Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007749.1 Hibiscus syriacus cultivar Beakdansim tig00110015_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: 1787532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:622452 original size:35 final size:35
Alignment explanation
Indices: 622412--622536 Score: 148
Period size: 35 Copynumber: 3.6 Consensus size: 35
622402 ATTTAATTCA
*
622412 TTTCAAGGTAAACGATCTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTG
* ** *
622447 TTTCAAGGGAAATAGA-CTCAAAGA--TTTAATTCG
1 TTTCAAGGGAAA-CGATCTCAAAGATGTTTGTTTTG
*
622480 TTTCAAGGGAAACTATCTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTG
* *
622515 TTTCAAGGGAAACAAACTCAAA
1 TTTCAAGGGAAACGATCTCAAA
622537 TATGGATATT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
32 1 0.01
33 26 0.35
35 45 0.61
36 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (35 bp):
TTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTG
Found at i:622470 original size:68 final size:68
Alignment explanation
Indices: 622376--622536 Score: 259
Period size: 68 Copynumber: 2.4 Consensus size: 68
622366 AAAGATGGTA
* * *
622376 TTGTTTCAAGAGAAACAGACTTAAAGATTTAATTCATTTCAAGGTAAACGATCTCAAAGATGTTT
1 TTGTTTCAAGGGAAACAGACTCAAAGATTTAATTCATTTCAAGGGAAACGATCTCAAAGATGTTT
622441 GTT
66 GTT
* * *
622444 TTGTTTCAAGGGAAATAGACTCAAAGATTTAATTCGTTTCAAGGGAAACTATCTCAAAGATGTTT
1 TTGTTTCAAGGGAAACAGACTCAAAGATTTAATTCATTTCAAGGGAAACGATCTCAAAGATGTTT
622509 GTT
66 GTT
*
622512 TTGTTTCAAGGGAAACAAACTCAAA
1 TTGTTTCAAGGGAAACAGACTCAAA
622537 TATGGATATT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 85 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (68 bp):
TTGTTTCAAGGGAAACAGACTCAAAGATTTAATTCATTTCAAGGGAAACGATCTCAAAGATGTTT
GTT
Found at i:623255 original size:32 final size:32
Alignment explanation
Indices: 623219--623290 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
623209 TCAAATCCCC
*
623219 AAATATGCCCCAATATTCAATGTTAAATCTTT
1 AAATATGCCCCAACATTCAATGTTAAATCTTT
*** *
623251 AAATATGCCCCAACATTTGCTGTTGAATCTTT
1 AAATATGCCCCAACATTCAATGTTAAATCTTT
*
623283 AAAGATGC
1 AAATATGC
623291 TCCATTGTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (32 bp):
AAATATGCCCCAACATTCAATGTTAAATCTTT
Found at i:630336 original size:30 final size:30
Alignment explanation
Indices: 630291--630367 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
630281 AAACAAGGGA
630291 TTAAAAGATCTAAAATAACAAAAACAGAAAT
1 TTAAAAGA-CTAAAATAACAAAAACAGAAAT
* * *
630322 TTAAAAGACTAAAATAATACAAACAGGAAT
1 TTAAAAGACTAAAATAACAAAAACAGAAAT
*
630352 TTAAAGGACTAAAATA
1 TTAAAAGACTAAAATA
630368 GCAATTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 34 0.81
31 8 0.19
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (30 bp):
TTAAAAGACTAAAATAACAAAAACAGAAAT
Found at i:645621 original size:14 final size:14
Alignment explanation
Indices: 645604--645635 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
645594 AATGAACATA
645604 AACGAACATAACCG
1 AACGAACATAACCG
*
645618 AACGAACATAGCCG
1 AACGAACATAACCG
645632 AACG
1 AACG
645636 TTCACGAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.19, T:0.06
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:650624 original size:51 final size:51
Alignment explanation
Indices: 650551--650649 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
650541 CAAGATAAAT
650551 ATAGTGCATTTGTTTGAAATAGTGACTAGTTTTTAATTGAATGGTTTTTAA
1 ATAGTGCATTTGTTTGAAATAGTGACTAGTTTTTAATTGAATGGTTTTTAA
650602 ATAGTGCATTTGTTTGAAATAGTGACTAGTTTTTAATTGAATGGTTTT
1 ATAGTGCATTTGTTTGAAATAGTGACTAGTTTTTAATTGAATGGTTTT
650650 AAGATCCTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.47
Consensus pattern (51 bp):
ATAGTGCATTTGTTTGAAATAGTGACTAGTTTTTAATTGAATGGTTTTTAA
Found at i:657642 original size:217 final size:219
Alignment explanation
Indices: 657248--657684 Score: 835
Period size: 217 Copynumber: 2.0 Consensus size: 219
657238 AAACAATCTG
657248 CGCAGTAACATCTTTGTTGCCCTAGACAAAAGGTCAAGGATTTAAAAACTTACAGAAGTTCGCAA
1 CGCAGTAACATCTTTGTTGCCCTAGACAAAAGGTCAAGGATTTAAAAACTTACAGAAGTTCGCAA
657313 AATATAAATAACTCAAACAGAGAAACCTCGAATAACCTAAACAAAATATGCTAACCTAATATTAA
66 AATATAAATAACTCAAACAGAGAAACCTCGAATAACCTAAACAAAATATGCTAACCTAATATTAA
657378 ACATGCATTGGAAGTAAAGAAAGATTTTTCAATCATACGCTTTTCTTGAGATAAAAGTATAATGA
131 ACATGCATTGGAAGTAAAGAAAGATTTTTCAATCATACGCTTTTCTTGAGATAAAAGTATAATGA
657443 TAAG-A-ATACAGCTTTCAGGATA
196 TAAGAATATACAGCTTTCAGGATA
657465 CGCAGTAACATCTTTGTTGCCCTAGACAAAAGGTCAAGGATTTAAAAACTTACAGAAGTTCGCAA
1 CGCAGTAACATCTTTGTTGCCCTAGACAAAAGGTCAAGGATTTAAAAACTTACAGAAGTTCGCAA
*
657530 AATATAAATAACTCAAACAGAGAAACCTCGAATAACCTAAACAAAATATGCTAACTTAATATTAA
66 AATATAAATAACTCAAACAGAGAAACCTCGAATAACCTAAACAAAATATGCTAACCTAATATTAA
657595 ACATGCATTGGAAGTAAAGAAAAGATTTTTCAATCATACGC-TTTCTTGAGATAAAAGTATAATG
131 ACATGCATTGGAAGTAAAG-AAAGATTTTTCAATCATACGCTTTTCTTGAGATAAAAGTATAATG
657659 ATAAGAATATACAGCTTTCAGGATA
195 ATAAGAATATACAGCTTTCAGGATA
657684 C
1 C
657685 AAATCGGACA
Statistics
Matches: 216, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
217 176 0.81
218 22 0.10
219 18 0.08
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (219 bp):
CGCAGTAACATCTTTGTTGCCCTAGACAAAAGGTCAAGGATTTAAAAACTTACAGAAGTTCGCAA
AATATAAATAACTCAAACAGAGAAACCTCGAATAACCTAAACAAAATATGCTAACCTAATATTAA
ACATGCATTGGAAGTAAAGAAAGATTTTTCAATCATACGCTTTTCTTGAGATAAAAGTATAATGA
TAAGAATATACAGCTTTCAGGATA
Found at i:658668 original size:15 final size:15
Alignment explanation
Indices: 658648--658697 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
658638 ATATTTAGTT
*
658648 GGGCGGGAGGATGTG
1 GGGCGGGAGGATGCG
*
658663 GGGCGGGCGGATGCG
1 GGGCGGGAGGATGCG
*
658678 GGGC-GGTGGATGCG
1 GGGCGGGAGGATGCG
*
658692 GTGCGG
1 GGGCGG
658698 ATGCGGGGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.08, C:0.14, G:0.66, T:0.12
Consensus pattern (15 bp):
GGGCGGGAGGATGCG
Found at i:659244 original size:29 final size:29
Alignment explanation
Indices: 659211--659272 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
659201 ACTAAATCCG
*
659211 TCCCGTCCCCGTTTAACATAAACGATTTT
1 TCCCGTCCCAGTTTAACATAAACGATTTT
659240 TCCCGTCCCAGTTTAACATAAACGATTTT
1 TCCCGTCCCAGTTTAACATAAACGATTTT
659269 TCCC
1 TCCC
659273 CGTTTCCGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (29 bp):
TCCCGTCCCAGTTTAACATAAACGATTTT
Found at i:667540 original size:21 final size:21
Alignment explanation
Indices: 667516--667569 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
667506 CCTGTCGTTT
667516 AGATGACATCGCCTCACTTTC
1 AGATGACATCGCCTCACTTTC
* *
667537 AGATGCCACCGCCTCACTTTC
1 AGATGACATCGCCTCACTTTC
*
667558 AGATGTCATCGC
1 AGATGACATCGC
667570 AGCTAGTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.35, G:0.17, T:0.26
Consensus pattern (21 bp):
AGATGACATCGCCTCACTTTC
Found at i:674251 original size:2 final size:2
Alignment explanation
Indices: 674244--674269 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
674234 TCTTTTTCTC
674244 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
674270 GGGATAAGAG
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:676390 original size:226 final size:231
Alignment explanation
Indices: 675990--676431 Score: 687
Period size: 226 Copynumber: 1.9 Consensus size: 231
675980 AAGCAACGTC
*
675990 TGAATTGATTTTAATCCATTGAGGAGGGGGGAACCCAGCGGGTCCAACCACGAGGAATTCCCAAC
1 TGAATTGATTTCAATCCATTGAGGAGGGGGGAACCCAGCGGGTCCAACCACGAGGAATTCCCAAC
*
676055 ACCTGAACTGAGGTTGTCGTGACCTTCAATTGATTTCGATTCATCATCTCAACAAGACGAGCACT
66 ACCTGAACTGAGG-TGTCGTGACCTTCAATTGATTTCGATTCATCATCTCAACAAGACAAGCACT
* * * *
676120 CCGAGTAACAATCGAGTCCTCACCGTCTATTGTGGAATTGAAGACCTTTGCATTCCGAGAGATCC
130 CCGAGTAACAACCGAGCCCTCACCATCTATTGGGGAATTGAAGACCTTTGCATTCCGAGAGATCC
*
676185 ATAAGTTCCAAAAGACTGCCGCAAACATTAAAATCAT
195 ATAACTTCCAAAAGACTGCCGCAAACATTAAAATCAT
* **
676222 TGAATTGATTTCAATCCATTGAGGAGGGGGG-A-GCAGCGGGTCGGACCACGAGGAATT-CCAAC
1 TGAATTGATTTCAATCCATTGAGGAGGGGGGAACCCAGCGGGTCCAACCACGAGGAATTCCCAAC
** * * *
676284 GGCTGAACTGA-G-GTCGTGACCTTCAATTGATTTTGGTTCATCATCTCATCAAGACAAGCACTC
66 ACCTGAACTGAGGTGTCGTGACCTTCAATTGATTTCGATTCATCATCTCAACAAGACAAGCACTC
*
676347 CGAGTAACAACCGAGCCCTCACCATCTATTGGGGAATTGAAGACCTTTTCATTCCGAGAGATCCA
131 CGAGTAACAACCGAGCCCTCACCATCTATTGGGGAATTGAAGACCTTTGCATTCCGAGAGATCCA
*
676412 TAACTTCCAAAGGACTGCCG
196 TAACTTCCAAAAGACTGCCG
676432 GACTGCCGCA
Statistics
Matches: 193, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
226 125 0.65
228 1 0.01
229 14 0.07
230 22 0.11
231 1 0.01
232 30 0.16
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (231 bp):
TGAATTGATTTCAATCCATTGAGGAGGGGGGAACCCAGCGGGTCCAACCACGAGGAATTCCCAAC
ACCTGAACTGAGGTGTCGTGACCTTCAATTGATTTCGATTCATCATCTCAACAAGACAAGCACTC
CGAGTAACAACCGAGCCCTCACCATCTATTGGGGAATTGAAGACCTTTGCATTCCGAGAGATCCA
TAACTTCCAAAAGACTGCCGCAAACATTAAAATCAT
Found at i:699975 original size:72 final size:69
Alignment explanation
Indices: 699867--700006 Score: 219
Period size: 72 Copynumber: 2.0 Consensus size: 69
699857 ATAATATATC
*
699867 AAAATTAATGAATATATATATAAAACTTCAGAAAAGAGATCGATTTTAATCTTAATAATATGAGA
1 AAAATTAATGAATATATATATAAAACTTCAGAAAAGAGATCAATTTTAATCTTAATAATATGAGA
699932 GGGA
66 GGGA
*
699936 AAAATTAATGAATATAATATATTATAAAACTTCAG-AAAGAGATCAATTTTAATCTTAATATTAT
1 AAAATTAATG-A-AT-ATATA-TATAAAACTTCAGAAAAGAGATCAATTTTAATCTTAATAATAT
700000 GAGAGGG
62 GAGAGGG
700007 GAGGAGAGAC
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
69 10 0.15
70 1 0.02
71 2 0.03
72 39 0.60
73 13 0.20
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.32
Consensus pattern (69 bp):
AAAATTAATGAATATATATATAAAACTTCAGAAAAGAGATCAATTTTAATCTTAATAATATGAGA
GGGA
Found at i:706730 original size:30 final size:31
Alignment explanation
Indices: 706694--706752 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
706684 GATTTTGAAA
706694 AAATTGAAAGTTAAGATACTAAA-ACATACG
1 AAATTGAAAGTTAAGATACTAAACACATACG
* * *
706724 AAATTGATAGTTTAGGTACTAAACACATA
1 AAATTGAAAGTTAAGATACTAAACACATA
706753 ATTTATCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (31 bp):
AAATTGAAAGTTAAGATACTAAACACATACG
Found at i:718231 original size:188 final size:185
Alignment explanation
Indices: 717842--718271 Score: 524
Period size: 188 Copynumber: 2.3 Consensus size: 185
717832 AGGCGTAACT
* **
717842 GTATTTCTTATATATGTTCATAACATTTTTTTCATTTTTATACTTATTTTCTTATACTTGGTAAT
1 GTATTTCTTATATATGTTCATAACA---TTTTCATTTTTAAACTTATTTTCTTATACACGGTAAT
* * *
717907 CCAAGGCTCTATCGGCTTAAACTCTTATAACATTTTCAGCGCAACCTATTTTATTCAACAAAATA
63 CCAAGGCTCCATCAGCTAAAACTCTTATAACATTTTCAGCGCAACCTATTTTATTCAACAAAATA
* * * **
717972 TTAACATTCCATATTACAATCTCTTTATTATTGAAAAATGACCTTATTGGGTACAACC
128 TTAACATTCCAGATTACAACCTCTTTATTATTCAAAAATGAAATTATTGGGTACAACC
* * * * *
718030 ATATTTATTATATATGTTCATAACATTTTCAGTTTGAAACTTATTTTCTTATACACGGATAATTC
