Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 42
Found at i:678108 original size:20 final size:20
Alignment explanation
Indices: 678083--678122 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
678073 TTTTTAAGAA
678083 ACTCTTGTGGTCTCTCCATT
1 ACTCTTGTGGTCTCTCCATT
678103 ACTCTTGTGGTCTCTCCATT
1 ACTCTTGTGGTCTCTCCATT
678123 TCTTTCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.30, G:0.15, T:0.45
Consensus pattern (20 bp):
ACTCTTGTGGTCTCTCCATT
Found at i:680020 original size:21 final size:21
Alignment explanation
Indices: 679996--680044 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
679986 AATGTGAAGT
679996 GGTCTTCATGTCTTTATAAAG
1 GGTCTTCATGTCTTTATAAAG
* *
680017 GGTCTTCATGTCTTTATGAAT
1 GGTCTTCATGTCTTTATAAAG
680038 GGTCTTC
1 GGTCTTC
680045 TCATCTTTAT
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:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (21 bp):
GGTCTTCATGTCTTTATAAAG
Found at i:680051 original size:21 final size:21
Alignment explanation
Indices: 680027--680088 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
680017 GGTCTTCATG
680027 TCTTTATGAATGGTCTTCTCA
1 TCTTTATGAATGGTCTTCTCA
* *
680048 TCTTTATGAATAGTCTTCTTA
1 TCTTTATGAATGGTCTTCTCA
*
680069 TCTTTACGAATGGTCTTCTC
1 TCTTTATGAATGGTCTTCTC
680089 GTCCTTAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (21 bp):
TCTTTATGAATGGTCTTCTCA
Found at i:680054 original size:42 final size:42
Alignment explanation
Indices: 680006--680088 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
679996 GGTCTTCATG
* * *
680006 TCTTTATAAAGGGTCTTCATGTCTTTATGAATGGTCTTCTCA
1 TCTTTATAAAGAGTCTTCATATCTTTACGAATGGTCTTCTCA
* * *
680048 TCTTTATGAATAGTCTTCTTATCTTTACGAATGGTCTTCTC
1 TCTTTATAAAGAGTCTTCATATCTTTACGAATGGTCTTCTC
680089 GTCCTTAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (42 bp):
TCTTTATAAAGAGTCTTCATATCTTTACGAATGGTCTTCTCA
Found at i:684883 original size:14 final size:14
Alignment explanation
Indices: 684864--684890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
684854 TAATGTTAGA
684864 TTAAAATTATATCT
1 TTAAAATTATATCT
684878 TTAAAATTATATC
1 TTAAAATTATATC
684891 AAGTGTGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAAATTATATCT
Found at i:685813 original size:16 final size:17
Alignment explanation
Indices: 685778--685816 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
685768 TCATTGACTC
685778 ATTTATACTCTCATAAAT
1 ATTT-TACTCTCATAAAT
685796 ATTTTACTCTCA-AAAT
1 ATTTTACTCTCATAAAT
685812 ATTTT
1 ATTTT
685817 TTTAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 8 0.38
18 4 0.19
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTTACTCTCATAAAT
Found at i:685817 original size:17 final size:18
Alignment explanation
Indices: 685778--685817 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
685768 TCATTGACTC
*
685778 ATTTATACTCTCATAAAT
1 ATTTTTACTCTCATAAAT
685796 A-TTTTACTCTCA-AAAT
1 ATTTTTACTCTCATAAAT
685812 ATTTTT
1 ATTTTT
685818 TTAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 5 0.25
17 14 0.70
18 1 0.05
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTTACTCTCATAAAT
Found at i:688936 original size:15 final size:15
Alignment explanation
Indices: 688916--688964 Score: 89
Period size: 15 Copynumber: 3.3 Consensus size: 15
688906 TGAGACATTA
*
688916 CCCGCCTCGCATCCG
1 CCCGCCCCGCATCCG
688931 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
688946 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
688961 CCCG
1 CCCG
688965 TCCAGCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.06, C:0.65, G:0.20, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:690014 original size:30 final size:30
Alignment explanation
Indices: 689980--690036 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
689970 CTACAGTTCG
* *
689980 AATGAAGGTCGACGGGTGGTCTGGGCGACC
