Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_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: 3563405
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 16
Found at i:591670 original size:23 final size:23
Alignment explanation
Indices: 591626--591670 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
591616 ATTATTATAT
*
591626 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
591649 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
591671 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:592654 original size:22 final size:22
Alignment explanation
Indices: 592629--592670 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
592619 CAATTCATTT
592629 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
592651 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
592671 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:599200 original size:22 final size:22
Alignment explanation
Indices: 599175--599216 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
599165 CAATTCATTT
599175 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
599197 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
599217 CCAGCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:604691 original size:65 final size:65
Alignment explanation
Indices: 604559--604717 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
604549 GACTCTTAGA
* * *
604559 TGCATCGATGCATTAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTAG
1 TGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTAG
* * *
604623 TGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-TG
1 TGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT-
*
604686 TG
64 AG
*
604688 TGCATCGATGCATGAAATGCATTCGATGTT
1 TGCATCGATGCATCAAATGCATTCGATGTT
604718 CAATTTAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 27 0.32
65 54 0.64
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
TGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTAG
Found at i:604756 original size:65 final size:63
Alignment explanation
Indices: 604559--604758 Score: 192
Period size: 65 Copynumber: 3.1 Consensus size: 63
604549 GACTCTTAGA
* * * ** *
604559 TGCATCGATGCATTAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCTAG
1 TGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCAT-GCTGG
* * *
604623 TGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGTG
1 TGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGCTG
604686 TG
63 -G
* *
604688 TGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGCATCG
1 TGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGC-T-G
604752 G
63 G
604753 TGCATC
1 TGCATC
604759 ACACTAAAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 49 0.44
65 54 0.48
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (63 bp):
TGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGCTGG
Found at i:607792 original size:72 final size:72
Alignment explanation
Indices: 607705--607842 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 72
607695 CTGGATCGAC
** *
607705 GACATTCAGTAAACTCACTTCGTTTAAGCACCAAGAGA-GTAAACAAAGCAACAC-AAACCCAGG
1 GACATTCAACAAACTCACTTCATTTAAGCACCAAGAGACG-AAACAAAGCAACACAAAACCC-GG
607768 AAAGACGAT
64 AAAGACGAT
* * *
607777 GACATTCAACAAACTCACTTCATTTAAGCACCCAGGGACGAAACAGAGCAACACAAAACCCGGAA
1 GACATTCAACAAACTCACTTCATTTAAGCACCAAGAGACGAAACAAAGCAACACAAAACCCGGAA
607842 A
66 A
607843 AGATGAGCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
72 51 0.88
73 7 0.12
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (72 bp):
GACATTCAACAAACTCACTTCATTTAAGCACCAAGAGACGAAACAAAGCAACACAAAACCCGGAA
AGACGAT
Found at i:611286 original size:26 final size:24
Alignment explanation
Indices: 611220--611286 Score: 59
Period size: 25 Copynumber: 2.7 Consensus size: 24
611210 GCAAAAGAGA
*
611220 AAAATATATTATATACGT-TAATAGT
1 AAAATATA-TATATA-ATATAATAGT
611245 AAAATA-ATA-ATAAATATAATAGTT
1 AAAATATATATAT-AATATAATAG-T
611269 ATAAATATATATATAATA
1 A-AAATATATATATAATA
611287 ACTTTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
22 3 0.09
23 9 0.26
24 3 0.09
25 11 0.31
26 7 0.20
27 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (24 bp):
AAAATATATATATAATATAATAGT
Found at i:611318 original size:11 final size:11
Alignment explanation
Indices: 611238--611319 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
611228 TTATATACGT
*
611238 TAATAGTAAAA
1 TAATATTAAAA
*
611249 TAATAATAAATA
1 TAATATTAAA-A
611261 TAATAGTTATAAA
1 TAATA-TTA-AAA
*
611274 T-ATATATATAA
1 TAATAT-TAAAA
611285 TAACT-TTAAAA
1 TAA-TATTAAAA
*
611296 -AACATTAAAA
1 TAATATTAAAA
*
611306 TAATATTAGAA
1 TAATATTAAAA
611317 TAA
1 TAA
611320 ATAATTAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
10 8 0.14
11 28 0.50
12 13 0.23
13 5 0.09
14 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:611839 original size:36 final size:37
Alignment explanation
Indices: 611792--611861 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
611782 AACATAGAAA
*
611792 AATTCTATCCTATTTTT-AGGAG-TTGGATCCTAGCAG
1 AATTCTATCCTATTTTTGA-GAGTTTGAATCCTAGCAG
611828 AATTCTATCCTATTTTTGAGAGTTTGAATCCTAG
1 AATTCTATCCTATTTTTGAGAGTTTGAATCCTAG
611862 TAGGACGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (37 bp):
AATTCTATCCTATTTTTGAGAGTTTGAATCCTAGCAG
Found at i:612633 original size:106 final size:107
Alignment explanation
Indices: 612322--612951 Score: 506
Period size: 109 Copynumber: 5.9 Consensus size: 107
612312 AATATTGTTC
* * *** *
612322 CGAGT-CCAATATCCTCCCCT-GTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGA
1 CGAGTGCCAATATCCTCCGCTCGTGAAGTTGAAATTGGCTCT-GAAATTGGAAAATGTTTGTTGA
* * * * *
612385 -AAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGATGTCT
65 CAA-CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
612428 CGAGT-CTAATATCCTTCGCT-GTGAAGTTGAAATTGACTCTG-AA--CG-AAAT-CTTGTTGAC
1 CGAGTGCCAATATCCTCCGCTCGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATGTTTGTTGAC
* * *
612486 AATCAGCCGTCACTTCATTGTGAAGTTGAACTTGTGTTGTCT
66 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
612528 CGAGT-CCAATATCCTTCGCT-GTGAAATTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTAA
1 CGAGTGCCAATATCCTCCGCTCGTGAAGTTGAAATTGGCTCTGAAA-TTGGAAAATGTTTGTTGA
* *
612591 CAACCAGCTGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
65 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * ** * **
612634 CGAGTGGCTCGATATCCTCC-ATCGTGGAGTTGAAA-TCGCGGATGAAACT-GAAAAGTTGTTCA
1 CGAGT-GC-CAATATCCTCCGCTCGTGAAGTTGAAATTGGC-TCTGAAATTGGAAAA--TGTTTG
* * *
612696 TTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGGACTTGTGTTTTCT
61 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * * ** *
612743 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAGTTGTTCGTT
1 CGAGT-GC-CAATATCCTCCGCTCGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAATGTTTGTT
*
612807 GACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
63 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
612852 CGGGTAG-CATGATATCCTCCG-TCGTGGAGTTGAAATCGGTTCCGAAATTGGGAAAT-TATTGT
1 CGAGT-GCCA--ATATCCTCCGCTCGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATGT-TTGT
*
612914 TGGCAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
62 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
612952 ACTCTAGCTA
Statistics
Matches: 434, Mismatches: 69, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
100 79 0.18
101 7 0.02
102 1 0.00
104 1 0.00
105 5 0.01
106 86 0.20
107 6 0.01
108 49 0.11
109 196 0.45
110 1 0.00
111 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (107 bp):
CGAGTGCCAATATCCTCCGCTCGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATGTTTGTTGAC
AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:612716 original size:109 final size:109
Alignment explanation
Indices: 612480--612951 Score: 512
Period size: 109 Copynumber: 4.4 Consensus size: 109
612470 ACGAAATCTT
* * *
612480 GTTGACAATCAGCCGTCACTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCC
1 GTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCTCGATATCC
* * * * * *
612542 TTCG-CTGTGAAATTGAAATTGGCTCTGAAATTTGAAAA-ATGTTT
66 TCCGTC-GTGGAGTTGAAATCGGCTCTGAAA-TTGAAAAGTTGTTC
* * *
612586 GTTAACAACCAGCTGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCTCGATATCC
1 GTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCTCGATATCC
* ** *
612651 TCCATCGTGGAGTTGAAATC-GCGGATGAAACTGAAAAGTTGTTC
66 TCCGTCGTGGAGTTGAAATCGGC-TCTGAAATTGAAAAGTTGTTC
* * * * * * *
612695 ATTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGGACTTGTGTTTTCTCGGGTAGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCTCGATATCC
* * **
612760 TCCGTCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAGTTGTTC
66 TCCGTCGTGGAGTTGAAATCGGCTCTGAAATTGAAAAGTTGTTC
* * *
612804 GTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCAT-GATATC
1 GTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGC-TCGATATC
* * * *
612868 CTCCGTCGTGGAGTTGAAATCGGTTCCGAAATTGGGAAA-TTATT-
65 CTCCGTCGTGGAGTTGAAATCGGCTCTGAAATT-GAAAAGTTGTTC
* *
612912 GTTGGCAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
1 GTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTG
612952 ACTCTAGCTA
Statistics
Matches: 312, Mismatches: 45, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
106 49 0.16
108 47 0.15
109 210 0.67
110 6 0.02
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (109 bp):
GTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCTCGATATCC
TCCGTCGTGGAGTTGAAATCGGCTCTGAAATTGAAAAGTTGTTC
Found at i:613620 original size:36 final size:36
Alignment explanation
Indices: 613563--613750 Score: 135
Period size: 36 Copynumber: 5.4 Consensus size: 36
613553 AAATACTTTG
* * * *
613563 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* *
613599 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * * *
613635 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT
*