1 GTATTTCTTATATATGTTCATAACATTTTCATTTTTAAACTTATTTTCTTATACACGG-TAATCC
* *
718095 AAGGCTCCATCAGCTAAAAGT-TTAATAACATTTTCGGCGCAACCCTATTTTATT-ATTA-AAAA
65 AAGGCTCCATCAGCTAAAACTCTT-ATAACATTTTCAGCGCAA-CCTATTTTATTCA--ACAAAA
* * * ** *
718157 TATTAACATTCTAGATTACAACCTGTTTTATTTTTCAACCATGAAATTATTGGGTGCAACC
126 TATTAACATTCCAGATTACAACCT-CTTTATTATTCAAAAATGAAATTATTGGGTACAACC
* *
718218 GTATTTCTTATATATGTTCAAAACAATTTCATTTTTAAACTTATTTTCTTATAC
1 GTATTTCTTATATATGTTCATAACATTTTCATTTTTAAACTTATTTTCTTATAC
718272 TGGTGATTAG
Statistics
Matches: 206, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
185 30 0.15
186 40 0.19
187 36 0.17
188 100 0.49
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (185 bp):
GTATTTCTTATATATGTTCATAACATTTTCATTTTTAAACTTATTTTCTTATACACGGTAATCCA
AGGCTCCATCAGCTAAAACTCTTATAACATTTTCAGCGCAACCTATTTTATTCAACAAAATATTA
ACATTCCAGATTACAACCTCTTTATTATTCAAAAATGAAATTATTGGGTACAACC
Found at i:719971 original size:187 final size:188
Alignment explanation
Indices: 719656--720084 Score: 639
Period size: 187 Copynumber: 2.3 Consensus size: 188
719646 CGCGTGTCAC
* * * * * *
719656 TAGGATAATCCAAGGCTCCATCAGCATAAACTCTGATAACATTTTTGTCACAACCTATTTTATTA
1 TAGGATAATTCAAGGCTCCATCAGCTTAAACTCTAATAACATTTTTGACGCAACATATTTTATTA
* * *
719721 TTAAAAGTATTAACATTCCAAATTATAACCTTTTTTATTATTGGACCATGACATTATTGGGCGCA
66 TTAAAAGTATTAACATTCCAAATTATAACCTCTTTCATTATTGAACCATGACATTATTGGGCGCA
* * *
719786 ATCGTATTTTTTATACATGTTCATA-AAATTTTCAGTTTTAAACTTATTTTCTTATAT
131 ACCGTATATCTTATACATGTTCATACAAATTTTCAGTTTTAAACTTATTTTCTTATAT
* *
719843 TAGGATAATTCAAGTCTCCATCAGCTTAAACTCTAATAACATTTTCGACGCAACATATTTTATTA
1 TAGGATAATTCAAGGCTCCATCAGCTTAAACTCTAATAACATTTTTGACGCAACATATTTTATTA
*
719908 TTAAAAGTATTAACATTCCATATTATAACCTCTTTCATTATTGAACCATGACATTATTGGGCGCA
66 TTAAAAGTATTAACATTCCAAATTATAACCTCTTTCATTATTGAACCATGACATTATTGGGCGCA
* *
719973 ACCGTATATCTTATATATGTTCATACAATTTTTCAGTTTTAAACTTATTTTCTTATAT
131 ACCGTATATCTTATACATGTTCATACAAATTTTCAGTTTTAAACTTATTTTCTTATAT
* * *
720031 T-GAGATAA-TCTAAGGCTCCATCAGCTTAAACTTTAATAAGATTTTTGGCGCAAC
1 TAG-GATAATTC-AAGGCTCCATCAGCTTAAACTCTAATAACATTTTTGACGCAAC
720085 CTAAAATGTT
Statistics
Matches: 217, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
187 142 0.65
188 75 0.35
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (188 bp):
TAGGATAATTCAAGGCTCCATCAGCTTAAACTCTAATAACATTTTTGACGCAACATATTTTATTA
TTAAAAGTATTAACATTCCAAATTATAACCTCTTTCATTATTGAACCATGACATTATTGGGCGCA
ACCGTATATCTTATACATGTTCATACAAATTTTCAGTTTTAAACTTATTTTCTTATAT
Found at i:722264 original size:22 final size:22
Alignment explanation
Indices: 722239--722289 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
722229 GATCTTTCGG
722239 GACATATACACAGGTCCTTCAA
1 GACATATACACAGGTCCTTCAA
* * **
722261 GACATATGCATAGGTCCTTCGG
1 GACATATACACAGGTCCTTCAA
722283 GACATAT
1 GACATAT
722290 TTCACATGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (22 bp):
GACATATACACAGGTCCTTCAA
Found at i:722998 original size:16 final size:17
Alignment explanation
Indices: 722971--723004 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
722961 AATTGTATTC
722971 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
722988 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
723004 T
1 T
723005 GACACCTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:723465 original size:57 final size:56
Alignment explanation
Indices: 723330--723465 Score: 152
Period size: 57 Copynumber: 2.4 Consensus size: 56
723320 TATTTTAAAC
* *
723330 ATTATATTTTATCTTTATTTTAGGTATTTTAGTTTAAATAGGTTTTAGAATATTATT
1 ATTAGATTTTATCATTATTTTAGGTATTTTAGTTTAAATAGGTTTTAG-ATATTATT
* * * *
723387 TTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG-TATT-TT
1 ATTAGATTTTATCATTATTTTAGGTATTTTAGTTTAAATAGGTTTTAGATATTATT
723441 AATTAGGATTTATAAT-ATTATTTTA
1 -ATTA-GATTT-T-ATCATTATTTTA
723466 AATATTATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
54 2 0.03
55 7 0.10
56 4 0.06
57 54 0.78
58 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.11, T:0.59
Consensus pattern (56 bp):
ATTAGATTTTATCATTATTTTAGGTATTTTAGTTTAAATAGGTTTTAGATATTATT
Found at i:723493 original size:74 final size:76
Alignment explanation
Indices: 723362--723526 Score: 230
Period size: 74 Copynumber: 2.2 Consensus size: 76
723352 GGTATTTTAG
* * * *
723362 TTTAAATAGGTTTTAGAATATTATTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA
1 TTTAATTAGGATTTAGAATATTATTTTTAAATATTATCTTTGTTTTAGGTATTTTAGTTTAAATA
723427 GGTTTT-AGTAT
66 -GTTTTAAGTAT
*
723438 TTTAATTAGGATTTATAATATTA-TTTTAAATATTAT-TATT-TTTTAGGTATTTTAGTTTAAAT
1 TTTAATTAGGATTTAGAATATTATTTTTAAATATTATCT-TTGTTTTAGGTATTTTAGTTTAAAT
*
723500 AGTTTTAAGTGT
65 AGTTTTAAGTAT
723512 TTTAATTAGGATTTA
1 TTTAATTAGGATTTA
723527 AGATGTTTTA
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
73 5 0.06
74 43 0.53
75 13 0.16
76 20 0.25
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (76 bp):
TTTAATTAGGATTTAGAATATTATTTTTAAATATTATCTTTGTTTTAGGTATTTTAGTTTAAATA
GTTTTAAGTAT
Found at i:724007 original size:215 final size:216
Alignment explanation
Indices: 723636--724070 Score: 863
Period size: 215 Copynumber: 2.0 Consensus size: 216
723626 TTTTCTCTAG
723636 CTTTCTCTCTATTTTTCATACTTTTCAATTATGTTAAGTATGACTTTGGTCATGCTTAGCTAATT
1 CTTTCTCTCTATTTTTCATACTTTTCAATTATGTTAAGTATGACTTTGGTCATGCTTAGCTAATT
723701 TTCTCTCAAGCCGAAGACTGAAGCGAATGCTCAATTCCAAACGTGAGAATTGTAAGGTACTTAAA
66 TTCTCTCAAGCCGAAGACTGAAGCGAATGCTCAATTCCAAACGTGAGAATTGTAAGGTACTTAAA
723766 TCGCTTCGGATTTTTCTCTTTGTTTTCTGAGCTTACTTTTCAAATCAAAACGATTTCGACATTGG
131 TCGCTTCGGATTTTTCTCTTTGTTTTCTGAGCTTACTTTTCAAATCAAAACGATTTCGACATTGG
723831 TCC-GATATTGTTATGGTTAA
196 TCCGGATATTGTTATGGTTAA
723851 CTTTCTCTCTATTTTTCATACTTTTCAATTATGTTAAGTATGACTTTGGTCATGCTTAGCTAATT
1 CTTTCTCTCTATTTTTCATACTTTTCAATTATGTTAAGTATGACTTTGGTCATGCTTAGCTAATT
723916 TTCTCTCAAGCCGAAGACTGAAGCGAATGCTCAATTCCAAACGTGAGAATTGTAAGGTACTTAAA
66 TTCTCTCAAGCCGAAGACTGAAGCGAATGCTCAATTCCAAACGTGAGAATTGTAAGGTACTTAAA
723981 TCGCTTCGGATTTTTCTCTTTGTTTTCTGAGCTTACTTTTCAAATCAAAACGATTTCGACATTGG
131 TCGCTTCGGATTTTTCTCTTTGTTTTCTGAGCTTACTTTTCAAATCAAAACGATTTCGACATTGG
724046 TCCGGATATTGTTATGGTTAA
196 TCCGGATATTGTTATGGTTAA
724067 CTTT
1 CTTT
724071 TGAAGAAGGA
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
215 198 0.90
216 21 0.10
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (216 bp):
CTTTCTCTCTATTTTTCATACTTTTCAATTATGTTAAGTATGACTTTGGTCATGCTTAGCTAATT
TTCTCTCAAGCCGAAGACTGAAGCGAATGCTCAATTCCAAACGTGAGAATTGTAAGGTACTTAAA
TCGCTTCGGATTTTTCTCTTTGTTTTCTGAGCTTACTTTTCAAATCAAAACGATTTCGACATTGG
TCCGGATATTGTTATGGTTAA
Found at i:734182 original size:12 final size:13
Alignment explanation
Indices: 734143--734185 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
734133 TAACCCGACC
734143 TGACCCGACCCGT
1 TGACCCGACCCGT
*
734156 TTACCCGACCCGT
1 TGACCCGACCCGT
734169 TGACCCGA-CCGT
1 TGACCCGACCCGT
734181 TGACC
1 TGACC
734186 GGCGTTGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.16, C:0.44, G:0.21, T:0.19
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:735647 original size:26 final size:26
Alignment explanation
Indices: 735609--735661 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
735599 TGACCCAAGA
*
735609 ATATCATCAAGCTCAGAAATGATTGG
1 ATATCATCAAGCTCAGAAATGAATGG
* * *
735635 ATATCCTCGAGCTCTGAAATGAATGG
1 ATATCATCAAGCTCAGAAATGAATGG
735661 A
1 A
735662 ATAAAACTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (26 bp):
ATATCATCAAGCTCAGAAATGAATGG
Found at i:736744 original size:48 final size:48
Alignment explanation
Indices: 736635--736750 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 48
736625 TTTGAATTGA
*
736635 ATTCTGATATGATACTTGACATGGATTCTGATCTGATAGCTGACATAG
1 ATTCTGATATGATACTTGACATGGATTCTGATCTGATAGCTAACATAG
* * ** * *
736683 ATTCTGATCTGATACTTGACTTGGATTCTGATCTGATATTTAACCTGG
1 ATTCTGATATGATACTTGACATGGATTCTGATCTGATAGCTAACATAG
736731 AGTT-TGATATGATACTTGAC
1 A-TTCTGATATGATACTTGAC
736751 CTGATTTATG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
48 57 0.97
49 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (48 bp):
ATTCTGATATGATACTTGACATGGATTCTGATCTGATAGCTAACATAG
Found at i:736753 original size:24 final size:24
Alignment explanation
Indices: 736635--736750 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
736625 TTTGAATTGA
*
736635 ATTCTGATATGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
736659 ATTCTGATCTGATAGC-TGACATAG
1 ATTCTGATCTGATA-CTTGACATGG
*
736683 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* * *
736707 ATTCTGATCTGATATTTAACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
736731 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
736751 CTGATTTATG
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.01
24 75 0.95
25 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:738047 original size:15 final size:14
Alignment explanation
Indices: 738027--738074 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
738017 CTAATTTTAT
738027 TATAATTATGTATA
1 TATAATTATGTATA
738041 GTATAATT-T-TAT-
1 -TATAATTATGTATA
738053 TATAATTATGTATAA
1 TATAATTATGTAT-A
738068 TATAATT
1 TATAATT
738075 TTATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 7 0.24
12 1 0.03
13 6 0.21
14 1 0.03
15 14 0.48
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATAATTATGTATA
Found at i:738047 original size:26 final size:26
Alignment explanation
Indices: 738018--738081 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
738008 AGTTTTATAC
*
738018 TAATTTTATTATAATTATGTATAGTA
1 TAATTTTATTATAATTATGTATAATA
738044 TAATTTTATTATAATTATGTATAATA
1 TAATTTTATTATAATTATGTATAATA
738070 TAATTTTATTAT
1 TAATTTTATTAT
738082 TTTCTTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (26 bp):
TAATTTTATTATAATTATGTATAATA
Found at i:741637 original size:21 final size:21
Alignment explanation
Indices: 741597--741637 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
741587 TCTGGGCTAG
* *
741597 GGGAATCGGTACCCATTCAAA
1 GGGAATCGATACCCACTCAAA
*
741618 GGGAATCGATACCCCCTCAA
1 GGGAATCGATACCCACTCAA
741638 CGAATATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (21 bp):
GGGAATCGATACCCACTCAAA
Found at i:742368 original size:103 final size:103
Alignment explanation
Indices: 742184--742503 Score: 563
Period size: 103 Copynumber: 3.1 Consensus size: 103
742174 GTAGAGGGTC
* *
742184 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGAGAGACACATAC
1 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
742249 TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
742287 TATGTGGTCCTTCGAGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
742352 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
742390 TATGTGGTCCTTC-AGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCGA-GACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
