber: 7.7 Consensus size: 14
677340 ATATAACAAT
677350 AATAATAAAAATAA
1 AATAATAAAAATAA
677364 AA-AATAGACAAAT-A
1 AATAATA-A-AAATAA
*
677378 AA-GAT--AAATAA
1 AATAATAAAAATAA
* *
677389 ATTTAGTAAAAATAA
1 A-ATAATAAAAATAA
677404 AATAATAAAAATGGAA
1 AATAATAAAAAT--AA
*
677420 AAAAATAAATAAATAA
1 AATAAT-AA-AAATAA
*
677436 AATAA-AAAATATTA
1 AATAATAAAA-ATAA
677450 AATAA-AAAA
1 AATAATAAAA
677459 TGAAATAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
10 4 0.05
11 2 0.03
13 7 0.09
14 31 0.42
15 11 0.15
16 13 0.18
17 2 0.03
18 4 0.05
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (14 bp):
AATAATAAAAATAA
Found at i:677436 original size:32 final size:31
Alignment explanation
Indices: 677398--677474 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
677388 AATTTAGTAA
677398 AAATAAAATAATAAAA-ATGGAAAAAAATAAAT-
1 AAATAAAATAA-AAAATAT-GAAAAAAA-AAATG
* *
677430 AAATAAAATAAAAAATATTAAATAAAAAATG
1 AAATAAAATAAAAAATATGAAAAAAAAAATG
*
677461 AAATAAAATGAAAA
1 AAATAAAATAAAAA
677475 GAAAAAAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 4 0.10
31 23 0.57
32 13 0.32
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (31 bp):
AAATAAAATAAAAAATATGAAAAAAAAAATG
Found at i:677438 original size:23 final size:22
Alignment explanation
Indices: 677396--677455 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
677386 TAAATTTAGT
677396 AAAAATAAA-ATAATAAAAATGGAA
1 AAAAATAAATA-AATAAAAAT--AA
677420 AAAAATAAATAAAT-AAAATAA
1 AAAAATAAATAAATAAAAATAA
677441 AAAATATTAAATAAA
1 AAAA-A-TAAATAAA
677456 AAATGAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
21 6 0.18
22 1 0.03
23 13 0.39
24 12 0.36
25 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (22 bp):
AAAAATAAATAAATAAAAATAA
Found at i:677442 original size:19 final size:18
Alignment explanation
Indices: 677347--677481 Score: 62
Period size: 19 Copynumber: 7.1 Consensus size: 18
677337 TTAATATAAC
677347 AATAATAATAAAAATAAAA
1 AATAA-AATAAAAATAAAA
*
677366 AATAGACAAATAAAGATAAATA
1 AAT--A-AAATAAAAATAAA-A
** *
677388 AATTTAGTAAAAATAAAA
1 AATAAAATAAAAATAAAA
*
677406 TAATAAAAATGGAAAAA-AATA
1 -AAT-AAAAT--AAAAATAAAA
677427 AAT-AAAT-AAAATAAAA
1 AATAAAATAAAAATAAAA
**
677443 AATATTAAATAAAAA-ATGA
1 AATA--AAATAAAAATAAAA
* *
677462 AATAAAATGAAAAGAAAA
1 AATAAAATAAAAATAAAA
677480 AA
1 AA
677482 AAGAAAGAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 29
0.66 0.11 0.22
Matches are distributed among these distances:
15 4 0.05
16 6 0.07
17 8 0.09
18 9 0.10
19 26 0.30
20 9 0.10
21 15 0.17
22 10 0.11
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (18 bp):
AATAAAATAAAAATAAAA
Found at i:677459 original size:14 final size:12
Alignment explanation
Indices: 677421--677468 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
677411 AAAATGGAAA
677421 AAAATAAATAAAT
1 AAAATAAA-AAAT
677434 AAAATAAAAAAT
1 AAAATAAAAAAT
677446 ATTAAATAAAAAAT
1 A--AAATAAAAAAT
*
677460 GAAATAAAA
1 AAAATAAAA
677469 TGAAAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 13 0.41
13 8 0.25
14 11 0.34
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:678674 original size:3 final size:3
Alignment explanation
Indices: 678661--678703 Score: 52
Period size: 3 Copynumber: 13.7 Consensus size: 3
678651 TAAAACAAAC
678661 AAT AAT AAAT AAT AAAT AA- AAT AAAT AAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT -AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
678704 CACAAAATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.06
3 25 0.69
4 9 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:678685 original size:9 final size:10
Alignment explanation
Indices: 678668--678703 Score: 58
Period size: 9 Copynumber: 3.8 Consensus size: 10
678658 AACAATAATA
678668 AATAATAAAT
1 AATAATAAAT
678678 AA-AATAAAT
1 AATAATAAAT
678687 AATAAT-AAT
1 AATAATAAAT
678696 AATAATAA
1 AATAATAA
678704 CACAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAATAAAT
Found at i:678685 original size:16 final size:16
Alignment explanation
Indices: 678661--678700 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
678651 TAAAACAAAC
678661 AATAATAAATAATAAAT
1 AATAATAAATAAT-AAT
678678 AA-AATAAATAATAAT
1 AATAATAAATAATAAT
678693 AATAATAA
1 AATAATAA
678701 TAACACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 15 0.68
17 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:678690 original size:26 final size:25
Alignment explanation
Indices: 678651--678709 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
678641 ATTTTAAACC
678651 TAAAACAAACAATAATAAATAATAAA
1 TAAAACAAACAATAAT-AATAATAAA
* *
678677 TAAAATAAATAATAATAATAAT-AA
1 TAAAACAAACAATAATAATAATAAA
*
678701 TAACACAAA
1 TAAAACAAA
678710 ATCATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.31
25 6 0.21
26 14 0.48
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (25 bp):
TAAAACAAACAATAATAATAATAAA
Found at i:678811 original size:48 final size:47
Alignment explanation
Indices: 678743--678846 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 47
678733 TATATATGTT
678743 TTTTTAAAAATTATTTTAAAAACCACATA-ATATATATTTTTAAACATTG
1 TTTTTAAAAATTATTTTAAAAACCACATATA-ATATATTTTTAAA-A-TG
* * *
678792 TTTTTCAAAA-TATTTTAAAAACTATATATAATATATTTTTAAAATG
1 TTTTTAAAAATTATTTTAAAAACCACATATAATATATTTTTAAAATG
678838 -TTTTAAAAA
1 TTTTTAAAAA
678847 CTATATAGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
45 8 0.16
46 2 0.04
47 1 0.02
48 29 0.58
49 10 0.20
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (47 bp):
TTTTTAAAAATTATTTTAAAAACCACATATAATATATTTTTAAAATG
Found at i:678897 original size:38 final size:38
Alignment explanation
Indices: 678856--678992 Score: 181
Period size: 38 Copynumber: 3.6 Consensus size: 38
678846 ACTATATAGG
*
678856 TTTTCAAAAAGGTTTTTAAAAACTATATATTATATA-A
1 TTTTCAAAAAGGTTTTTAAAAATTATATATTATATATA
*
678893 GTTTTC-AAAATG-TTTTAAAAATTATATATTATATATA
1 -TTTTCAAAAAGGTTTTTAAAAATTATATATTATATATA
* *
678930 TTTTCAAAATGTTTTTTAAAAATTATATATTATATATA
1 TTTTCAAAAAGGTTTTTAAAAATTATATATTATATATA
678968 TATTTCAAAAACGGTTTTTAGAAAA
1 T-TTTCAAAAA-GGTTTTTA-AAAA
678993 AAACAAAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
36 27 0.31
37 9 0.10
38 31 0.36
39 8 0.09
40 7 0.08
41 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTTCAAAAAGGTTTTTAAAAATTATATATTATATATA
Found at i:678966 original size:36 final size:35
Alignment explanation
Indices: 678856--678966 Score: 143
Period size: 36 Copynumber: 3.0 Consensus size: 35
678846 ACTATATAGG
* *
678856 TTTTCAAAAAGGTTTTTAAAAACTATATATTATATAA
1 TTTTC-AAAATGTTTTTAAAAATTATATATTATAT-A
678893 GTTTTCAAAATG-TTTTAAAAATTATATATTATATATA
1 -TTTTCAAAATGTTTTTAAAAATTATATA-T-TATATA
678930 TTTTCAAAATGTTTTTTAAAAATTATATATTATATA
1 TTTTCAAAATG-TTTTTAAAAATTATATATTATATA
678966 T
1 T
678967 ATATTTCAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
36 33 0.49
37 8 0.12
38 26 0.39
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (35 bp):
TTTTCAAAATGTTTTTAAAAATTATATATTATATA
Found at i:680401 original size:8 final size:8
Alignment explanation
Indices: 680388--680415 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
680378 ACACTTATAT
680388 ATTTTCAA
1 ATTTTCAA
680396 ATTTTCAA
1 ATTTTCAA
680404 ATTTTCAA
1 ATTTTCAA
680412 ATTT
1 ATTT
680416 AAACAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (8 bp):
