Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009267.1 Hibiscus syriacus cultivar Beakdansim tig00112925_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: 1725308
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:655426 original size:74 final size:74
Alignment explanation
Indices: 655342--655490 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
655332 AGGCTATAAT
655342 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
1 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
655407 ATTTTGTAA
66 ATTTTGTAA
655416 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
1 TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
655481 ATTTTGTAA
66 ATTTTGTAA
655490 T
1 T
655491 CTATCAATTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (74 bp):
TTAGGAATTAGGCTATAACTTAGGCAACTAAATATACAATAGTAAATACAAAATATTTGGAGAAT
ATTTTGTAA
Found at i:655959 original size:16 final size:16
Alignment explanation
Indices: 655926--655969 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
655916 TATTTTAAAT
*
655926 ATTTTAAAAAAT-TAA
1 ATTTTAAAAACTATAA
*
655941 ATTTTATAAACTATAA
1 ATTTTAAAAACTATAA
655957 ATTTTAAAAACTA
1 ATTTTAAAAACTA
655970 CACTCTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTTAAAAACTATAA
Found at i:656042 original size:16 final size:16
Alignment explanation
Indices: 656023--656066 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
656013 TTAAATCAAG
656023 TAGTTTTTAAAATTTA
1 TAGTTTTTAAAATTTA
*
656039 TAGTTTATAAAATTTA
1 TAGTTTTTAAAATTTA
*
656055 -ATTTTTTAAAAT
1 TAGTTTTTAAAAT
656067 ATTTAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
TAGTTTTTAAAATTTA
Found at i:662572 original size:3 final size:3
Alignment explanation
Indices: 662564--662606 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
662554 TTAAAAATAA
*
662564 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT TTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
662607 AATCTCATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:663423 original size:24 final size:22
Alignment explanation
Indices: 663396--663448 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
663386 TCATTTTTTC
*
663396 TTATTTAATAATGTGATAAATAGT
1 TTATTTAATAATAT-ATAAATA-T
*
663420 TTATCTTTATAATATATAAATAT
1 TTAT-TTAATAATATATAAATAT
663443 TTATTT
1 TTATTT
663449 TTATCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 2 0.08
23 5 0.19
24 11 0.42
25 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (22 bp):
TTATTTAATAATATATAAATAT
Found at i:663496 original size:28 final size:28
Alignment explanation
Indices: 663465--663534 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
663455 ATAATTTAAG
663465 TTTAAAATATTATTGAAATAC-AATA-TCA
1 TTTAAAATATTATT-AAA-ACTAATATTCA
*
663493 TTTATAAA-ATTATTTAAACTAATATTCA
1 TTTA-AAATATTATTAAAACTAATATTCA
663521 TTT-AAATATTATTA
1 TTTAAAATATTATTA
663535 TTGTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 5 0.14
27 12 0.33
28 16 0.44
29 3 0.08
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (28 bp):
TTTAAAATATTATTAAAACTAATATTCA
Found at i:665633 original size:4 final size:4
Alignment explanation
Indices: 665612--665668 Score: 59
Period size: 4 Copynumber: 14.8 Consensus size: 4
665602 ACAAACATAT
665612 TTTA TTATA TTATA TTTA TTTA TTTA -TTA -TTA -TTA -TTA TTTA TTTA
1 TTTA TT-TA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
665658 TTTT TTTA TTT
1 TTTA TTTA TTT
665669 TTGTAGACCC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 12 0.24
4 28 0.57
5 9 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:665655 original size:28 final size:27
Alignment explanation
Indices: 665609--665669 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 27
665599 TCTACAAACA
665609 TATTTTATTATATTATATTTATTTATT
1 TATTTTATTATATTATATTTATTTATT
*
665636 TATTATTATTATTATT-TATTTATTTTTT
1 TATT-TTATTA-TATTATATTTATTTATT
665664 TATTTT
1 TATTTT
665670 TGTAGACCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 6 0.19
28 21 0.68
29 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (27 bp):
TATTTTATTATATTATATTTATTTATT
Found at i:665769 original size:33 final size:33
Alignment explanation
Indices: 665727--665802 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
665717 AAATCAATGT
665727 ATTTGAGTCCTATTGAAACACTAAAAC-CAACGC
1 ATTTGAGTCCTATTGAAACACTAAAACTCAA-GC
*
665760 ATTTGAGTCCTATTGAAACACTAAAACTGAAGC
1 ATTTGAGTCCTATTGAAACACTAAAACTCAAGC
665793 ATTTGAGTCC
1 ATTTGAGTCC
665803 AAGTAAGACT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 39 0.95
34 2 0.05
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (33 bp):
ATTTGAGTCCTATTGAAACACTAAAACTCAAGC
Found at i:666361 original size:4 final size:4
Alignment explanation
Indices: 666344--666400 Score: 63
Period size: 4 Copynumber: 15.5 Consensus size: 4
666334 TGATAATACA
666344 TTAT TTA- TTA- TTAT TTAT TTAT TTAT TTAT TT-T ATTA- TTA- TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT
666388 TTA- TTAT TTAT TT
1 TTAT TTAT TTAT TT
666401 TTTTTCTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
3 16 0.33
4 32 0.67
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:669417 original size:25 final size:25
Alignment explanation
Indices: 669370--669419 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
669360 AATCAAGAAC
*
669370 AAAAAGAGAAAAACACAGAGAAAAT
1 AAAAAGAGAAAAACAAAGAGAAAAT
669395 AAAAAGAGAAAAAACAAAG-GAAAAT
1 AAAAAGAG-AAAAACAAAGAGAAAAT
669420 TGAAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.74, C:0.06, G:0.16, T:0.04
Consensus pattern (25 bp):
AAAAAGAGAAAAACAAAGAGAAAAT
Found at i:669610 original size:69 final size:69
Alignment explanation
Indices: 669492--669629 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
669482 GATTCAAACT
* *
669492 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGACTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
669557 TCAA
66 TCAA
** * *
669561 ATGAGACTGATCAAGCACAATCATTTTTGAATCACTGAATCACTCCACTCGAAGATCGTAGAGCA
1 ATGAGACTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
669626 TCAA
66 TCAA
669630 GAGAGAGACG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (69 bp):
ATGAGACTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:670579 original size:32 final size:31
Alignment explanation
Indices: 670543--670658 Score: 106
Period size: 32 Copynumber: 3.6 Consensus size: 31
670533 GGAACAATGA
**
670543 GGGCATCTTTGAAGATTCAACATCAAATCCTG
1 GGGCATCTTTG-AGATTCAACATCAAATATTG
* * * *
670575 GGGCATTTTTTGAGATTTAACATCAAATGTTA
1 GGGCA-TCTTTGAGATTCAACATCAAATATTG
* * *
670607 GGGCATTTTTTTAGATTCAACATCGAATATTG
1 GGGCA-TCTTTGAGATTCAACATCAAATATTG
*
670639 GGGCATCTTTGGGAATTCAA
1 GGGCATCTTTGAG-ATTCAA
670659 TATCCTGATG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
31 5 0.07
32 59 0.86
33 5 0.07
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (31 bp):
GGGCATCTTTGAGATTCAACATCAAATATTG
Found at i:671909 original size:37 final size:37
Alignment explanation
Indices: 671859--671970 Score: 190
Period size: 37 Copynumber: 3.1 Consensus size: 37
671849 TTTCCAAGTT
*
671859 TTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
*
671896 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
*
671932 TTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
671969 TT
1 TT
671971 TGAATATCTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 34 0.49
37 36 0.51
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
Found at i:671943 original size:36 final size:36
Alignment explanation
Indices: 671857--671965 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
671847 AGTTTCCAAG
*
671857 TTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
671894 TCTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
671930 TTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
671966 ATCTTTGAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
36 37 0.54
37 31 0.46
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:672136 original size:31 final size:32
Alignment explanation
Indices: 672082--672161 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 32
672072 TATTGTGACA
*
672082 GTTTCTCTTGAAACACAAAAAAACCCTCGAAATT
1 GTTTCTCTTG-AA-ACAAAAAAACCCTCGAAAAT
* *
672116 GTTTCTCTTGAAA-AAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACAAAAAAACCCTCGAAAAT
672147 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
672162 TCAAACCTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 28 0.67
32 2 0.05
33 2 0.05
34 10 0.24
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (32 bp):
GTTTCTCTTGAAACAAAAAAACCCTCGAAAAT
Found at i:672315 original size:83 final size:83
Alignment explanation
Indices: 672166--672423 Score: 333
Period size: 83 Copynumber: 3.1 Consensus size: 83
672156 GAAACATCAA
* * * * * *
672166 ACCTTCGAGTTGGACTACGCTCAGCTTCAAGACACATAATTTACAACATAACTCAATGCTAGAAG
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
672231 GGTTATCTGCCAATAAAG
66 GGTTATCTGCCAATAAAG
*
672249 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTATAAG
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
*
672314 GGTTATCTGTCAATAAAG
66 GGTTATCTGCCAATAAAG
* * * * ** * *
672332 ACCTCCGAGTTCGACTCCACTCAGCTCAAAGGCACTATCATTTGTAGCATAGCTCAAGGCAAGAA
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC-ATCATTTACAGCATAACTCAAGGCTAGAA
*
672397 GGGCTATCTGCC---AAAG
65 GGGTTATCTGCCAATAAAG
672413 ACCTTCGAGTT
1 ACCTTCGAGTT
672424 TGATTCCATT
Statistics
Matches: 154, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
81 14 0.09
83 106 0.69
84 34 0.22
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (83 bp):
ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
GGTTATCTGCCAATAAAG
Found at i:673476 original size:3 final size:3
Alignment explanation
Indices: 673463--673520 Score: 64
Period size: 3 Copynumber: 18.0 Consensus size: 3
673453 ATGATAATAC
673463 ATT ATTT ATT ATT ATT ATT GATT ATTT ATTT ATT -TT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT -ATT A-TT A-TT ATT ATT ATT ATT ATT ATT
673511 ATTT ATT ATT
1 A-TT ATT ATT
673521 CATTTTTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
2 2 0.04
3 32 0.64
4 16 0.32
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:673504 original size:29 final size:28
Alignment explanation
Indices: 673467--673526 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
673457 TAATACATTA
*
673467 TTTATTATTATTATTGA-TTATTTATTTAT
1 TTTATTATTATTATT-ATTTA-TTATTCAT
673496 TTTATTATTATTATTATTTATTATTCAT
1 TTTATTATTATTATTATTTATTATTCAT
673524 TTT
1 TTT
673527 TTTTCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTATTATTATTATTATTTATTATTCAT
Found at i:673509 original size:32 final size:32
Alignment explanation
Indices: 673468--673530 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
673458 AATACATTAT
*
673468 TTATTATTATTATTGATTATTTATTTATTTTA
1 TTATTATTATTATTGATTATTCATTTATTTTA
* *