613663 ATGTTTC-AGGAGAAACTATCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGG-GAAACTATCTCAAGAGAGACAAAA-TT
613701 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
613737 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
613751 TGTTTCCATA
Statistics
Matches: 116, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
28 5 0.04
29 11 0.09
30 2 0.02
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.02
36 59 0.51
37 29 0.25
38 5 0.04
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:613715 original size:37 final size:36
Alignment explanation
Indices: 613664--613750 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 36
613654 TCAATGTTTA
*
613664 TGTTTC-AGGAGAAACTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGG-GAAACTATCTCAAGAGAGACAAAA-TT
613701 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
613737 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
613751 TGTTTCCATA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 14 0.30
37 29 0.63
38 3 0.07
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:613736 original size:102 final size:101
Alignment explanation
Indices: 613563--613755 Score: 332
Period size: 102 Copynumber: 1.9 Consensus size: 101
613553 AAATACTTTG
* * *
613563 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATTTGTTTCAAGGGAAATTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
613628 CGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
613664 TGTTTCAGGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAG
613729 ACAAAATTCATTTCAAGGGAAATGTTT
65 ACAAAATTCATTTCAAGGGAAATGTTT
613756 CCATAGAAAC
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
101 31 0.36
102 55 0.64
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:613756 original size:50 final size:50
Alignment explanation
Indices: 613701--613801 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
613691 GACAAAATTT
*
613701 TGTTTCAAGGGAAACTATCTC-AAGAGAGACAAAATTCATTTCAAGGGAAA
1 TGTTTCAAGAGAAACTATCTCAAAG-GAGACAAAATTCATTTCAAGGGAAA
* * * **
613751 TGTTTCCATAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTATCTCAAAGGAGACAAAATTCATTTCAAGGGAAA
613801 T
1 T
613802 AAACTCAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
50 41 0.93
51 3 0.07
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (50 bp):
TGTTTCAAGAGAAACTATCTCAAAGGAGACAAAATTCATTTCAAGGGAAA
Found at i:613840 original size:31 final size:31
Alignment explanation
Indices: 613805--613932 Score: 73
Period size: 31 Copynumber: 3.9 Consensus size: 31
613795 GGGAAATAAA
613805 CTCAAA-GATTTTGTGTTTCAAGAGAAACTGT
1 CTCAAACGATTTTGTGTTTCAAGAGAAACT-T
** * * *
613836 CTCAAGGGAGACGAAATT-TATTTCAAGGGAAACAAT
1 CTC-A---A-ACGATTTTGTGTTTCAAGAGAAAC-TT
*
613872 CTCAAA-GGTTTTGTGTTTCAAGAGAAACATT
1 CTCAAACGATTTTGTGTTTCAAGAGAAAC-TT
* * *
613903 TTCAAAGGTTTTTTGTGTTTCAAGAGAAAC
1 CTCAAACG-ATTTTGTGTTTCAAGAGAAAC
613933 AATTTCAAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
30 3 0.04
31 24 0.32
32 3 0.04
33 20 0.27
35 2 0.03
36 18 0.24
37 4 0.05
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (31 bp):
CTCAAACGATTTTGTGTTTCAAGAGAAACTT
Found at i:613860 original size:67 final size:67
Alignment explanation
Indices: 613751--613899 Score: 226
Period size: 67 Copynumber: 2.2 Consensus size: 67
613741 TCAAGGGAAA
* * * *
613751 TGTTTCCATAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAATAAACTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTATTTCAAGGGAAACAAACTCAAAGATTT
613816 TG
66 TG
* * * *
613818 TGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAATTTATTTCAAGGGAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTATTTCAAGGGAAACAAACTCAAAGATTT
613883 TG
66 TG
613885 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
613900 ATTTTCAAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTATTTCAAGGGAAACAAACTCAAAGATTT
TG
Found at i:613959 original size:36 final size:33
Alignment explanation
Indices: 613856--613968 Score: 158
Period size: 33 Copynumber: 3.4 Consensus size: 33
613846 ACGAAATTTA
* *
613856 TTTCAAGGGAAACAATCTCAAAGG--TTTTGTG
1 TTTCAAGAGAAACAATTTCAAAGGTTTTTTGTG
*
613887 TTTCAAGAGAAACATTTTCAAAGGTTTTTTGTG
1 TTTCAAGAGAAACAATTTCAAAGGTTTTTTGTG
613920 TTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTGTG
1 TTTCAAGAGAAACAATTTCAAAGG--T-TTTTTGTG
613956 TTTCAAGAGAAAC
1 TTTCAAGAGAAAC
613969 TGTATCAAGG
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 21 0.29
33 30 0.41
35 1 0.01
36 21 0.29
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (33 bp):
TTTCAAGAGAAACAATTTCAAAGGTTTTTTGTG
Found at i:614066 original size:38 final size:36
Alignment explanation
Indices: 614009--614365 Score: 185
Period size: 36 Copynumber: 10.4 Consensus size: 36
613999 CAAGGATTGA
*
614009 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
614046 TGTTTTAAGAAAAACATGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
* *
614083 TGTTTCAAGAGAAACTGTCTCAAAAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
614119 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
614148 TGTTTCAAGGGAAACTGTTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
614177 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
614214 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
614250 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
614278 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
614316 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
614352 CATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
614366 TGTTTTCAAT
Statistics
Matches: 252, Mismatches: 38, Indels: 61
0.72 0.11 0.17
Matches are distributed among these distances:
28 3 0.01
29 34 0.13
30 28 0.11
32 3 0.01
33 3 0.01
34 2 0.01
35 5 0.02
36 90 0.36
37 65 0.26
38 19 0.08
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:614173 original size:30 final size:30
Alignment explanation
Indices: 614137--614195 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
614127 GTAAAACATA
*
614137 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
*
614167 TTCAAAGTTTATGTTTCAATAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
614196 CTCAAAGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:614341 original size:102 final size:102
Alignment explanation
Indices: 614150--614454 Score: 504
Period size: 102 Copynumber: 3.0 Consensus size: 102
614140 AAAGATTTTG
* * *
614150 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
614214 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
614252 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
614317 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
614354 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT
* * *
614419 CTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
65 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
614455 CTTGTTTTAA
Statistics
Matches: 192, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
101 46 0.24
102 111 0.58
103 3 0.02
104 32 0.17
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:614927 original size:18 final size:18
Alignment explanation
Indices: 614900--614935 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
614890 TGTTGAATCC
* *
614900 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
614918 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
614936 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:615376 original size:22 final size:22
Alignment explanation
Indices: 615350--615400 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
615340 TTGTGTTTGG
615350 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
615372 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
615394 TCAAAGG
1 TCAAAGG
615401 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:616034 original size:20 final size:21
Alignment explanation
Indices: 616008--616069 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
615998 CTTTTTGTTC
*
616008 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTATTCTTGTTCTTT
* *
616029 -CTTTTTTGTTCTTGTTTTTT
1 CCTTTTTTATTCTTGTTCTTT
*
616049 CCTTTTTTGCTTCTT-TTCTTT
1 CCTTTTTT-ATTCTTGTTCTTT
616070 TTTCTTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 12 0.35
22 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (21 bp):
CCTTTTTTATTCTTGTTCTTT
Found at i:616080 original size:22 final size:22
Alignment explanation
Indices: 616026--616078 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
616016 ATTTTTGTTC
616026 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
* *
616047 TTCCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGT-TTT
616070 TTTCTTTTT
1 TTTCTTTTT
616079 GCCCTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:619688 original size:11 final size:11
Alignment explanation
Indices: 619609--619689 Score: 51
Period size: 11 Copynumber: 7.3 Consensus size: 11
619599 ATTTATACGT
*
619609 TAATAGTAAAA
1 TAATATTAAAA
* *
619620 TAATAATAATA
1 TAATATTAAAA
619631 TAATAGTTATAAA
1 TAATA-TTA-AAA
*
619644 T-ATATATATAA
1 TAATAT-TAAAA
619655 TAACT-TTAAAA
1 TAA-TATTAAAA
*
619666 -AACATTAAAA
1 TAATATTAAAA
*
619676 TAATATTAGAA
1 TAATATTAAAA
619687 TAA
1 TAA
619690 AAATAATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
10 8 0.15
11 33 0.61
12 9 0.17
13 4 0.07
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:620216 original size:36 final size:37
Alignment explanation
Indices: 620169--620238 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
620159 AACATAGAAA
*
620169 AATTCTATCCTATTTTT-AGGAG-TTGGATCCTAGCAG
1 AATTCTATCCTATTTTTGA-GAGTTTGAATCCTAGCAG
620205 AATTCTATCCTATTTTTGAGAGTTTGAATCCTAG
1 AATTCTATCCTATTTTTGAGAGTTTGAATCCTAG
620239 TAGGACGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (37 bp):
AATTCTATCCTATTTTTGAGAGTTTGAATCCTAGCAG
Found at i:620795 original size:23 final size:22
Alignment explanation
Indices: 620741--620826 Score: 81
Period size: 24 Copynumber: 3.9 Consensus size: 22
620731 TTTGCAAAAA
* *