ATTTTCAA
Found at i:682556 original size:2 final size:2
Alignment explanation
Indices: 682549--682592 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
682539 AAAAGAGTGT
682549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
682590 TA T
1 TA T
682593 TGCTTTGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:683841 original size:5 final size:5
Alignment explanation
Indices: 683819--684006 Score: 335
Period size: 5 Copynumber: 38.0 Consensus size: 5
683809 ATTACAAAAA
* * *
683819 AATAT AAAAT AAT-T AA-AT AAAAT ACTAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
683867 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
683917 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
683967 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
684007 CTTTTATATA
Statistics
Matches: 176, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
4 6 0.03
5 170 0.97
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:686388 original size:15 final size:15
Alignment explanation
Indices: 686368--686418 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
686358 TGAGACATTA
686368 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
*
686383 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
*
686398 CCTGCCCCACATCCG
1 CCCGCCCCACATCCG
686413 CCCGCC
1 CCCGCC
686419 GAACTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.10, C:0.67, G:0.16, T:0.08
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:690486 original size:26 final size:26
Alignment explanation
Indices: 690450--690506 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
690440 TATTTGAACC
*
690450 TAAATAGGTTCGACATAAATAATAAT
1 TAAATAGGTTCAACATAAATAATAAT
*
690476 TAAATAGGTTCAACATGAATAATAAT
1 TAAATAGGTTCAACATAAATAATAAT
690502 TAAAT
1 TAAAT
690507 CTCACAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (26 bp):
TAAATAGGTTCAACATAAATAATAAT
Found at i:699010 original size:27 final size:29
Alignment explanation
Indices: 698951--699010 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
698941 TTTTAACAAG
*
698951 TGTTTATTATTGACTAAAGAACAGGAAAA
1 TGTTTATTATTGACTAAAGAACAGAAAAA
698980 --TTTATTATTGACTAAAGAA-A-AAAAA
1 TGTTTATTATTGACTAAAGAACAGAAAAA
699005 TGTTTA
1 TGTTTA
699011 AAGAATATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 4 0.14
26 1 0.04
27 23 0.82
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (29 bp):
TGTTTATTATTGACTAAAGAACAGAAAAA
Found at i:701970 original size:12 final size:12
Alignment explanation
Indices: 701953--701984 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
701943 ATATATTGAT
701953 AATCAAATGAAA
1 AATCAAATGAAA
701965 AATCAAATGAAA
1 AATCAAATGAAA
*
701977 AAACAAAT
1 AATCAAAT
701985 CCGGGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (12 bp):
AATCAAATGAAA
Found at i:702573 original size:39 final size:39
Alignment explanation
Indices: 702479--702595 Score: 114
Period size: 39 Copynumber: 3.0 Consensus size: 39
702469 GTCCTCCTCC
* * *
702479 TCCTTTGCGGTGTTCCCTCCTCATTTTCT-TTCTT-CTTTT
1 TCCTTTGCGGT-ATCCCTTCTC-TTTTCTCCTCTTCCTTTT
* * *
702518 CCCTCTT-CAGTGTCCCTTCTCTTTTCTCCTCTTCCTTTT
1 TCCT-TTGCGGTATCCCTTCTCTTTTCTCCTCTTCCTTTT
* *
702557 TCCTTTGCGGTATCCCTTCTCCTTTCCCCTCTTCCTTTT
1 TCCTTTGCGGTATCCCTTCTCTTTTCTCCTCTTCCTTTT
702596 CTTTCTTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
37 6 0.09
38 14 0.22
39 42 0.66
40 2 0.03
ACGTcount: A:0.03, C:0.38, G:0.08, T:0.52
Consensus pattern (39 bp):
TCCTTTGCGGTATCCCTTCTCTTTTCTCCTCTTCCTTTT
Found at i:706123 original size:23 final size:23
Alignment explanation
Indices: 706092--706135 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
706082 ATTACATATA
706092 TGTCACGAAGGACCACGTAGAAT
1 TGTCACGAAGGACCACGTAGAAT
* * *
706115 TGTCCCGAAGGATCGCGTAGA
1 TGTCACGAAGGACCACGTAGA
706136 CCCTCGACTT
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:0.30, C:0.23, G:0.30, T:0.18
Consensus pattern (23 bp):
TGTCACGAAGGACCACGTAGAAT
Found at i:709015 original size:18 final size:18
Alignment explanation
Indices: 708992--709030 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
708982 ATGTTGCCTA
708992 AATCATATTAGAAGTTAG
1 AATCATATTAGAAGTTAG
709010 AATCATATTAGAAGTTAG
1 AATCATATTAGAAGTTAG
709028 AAT
1 AAT
709031 TTTTTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (18 bp):
AATCATATTAGAAGTTAG
Found at i:712096 original size:20 final size:20
Alignment explanation
Indices: 712068--712107 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
712058 CTTGGAATAA
712068 GTTAATTACTTCCGATGGTT
1 GTTAATTACTTCCGATGGTT
* *
712088 GTTAGTTACTTCCGGTGGTT
1 GTTAATTACTTCCGATGGTT
712108 TGCCTTTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.45
Consensus pattern (20 bp):
GTTAATTACTTCCGATGGTT
Found at i:712156 original size:24 final size:25
Alignment explanation
Indices: 712129--712195 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
712119 AACACACACC
712129 TCATATTATAAAAACTCACA-CATT
1 TCATATTATAAAAACTCACACCATT
* * *
712153 TCATATTA-ACAACACACACACCCTT
1 TCATATTATA-AAAACTCACACCATT
712178 T-ATATTATAAAAACTCAC
1 TCATATTATAAAAACTCAC
712196 TCACACACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.03
24 29 0.83
25 5 0.14
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (25 bp):
TCATATTATAAAAACTCACACCATT
Found at i:712225 original size:54 final size:52
Alignment explanation
Indices: 712131--712264 Score: 179
Period size: 54 Copynumber: 2.6 Consensus size: 52
712121 CACACACCTC
712131 ATATTATAAAAA--C-T-CACACATTTCATATTAACAACACACACACCCTTT
1 ATATTATAAAAACTCATACACACATTTCATATTAACAACACACACACCCTTT
*
712179 ATATTATAAAAACTCACTCACACACATTTCATATTAA-AAGAGCACACACCCTTT
1 ATATTATAAAAACTCA-T-ACACACATTTCATATTAACAACA-CACACACCCTTT
* *
712233 ATATTATAATAAGTCATACACACATTTCATAT
1 ATATTATAAAAACTCATACACACATTTCATAT
712265 ATACATTAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
48 12 0.16
50 1 0.01
52 16 0.21
53 4 0.05
54 43 0.57
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (52 bp):
ATATTATAAAAACTCATACACACATTTCATATTAACAACACACACACCCTTT
Found at i:712256 original size:30 final size:29
Alignment explanation
Indices: 712166--712256 Score: 70
Period size: 30 Copynumber: 3.2 Consensus size: 29
712156 TATTAACAAC
*
712166 ACACACACCCTTTATATTATAAAAACTCACT
1 ACACACACCCTTTATATTAT-AAAAGTCA-T
*
712197 -CACACA-CATTTCATA-T-TAAAAG--A-
1 ACACACACCCTTT-ATATTATAAAAGTCAT
*
712220 GCACACACCCTTTATATTATAATAAGTCAT
1 ACACACACCCTTTATATTATAA-AAGTCAT
712250 ACACACA
1 ACACACA
712257 TTTCATATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 19
0.67 0.06 0.27
Matches are distributed among these distances:
24 9 0.19
25 6 0.13
26 3 0.06
27 7 0.15
28 1 0.02
29 6 0.13
30 15 0.32
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.27
Consensus pattern (29 bp):
ACACACACCCTTTATATTATAAAAGTCAT
Found at i:712260 original size:52 final size:54
Alignment explanation
Indices: 712145--712264 Score: 183
Period size: 54 Copynumber: 2.3 Consensus size: 54
712135 TATAAAAACT
712145 CACACATTTCATATTAACAACACACACACCCTTTATATTATAAAAACTCACTCA
1 CACACATTTCATATTAACAACACACACACCCTTTATATTATAAAAACTCACTCA
* * *
712199 CACACATTTCATATTAA-AAGAGCACACACCCTTTATATTATAATAAGTCA-T-A
1 CACACATTTCATATTAACAACA-CACACACCCTTTATATTATAAAAACTCACTCA
712251 CACACATTTCATAT
1 CACACATTTCATAT