673500 TTATTATTATTATTTATTATTCATTTTTTTT
1 TTATTATTATTATTGATTATTCATTTATTTT
673531 CTTTTTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (32 bp):
TTATTATTATTATTGATTATTCATTTATTTTA
Found at i:676588 original size:2 final size:2
Alignment explanation
Indices: 676581--676605 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
676571 CAGCTGACTT
676581 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
676606 TTCATAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:678758 original size:19 final size:19
Alignment explanation
Indices: 678717--678758 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
678707 ATGACCAACA
* *
678717 AATTCGCAACGCGATCTCG
1 AATTCGCAACGCGAACTCC
*
678736 AATTCGCAACGTGAACTCC
1 AATTCGCAACGCGAACTCC
678755 AATT
1 AATT
678759 TCGTAACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (19 bp):
AATTCGCAACGCGAACTCC
Found at i:678818 original size:40 final size:39
Alignment explanation
Indices: 678774--678905 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 39
678764 ACTCAGTTTC
*
678774 CAAATTCGCAA-CGATTTTCAAAATTCGCAACACAGAATTT
1 CAAATTCGCAACCGATTTTC-GAATTCGCAACAC-GAATTT
*
678814 CAAATTCGCAACTCGA-TTTCTGAATTCGCAACGCGAATTT
1 CAAATTCGCAAC-CGATTTTC-GAATTCGCAACACGAATTT
* ** *
678854 TATTTTCGCAACTCAATTTTCGAATTCGCAACACGAATTT
1 CAAATTCGCAAC-CGATTTTCGAATTCGCAACACGAATTT
* *
678894 TAATTTCGCAAC
1 CAAATTCGCAAC
678906 AGGTTTTAGT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
40 58 0.73
41 19 0.24
42 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (39 bp):
CAAATTCGCAACCGATTTTCGAATTCGCAACACGAATTT
Found at i:678906 original size:20 final size:20
Alignment explanation
Indices: 678797--678925 Score: 99
Period size: 20 Copynumber: 6.5 Consensus size: 20
678787 ATTTTCAAAA
* *
678797 TTCGCAACACAGAATTTCAAA
1 TTCGCAACAC-GAATTTTAAT
*
678818 TTCGCAACTCG-ATTTCTGAA-
1 TTCGCAACACGAATTT-T-AAT
* *
678838 TTCGCAACGCGAATTTTATT
1 TTCGCAACACGAATTTTAAT
*
678858 TTCGCAACTC-AATTTTCGAA-
1 TTCGCAACACGAATTTT--AAT
678878 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTAAT
* *
678898 TTCGCAACA-G-GTTTTAGT
1 TTCGCAACACGAATTTTAAT
678916 TTCGCAACAC
1 TTCGCAACAC
678926 AAATGTTTTG
Statistics
Matches: 90, Mismatches: 9, Indels: 20
0.76 0.08 0.17
Matches are distributed among these distances:
18 15 0.17
19 14 0.16
20 39 0.43
21 22 0.24
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (20 bp):
TTCGCAACACGAATTTTAAT
Found at i:679715 original size:12 final size:12
Alignment explanation
Indices: 679694--679727 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
679684 ACCACATTTC
*
679694 CAATACCAAACA
1 CAATATCAAACA
679706 CAATATCAAACA
1 CAATATCAAACA
*
679718 CAATCTCAAA
1 CAATATCAAA
679728 ACCTGCAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:679880 original size:24 final size:24
Alignment explanation
Indices: 679853--679906 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
679843 GTATTCGAAA
679853 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
679877 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
679901 TTTGAT
1 TTTGAT
679907 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:682165 original size:18 final size:18
Alignment explanation
Indices: 682142--682177 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
682132 AAGCAAAAGG
*
682142 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
682160 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
682178 CAACTGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:682429 original size:20 final size:20
Alignment explanation
Indices: 682406--682463 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
682396 AAAATCGCAA
682406 TGCGAATTTGACTTTCGCGT
1 TGCGAATTTGACTTTCGCGT
*
682426 TGCGAATTTGACTTTCACGT
1 TGCGAATTTGACTTTCGCGT
* *
682446 TGCAAATTTGAGTTTCGC
1 TGCGAATTTGACTTTCGC
682464 AATGCGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (20 bp):
TGCGAATTTGACTTTCGCGT
Found at i:683998 original size:21 final size:21
Alignment explanation
Indices: 683972--684065 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 21
683962 ATGAATCGGG
**
683972 CTCTTGAACGGTGGAAGGAAC
1 CTCTTGAACGGTGGAAGGGGC
*
683993 CTCTTGAACGAT-GATAGGGGC
1 CTCTTGAACGGTGGA-AGGGGC
*
684014 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGAAGGGGC
* * *
684035 CTCTTGAATGATTGG-AGAGGC
1 CTCTTGAACG-GTGGAAGGGGC
684056 CTCTTGAACG
1 CTCTTGAACG
684066 ATGACAGGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.03
21 55 0.90
22 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGAAGGGGC
Found at i:684038 original size:42 final size:42
Alignment explanation
Indices: 683972--684065 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
683962 ATGAATCGGG
* *
683972 CTCTTGAACGGTGGAAGGAACCTCTTGAACGA-TGATAGGGGC
1 CTCTTGAACGGTGGAAGGAACCTCTTGAACGATTG-GAGAGGC
* ** *
684014 CTCTTGAACGGTGGGAGGGGCCTCTTGAATGATTGGAGAGGC
1 CTCTTGAACGGTGGAAGGAACCTCTTGAACGATTGGAGAGGC
684056 CTCTTGAACG
1 CTCTTGAACG
684066 ATGACAGGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGAAGGAACCTCTTGAACGATTGGAGAGGC
Found at i:684500 original size:21 final size:21
Alignment explanation
Indices: 684476--684525 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
684466 ACCATTGTCT
* *
684476 TCACGTAAAGTACCGACCTCC
1 TCACGTAAAGCACCGACCTCA
* **
684497 TCACGCAAAGCATTGACCTCA
1 TCACGTAAAGCACCGACCTCA
684518 TCACGTAA
1 TCACGTAA
684526 CTCCCCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:686240 original size:19 final size:20
Alignment explanation
Indices: 686201--686251 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
686191 TCTGAAACTT
*
686201 AAAATCGCAACGTGAAAATG
1 AAAATCGCAACGCGAAAATG
686221 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
686240 AAAATCGCAACG
1 AAAATCGCAACG
686252 AAAAACTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:686262 original size:19 final size:19
Alignment explanation
Indices: 686201--686266 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
686191 TCTGAAACTT
*
686201 AAAATCGCAACGTGAAAATG
1 AAAATCGCAACG-AAAAATG
**
686221 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGAAAAATG
686240 AAAATCGCAACGAAAAACT-
1 AAAATCGCAACGAAAAA-TG
686259 AAAATCGC
1 AAAATCGC
686267 GTTGCGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
19 28 0.68
20 13 0.32
ACGTcount: A:0.52, C:0.20, G:0.17, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGAAAAATG
Found at i:686697 original size:22 final size:22
Alignment explanation
Indices: 686669--686722 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
686659 GATATAGACG
686669 GATTTCGTCGGAGATGGGGACA
1 GATTTCGTCGGAGATGGGGACA
*
686691 GATTTCGTCGGAGATGGGGACG
1 GATTTCGTCGGAGATGGGGACA
*
686713 GATGTCGTCG
1 GATTTCGTCG
686723 TAGAGAGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.15, G:0.43, T:0.24
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACA
Found at i:693369 original size:21 final size:21
Alignment explanation
Indices: 693345--693393 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
693335 GTTATGAGTT
*
693345 CAAATTTGAAGTCCATTTTGC
1 CAAATTCGAAGTCCATTTTGC
693366 CAAATTCGAAGTCCATTTTGC
1 CAAATTCGAAGTCCATTTTGC
*
693387 AAAATTC
1 CAAATTC
693394 AAACCTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
CAAATTCGAAGTCCATTTTGC
Found at i:697582 original size:22 final size:22
Alignment explanation
Indices: 697537--697582 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
697527 TTATATTTGC
697537 ATTTATTGATATATGAACCATAT
1 ATTTATTGATATAT-AACCATAT
*
697560 ATTTATTGAT-TATATTCCATAT
1 ATTTATTGATATATA-ACCATAT
697582 A
1 A
697583 CTATTACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 10 0.48
23 10 0.48
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTATTGATATATAACCATAT
Found at i:704835 original size:15 final size:15
Alignment explanation
Indices: 704817--704854 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
704807 AAACAAAATG
* *
704817 AAATAAAAAAAGTGA
1 AAATAAAAAAAATAA
704832 AAATAAAAAAAATAA
1 AAATAAAAAAAATAA
704847 AAATAAAA
1 AAATAAAA
704855 GTGTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (15 bp):
AAATAAAAAAAATAA
Found at i:707018 original size:86 final size:86
Alignment explanation
Indices: 706771--707871 Score: 1108
Period size: 86 Copynumber: 12.9 Consensus size: 86
706761 TTATGCTGTG
** * ** * * * *
706771 AATTTGACATGCCCTTGAGCTGAATAAAATCGAAATCGAAGGTATTTT-TCGACAGATAACTCTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
** *
706835 CTCGCCTTGA-CTTATACTGTA
66 CTCGCCTTGAGC-TATGTTGGA
* * * * * * * *
706856 AATTGGATATGCATTTAAGCTGAATGTAATCAAACTCGAAGGTTTTTTTGTTTACAGATAGCCCT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGG-TCTTTTGTTGACAGATAACCCT
*
706921 TCTCACCTTGAGCTATGTTGGA
65 TCTCGCCTTGAGCTATGTTGGA
* *
706943 AATTTGATGTGCCTTTTAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* * *
707008 CTCACCTTGAGCTATTTTGTA
66 CTCGCCTTGAGCTATGTTGGA
* * * * * * * **
707029 AATTTAACGTGCTTTTGAGCTGAGTATAATCGAACTCGGAGGTC-TTGGTTGATGGATAACCCTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* *
707093 CTCGCATTGAGTTATGTT-G-
66 CTCGCCTTGAGCTATGTTGGA
* * * * *
707112 TACTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* *
707177 CTCGCCTTGAGCTATATTGTA
66 CTCGCCTTGAGCTATGTTGGA
* * * * * * * *
707198 AATTTGATGTGCCTTTGAGGTGAGTATAATCAAACTTGAAGGTC-TTGGTTGACATATAACCTTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* **
707262 CTCGCCTTGAGTTATACT-G-
66 CTCGCCTTGAGCTATGTTGGA
* * * * * * * *
707281 TACTGGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTATTTTGTTGACAGATAGCCATT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* * *
707346 CTCACCTTGAGCTATGCTGTA
66 CTCGCCTTGAGCTATGTTGGA
* * *
707367 AATTTAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* * **
707432 CTCGCCTTAAGTTATCCTGCG-
66 CTCGCCTTGAGCTATGTTG-GA
*
707453 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGTTGACAGATAACCCTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* * *
707518 TTCGCCTTGAGCTATGCTGTA
66 CTCGCCTTGAGCTATGTTGGA
* * *
707539 AATTTGATGTGCCTTTGAGCTG-A-GCTAATCGAACTCAAAGGTC-TTGGTTGACAGATAATCCT
1 AATTTGATGTGCCTTTGAGCTGAATG-TAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCT
*
707601 TCTCGCCTTGAGTTATGTT-G-
65 TCTCGCCTTGAGCTATGTTGGA
* * * * * *
707621 TACTGGATATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
* * * *
707686 TTCACCTTGAGCAATGTTGTA
66 CTCGCCTTGAGCTATGTTGGA
*
707707 AATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT-TATTTGTT-AGCAGATAACCC
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCT-TTTGTTGA-CAGATAACCC
* *
707770 TTCAT-GCCTTAAGTTATGCTAT-G-
64 TTC-TCGCCTTGAGCTATG-T-TGGA
* * *
707793 AATTTGCTGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAAATAGCCCTT
1 AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
707857 CTCGCCTTGAGCTAT
66 CTCGCCTTGAGCTAT
707872 CCTGCTAATA
Statistics
Matches: 831, Mismatches: 160, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