1 AATGAAGCTCGACAGGTGGTCTGGGCGACC
*
690010 AATGAAGCTCGCCAGGTGGTCTGGGCG
1 AATGAAGCTCGACAGGTGGTCTGGGCG
690037 CCATGCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.42, T:0.18
Consensus pattern (30 bp):
AATGAAGCTCGACAGGTGGTCTGGGCGACC
Found at i:690842 original size:31 final size:31
Alignment explanation
Indices: 690804--690868 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
690794 ACGCCCAGTA
* *
690804 TTGGTCGCCCAGACCACCTGGCGACCTTCAT
1 TTGGTCGCCCAGACCACCCGACGACCTTCAT
*
690835 TTGGTCGCCCAGATCACCCGACGACCTTCAT
1 TTGGTCGCCCAGACCACCCGACGACCTTCAT
690866 TTG
1 TTG
690869 AACTGTAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.37, G:0.22, T:0.25
Consensus pattern (31 bp):
TTGGTCGCCCAGACCACCCGACGACCTTCAT
Found at i:700550 original size:22 final size:23
Alignment explanation
Indices: 700517--700560 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
700507 ACGACAAACG
700517 ATAAAAACGTGTCATAAAGGCAT
1 ATAAAAACGTGTCATAAAGGCAT
700540 ATAAAAA-GTGTCATAAAGGCA
1 ATAAAAACGTGTCATAAAGGCA
700561 GAAAAAGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.20
Consensus pattern (23 bp):
ATAAAAACGTGTCATAAAGGCAT
Found at i:716058 original size:17 final size:17
Alignment explanation
Indices: 716032--716065 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
716022 AATTGTTGGA
*
716032 AGAAGAAGAGGAGGAGG
1 AGAAGAAGAGGAAGAGG
*
716049 AGAAGCAGAGGAAGAGG
1 AGAAGAAGAGGAAGAGG
716066 TTAGAAGGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (17 bp):
AGAAGAAGAGGAAGAGG
Found at i:717270 original size:3 final size:3
Alignment explanation
Indices: 717262--717286 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
717252 TCATCGATCA
717262 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
717287 CTACTACTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:722767 original size:20 final size:20
Alignment explanation
Indices: 722742--722832 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
722732 TAAATTAAAT
*
722742 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
722762 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
722782 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
722794 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
722814 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
722833 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:722819 original size:52 final size:52
Alignment explanation
Indices: 722741--722888 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
722731 CTAAATTAAA
*
722741 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
722793 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
722846 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
722889 TTGTTGCTAA
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.37
53 51 0.54
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:722872 original size:20 final size:20
Alignment explanation
Indices: 722847--722886 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
722837 TCTATTAGTT
*
722847 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
722867 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
722887 TTTTGTTGCT
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:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:727446 original size:20 final size:20
Alignment explanation
Indices: 727421--727565 Score: 77
Period size: 20 Copynumber: 8.0 Consensus size: 20
727411 TAAATTAAAT
*
727421 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
727441 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
727461 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
727473 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
727493 ATTAGATAGAATCAGTTTT-
1 ATTAGATAGAATCAGTTTTA
*** *
727512 -TT--ATTCTATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
*