620741 TTTTCGGATAAAAATCCAGTTT
1 TTTTCGGATAAAAAACCGGTTT
*
620763 TTTT---AAAAAAAACCGGATTT
1 TTTTCGGATAAAAAACCGG-TTT
620783 TTTTCGGATAAAAAACCGGTTT
1 TTTTCGGATAAAAAACCGGTTT
620805 TTTATCCGG-TAAAAAAACCGGT
1 TTT-T-CGGAT-AAAAAACCGGT
620827 CGTTCAATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.17
20 7 0.13
22 10 0.19
23 13 0.25
24 14 0.26
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (22 bp):
TTTTCGGATAAAAAACCGGTTT
Found at i:620818 original size:22 final size:23
Alignment explanation
Indices: 620741--620825 Score: 74
Period size: 23 Copynumber: 3.8 Consensus size: 23
620731 TTTGCAAAAA
* *
620741 TTTTCGGATAAAAATCCAG-TTT
1 TTTTCGGATAAAAAACCGGATTT
*
620763 TTTT---AAAAAAAACCGGATTT
1 TTTTCGGATAAAAAACCGGATTT
620783 TTTTCGGATAAAAAACCGG-TTT
1 TTTTCGGATAAAAAACCGGATTT
620805 TTTATCCGG-TAAAAAAACCGG
1 TTT-T-CGGAT-AAAAAACCGG
620826 TCGTTCAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
19 9 0.17
20 7 0.13
22 10 0.19
23 13 0.25
24 13 0.25
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (23 bp):
TTTTCGGATAAAAAACCGGATTT
Found at i:629365 original size:2 final size:2
Alignment explanation
Indices: 629358--629383 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
629348 CTAACAATTT
629358 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
629384 GAAATTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:633134 original size:78 final size:78
Alignment explanation
Indices: 633004--633159 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
632994 GATGACATTA
*
633004 GGACAACTCTAAACGATCCCCCAACATATTTACATCAACTTTTTAATCGAGACTGTATGGAGTCC
1 GGACAACTCTAAACGATCCCCCAACATATTTACATCAACTTTTTAATCGAGACTGTATGGAATCC
633069 CTGTATTGCAAGC
66 CTGTATTGCAAGC
* * *
633082 GGACAACTCTAAACGATCCCTCAACATATTTACATCAACTTTTTAATTGAGACTGTATGGAATTC
1 GGACAACTCTAAACGATCCCCCAACATATTTACATCAACTTTTTAATCGAGACTGTATGGAATCC
633147 CTGTATTGCAAGC
66 CTGTATTGCAAGC
633160 CTACTGAGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (78 bp):
GGACAACTCTAAACGATCCCCCAACATATTTACATCAACTTTTTAATCGAGACTGTATGGAATCC
CTGTATTGCAAGC
Found at i:637116 original size:91 final size:91
Alignment explanation
Indices: 636959--637144 Score: 336
Period size: 91 Copynumber: 2.0 Consensus size: 91
636949 AAGAATCAAA
* *
636959 TTTGGTCATACTTGTTAGACAACCTCAAATATAAGATTTAAAAGATATTAATTTATTTATCTTTT
1 TTTGGTCATACTTGTTAAACAACCTCAAATATAAGATTTAAAAGATATTAATTTATTTATCATTT
637024 TTTATATTAGTTCAAGTGGTAAGTAG
66 TTTATATTAGTTCAAGTGGTAAGTAG
637050 TTTGGTCATACTTGTTAAACAACCTCAAATATAAGATTTAAAAGATATTAATTTATTTATCATTT
1 TTTGGTCATACTTGTTAAACAACCTCAAATATAAGATTTAAAAGATATTAATTTATTTATCATTT
* *
637115 TTTATATTGGTTTAAGTGGTAAGTAG
66 TTTATATTAGTTCAAGTGGTAAGTAG
637141 TTTG
1 TTTG
637145 ATATCGTTTA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (91 bp):
TTTGGTCATACTTGTTAAACAACCTCAAATATAAGATTTAAAAGATATTAATTTATTTATCATTT
TTTATATTAGTTCAAGTGGTAAGTAG
Found at i:644324 original size:19 final size:19
Alignment explanation
Indices: 644300--644342 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 19
644290 ATTAGTTCAC
644300 TAAAATATTATCCATTTCT
1 TAAAATATTATCCATTTCT
644319 T-AAA-A-TATCCATTTCT
1 TAAAATATTATCCATTTCT
644335 TAAAATAT
1 TAAAATAT
644343 CCATTTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
16 12 0.57
17 4 0.19
18 4 0.19
19 1 0.05
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATATTATCCATTTCT
Found at i:644327 original size:16 final size:16
Alignment explanation
Indices: 644308--644348 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
644298 ACTAAAATAT
644308 TATCCATTTCTTAAAA
1 TATCCATTTCTTAAAA
644324 TATCCATTTCTTAAAA
1 TATCCATTTCTTAAAA
644340 TATCCATTT
1 TATCCATTT
644349 ACATTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (16 bp):
TATCCATTTCTTAAAA
Found at i:645098 original size:4 final size:4
Alignment explanation
Indices: 645083--645121 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
645073 GGGAAAAAAT
* * *
645083 ATAC ACAC ATAC ATAC ATAC ATAT ACAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
645122 TATATTGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:645110 original size:20 final size:20
Alignment explanation
Indices: 645087--645126 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
645077 AAAAATATAC
645087 ACACATACATACATACATAT
1 ACACATACATACATACATAT
*
645107 ACACATACATACATATATAT
1 ACACATACATACATACATAT
645127 TGTATGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (20 bp):
ACACATACATACATACATAT
Found at i:645112 original size:16 final size:16
Alignment explanation
Indices: 645093--645123 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
645083 ATACACACAT
645093 ACATACATACATATAC
1 ACATACATACATATAC
645109 ACATACATACATATA
1 ACATACATACATATA
645124 TATTGTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (16 bp):
ACATACATACATATAC
Found at i:648800 original size:64 final size:65
Alignment explanation
Indices: 648729--648892 Score: 183
Period size: 64 Copynumber: 2.6 Consensus size: 65
648719 CATCCGTTGA
* * *
648729 CGGGTGCATCGATGCATTA-TCTATGCATCGGTACA-TAAATCCCATTCGATGTTTGTATTTT-A
1 CGGGTGCATCGATGCACTACT-TATGCATCGATACACT-AATCACATTCGATGTTTGTATTTTAA
648791 AG
64 AG
* * * *
648793 CGGGTGCATCGATGCACTACTTGTGCATCGATACACTGATGACATTCGATGTTTTTATTTTAAAG
1 CGGGTGCATCGATGCACTACTTATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
* * * *
648858 -GAGTGCATCGATACACTCCATATGCATCGATACAC
1 CGGGTGCATCGATGCACTACTTATGCATCGATACAC
648893 CTTGAACAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
64 80 0.94
65 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (65 bp):
CGGGTGCATCGATGCACTACTTATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
Found at i:655319 original size:2 final size:2
Alignment explanation
Indices: 655314--655343 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
655304 TATATATATA
655314 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
655344 CATGAATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:656297 original size:40 final size:40
Alignment explanation
Indices: 656224--656563 Score: 248
Period size: 41 Copynumber: 8.3 Consensus size: 40
656214 AAAACCTAAG
* * * *
656224 TTTAGAGGCGTTTGTATACAAACGCCACAAAAGATCTTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGATCTTAC
* *
656264 TTTAGTGGCGTTTGTATACAAACGCTGCTAAAGAT-TAGTA-
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGATCT--TAC
* * * *
656304 TTGTAGTGGCATTTTTACACAAACGCCGGTATAGAATCGTT-C
1 TT-TAGTGGCGTTTTTATACAAACGCCGCTAAAG-ATC-TTAC
* *
656346 TTTAAG-GGCGTTTTTAAACAAACGCCGCTAAAGACTCGTAC
1 TTT-AGTGGCGTTTTTATACAAACGCCGCTAAAGA-TCTTAC
* * *
656387 TTTAGTGGCGTTTTTATA-AAAGCGCTGCTATAA-CTCATAC
1 TTTAGTGGCGTTTTTATACAAA-CGCCGCTA-AAGATCTTAC
* * * * *
656427 TTTACTGGCGTTTTTATAAAAACACTGCTATAA-CTCATT-C
1 TTTAGTGGCGTTTTTATACAAACGCCGCTA-AAGATC-TTAC
* * *
656467 TTTAGTGGCGTTTTTGTTTACAAACGTCGCTATAGA-CTTGTAC
1 TTTAGTGGCG-TTTT-TATACAAACGCCGCTAAAGATC-T-TAC
* *
656510 TTTAGTGGCGTTTTTATACAAACGCCGCAAAAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGA-TCTTAC
656551 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
656564 GTACCGCAAA
Statistics
Matches: 242, Mismatches: 36, Indels: 43
0.75 0.11 0.13
Matches are distributed among these distances:
39 1 0.00
40 85 0.35
41 118 0.49
42 25 0.10
43 12 0.05
44 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (40 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGATCTTAC
Found at i:656518 original size:43 final size:42
Alignment explanation
Indices: 656183--656563 Score: 245
Period size: 41 Copynumber: 9.3 Consensus size: 42
656173 TAGCGGCATT
* * * *
656183 TTTAGCGGCGTTTTTTGA-ACAAACGCCGAAAAAAAC-C-TAAG
1 TTTAGTGGCGTTTTTT-ATACAAACGCCGCAAAAGACTCGT-AC
* * * *
656224 TTTAGAGGCG-TTTGTATACAAACGCCACAAAAGA-TCTTAC
1 TTTAGTGGCGTTTTTTATACAAACGCCGCAAAAGACTCGTAC
* * * * *
656264 TTTAGTGGCG-TTTGTATACAAACGCTGCTAAAGATTAGTA-
1 TTTAGTGGCGTTTTTTATACAAACGCCGCAAAAGACTCGTAC
* * ** * * *
656304 TTGTAGTGGC-ATTTTTACACAAACGCCGGTATAGAATCGTTC
1 TT-TAGTGGCGTTTTTTATACAAACGCCGCAAAAGACTCGTAC
* *
656346 TTTAAG-GGCG-TTTTTAAACAAACGCCGCTAAAGACTCGTAC
1 TTT-AGTGGCGTTTTTTATACAAACGCCGCAAAAGACTCGTAC
* * * *
656387 TTTAGTGGCG-TTTTTATA-AAAGCGCTGCTATA-ACTCATAC
1 TTTAGTGGCGTTTTTTATACAAA-CGCCGCAAAAGACTCGTAC
* * * * * * * *
656427 TTTACTGGCG-TTTTTATAAAAACACTGCTATA-ACTCATTC
1 TTTAGTGGCGTTTTTTATACAAACGCCGCAAAAGACTCGTAC
* * * * *
656467 TTTAGTGGCGTTTTTGTTTACAAACGTCGCTATAGACTTGTAC
1 TTTAGTGGCGTTTTT-TATACAAACGCCGCAAAAGACTCGTAC
656510 TTTAGTGGCG-TTTTTATACAAACGCCGCAAAAGACTCGTAC
1 TTTAGTGGCGTTTTTTATACAAACGCCGCAAAAGACTCGTAC
656551 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
656564 GTACCGCAAA
Statistics
Matches: 278, Mismatches: 46, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.00
40 106 0.38
41 133 0.48
42 23 0.08
43 15 0.05
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (42 bp):
TTTAGTGGCGTTTTTTATACAAACGCCGCAAAAGACTCGTAC
Found at i:659879 original size:21 final size:21
Alignment explanation
Indices: 659837--659894 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
659827 TGATTTATTA
**
659837 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
659858 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
659879 -TATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
659895 ATTGGAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:660134 original size:43 final size:43
Alignment explanation
Indices: 660087--660270 Score: 134
Period size: 43 Copynumber: 4.3 Consensus size: 43
660077 ACCAGATCTT
* *
660087 TTGCGGTGTTTGCGGGAAAAAAGTCACTAAATCTAAAGACCTA
1 TTGCGGCGTTTGCGGGAAAAAAGTCACTAAATCTAAACACCTA
* * * *
660130 TTGCGGCGTTTGTGGGAAAAACGTCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGCGGGAAAAAAGTCACTAAATCTAAACACCTA
* * ** * * * * * * *
660173 TTGTGACGTTTGTTGGAAAAATGCCGCCAAATATCAACATCTA
1 TTGCGGCGTTTGCGGGAAAAAAGTCACTAAATCTAAACACCTA
* ** * * * * * *
660216 TTGCGGTGTTTGTTGGACAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCGTTTGCGGGAAAAAAGTCACTAAATCTAAACACCTA