82 17 0.02
83 87 0.10
84 129 0.16
85 142 0.17
86 389 0.47
87 65 0.08
88 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (86 bp):
AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTT
CTCGCCTTGAGCTATGTTGGA
Found at i:707146 original size:169 final size:169
Alignment explanation
Indices: 706779--707871 Score: 1253
Period size: 169 Copynumber: 6.4 Consensus size: 169
706769 TGAATTTGAC
* ** * * * * *
706779 ATGCCCTTGAGCTGAATAAAATCGAAATCGAAGGTATTTT-TCGACAGATAACTCTTCTCGCCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
** * * * * * * * * *
706843 GA-CTTATACTGTAAATTGGATATGCATTTAAGCTGAATGTAATCAAACTCGAAGGTTTTTTTGT
66 GAGC-TATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGG--TCTTGGT
* * * * * * *
706907 TTACAGATAGCCCTTCTCACCTTGAGCTATGTTGGAAATTTGAT
128 TGACAGATAACCCTTCTCGCCTTGAGTTATGTT-G-TACTGGAT
* * *
706951 GTGCCTTTTAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
* * * * *
707016 GAGCTATTTTGTAAATTTAACGTGCTTTTGAGCTGAGTATAATCGAACTCGGAGGTCTTGGTTGA
66 GAGCTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTGGTTGA
** *
707081 TGGATAACCCTTCTCGCATTGAGTTATGTTGTACTGGAT
131 CAGATAACCCTTCTCGCCTTGAGTTATGTTGTACTGGAT
* *
707120 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
* * * *
707185 GAGCTATATTGTAAATTTGATGTGCCTTTGAGGTGAGTATAATCAAACTTGAAGGTCTTGGTTGA
66 GAGCTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTGGTTGA
* * **
707250 CATATAACCTTTCTCGCCTTGAGTTATACTGTACTGGAT
131 CAGATAACCCTTCTCGCCTTGAGTTATGTTGTACTGGAT
* * * *
707289 ATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTATTTTGTTGACAGATAGCCATTCTCACCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
* * * *
707354 GAGCTATGCTGTAAATTTAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTG
66 GAGCTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTC-TTGGTTG
* * * * * * *
707419 GCAGATAACCCTTCTCGCCTTAAGTTATCCTGCGAATTTGAT
130 ACAGATAACCCTTCTCGCCTTGAGTTAT-GT-TGTACTGGAT
* * * *
707461 GTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGTTGACAGATAACCCTTTTCGCCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
* * *
707526 GAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAG-CTAATCGAACTCAAAGGTCTTGGTTGA
66 GAGCTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTGGTTGA
*
707590 CAGATAATCCTTCTCGCCTTGAGTTATGTTGTACTGGAT
131 CAGATAACCCTTCTCGCCTTGAGTTATGTTGTACTGGAT
* * *
707629 ATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTTTCACCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
* * * *
707694 GAGCAATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTTATTTGTT-
66 GAGCTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGG-TCTTGGTTG
* * * * *
707758 AGCAGATAACCCTTCAT-GCCTTAAGTTATGCTATGAATTTGCT
130 A-CAGATAACCCTTC-TCGCCTTGAGTTATG-T-TGTACTGGAT
* * * *
707801 GTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAAATAGCCCTTCTCGCCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
707865 GAGCTAT
66 GAGCTAT
707872 CCTGCTAATA
Statistics
Matches: 791, Mismatches: 119, Indels: 23
0.85 0.13 0.02
Matches are distributed among these distances:
168 101 0.13
169 282 0.36
170 92 0.12
171 81 0.10
172 172 0.22
173 62 0.08
174 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (169 bp):
ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTT
GAGCTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTGGTTGA
CAGATAACCCTTCTCGCCTTGAGTTATGTTGTACTGGAT
Found at i:707674 original size:340 final size:338
Alignment explanation
Indices: 706748--707871 Score: 1418
Period size: 340 Copynumber: 3.3 Consensus size: 338
706738 CAAATAGCTT
* * * ** *
706748 TTCTCGACTTAAGTTATGCTGTGAATTTGACATGCCCTTGAGCTGAATAAAATCGAAATCGAAGG
1 TTCTCGCCTTAAGTTATGCTGTGAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * * * * * *
706813 TATTTT-TCGACAGATAACTCTTCTCGCCTTGA-CTTATACTGTAAATTGGATATGCATTTAAGC
66 TTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGC-TATACTGTAAATTTGATGTGCCTTTGAGC
* * * * * *
706876 TGAATGTAATCAAACTCGAAGGTTTTTTTGTTTACAGATAGCCCTTCTCACCTTGAGCTATGTTG
130 TG-A-GTAATCAAACTCGAAGG--TCTTGGTTGACAGATA-ACCTTCTCGCCTTGAGTTATGTT-
* * * * * *
706941 GAAATTTGATGTGCCTTTTAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCC
189 G-TACTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCC
* * * * *
707006 TTCTCACCTTGAGCTATTTTGTAAATTTAACGTGCTTTTGAGCTGAGTATAATCGAACTCGGAGG
253 TTCTCACCTTGAGCTATGTTGTAAATTTAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* ***
707071 TC-TTGGTTGATGGATAACCC
318 TCTTTTGTTGGCAGATAACCC
* * * * *
707091 TTCTCGCATTGAGTTATG-T-TGTACTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
1 TTCTCGCCTTAAGTTATGCTGTGAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * * *
707154 TCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATATTGTAAATTTGATGTGCCTTTGAGGT
66 TTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATGTGCCTTTGAGCT
* * **
707219 GAGTATAATCAAACTTGAAGGTCTTGGTTGACATATAACCTTTCTCGCCTTGAGTTATACTGTAC
131 GAG--TAATCAAACTCGAAGGTCTTGGTTGACAGATAACC-TTCTCGCCTTGAGTTATGTTGTAC
* * * *
707284 TGGATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTATTTTGTTGACAGATAGCCATTCTC
193 TGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTC
*
707349 ACCTTGAGCTATGCTGTAAATTTAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
258 ACCTTGAGCTATGTTGTAAATTTAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
707414 TGTTGGCAGATAACCC
323 TGTTGGCAGATAACCC
* * *
707430 TTCTCGCCTTAAGTTATCCTGCGAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
1 TTCTCGCCTTAAGTTATGCTGTGAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* *
707495 TTTTTTGTTGACAGATAACCCTTTTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCT
66 TTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATGTGCCTTTGAGCT
* *
707560 GAGCTAATCGAACTCAAAGGTCTTGGTTGACAGATAATCCTTCTCGCCTTGAGTTATGTTGTACT
131 GAG-TAATCAAACTCGAAGGTCTTGGTTGACAGATAA-CCTTCTCGCCTTGAGTTATGTTGTACT
* * *
707625 GGATATGCCTTTGAGCTAAATGTAATCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTTTCA
194 GGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCA
* *
707690 CCTTGAGCAATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT-TATT
259 CCTTGAGCTATGTTGTAAATTTAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCT-TT
*
707754 TGTTAGCAGATAACCC
323 TGTTGGCAGATAACCC
* * *
707770 TTCAT-GCCTTAAGTTATGCTATGAATTTGCTGTGCCTTTGAGCTGAATGTAATCGAACTCGAAG
1 TTC-TCGCCTTAAGTTATGCTGTGAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
* * *
707834 G-TCTTTGTTGACAAATAGCCCTTCTCGCCTTGAGCTAT
65 GTTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
707872 CCTGCTAATA
Statistics
Matches: 679, Mismatches: 91, Indels: 26
0.85 0.11 0.03
Matches are distributed among these distances:
338 114 0.17
339 66 0.10
340 273 0.40
341 146 0.22
342 64 0.09
343 16 0.02
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (338 bp):
TTCTCGCCTTAAGTTATGCTGTGAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
TTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATGTGCCTTTGAGCT
GAGTAATCAAACTCGAAGGTCTTGGTTGACAGATAACCTTCTCGCCTTGAGTTATGTTGTACTGG
ATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACC
TTGAGCTATGTTGTAAATTTAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
TGGCAGATAACCC
Found at i:709126 original size:95 final size:89
Alignment explanation
Indices: 708946--709185 Score: 277
Period size: 89 Copynumber: 2.6 Consensus size: 89
708936 TAAAGCCAAA
** * *
708946 GCATTTAACCAATTATTTTAGAGGGACAACTCAA-CATCATTGTATATATATTATAATCACCTTT
1 GCATTTAACCAATTGCTTTAGAGGGACAACTCAAGC-T--TTAT-TGTATATTATAATCACCTTT
*
709010 ATCAGGCTAGCTAAATATTATCTATATAGCCGG
62 ATCAGGCTAGCTAAATATTATCCATA-A----G
*
709043 GACATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCACCTTTATC
1 G-CATTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCACCTTTATC
* * *
709108 AGGCTAGTTGAATCTTATCCATAAG
65 AGGCTAGCTAAATATTATCCATAAG
* *
709133 GCGTTTAACCAATTGCTTTAGAGGGACAGCTCAAGCTTTATTGTATA-TATAAT
1 GCATTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTATAAT
709186 ATTATAATCT
Statistics
Matches: 129, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
88 6 0.05
89 43 0.33
90 2 0.02
94 1 0.01
95 41 0.32
96 3 0.02
97 1 0.01
98 31 0.24
99 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (89 bp):
GCATTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCACCTTTATCA
GGCTAGCTAAATATTATCCATAAG
Found at i:716500 original size:22 final size:23
Alignment explanation
Indices: 716455--716514 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
716445 CCCCCCCTGA
***
716455 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTAACAAG
716478 GGGAACCGATT-CCCCTAACAA-
1 GGGAACCGATTCCCCCTAACAAG
* *
716499 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
716515 CTGGGGTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTAACAAG
Found at i:718507 original size:17 final size:17
Alignment explanation
Indices: 718475--718518 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
718465 TTTCAACATT
718475 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
718492 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
718509 TTGGATTTTG
1 TTGGATTTTG
718519 GACTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:721238 original size:18 final size:18
Alignment explanation
Indices: 721215--721249 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
721205 GCATAGAATT
*
721215 TGTCCCAAATGACCACTA
1 TGTCCCAAAGGACCACTA
*
721233 TGTCCCGAAGGACCACT
1 TGTCCCAAAGGACCACT
721250 GATAATCCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:721658 original size:2 final size:2
Alignment explanation
Indices: 721651--721716 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
721641 ATTTAACTTC
721651 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
721693 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
721717 GGCATATTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:723632 original size:2 final size:2
Alignment explanation
Indices: 723615--723693 Score: 54
Period size: 2 Copynumber: 45.0 Consensus size: 2
723605 TGACGTTTAG
*
723615 TA TA TA TG T- TA T- TA TA TA TA TA TA -A TA -A TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
723652 TA TA TA TA -A TA -A TA T- TA TA T- TA TA AA TA T- TA T- TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
723688 TA TA TA
1 TA TA TA
723694 GCCCGAAGGC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
1 11 0.18
2 50 0.82
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:723651 original size:17 final size:17
Alignment explanation
Indices: 723629--723683 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
723619 TATGTTATTA
723629 TATATATATAATAATAT
1 TATATATATAATAATAT
*
723646 TATATATATATATAATAA
1 TATATATATA-ATAATAT
*
723664 TAT-TATATTATAAATAT
1 TATATATATAAT-AATAT
723681 TAT
1 TAT
723684 TATTTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 2 0.06