727526 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
*
727546 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
727566 TTCTGTTGCT
Statistics
Matches: 93, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
12 3 0.03
13 2 0.02
14 3 0.03
15 6 0.06
16 6 0.06
17 8 0.09
18 3 0.03
19 4 0.04
20 58 0.62
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:727540 original size:53 final size:52
Alignment explanation
Indices: 727420--727569 Score: 266
Period size: 53 Copynumber: 2.9 Consensus size: 52
727410 CTAAATTAAA
*
727420 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
727472 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
727525 TATTAGATAGAATCATTTTTAATTAGATAGAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
727570 GTTGCTAATT
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 10 0.11
52 35 0.37
53 50 0.53
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:734649 original size:23 final size:20
Alignment explanation
Indices: 734623--734663 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
734613 AATTTAAAAC
734623 ATCGATTCAAATAATTACCCTTG
1 ATCGATT-AAA-AATT-CCCTTG
734646 ATCGATTAAAAATTCCCT
1 ATCGATTAAAAATTCCCT
734664 AAAAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 3 0.17
23 7 0.39
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (20 bp):
ATCGATTAAAAATTCCCTTG
Found at i:735824 original size:2 final size:2
Alignment explanation
Indices: 735813--735848 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
735803 AAATTATTAT
735813 TA TA -A 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 T
735849 TTAAGCCCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:736180 original size:84 final size:84
Alignment explanation
Indices: 736070--736254 Score: 226
Period size: 84 Copynumber: 2.2 Consensus size: 84
736060 AGCTAAATGA
* *
736070 AATCGAACTCGTCAGGTCTTTGGTTGGCAGATAGCCATTCTCGACTTAAGCTATGCTACAAATGA
1 AATCGAACTCG-AAGGTCTTTGGTTGGCAAATAGCCATTCTCGACTTAAGCTATGCTACAAATGA
*
736135 TGTGCCTTGGAGCTGAGCGT
65 TGTGCCTTGGAGCTGAGAGT
* * * * * * * * *
736155 AGTCGAACTCGAAGGTCTTTGGTTGGTAAATAGCCCTTCTTGTCTTGAGTTATGTTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCATTCTCGACTTAAGCTATGCTACAAATGAT
* **
736220 TTTTCTTGGAGCTGAGAGT
66 GTGCCTTGGAGCTGAGAGT
736239 AATCGAACTCGAAGGT
1 AATCGAACTCGAAGGT
736255 TTGGTGTTTC
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 74 0.88
85 10 0.12
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCATTCTCGACTTAAGCTATGCTACAAATGAT
GTGCCTTGGAGCTGAGAGT
Found at i:736302 original size:33 final size:34
Alignment explanation
Indices: 736258--736336 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 34
736248 CGAAGGTTTG
* * *
736258 GTGTTTCAAGAGAAACATTTTCAAATG-TTTTTT
1 GTGTTTTAAGAGAAACAATTTCAAAGGTTTTTTT
*
736291 GTGTTTTAAGAGAAATAATTTCAAAGGTTTTTTT
1 GTGTTTTAAGAGAAACAATTTCAAAGGTTTTTTT
*
736325 GTGTTTTGAGAG
1 GTGTTTTAAGAG
736337 CAACTGTCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 23 0.57
34 17 0.43
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (34 bp):
GTGTTTTAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:736443 original size:37 final size:36
Alignment explanation
Indices: 736392--736608 Score: 225
Period size: 37 Copynumber: 6.1 Consensus size: 36
736382 CAAAGATTGG
* *
736392 TGTTTCAAGAGAAACTGTCTCAAGATAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
736429 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
736466 AGTTCCAAAAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
736502 TGTTTCAAGGGAAA-TATATTC-A-A-AG----ATTT
1 TGTTTCAAGAGAAACTGT-CTCAAGAGAGACAAAATT
* *
736531 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
736567 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
736604 TGTTT
1 TGTTT
736609 TGAGTAAATT
Statistics
Matches: 149, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