660259 TTGCGGCGTTTG
1 TTGCGGCGTTTG
660271 ACCTATATAT
Statistics
Matches: 119, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 119 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
TTGCGGCGTTTGCGGGAAAAAAGTCACTAAATCTAAACACCTA
Found at i:660191 original size:86 final size:86
Alignment explanation
Indices: 660101--660270 Score: 205
Period size: 86 Copynumber: 2.0 Consensus size: 86
660091 GGTGTTTGCG
* * * * * *
660101 GGAAAAAAGTCACTAAATCTAAAGACCTATTGCGGCGTTTGTGGGAAAAACGTCGCTAAATCTCA
1 GGAAAAAAGCCACCAAATATAAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCA
*
660166 ACACCTATTGTGACGTTTGTT
66 ACACCTATTGCGACGTTTGTT
* * * * * * *
660187 GGAAAAATGCCGCCAAATATCAACATCTATTGCGGTGTTTGTTGGACAAACGCCGCTAAATATCA
1 GGAAAAAAGCCACCAAATATAAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCA
*
660252 ACACCTATTGCGGCGTTTG
66 ACACCTATTGCGACGTTTG
660271 ACCTATATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (86 bp):
GGAAAAAAGCCACCAAATATAAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCA
ACACCTATTGCGACGTTTGTT
Found at i:666230 original size:15 final size:15
Alignment explanation
Indices: 666210--666243 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
666200 TTTAAATTAA
666210 ATATAATTATAATAT-
1 ATATAATTA-AATATG
666225 ATATAATTAAATATG
1 ATATAATTAAATATG
666240 ATAT
1 ATAT
666244 GAAAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
ATATAATTAAATATG
Found at i:672857 original size:22 final size:21
Alignment explanation
Indices: 672827--672875 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
672817 TAAAGATAAA
672827 ATATAAAAATGATTATTTAATT
1 ATATAAAAAT-ATTATTTAATT
* * *
672849 ATATTAAAATATTTTTTTATT
1 ATATAAAAATATTATTTAATT
672870 AT-TAAA
1 ATATAAA
672876 TTTTATAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.13
21 11 0.48
22 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATAAAAATATTATTTAATT
Found at i:695584 original size:32 final size:31
Alignment explanation
Indices: 695507--695587 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 31
695497 ATAGTTATAT
* * *
695507 AAAATTTATTGACTA-TTTTATAATAGTTCA
1 AAAATTTAATGATTATTTTTATAATAATTCA
* *
695537 AAAAATTAATAATTATTTTTATAATAATTCA
1 AAAATTTAATGATTATTTTTATAATAATTCA
695568 ATAAATTTAATGATTATTTT
1 A-AAATTTAATGATTATTTT
695588 GTAGGTGACC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 11 0.26
31 15 0.36
32 16 0.38
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (31 bp):
AAAATTTAATGATTATTTTTATAATAATTCA
Found at i:711578 original size:32 final size:30
Alignment explanation
Indices: 711542--711611 Score: 70
Period size: 32 Copynumber: 2.3 Consensus size: 30
711532 TAAACCCGAC
*
711542 TCCGACTCAAATTCAATTTTTTTAATATAAAA
1 TCCGACTCAAACTCAATTTTTTTAA-A-AAAA
* * *
711574 TCCGA-TCCGAACTGATTTTTTTTAAAAAAA
1 TCCGACT-CAAACTCAATTTTTTTAAAAAAA
711604 TCCGACTC
1 TCCGACTC
711612 GATCGGGTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
30 10 0.31
31 3 0.09
32 19 0.59
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (30 bp):
TCCGACTCAAACTCAATTTTTTTAAAAAAA
Found at i:720040 original size:105 final size:105
Alignment explanation
Indices: 719856--720066 Score: 233
Period size: 105 Copynumber: 2.0 Consensus size: 105
719846 GGAAAGTTAA
* * ** * *
719856 TGCTGCTGGAAGTGATGCTAATGCACTGAGTAAGGTGGTTGTTCCTCAATGCGACACTAATGTTC
1 TGCTGCTGGAAGTGATACTAATGCACTGAGTAAGGAGGTTGAGCCTCAATGCAACACTAATGCTC
* ** * * * *
719921 CAGTTATATTAGAGAATATTATTTCTTCTAATGAATCTGC
66 CAGCTATAAAAGAGAACATTAATTCTCCTAATGAAGCTGC
* * ** ** *
719961 TGCTGCTGGAAGTGATACTATTGCACTGATTAAGGAGGTTGAGGTTCAATGCAACTTTACTGCTC
1 TGCTGCTGGAAGTGATACTAATGCACTGAGTAAGGAGGTTGAGCCTCAATGCAACACTAATGCTC
*
720026 CAGCTATAAAAGAGAACCTTAATTCTCCTAATGAAGCTGC
66 CAGCTATAAAAGAGAACATTAATTCTCCTAATGAAGCTGC
720066 T
1 T
720067 AATAAAGAAA
Statistics
Matches: 85, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
105 85 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (105 bp):
TGCTGCTGGAAGTGATACTAATGCACTGAGTAAGGAGGTTGAGCCTCAATGCAACACTAATGCTC
CAGCTATAAAAGAGAACATTAATTCTCCTAATGAAGCTGC
Found at i:724852 original size:25 final size:25
Alignment explanation
Indices: 724817--724871 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
724807 ATTAACGAAT
724817 TAACTTAGCCCCTAAAATAAACATA
1 TAACTTAGCCCCTAAAATAAACATA
*
724842 TAACTTCGCCCCTAAAATAAACATA
1 TAACTTAGCCCCTAAAATAAACATA
724867 TAACT
1 TAACT
724872 CTTAAATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.45, C:0.25, G:0.04, T:0.25
Consensus pattern (25 bp):
TAACTTAGCCCCTAAAATAAACATA
Found at i:727457 original size:2 final size:2
Alignment explanation
Indices: 727450--727493 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
727440 ATGTTTAACA
727450 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
727492 AT
1 AT
727494 TGTTTTCTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:729827 original size:14 final size:13
Alignment explanation
Indices: 729801--729845 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
729791 TGAATGGACT
729801 AAAATAAATAAAAG
1 AAAATAAA-AAAAG
729815 AAAATTAAAAAAAG
1 AAAA-TAAAAAAAG
*
729829 AAAA-AGAAAAAG
1 AAAATAAAAAAAG
729841 AAAAT
1 AAAAT
729846 GAAGGGTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 11 0.39
14 13 0.46
15 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (13 bp):
AAAATAAAAAAAG
Found at i:733756 original size:64 final size:64
Alignment explanation
Indices: 733676--733829 Score: 177
Period size: 64 Copynumber: 2.4 Consensus size: 64
733666 AAGGTGTATT
** * * * *
733676 GATGCATTGGTAGTGCATCGATGCA-CTCTTTCAA-AATAAAAACATCGAATGCAATTCATGCAT
1 GATGCATAAGTAGTGCATCGATGCATCCCATT-AATAAT-AAAACATCGAATACAATTCATGCAC
733739 C
64 C
* ** *
733740 GATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAGAACATCGAATACCTTTTATGCACC
1 GATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCATGCACC
*
733804 GATGCATCAGTAGTGCATCGATGCAT
1 GATGCATAAGTAGTGCATCGATGCAT
733830 ACCTTCATTA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 70 0.91
65 7 0.09
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (64 bp):
GATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCATGCACC
Found at i:734155 original size:12 final size:12
Alignment explanation
Indices: 734137--734170 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
734127 TATATATGTT
734137 CATGTGATATGA
1 CATGTGATATGA
*
734149 TATGTGATATGA
1 CATGTGATATGA
734161 CATGTGATAT
1 CATGTGATAT
734171 TAGAACATGA
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:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:734335 original size:15 final size:15
Alignment explanation
Indices: 734317--734349 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
734307 GAGGGTATAA
734317 TAGTCATTCGGGATG
1 TAGTCATTCGGGATG
734332 TAGTCATTCGGGATG
1 TAGTCATTCGGGATG
734347 TAG
1 TAG
734350 GGGTCCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCATTCGGGATG
Found at i:738215 original size:64 final size:64
Alignment explanation
Indices: 738143--738287 Score: 168
Period size: 64 Copynumber: 2.3 Consensus size: 64
738133 CAATGCATTG
** * **
738143 GTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCATGCATTGATGCATA
1 GTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATACAATTCATGCACCGATGCATA
738206 A
64 A
* ** * *
738207 GTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATACCTTTTATGCACCGATGCATCA
1 GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCATGCACCGATGCATAA
738271 GTAGTGCATCGATGCAT
1 GTAGTGCATCGATGCAT
738288 ACCTTCATTA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
64 65 0.94
65 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (64 bp):
GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCATGCACCGATGCATAA
Found at i:738613 original size:12 final size:12
Alignment explanation
Indices: 738595--738630 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
738585 TATATATGTT
738595 CATGTGATATGA
1 CATGTGATATGA
*
738607 TATGTGATATGA
1 CATGTGATATGA
738619 CATGTGATATGA
1 CATGTGATATGA
738631 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:738652 original size:23 final size:26
Alignment explanation
Indices: 738595--738663 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
738585 TATATATGTT
**
738595 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
738619 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
738644 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
738664 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:738793 original size:15 final size:15
Alignment explanation
Indices: 738775--738807 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
738765 GAGGGTATAA
738775 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
738790 TAGTCTTTCGGGATG
1 TAGTCCTTCGGGATG
738805 TAG
1 TAG
738808 GGGTCCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.36
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:740146 original size:7 final size:7
Alignment explanation
Indices: 740134--740158 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
740124 TTTTCAAGTC
740134 AAAAAAT
1 AAAAAAT
740141 AAAAAAT
1 AAAAAAT
740148 AAAAAAT
1 AAAAAAT
740155 AAAA
1 AAAA
740159 TAAAATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:749745 original size:20 final size:21
Alignment explanation
Indices: 749711--749750 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
749701 CATTTTTTTA
*
749711 ATTTTTTTTTATTAAGAACAT
1 ATTTTTTATTATTAAGAACAT
*
749732 ATTTTTTATT-TTAATAACA
1 ATTTTTTATTATTAAGAACA
749751 CTTTGTATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTTTTATTATTAAGAACAT
Found at i:754491 original size:37 final size:36
Alignment explanation
Indices: 754419--754493 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
754409 AAAGTTGAAT
*
754419 TTTTTTATGATTTTATAATAATTTTTCATAATCTTA
1 TTTTTTATGATTTTATAATAATTTTCCATAATCTTA
* *
754455 TTTTTTATGATTTTTTAATCATATTTCCA-AACTCTTA