712265 ATACATTAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
52 15 0.24
53 4 0.06
54 43 0.69
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.30
Consensus pattern (54 bp):
CACACATTTCATATTAACAACACACACACCCTTTATATTATAAAAACTCACTCA
Found at i:712333 original size:27 final size:26
Alignment explanation
Indices: 712269--712393 Score: 76
Period size: 27 Copynumber: 4.7 Consensus size: 26
712259 TCATATATAC
* *
712269 ATTAAACACAGACACACATATTGCATAAT
1 ATTAAAAACACACACACATA---CATAAT
712298 A--AAAAACACACACACATACATATAT
1 ATTAAAAACACACACACATACATA-AT
* * * *
712323 ATTAAACACACAAACATATTGCATAAT
1 ATTAAAAACACACACACA-TACATAAT
* * *
712350 A-AAAAAAGCATACACACATAAATAAAT
1 ATTAAAAA-CACACACACATACAT-AAT
*
712377 ATTAAATACACACACAC
1 ATTAAAAACACACACAC
712394 TTATTGCATA
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
24 4 0.05
25 3 0.04
26 7 0.10
27 49 0.67
28 9 0.12
29 1 0.01
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.20
Consensus pattern (26 bp):
ATTAAAAACACACACACATACATAAT
Found at i:712441 original size:53 final size:53
Alignment explanation
Indices: 712263--712473 Score: 241
Period size: 53 Copynumber: 3.9 Consensus size: 53
712253 CACATTTCAT
* * * *
712263 ATATACATTAAACACAGACACACATATTGCATAATAAAAAACA-CACACACATA
1 ATATATATTAAATACACACACACATATTGCATAATAAAAAA-AGCACACAAATA
* *
712316 CATATATATT-AA-ACACACAAACATATTGCATAATAAAAAAAGCATACACACATAA
1 -ATATATATTAAATACACACACACATATTGCATAATAAAAAAAGC--ACACAAAT-A
* *
712371 ATAAATATTAAATACACACACACTTATTGCATAAT-AAAAAAGCACACAAATGA
1 ATATATATTAAATACACACACACATATTGCATAATAAAAAAAGCACACAAAT-A
* *
712424 ATATATATTAAATACACACACACTTACTGCATAATAAAAAAATGCACACA
1 ATATATATTAAATACACACACACATATTGCATAATAAAAAAA-GCACACA
712474 CAGTTACTGC
Statistics
Matches: 139, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
51 1 0.01
52 27 0.19
53 43 0.31
54 30 0.22
55 18 0.13
56 20 0.14
ACGTcount: A:0.55, C:0.19, G:0.04, T:0.22
Consensus pattern (53 bp):
ATATATATTAAATACACACACACATATTGCATAATAAAAAAAGCACACAAATA
Found at i:712472 original size:30 final size:30
Alignment explanation
Indices: 712433--712495 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
712423 AATATATATT
712433 AAATACACACACACTTACTGCATAATAAAA
1 AAATACACACACACTTACTGCATAATAAAA
* *
712463 AAATGCACACACAGTTACTGCATAATAAAA
1 AAATACACACACACTTACTGCATAATAAAA
712493 AAA
1 AAA
712496 CCTTTATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.21, G:0.06, T:0.19
Consensus pattern (30 bp):
AAATACACACACACTTACTGCATAATAAAA
Found at i:712492 original size:28 final size:29
Alignment explanation
Indices: 712380--712494 Score: 107
Period size: 30 Copynumber: 4.1 Consensus size: 29
712370 AATAAATATT
*
712380 AAATACACACACACTTATTGCATAATAAA
1 AAATACACACACACTTACTGCATAATAAA
* * **
712409 AAA-GCACACA-A---A-TGAATATATATT
1 AAATACACACACACTTACTGCATA-ATAAA
712433 AAATACACACACACTTACTGCATAATAAAA
1 AAATACACACACACTTACTGCATAAT-AAA
* *
712463 AAATGCACACACAGTTACTGCATAATAAA
1 AAATACACACACACTTACTGCATAATAAA
712492 AAA
1 AAA
712495 ACCTTTATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
23 5 0.07
24 7 0.10
25 6 0.09
26 1 0.01
27 1 0.01
28 6 0.09
29 12 0.18
30 30 0.44
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (29 bp):
AAATACACACACACTTACTGCATAATAAA
Found at i:718819 original size:98 final size:98
Alignment explanation
Indices: 718650--718936 Score: 529
Period size: 98 Copynumber: 2.9 Consensus size: 98
718640 GAATTAAAAA
*
718650 TAAATATATTTTAATTTATTAAAACTAGGATCAATTTGAAAGAATATATAAATAACATGGACTAT
1 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAACATGGACTAT
718715 ATGTGTAATTATACCATCCATGTAAGATTTAAT
66 ATGTGTAATTATACCATCCATGTAAGATTTAAT
718748 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAACATGGACTAT
1 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAACATGGACTAT
*
718813 CTGTGTAATTATACCATCCATGTAAGATTTAAT
66 ATGTGTAATTATACCATCCATGTAAGATTTAAT
*
718846 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAAAATGGACTAT
1 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAACATGGACTAT
* *
718911 TTATGTAATTATACCATCCATGTAAG
66 ATGTGTAATTATACCATCCATGTAAG
718937 CATGTTAACT
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 184 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (98 bp):
TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAACATGGACTAT
ATGTGTAATTATACCATCCATGTAAGATTTAAT
Found at i:719119 original size:21 final size:21
Alignment explanation
Indices: 719095--719135 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
719085 TGACCATTGA
719095 AGTAGTTTACCCTAACTTTTG
1 AGTAGTTTACCCTAACTTTTG
719116 AGTAGTTTACCCTAACTTTT
1 AGTAGTTTACCCTAACTTTT
719136 ATTATGTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (21 bp):
AGTAGTTTACCCTAACTTTTG
Found at i:719324 original size:23 final size:23
Alignment explanation
Indices: 719277--719326 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
719267 AATAACATAT
**
719277 TAGGTAGCACTTATATAATGTAA
1 TAGGTAGCACTTATATAATAAAA
719300 TAGGTAG-AGCTTATATAATAAAA
1 TAGGTAGCA-CTTATATAATAAAA
719323 TAGG
1 TAGG
719327 CATTTAACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (23 bp):
TAGGTAGCACTTATATAATAAAA
Found at i:719425 original size:3 final size:3
Alignment explanation
Indices: 719417--719513 Score: 149
Period size: 3 Copynumber: 31.7 Consensus size: 3
719407 TTTTTATCCA
* *
719417 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
719465 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTCAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT
719512 TA
1 TA
719514 GAGAAAATCG
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
3 83 0.97
4 1 0.01
5 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:719681 original size:21 final size:20
Alignment explanation
Indices: 719595--719752 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
719585 AAATGACCAA
**
719595 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
719614 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
719634 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
719654 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
719675 TAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
719696 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
719716 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
719737 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
719753 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:719781 original size:20 final size:20
Alignment explanation
Indices: 719719--719947 Score: 223
Period size: 20 Copynumber: 11.5 Consensus size: 20
719709 CGATTTTCCA
* ** *
719719 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
719739 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
719759 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
719779 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
719799 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
719819 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
719839 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
719859 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
719879 AAATCGCAAC-AGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
719898 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
719918 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