29 19 0.13
30 3 0.02
32 2 0.01
33 2 0.01
34 1 0.01
35 3 0.02
36 49 0.33
37 70 0.47
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:736581 original size:36 final size:37
Alignment explanation
Indices: 736529--736608 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 37
736519 ATTCAAAGAT
* *
736529 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
736565 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
736602 TTTGTTT
1 TTTGTTT
736609 TGAGTAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 34 0.83
37 7 0.17
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (37 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
Found at i:736635 original size:138 final size:139
Alignment explanation
Indices: 736338--736603 Score: 394
Period size: 140 Copynumber: 1.9 Consensus size: 139
736328 TTTTGAGAGC
* * *
736338 AACTGTCTCCAG-GAGGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGA
1 AACTGTCTCAAGAGAGACGAAA-TTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGA
* * *
736402 GAAACTGTCTCAAGATAGATAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTA
65 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
736467 GTTCCAAAAGA
130 GTT-CAAAAGA
* * * *
736478 AACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATT-TTGTTTCAAGGG
1 AACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAG
*
736542 AAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
66 AAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
736604 TGTTTTGAGT
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
138 38 0.33
139 30 0.26
140 39 0.34
141 7 0.06
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (139 bp):
AACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAG
AAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
TTCAAAAGA
Found at i:737107 original size:110 final size:110
Alignment explanation
Indices: 736959--737165 Score: 288
Period size: 110 Copynumber: 1.9 Consensus size: 110
736949 AACTGGGAAA
* * *
736959 TTGTTTGTTGACAGCCAACCGCCCATTCGTTGCGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATA
1 TTGTTTGTTGACAACCAACCGCCCATTCGTCGCGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATA
*
737024 TCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAG
66 TCCTTCGATGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAG
* ** * * * * *
737069 TTGTTTGTTGACAATCAGTCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGGTCCAATA
1 TTGTTTGTTGACAACCAACCGCCCATTCGTCGCGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATA
* *
737134 TCCTTCGATGTGAAGTTGAAATTGGCTCTGAA
66 TCCTTCGATGTGAAGTTAAAATTGACTCTGAA
737166 ATTGGGAAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 83 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (110 bp):
TTGTTTGTTGACAACCAACCGCCCATTCGTCGCGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATA
TCCTTCGATGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAG
Found at i:742085 original size:7 final size:7
Alignment explanation
Indices: 742073--742105 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
742063 CAAAGGGAGA
742073 TGGGGTG
1 TGGGGTG
742080 TGGGGTG
1 TGGGGTG
742087 TGGGGTG
1 TGGGGTG
742094 TGGGGTGG
1 TGGGGT-G
742102 TGGG
1 TGGG
742106 TAGTGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.00, C:0.00, G:0.73, T:0.27
Consensus pattern (7 bp):
TGGGGTG
Found at i:742119 original size:15 final size:16
Alignment explanation
Indices: 742101--742130 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
742091 GTGTGGGGTG
742101 GTGGGTA-GTGATTTA
1 GTGGGTATGTGATTTA
742116 GTGGGTATGTGATTT
1 GTGGGTATGTGATTT
742131 TTAAGTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (16 bp):
GTGGGTATGTGATTTA
Found at i:742232 original size:13 final size:14
Alignment explanation
Indices: 742202--742236 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