*
742454 CTTGATCCTTGGCATATGTATATGGTTCTTAAGGAATGA
65 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
742493 TATG-GGTCCTT
1 TATGTGGTCCTT
742504 ATGGACATTA
Statistics
Matches: 208, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
102 8 0.04
103 200 0.96
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:742553 original size:23 final size:23
Alignment explanation
Indices: 742520--742582 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
742510 ATTATTATAT
742520 GGCACTACGGTGCAATTCTACAC
1 GGCACTACGGTGCAATTCTACAC
* **
742543 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACAC
742566 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
742583 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACAC
Found at i:748678 original size:21 final size:21
Alignment explanation
Indices: 748636--748678 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
748626 TTTCTGGGCT
* * *
748636 AGGGGAATCGGTATCCATTCA
1 AGGGGAATCGATACCCACTCA
*
748657 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
748678 A
1 A
748679 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:749547 original size:103 final size:103
Alignment explanation
Indices: 749219--749539 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
749209 GTAGAGGGTC
*
749219 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGAGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
749284 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
749322 TATGTGGTCATTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
749387 TTGATCCTTGGTATATGTATATGATTCTTAATGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
749425 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
749490 TTGATCCTTGGCATATGTATATGGTTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
749528 TATGTGGTCCTT
1 TATGTGGTCCTT
749540 ATGGACATTA
Statistics
Matches: 208, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 208 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:749589 original size:23 final size:23
Alignment explanation
Indices: 749556--749618 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
749546 ATTATTATAT
*
749556 GGCACTACGGTGTAATTCTACAC
1 GGCACTACGGTGCAATTCTACAC
* **
749579 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACAC
749602 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
749619 ATATGAGCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACAC
Found at i:754705 original size:14 final size:13
Alignment explanation
Indices: 754672--754705 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
754662 TAAGGTTTTT
754672 CTAGTATTGATAC
1 CTAGTATTGATAC
754685 CTAGTATTGATAC
1 CTAGTATTGATAC
754698 CATAGTAT
1 C-TAGTAT
754706 GGTATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CTAGTATTGATAC
Found at i:755316 original size:19 final size:21
Alignment explanation
Indices: 755282--755330 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
755272 AATGATTTTC
*
755282 TTTTG-AAAACAAAAAT-AGA
1 TTTTGAAAAACAAAAATGAAA
755301 TTTTGAAAAAC-AAAATGAAA
1 TTTTGAAAAACAAAAATGAAA
*
755321 TTTTAAAAAA
1 TTTTGAAAAA
755331 TGATTTTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (21 bp):
TTTTGAAAAACAAAAATGAAA
Found at i:755323 original size:20 final size:20
Alignment explanation
Indices: 755282--755329 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
755272 AATGATTTTC
*
755282 TTTTG-AAAACAAAAATAGA
1 TTTTGAAAAACAAAAATAAA
755301 TTTTGAAAAAC-AAAATGAAA
1 TTTTGAAAAACAAAAAT-AAA
755321 TTTT-AAAAA
1 TTTTGAAAAA
755330 ATGATTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (20 bp):
TTTTGAAAAACAAAAATAAA
Found at i:758176 original size:22 final size:22
Alignment explanation
Indices: 758151--758204 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
758141 TCACATTCAA
758151 GCATAAGCATATAATAGGTGGT
1 GCATAAGCATATAATAGGTGGT
758173 GCATAAGCATATAATAGGTGGT
1 GCATAAGCATATAATAGGTGGT
758195 GCATAAGCAT
1 GCATAAGCAT
758205 GCTTGAAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (22 bp):
GCATAAGCATATAATAGGTGGT
Found at i:761139 original size:20 final size:20
Alignment explanation
Indices: 761103--761140 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
761093 ATCCTATTCC
**
761103 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
761123 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
761141 GTGAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:767278 original size:64 final size:63
Alignment explanation
Indices: 767210--767439 Score: 212
Period size: 64 Copynumber: 3.6 Consensus size: 63
767200 TTGGAACACT
* *** *
767210 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAACGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
767274 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * * *
767338 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAAT-TC
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATAGC
*
767401 A
63 C
* *
767402 TAGATGCATCGATGCATGGACTGATGCATCGGTGCATG
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCATG
767440 CCTTTGAATA
Statistics
Matches: 137, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
63 4 0.03
64 69 0.50
65 64 0.47
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:767362 original size:19 final size:19
Alignment explanation
Indices: 767338--767388 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
767328 GAAAATATTC
767338 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
767357 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
767376 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
767389 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:767364 original size:65 final size:65
Alignment explanation
Indices: 767231--767390 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
767221 TGCACCAAGT
* * ***
767231 GTGCATCGATGCATGAAACGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
767295 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
767359 A
65 A
* *
767360 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
767391 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:767430 original size:65 final size:66
Alignment explanation
Indices: 767232--767439 Score: 202
Period size: 65 Copynumber: 3.2 Consensus size: 66
767222 GCACCAAGTG
* * * *
767232 TGCATCGATGCATGAAACGCATTCGATGTTTGAAAA-A-T-AGCCTGATGCATCGATGCATGG-C
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAG--AGATGCATCGATGCATGGAC
767293 TTG-
64 -TGA
* * *
767296 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG-TGCATCGATGCATGGA--
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGATGCATCGATGCATGGACT
767358 GA
65 GA
* * *
767360 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATAGATGCATCGATGCATGGAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCAGAGATGCATCGATGCATGGAC
767423 TGA
64 TGA
767426 TGCATCGGTGCATG
1 TGCATCGGTGCATG
767440 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 9, Indels: 21
0.81 0.06 0.14
Matches are distributed among these distances:
62 3 0.02
63 10 0.08
64 42 0.34
65 62 0.50
66 4 0.03
67 1 0.01
68 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (66 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGATGCATCGATGCATGGACTG
A
Found at i:775990 original size:19 final size:19
Alignment explanation
Indices: 775966--776016 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
775956 GAAAATATTC
775966 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
775985 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
776004 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
776017 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:776058 original size:65 final size:65
Alignment explanation
Indices: 775860--776067 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 65
775850 CTTCCAAGTG
* * *
775860 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCT-GATGCATCGATTCATGG-CTT
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATAGATGCATCGATGCATGGAC-T
775923 G-
64 GA
* *
775924 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG-TGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATAGATGCATCGATGCATGGACT
775986 GA
64 GA
* * * *
775988 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATAGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCATAGATGCATCGATGCATGGACT
776052 GA
64 GA
*
776054 TGCATCGGTGCATG
1 TGCATCGATGCATG
776068 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 19
0.80 0.07 0.12
Matches are distributed among these distances:
63 12 0.10
64 44 0.36
65 62 0.50
66 5 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATAGATGCATCGATGCATGGACTGA
Found at i:777622 original size:39 final size:39
Alignment explanation
Indices: 777579--777657 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
777569 AAAAAATCTA
777579 TAATTAAAATTTTATATGAAGTTCAGAGATTAAATTTTT
1 TAATTAAAATTTTATATGAAGTTCAGAGATTAAATTTTT
*
777618 TAATTAAAATTTTATATGAAGTTCAGGGATTAAATTTTT
1 TAATTAAAATTTTATATGAAGTTCAGAGATTAAATTTTT
777657 T
1 T
777658 TTACCCTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (39 bp):
TAATTAAAATTTTATATGAAGTTCAGAGATTAAATTTTT
Found at i:777761 original size:36 final size:36
Alignment explanation
Indices: 777687--777761 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
777677 TTTTTATATT
*
777687 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* * *
777723 TTTAATTTTTTAAAGAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTAT-CAA
777759 TTT
1 TTT
777762 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:778498 original size:17 final size:17
Alignment explanation
Indices: 778472--778504 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
778462 TTTTGTTTTT
778472 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
778490 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
778505 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:778506 original size:17 final size:19
Alignment explanation
Indices: 778467--778506 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
778457 TAATATTTTG
*
778467 TTTTTAATTTATTTAAGTA
1 TTTTAAATTTATTTAAGTA
778486 -TTTAAATTT-TTTAA-TA
1 TTTTAAATTTATTTAAGTA
778502 TTTTA
1 TTTTA
778507 TTTAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.11
17 9 0.47
18 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTATTTAAGTA
Found at i:780702 original size:33 final size:34
Alignment explanation
Indices: 780648--780722 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
780638 CAATACTTAC
* *
780648 TTTATTTCATTAATTTGGTTGGA-TTTATT-TTAA
1 TTTATTTTATTAATATGGTTGGACTTT-TTGTTAA
780681 TTTATTTTATTAAATAT-GTTGGACTTTTTGTTAA
1 TTTATTTTATT-AATATGGTTGGACTTTTTGTTAA
*
780715 TATATTTT
1 TTTATTTT