719938 AAATCACAAC
1 AAATCGCAAC
719948 TGAAATTTGG
Statistics
Matches: 174, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
19 17 0.10
20 155 0.89
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:720661 original size:24 final size:24
Alignment explanation
Indices: 720622--720668 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
720612 AAATTTGGTC
720622 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
720646 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
720669 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:723183 original size:33 final size:34
Alignment explanation
Indices: 723132--723477 Score: 247
Period size: 33 Copynumber: 9.9 Consensus size: 34
723122 CGGAAATTAC
*
723132 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* *
723165 AATCCCAAC-ATGAAAATCGCAACGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
723199 AATCGCAACGA-GATAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
723232 AATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAT
1 AATCGCAA--C-G--ATGAAAATCGCAATGCGAAATGAA
723266 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
723304 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* * *
723337 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--CG--ATGAAAATCGCAATGCGA-AAT-GAA
* *
723376 AATGCGAAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AAT-CGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
723410 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
723448 AATCGCAACGA-GAGAATCGCAATGCGAAAT
1 AATCGCAACGATGAAAATCGCAATGCGAAAT
723478 TATAAACGCA
Statistics
Matches: 265, Mismatches: 20, Indels: 56
0.78 0.06 0.16
Matches are distributed among these distances:
32 1 0.00
33 123 0.46
34 46 0.17
35 10 0.04
36 5 0.02
37 5 0.02
38 35 0.13
39 16 0.06
40 24 0.09
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:723221 original size:67 final size:67
Alignment explanation
Indices: 723113--723344 Score: 242
Period size: 67 Copynumber: 3.4 Consensus size: 67
723103 GCATTTGACT
* * * *
723113 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATG
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAATGAAAATCGCAACGATG
723177 AAA
65 AAA
723180 ATCGCAACGCGGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAAAATCGCAATGCGG
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAATGAAAATCGCAA--C-G
723245 AAATGAAA
62 --ATGAAA
* * * *
723253 ATCGCAACG-AGATAATCG-CAATGCGAAATGA-AAATCGCAATGCGAAATGAAAATCGCAACGA
1 ATCGCAACGCGGA-AAT-GAAAAT-CGCAACGAGAAATCGCAATGCGAAATGAAAATCGCAACGA
*
723315 -GAGA
63 TGAAA
*
723319 ATCGCAATGC-GAAATGAAAATCGCAA
1 ATCGCAACGCGGAAATGAAAATCGCAA
723345 TGCGAAATGA
Statistics
Matches: 141, Mismatches: 13, Indels: 25
0.79 0.07 0.14
Matches are distributed among these distances:
64 5 0.04
65 6 0.04
66 13 0.09
67 56 0.40
69 2 0.01
70 1 0.01
72 29 0.21
73 22 0.16
74 7 0.05
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (67 bp):
ATCGCAACGCGGAAATGAAAATCGCAACGAGAAATCGCAATGCGAAATGAAAATCGCAACGATGA
AA
Found at i:723237 original size:19 final size:19
Alignment explanation
Indices: 723146--723455 Score: 303
Period size: 19 Copynumber: 17.4 Consensus size: 19
723136 GCAACGAGAG
723146 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
723165 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
723179 AATCGCAACGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
723199 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
723213 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
723232 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
723252 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
723266 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
723285 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
723304 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
723318 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
723337 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* * *
723356 AATCGCAACGAGAGAATCG-C
1 AATCGCAATGCGA-AAT-GAA
*
723376 AATGCGAAATGCGAAATGAA
1 AAT-CGCAATGCGAAATGAA
*
723396 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
723410 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
723429 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
723448 AATCGCAA
1 AATCGCAA
723456 CGAGAGAATC
Statistics
Matches: 242, Mismatches: 18, Indels: 62
0.75 0.06 0.19
Matches are distributed among these distances:
14 52 0.21
15 4 0.02
16 9 0.04
17 7 0.03
18 6 0.02
19 115 0.48
20 41 0.17
21 8 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:723322 original size:52 final size:53
Alignment explanation
Indices: 723174--723386 Score: 385
Period size: 52 Copynumber: 4.1 Consensus size: 53
723164 AAATCCCAAC
* *
723174 ATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
723227 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
723280 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
723332 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
723384 ATG
1 ATG
723387 CGAAATGAAA
Statistics
Matches: 158, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 90 0.57
53 68 0.43
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:723375 original size:14 final size:13
Alignment explanation
Indices: 723355--723417 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 13
723345 TGCGAAATGA
723355 AAATCGCAACGAG
1 AAATCGCAACGAG
* *
723368 AGAATCGCAATGCG
1 A-AATCGCAACGAG
* *
723382 AAATGCGAAATGA-
1 AAAT-CGCAACGAG
723395 AAATCGCAACGAG
1 AAATCGCAACGAG
723408 AGAATCGCAA
1 A-AATCGCAA
723418 TGCGAAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 6 0.15
13 9 0.22
14 25 0.62
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (13 bp):
AAATCGCAACGAG
Found at i:723390 original size:40 final size:40
Alignment explanation
Indices: 723343--723426 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
723333 TGAAAATCGC
723343 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
723383 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
723423 AATG
1 AATG
723427 AAAATCGCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.13
Consensus pattern (40 bp):
AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
Found at i:723394 original size:92 final size:92
Alignment explanation
Indices: 723291--723477 Score: 374
Period size: 92 Copynumber: 2.0 Consensus size: 92
723281 TGAAAATCGC
723291 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
723356 AATCGCAACGAGAGAATCGCAATGCGA
66 AATCGCAACGAGAGAATCGCAATGCGA
723383 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
723448 AATCGCAACGAGAGAATCGCAATGCGA
66 AATCGCAACGAGAGAATCGCAATGCGA
723475 AAT
1 AAT
723478 TATAAACGCA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 95 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (92 bp):
AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
AATCGCAACGAGAGAATCGCAATGCGA
Found at i:723493 original size:52 final size:52
Alignment explanation
Indices: 723132--723477 Score: 238
Period size: 52 Copynumber: 6.6 Consensus size: 52
723122 CGGAAATTAC
*
723132 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * * *
723179 AATCGCAACGCG-GAAAT-GAAAAT-CGCAACGAGATAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAG-AATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