742192 ATTACATTAT
*
742202 TAATAATATAATAA
1 TAATAATATAAAAA
742216 TAATAAT-TAAAAA
1 TAATAATATAAAAA
742229 TAATAATA
1 TAATAATA
742237 AATTATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAATATAAAAA
Found at i:742254 original size:2 final size:2
Alignment explanation
Indices: 742243--742280 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
742233 AATAAATTAT
742243 TA TA -A 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 T
742281 TTAAGCCCGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:746153 original size:30 final size:30
Alignment explanation
Indices: 746117--746193 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
746107 ATTGTCCCCC
*
746117 AAAATTTTAAAAATTCTAATTT-ATACTCTT
1 AAAATTTTAAAAATTCTAATTTGAT-CTCCT
** *
746147 AAAATTTTTAAATTTTTTAATTTGATCTCCT
1 AAAA-TTTTAAAAATTCTAATTTGATCTCCT
*
746178 AAATTTTTAAAAATTC
1 AAAATTTTAAAAATTC
746194 AGATTAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
30 13 0.35
31 22 0.59
32 2 0.05
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.49
Consensus pattern (30 bp):
AAAATTTTAAAAATTCTAATTTGATCTCCT
Found at i:749462 original size:31 final size:31
Alignment explanation
Indices: 749427--749491 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
749417 TCAAAAAATA
749427 TAAGATACAATCACTTTCGTTTTTATTTAAT
1 TAAGATACAATCACTTTCGTTTTTATTTAAT
* * *
749458 TAAGATATAGTGACTTTCGTTTTTATTTAAT
1 TAAGATACAATCACTTTCGTTTTTATTTAAT
749489 TAA
1 TAA
749492 TATATATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (31 bp):
TAAGATACAATCACTTTCGTTTTTATTTAAT
Found at i:749497 original size:31 final size:31
Alignment explanation
Indices: 749439--749497 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
749429 AGATACAATC
749439 ACTTTCGTTTTTATTTAATTAAGATATAGTG
1 ACTTTCGTTTTTATTTAATTAAGATATAGTG
*
749470 ACTTTCGTTTTTATTTAATTAATATATA
1 ACTTTCGTTTTTATTTAATTAAGATATA
749498 TCATCTCGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.54
Consensus pattern (31 bp):
ACTTTCGTTTTTATTTAATTAAGATATAGTG
Found at i:749660 original size:20 final size:18
Alignment explanation
Indices: 749618--749666 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
749608 TTTTAAATAA
*
749618 ATTTTAACATAAAATATAT
1 ATTTTAA-ATAAAATAAAT
749637 ATTTTAAATGAAAATAAAAT
1 ATTTTAAAT-AAAAT-AAAT
749657 ATTTTTAAAT
1 A-TTTTAAAT
749667 TAAGTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 12 0.46
20 4 0.15
21 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTTTAAATAAAATAAAT
Found at i:749717 original size:27 final size:27
Alignment explanation
Indices: 749652--749723 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
749642 AAATGAAAAT
* *
749652 AAAATATTTTTAAATTAAGTTAATAAA
1 AAAATATTTTTTAATTAAATTAATAAA
* *
749679 AAAATA-TATTTAA-TAAATTAATGTAA
1 AAAATATTTTTTAATTAAATTAAT-AAA
749705 AAAATATTTTTTAAGTTAA
1 AAAATATTTTTTAA-TTAA
749724 TATATATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 8 0.22
26 13 0.36
27 12 0.33
29 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
AAAATATTTTTTAATTAAATTAATAAA
Found at i:749723 original size:24 final size:24
Alignment explanation
Indices: 749665--749738 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 24
749655 ATATTTTTAA
*
749665 ATTAAGTTAATAAAAAAATATATTT
1 ATTAAGTTAATTAAAAAATAT-TTT
* *
749690 AATAAATTAATGTAAAAAATATTTT
1 ATTAAGTTAAT-TAAAAAATATTTT
749715 -TTAAGTTAATATATATAAAATATT
1 ATTAAGTTAAT-TA-A-AAAATATT
749739 ATGATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 10 0.25
25 13 0.32
26 17 0.43
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
ATTAAGTTAATTAAAAAATATTTT
Found at i:750372 original size:42 final size:42
Alignment explanation
Indices: 750325--750418 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
750315 TTTTTCAAAA
* *
750325 GATTCCTCGTGGGCAAACGA-CTTCTTGATGAATTTCTTGATC