1 TTTTTTATGATTTTATAATAAT-TTTCCATAA-TCTTA
754492 TT
1 TT
754494 CTCGTTACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 22 0.65
37 12 0.35
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (36 bp):
TTTTTTATGATTTTATAATAATTTTCCATAATCTTA
Found at i:766967 original size:3 final size:3
Alignment explanation
Indices: 766959--766984 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
766949 ATTAAAAACG
766959 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
766985 TACAAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:768868 original size:22 final size:20
Alignment explanation
Indices: 768817--768868 Score: 52
Period size: 23 Copynumber: 2.5 Consensus size: 20
768807 TAGATTTTAA
768817 ATTATTTT-TAAAATATCTT
1 ATTATTTTATAAAATATCTT
*
768836 AGTTAAATTTATAAAAATATCGTT
1 A-TT-ATTTTAT-AAAATATC-TT
768860 ATTATTTTA
1 ATTATTTTA
768869 ATTAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 4 0.15
22 6 0.23
23 10 0.38
24 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTATTTTATAAAATATCTT
Found at i:769741 original size:2 final size:2
Alignment explanation
Indices: 769734--769779 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
769724 AGAATTGAAT
769734 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA TA
769775 TA TA T
1 TA TA T
769780 CATAATCTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:770523 original size:31 final size:32
Alignment explanation
Indices: 770487--770553 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
770477 TTCTTTTTCA
* *
770487 GTTAAATCGA--TTCTCAAATTTGATATGTTTG
1 GTTAAATCGATCTTCT-AAATTTGACAAGTTTG
770518 GTTAAATCGATCTTCTAAATTTGACAAGTTTG
1 GTTAAATCGATCTTCTAAATTTGACAAGTTTG
770550 GTTA
1 GTTA
770554 GATTGTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 10 0.31
32 18 0.56
33 4 0.12
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.43
Consensus pattern (32 bp):
GTTAAATCGATCTTCTAAATTTGACAAGTTTG
Found at i:782934 original size:33 final size:30
Alignment explanation
Indices: 782897--782969 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
782887 GAGGGGCATT
*
782897 TTGAAGGTCAATATTATCAATGATTGGGACATC
1 TTGAAGGTC-ATATCATC-ATG-TTGGGACATC
* * *
782930 TTGAAGACTCATATCATCATGTTGGGATATT
1 TTGAAG-GTCATATCATCATGTTGGGACATC
782961 TTGAAGGTC
1 TTGAAGGTC
782970 CATTTTGACC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
30 2 0.06
31 14 0.41
32 3 0.09
33 13 0.38
34 2 0.06
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (30 bp):
TTGAAGGTCATATCATCATGTTGGGACATC
Found at i:783015 original size:41 final size:41
Alignment explanation
Indices: 782951--783028 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
782941 TATCATCATG
*
782951 TTGGGATATTTTGAAGGTCCATTT-TGACCAGAAATGAAAAT
1 TTGGGATATTTTGAAGGTCCATTTCAGA-CAGAAATGAAAAT
*
782992 TTGGTATATTTTGAAGG-CACATTTCAGACAGAAATGA
1 TTGGGATATTTTGAAGGTC-CATTTCAGACAGAAATGA
783029 TCCATGAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 1 0.03
41 30 0.91
42 2 0.06
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (41 bp):
TTGGGATATTTTGAAGGTCCATTTCAGACAGAAATGAAAAT
Found at i:784637 original size:137 final size:135
Alignment explanation
Indices: 784365--784625 Score: 339
Period size: 135 Copynumber: 1.9 Consensus size: 135
784355 CAACAAACAA
* *
784365 TTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAAGATATTGAACTCAAATCAATAC
1 TTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAAGATATTGAACTCAAATCAAAAC
* *
784430 AACCAAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTTAAAGCTCAACTTCACAGCGA
66 AAACAAACATTGGATTTCAACTTCACAACGAAGGATATCCAATTTAAAGCTCAACTTCACAGCGA
784495 AGGGG
131 AGGGG
* * * *
784500 TTTTCCAGTTTCATTTAGAG-CTAATTTCAACTTCACGACGAAGGATATTGGACTCGAAA-CAAC
1 TTTTCCAGTTTCATTCAGAGTC-AATTTCAACTTCACAACGAAAGATATTGAACTC-AAATCAA-
* * * * *
784563 AACAATACAACCCTTGGATTTCAACTTCACGATGAAGGATATCCAATTCT-AGGCTCAACTTCA
63 AACAA-ACAAACATTGGATTTCAACTTCACAACGAAGGATATCCAATT-TAAAGCTCAACTTCA
784626 TGATGAAGGG
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
134 1 0.01
135 51 0.47
136 7 0.06
137 48 0.44
138 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (135 bp):
TTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAAGATATTGAACTCAAATCAAAAC
AAACAAACATTGGATTTCAACTTCACAACGAAGGATATCCAATTTAAAGCTCAACTTCACAGCGA
AGGGG
Found at i:784742 original size:124 final size:124
Alignment explanation
Indices: 784576--784805 Score: 345
Period size: 124 Copynumber: 1.9 Consensus size: 124
784566 AATACAACCC
* * * * * **
784576 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCTAGGCTCAACTTCATGATGAAGGGG-TCA
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGAGAA
*
784640 TCCACGATTTCAACTTCACGACGAAGGATATCGTGTACACCAGTAACATTCATCTTTAGA
66 T-CACGATATCAACTTCACGACGAAGGATATCGTGTACACCAGTAACATTCATCTTTAGA
*
784700 TTGGATTTCAACTTCACAACGAATGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGAGAA
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGAGAA
* *
784765 TCACGATATCAACTTCACGACGAAGGATATGGTGTCCACCA
66 TCACGATATCAACTTCACGACGAAGGATATCGTGTACACCA
784806 TCATATTTGT
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
124 92 0.98
125 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (124 bp):
TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGAGAA
TCACGATATCAACTTCACGACGAAGGATATCGTGTACACCAGTAACATTCATCTTTAGA
Found at i:785050 original size:137 final size:137
Alignment explanation
Indices: 784857--785378 Score: 828
Period size: 137 Copynumber: 3.8 Consensus size: 137
784847 TCGTGTCCAT
* *
784857 CAACATCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATATTT
1 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATATTT
* * *
784922 AAAGATGACCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAATTCCTCATCAC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATACACCGATCAGAATTCCTCATCAC
784987 GAAGGAG
131 GAAGGAG
** * *
784994 CAACATCATTCTTAGATAGCCAGACGTCCTCATCGTGAGGGAACCGTGTTATCTCAAATATATTT
1 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATATTT
* *
785059 AAAAATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATACACCGATAAGAATTCCTCATCAC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATACACCGATCAGAATTCCTCATCAC
*
785124 GAAAGAG
131 GAAGGAG
* * *
785131 CAACATAATTCTTAGATAGCCAGACGTCTTCATCACGAAGGAACCATGTTATCTCAAATATCTTT
1 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATATTT
* *
785196 AAAGATGGCCAGACGTCCTCATCACGAAGGAATAATGTCATCCACCGATCAGAATTCCTCATCAC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATACACCGATCAGAATTCCTCATCAC
*
785261 GAAGGAA
131 GAAGGAG
* * * *
785268 CAACATCATTCTTAGATAGCCATATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTC
1 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATATTT
**
785333 AAAGATGGCCAGACGTCCTCATCATAAAGGAACAATGTCATACACC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATACACC
785379 AGTTGGATCT
Statistics
Matches: 353, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
137 353 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (137 bp):
CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATATTT
AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATACACCGATCAGAATTCCTCATCAC
GAAGGAG
Found at i:788890 original size:24 final size:24
Alignment explanation
Indices: 788863--788912 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
788853 GTTTTACAAT
*
788863 ACTAAAGGAGTTTTACATTGTGTA
1 ACTAAAAGAGTTTTACATTGTGTA
788887 ACTAAAAGAGTTTTACATTGTGTA
1 ACTAAAAGAGTTTTACATTGTGTA
788911 AC
1 AC
788913 AAGATCCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (24 bp):
ACTAAAAGAGTTTTACATTGTGTA
Found at i:791024 original size:27 final size:26
Alignment explanation
Indices: 790986--791038 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
790976 AAATTACAGT
* *
790986 TAATATAATTATGTTATTTTAAATTTA
1 TAATATAATTATGATA-ATTAAATTTA
791013 TAATA-AACTTATGATAATTAAATTTA
1 TAATATAA-TTATGATAATTAAATTTA
791039 GTTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (26 bp):
TAATATAATTATGATAATTAAATTTA
Found at i:791066 original size:19 final size:18
Alignment explanation
Indices: 791040--791158 Score: 61
Period size: 19 Copynumber: 6.6 Consensus size: 18
791030 TTAAATTTAG
791040 TTTTTATATTAATTACAA
1 TTTTTATATTAATTACAA
* *
791058 TTATTTATATTATTTATAA
1 TT-TTTATATTAATTACAA
*
791077 TTCTTATATT-A-T--AA
1 TTTTTATATTAATTACAA
* **
791091 TTTGTATATTATAAATT-TGA
1 TTT-T-TA-TATTAATTACAA
791111 TTTTTATATTAATT-CAAA
1 TTTTTATATTAATTAC-AA
* *
791129 TTCTTTATATTATTTATAA
1 TT-TTTATATTAATTACAA
*
791148 TTCTTATATTA
1 TTTTTATATTA
791159 TAAATTTTAT
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
14 4 0.05
15 1 0.01
16 3 0.04
17 10 0.13
18 23 0.29
19 33 0.42
20 4 0.05
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTTATATTAATTACAA
Found at i:791090 original size:14 final size:13
Alignment explanation
Indices: 791067--791104 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
791057 ATTATTTATA
791067 TTAT-TTATAATT
1 TTATATTATAATT
791079 CTTATATTATAATT
1 -TTATATTATAATT
791093 TGTATATTATAA
1 T-TATATTATAA
791105 ATTTGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (13 bp):
TTATATTATAATT
Found at i:791109 original size:15 final size:14
Alignment explanation
Indices: 791071--791109 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
791061 TTTATATTAT
791071 TTATAATTCT-TATA
1 TTATAATT-TGTATA
791085 TTATAATTTGTATA
1 TTATAATTTGTATA
791099 TTATAAATTTG
1 TTAT-AATTTG
791110 ATTTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 16 0.70
15 6 0.26
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (14 bp):
TTATAATTTGTATA
Found at i:791115 original size:71 final size:70
Alignment explanation
Indices: 791031--791174 Score: 222
Period size: 71 Copynumber: 2.0 Consensus size: 70
791021 TTATGATAAT
791031 TAAATTTAGTTTTTATATTAATT-ACAATTATTTATATTATTTATAATTCTTATATTAT-AATTT
1 TAAATTTAGTTTTTATATTAATTCA-AATTATTTATATTATTTATAATTCTTATATTATAAATTT
791094 GTATATTA
65 -TAT-TTA
*