780723 GGTTAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 18 0.50
34 18 0.50
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (34 bp):
TTTATTTTATTAATATGGTTGGACTTTTTGTTAA
Found at i:780811 original size:34 final size:34
Alignment explanation
Indices: 780730--780811 Score: 80
Period size: 34 Copynumber: 2.4 Consensus size: 34
780720 TTTGGTTAAT
780730 TTTGTTTA-TTACCATTTAATATCATTTATTGTAA
1 TTTGTTTATTTACCATTTAATATCA-TTATTGTAA
* *
780764 TTTTTTATCATTTATCATTTAATA-C-TTATTGTAA
1 TTTGTT-T-ATTTACCATTTAATATCATTATTGTAA
780798 GTTTGTTGTATTTA
1 -TTTGTT-TATTTA
780812 AAATTATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
34 19 0.47
35 7 0.17
36 2 0.05
37 12 0.30
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (34 bp):
TTTGTTTATTTACCATTTAATATCATTATTGTAA
Found at i:787567 original size:322 final size:318
Alignment explanation
Indices: 786931--787571 Score: 1246
Period size: 322 Copynumber: 2.0 Consensus size: 318
786921 AAGCGAAAAG
786931 AAGAGTCGCAAAGCTATGTTGAAGCTCGGGATGAAACCAATTCCAGGTGTTAGCCGAGTCACCGT
1 AAGAGTCGCAAAGCTATGTTGAAGCTCGGGATGAAACCAATTCCAGGTGTTAGCCGAGTCACCGT
786996 CAAGAAGAGCAAAAATGTCAGTCCCCTATCCATATTGTTAAACCGTTCATTACTTCCCTGCCTCG
66 CAAGAAGAGCAAAAATGTCAGTCCCCTATCCATATTGTTAAACCGTTCATTACTTCCCTGCCTCG
787061 TATGATGATAATGATTTTACCGTTGAATTCAGGTTTATTTATCATTCAAAGCCGGATGTCTTCAA
131 TATGATGATAATGATTTTACCGTTGAATTCAGGTTTATTTATCATTCAAAGCCGGATGTCTTCAA
787126 GAGCCCCACGTCAGATACCTATGTTATCTTTGGAGAGGCTAAGATTGAGGACTTGAGCTCACAAT
196 GAGCCCCACGTCAGATACCTATGTTATCTTTGGAGAGGCTAAGATTGAGGACTTGAGCTCACAAT
787191 TGCAGTCTCAGGCCGCCGAGCAATTTAAGGCACCTGATCTCAGCCACGTGGTATCTAA
261 TGCAGTCTCAGGCCGCCGAGCAATTTAAGGCACCTGATCTCAGCCACGTGGTATCTAA
787249 AAGAGTCGCAAAGCTATGTTGAAGCTCGGGATGAAACCAATTCCAGGTGTTAGCCGAGTCACCGT
1 AAGAGTCGCAAAGCTATGTTGAAGCTCGGGATGAAACCAATTCCAGGTGTTAGCCGAGTCACCGT
787314 CAAGAAGAGCAAAAATGTCAGTCCCCTATCCATATTGTTAAACCGTTCATTACTTCCCTGCCTCG
66 CAAGAAGAGCAAAAATGTCAGTCCCCTATCCATATTGTTAAACCGTTCATTACTTCCCTGCCTCG
787379 TATGATGATAACTGATTTTACCGTTTGAATTCAGGTCTTATTTATCATTTCAAAGCCGGATGTCT
131 TATGATGATAA-TGATTTTACCG-TTGAATTCAGGT-TTATTTATCA-TTCAAAGCCGGATGTCT
787444 TCAAGAGCCCCACGTCAGATACCTATGTTATCTTTGGAGAGGCTAAGATTGAGGACTTGAGCTCA
192 TCAAGAGCCCCACGTCAGATACCTATGTTATCTTTGGAGAGGCTAAGATTGAGGACTTGAGCTCA
787509 CAATTGCAGTCTCAGGCCGCCGAGCAATTTAAGGCACCTGATCTCAGCCACGTGGTATCTAA
257 CAATTGCAGTCTCAGGCCGCCGAGCAATTTAAGGCACCTGATCTCAGCCACGTGGTATCTAA
787571 A
1 A
787572 CCTGAGTTGT
Statistics
Matches: 319, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
318 141 0.44
319 11 0.03
320 12 0.04
321 10 0.03
322 145 0.45
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (318 bp):
AAGAGTCGCAAAGCTATGTTGAAGCTCGGGATGAAACCAATTCCAGGTGTTAGCCGAGTCACCGT
CAAGAAGAGCAAAAATGTCAGTCCCCTATCCATATTGTTAAACCGTTCATTACTTCCCTGCCTCG
TATGATGATAATGATTTTACCGTTGAATTCAGGTTTATTTATCATTCAAAGCCGGATGTCTTCAA
GAGCCCCACGTCAGATACCTATGTTATCTTTGGAGAGGCTAAGATTGAGGACTTGAGCTCACAAT
TGCAGTCTCAGGCCGCCGAGCAATTTAAGGCACCTGATCTCAGCCACGTGGTATCTAA
Found at i:792614 original size:199 final size:197
Alignment explanation
Indices: 792119--792617 Score: 530
Period size: 198 Copynumber: 2.5 Consensus size: 197
792109 TTTCTCATAA
** * *
792119 AACCGGTA-ATTTTAAACATGTTACATT-ATAAATTGACCTATTACATTAT-GTATATCGGTTTC
1 AACCGGTATATTTT-AACCGGTTACATTGA-AAATTTACCTATTACATTATAAT-TATCGGTTTC
* * *
792181 GAT-ATTTTCGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCAACTCGTTTGTG
63 GATGATTTT-GGGATCGATAC-TTTTATAAATGTATCGACACTTTATGCGTACAACTCGTTTGTC
* * * * *
792244 CTTTATTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTCGATACATAATGTAGACCTATTT
126 CTTCATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACATATTT
*
792309 GCTAATT
191 GCTAATG
* * * * * * **
792316 AATCGGTATATTTTAACCGATTACATTGTAAATTTACATGTTACATAATAATTATCAATTTCGAT
1 AACCGGTATATTTTAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGAT
* * *
792381 G-TTTCGAGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTACACCTCGTTTG-CCAT
66 GATTTTG-GGATCGATAC-TTTTATAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCC-T
* ** * *
792444 TCATTTTGGAAAAATGTATCGACACAAATTAAAAAAGTGTCGATATTTTATGTTGACATATTCT-
128 TCATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACATATT-TG
*
792508 CTCATG
192 CTAATG
* *
792514 AACCCGGTATATTTCT-ACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTCTCT
1 AA-CCGGTATATTT-TAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCG
*
792578 TTGATTTTGGGATCGATACTTGTTATAAATGTATCGACAC
64 ATGATTTTGGGATCGATACTT-TTATAAATGTATCGACAC
792618 AAAATCTAAT
Statistics
Matches: 247, Mismatches: 43, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
196 1 0.00
197 61 0.25
198 100 0.40
199 80 0.32
200 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (197 bp):
AACCGGTATATTTTAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGAT
GATTTTGGGATCGATACTTTTATAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCA
TTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACATATTTGCTAA
TG
Found at i:794508 original size:11 final size:11
Alignment explanation
Indices: 794492--794516 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
794482 AGGAAAGACG
794492 GGCTAATATAC
1 GGCTAATATAC
794503 GGCTAATATAC
1 GGCTAATATAC
794514 GGC
1 GGC
794517 GTTACCGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (11 bp):
GGCTAATATAC
Found at i:795027 original size:182 final size:182
Alignment explanation
Indices: 794673--796011 Score: 2006
Period size: 182 Copynumber: 7.4 Consensus size: 182
794663 TACAAATGAA
* * * * *
794673 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGATAAAACCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGA-AATGATAA
**
794737 AACCGGTAAACCGCTACCGGATA-ATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
*
794801 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAC
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
** * * *
794854 AAATGTATCGATCCATAATAATATAACACGTAATAATATGACAAAA-ACGGTGTC-ATTATGATA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACA-GGTCTCGA-AATGATA
** *
794917 AAACCGGTAAACCGCTACCGGATATATTGAAAGTTTCGATAAATTAATATAAGTATCGACACTTT
64 AAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTT
* *
794982 TGTAATTTAAAAGAGGAGAAGTTATAACGCCTAAAAAGTGTCGATACTTTATAC
129 TGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
795036 AAATGTATCGATCCATATCAATATAATAGGTAATTATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
*
795101 ACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
*
795166 TAATTTAAAAGAGAAGAAGTTATAACGCCTAAAAAGTGTCGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
795218 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGATAAAATAGGTCTTGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* *
795283 ACCGGTAAAAAGATACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
*
795348 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* *
795400 AAATGTATCGATCCATAGCAATATAACAAGTAATAATATGACAAAACAGGTATCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* * *
795465 ACCGGTAAAAAACTATCGGATATATTGAAAGTGTCGATAAATTAATATAATTATCGACACTTTT-
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
795529 TATATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGAT--TTTATAC
131 TA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* *
795579 -AATGTATCAATTCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
*
795643 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAATTATCGACACTTTT-
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
* * *
795707 T-ATATATAAA-AG-AGAAGTTATAGTGCCTAAAAAGTGTCGATATTTTATAC
131 TAATTTA-AAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
795757 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAAGTCTCAAAATGGTAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
* * * **
795822 ACTGGTAAAAAGCTACCGAATATATTGAAAGTGT-GATAAATTAATATAAGTATCGACACGTTCA
66 ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
*
795886 TAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTGTCGATACTTTATGA-
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* * * * * * * *
795938 AAATGTATGGATCTATAACAATATAATAGGTAAAAATATGACAAAACCGGTATCGAAATGACAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
796003 ACCGGTAAA
66 ACCGGTAAA
796012 GCGCTACCAG
Statistics
Matches: 1067, Mismatches: 76, Indels: 30
0.91 0.06 0.03
Matches are distributed among these distances:
175 15 0.01
176 18 0.02
177 3 0.00
178 156 0.15
179 102 0.10
180 6 0.01
181 188 0.18
182 577 0.54
183 2 0.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (182 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:797937 original size:22 final size:22
Alignment explanation
Indices: 797882--797941 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
797872 GAGTTGAAGA
*
797882 ATGT-TTTTTTTATATAAAATG
1 ATGTATTTTATTATATAAAATG
*
797903 ATGGTATAATTATTATATAAAATG
1 AT-GTAT-TTTATTATATAAAATG
797927 AT-TAATTTTATTATA
1 ATGT-ATTTTATTATA
797942 AATGAAGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 2 0.06
22 11 0.34
23 3 0.09
24 16 0.50
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (22 bp):
ATGTATTTTATTATATAAAATG
Found at i:798190 original size:9 final size:9
Alignment explanation
Indices: 798178--798210 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
798168 TCAAGGACGT
798178 AGAGGAGGC
1 AGAGGAGGC
*
798187 AGAGAAGGC
1 AGAGGAGGC
798196 AGAGGAGGC
1 AGAGGAGGC
798205 AGAGGA
1 AGAGGA
798211 TAGGGAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.52, T:0.00
Consensus pattern (9 bp):
AGAGGAGGC
Found at i:798646 original size:18 final size:18
Alignment explanation
Indices: 798623--798661 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
798613 GAGAAAATTT
798623 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
798641 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
798659 GAA
1 GAA
798662 ATAAGGAGAA
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:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:798985 original size:17 final size:17
Alignment explanation
Indices: 798963--799015 Score: 106
Period size: 17 Copynumber: 3.1 Consensus size: 17
798953 TTTAAATATT
798963 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
798980 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
798997 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
799014 TC
1 TC
799016 CTAATGATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:800130 original size:19 final size:19
Alignment explanation
Indices: 800106--800155 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
800096 AAATGTAGGG
*
800106 TTAATTTTGTATAAGTTTT
1 TTAATTTTGTATAAGATTT
*
800125 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
800144 ATAATTTTGTAT
1 TTAATTTTGTAT