1 GATTCCTCGTGGGCAAACGATC-TATTGATGAATTTCTTGAAC
* * * * *
750367 GATTCCTCGTTGGTATATGATCTATTGGTGAATTTCTTGAAC
1 GATTCCTCGTGGGCAAACGATCTATTGATGAATTTCTTGAAC
750409 GATTCCTCGT
1 GATTCCTCGT
750419 TCGTATACGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.39
Consensus pattern (42 bp):
GATTCCTCGTGGGCAAACGATCTATTGATGAATTTCTTGAAC
Found at i:753069 original size:18 final size:18
Alignment explanation
Indices: 753046--753095 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
753036 ACTGAATATT
753046 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
753064 TGTCCCGAGGGACCACTA
1 TGTCCCGAAGGACCACTA
753082 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
753096 CTTGATAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:759900 original size:21 final size:18
Alignment explanation
Indices: 759858--759931 Score: 103
Period size: 18 Copynumber: 3.9 Consensus size: 18
759848 ACTGAATATT
*
759858 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
759876 TGTCCCGAAGGACCACTGATA
1 TGTCCCGAAGGACCAC---TA
759897 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
759915 TGTCGCGAAGGACCACT
1 TGTCCCGAAGGACCACT
759932 GATAATCCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
18 33 0.65
21 18 0.35
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:759907 original size:39 final size:39
Alignment explanation
Indices: 759858--759935 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
759848 ACTGAATATT
*
759858 TGTCCTGAAGGACCACTATGTCCCGAAGGACCACTGATA
1 TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGATA
*
759897 TGTCCCGAAGGACCACTATGTCGCGAAGGACCACTGATA
1 TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGATA
759936 ATCCCTCGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.19
Consensus pattern (39 bp):
TGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGATA
Found at i:761044 original size:192 final size:190
Alignment explanation
Indices: 760719--761097 Score: 704
Period size: 192 Copynumber: 2.0 Consensus size: 190
760709 TATAGCATTT
760719 CATGTAATCAAATGTACATATACACATCATTCATTCTTTCCATCATTAACATTACTTTACTATCA
1 CATGTAATCAAATGTACATATACACATCATTCATTCTTTCCATCATTAACATTACTTTACTATCA
* *
760784 ATATGATTATTATTTATATCTTGTAATAACATCCTTTCGTATGTAACATTTTAACCAACATAACT
66 ATATGATTATTATTTATATCTTGTAATAACATCCTTTCGTACGTAACATTTCAACCAACATAACT
760849 CATTTAACCACGCAATACACATATCATCATTCAAATCATATGATACAATTCATCTCAGAA
131 CATTTAACCACGCAATACACATATCATCATTCAAATCATATGATACAATTCATCTCAGAA
760909 CATGTAATCAAATGTACATATATACACATCATTCATTCTTTCCATCATTAACATTACTTTACTAT
1 CATGTAATCAAATGTAC--ATATACACATCATTCATTCTTTCCATCATTAACATTACTTTACTAT
* *
760974 TAATATGATTATTATTTATATCTTGTAATAATATCCTTTCGTACGTAACATTTCAACCAACATAA
64 CAATATGATTATTATTTATATCTTGTAATAACATCCTTTCGTACGTAACATTTCAACCAACATAA
761039 CTCATTTAACCACGCAATACACATATCATCATTCAAATCATATGATACAATTCATCTCA
129 CTCATTTAACCACGCAATACACATATCATCATTCAAATCATATGATACAATTCATCTCA
761098 CAAAAGCATA
Statistics
Matches: 183, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
190 17 0.09
192 166 0.91
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.37
Consensus pattern (190 bp):
CATGTAATCAAATGTACATATACACATCATTCATTCTTTCCATCATTAACATTACTTTACTATCA
ATATGATTATTATTTATATCTTGTAATAACATCCTTTCGTACGTAACATTTCAACCAACATAACT
CATTTAACCACGCAATACACATATCATCATTCAAATCATATGATACAATTCATCTCAGAA
Found at i:762152 original size:19 final size:20
Alignment explanation
Indices: 762106--762155 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
762096 TTCCCCTTGA
*
762106 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATACTAC
762126 AGTGCATCGATGCACTACT-C
1 AGTGCATCGATGCA-TACTAC
762146 A-TGCATCGAT
1 AGTGCATCGAT
762156 ACACCAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 9 0.32
20 16 0.57
21 3 0.11
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (20 bp):
AGTGCATCGATGCATACTAC