791102 TAAATTT-GATTTTTATATTAATTCAAATTCTTTATATTATTTATAATTCTTATATTATAAATTT
1 TAAATTTAG-TTTTTATATTAATTCAAATTATTTATATTATTTATAATTCTTATATTATAAATTT
791166 TATTTA
65 TATTTA
791172 TAA
1 TAA
791175 TCACTAAATT
Statistics
Matches: 69, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
70 7 0.10
71 56 0.81
72 6 0.09
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (70 bp):
TAAATTTAGTTTTTATATTAATTCAAATTATTTATATTATTTATAATTCTTATATTATAAATTTT
ATTTA
Found at i:791172 original size:13 final size:14
Alignment explanation
Indices: 791138--791174 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
791128 ATTCTTTATA
791138 TTATTTAT-AATTC
1 TTATTTATAAATTC
791151 TTATATTATAAATT-
1 TTAT-TTATAAATTC
791165 TTATTTATAA
1 TTATTTATAA
791175 TCACTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:793822 original size:6 final size:6
Alignment explanation
Indices: 793807--793853 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
793797 ATTATTTATA
* *
793807 ATTAAT ATTAAA ATTAAT ATTAAT ATTAA- CTT-AT ATTAAT A-TAAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
793852 AT
1 AT
793854 AGTTTATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 1 0.03
5 9 0.26
6 24 0.71
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:793823 original size:12 final size:12
Alignment explanation
Indices: 793779--793835 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
793769 TTTATCCCTA
*
793779 TAAAATTTATAT
1 TAAAATTAATAT
793791 TAAAA--AATTATT
1 TAAAATTAA-TA-T
*
793803 TATAATTAATAT
1 TAAAATTAATAT
793815 TAAAATTAATAT
1 TAAAATTAATAT
*
793827 TAATATTAA
1 TAAAATTAA
793836 CTTATATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.03
11 2 0.05
12 30 0.81
13 2 0.05
14 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAAAATTAATAT
Found at i:793828 original size:18 final size:16
Alignment explanation
Indices: 793802--793848 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
793792 AAAAAATTAT
793802 TTATAATTAATATTAAAA
1 TTAT-ATTAATATT-AAA
*
793820 TTAATATTAATATTAAC
1 TT-ATATTAATATTAAA
793837 TTATATTAATAT
1 TTATATTAATAT
793849 AATATAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 10 0.37
17 4 0.15
18 11 0.41
19 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATATTAATATTAAA
Found at i:793908 original size:31 final size:30
Alignment explanation
Indices: 793868--794013 Score: 177
Period size: 31 Copynumber: 4.6 Consensus size: 30
793858 TATAATTTGT
793868 AATTAATATTAATATAAAATATAGTTTATA
1 AATTAATATTAATATAAAATATAGTTTATA
793898 AAGTTAATATTAATATAAAATATAGTTTATA
1 AA-TTAATATTAATATAAAATATAGTTTATA
*
793929 AAGTTAATATTAATATAAACTATA-TGTTATA
1 AA-TTAATATTAATATAAAATATAGT-TTATA
* *
793960 AATTATATAGTATAGTTTATAAAATATAGTTAATA
1 AATTA-ATA-T-TA--ATATAAAATATAGTTTATA
793995 TAATTAATATTAATATAAA
1 -AATTAATATTAATATAAA
794014 CTATCTAGTA
Statistics
Matches: 102, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
30 6 0.06
31 67 0.66
32 1 0.01
33 4 0.04
34 1 0.01
35 17 0.17
36 6 0.06
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.42
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATAGTTTATA
Found at i:794082 original size:21 final size:21
Alignment explanation
Indices: 794030--794082 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
794020 AGTACATTAA
* *
794030 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
* *
794051 TATATATTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
794072 TATAAACTATA
1 TATAAACTATA
794083 TAGTACACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:794176 original size:24 final size:24
Alignment explanation
Indices: 794135--794186 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
794125 ATATATAGTT
*
794135 TATATAGCATATAAATAGATTGTA
1 TATATAGCATATAAATAGATTATA
* *
794159 TATATA-CATATACTATAGGTTATA
1 TATATAGCATATA-AATAGATTATA
794183 TATA
1 TATA
794187 GTTCATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (24 bp):
TATATAGCATATAAATAGATTATA
Found at i:794311 original size:51 final size:51
Alignment explanation
Indices: 794256--794361 Score: 151
Period size: 51 Copynumber: 2.1 Consensus size: 51
794246 TATATATGTT
*
794256 TATATTAATAAAT-TAATATATAGTTTATATATACTAATGAACTATATAATA
1 TATATT-ATAAATATAATATATAGTTTATACATACTAATGAACTATATAATA
* * * *
794307 TATATTTTATATATACTATATAGTTTATACATACTAATGAACTATATAGTA
1 TATATTATAAATATAATATATAGTTTATACATACTAATGAACTATATAATA
794358 TATA
1 TATA
794362 GTTTATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 4 0.08
51 45 0.92
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (51 bp):
TATATTATAAATATAATATATAGTTTATACATACTAATGAACTATATAATA
Found at i:794321 original size:18 final size:18
Alignment explanation
Indices: 794269--794443 Score: 84
Period size: 18 Copynumber: 10.1 Consensus size: 18
794259 ATTAATAAAT
794269 TAATATATAGTTTATATA
1 TAATATATAGTTTATATA
* *
794287 TACTA-AT-G--AACTATA
1 TAATATATAGTTTA-TATA
*
794302 TAATATATATTTTATATA
1 TAATATATAGTTTATATA
* *
794320 TACTATATAGTTTATACA
1 TAATATATAGTTTATATA
* *
794338 TACTA-AT-G--AACTATA
1 TAATATATAGTTTA-TATA
*
794353 TAGTATATAGTTTATATA
1 TAATATATAGTTTATATA
* * **
794371 TACTA-A-CGAACTATATA
1 TAATATATAG-TTTATATA
*
794388 TAATGTATAGTTTATATA
1 TAATATATAGTTTATATA
** * *
794406 TACCACATAGTCTATATA
1 TAATATATAGTTTATATA
794424 T-ATCATATAGTTTATATA
1 TAAT-ATATAGTTTATATA
794442 TA
1 TA
794444 CTAATAAACT
Statistics
Matches: 112, Mismatches: 30, Indels: 29
0.65 0.18 0.17
Matches are distributed among these distances:
14 2 0.02
15 15 0.13
16 7 0.06
17 15 0.13
18 70 0.62
19 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.43
Consensus pattern (18 bp):
TAATATATAGTTTATATA
Found at i:794353 original size:33 final size:33
Alignment explanation
Indices: 794316--794470 Score: 168
Period size: 33 Copynumber: 4.5 Consensus size: 33
794306 ATATATTTTA
* *
794316 TATATACTATATAGTTTATACATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* *
794349 TATATAGTATATAGTTTATATATACTAACGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* * *
794382 TATATATAATGTATAGTTTATATATACCACAT-AGTC
1 --TATATAATATATAGTTTATATATACTA-ATGA-AC
*
794418 TATATATATCATATAGTTTATATATACTAATAAAC
1 TATATA-AT-ATATAGTTTATATATACTAATGAAC
*
794453 TATATAATGTATAGTTTA
1 TATATAATATATAGTTTA
794471 GGGTTTAGGG
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
33 39 0.38
34 8 0.08
35 36 0.35
36 20 0.19
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:794367 original size:51 final size:51
Alignment explanation
Indices: 794272--794375 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
794262 AATAAATTAA
* *
794272 TATATAGTTTATATATACTAATGAACTATATAATATATATTTTATATATAC
1 TATATAGTTTATACATACTAATGAACTATATAATATATAGTTTATATATAC
*
794323 TATATAGTTTATACATACTAATGAACTATATAGTATATAGTTTATATATAC
1 TATATAGTTTATACATACTAATGAACTATATAATATATAGTTTATATATAC
794374 TA
1 TA
794376 ACGAACTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (51 bp):
TATATAGTTTATACATACTAATGAACTATATAATATATAGTTTATATATAC
Found at i:794467 original size:51 final size:50
Alignment explanation
Indices: 794273--794470 Score: 175
Period size: 51 Copynumber: 3.9 Consensus size: 50
794263 ATAAATTAAT
* *
794273 ATATAGTTTATATATACTAATGAACTATATAATATATATTTTATATATAC
1 ATATAGTTTATATATACTAATAAACTATATAATATATAGTTTATATATAC
* * *
794323 TATATAGTTTATACATACTAATGAACTATATAGTATATAGTTTATATATAC
1 -ATATAGTTTATATATACTAATAAACTATATAATATATAGTTTATATATAC
** * * *** * * *
794374 -TA-ACGAACTATATATAATGTATAGTTTATATATACCACATAGTCTATATATATC
1 ATATA-G-TTTATATATACT-AATAAACTATATA-A-TATATAGTTTATATATA-C
*
794428 ATATAGTTTATATATACTAATAAACTATATAATGTATAGTTTA
1 ATATAGTTTATATATACTAATAAACTATATAATATATAGTTTA
794471 GGGTTTAGGG
Statistics
Matches: 112, Mismatches: 27, Indels: 16
0.72 0.17 0.10
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 8 0.07
51 62 0.55
52 1 0.01
53 23 0.21
54 10 0.09
55 3 0.03
56 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (50 bp):
ATATAGTTTATATATACTAATAAACTATATAATATATAGTTTATATATAC
Found at i:794530 original size:7 final size:7
Alignment explanation
Indices: 794520--794632 Score: 71
Period size: 7 Copynumber: 16.9 Consensus size: 7
794510 AAATTATACC
794520 ATATAAT
1 ATATAAT
794527 ATAT-AT
1 ATATAAT
*
794533 AGT-TTAT
1 A-TATAAT
794540 ATAT-AT
1 ATATAAT
794546 ATATAAT
1 ATATAAT
*
794553 ATATAGT
1 ATATAAT
794560 ATATAA-
1 ATATAAT
794566 ATATAA-
1 ATATAAT
794572 ACTATAAT
1 A-TATAAT
* *
794580 ATGTAGT
1 ATATAAT
794587 ATATAA-
1 ATATAAT
794593 ATATAA-
1 ATATAAT
*
794599 ACTATAGT
1 A-TATAAT
*
794607 TTAT-AT
1 ATATAAT
*
794613 ATATAGT
1 ATATAAT
*
794620 ATATACT
1 ATATAAT
794627 ATATAA
1 ATATAA
794633 ATAGTGTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
6 29 0.35
7 54 0.64
8 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:794586 original size:27 final size:27
Alignment explanation
Indices: 794521--794642 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 27
794511 AATTATACCA
* * *
794521 TATAATATATA-TAGTTTATATATATA-
1 TATAATATATAGTA-TATAAATATAAAC
794547 TATAATATATAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
*
794574 TATAATATGTAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* * * *
794601 TATAGTTTATA-TATAT-AGTATATAC
1 TATAATATATAGTATATAAATATAAAC
* *
794626 TAT-ATAAATAGTGTATA
1 TATAATATATAGTATATA
794643 TAGTTCACTA
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
24 4 0.05
25 14 0.18
26 25 0.32
27 36 0.46
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATAAAC
Found at i:794644 original size:2 final size:2
Alignment explanation
Indices: 794520--794631 Score: 68
Period size: 2 Copynumber: 53.5 Consensus size: 2
794510 AAATTATACC
*
794520 AT AT A- AT AT AT AT AGT TT AT AT AT AT AT AT A- AT AT AT AGT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * *
794562 AT AA AT AT AA ACT AT A- AT AT GT AGT AT AT AA AT AT AA ACT AT
1 AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT
*
794604 AGT TT AT AT AT AT AGT AT AT ACT AT AT A
1 A-T AT AT AT AT AT A-T AT AT A-T AT AT A