17 22 0.67
18 9 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATATATAATAATAT
Found at i:723653 original size:21 final size:21
Alignment explanation
Indices: 723627--723693 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
723617 TATATGTTAT
723627 TATATATATATAATAATATTA
1 TATATATATATAATAATATTA
723648 TATATATATATAATAATATTA
1 TATATATATATAATAATATTA
* * *
723669 TAT-TATAAATATTATTATT-
1 TATATATATATAATAATATTA
723688 TATATA
1 TATATA
723694 GCCCGAAGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.07
20 15 0.36
21 24 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATATATATAATAATATTA
Found at i:727297 original size:27 final size:27
Alignment explanation
Indices: 727267--727319 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
727257 GAGTGAAAGA
727267 AGATCAAACTTTGGGATCAAGATTGAT
1 AGATCAAACTTTGGGATCAAGATTGAT
727294 AGATCAAACTTTGGGATCAAGATTGA
1 AGATCAAACTTTGGGATCAAGATTGA
727320 CATTCATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (27 bp):
AGATCAAACTTTGGGATCAAGATTGAT
Found at i:729888 original size:21 final size:21
Alignment explanation
Indices: 729847--729889 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
729837 ATTATTATGC
* *
729847 ATAATTTATAATTTAATTTAT
1 ATAATTTATAATATAAATTAT
729868 ATAA-TTATAATATAACATTAT
1 ATAATTTATAATATAA-ATTAT
729889 A
1 A
729890 GGACTAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAATTTATAATATAAATTAT
Found at i:730837 original size:8 final size:9
Alignment explanation
Indices: 730819--730845 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
730809 AACAATAAGG
730819 AAAAATAAA
1 AAAAATAAA
730828 AAAAATAAA
1 AAAAATAAA
730837 AAAAATAAA
1 AAAAATAAA
730846 TCATACCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:731986 original size:12 final size:12
Alignment explanation
Indices: 731969--732031 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 12
731959 TTTCAGAAGA
731969 AAATAATAAAAT
1 AAATAATAAAAT
731981 AAATAAATGAAAAAT
1 AAAT-AAT--AAAAT
*
731996 AAAAAATAAAA-
1 AAATAATAAAAT
732007 AGAATAATAAAAT
1 A-AATAATAAAAT
732020 ATAATAA-AAAAT
1 A-AATAATAAAAT
732032 GTTAAAAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
11 1 0.02
12 22 0.51
13 9 0.21
14 3 0.07
15 8 0.19
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:731993 original size:22 final size:21
Alignment explanation
Indices: 731965--732027 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 21
731955 TAAATTTCAG
731965 AAGAAAATAATAAAATAAATA
1 AAGAAAATAATAAAATAAATA
731986 AATG-AAA-AAT-AAA-AAATA
1 AA-GAAAATAATAAAATAAATA
732004 AA-AAGAATAATAAAATATAATA
1 AAGAA-AATAATAAAATA-AATA
732026 AA
1 AA
732028 AAATGTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
17 1 0.03
18 9 0.26
19 6 0.17
20 6 0.17
21 6 0.17
22 7 0.20
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (21 bp):
AAGAAAATAATAAAATAAATA
Found at i:732020 original size:8 final size:7
Alignment explanation
Indices: 731968--732007 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
731958 ATTTCAGAAG
731968 AAAATAA
1 AAAATAA
731975 TAAAATAA
1 -AAAATAA
*
731983 ATAAATGA
1 A-AAATAA
731991 AAAATAA
1 AAAATAA
731998 AAAATAA
1 AAAATAA
732005 AAA
1 AAA
732008 GAATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (7 bp):
AAAATAA
Found at i:732038 original size:39 final size:37
Alignment explanation
Indices: 731963--732057 Score: 93
Period size: 39 Copynumber: 2.5 Consensus size: 37
731953 GTTAAATTTC
*
731963 AGAAGAAAATAATAAAATAAATAAATGAAAAATAAAAA
1 AGAAAAAAATAATAAAATAAATAAA-GAAAAATAAAAA
* ** *
732001 ATAAAAAGAATAATAAAATATAATAAA-AAATGTTAAAAG
1 AGAAAAA-AATAATAAAATA-AATAAAGAAA-AATAAAAA
732040 AGAAAAAACATAATAAAA
1 AGAAAAAA-ATAATAAAA
732058 AGAAGAACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
38 9 0.19
39 32 0.68
40 6 0.13
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (37 bp):
AGAAAAAAATAATAAAATAAATAAAGAAAAATAAAAA
Found at i:732106 original size:51 final size:52
Alignment explanation
Indices: 731990--732108 Score: 138
Period size: 51 Copynumber: 2.3 Consensus size: 52
731980 TAAATAAATG
* * *
731990 AAAAATAAAAAATAAAAAGAATAATAAAATATAATAAAAAATGTTAAAAGAGA
1 AAAAAT-AAAAATAAAAAGAAGAAAAAAATATAATAAAAAATGTGAAAAGAGA
* *
732043 AAAAA-CATAATAAAAAGAAGAACAAAAATGA-AATAAAAAA-GTGAAAAGA-A
1 AAAAATAAAAATAAAAAGAAGAA-AAAAAT-ATAATAAAAAATGTGAAAAGAGA
732093 AAAAATAAAAATAAAA
1 AAAAATAAAAATAAAA
732109 GTGTGTTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
50 6 0.11
51 30 0.54
52 14 0.25
53 6 0.11
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (52 bp):
AAAAATAAAAATAAAAAGAAGAAAAAAATATAATAAAAAATGTGAAAAGAGA
Found at i:732108 original size:26 final size:28
Alignment explanation
Indices: 732060--732111 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
732050 TAATAAAAAG
732060 AAGAACAAAAATGAAATAAAAAAGTGAA
1 AAGAACAAAAATGAAATAAAAAAGTGAA
732088 AAGAA-AAAAAT-AAA-AATAAAAGTG
1 AAGAACAAAAATGAAATAA-AAAAGTG
732112 TGTTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 10 0.43
27 6 0.26
28 5 0.22
ACGTcount: A:0.73, C:0.02, G:0.13, T:0.12
Consensus pattern (28 bp):
AAGAACAAAAATGAAATAAAAAAGTGAA
Found at i:736280 original size:14 final size:14
Alignment explanation
Indices: 736257--736286 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
736247 AAAACACCAA
736257 CTTTTAATTTTTTG
1 CTTTTAATTTTTTG
*
736271 CTTTTGATTTTTTG
1 CTTTTAATTTTTTG
736285 CT
1 CT
736287 ACTATCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.70
Consensus pattern (14 bp):
CTTTTAATTTTTTG
Found at i:751165 original size:20 final size:21
Alignment explanation
Indices: 751127--751166 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
751117 TTTGTAATAT
*
751127 TTGTAACTATTGAGGTTTATG
1 TTGTAAATATTGAGGTTTATG
*
751148 TTGTAAATA-TGAGTTTTAT
1 TTGTAAATATTGAGGTTTAT
751167 AGAAATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.50
Consensus pattern (21 bp):
TTGTAAATATTGAGGTTTATG
Found at i:755121 original size:13 final size:13
Alignment explanation
Indices: 755105--755150 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
755095 ATAAAAGGGA
755105 AAAATAAAAAAAT
1 AAAATAAAAAAAT
755118 AAAATAAAATAAAT
1 AAAATAAAA-AAAT
*
755132 AAGATAAAGAAAA-
1 AAAATAAA-AAAAT
755145 AAAATA
1 AAAATA
755151 GTAAAGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 14 0.48
14 14 0.48
15 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:755133 original size:22 final size:22
Alignment explanation
Indices: 755106--755150 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
755096 TAAAAGGGAA
*
755106 AAATAA-AAAAATAAAATAAAAT
1 AAATAAGAAAAAGAAAA-AAAAT
*
755128 AAATAAGATAAAGAAAAAAAAT
1 AAATAAGAAAAAGAAAAAAAAT
755150 A
1 A
755151 GTAAAGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (22 bp):
AAATAAGAAAAAGAAAAAAAAT
Found at i:755480 original size:2 final size:2
Alignment explanation
Indices: 755440--755464 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
755430 AAATAATAAA
755440 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
755465 AAGTTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:755736 original size:18 final size:17
Alignment explanation
Indices: 755713--755755 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
755703 ATATATACAT
755713 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
755731 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
755748 ATAA-AATA
1 ATAATAATA
755756 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:756162 original size:37 final size:38
Alignment explanation
Indices: 756112--756216 Score: 142
Period size: 37 Copynumber: 2.8 Consensus size: 38
756102 GTGCTTGTGG
* * * *
756112 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAAC-TCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTCT
* *
756149 ATCCTATTTTTAGGAGTTTGAATCCTAGCA-AACTTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTCT
756186 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
756217 GACGAAAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
36 3 0.05
37 56 0.95
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (38 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTCT
Found at i:757063 original size:105 final size:105
Alignment explanation
Indices: 756760--757416 Score: 1011
Period size: 105 Copynumber: 6.3 Consensus size: 105
756750 CATTGTTCCA
* * ** *
756760 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * * * *
756824 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * *
756866 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTATTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
756926 AGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
756966 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTATTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
757031 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
757071 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
757136 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
757176 AGACCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
757241 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
757281 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
* * *
757346 AGCGGTCCCTTCGTCGCGAAGTTGAACTTGCATTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
757386 AGTCCAATATCCTTCGTCGTGAAGTTGAAAT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAAT
757417 CCAAGTATTG
Statistics
Matches: 516, Mismatches: 29, Indels: 13
0.92 0.05 0.02
Matches are distributed among these distances:
100 83 0.16
101 1 0.00
102 7 0.01
104 5 0.01
105 385 0.75
106 35 0.07
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:758085 original size:67 final size:65
Alignment explanation
Indices: 757954--758407 Score: 284
Period size: 65 Copynumber: 6.7 Consensus size: 65
757944 AAGATATCTG
* * * * **
757954 TTGTTTCATGAGAAACGGTCTTAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
758019 TT
64 TT
* * *
758021 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
758086 T
65 T
* ** * * *
758087 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
* *
758152 ACAAA-ACT
57 TCAAAGATT
* * * * * * * * * * *
758160 TAGTTCCAAAAGCAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * * * * *
758225 TTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
*
758290 ACAAA-ATT
57 TCAAAGATT
* * * * * * *** *
758298 TTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
758362 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAA
758408 AAAAGCAATC
Statistics
Matches: 299, Mismatches: 66, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
64 11 0.04
65 122 0.41
66 4 0.01
67 24 0.08
68 31 0.10
70 1 0.00
72 2 0.01
73 94 0.31
74 10 0.03
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:758138 original size:36 final size:36
Alignment explanation
Indices: 758086--758348 Score: 254
Period size: 36 Copynumber: 7.4 Consensus size: 36