* * *
723232 AATCGCAATGCG-GA-AAT-GAAAAT-CGCAACGAGATAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
* * * * *
723285 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
* * * * *
723337 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGCGAAATGAA
1 AATCGCAA--CG--A-GAGAATCGCAATGCGA-AAT-GAAAAT-CGCAATGCGAAATGAA
723396 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
723448 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAGAATCGCAATGCGAAAT
723478 TATAAACGCA
Statistics
Matches: 253, Mismatches: 21, Indels: 45
0.79 0.07 0.14
Matches are distributed among these distances:
46 8 0.03
47 18 0.07
48 7 0.03
50 1 0.00
51 1 0.00
52 94 0.37
53 66 0.26
54 15 0.06
55 3 0.01
57 4 0.02
58 8 0.03
59 25 0.10
60 2 0.01
61 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:723596 original size:52 final size:53
Alignment explanation
Indices: 723484--723599 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
723474 AAATTATAAA
723484 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
723537 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
723589 CGCATTGCGAT
1 CGCATTGCGAT
723600 AGTCATTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:723607 original size:19 final size:19
Alignment explanation
Indices: 723502--723599 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
723492 GATTCTCTCG
723502 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
723522 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
723541 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
723555 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
723574 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
723593 TTGCGAT
1 TTGCGAT
723600 AGTCATTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:723721 original size:14 final size:14
Alignment explanation
Indices: 723702--723750 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
723692 TTCGCATTAC
723702 ACAAATCAACTTAT
1 ACAAATCAACTTAT
* *
723716 ACAAATCATCTTTT
1 ACAAATCAACTTAT
*
723730 ACAAATCAA-TTAA
1 ACAAATCAACTTAT
723743 AC-AATCAA
1 ACAAATCAA
723751 AAAATAAGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 6 0.20
13 4 0.13
14 20 0.67
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAAATCAACTTAT
Found at i:725575 original size:19 final size:19
Alignment explanation
Indices: 725530--725644 Score: 106
Period size: 19 Copynumber: 6.6 Consensus size: 19
725520 TAGTTTACTT
* **
725530 TCGCAACACGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
725549 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
725568 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
725582 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
725601 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
725615 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
725634 TCGCAATGCGA
1 TCGCAACGCGA
725645 TTTTGGTTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
14 16 0.20
16 11 0.14
17 11 0.14
19 42 0.52
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:725585 original size:14 final size:14
Alignment explanation
Indices: 725566--725622 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
725556 GCGAAATGAA
*
725566 AATCGCAACGACAG
1 AATCGCAACGAAAG
725580 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
725597 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
725613 AATCGCAACG
1 AATCGCAACG
725623 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:725593 original size:33 final size:33
Alignment explanation
Indices: 725547--725639 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
725537 ACGAAACCAA
*
725547 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
725580 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
725613 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
725640 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:725662 original size:19 final size:19
Alignment explanation
Indices: 725640--725768 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
725630 AAAATCGCAA
725640 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
725659 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
725673 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
725692 TGCGATTAT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
725706 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
725725 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
725744 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
725764 TGCGA
1 TGCGA
725769 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:725682 original size:33 final size:33
Alignment explanation
Indices: 725640--725731 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
725630 AAAATCGCAA
725640 TGCGATTTTGGTTTCGCGTTGCGATCT-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGAT-TATGTCGT
725673 TGCGATTTTGGTTTCGCGTTGCGATTATGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTATGTCGT
**
725706 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
725732 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 1 0.02
33 55 0.98
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTATGTCGT
Found at i:726144 original size:185 final size:185
Alignment explanation
Indices: 725816--726189 Score: 693
Period size: 185 Copynumber: 2.0 Consensus size: 185
725806 ATGGATTGCA
725816 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTCACAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTCACAGTGTTAAAGAATACACAGTTT
725880 AGCAGAATTGGCAGCAACCGAACAAATATTTACTTTCAACCAAAAGACAAAACAAAGACAATATA
66 AGCAGAATTGGCAGCAACCGAACAAATATTTACTTTCAACCAAAAGACAAAACAAAGACAATATA
725945 TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
726000 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACAGTT
726065 TAGCAGAATTGGCAGCAACCGAAC-AA-ATTTACTTTCAACCAAAAGACAAAACAAA-ACAAATA
65 TAGCAGAATTGGCAGCAACCGAACAAATATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATA
726127 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
129 -TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
726185 TTACT
1 TTACT
726190 AAGCAATCTA
Statistics
Matches: 186, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
183 2 0.01
184 37 0.20
185 97 0.52
186 50 0.27
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTCACAGTGTTAAAGAATACACAGTTT
AGCAGAATTGGCAGCAACCGAACAAATATTTACTTTCAACCAAAAGACAAAACAAAGACAATATA
TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:726185 original size:92 final size:93
Alignment explanation
Indices: 725816--726189 Score: 695
Period size: 93 Copynumber: 4.1 Consensus size: 93
725806 ATGGATTGCA
725816 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
725879 TAGCAGAATTGGCAGCAACCGAACAAATAT
66 TAGCAGAATTGGCAGCAACCGAAC-AA-AT
725909 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATA-TATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
725972 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
726000 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
726065 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
726093 TTACTTTCAACCAAAAGACAAAACAAA-ACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
726157 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
726185 TTACT
1 TTACT
726190 AAGCAATCTA
Statistics