800156 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.10, T:0.60
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:800816 original size:198 final size:198
Alignment explanation
Indices: 800297--801205 Score: 1430
Period size: 198 Copynumber: 4.6 Consensus size: 198
800287 CATTCCATGT
**
800297 ATACTTTGTGTCCAGAATGATTTCCTTACCAA-GTGCATGGA-AATGTGTCGATACATTTATAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT-CA-CCACAATGTGTCGATACATTTATAAA
800360 AAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAAC
64 AAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAAC
* * ** *
800425 AGGTCTAAATATACCAATTTATGAGAAAACATGTGTACATAAAGTATCGACACTTGTTT-AATTT
129 TGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTT-TTTGAATTT
800489 GTGTCG
193 GTGTCG
* * *
800495 ATCCCGTACTTTTTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACCTTTAT
1 A-----TACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCACAATGTGTCGATACATTTAT
*
800560 AAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCT
61 AAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCT
*
800625 AACTGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAAT
126 AACTGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTGAAT
800690 TTGTGTCG
191 TTGTGTCG
* *
800698 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACCTTTATAAAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCACAATGTGTCGATACATTTATAAAAA
*
800763 GTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCT
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAA-CT
* * * *
800828 -GTCTAAATACACCGGTTTATGAGAAAACATGTGTACATGAAGTATCGATACGTTTTGAATTTGT
130 GGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTGAATTTGT
800892 GTCG
195 GTCG
* * *
800896 ATACTTTATGTCCATAATGATTTCCTTACCAAGATCACCACAATGTGTCGATACATTTATAAAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCACAATGTGTCGATACATTTATAAAAA
* *
800961 GTATAGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACTG
* * *
801026 GTCTAAATAAACCGGTTTATGAGAAAATAGGTGTACATAAAGTATCGACACTTTTTGAATTTCTG
131 GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTGAATTTGTG
801091 TCG
196 TCG
* *
801094 ATACTTTGTGTCCTGAATGATTTCCTTACCAAGGTCACCACAATGTGTCGATACATTTGTAAAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCACAATGTGTCGATACATTTATAAAAA
* *
801159 GTATCGATCCAAAAAACATCTAGACCCATTATTATAATGTAATAGGT
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGT
801206 CATTTTGCAA
Statistics
Matches: 663, Mismatches: 38, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
197 1 0.00
198 476 0.72
199 2 0.00
202 4 0.01
203 178 0.27
204 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (198 bp):
ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCACAATGTGTCGATACATTTATAAAAA
GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACTG
GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTGAATTTGTG
TCG
Found at i:801615 original size:15 final size:15
Alignment explanation
Indices: 801595--801646 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
801585 AGAATCGGGG
801595 CTCTTCTCAACCCAT
1 CTCTTCTCAACCCAT
*
801610 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAT
*
801625 CTCTTCTTAACCCAT
1 CTCTTCTCAACCCAT
801640 CTCTTCT
1 CTCTTCT
801647 GAGGAAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.17, C:0.46, G:0.00, T:0.37
Consensus pattern (15 bp):
CTCTTCTCAACCCAT
Found at i:804166 original size:24 final size:24
Alignment explanation
Indices: 804115--804167 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
804105 TTTCATTTAT
* * *
804115 AATTAGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATGTA
804139 AATTTGAGTTTGAATTTAAATGTA
1 AATTTGAGTTTGAATTTAAATGTA
804163 AATTT
1 AATTT
804168 CGGCTTCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATGTA
Found at i:805070 original size:201 final size:201
Alignment explanation
Indices: 804537--805564 Score: 1206
Period size: 201 Copynumber: 5.1 Consensus size: 201
804527 ATGAATGTGA
* * * * *
804537 TTTATTCATTCGTGTCGATACATGT-TGTCCAGAATGTA-TTTCCAAACCAAGTGT-ACGAACAA
1 TTTATACATTTGTGTCGATAC-TTTATGTCCATAATGTATTTTCCAAA-CAAGT-TCACGAAAAA
* * *
804599 AGTGTCGATACATTTATAAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAA
63 AGTGTCGATACATTTAT-AACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* * * * *
804664 TAGGTAAAATAACAATGTAACCAGTCTAAATATACC-GGTTTATGAGAAAAGAGGTATACATAAA
127 TAGGTAACATAACAATGTAACCGGTCTAAATATACCAGTTTTATGAGAAAAAAGGTATACATAAT
804728 GTATCGACAC
192 GTATCGACAC
*
804738 TTTATACATTTGTGTCGATACTTTGTGTCCATAATGTATTTTCCAACCAAAACAAGTTCAC-AAA
1 TTTATACATTTGTGTCGATACTTTATGTCCATAATGTATTTT----CC-AAACAAGTTCACGAAA
* * * * * * *
804802 TAAGTGTCGACACATTTATATCAAGTATCGATCCTAAAAACATCGAAACCCGTAACTATAATGTA
61 AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
* * * * * * * *
804867 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTATCAGTTTTATGAGAAAATAGGTCTACA-AT
126 ATAGGTAACATAACAATGTAACCGGTCTAAATATACCAGTTTTATGAGAAAAAAGGTATACATA-
804931 ATGTATCGACAC
190 ATGTATCGACAC
* * * *
804943 TTTATTCATTTGTGTCGATACATGT-TGTCCAAAATGTA-TTTCCAAACCAAGTGCACGAAAAAA
1 TTTATACATTTGTGTCGATAC-TTTATGTCCATAATGTATTTTCCAAA-CAAGTTCACGAAAAAA
*
805006 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
64 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
805071 GGTAACATAACGATGTAACCGGTCTAAATATACCAGTTATTA--AAAAAGAAAGATATAAATAAT
129 GGTAACATAACAATGTAACCGGTCTAAATATACCAGTT-TTATGAGAAA-AAAGGTATACATAAT
* *
805134 GTATTGATAC
192 GTATCGACAC
* **
805144 TTTATACATTTGTGTCGACACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACG-AAAAAGT
1 TTTATACATTTGTGTCGATACTTTATGTCCATAATGTATTTTCCAAACAAGTTCACGAAAAAAGT
*
805208 GTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGG
66 GTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGG
* *
805273 TAACATAACAATGTAACCGGTCTAAACATACCGGTTATTA--A-AAAAAAGGTATACATAATGTA
131 TAACATAACAATGTAACCGGTCTAAATATACCAGTT-TTATGAGAAAAAAGGTATACATAATGTA
*
805335 TCGATAC
195 TCGACAC
* ** *
805342 TTTATACATTTGTGTCGACACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACG-AAAAAGA
1 TTTATACATTTGTGTCGATACTTTATGTCCATAATGTATTTTCCAAACAAGTTCACGAAAAAAGT
* * * *
805406 GTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGG
66 GTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGG
* * * * * * * * * *
805471 TAACTTTACAATGTAACCGGT-TTAATTTTCCGGTTTCATGAGAAAATAGGTCTACATAATGCAT
131 TAACATAACAATGTAACCGGTCTAAATATACCAGTTTTATGAGAAAAAAGGTATACATAATGTAT
805535 CGACAC
196 CGACAC
* *
805541 TTTTTAAATTTGTGTCGATACTTT
1 TTTATACATTTGTGTCGATACTTT
805565 TTAAATTTAC
Statistics
Matches: 722, Mismatches: 84, Indels: 44
0.85 0.10 0.05
Matches are distributed among these distances:
196 2 0.00
197 10 0.01
198 165 0.23
199 51 0.07
200 128 0.18
201 180 0.25
202 15 0.02
204 73 0.10
205 84 0.12
206 11 0.02
207 3 0.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (201 bp):
TTTATACATTTGTGTCGATACTTTATGTCCATAATGTATTTTCCAAACAAGTTCACGAAAAAAGT
GTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGG
TAACATAACAATGTAACCGGTCTAAATATACCAGTTTTATGAGAAAAAAGGTATACATAATGTAT
CGACAC
Found at i:805347 original size:22 final size:21
Alignment explanation
Indices: 805322--805367 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
805312 AAAAAAAAGG
*
805322 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
805344 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
805365 TAT
1 TAT
805368 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:805442 original size:198 final size:198
Alignment explanation
Indices: 804575--805564 Score: 1175
Period size: 198 Copynumber: 4.9 Consensus size: 198
804565 CCAGAATGTA
* *
804575 TTTCCAAACCAAGTGT-ACGAACAAAGTGTCGATACATTTATAAAAAAGTATCGATCCCAAAAAC
1 TTTCCAAA-CAAGT-TCACGAA-AAAGTGTCGATACATTTAT-AACAAGTGTCGATCCCAAAAAC
* * *
804639 ATCGAGACCCATAATTATAATGTAATAGGTAAAATAACAATGTAACCAGTCTAAATATACCGGTT
62 ATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGG-T
* * * * *
804704 TATGAGAAAAGAGGTATACATAAAGTATCGACACTTTATACATTTGTGTCGATACTTTGTGTCCA
126 TATTAAAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGATACTTTATGTCCA
**
804769 TAATGTAT
191 TAATAAAT
* * * *
804777 TTTCCAACCAAAACAAGTTCAC-AAATAAGTGTCGACACATTTATATCAAGTATCGATCCTAAAA
1 TTT----CC-AAACAAGTTCACGAAA-AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAA
* * * * * * * * *
804841 ACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTATCAG
60 ACATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGG
* * * *
804906 TT-TTATGAGAAAATAGGTCTACA-ATATGTATCGACACTTTATTCATTTGTGTCGATACATGT-
125 TTATTA--A-AAAAAAGGTATACATA-ATGTATCGACACTTTATACATTTGTGTCGATAC-TTTA
* **
804968 TGTCCAAAATGTA-
185 TGTCCATAATAAAT
*
804981 TTTCCAAACCAAGTGCACGAAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACAT
1 TTTCCAAA-CAAGTTCACG-AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACAT
* * *
805046 CGAAACACATAATTATAATGTAATAGGTAACATAACGATGTAACCGGTCTAAATATACCAGTTAT
64 CGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTAT
* * * * *
805111 TAAAAAAGAAAGATATAAATAATGTATTGATACTTTATACATTTGTGTCGACACTTTATGTCCAT
129 T-AAAAA-AAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGATACTTTATGTCCAT
805176 AATAAAT
192 AATAAAT
805183 TTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCG
1 TTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCG
* *
805248 AAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAACATACCGGTTATTA
66 AAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATTA
* *
805313 AAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACACTTTATGTCCATAATA
131 AAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGATACTTTATGTCCATAATA
805378 AAT
196 AAT
* * * *
805381 TTTCCAAACAAGTTCACGAAAAAGAGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCG
1 TTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCG
* * * * * *
805446 AAACCCGTAATTATAATGTAATAGGTAACTTTACAATGTAACCGGT-TTAATTTTCCGGTTTCAT
66 AAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGG-TT-AT
* * * * * * *
805510 GAGAAAATAGGTCTACATAATGCATCGACACTTTTTAAATTTGTGTCGATACTTT
129 TAAAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGATACTTT
805565 TTAAATTTAC
Statistics
Matches: 686, Mismatches: 79, Indels: 49
0.84 0.10 0.06
Matches are distributed among these distances:
197 8 0.01
198 166 0.24
199 56 0.08
200 123 0.18
201 147 0.21
202 19 0.03
203 3 0.00
204 75 0.11
205 75 0.11
206 11 0.02
207 3 0.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (198 bp):
TTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCG
AAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATTA
AAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGATACTTTATGTCCATAATA
AAT
Found at i:809305 original size:87 final size:87
Alignment explanation