758076 ATTCAAAGAT
* *
758086 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
758122 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * * *
758158 CTTAGTTCCAAAAGCAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * *
758195 TTTGTTTCAAAGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
758224 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
758260 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
758296 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
758333 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
758349 TGTTTTCAAT
Statistics
Matches: 184, Mismatches: 32, Indels: 22
0.77 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 17 0.09
30 1 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 97 0.53
37 64 0.35
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:758196 original size:138 final size:138
Alignment explanation
Indices: 758038--758407 Score: 472
Period size: 138 Copynumber: 2.7 Consensus size: 138
758028 CAAGAGTAAT
* * * *
758038 TGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
* *
758103 TGTCTCAAGATAGACGAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
66 TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
*
758168 AAAGCAAC
131 AAAGAAAC
* * * * *
758176 TGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAAT
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
* * * * * *
758241 TGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCA
66 TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
**
758306 AGGGAAAC
131 AAAGAAAC
* * * * * * *
758314 TATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAGAAA
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTT-TGTTTCAAGGGAAA
*
758378 CTGTCTCAAGGGAGACAAAATTTGTTTTAA
65 CTGTCTCAAGAGAGACAAAATTTGTTTTAA
758408 AAAAGCAATC
Statistics
Matches: 196, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
137 3 0.02
138 193 0.98
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (138 bp):
TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
AAAGAAAC
Found at i:758255 original size:102 final size:102
Alignment explanation
Indices: 758122--758306 Score: 264
Period size: 102 Copynumber: 1.8 Consensus size: 102
758112 ATAGACGAAA
* * *
758122 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGCAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAG
*
758187 AGACGAAA-TTTGTTTCAAAGAAAACATATTCAAATAT
65 AGACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
* * * * **
758224 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
758289 GACAAAATTTTGTTTCAA
66 GACAAAATTTTGTTTCAA
758307 GGGAAACTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 26 0.36
102 46 0.64
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:758797 original size:18 final size:18
Alignment explanation
Indices: 758770--758805 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
758760 TGTTGAATCC
* *
758770 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
758788 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
758806 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:759236 original size:22 final size:22
Alignment explanation
Indices: 759210--759264 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
759200 TTGTGTTTGG
759210 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
759232 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
759254 TCAAATGTTTG
1 TCAAAGGTTTG
759265 ATGGGATAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:759929 original size:9 final size:8
Alignment explanation
Indices: 759915--759983 Score: 52
Period size: 8 Copynumber: 8.8 Consensus size: 8
759905 TTGATTCTTG
*
759915 TTTTTTCC
1 TTTTTTTC
759923 TTTTTTTCC
1 TTTTTTT-C
*
759932 TTTTGTTC
1 TTTTTTTC
*
759940 TTTTGTTC
1 TTTTTTTC
759948 -TTTTTTC
1 TTTTTTTC
* *
759955 TCTTTGT-
1 TTTTTTTC
*
759962 TTTTTTGC
1 TTTTTTTC
*
759970 TTCTTTTC
1 TTTTTTTC
759978 TTTTTT
1 TTTTTT
759984 CTTCTTGATT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
7 10 0.21
8 30 0.64
9 7 0.15
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:759943 original size:16 final size:15
Alignment explanation
Indices: 759915--759986 Score: 67
Period size: 15 Copynumber: 4.6 Consensus size: 15
759905 TTGATTCTTG
*
759915 TTTTTTCCTTTTTTTCC
1 TTTTTT-CTTTTGTT-C
759932 TTTTGTTCTTTTGTTC
1 TTTT-TTCTTTTGTTC
759948 TTTTTTCTCTTTGTT-
1 TTTTTTCT-TTTGTTC
*
759963 TTTTTGCTTCTT-TTC
1 TTTTTTCTT-TTGTTC
759978 TTTTTTCTT
1 TTTTTTCTT
759987 CTTGATTGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 3 0.06
15 21 0.44
16 11 0.23
17 11 0.23
18 2 0.04
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (15 bp):
TTTTTTCTTTTGTTC
Found at i:759943 original size:24 final size:23
Alignment explanation
Indices: 759916--759986 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
759906 TGATTCTTGT
759916 TTTTTCCTTTTTTTCCTTTTGTTC
1 TTTTTCCTTTTTTT-CTTTTGTTC
*
759940 TTTTGTTC-TTTTTTCTCTTTGTT-
1 TTTT-TCCTTTTTTTCT-TTTGTTC
* *
759963 TTTTTGCTTCTTTTCTTTT-TTC
1 TTTTTCCTTTTTTTCTTTTGTTC
759985 TT
1 TT
759987 CTTGATTGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.05
22 7 0.17
23 13 0.32
24 16 0.40
25 2 0.05
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTTTCCTTTTTTTCTTTTGTTC
Found at i:763685 original size:9 final size:9
Alignment explanation
Indices: 763671--763713 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
763661 GATAAAAGGG
763671 AAAAATAAA
1 AAAAATAAA
763680 AAAAATAAA
1 AAAAATAAA
763689 ATAAAATAAA
1 A-AAAATAAA
* *
763699 TAAGATAAA
1 AAAAATAAA
763708 GAAAAA
1 -AAAAA
763714 AAATAGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 17 0.61
10 11 0.39
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (9 bp):
AAAAATAAA
Found at i:763689 original size:14 final size:14
Alignment explanation
Indices: 763672--763718 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
763662 ATAAAAGGGA
763672 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
*
763686 AAAATAAAATAAAT
1 AAAATAAAAAAAAT
* *
763700 AAGATAAAGAAAA-
1 AAAATAAAAAAAAT
763713 AAAATA
1 AAAATA
763719 GTAAAGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:763764 original size:2 final size:2
Alignment explanation
Indices: 763759--763783 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
763749 GAAAAAAGAA
763759 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
763784 CATCAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:763839 original size:36 final size:38
Alignment explanation
Indices: 763774--763849 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
763764 TATATATATA
*
763774 TATATATATACATCAAAGTATTAATAAAATA-AATAAGC
1 TATATATATACACCAAAGTATTAATAAAATAGAA-AAGC
*
763812 TATATATATACACCAAA-TATTTA-AAAATAGAAAAGC
1 TATATATATACACCAAAGTATTAATAAAATAGAAAAGC
763848 TA
1 TA
763850 CCCTCTCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.34
37 7 0.20
38 16 0.46
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (38 bp):
TATATATATACACCAAAGTATTAATAAAATAGAAAAGC
Found at i:764058 original size:2 final size:2
Alignment explanation
Indices: 764011--764043 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
764001 AACGAAAATA
764011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
764044 AGTTATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:764314 original size:18 final size:17
Alignment explanation
Indices: 764291--764333 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
764281 ATATATACAT
764291 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
764309 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
764326 ATAA-AATA
1 ATAATAATA
764334 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:768293 original size:31 final size:30
Alignment explanation
Indices: 768218--768314 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
768208 CTAAAATTTT
* * *
768218 AAAA-ATTACAAAATGGTTATTGAACTTTTC
1 AAAATATTACAAAATAG-TATTAAACTTATC
* *
768248 -AAATAAATATAAAATAGTCATTAAACTTATC
1 AAAAT-ATTACAAAATAGT-ATTAAACTTATC
768279 AAAATATTACAAAATAGTATTTAAACTTATC
1 AAAATATTACAAAATAGTA-TTAAACTTATC
*
768310 CAAAT
1 AAAAT
768315 TTATCACTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
29 3 0.06
30 2 0.04
31 45 0.83
32 4 0.07
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (30 bp):
AAAATATTACAAAATAGTATTAAACTTATC
Found at i:769535 original size:19 final size:19
Alignment explanation
Indices: 769511--769548 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
769501 TTTAGAGATT
769511 TTAGTATTTTCCGACCGCC
1 TTAGTATTTTCCGACCGCC
*
769530 TTAGTATTTTCTGACCGCC
1 TTAGTATTTTCCGACCGCC
769549 GGTGACGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (19 bp):
TTAGTATTTTCCGACCGCC
Found at i:770375 original size:22 final size:22
Alignment explanation
Indices: 770333--770377 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
770323 CATTTTATGA
770333 TATTTTTAAATAAATAAATATAT
1 TATTTTT-AATAAATAAATATAT
*
770356 TATTTTT-ATAAATTATATATAT
1 TATTTTTAATAAA-TAAATATAT
770378 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 8 0.40
23 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTTTTAATAAATAAATATAT
Found at i:770490 original size:147 final size:143
Alignment explanation
Indices: 770235--770507 Score: 365
Period size: 147 Copynumber: 1.9 Consensus size: 143
770225 ATTAATATTA
* * *
770235 ATATATATTATAAATTATTTTAATCTTGTTTTAATATTTATTTATTTTTCAATATTAAGAAAGGA
1 ATATATATTATAAATTATTTAAAACTTGTTTTAATATTTATTTATTTTTCAATATTAAGAAAAGA
*
770300 CAGTCTTAAAACAACTGAATGTCCATTTTATGATATTTTTAAATAAATAAATATATTATTTTTAT
66 CAGTCTTAAAACAACTGAATGTCCATTTTATGATATTTCTAAATAAATAAATATATTATTTTTAT
770365 AAATTATATATAT
131 AAATTATATATAT
770378 ATATATATATATATAATTATTATAAAAC-TGTTTTAATTATTTATTTATGTTTT-AATATTGAAG
1 ATATATAT-TATA-AATTATT-TAAAACTTGTTTTAA-TATTTATTTAT-TTTTCAATATT-AAG
* ** * *
770441 AAAAGAGCTGTCTTAAGGCACCTAGAA-GTCC-TTTTATGATATTTCTAAATAAATAAATATCTT
60 AAAAGA-CAGTCTTAAAACAACT-GAATGTCCATTTTATGATATTTCTAAATAAATAAATATATT
770504 ATTT
123 ATTT
770508 ATAAATATAA
Statistics
Matches: 113, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
143 8 0.07
144 4 0.04
145 15 0.13
146 21 0.19
147 46 0.41
148 16 0.14
149 3 0.03
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (143 bp):
ATATATATTATAAATTATTTAAAACTTGTTTTAATATTTATTTATTTTTCAATATTAAGAAAAGA
CAGTCTTAAAACAACTGAATGTCCATTTTATGATATTTCTAAATAAATAAATATATTATTTTTAT
AAATTATATATAT
Found at i:771066 original size:26 final size:27
Alignment explanation
Indices: 771014--771071 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
771004 TAATTCTTTC
*
771014 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
771042 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
771068 TTTT
1 TTTT
771072 ATTTTCAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:772587 original size:8 final size:7
Alignment explanation