794632 AATAGTGTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
1 3 0.04
2 70 0.82
3 12 0.14
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:794735 original size:18 final size:18
Alignment explanation
Indices: 794665--794766 Score: 70
Period size: 18 Copynumber: 5.7 Consensus size: 18
794655 AAACTATATA
*
794665 TATAGTTCATATGTAAAC
1 TATAGTTCATATATAAAC
*
794683 TATAGTTCATATGTAAA-
1 TATAGTTCATATATAAAC
*
794700 TATCAACCTT-AGTATATAAAC
1 TAT--A-GTTCA-TATATAAAC
* *
794721 TATAGTTCATATATATAG
1 TATAGTTCATATATAAAC
*
794739 TATA--T-AAATATAAAC
1 TATAGTTCATATATAAAC
*
794754 TATAGTTTATATA
1 TATAGTTCATATA
794767 AATAGTATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
15 11 0.17
16 1 0.02
17 4 0.06
18 34 0.52
19 4 0.06
20 9 0.14
21 3 0.05
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (18 bp):
TATAGTTCATATATAAAC
Found at i:794750 original size:33 final size:32
Alignment explanation
Indices: 794713--794782 Score: 113
Period size: 33 Copynumber: 2.2 Consensus size: 32
794703 CAACCTTAGT
*
794713 ATATAAACTATAGTTCATATATATAGTATATAA
1 ATATAAACTATAGTTCATATAAATAGTATA-AA
*
794746 ATATAAACTATAGTTTATATAAATAGTATAAA
1 ATATAAACTATAGTTCATATAAATAGTATAAA
794778 ATATA
1 ATATA
794783 GTATATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 7 0.20
33 28 0.80
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (32 bp):
ATATAAACTATAGTTCATATAAATAGTATAAA
Found at i:794757 original size:20 final size:20
Alignment explanation
Indices: 794733--794837 Score: 86
Period size: 20 Copynumber: 5.0 Consensus size: 20
794723 TAGTTCATAT
794733 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
794753 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
794778 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
* * **
794798 TTATAGTATGTAGTTTATATAA
1 ATATAGTATATA-AATATA-AA
*
794820 ATATA-AATATAAATATAA
1 ATATAGTATATAAATATAA
794838 CCCTAAATCA
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
19 1 0.01
20 25 0.37
21 9 0.13
22 13 0.19
23 7 0.10
24 1 0.01
25 11 0.16
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:794782 original size:25 final size:23
Alignment explanation
Indices: 794733--794793 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
794723 TAGTTCATAT
794733 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
794753 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
794778 ATATAGTATATAAATA
1 ATATAGTATATAAATA
794794 TAAATTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.15
22 5 0.15
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:794785 original size:12 final size:13
Alignment explanation
Indices: 794746--794795 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
794736 TAGTATATAA
794746 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
794760 TTATATAA-ATAGT
1 ATATA-AATATAGT
794773 ATA-AAATATAGT
1 ATATAAATATAGT
794785 ATATAAATATA
1 ATATAAATATA
794796 AATTATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:794794 original size:29 final size:29
Alignment explanation
Indices: 794762--794830 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
794752 ACTATAGTTT
794762 ATATAAATAGTATAAAATATAG-TATATAA
1 ATATAAATA-TATAAAATATAGTTATATAA
** *
794791 ATATAAAT-TATAGTATGTAGTTTATATAA
1 ATATAAATATATAAAATATAG-TTATATAA
794820 ATATAAATATA
1 ATATAAATATA
794831 AATATAACCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 9 0.26
29 23 0.68
30 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (29 bp):
ATATAAATATATAAAATATAGTTATATAA
Found at i:794889 original size:22 final size:24
Alignment explanation
Indices: 794855--794987 Score: 96
Period size: 26 Copynumber: 5.3 Consensus size: 24
794845 TCATATCTAC
794855 TATATATATATAAACTATATAATT
1 TATATATATATAAACTATATAATT
794879 TATAT-TA-ATAAACTATATAATT
1 TATATATATATAAACTATATAATT
* * *
794901 TATACAATATATATTA-TTTATAATT
1 TATA-TATATATA-AACTATATAATT
*
794926 ATATATAAAATATAAA-TATA-AATT
1 -TATAT-ATATATAAACTATATAATT
*
794950 GTATAGTTTATATATAATTCATATATAATT
1 -TATA---TATATATAA-AC-TATATAATT
794980 TATATATA
1 TATATATA
794988 AACTATGTAG
Statistics
Matches: 86, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
22 19 0.22
23 2 0.02
24 15 0.17
25 15 0.17
26 22 0.26
27 1 0.01
29 8 0.09
30 4 0.05
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (24 bp):
TATATATATATAAACTATATAATT
Found at i:794966 original size:20 final size:20
Alignment explanation
Indices: 794941--795168 Score: 85
Period size: 20 Copynumber: 11.2 Consensus size: 20
794931 TAAAATATAA
*
794941 ATATAAATTGTATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
794961 ATATAATTCATATATAATTTAT
1 ATATAAAT--TATATAGTTTAT
* * *
794983 ATATAAACTATGTAGTTTCT
1 ATATAAATTATATAGTTTAT
* *
795003 ATAT-AGTTCA-ATAGTTCAT
1 ATATAAATT-ATATAGTTTAT
*
795022 ATATAAACTATATAGTATTAT
1 ATATAAATTATATAGT-TTAT
* ** *
795043 AGTTTATACATGGTATA-TATAGT
1 A---TATAAATTATATAGTTTA-T
* * *
795066 TTATACA-TA-ATA-TATAT
1 ATATAAATTATATAGTTTAT
*
795083 ATATAAACTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
* * **
795103 ATATATAATACACATTCTTTAT
1 ATATA-AAT-TATATAGTTTAT
*
795125 ATATAAACTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
795145 AT-TATATATATATA-TATAT
1 ATATAAAT-TATATAGTTTAT
795164 ATATA
1 ATATA
795169 TTAGTTGTTT
Statistics
Matches: 151, Mismatches: 40, Indels: 34
0.67 0.18 0.15
Matches are distributed among these distances:
17 6 0.04
18 9 0.06
19 25 0.17
20 61 0.40
21 8 0.05
22 31 0.21
23 2 0.01
24 9 0.06
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (20 bp):
ATATAAATTATATAGTTTAT
Found at i:794974 original size:42 final size:42
Alignment explanation
Indices: 794914--795012 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 42
794904 ACAATATATA
* * * *
794914 TTATTTATAATTATATATAAAATATAAATATAAATTGTATAGT
1 TTATATATAATT-CATATAAAATATAAATATAAACTATATAGT
* * * *
794957 TTATATATAATTCATATATAATTTATATATAAACTATGTAGT
1 TTATATATAATTCATATAAAATATAAATATAAACTATATAGT
* *
794999 TTCTATATAGTTCA
1 TTATATATAATTCA
795013 ATAGTTCATA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
42 35 0.76
43 11 0.24
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (42 bp):
TTATATATAATTCATATAAAATATAAATATAAACTATATAGT
Found at i:794986 original size:13 final size:11
Alignment explanation
Indices: 794870--794988 Score: 73
Period size: 11 Copynumber: 10.6 Consensus size: 11
794860 ATATATAAAC
794870 TATATAATTTA
1 TATATAATTTA
**
794881 TAT-TAATAAA
1 TATATAATTTA
794891 CTATATAATTTA
1 -TATATAATTTA
*
794903 TACAATATATATTA
1 TA-TATA-AT-TTA
*
794917 TTTATAATTATA
1 TATATAATT-TA
* *
794929 TATAAAATATA
1 TATATAATTTA
* *
794940 AATATAA-AT-
1 TATATAATTTA
* *
794949 TGTATAGTTTA
1 TATATAATTTA
*
794960 TATATAATTCA
1 TATATAATTTA
794971 TATATAATTTA
1 TATATAATTTA
794982 TATATAA
1 TATATAA
794989 ACTATGTAGT
Statistics
Matches: 80, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
9 4 0.05
10 8 0.10
11 41 0.51
12 18 0.22
13 5 0.06
14 4 0.05
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (11 bp):
TATATAATTTA
Found at i:795063 original size:2 final size:2
Alignment explanation
Indices: 795056--795169 Score: 65
Period size: 2 Copynumber: 56.5 Consensus size: 2
795046 TTATACATGG
* * * *
795056 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * * * * *
795100 TA TA TA TA TA -A TA CA CA T- TC TT TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
795142 TA TA T- 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 TA TA T
795170 TAGTTGTTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
1 4 0.05
2 78 0.90
3 5 0.06
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:795070 original size:11 final size:11
Alignment explanation
Indices: 795056--795168 Score: 51
Period size: 11 Copynumber: 10.7 Consensus size: 11
795046 TTATACATGG
*
795056 TATATATAGTT
1 TATATATAGTA
* *
795067 TATACATAATA
1 TATATATAGTA
795078 TATATATA-TA
1 TATATATAGTA
* *
795088 AACTATATAGTT
1 TA-TATATAGTA
795100 TATATATA-TA
1 TATATATAGTA
* * * *
795110 -ATACACATTC
1 TATATATAGTA
*
795120 TTTATATA-TA
1 TATATATAGTA
* *
795130 AACTATATAGTT
1 TA-TATATAGTA
795142 TATAT-TA-TA
1 TATATATAGTA
795151 TATATATA-TA
1 TATATATAGTA
795161 TATATATA
1 TATATATA
795169 TTAGTTGTTT
Statistics
Matches: 75, Mismatches: 20, Indels: 15
0.68 0.18 0.14
Matches are distributed among these distances:
9 11 0.15
10 20 0.27
11 40 0.53
12 4 0.05
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (11 bp):
TATATATAGTA
Found at i:795560 original size:211 final size:210
Alignment explanation
Indices: 795193--796018 Score: 1128
Period size: 209 Copynumber: 3.9 Consensus size: 210
795183 TTTTTTCTCA
* *
795193 ACTTATTACTTATTTCTATTTATTAATTGGCCCATAACTTTTTAAATGAGTACAATTTAGTACAT
1 ACTTATTACTTATTTCTATTT-TTAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
*
795258 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT--T---T-TGTGTT
65 TTTTGTATTAATTT--A--TCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTT
795317 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
126 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
795382 TTGCA-ACTGAAATTAACACAT
191 TTGCATA-TGAAATTAAC-CAT
*
795403 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTCTATTTTT-AATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTAC-T
* * *
795468 TTTTTGTAATAA-TT-TCACAATTTAAAATTATTACTATTTGATCCCTCATCAATGTGTGTTGTT
64 TTTTTGTATTAATTTATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTT
* *
795531 TAATATATTTAAATTTTTATTTGTAATTTCATATTTATTAAATTTAGTCCTCCAAATTTTATTTG
129 TAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTG
*
795596 CATATGAAATTTACTCAT
194 CATATGAAATTAAC-CAT
*
795614 ACTTATTACTTATTTC------TAATTGACCCATAACTTTTTAAATGAGTATAATTTAGTACTTT
1 ACTTATTACTTATTTCTATTTTTAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTTT
795673 TTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTG
66 TTTGTATTAATTT----ATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTG
* * *