Matches: 277, Mismatches: 0, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
91 32 0.12
92 78 0.28
93 142 0.51
94 25 0.09
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:727913 original size:14 final size:14
Alignment explanation
Indices: 727894--727982 Score: 79
Period size: 14 Copynumber: 5.7 Consensus size: 14
727884 TTGAAATGAA
727894 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
727908 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
727925 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
*
727940 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
727959 AATCGCAACGAGAG
1 AATCGCAACGAGAG
727973 AATCGCAACG
1 AATCGCAACG
727983 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 28 0.45
15 2 0.03
16 10 0.16
17 3 0.05
18 9 0.15
19 10 0.16
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:727933 original size:32 final size:33
Alignment explanation
Indices: 727886--727999 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
727876 TCTTTTGGTT
727886 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
727919 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
727951 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
727984 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
728000 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
32 32 0.40
33 48 0.60
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:727964 original size:19 final size:19
Alignment explanation
Indices: 727908--728004 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
727898 GCAACGAGAG
727908 AATCGCAACGCGAAATG-A
1 AATCGCAACGCGAAATGAA
*
727926 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
727940 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
727959 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
727973 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
727992 AATCGCAATGCGA
1 AATCGCAACGCGA
728005 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 21
0.71 0.06 0.24
Matches are distributed among these distances:
13 1 0.02
14 19 0.30
15 1 0.02
16 6 0.10
17 2 0.03
18 10 0.16
19 24 0.38
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:728048 original size:33 final size:35
Alignment explanation
Indices: 728013--728134 Score: 149
Period size: 33 Copynumber: 3.4 Consensus size: 35
728003 GATTTTGGTT
*
728013 TCGCGTTGCGATTCTCTCGTTGTGATTTTCA-TT-
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTA
*
728046 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTC
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTA
* *
728081 TCTCGTTGCGACAGTCATTCTCGTTGCGATTTTCATTTA
1 TCGCGTTGCG--ATTC--TCTCGTTGCGATTTTCATTTA
*
728120 TCTCGTTGCGATTCT
1 TCGCGTTGCGATTCT
728135 TCTGCAAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.38
34 2 0.03
35 10 0.13
37 6 0.08
39 30 0.38
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.46
Consensus pattern (35 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTA
Found at i:728068 original size:14 final size:14
Alignment explanation
Indices: 728016--728072 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
728006 TTTGGTTTCG
728016 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
728030 CGTTGTGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
728049 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
728063 CGTTGCGATT
1 CGTTGCGATT
728073 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:728083 original size:21 final size:21
Alignment explanation
Indices: 728057--728132 Score: 95
Period size: 21 Copynumber: 3.8 Consensus size: 21
728047 CGCGTTGCGA
728057 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
728078 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
728098 -T-TCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
728117 TTATCTCGTTGCGATT
1 TTCTCTCGTTGCGATT
728133 CTTCTGCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.30
19 1 0.02
20 1 0.02
21 30 0.65
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:728255 original size:33 final size:33
Alignment explanation
Indices: 728210--728280 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
728200 AATACTAACT
* *
728210 TGAAAATTGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
728243 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
728276 TGAAA
1 TGAAA
728281 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:728512 original size:22 final size:22
Alignment explanation
Indices: 728460--728513 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
728450 TGGTTGTGAG
**
728460 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
728482 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
728504 GGATTTCTTC
1 GGATTTCTTC
728514 ACCGTAGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:728688 original size:20 final size:20
Alignment explanation
Indices: 728661--728853 Score: 219
Period size: 20 Copynumber: 9.7 Consensus size: 20
728651 CTTTAAATAT
*
728661 CGCGTTGCGATTTACGGATT
1 CGCGTTGCGATTTACGGATA
*
728681 CTCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
*
728702 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
728721 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
728741 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
728761 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
728781 CACGTTGCGATGTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
728801 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
728821 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
728841 CGCGTTGCGATTT
1 CGCGTTGCGATTT
728854 TGGAAAATCG
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 144 0.97
21 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:728870 original size:21 final size:21
Alignment explanation
Indices: 728840--728922 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
728830 ATTTTCATAT
*
728840 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
728861 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
728882 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
* *
728903 TAGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
728923 CTGATTTACG
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.02
21 43 0.93
22 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:742033 original size:1 final size:1
Alignment explanation
Indices: 742023--742090 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
742013 ATGCTTGAAG
* * * * * * ** *
742023 AAAAAGAAAAAGAAAAAATAAAAAAAATAAAAAAAAAGAAAAAAAAAGAAAAAAGGAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
742088 AAA
1 AAA
742091 GGGGGTCAAG
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (1 bp):
A
Found at i:742039 original size:7 final size:7
Alignment explanation
Indices: 742023--742090 Score: 68
Period size: 7 Copynumber: 9.6 Consensus size: 7
742013 ATGCTTGAAG
742023 AAAAAG-
1 AAAAAGA
742029 AAAAAGA
1 AAAAAGA
*
742036 AAAAATA
1 AAAAAGA
742043 AAAAA-A
1 AAAAAGA
*
742049 ATAAAAAA
1 A-AAAAGA
*
742057 AAAGAAAA
1 AAA-AAGA
742065 AAAAAGA
1 AAAAAGA
742072 AAAAAGGA
1 AAAAA-GA
742080 AAAAAGA
1 AAAAAGA
742087 AAAA
1 AAAA
742091 GGGGGTCAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
6 8 0.15
7 31 0.56
8 16 0.29
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:742055 original size:10 final size:10