Indices: 772563--772604 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
772553 TTTTCATACA
772563 TGCA-TT
1 TGCATTT
772569 TGCATTT
1 TGCATTT
772576 TGCATCTT
1 TGCAT-TT
772584 TGCATTT
1 TGCATTT
* *
772591 TTCATTG
1 TGCATTT
772598 TGCATTT
1 TGCATTT
772605 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:772587 original size:15 final size:14
Alignment explanation
Indices: 772563--772604 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
772553 TTTTCATACA
772563 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
772576 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
772591 TTCATTGTGCATTT
1 TGCATTTTGCATTT
772605 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:774344 original size:2 final size:2
Alignment explanation
Indices: 774337--774398 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
774327 ATCCTTTTAA
774337 AT AT AT AT 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 AT AT AT AT
774379 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
774399 CCTTTGTTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:774721 original size:18 final size:18
Alignment explanation
Indices: 774698--774737 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
774688 CTCATTAGGT
*
774698 AAAAAAAAGGAAAAAAGGA
1 AAAAAAAAAG-AAAAAGGA
774717 AAAAAAAAAGAAAAAGGA
1 AAAAAAAAAGAAAAAGGA
774735 AAA
1 AAA
774738 TTGAATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAGGA
Found at i:777886 original size:75 final size:74
Alignment explanation
Indices: 777694--777936 Score: 326
Period size: 75 Copynumber: 3.2 Consensus size: 74
777684 AAGAAGCAAA
* ** * **
777694 TGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCATGAATGTTTA
1 TGTTGGGGCATGCTG-AAAGCCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTCG
*
777759 TATCAGTAAAA
65 TATCAGT-AAT
*
777770 TGTTGGGGCATGCTGAAAGCCCCTTTT-AATCAGAATGAAGAATGTTGATGTATTTTGAACGTTC
1 TGTTGGGGCATGCTGAAAG--CCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTC
777834 GTATCAGTAAT
64 GTATCAGTAAT
*
777845 TGATGGGGCATGCTGAAAGCCTATTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTCG
1 TGTTGGGGCATGCTGAAAGCCT-TTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTCG
* *
777910 TATTAGCAAT
65 TATCAGTAAT
*
777920 TGTTGGGGTATGCTGAA
1 TGTTGGGGCATGCTGAA
777937 GGCCCATATC
Statistics
Matches: 149, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
73 3 0.02
74 3 0.02
75 83 0.56
76 54 0.36
77 6 0.04
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (74 bp):
TGTTGGGGCATGCTGAAAGCCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTGAACGTTCGT
ATCAGTAAT
Found at i:779264 original size:22 final size:22
Alignment explanation
Indices: 779239--779359 Score: 206
Period size: 22 Copynumber: 5.5 Consensus size: 22
779229 ATCTACATTC
*
779239 TTCAAAGATGATAGATTATCTT
1 TTCAAAGATGATAGATTCTCTT
*
779261 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
779283 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
779305 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
779327 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
779349 TTCAAAGATGA
1 TTCAAAGATGA
779360 AAGTTTTATC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 94 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:780577 original size:113 final size:113
Alignment explanation
Indices: 780172--780807 Score: 832
Period size: 113 Copynumber: 5.6 Consensus size: 113
780162 TTCCAGAAGG
* * *
780172 GTTCATAATGAGAAGAACACATTTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * *
780237 ACTTTTTGCTCGAATTCATCGCTCGATGGATCAGCATTGACAGGTCGA
66 ACTTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
* *
780285 GTTCATAATAAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATAAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
780349 ACTTTTTGCTTGAATTCATCACTCGATGGATCAACATTGCC-GGAAGA
66 ACTTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
780396 GTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * *
780460 ACTTTTTACTTGAATTCATCATTCGATGGATCAACATTGCCAGGTAGA
66 ACTTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
* * *
780508 GTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTATTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
780573 ACTTTTTGCTCGAATTCATCATTCGATAGATCAACATTGCCAGGTAGA
66 ACTTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
* * *
780621 GTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAATAAGTTCATAATGAGAAAAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * ** *** * **
780686 ACCTTTTGTTTGACTCCATTTCAGAAAGAGATAGAGCAGT-AGAGCCATTTCCAGAAAGA
66 A-C--TT-TTTG-CTCGAATTCATCACTCGAT-G-G-A-TCA-A--CATTGCCAGGTAGA
*
780745 GTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
780808 GACCTTAGTT
Statistics
Matches: 467, Mismatches: 41, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
110 3 0.01
111 101 0.22
112 100 0.21
113 169 0.36
114 1 0.00
116 2 0.00
117 4 0.01
118 12 0.03
120 1 0.00
121 2 0.00
122 2 0.00
123 31 0.07
124 39 0.08
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (113 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACTTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
Found at i:780639 original size:336 final size:345
Alignment explanation
Indices: 780176--780807 Score: 915
Period size: 336 Copynumber: 1.8 Consensus size: 345
780166 AGAAGGGTTC
* *
780176 ATAATGAGAAGAACACATTTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTT
1 ATAATGAGAAGAACACATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACTT
* * * *
780241 TTTGCTCGAATTCATCGCTCGATGGATCAGCATTGACAGGTCGAGTTCATAATAAGAAGAACTCA
66 TTTGCTCGAATTCATCACTCGATAGATCAACATTGACAGGTAGAGTTCATAATAAGAAGAACTCA
* * * *
780306 TCTGAAGAA-GGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTGA-A-TTCAT
131 TCTGAAGAATGAAGAAGAAGTTCATAATAAGAAAAACTTGTTCAACCTTTTGCTTGACATTTCAG
* *** *
780368 CACTCGAT-G-G-A-TCA-A-CATTGCC-GGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAG
196 AAAGAGATAGAGCAGT-AGACCATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAG
780426 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATTCATCATTCGATGGAT
260 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATTCATCATTCGATGGAT
780491 CAACATTGCCAGGTAGAGTTT
325 CAACATTGCCAGGTAGAGTTT
* * *
780512 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTATTCAACTT
1 ATAATGAGAAGAACACATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACTT
* * *
780577 TTTGCTCGAATTCATCATTCGATAGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCA
66 TTTGCTCGAATTCATCACTCGATAGATCAACATTGACAGGTAGAGTTCATAATAAGAAGAACTCA
* * *
780642 TCTGAAGAATGAAGAATAAGTTCATAATGAGAAAAACTTGTTCAACCTTTTGTTTGACTCCATTT
131 TCTGAAGAATGAAGAAGAAGTTCATAATAAGAAAAACTTGTTCAACCTTTTGCTTGA---CATTT
*
780707 CAGAAAGAGATAGAGCAGTAGAGCCATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAA
193 CAGAAAGAGATAGAGCAGTAGA-CCATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAA
*
780772 GAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
257 GAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
780808 GACCTTAGTT
Statistics
Matches: 256, Mismatches: 26, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
336 127 0.50
337 41 0.16
341 1 0.00
342 8 0.03
343 1 0.00
344 1 0.00
345 2 0.01
346 2 0.01
348 6 0.02
349 67 0.26
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (345 bp):
ATAATGAGAAGAACACATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACTT
TTTGCTCGAATTCATCACTCGATAGATCAACATTGACAGGTAGAGTTCATAATAAGAAGAACTCA
TCTGAAGAATGAAGAAGAAGTTCATAATAAGAAAAACTTGTTCAACCTTTTGCTTGACATTTCAG
AAAGAGATAGAGCAGTAGACCATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGG
AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATTCATCATTCGATGGATC
AACATTGCCAGGTAGAGTTT
Found at i:781073 original size:137 final size:139
Alignment explanation
Indices: 780731--781086 Score: 486
Period size: 139 Copynumber: 2.6 Consensus size: 139
780721 GCAGTAGAGC
*
780731 CATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
1 CATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
* * * * * * * *
780796 AAGAATTTGTTCGACCTTAGTTTGATTCATCACCTATGGAGTTGAATGAAAGAAGAACCTCACTT
66 AAGAACTTGTTCAACATTAGCTTAATTCATCACATATGAAGTTGAATGAAACAAGAACCTCACTT
780861 GAGGATCAA
131 GAGGATCAA
* * * *
780870 CATTTTCAG-AGGAAGTTTATAATGAGAAGAATTCATTTGAAGAGGAAGAAGAAGTTCATAATGA
1 CATTTCCAGAAGG-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGA
* * **
780934 GAAGAACTTGTTCAACATT-GCCTTAATTCATCACATATGAAGTTGAAT-CAACAA-CACCTCTT
65 GAAGAACTTGTTCAACATTAG-CTTAATTCATCACATATGAAGTTGAATGAAACAAGAACCTCAC
* *
780996 TTGAGGGTCAG
129 TTGAGGATCAA
*
781007 CATTTCCAGAAGGAGTTCATAATGAGAATAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
1 CATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
781072 AAGAACTTGTTCAAC
66 AAGAACTTGTTCAAC
781087 TTTTTGCTAG
Statistics
Matches: 190, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
137 85 0.45
138 10 0.05
139 95 0.50
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (139 bp):
CATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACATTAGCTTAATTCATCACATATGAAGTTGAATGAAACAAGAACCTCACTT
GAGGATCAA
Found at i:782835 original size:22 final size:22
Alignment explanation
Indices: 782793--782837 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
782783 CATTTTCTGA
782793 TATTTTTAAATAAATAAATATAT
1 TATTTTT-AATAAATAAATATAT
*
782816 TATTTTT-ATAAATTATATATAT
1 TATTTTTAATAAA-TAAATATAT
782838 ATATATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 8 0.40
23 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTTTTAATAAATAAATATAT
Found at i:782842 original size:141 final size:140
Alignment explanation
Indices: 782688--782962 Score: 351
Period size: 142 Copynumber: 2.0 Consensus size: 140
782678 ATTAATTATT
* * *
782688 ATTATTAATATATATTATAAATTATT-TTAATCTTGTTTTAA-TATTTATTTATTTTTCAATATT
1 ATTATTAATATATA-TATAAATTATTATAAAAC-TCTTTTAATTATTTATTTATTTTTCAATATT
* * * *
782751 -AAGAAAGGA-CAGTCTTAAAACAACTGGATGTTCATTTTCTGATATTTTTAAATAAATAAATAT
64 GAAGAAAAGAGCAGTCTTAAAACAACTAGAAG-TCATTTTCTGATATTTCTAAATAAATAAATAT
782814 ATTATTTTTATAA
128 ATTATTTTTATAA
* *
782827 ATTATATATATATATATATTAATTATTATAAAACTCTTTTAATTATTTATTTATTTTTTAATATT
1 ATTAT-TA-ATATATATATAAATTATTATAAAACTCTTTTAATTATTTATTTATTTTTCAATATT
* * * * *
782892 GAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCTTTTTCTGATATTTCTAAATAAATAAATATC
64 GAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATA
782957 TTATTT
129 TTATTT
782963 ATAAATATAA
Statistics
Matches: 116, Mismatches: 14, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
139 5 0.04
140 19 0.16
141 32 0.28
142 44 0.38
143 16 0.14
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (140 bp):
ATTATTAATATATATATAAATTATTATAAAACTCTTTTAATTATTTATTTATTTTTCAATATTGA
AGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATATT
ATTTTTATAA
Found at i:783677 original size:27 final size:26