Indices: 809206--809368 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
809196 AAATAGGTAA
* *
809206 ATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
809271 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
809293 ATATAAGCGCTACCTATTACATTATATAAGCGCTACTTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
809358 TCGGTTAAATG
66 CCGGTTAAATG
809369 ATATAATATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:809340 original size:23 final size:23
Alignment explanation
Indices: 809290--809334 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
809280 TGCCTATTTT
*
809290 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
809313 ATTATATAAGCGCTACTTAATA
1 ATTATATAAGCGCTACCTAATA
809335 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:813744 original size:22 final size:22
Alignment explanation
Indices: 813687--813745 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
813677 ACACGATTCT
813687 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * *
813709 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
813730 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
813746 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:813866 original size:20 final size:20
Alignment explanation
Indices: 813754--813860 Score: 151
Period size: 20 Copynumber: 5.3 Consensus size: 20
813744 GAATATGTAA
* *
813754 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
813774 ACCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
813794 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
813814 ATCGCAACGCAATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
813834 GTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
813854 ATCGCAA
1 ATCGCAA
813861 TACGATTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:814069 original size:22 final size:22
Alignment explanation
Indices: 814044--814085 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
814034 GCGACATTCA
814044 TCCCCATCTCCGACGAAATCAG
1 TCCCCATCTCCGACGAAATCAG
*
814066 TCCCCATCTCCGGCGAAATC
1 TCCCCATCTCCGACGAAATC
814086 CGTCTATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.43, G:0.14, T:0.19
Consensus pattern (22 bp):
TCCCCATCTCCGACGAAATCAG
Found at i:814560 original size:20 final size:20
Alignment explanation
Indices: 814471--814577 Score: 101
Period size: 20 Copynumber: 5.5 Consensus size: 20
814461 AGAATCACAA
*
814471 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
*
814490 TGTGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** **
814509 TGCGATAATCAAATTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
814529 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
* *
814549 TGCGATTTTCATTTTAGTGT
1 TGCGATTTTCATTTTCGCGT
814569 TGCGATTTT
1 TGCGATTTT
814578 AAGTTTCATA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
19 24 0.32
20 50 0.68
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.47
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:816330 original size:18 final size:18
Alignment explanation
Indices: 816307--816357 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
816297 TTTACTCGTA
*
816307 ATTTCACTTAGATTAACT
1 ATTTCACTTAGATTAACC
816325 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
816343 ATTTCACTTAGATTA
1 ATTTCACTTAGATTA
816358 CTTAGTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:816531 original size:20 final size:20
Alignment explanation
Indices: 816504--816571 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
816494 TAGTTTACTT
*
816504 TCGCAACGTGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
816524 TTGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* **
816544 TCGCAACACGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
816564 TCGCAACG
1 TCGCAACG
816572 AAAGAATCGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:816600 original size:19 final size:19
Alignment explanation
Indices: 816576--816626 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
816566 GCAACGAAAG
*
816576 AATCGCAATGCGAAATGAA
1 AATCGCAATACGAAATGAA
*
816595 AATCGCATTACGAAATGAA
1 AATCGCAATACGAAATGAA
*
816614 AATCGCATTACGA
1 AATCGCAATACGA
816627 TTCTCTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.20
Consensus pattern (19 bp):
AATCGCAATACGAAATGAA
Found at i:816664 original size:20 final size:20
Alignment explanation
Indices: 816635--816699 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
816625 GATTCTCTCA
816635 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* **
816655 TTGTGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCG
*
816675 TTGCGATAGTC--ATTCGTG
1 TTGCGATAGTCAAATTCGCG
816693 TTGCGAT
1 TTGCGAT
816700 TTTAAGTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 12 0.31
20 27 0.69
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:817231 original size:18 final size:20
Alignment explanation
Indices: 817193--817234 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
817183 CTCACCTGTC
817193 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-CTCCCCT
817214 ATCGTTCAAGA-G-TCCCCT
1 ATCGTTCAAGAGGCTCCCCT
817232 ATC
1 ATC
817235 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
20 1 0.05
21 11 0.52
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGTTCAAGAGGCTCCCCT
Found at i:817264 original size:21 final size:22
Alignment explanation
Indices: 817216--817293 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 22
817206 CCTCCCCTAT
817216 CGTTCAAGAGTCCCCTATCATC
1 CGTTCAAGAGTCCCCTATCATC
* *
817238 C-CTCAAGAGTCCCCTCTCA-C
1 CGTTCAAGAGTCCCCTATCATC
* * *
817258 CGTTCAAGAGGCCACTGTCAT-
1 CGTTCAAGAGTCCCCTATCATC
*
817279 CGTTGAAGAGGTCCC
1 CGTTCAAGA-GTCCC
817294 TCCCAACATT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.05
21 38 0.86
22 4 0.09
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
CGTTCAAGAGTCCCCTATCATC
Found at i:817288 original size:42 final size:41
Alignment explanation
Indices: 817188--817293 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 41
817178 CCCGACTCAC
* * * *
817188 CTGTCATCGTTCAAGAGGCCTCCCCTATCGTTCAAGAGTCCC
1 CTGTCATCGTTCAAGAGTCC-CCCCTACCGTTCAAGAGGCCA
* ** *
817230 CTATCATCCCTCAAGAGTCCCCTCTCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCCCT-ACCGTTCAAGAGGCCA
*
817272 CTGTCATCGTTGAAGAGGTCCC
1 CTGTCATCGTTCAAGA-GTCCC
817294 TCCCAACATT
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 4 0.08
42 41 0.82
43 5 0.10
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.25
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGTCCCCCCTACCGTTCAAGAGGCCA
Found at i:818718 original size:14 final size:14
Alignment explanation
Indices: 818699--818737 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
818689 TTGCTTGTTT
818699 AATTGATTTATAAA
1 AATTGATTTATAAA
*
818713 AATTGATTTGTAAA
1 AATTGATTTATAAA
*
818727 AGTTGATTTAT
1 AATTGATTTAT
818738 TTAATATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (14 bp):
AATTGATTTATAAA
Found at i:818736 original size:28 final size:29
Alignment explanation
Indices: 818701--818755 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
818691 GCTTGTTTAA
*
818701 TTGATTTA-TAAAAATTGATTTGTAAAAG
1 TTGATTTATTAAAAATTGATGTGTAAAAG
* *
818729 TTGATTTATTTAATATTGATGTGTAAA
1 TTGATTTATTAAAAATTGATGTGTAAA
818756 TAATTCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (29 bp):
TTGATTTATTAAAAATTGATGTGTAAAAG
Found at i:818897 original size:20 final size:20
Alignment explanation
Indices: 818859--818904 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
818849 AGGTACACTT
*
818859 TCGCAATGCTAAACTCAAAA
1 TCGCAATGCGAAACTCAAAA
*
818879 TTGCAATGCGAAAGC-CAAAA
1 TCGCAATGCGAAA-CTCAAAA
818899 TCGCAA
1 TCGCAA
818905 CGCGGAAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.17
Consensus pattern (20 bp):
TCGCAATGCGAAACTCAAAA
Found at i:818964 original size:34 final size:34
Alignment explanation
Indices: 818921--819057 Score: 148
Period size: 34 Copynumber: 3.9 Consensus size: 34
818911 AGTCAATTCG
* *
818921 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACGCATTGCGATTTTCT
* *
818955 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACGCATTGCGATTTTCT
* * *
818989 CGTTGTGATAGTCAAATACCCATTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATACGCATTGCGAT--T----TTCT
*
819029 CGTTGCGATAGTCAAATTCGCATTGCGAT
1 CGTTGCGATAGTCAAATACGCATTGCGAT
819058 AGACAAATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
34 56 0.65
36 1 0.01
40 29 0.34
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATACGCATTGCGATTTTCT
Found at i:818980 original size:20 final size:20
Alignment explanation
Indices: 818911--819193 Score: 211
Period size: 20 Copynumber: 15.4 Consensus size: 20
818901 GCAACGCGGA
818911 AGTC-AATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
* * *
818930 AGTCTAATACGCTTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
*
818950 --T----TTCTCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
818964 AGTCAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
* *
818984 --T----TTCTCGTTGTGAT
1 AGTCAAATTCGCGTTGCGAT
* * *
818998 AGTCAAATACCCATTGCGAT
1 AGTCAAATTCGCGTTGCGAT
*
819018 AATCAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
*
819038 AGTCAAATTCGCATTGCGAT
1 AGTCAAATTCGCGTTGCGAT
*
819058 AGACAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
*
819078 --T----TTTGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
* *
819092 AGTCATATTCGTGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
819112 AGTCAAATTCGCGTTGC-A-
1 AGTCAAATTCGCGTTGCGAT
* * *
819130 A-T---TTTTGAGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
*
819146 AATCAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
819166 AGTCAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
*
819186 ATTCAAAT
1 AGTCAAAT
819194 GAATGTGTAA
Statistics
Matches: 205, Mismatches: 34, Indels: 49
0.71 0.12 0.17
Matches are distributed among these distances:
14 41 0.20
15 1 0.00
16 4 0.02
17 2 0.01
18 3 0.01
19 5 0.02
20 149 0.73
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (20 bp):
AGTCAAATTCGCGTTGCGAT
Found at i:819066 original size:94 final size:94
Alignment explanation
Indices: 818957--819128 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
818947 GATTTTCTCG
* *
818957 TTGCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGTGATAGTCAAATACCCATTGCGATAAT
1 TTGCGATAGACAAATTCGCGTTGCGATTTT-TGCGTTGCGATAGTCAAATACCCATTGCGATAAT
819021 CAAATTCGCGTTGCGATAGTCAAATTCGCA
65 CAAATTCGCGTTGCGATAGTCAAATTCGCA
* * *** *
819051 TTGCGATAGACAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCATATTCGTGTTGCGATAGTC
1 TTGCGATAGACAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCAAATACCCATTGCGATAATC
819116 AAATTCGCGTTGC
66 AAATTCGCGTTGC
819129 AATTTTTGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 1 0.01