Alignment explanation
Indices: 742023--742076 Score: 72
Period size: 10 Copynumber: 5.2 Consensus size: 10
742013 ATGCTTGAAG
742023 AAAAAGAAAA
1 AAAAAGAAAA
*
742033 AGAAAAAATAAA
1 A-AAAAGA-AAA
*
742045 AAAAATAAAA
1 AAAAAGAAAA
742055 AAAAAGAAAA
1 AAAAAGAAAA
742065 AAAAAGAAAA
1 AAAAAGAAAA
742075 AA
1 AA
742077 GGAAAAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
10 25 0.64
11 10 0.26
12 4 0.10
ACGTcount: A:0.89, C:0.00, G:0.07, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:742074 original size:8 final size:8
Alignment explanation
Indices: 742029--742090 Score: 61
Period size: 8 Copynumber: 7.4 Consensus size: 8
742019 GAAGAAAAAG
742029 AAAAAGAA
1 AAAAAGAA
*
742037 AAAATAAAA
1 AAAA-AGAA
*
742046 AAAATAAAA
1 AAAA-AGAA
742055 AAAAAGAA
1 AAAAAGAA
*
742063 AAAAAAAGA
1 AAAAAGA-A
*
742072 AAAAAGGA
1 AAAAAGAA
742080 AAAAAGAA
1 AAAAAGAA
742088 AAA
1 AAA
742091 GGGGGTCAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 24 0.52
9 22 0.48
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:743440 original size:82 final size:83
Alignment explanation
Indices: 743220--744033 Score: 1225
Period size: 83 Copynumber: 9.9 Consensus size: 83
743210 TATCCTAGTA
* * *
743220 CAATCATTGAGTTTAGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CAATCATTGAATTTAGAAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
743284 TGATCTGGTTTGG-CAGAAC
65 TGATCTGG-TTGGACAGAAC
* *
743303 CAATCAGTGAATTTAGAAGATGAATTTGCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
743368 GATCTGGTTGGACAGAA-
66 GATCTGGTTGGACAGAAC
* * *
743385 CAATCATTGAGTTTAGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CAATCATTGAATTTAGAAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
743449 TGATCTGGTTTGG-CAGAAC
65 TGATCTGG-TTGGACAGAAC
*
743468 CAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
743533 GATCTGGTTGG-CAGAAC
66 GATCTGGTTGGACAGAAC
*
743550 CAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
743615 GATCTGGTTGGACAGAA-
66 GATCTGGTTGGACAGAAC
* *
743632 CAATCATTGAGTTTAGAAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
* *
743697 GATCTGATTGGACAGAAT
66 GATCTGGTTGGACAGAAC
* * * *
743715 CAAGCATTGAGTTTAGAAGATGAATTTGCCAATAACATCTTCTGGAAGTGTTCCTTGAGTTATCT
1 CAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
* *
743780 GATCTGATTGGACAGAAT
66 GATCTGGTTGGACAGAAC
* * * *
743798 CAAGCATTGAATTTGGAAGATGAATTCGCCGATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
743863 GATCTGGTTGGACAGAA-
66 GATCTGGTTGGACAGAAC
* *
743880 CAATCAGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
743945 GATCTGGTTTGG-CAGAAC
66 GATCTGG-TTGGACAGAAC
** * * *
743963 CAATCATTGAATTCGGAACATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CAATCATTGAATTTAGAAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
744027 TGATCTG
65 TGATCTG
744034 ATTCAGTAGG
Statistics
Matches: 678, Mismatches: 42, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
82 311 0.46
83 366 0.54
84 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (83 bp):
CAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
GATCTGGTTGGACAGAAC
Found at i:743491 original size:165 final size:165
Alignment explanation
Indices: 743219--744033 Score: 1275
Period size: 165 Copynumber: 4.9 Consensus size: 165
743209 ATATCCTAGT
* *
743219 ACAATCATTGAGTTTAGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 ACAATCATTGAGTTTAGAAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* *
743283 CTGATCTGGTTTGGCAGAACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAACATCTTCTGG
65 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGG
743348 AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
130 AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* *
743384 ACAATCATTGAGTTTAGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 ACAATCATTGAGTTTAGAAGATGAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
743448 CTGATCTGGTTTGGCAGAACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGG
65 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGG
743513 AAGTGTTCTTTGAGTTATCTGATCTGGTTGG-CAGA
130 AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* *
743548 ACCAATCAGTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 A-CAATCATTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* *
743613 CTGATCTGG-TTGGACAGAA-CAATCATTGAGTTTAGAAGATAAATTTGCCAATAGCATCTTCTG
65 CTGATCTGGTTTGG-CAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTG
*
743676 GAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGA
129 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* * *
743713 ATCAAGCATTGAGTTTAGAAGATGAATTTGCCAATAACATCTTCTGGAAGTGTTCCTTGAGTTAT
1 A-CAATCATTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* * * * * *
743778 CTGATCT-GATTGGACAGAATCAAGCATTGAATTTGGAAGATGAATTCGCCGATAGCATCTTCTG
65 CTGATCTGGTTTGG-CAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTG
743842 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
129 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
*
743879 ACAATCAGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 ACAATCATTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
** * * *
743944 TGATCTGGTTTGGCAGAACCAATCATTGAATTCGGAACATGAATGTGTTC-ATAGCATCTTCTGG
66 TGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTTG-CCAATAGCATCTTCTGG
744008 AAGTGTTCTTTGAGTTATCTGATCTG
130 AAGTGTTCTTTGAGTTATCTGATCTG
744034 ATTCAGTAGG
Statistics
Matches: 608, Mismatches: 34, Indels: 16
0.92 0.05 0.02
Matches are distributed among these distances:
164 83 0.14
165 444 0.73
166 81 0.13
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (165 bp):
ACAATCATTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGA
AGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
Found at i:744749 original size:24 final size:23
Alignment explanation
Indices: 744706--744750 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
744696 GTTCATAATG
*
744706 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
744729 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
744751 AACTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:744986 original size:113 final size:112
Alignment explanation
Indices: 744684--745324 Score: 1045
Period size: 113 Copynumber: 5.6 Consensus size: 112
744674 AAAGATCAGC
*
744684 TTTTCCAGAGAA-GTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* * * *
744748 AAGAACTTGTTCAACCTTTTATTTGAATTCATCAAATTGATGGATTAGC
66 AAGAATTTGTTCAACCTTTTATCTGAATTCATC-ACTTGATGGATTA-T
744797 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCATATGAAGAAGGAAGAAGAAGTTCATAAT
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATC---TGAAGAAGGAAGAAGAAGTTCATAAT
744862 GAGAAGAATTTGTTCAACCTTTTTATCTGAATTCATCACTTGATGGATTAT
63 GAGAAGAATTTGTTCAACC-TTTTATCTGAATTCATCACTTGATGGATTAT
744913 TTTTGCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 TTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
744977 GAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTAT
65 GAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTAT
745025 TTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 TTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * *
745090 GAAGAATTTGTTCAACCTTTTATTTGAATTCATCAAATTGATGGATTAGC