Alignment explanation
Indices: 783639--783696 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
783629 ATGGGGTATA
* *
783639 TATGTTCTTTGGGCT-CGTGATCTATTT
1 TATGCTCTTTGGG-TGCCTGATCT-TTT
783666 TATGCTCTTTGGGTGCCTGATCTTTT
1 TATGCTCTTTGGGTGCCTGATCTTTT
783692 TATGC
1 TATGC
783697 AAAGGGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.50
Consensus pattern (26 bp):
TATGCTCTTTGGGTGCCTGATCTTTT
Found at i:787026 original size:79 final size:79
Alignment explanation
Indices: 786898--787053 Score: 303
Period size: 79 Copynumber: 2.0 Consensus size: 79
786888 ATTTATTTAT
*
786898 TTTTTTAGATTTATGTAATAATCAACGATGAATTAAAGTTAATGATCGAGTATTAATTTAATTAA
1 TTTTTTAGATATATGTAATAATCAACGATGAATTAAAGTTAATGATCGAGTATTAATTTAATTAA
786963 TGTCATTGTTGTTA
66 TGTCATTGTTGTTA
786977 TTTTTTAGATATATGTAATAATCAACGATGAATTAAAGTTAATGATCGAGTATTAATTTAATTAA
1 TTTTTTAGATATATGTAATAATCAACGATGAATTAAAGTTAATGATCGAGTATTAATTTAATTAA
787042 TGTCATTGTTGT
66 TGTCATTGTTGT
787054 AATATTCAAG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (79 bp):
TTTTTTAGATATATGTAATAATCAACGATGAATTAAAGTTAATGATCGAGTATTAATTTAATTAA
TGTCATTGTTGTTA
Found at i:792971 original size:22 final size:23
Alignment explanation
Indices: 792945--792988 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
792935 TATAAATTAT
*
792945 TATTTTATCTTT-ATTTTTTAAG
1 TATTTTATCTTTAATATTTTAAG
*
792967 TATTTTATTTTTAATATTTTAA
1 TATTTTATCTTTAATATTTTAA
792989 TTTTTTGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTTTATCTTTAATATTTTAAG
Found at i:792975 original size:16 final size:15
Alignment explanation
Indices: 792954--792994 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
792944 TTATTTTATC
792954 TTTATTTTTTAAGTAT
1 TTTATTTTTTAA-TAT
792970 TTTA-TTTTTAATAT
1 TTTATTTTTTAATAT
792984 TTTAATTTTTT
1 TTT-ATTTTTT
792995 GTCAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTTTAATAT
Found at i:792977 original size:14 final size:15
Alignment explanation
Indices: 792954--792993 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
792944 TTATTTTATC
*
792954 TTTATTTTTTAAGTAT
1 TTTAATTTTTAA-TAT
792970 TTT-ATTTTTAATAT
1 TTTAATTTTTAATAT
792984 TTTAATTTTT
1 TTTAATTTTT
792994 TGTCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.27
15 13 0.59
16 3 0.14
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTAATTTTTAATAT
Found at i:795063 original size:42 final size:42
Alignment explanation
Indices: 794866--795140 Score: 432
Period size: 41 Copynumber: 6.6 Consensus size: 42
794856 AGATTCGCAA
*
794866 CGATTCATTCCAAATT-GTTGCGATAGTCGAAGTTCGCGTTG
1 CGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTG
* *
794907 CGATTTATTCCAAA-TCGTTGCGATAGGCAAAGTTCGCGTTG
1 CGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTG
*
794948 CGATTCATTCC-AATTCGTTGTGATAGGCGAAGTTCGCGTTG
1 CGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTG
*
794989 CGATTCATT-CTAATTCGTTGCGATAGGCGAAGTTCGCGTTG
1 CGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTG
*
795030 CGATTCATTCCAAATTCGTTGCGATAGGTGAAGTTCGCGTTG
1 CGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTG
* * *
795072 TGATTCATTCAAAATTCGTTGTGATAGGCGAAGTTCGCGTTG
1 CGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTG
*
795114 CGATTCATTCAAAATTCGTTGCGATAG
1 CGATTCATTCCAAATTCGTTGCGATAG
795141 TTCAAATATT
Statistics
Matches: 215, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
40 4 0.02
41 118 0.55
42 93 0.43
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (42 bp):
CGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTG
Found at i:795928 original size:5 final size:5
Alignment explanation
Indices: 795918--795957 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
795908 GCCGCCGCCG
795918 CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC
1 CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC
795958 TCTGGTCGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.00, C:0.60, G:0.20, T:0.20
Consensus pattern (5 bp):
CCGTC
Found at i:795971 original size:6 final size:6
Alignment explanation
Indices: 795960--795987 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
795950 GTCCCGTCTC
795960 TGGTCG TGGTCG TGGTCG TGGTCG TGGT
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGT
795988 AATACGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.50, T:0.36
Consensus pattern (6 bp):
TGGTCG
Found at i:796443 original size:41 final size:41
Alignment explanation
Indices: 796068--796435 Score: 646
Period size: 41 Copynumber: 8.9 Consensus size: 41
796058 ATTTGGACTA
796068 TCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTG
1 TCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGCCTG
796110 TCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTG
1 TCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGCCTG
*
796152 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
*
796193 TCGCAACGAATTTGGAATGAATCGCAACGCGAATTTCGCCTG
1 TCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGCCTG
*
796235 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
*
796276 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
*
796317 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
*
796358 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTA
1 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
*
796399 TCGCAACGATTTGGAATGAATCGCAACGCGAACTTCG
1 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCG
796436 ACTATCGCGT
Statistics
Matches: 317, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
41 226 0.71
42 91 0.29
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (41 bp):
TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
Found at i:798995 original size:3 final size:3
Alignment explanation
Indices: 798987--799071 Score: 136
Period size: 3 Copynumber: 28.0 Consensus size: 3
798977 TAAATAAATA
798987 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
799035 AAT AAT AAT AAT AAA AAT AACT AAAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T -AAT AAT AAT AAT AAT
799072 TTTTTTTTGT
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
2 2 0.03
3 71 0.92
4 2 0.03
5 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:799427 original size:82 final size:80
Alignment explanation
Indices: 799312--799553 Score: 256
Period size: 80 Copynumber: 3.0 Consensus size: 80
799302 ATTTTATTGA
* * * * *
799312 CAGATAGCCTTTCTTGCCTTGAGCTATACTGTAAATTTGATTTGTCTCT-GAGTTGA-ATGTAAT
1 CAGATAACCCTTCTTGCCTTGAGCTATACTGTAAA--TGATGTGCCT-TGGAGCTGAGAT-TAAT
799375 CGAACTCGAAGGTCTTTGG
62 CGAACTCGAAGGTCTTTGG
* * ** * *
799394 CAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATGATGTGCCTTGGAGCTGAGCTTAGTCGAA
1 CAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGATGTGCCTTGGAGCTGAGATTAATCGAA
799459 CTCGAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
** * * *
799474 CAGATAACCCTTCTTGCCTTGAGCTATACTACAAATGATGGTGCCTTTGAGCTGAG-TGGAATCA
1 CAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGAT-GTGCCTTGGAGCTGAGAT-TAATCG
*
799538 AACTCGAAGGTTTTTG
64 AACTCGAAGGTCTTTG
799554 ATTGGGGGAA
Statistics
Matches: 134, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 70 0.52
81 34 0.25
82 29 0.22
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (80 bp):
CAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGATGTGCCTTGGAGCTGAGATTAATCGAA
CTCGAAGGTCTTTGG
Found at i:799792 original size:67 final size:67
Alignment explanation
Indices: 799689--799839 Score: 178
Period size: 67 Copynumber: 2.2 Consensus size: 67
799679 TGAAACGATC
* * * *
799689 TCAAAGATATTTGTTGTTTCATGAGAAACAGTCTCAATGGAAACAAAAATTGTTTTAAGAGAAAT
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACAGTCTCAAGGGAAACAAAAATTGTTTCAAGAGAAAC
799754 AAAT
64 AAAT
* * ** *
799758 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACAGTCTCAAGGGAAACAAAAATTGTTTCAAGAGAAACAA
*
799823 TT
66 AT
*
799825 TCAAAGGTTTT-TGTT
1 TCAAAGATTTTGTGTT
799840 GACAGATAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
66 4 0.06
67 55 0.77
68 4 0.06
69 8 0.11
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.34
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACAGTCTCAAGGGAAACAAAAATTGTTTCAAGAGAAACAA
AT
Found at i:800096 original size:164 final size:164
Alignment explanation
Indices: 799825--800250 Score: 523
Period size: 164 Copynumber: 2.6 Consensus size: 164
799815 GGAAACAATT
* * *
799825 TCAAAGGTTTTTGTTGACAGATAA-CCTTTCTAGCCTTGAGTTATGCTATAAATGAGGTGCCCTC
1 TCAAAGGTATTTGTTGACAGATAACCCTTT-TAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
* * * * * *
799889 GGAGCTGAGTGTAATCGAACTCGGGGGTATTTGGTAGATAACCCTTCTCTACTTAAGTTATGCTG
65 GGAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCGTCTCAAATTAAGTTATGCTG
* * * * * *
799954 CAAATGATGTGCCTTTGAGTTGAGTGTAATCGAAC
130 CAAATGATGCGCCTTGGAGCTGAGCGGAATCAAAC
* *
799989 TCAAAGGTCTTTGTTGACAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTG
1 TCAAAGGTATTTGTTGACAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCG
* * *
800054 AAGCTGAATGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCGTCTCAAATTAAGTTATGCTTC
66 GAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCGTCTCAAATTAAGTTATGCTGC
*
800119 AAATGATGCGCCTTGGAGCTGAGCGGAGTCAAAC
131 AAATGATGCGCCTTGGAGCTGAGCGGAATCAAAC
* * * * * * * * *
800153 TCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAATTATGTTGCAAATGATGTG-CCTC
1 TCAAAGGTATTT-GTTGACAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
* * *
800217 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
65 GGAGCTGAGTGTAATCGAACTCGAGGGTCTTTGG
800251 TGGGCACGGT
Statistics
Matches: 224, Mismatches: 36, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
164 180 0.80
165 44 0.20
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (164 bp):
TCAAAGGTATTTGTTGACAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCG
GAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCGTCTCAAATTAAGTTATGCTGC
AAATGATGCGCCTTGGAGCTGAGCGGAATCAAAC
Found at i:800250 original size:84 final size:84
Alignment explanation
Indices: 799828--800256 Score: 392
Period size: 84 Copynumber: 5.2 Consensus size: 84
799818 AACAATTTCA
* * * * * * ** * *
799828 AAGGT-TTTTGTTGACAGATAACCTTTCTAGCCTTGAGTTATGCTATAAATGAGGTGCCCTCGGA
1 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGA
799892 GCTGAGTGTAATCGAACTCG
65 GCTGAGTGTAATCGAACTCG
** * * *
799912 GGGGTATTTGG-T---AGATAACCCTTCTCTACTTAAGTTATGCTGCAAATGATGTGCCTTTGAG
1 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
* *
799973 TTGAGTGTAATCGAACTCA
66 CTGAGTGTAATCGAACTCG
* * * * * * *
799992 AAGGTCTTT-GTTGACAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTGAA
1 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGA
*
800056 GCTGAATGTAATCGAACTCG
65 GCTGAGTGTAATCGAACTCG
* * * * * *
800076 AGGGTC--T--TTGGCAGATAACCCGTCTCAAATTAAGTTATGCTTCAAATGATGCGCCTTGGAG
1 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
* * * *