795738 TATAATTTTTTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATT
127 TTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATT
*
795803 TGCATATGAAATTGATCCAT
192 TGCATATGAAATT-AACCAT
* * * *
795823 ACTTATTACTTAATCCTATTTTTTAATTGGTCCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTCTA-TTTTTAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
* *
795888 TTTTGTATTAATTTCAACCTCACAATTT-AAATTATTTCGATTTGATCCCTTATCAACGTGTGTT
65 TTTTGTATTAATTT--A--TCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTT
* * *
795952 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATTCT-CAAATTTGTA
126 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT-TA
796016 TTT
190 TTT
796019 TTCATAAAAT
Statistics
Matches: 554, Mismatches: 36, Indels: 47
0.87 0.06 0.07
Matches are distributed among these distances:
203 12 0.02
204 39 0.07
205 30 0.05
207 1 0.00
209 137 0.25
210 62 0.11
211 113 0.20
212 1 0.00
214 8 0.01
215 89 0.16
216 62 0.11
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (210 bp):
ACTTATTACTTATTTCTATTTTTAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTTT
TTTGTATTAATTTATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTA
ATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCA
TATGAAATTAACCAT
Found at i:798459 original size:20 final size:20
Alignment explanation
Indices: 798436--798544 Score: 114
Period size: 20 Copynumber: 5.3 Consensus size: 20
798426 AATTTGTAAA
798436 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
798456 TCGCAACGC-GAAATTTCAAAT
1 TCGCAACACAG-AA-GTCAAAT
*
798477 TTGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
798497 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
798517 TCGCAACACAAAATTTCAAAT
1 TCGCAACACAGAA-GTCAAAT
798538 TCGCAAC
1 TCGCAAC
798545 TGAATTTCAA
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
19 3 0.04
20 40 0.55
21 29 0.40
22 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:798483 original size:41 final size:40
Alignment explanation
Indices: 798375--798563 Score: 188
Period size: 40 Copynumber: 4.7 Consensus size: 40
798365 GACCAACAAC
* * * * ** *
798375 TTCGCAACGCGAACTCCAATTTCGCAACCCAG-TTTCTAAT
1 TTCGCAACGCGAATTTCAAATTCGCAACACAGAAGTC-AAA
*
798415 TTCGCAACGCGAATTTGTAAA-TCGCAACACAGAAGTCAAA
1 TTCGCAACGCGAATTT-CAAATTCGCAACACAGAAGTCAAA
*
798455 TTCGCAACGCGAAATTTCAAATTTGCAACACAGAAGTCAAA
1 TTCGCAACGCG-AATTTCAAATTCGCAACACAGAAGTCAAA
* * *
798496 TTCGCAACGCG-ATAGTCAAATTCGCAACACAAAATTTCAAA
1 TTCGCAACGCGAAT-TTCAAATTCGCAACACAGAA-GTCAAA
*
798537 TTCGCAAC-TGAATTTCAAATTCGCAAC
1 TTCGCAACGCGAATTTCAAATTCGCAAC
798564 TAGATTTTCG
Statistics
Matches: 126, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 2 0.02
40 71 0.56
41 53 0.42
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (40 bp):
TTCGCAACGCGAATTTCAAATTCGCAACACAGAAGTCAAA
Found at i:798577 original size:20 final size:19
Alignment explanation
Indices: 798528--798602 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
798518 CGCAACACAA
798528 AATTTCAAATTCGCAACTG
1 AATTTCAAATTCGCAACTG
798547 AATTTCAAATTCGCAACTAG
1 AATTTCAAATTCGCAACT-G
* * * *
798567 ATTTTCGAATTTGCAACACG
1 AATTTCAAATTCGCAAC-TG
*
798587 AATTT-AATTTCGCAAC
1 AATTTCAAATTCGCAAC
798603 AGGTTTTAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 26 0.57
20 20 0.43
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (19 bp):
AATTTCAAATTCGCAACTG
Found at i:798584 original size:60 final size:58
Alignment explanation
Indices: 798448--798602 Score: 141
Period size: 60 Copynumber: 2.6 Consensus size: 58
798438 GCAACACAGA
* * * * *
798448 AGTCAAATTCGCAACGCGAAATTTCAAATTTGCAACACAGAA-GTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACAC-AAATTT-AAATTCGC-A-ACTGAATTTCAAATTCGCAACGAGAT
*
798509 AGTCAAATTCGCAACACAAAATTTCAAATTCGCAACTGAATTTCAAATTCGCAACTAGAT
1 AGTCAAATTCGCAACAC-AAATTT-AAATTCGCAACTGAATTTCAAATTCGCAACGAGAT
** * * * *
798569 TTTCGAATTTGCAACACGAATTTAATTTCGCAAC
1 AGTCAAATTCGCAACACAAATTTAAATTCGCAAC
798603 AGGTTTTAGT
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 10 0.12
59 10 0.12
60 30 0.38
61 30 0.38
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (58 bp):
AGTCAAATTCGCAACACAAATTTAAATTCGCAACTGAATTTCAAATTCGCAACGAGAT
Found at i:798778 original size:14 final size:15
Alignment explanation
Indices: 798759--798796 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
798749 TCCCTATCTC
798759 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
798773 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
798789 TAATTTTT
1 TAATTTTT
798797 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:799411 original size:12 final size:12
Alignment explanation
Indices: 799390--799423 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
799380 ACCACATTTC
*
799390 CAATACCAAACA
1 CAATATCAAACA
799402 CAATATCAAACA
1 CAATATCAAACA
*
799414 CAATCTCAAA
1 CAATATCAAA
799424 ACCCACAACC
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:799601 original size:24 final size:24
Alignment explanation
Indices: 799543--799589 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
799533 AGTCAGTATT
* *
799543 CGAAATTTGATCTTGTTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
799567 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
799590 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:801887 original size:18 final size:18
Alignment explanation
Indices: 801864--801899 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
801854 AAGCAAAAGG
*
801864 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
801882 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
801900 CAACCGGCTT
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:802254 original size:14 final size:14
Alignment explanation
Indices: 802216--802254 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
802206 ATAGTCAAAT
802216 TCGCAACGCG-AAA
1 TCGCAACGCGAAAA
**
802229 TCGCAAATCGAAAA
1 TCGCAACGCGAAAA
802243 TCGCAACGCGAA
1 TCGCAACGCGAA
802255 TTTGACTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.41, C:0.28, G:0.21, T:0.10
Consensus pattern (14 bp):
TCGCAACGCGAAAA
Found at i:802304 original size:20 final size:20
Alignment explanation
Indices: 802275--802391 Score: 153
Period size: 20 Copynumber: 5.8 Consensus size: 20
802265 GCAACACTTA
802275 TTTCGCGTTGCGAATTTAAC
1 TTTCGCGTTGCGAATTTAAC
* * *
802295 TTTAGCGTTGTGAATTTTAC
1 TTTCGCGTTGCGAATTTAAC
* *
802315 TTCCGCGTTGCGAATTTTAC
1 TTTCGCGTTGCGAATTTAAC
* *
802335 TTTCACGTTGCGAATTTACC
1 TTTCGCGTTGCGAATTTAAC
* *
802355 TTTCGCGTTGTGAATTTACC
1 TTTCGCGTTGCGAATTTAAC
802375 TTTCGCGTTGCGAATTT
1 TTTCGCGTTGCGAATTT
802392 GTACCTTCAA
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAC
Found at i:802382 original size:60 final size:61
Alignment explanation
Indices: 802275--802400 Score: 184
Period size: 60 Copynumber: 2.1 Consensus size: 61
802265 GCAACACTTA
*
802275 TTTCGCGTTGCGAATTTAACTTTAGCGTTGTGAATTTTACTTCCGCGTTGCGAATTT-TAC
1 TTTCACGTTGCGAATTTAACTTTAGCGTTGTGAATTTTACTTCCGCGTTGCGAATTTGTAC
* * *
802335 TTTCACGTTGCGAATTTACCTTTCGCGTTGTGAA-TTTACCTTTCGCGTTGCGAATTTGTAC
1 TTTCACGTTGCGAATTTAACTTTAGCGTTGTGAATTTTA-CTTCCGCGTTGCGAATTTGTAC
*
802396 CTTCA
1 TTTCA
802401 ACAGATCTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
59 4 0.07
60 48 0.81
61 7 0.12
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (61 bp):
TTTCACGTTGCGAATTTAACTTTAGCGTTGTGAATTTTACTTCCGCGTTGCGAATTTGTAC
Found at i:802586 original size:64 final size:66
Alignment explanation
Indices: 802446--802591 Score: 242
Period size: 66 Copynumber: 2.2 Consensus size: 66
802436 AATTTAAAAC
* *
802446 AACAAATCAACTTTTATAAATCAATTAAATAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
802511 A
66 A
* *
802512 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTCCTCATC-AATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
802575 A
66 A
802576 AACAAATCAACTTTTA
1 AACAAATCAACTTTTA
802592 ATGTAAAATT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
64 21 0.28
65 23 0.30
66 32 0.42
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (66 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
A
Found at i:803959 original size:21 final size:21
Alignment explanation
Indices: 803935--804033 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
803925 GCAGACGGGA
*
803935 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* * * *
803956 CCTCTTAAACGGTGGGAGGGA
1 CCTCTTGAACGATGAGAGGGG
*
803977 CCTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
* *
803998 CCTCTTGAACGA-CATGAGGTG
1 CCTCTTGAACGATGA-GAGGGG
*
804019 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
804034 TAGGTGCATC
Statistics
Matches: 59, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
20 2 0.03
21 56 0.95
22 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:804038 original size:21 final size:21
Alignment explanation
Indices: 803977--804040 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
803967 GTGGGAGGGA
* *
803977 CCTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAATGATGATAGGTG
* *
803998 CCTCTTGAACGA-CATGAGGTG
1 CCTCTTGAATGATGAT-AGGTG
804019 CCTCTTGAATGATGATAGGTG
1 CCTCTTGAATGATGATAGGTG
804040 C
1 C
804041 ATCGGGCTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (21 bp):
CCTCTTGAATGATGATAGGTG
Found at i:804436 original size:63 final size:63
Alignment explanation
Indices: 804318--804437 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 63
804308 TAGAGCGGCA
* * * *
804318 ACCTCATCACGTAAAGTAGATACCTCACCACGTAGCGCACCATTGTAATCGCGTAAAAAATCC
1 ACCTCACCACGTAAAGTAGATACCTCACCACGCAGCGCACCATTATAATCACGTAAAAAATCC
* * * * *
804381 ACCTCACCACGTAAAGATCGA-ACCTCATCACGCCGTGCACCATTATATTCACGTAAA
1 ACCTCACCACGTAAAG-TAGATACCTCACCACGCAGCGCACCATTATAATCACGTAAA
804438 GTACCGACCT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 44 0.94
64 3 0.06
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (63 bp):
ACCTCACCACGTAAAGTAGATACCTCACCACGCAGCGCACCATTATAATCACGTAAAAAATCC
Done.