94 68 0.99
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (94 bp):
TTGCGATAGACAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCAAATACCCATTGCGATAATC
AAATTCGCGTTGCGATAGTCAAATTCGCA
Found at i:819086 original size:54 final size:54
Alignment explanation
Indices: 819028--819185 Score: 253
Period size: 54 Copynumber: 2.9 Consensus size: 54
819018 AATCAAATTC
* *
819028 GCGTTGCGATAGTCAAATTCGCATTGCGATAGACAAATTCGCGTTGCGATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
* * *
819082 GCGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCAATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
* *
819136 GAGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
819186 ATTCAAATGA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (54 bp):
GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
Found at i:819102 original size:128 final size:128
Alignment explanation
Indices: 818911--819186 Score: 326
Period size: 128 Copynumber: 2.2 Consensus size: 128
818901 GCAACGCGGA
* * *
818911 AGTC-AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATTCG
1 AGTCAAATTCGCGTTGCGATAGACAAATACGCGTTGCGATTTTCTCGTTGCGATAGTCAAATTCG
** *** *
818975 CGTTGCGATTTTCTCGTT-GTGATAGTCAAATACCCA-TTGCGATAATCAAATTCGCGTTGCGAT
66 CGTTGCGATAGTCAAATTCGCG-TAG-CAAATACCCAGTTGCGATAATCAAATTCGCGTTGCGAT
* * *
819038 AGTCAAATTCGCATTGCGATAGACAAATTCGCGTTGCGATTTT-TGCGTTGCGATAGTCATATTC
1 AGTCAAATTCGCGTTGCGATAGACAAATACGCGTTGCGATTTTCT-CGTTGCGATAGTCAAATTC
* * * ****
819102 GTGTTGCGATAGTCAAATTCGCGTTGCAATTTTTGAGTTGCGATAATCAAATTCGCGTTGCGAT
65 GCGTTGCGATAGTCAAATTCGCGTAGCAAATACCCAGTTGCGATAATCAAATTCGCGTTGCGAT
819166 AGTCAAATTCGCGTTGCGATA
1 AGTCAAATTCGCGTTGCGATA
819187 TTCAAATGAA
Statistics
Matches: 125, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
127 10 0.08
128 113 0.90
129 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (128 bp):
AGTCAAATTCGCGTTGCGATAGACAAATACGCGTTGCGATTTTCTCGTTGCGATAGTCAAATTCG
CGTTGCGATAGTCAAATTCGCGTAGCAAATACCCAGTTGCGATAATCAAATTCGCGTTGCGAT
Found at i:819364 original size:12 final size:12
Alignment explanation
Indices: 819349--819391 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
819339 AAGCCGGTTG
*
819349 TGATTGGGATTT
1 TGATTGCGATTT
**
819361 TGATTTTGATTT
1 TGATTGCGATTT
819373 TGATTGCGATTT
1 TGATTGCGATTT
819385 TGATTGC
1 TGATTGC
819392 CTTTTTCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:819365 original size:6 final size:6
Alignment explanation
Indices: 819356--819389 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
819346 TTGTGATTGG
**
819356 GATTTT GATTTT GATTTT GATTGC GATTTT GATT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATT
819390 GCCTTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.59
Consensus pattern (6 bp):
GATTTT
Found at i:821419 original size:14 final size:14
Alignment explanation
Indices: 821400--821436 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
821390 TCCTATGGCA
821400 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
821414 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
821428 TTCTTCTTC
1 TT-TTCTTC
821437 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:821654 original size:24 final size:24
Alignment explanation
Indices: 821620--821673 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
821610 CTGAAACATC
*
821620 ATCAAAATCCGAGTATTTACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
821644 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
821668 ATCAAA
1 ATCAAA
821674 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:822507 original size:20 final size:20
Alignment explanation
Indices: 822481--822568 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
822471 GAAATTCAGT
*
822481 ATTGCGACAGTCAGAATCGC
1 ATTGCGATAGTCAGAATCGC
* *
822501 GTTGCGATAGTTAGAATCGC
1 ATTGCGATAGTCAGAATCGC
* *
822521 GTTGCGATAGTTAGAATCGC
1 ATTGCGATAGTCAGAATCGC
*
822541 ATTGCGATAGTCATAATCGC
1 ATTGCGATAGTCAGAATCGC
822561 ATTGCGAT
1 ATTGCGAT
822569 TTACATATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCGC
Found at i:822575 original size:20 final size:20
Alignment explanation
Indices: 822535--822608 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
822525 CGATAGTTAG
*
822535 AATCGCATTGCGATAGT-CAT
1 AATCGCATTGCGAT-TTACAT
822555 AATCGCATTGCGATTTACAT
1 AATCGCATTGCGATTTACAT
* *
822575 ATTCGCATTGCAATTTACAT
1 AATCGCATTGCGATTTACAT
*
822595 ATTCGCATTGCGAT
1 AATCGCATTGCGAT
822609 AGTCGGAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 1 0.02
20 48 0.98
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (20 bp):
AATCGCATTGCGATTTACAT
Found at i:822581 original size:40 final size:39
Alignment explanation
Indices: 822495--822609 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 39
822485 CGACAGTCAG
* * * * *
822495 AATCGCGTTGCGATAGTTAGAATCGCGTTGCGATAGTTAG
1 AATCGCATTGCGATAGTCATAATCGCATTGCGATA-TTAC
822535 AATCGCATTGCGATAGTCATAATCGCATTGCGAT-TTAC
1 AATCGCATTGCGATAGTCATAATCGCATTGCGATATTAC
* * *
822573 ATATTCGCATTGCAAT-TTACATATTCGCATTGCGATA
1 A-A-TCGCATTGCGATAGT-CATAATCGCATTGCGATA
822610 GTCGGAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
38 4 0.06
39 2 0.03
40 57 0.90
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (39 bp):
AATCGCATTGCGATAGTCATAATCGCATTGCGATATTAC
Found at i:822722 original size:19 final size:19
Alignment explanation
Indices: 822698--822734 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
822688 CGATACCGGA
*
822698 GATCGCGTTGCGAATTATC
1 GATCGCATTGCGAATTATC
*
822717 GATCGCATTGCGATTTAT
1 GATCGCATTGCGAATTAT
822735 TTGGTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (19 bp):
GATCGCATTGCGAATTATC
Found at i:829460 original size:16 final size:17
Alignment explanation
Indices: 829428--829461 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
829418 AGAATAAAAT
*
829428 AATATTATACTATTAAA
1 AATATTATACAATTAAA
829445 AATATT-TACAATTAAA
1 AATATTATACAATTAAA
829461 A
1 A
829462 TTAAAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATTATACAATTAAA
Found at i:829840 original size:18 final size:19
Alignment explanation
Indices: 829803--829842 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
829793 AGAAAAACGA
*
829803 TTTTAGCCTAAAATGTTAT
1 TTTTAGCCTAAAATGATAT
829822 TTTTAGCCTAAAAT-ATAT
1 TTTTAGCCTAAAATGATAT
829840 TTT
1 TTT
829843 GGTGTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTTAGCCTAAAATGATAT
Found at i:831507 original size:21 final size:22
Alignment explanation
Indices: 831483--831531 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
831473 ACCGAAGTGT
831483 CACATAA-TTGT-CTCGAAGGAC
1 CACATAATTTGTCCT-GAAGGAC
831504 CACATAATTTGTCCTGAAGGAC
1 CACATAATTTGTCCTGAAGGAC
*
831526 AACATA
1 CACATA
831532 GAACCCTCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 16 0.64
23 2 0.08
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (22 bp):
CACATAATTTGTCCTGAAGGAC
Found at i:831741 original size:14 final size:13
Alignment explanation
Indices: 831723--831777 Score: 67
Period size: 14 Copynumber: 4.1 Consensus size: 13
831713 TCAAAACATA
831723 ACTTAAATAATAT
1 ACTTAAATAATAT
831736 AGCTTAAATAATAT
1 A-CTTAAATAATAT
*
831750 AACTTAAATAAAAT
1 -ACTTAAATAATAT
831764 ACTATAAA-AATAT
1 ACT-TAAATAATAT
831777 A
1 A
831778 AACTAAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 9 0.24
14 27 0.73
15 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (13 bp):
ACTTAAATAATAT
Found at i:831781 original size:28 final size:28
Alignment explanation
Indices: 831720--831778 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
831710 ACATCAAAAC
*
831720 ATAACTTAAATAATATAGCTTAAATAAT
1 ATAACTTAAATAAAATAGCTTAAATAAT
831748 ATAACTTAAATAAAATA-CTATAAA-AAT
1 ATAACTTAAATAAAATAGCT-TAAATAAT
831775 ATAA
1 ATAA
831779 ACTAAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAACTTAAATAAAATAGCTTAAATAAT
Found at i:832715 original size:21 final size:22
Alignment explanation
Indices: 832691--832739 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
832681 ACCGAAGTGT
832691 CACATAA-TTGT-CTCGAAGGAC
1 CACATAATTTGTCCT-GAAGGAC
832712 CACATAATTTGTCCTGAAGGAC
1 CACATAATTTGTCCTGAAGGAC
832734 CACATA
1 CACATA
832740 GAACCCTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.27
22 17 0.65
23 2 0.08
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (22 bp):
CACATAATTTGTCCTGAAGGAC
Found at i:832951 original size:14 final size:14
Alignment explanation
Indices: 832934--832991 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
832924 ACATCAAAAC
832934 ATAGCTTAAATAAT
1 ATAGCTTAAATAAT
832948 ATAGCTTAAATAAT
1 ATAGCTTAAATAAT
* *
832962 ATAACTTAAATAAA
1 ATAGCTTAAATAAT
832976 ATA-CTATAAA-AAT
1 ATAGCT-TAAATAAT
832989 ATA
1 ATA
832992 AACTAAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
13 7 0.17
14 33 0.82
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAGCTTAAATAAT
Found at i:838105 original size:22 final size:23
Alignment explanation
Indices: 838050--838106 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
838040 CATATCTTCT
838050 TATCACTTTTCATATAAACATGTG
1 TATCAC-TTTCATATAAACATGTG
* *
838074 TTTCAC-TTCATATACACATGTG
1 TATCACTTTCATATAAACATGTG
838096 -ATCACTTTCAT
1 TATCACTTTCAT
838107 TATTTCACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.14
22 20 0.69
24 5 0.17
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (23 bp):
TATCACTTTCATATAAACATGTG
Found at i:844612 original size:23 final size:23
Alignment explanation
Indices: 844586--844630 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
844576 CAACACAGCT
* *
844586 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTACACCGAAGTGCCG
*
844609 CGTAGAATTACACCGTAGTGCC
1 CGTAGAATTACACCGAAGTGCC
844631 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCG
Found at i:845461 original size:2 final size:2
Alignment explanation
Indices: 845454--845487 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
845444 TCTCTTAGAC
845454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
845488 TCACATGTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:846425 original size:19 final size:19
Alignment explanation
Indices: 846401--846451 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
846391 TTTAATGGGG
846401 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
846420 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
846439 ATGCATCGATGCA
1 ATGCATCGATGCA
846452 TAAATCCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:846488 original size:83 final size:82
Alignment explanation
Indices: 846356--846516 Score: 225
Period size: 83 Copynumber: 1.9 Consensus size: 82
846346 GTACTACACC
* * * *
846356 ATGCATCGATGTATAAATCCTATTCGATGTTTGTATTTAATGGGGATGCATCGATGCACTCCTTA