800137 CTGAGCGGAGTCAAACTCG
66 CTGAGTGTAATCGAACTCG
* * * *
800156 AAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAATTATGTTGCAAATGATGTGCCTCGGAG
1 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
* *
800221 CTGAGCGTAGTCGAACTCG
66 CTGAGTGTAATCGAACTCG
*
800240 AAGGTCTTTGGTGGGCA
1 AAGGTCTTTGGTTGGCA
800257 CGGTTCCCTT
Statistics
Matches: 274, Mismatches: 61, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.00
80 55 0.20
81 68 0.25
82 2 0.01
83 35 0.13
84 109 0.40
85 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (84 bp):
AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAG
CTGAGTGTAATCGAACTCG
Found at i:800547 original size:110 final size:110
Alignment explanation
Indices: 800345--800986 Score: 958
Period size: 110 Copynumber: 5.9 Consensus size: 110
800335 TTTTGCTGTT
* * * *
800345 TCGAGGCCAATATCTTTCGCTGTGAAGTTGAAATTGACTC----TGAAACTGGAAAGTTGTTTAT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* * * *
800406 TGACAGCCAGCCGCCCCTTCGTTGTGAAGTTGAGTTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* *
800451 TCGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGAAATGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* *
800516 TGACAGTCAGTCGCCTCTTCGCTGTGAAGTTGAGCTTGTGTTATC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * * *
800561 TCGAGTCTAATATCATTTGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
800626 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTTTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
800671 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* * *
800736 TGACAGTCAGTCGCCCCTTTGCTGTGAAGTTGAGTTTGTATTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * *
800781 TCGAGTCCAATATCCTTCGCCGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* *
800846 TGACAGTCAGTCGCCCATTCACTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * * *
800891 TCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAATTGTTTTT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
800956 TGACAGT---T-GTCCCTTCGCTGTGAAGTTGAGC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
800987 AACCACCATC
Statistics
Matches: 489, Mismatches: 43, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
106 57 0.12
107 1 0.00
110 431 0.88
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (110 bp):
TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
Found at i:804765 original size:2 final size:2
Alignment explanation
Indices: 804749--804798 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
804739 TTTCAAAACC
*
804749 TA TA TGA TA -A TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
804791 TA TA TA TA
1 TA TA TA TA
804799 ATTCTGGACA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:805948 original size:20 final size:20
Alignment explanation
Indices: 805925--805966 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
805915 GGGCCTGCAA
805925 AAATAAAT-AATAATAATAAT
1 AAATAAATAAATAAT-ATAAT
*
805945 AAATAACTAAATAATATAAT
1 AAATAAATAAATAATATAAT
805965 AA
1 AA
805967 TTTTTTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATAAATAAATAATATAAT
Found at i:805965 original size:16 final size:15
Alignment explanation
Indices: 805925--805967 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 15
805915 GGGCCTGCAA
805925 AAATAA-ATAATAAT
1 AAATAATATAATAAT
805939 -AATAATA-AATAACT
1 AAATAATATAATAA-T
805953 AAATAATATAATAAT
1 AAATAATATAATAAT
805968 TTTTTTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 8 0.32
16 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAATATAATAAT
Found at i:807970 original size:697 final size:699
Alignment explanation
Indices: 806596--807994 Score: 2586
Period size: 697 Copynumber: 2.0 Consensus size: 699
806586 TATGCCAAAT
*
806596 GTAACCACCATTTTTCATACCCCAACAGAACCCTAACCTAACTATACCCTAGAGATATCATGCCT
1 GTAACCACCATTTTTCATAACCCAACAGAACCCTAACCTAACTATACCCTAGAGATATCATGCCT
*
806661 TCAGCTGTCACCGCCATTTCTCAAGCCTCCTGCAGAGATATCAACAAAACCCCGTAATATCCGGG
66 TCAGCTGTCACCGCCATTTCCCAAGCCTCCTGCAGAGATATCAACAAAACCCCGTAATATCCGGG
* *
806726 GTATTAAAAGCATACCATCATCAACACAGTAGCACCACAATAGATCTAGGATTGTTTTTATTTGT
131 GTATTAAAAGCATACCATCATCAACACAATAGCACCACAATAGATATAGGATTGTTTTTATTTGT
806791 TTTTTTAAACCTATGTAAATCGGTTATAAGAACCAAACCATGTAACAAGAGCAGGGGGCTGGCTC
196 TTTTTTAAACCTATGTAAATCGGTTATAAGAACCAAACCATGTAACAAGAGCAGGGGGCTGGCTC
*
806856 TCGGTTATTCAGACCAAAAATAGAAAAAAAAATATCAAATCAATACAACTAGATTTTTCAGCAAT
261 TCAGTTATTCAGACCAAAAATAGAAAAAAAAATATCAAATCAATACAACTAGATTTTTCAGCAAT
806921 CAAACGGGTGAAGGTATTCTTATGTTAATGTGTGTTTTTTTCTTTGTTCGTTCCTAGTTCTGTGC
326 CAAACGGGTGAAGGTATTCTTATGTTAATGTGTGTTTTTTTCTTTGTTCGTTCCTAGTTCTGTGC
806986 TTAAAAAAAACGTAAATAAAATAGATATAAGGGTTGAAATTTACCTTGCTACTGGTGTTAGTCGG
391 TT-AAAAAAACGTAAATAAAATAGATATAAGGGTTGAAATTTACCTTGCTACTGGTGTTAGTCGG
*
807051 AGTATTTTGTCATTGGAGAGGGGAGTGTGTCGTCGGTTTTTGGTTAGGGTAGAAGAACCACCGTA
455 AGTATTTTGTCATTGGAGAGGGGAGTGTGTCGTCGGTTTTTGGTTAGGGTAGAAGAACAACCGTA
**
807116 TATGGTGGTTGTTTGTGGTTGGGTAGTGGTCGAATAAGTTGAGAGAGGAGAGGAAAATTGGGGGT
520 TATGGTGGTTGTTTGTGGTTGGGTAGTGGTCGAATAAGTTGAGAGAGGAGAGGAAAATCAGGGGT
*
807181 TTAAAGTTTTCTTTAGATGTTTAGTACTTCGATCGGTCGGAGTTAGGATCTTGGGGTCTCGGTCG
585 TTAAAGTTTTCTTTAGATGTTTAGTACTCCGATCGGTCGGAGTTAGGATCTTGGGGTCTCGGTCG
*
807246 AACTAGAACTACCACCCATGTAGGGTGGCCGAGGCAGTGAAGGCTTGAGG
650 AACTAGAACGACCACCCATGTAGGGTGGCCGAGGCAGTGAAGGCTTGAGG
807296 GTAACCACCATTTTTCATAACCCAACAGAACCCTAACCTAACTATACCCTAGAGATATCATGCCT
1 GTAACCACCATTTTTCATAACCCAACAGAACCCTAACCTAACTATACCCTAGAGATATCATGCCT
*
807361 TCAGCTGTCACCGTCATTTCCCAAGCCTCCTGCAGAGATATCAACAAAACCCCGTAATATCCGGG
66 TCAGCTGTCACCGCCATTTCCCAAGCCTCCTGCAGAGATATCAACAAAACCCCGTAATATCCGGG
* *
807426 GTATTAAAAGCATACGATCATCAACACAATAGCACCACAGTAGATATAGGATTGTTTTTATTTGT
131 GTATTAAAAGCATACCATCATCAACACAATAGCACCACAATAGATATAGGATTGTTTTTATTTGT
* *
807491 TTTTTTATACCTATGTAAATCGGTTATAAGAACCAAACCATGTAACAAGAGCAGGGGTCTGGCTC
196 TTTTTTAAACCTATGTAAATCGGTTATAAGAACCAAACCATGTAACAAGAGCAGGGGGCTGGCTC
*
807556 TCAGTTATTCAGACCAAAAATAG-AAAAAAAATATCAAATCAATATAACTAGATTTTTCAGCAAT
261 TCAGTTATTCAGACCAAAAATAGAAAAAAAAATATCAAATCAATACAACTAGATTTTTCAGCAAT
* * *
807620 CAAACGGGTGAATGTATTCTTATGTTAATGTGTGTTTTTTTCTTTGTTTGTTCTTAGTTCTGTGC
326 CAAACGGGTGAAGGTATTCTTATGTTAATGTGTGTTTTTTTCTTTGTTCGTTCCTAGTTCTGTGC
807685 TT-AAAAAACGTAAATAAAATAGATATAAGGGTTGAAATTTACCTTGCTACTGGTGTTAGTCGGA
391 TTAAAAAAACGTAAATAAAATAGATATAAGGGTTGAAATTTACCTTGCTACTGGTGTTAGTCGGA
*
807749 GTATTTTGTCATTGGAGAGGGGAGTGTGTCGTCGGTTTTTGGTTAGGGTAGAAGAACAATCGTAT
456 GTATTTTGTCATTGGAGAGGGGAGTGTGTCGTCGGTTTTTGGTTAGGGTAGAAGAACAACCGTAT
807814 ATGGTGGTTGTTTGTGGTTGGGTAGTGGTCGAATAAGTTGAGAGAGGAGAGGAAAATCAGGGGTT
521 ATGGTGGTTGTTTGTGGTTGGGTAGTGGTCGAATAAGTTGAGAGAGGAGAGGAAAATCAGGGGTT
807879 TAAAGTTTTCTTTAGATGTTTAGTACTCCGATCGGTCGGAGTTAGGATCTTGGGGTCTCGGTCGA
586 TAAAGTTTTCTTTAGATGTTTAGTACTCCGATCGGTCGGAGTTAGGATCTTGGGGTCTCGGTCGA
*
807944 ACTAGAACGACCACCTATGTAGGGTGGCCGAGGCAGTGAAGGCTTGAGG
651 ACTAGAACGACCACCCATGTAGGGTGGCCGAGGCAGTGAAGGCTTGAGG
807993 GT
1 GT
807995 GAGGGACTGT
Statistics
Matches: 678, Mismatches: 21, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
697 301 0.44
699 104 0.15
700 273 0.40
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (699 bp):
GTAACCACCATTTTTCATAACCCAACAGAACCCTAACCTAACTATACCCTAGAGATATCATGCCT
TCAGCTGTCACCGCCATTTCCCAAGCCTCCTGCAGAGATATCAACAAAACCCCGTAATATCCGGG
GTATTAAAAGCATACCATCATCAACACAATAGCACCACAATAGATATAGGATTGTTTTTATTTGT
TTTTTTAAACCTATGTAAATCGGTTATAAGAACCAAACCATGTAACAAGAGCAGGGGGCTGGCTC
TCAGTTATTCAGACCAAAAATAGAAAAAAAAATATCAAATCAATACAACTAGATTTTTCAGCAAT
CAAACGGGTGAAGGTATTCTTATGTTAATGTGTGTTTTTTTCTTTGTTCGTTCCTAGTTCTGTGC
TTAAAAAAACGTAAATAAAATAGATATAAGGGTTGAAATTTACCTTGCTACTGGTGTTAGTCGGA
GTATTTTGTCATTGGAGAGGGGAGTGTGTCGTCGGTTTTTGGTTAGGGTAGAAGAACAACCGTAT
ATGGTGGTTGTTTGTGGTTGGGTAGTGGTCGAATAAGTTGAGAGAGGAGAGGAAAATCAGGGGTT
TAAAGTTTTCTTTAGATGTTTAGTACTCCGATCGGTCGGAGTTAGGATCTTGGGGTCTCGGTCGA
ACTAGAACGACCACCCATGTAGGGTGGCCGAGGCAGTGAAGGCTTGAGG
Found at i:808789 original size:2 final size:2
Alignment explanation
Indices: 808782--808821 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
808772 TATGTGTATT
808782 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
808822 AATGCTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:823807 original size:24 final size:24
Alignment explanation
Indices: 823729--823814 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
823719 TTCGATTTGA
* *
823729 ATTCTGTTATGATATC-TAACCTGG
1 ATTCTGATATGATA-CATGACCTGG
* **
823753 ATTCTGATATGATA-TTGATATGG
1 ATTCTGATATGATACATGACCTGG
* *
823776 ATTTTGATTTGATACATGACCTGG
1 ATTCTGATATGATACATGACCTGG
*
823800 ATTCTGATCTGATAC
1 ATTCTGATATGATAC
823815 TTAACTTGAA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 17 0.35
24 32 0.65
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.42
Consensus pattern (24 bp):
ATTCTGATATGATACATGACCTGG
Found at i:828508 original size:24 final size:24
Alignment explanation
Indices: 828432--828522 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
828422 TCCGATTTGA
* *
828432 ATTCTGTTATGATACTTGATCTGG
1 ATTCTGATATGATACTTGACCTGG
* * **
828456 ATTTTGATCTGATA-TTGATATGG
1 ATTCTGATATGATACTTGACCTGG
*
828479 ATTCTGATATGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
828503 ATTCTGATCTGATACCTGAC
1 ATTCTGATATGATACTTGAC
828523 TTGAATTATG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 20 0.36
24 35 0.64
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:829759 original size:8 final size:8
Alignment explanation
Indices: 829743--829843 Score: 77
Period size: 8 Copynumber: 12.9 Consensus size: 8
829733 AGAATGAATG
829743 AATGAAAAA
1 AATG-AAAA
829752 AATGAAAA
1 AATGAAAA
*
829760 AGTG-AAA
1 AATGAAAA
829767 AA-G-AAA
1 AATGAAAA
*
829773 AATAACAAA
1 AATGA-AAA
**
829782 AATGACTA
1 AATGAAAA
*
829790 AATGAATA
1 AATGAAAA
829798 AATGAAAAA
1 AATG-AAAA
829807 AATGAAAA
1 AATGAAAA
*
829815 AATAAAAA
1 AATGAAAA
*
829823 AAAGAAAA
1 AATGAAAA
829831 AA-GAAAA
1 AATGAAAA
829838 AA-GAAA
1 AATGAAA
829844 TAAAAATGAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
6 6 0.08
7 15 0.19
8 38 0.49
9 18 0.23
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (8 bp):
AATGAAAA
Found at i:829767 original size:16 final size:15
Alignment explanation
Indices: 829749--829843 Score: 68
Period size: 15 Copynumber: 6.2 Consensus size: 15
829739 AATGAATGAA
*
829749 AAAAATGAAAAAGTG
1 AAAAATGAAAAAATG
**
829764 AAAAA-GAAAAATAAC
1 AAAAATGAAAAA-ATG
**
829779 AAAAATGACTAAATG
1 AAAAATGAAAAAATG
829794 AATAAATGAAAAAAATG
1 AA-AAATG-AAAAAATG
* *
829811 AAAAAATAAAAAAAAG
1 -AAAAATGAAAAAATG
*
829827 AAAAAAGAAAAAA-G
1 AAAAATGAAAAAATG
829841 AAA
1 AAA
829844 TAAAAATGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
14 10 0.16
15 24 0.39
16 16 0.26
17 10 0.16
18 2 0.03
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.11
Consensus pattern (15 bp):
AAAAATGAAAAAATG
Done.