65 GAAGAATTTGTTCAACCTTTTATCTGAATTCATC-ACTTGATGGATTA-T
*
745140 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGGAGGAAGAAGAAGTTCATAAT
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAAT
745205 GAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTAT
63 GAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTAT
745255 TTTTGCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 TTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
745319 GAAGAA
65 GAAGAA
745325 CTCATCAAGA
Statistics
Matches: 500, Mismatches: 15, Indels: 27
0.92 0.03 0.05
Matches are distributed among these distances:
112 81 0.16
113 141 0.28
114 60 0.12
115 25 0.05
116 48 0.10
117 129 0.26
118 16 0.03
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (112 bp):
TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTAT
Found at i:745180 original size:230 final size:227
Alignment explanation
Indices: 744681--745324 Score: 1075
Period size: 230 Copynumber: 2.8 Consensus size: 227
744671 TTGAAAGATC
744681 AGCTTTTCCAGAGAAGTTCATAATGAGAAGAAT-TCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AGCTTTTCCAGAGAAGTTCATAATGAGAAGAATCTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * *
744745 GAGAAGAACTTGTTCAACCTTTTATTTGAATTCATCAAATTGATGGATTAGCTTTT-CCAGAGAA
66 GAGAAGAATTTGTTCAACCTTTTATCTGAATTCATC-ACTTGATGGATTA-TTTTTGCCAGAGAA
744809 GGTTCATAATGAGAAGAACTCATCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
129 GGTTCATAATGAGAAGAACTCATC---TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
*
744874 TTCAACCTTTTTATCTGAATTCATCACTTGATGGATT
191 TTCAACCTTTTTATCTGAATTCATCAATTGATGGATT
*
744911 A-TTTTTGCCAGAGAAGTTCATAATGAGAAGAA-CTCATCTGAAGAAGGAAGAAGAAGTTCATAA
1 AGCTTTT-CCAGAGAAGTTCATAATGAGAAGAATCTCATCTGAAGAAGGAAGAAGAAGTTCATAA
*
744974 TGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAG
65 TGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAG
745039 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
130 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
*
745104 ACC-TTTTATTTGAATTCATCAAATTGATGGATT
195 ACCTTTTTATCTGAATTCATC-AATTGATGGATT
*
745137 AGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGGAGGAAGAAGAAGTTCAT
1 AGCTTTTCCAGAGAA-GTTCATAATGAGAAGAA-TC-TCATCTGAAGAAGGAAGAAGAAGTTCAT
745202 AATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGA
63 AATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGA
745267 A-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
128 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
745325 CTCATCAAGA
Statistics
Matches: 394, Mismatches: 11, Indels: 19
0.93 0.03 0.04
Matches are distributed among these distances:
225 16 0.04
226 65 0.16
227 21 0.05
228 4 0.01
229 106 0.27
230 182 0.46
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (227 bp):
AGCTTTTCCAGAGAAGTTCATAATGAGAAGAATCTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGG
TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
CCTTTTTATCTGAATTCATCAATTGATGGATT
Found at i:745579 original size:3 final size:3
Alignment explanation
Indices: 745571--745671 Score: 166
Period size: 3 Copynumber: 33.7 Consensus size: 3
745561 TTTTTATCCA
* *
745571 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
745619 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
745667 TAT TA
1 TAT TA
745672 AATATATATT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:746930 original size:18 final size:18
Alignment explanation
Indices: 746899--746933 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
746889 ATTTTATTTG
**
746899 TTTATATTTTTAAATATT
1 TTTATATTCATAAATATT
746917 TTTATATTCATAAATAT
1 TTTATATTCATAAATAT
746934 ATATATAATA
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:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATTCATAAATATT
Found at i:748174 original size:98 final size:98
Alignment explanation
Indices: 748066--748254 Score: 360
Period size: 98 Copynumber: 1.9 Consensus size: 98
748056 GAATTAAAAA
*
748066 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAACATGGACTAT
1 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAAAATGGACTAT
748131 CTGTGTAATTATACCATCCATGTAAGATTTAAT
66 CTGTGTAATTATACCATCCATGTAAGATTTAAT
748164 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAAAATGGACTAT
1 TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAAAATGGACTAT
*
748229 TTGTGTAATTATACCATCCATGTAAG
66 CTGTGTAATTATACCATCCATGTAAG
748255 CATGTTAACT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (98 bp):
TAAATATATTTTAATTTATTAAAACTAGGATCAAATTGAAAGAATATATAAATAAAATGGACTAT
CTGTGTAATTATACCATCCATGTAAGATTTAAT
Found at i:752159 original size:11 final size:11
Alignment explanation
Indices: 752127--752160 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
752117 AAAATGTTTG
*
752127 TTTAGCGTTCG
1 TTTAGCGTTCA
*
752138 TTTAGTGTTCA
1 TTTAGCGTTCA
752149 TTTAGCGTTCA
1 TTTAGCGTTCA
752160 T
1 T
752161 GAACATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.50
Consensus pattern (11 bp):
TTTAGCGTTCA
Found at i:752176 original size:16 final size:16
Alignment explanation
Indices: 752155--752185 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
752145 TTCATTTAGC
752155 GTTCATGAACATGTTA
1 GTTCATGAACATGTTA
752171 GTTCATGAACATGTT
1 GTTCATGAACATGTT
752186 CGTTTGGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (16 bp):
GTTCATGAACATGTTA
Found at i:756608 original size:21 final size:21
Alignment explanation
Indices: 756583--756638 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
756573 TGTTCCCTTG
*
756583 TAGCCTTTGTTTCTATTTTTC
1 TAGCCTTTGTGTCTATTTTTC
756604 TAGCCTTTGTGTCTATTTTTC
1 TAGCCTTTGTGTCTATTTTTC
756625 TAGCCTTTGTGTCT
1 TAGCCTTTGTGTCT
756639 TTGTTACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.09, C:0.20, G:0.14, T:0.57
Consensus pattern (21 bp):
TAGCCTTTGTGTCTATTTTTC
Found at i:756706 original size:52 final size:52
Alignment explanation
Indices: 756626--756744 Score: 211
Period size: 52 Copynumber: 2.2 Consensus size: 52
756616 CTATTTTTCT
*
756626 AGCCTTTGTGTCTTTGTTACTTAAGTTTGTTGGCTTGCTTTCTCTTTGTGCTTA
1 AGCCTTTGTGGC--TGTTACTTAAGTTTGTTGGCTTGCTTTCTCTTTGTGCTTA
756680 AGCCTTTGTGGCTGTTACTTAAGTTTGTTGGCTTGCTTTCTCTTTGTGCTTA
1 AGCCTTTGTGGCTGTTACTTAAGTTTGTTGGCTTGCTTTCTCTTTGTGCTTA
756732 AGCCTTTGTGGCT
1 AGCCTTTGTGGCT
756745 TGTATTGCCA
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 53 0.83
54 11 0.17
ACGTcount: A:0.09, C:0.18, G:0.23, T:0.50
Consensus pattern (52 bp):
AGCCTTTGTGGCTGTTACTTAAGTTTGTTGGCTTGCTTTCTCTTTGTGCTTA
Found at i:757735 original size:20 final size:20
Alignment explanation
Indices: 757710--757760 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
757700 GAATATGCAT
757710 CGATACACTCAAGAGTGTAC
1 CGATACACTCAAGAGTGTAC
757730 CGATACACTCAAGAGTGTAC
1 CGATACACTCAAGAGTGTAC
*
757750 CGATAAACTCA
1 CGATACACTCA
757761 TCAGGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CGATACACTCAAGAGTGTAC
Found at i:758240 original size:13 final size:13
Alignment explanation
Indices: 758217--758255 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
758207 AAAACTATGT
758217 ATTGATTTTCAAAC
1 ATTG-TTTTCAAAC
*
758231 ATTGTTTTCAAAG
1 ATTGTTTTCAAAC
*
758244 ATAGTTTTCAAA
1 ATTGTTTTCAAA
758256 TTTGCCCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Done.