1 ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGCATGCATCGATGCACTCCATA
846421 TGCATCGATGCACTCCTT
65 TGCATCGATGCACTCCTT
* *
846439 ATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT-TCATGCATCGATGCACTGCAT
1 ATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGCATGCATCGATGCACTCCAT
*
846503 GTGCATCGATGCAC
64 ATGCATCGATGCAC
846517 CTTAAACAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
83 58 0.84
84 8 0.12
85 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (82 bp):
ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGCATGCATCGATGCACTCCATAT
GCATCGATGCACTCCTT
Found at i:847972 original size:20 final size:18
Alignment explanation
Indices: 847925--847997 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
847915 ACTGAATATT
*
847925 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
847943 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
847962 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
847981 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
847998 CTTTAAGAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 2 0.04
20 15 0.31
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:852169 original size:19 final size:19
Alignment explanation
Indices: 852145--852181 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
852135 GAATGCATTT
852145 CATGCACCGATGCACTCTC
1 CATGCACCGATGCACTCTC
*
852164 CATGCATCGATGCACTCT
1 CATGCACCGATGCACTCT
852182 GAATATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (19 bp):
CATGCACCGATGCACTCTC
Found at i:852198 original size:65 final size:64
Alignment explanation
Indices: 852099--852289 Score: 228
Period size: 65 Copynumber: 3.0 Consensus size: 64
852089 ATGCATCAGT
* * * * **
852099 CCATGCATCGATGCATCTATGA-ATTAATT-GAACATCGAATGCATTTCATGCACCGATGCACTC
1 CCATGCATCGATGCA-CCATGATATT-TTTCAAACATCGAATGCATTTCATGCATCGATGCACAA
*
852162 T
64 G
*
852163 CCATGCATCGATGCACTC-TGA-ATATTTTCAAAACATCGAATGCATTTGATGCATCGATGCACA
1 CCATGCATCGATGCAC-CATGATAT-TTTTC-AAACATCGAATGCATTTCATGCATCGATGCACA
852226 AG
63 AG
*
852228 CCATGCATCGATGCACCATGCTATTTTTCAAACATCGAATGCATTTCATGCATCGATGCACA
1 CCATGCATCGATGCACCATGATATTTTTCAAACATCGAATGCATTTCATGCATCGATGCACA
852290 CTTGGTGCAC
Statistics
Matches: 111, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
63 8 0.07
64 49 0.44
65 52 0.47
66 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (64 bp):
CCATGCATCGATGCACCATGATATTTTTCAAACATCGAATGCATTTCATGCATCGATGCACAAG
Found at i:852306 original size:64 final size:65
Alignment explanation
Indices: 852129--852291 Score: 233
Period size: 65 Copynumber: 2.5 Consensus size: 65
852119 GAATTAATTG
* *
852129 AACATCGAATGCATTTCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
* ** *
852194 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CATG-CTATTTTTC
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTC-TGAATA-TTTTC
852257 -A
64 AA
852258 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
852292 TGGTGCACCG
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 35 0.40
65 52 0.60
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
Found at i:853074 original size:22 final size:22
Alignment explanation
Indices: 853016--853131 Score: 94
Period size: 22 Copynumber: 5.2 Consensus size: 22
853006 ACTCAACACG
853016 CATAATTTG-CACCGAAGTG-CCA
1 CATAATTTGTC-CCGAAG-GACCA
** *
853038 CATAA-TTGTTTCGAATGACCA
1 CATAATTTGTCCCGAAGGACCA
* *
853059 CATAATTTGTCGCGAAGGATCA
1 CATAATTTGTCCCGAAGGACCA
*
853081 CATAGGTTTTGTCCCGAAGGACCA
1 CATA--ATTTGTCCCGAAGGACCA
* * *
853105 CATATTTTGTCCCAAATGACCA
1 CATAATTTGTCCCGAAGGACCA
853127 CATAA
1 CATAA
853132 AATCCTCGAC
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.01
21 15 0.20
22 41 0.54
24 19 0.25
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (22 bp):
CATAATTTGTCCCGAAGGACCA
Found at i:857081 original size:19 final size:18
Alignment explanation
Indices: 857051--857138 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 18
857041 AAGAAATATT
857051 AATAAA-ATATAATAAAATTA
1 AATAAAGATA-AAT-AAA-TA
857071 AATAAAGATAAATAAATA
1 AATAAAGATAAATAAATA
* *
857089 AATAAATA-AAATAATTA
1 AATAAAGATAAATAAATA
* * *
857106 AACAGAGGTAAATAAATA
1 AATAAAGATAAATAAATA
**
857124 CCTAAA-ATAAATAAA
1 AATAAAGATAAATAAA
857139 AAGGACCTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
17 20 0.37
18 19 0.35
19 3 0.06
20 9 0.17
21 3 0.06
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAAAGATAAATAAATA
Found at i:857107 original size:9 final size:9
Alignment explanation
Indices: 857051--857098 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 9
857041 AAGAAATATT
857051 AATAAAATA
1 AATAAAATA
857060 TAATAAAATTA
1 -AATAAAA-TA
857071 AATAAAGATA
1 AATAAA-ATA
857081 AAT-AAATA
1 AATAAAATA
857089 AAT-AAATA
1 AATAAAATA
857097 AA
1 AA
857099 ATAATTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 13 0.36
9 2 0.06
10 18 0.50
11 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (9 bp):
AATAAAATA
Found at i:864408 original size:4 final size:4
Alignment explanation
Indices: 864371--864468 Score: 51
Period size: 4 Copynumber: 23.2 Consensus size: 4
864361 AATAGCTACG
* *
864371 ATAA ATAA A-AA TATAAA ATAAA ATAA ACAA ATAA ATAA ATAA ATAG ATCAA
1 ATAA ATAA ATAA -AT-AA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA
* *
864422 GAGTAA ATAA A-AGA ATAA A-ATA ATAA ATTAA AAAA ATGA A-AA ATAA
1 -A-TAA ATAA ATA-A ATAA ATA-A ATAA A-TAA ATAA ATAA ATAA ATAA
864468 A
1 A
864469 AATAAAAGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
3 6 0.08
4 47 0.64
5 15 0.20
6 5 0.07
7 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:864639 original size:17 final size:19
Alignment explanation
Indices: 864612--864659 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
864602 TAGAAGCAAT
*
864612 AAAATAAAATAAT-ACGAG
1 AAAACAAAATAATGACGAG
*
864630 AAAA-AAAATAATGACGAT
1 AAAACAAAATAATGACGAG
864648 AAAACAAAATAA
1 AAAACAAAATAA
864660 AATAAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.30
18 12 0.44
19 7 0.26
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (19 bp):
AAAACAAAATAATGACGAG
Found at i:865761 original size:3 final size:3
Alignment explanation
Indices: 865753--865789 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
865743 AAAAATGAAA
865753 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
865790 TATATACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:866021 original size:36 final size:36
Alignment explanation
Indices: 865799--866224 Score: 231
Period size: 36 Copynumber: 11.2 Consensus size: 36
865789 ATATATACAT
* * *
865799 AAATATTTTCAAAAA-CATATAATATATAAATTTTCA
1 AAATGTTTTCAAAAATTATAT-ATATATAAGTTTTCA
*** * *
865835 AAATGTTTTTTTTAAACTATATAATATACGAATGTTTTCA
1 AAATG-TTTTCAAAAATTATAT-ATATA-TAA-GTTTTCA
*
865875 ACATGTTTTC-AAAA--ATAT-TATATAAGTTTTCAAA
1 AAATGTTTTCAAAAATTATATATATATAAGTTTTC--A
* *
865909 AAACGTTTT-AAAAACTATATAATATATAAATGTTTTCAA
1 AAATGTTTTCAAAAATTATAT-ATATAT-AA-GTTTTC-A
* *
865948 AAATATTTTC-AAAACTATA-ATATAT--GTGTTTCAA
1 AAATGTTTTCAAAAATTATATATATATAAGT-TTTC-A
865982 AAATGTTTTCAAAAATTATATATATATAAGTTTTCA
1 AAATGTTTTCAAAAATTATATATATATAAGTTTTCA
*
866018 AAATGATTTT-AAAAATTATATATTATATATAGTTTTAA
1 AAATG-TTTTCAAAAATTATATA-TATATA-AGTTTTCA
866056 AAATAAGTTTTCAAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAA
1 AAAT--GTTTTC-AAAAA-----T------TATAT-ATATAT-AA-GTTTTC-A
* *
866110 AAATATTTTC-AAAACTATA-ATATAT--GTGTTTCAA
1 AAATGTTTTCAAAAATTATATATATATAAGT-TTTC-A
866144 AAATGTTTTCAAAAATTATATATATATAAGTTTTCA
1 AAATGTTTTCAAAAATTATATATATATAAGTTTTCA
866180 AAATGATTTT-AAAAATTATATATTATATATA-TTTT-A
1 AAATG-TTTTCAAAAATTATATA-TATATA-AGTTTTCA
866216 AAATGTTTT
1 AAATGTTTT
866225 TTTTTAAAAC
Statistics
Matches: 318, Mismatches: 23, Indels: 99
0.72 0.05 0.22
Matches are distributed among these distances:
32 6 0.02
33 6 0.02
34 46 0.14
35 20 0.06
36 66 0.21
37 51 0.16
38 34 0.11
39 34 0.11
40 17 0.05
41 5 0.02
46 1 0.00
50 4 0.01
52 16 0.05
53 7 0.02
54 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (36 bp):
AAATGTTTTCAAAAATTATATATATATAAGTTTTCA
Found at i:866074 original size:162 final size:161
Alignment explanation
Indices: 865896--866218 Score: 637
Period size: 162 Copynumber: 2.0 Consensus size: 161
865886 AAAATATTAT
865896 ATAAGTTTTCAAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAA
1 ATAAGTTTTCAAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAA
865961 ACTATAATATATGTGTTTCAAAAATGTTTTCAAAAATTATATATATATAAGTTTTCAAAATGATT
66 ACTATAATATATGTGTTTCAAAAATGTTTTCAAAAATTATATATATATAAGTTTTCAAAATGATT
866026 TTAAAAATTATATATTATATATAGTTTTAAAA
131 TTAAAAATTATATATTATATATA-TTTTAAAA
866058 ATAAGTTTTCAAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAA
1 ATAAGTTTTCAAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAA
866123 ACTATAATATATGTGTTTCAAAAATGTTTTCAAAAATTATATATATATAAGTTTTCAAAATGATT
66 ACTATAATATATGTGTTTCAAAAATGTTTTCAAAAATTATATATATATAAGTTTTCAAAATGATT
866188 TTAAAAATTATATATTATATATATTTTAAAA
131 TTAAAAATTATATATTATATATATTTTAAAA
866219 TGTTTTTTTT
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
161 8 0.05
162 153 0.95
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (161 bp):
ATAAGTTTTCAAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAA
ACTATAATATATGTGTTTCAAAAATGTTTTCAAAAATTATATATATATAAGTTTTCAAAATGATT
TTAAAAATTATATATTATATATATTTTAAAA
Found at i:866090 original size:52 final size:55
Alignment explanation
Indices: 866007--866123 Score: 149
Period size: 52 Copynumber: 2.3 Consensus size: 55
865997 TTATATATAT
* * * *
866007 ATAAGTTTTC--AAAATGATTTTAAAAATTATATATTATATATA-GTTTT-AAAA
1 ATAAGTTTTCAAAAAACGATTTTAAAAACTATATAATATATAAATGTTTTCAAAA
866058 ATAAGTTTTCAAAAAACG-TTTTAAAAACTATATAATATATAAATGTTTTCAAAA
1 ATAAGTTTTCAAAAAACGATTTTAAAAACTATATAATATATAAATGTTTTCAAAA
866112 AT-A-TTTTCAAAA
1 ATAAGTTTTCAAAA
866124 CTATAATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
51 10 0.17
52 31 0.53
53 11 0.19
54 6 0.10
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (55 bp):
ATAAGTTTTCAAAAAACGATTTTAAAAACTATATAATATATAAATGTTTTCAAAA
Found at i:866167 original size:34 final size:34
Alignment explanation
Indices: 866093--866202 Score: 111
Period size: 34 Copynumber: 3.2 Consensus size: 34
866083 AACTATATAA
* * *
866093 TATATAAATGT-TTTCAAAAATATTTTC-AAAAC
1 TATATATATGTGTTTCAAAAATGTTTTCAAAAAT
866125 TATAATATATGTGTTTCAAAAATGTTTTCAAAAAT
1 TAT-ATATATGTGTTTCAAAAATGTTTTCAAAAAT
*
866160 TATATATATATAAGTTTTC-AAAATGATTTT-AAAAAT
1 TATATATATGT--G-TTTCAAAAATG-TTTTCAAAAAT
866196 TATATAT
1 TATATAT
866203 TATATATATT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
32 3 0.04
33 7 0.10
34 22 0.33
35 7 0.10
36 20 0.30
37 8 0.12
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (34 bp):
TATATATATGTGTTTCAAAAATGTTTTCAAAAAT
Done.