Found at i:762257 original size:63 final size:62
Alignment explanation
Indices: 762126--762266 Score: 160
Period size: 63 Copynumber: 2.2 Consensus size: 62
762116 TGCATTCTAC
*
762126 AGTGCATCGATGCACTACTCATGCATCGATACACCAATCACCTTCGATGTTTTCCTTTTAAGG
1 AGTGCATCGATGCACTACTCATGCATCGATACACCAATCACATTCGATGTTTT-CTTTTAAGG
* * * * * **
762189 GGTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTCATT-TATTTAA-G
1 AGTGCATCGATGCACTACTCATGCATCGATACACCAATCACATTCGATGTT--TTCT-TTTAAGG
762252 AGTGCATCGATGCAC
1 AGTGCATCGATGCAC
762267 ATTGAATATG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 59 0.89
64 5 0.08
65 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (62 bp):
AGTGCATCGATGCACTACTCATGCATCGATACACCAATCACATTCGATGTTTTCTTTTAAGG
Found at i:763120 original size:26 final size:28
Alignment explanation
Indices: 763090--763155 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
763080 GAAAATTTTA
763090 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCAGCAGAGTTTTCGAGTCGAGTCG
*
763116 AGCTCAATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCTC-A--GCAGAGTTTTCGAGTCGAGTCG
763147 AGCTCAGCA
1 AGCTCAGCA
763156 ATACTCGAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
26 5 0.15
28 2 0.06
30 2 0.06
31 24 0.73
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (28 bp):
AGCTCAGCAGAGTTTTCGAGTCGAGTCG
Found at i:763553 original size:20 final size:20
Alignment explanation
Indices: 763511--763554 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
763501 TATTTTTTTA
* * *
763511 TGAATAGTGAACAGTACCCG
1 TGAAAAGTGAACAGTAACAG
*
763531 TGAAAAGTGAACATTAACAG
1 TGAAAAGTGAACAGTAACAG
763551 TGAA
1 TGAA
763555 TAGTACCCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (20 bp):
TGAAAAGTGAACAGTAACAG
Found at i:764117 original size:24 final size:24
Alignment explanation
Indices: 764090--764161 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
764080 TATAGTTACC
764090 ATTTATCCATAAGCTCGTAAGCTT
1 ATTTATCCATAAGCTCGTAAGCTT
*
764114 ATTT-TACCAATACA-CT--T-A-C-C
1 ATTTAT-CC-ATA-AGCTCGTAAGCTT
764134 ATTTATCCATAAGCTCGTAAGCTT
1 ATTTATCCATAAGCTCGTAAGCTT
764158 ATTT
1 ATTT
764162 TTACCAATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 20
0.62 0.03 0.34
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 6 0.17
21 3 0.08
22 2 0.06
23 3 0.08
24 10 0.28
25 5 0.14
26 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (24 bp):
ATTTATCCATAAGCTCGTAAGCTT
Found at i:764181 original size:45 final size:45
Alignment explanation
Indices: 764047--764280 Score: 368
Period size: 45 Copynumber: 5.2 Consensus size: 45
764037 TTCTTATCAT
* * * *
764047 TTATCCCATAAGCTCGTAAGCTTA-TTTTACCAATATAGTTACCA
1 TTATTCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGCCA
*
764091 TT-TATCCATAAGCTCGTAAGCTTA-TTTTACCAATACACTTACCA
1 TTAT-TCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGCCA
764135 TT-TATCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGCCA
1 TTAT-TCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGCCA
*
764180 TTATTCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGACA
1 TTATTCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGCCA
764225 TTATTCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGCCA
1 TTATTCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGCCA
764270 TTATTCCATAA
1 TTATTCCATAA
764281 CCATATATCA
Statistics
Matches: 181, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
43 1 0.01
44 63 0.35
45 116 0.64
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (45 bp):
TTATTCCATAAGCTCGTAAGCTTATTTTTACCAATACACTTGCCA
Found at i:764482 original size:59 final size:58
Alignment explanation
Indices: 764352--764488 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 58
764342 ATAAGCACCG
* * * * *
764352 TAGTGCTATCCCGAGTATGACACATAAGGTCGTGTCCACCATCTATACTAGGTATCCTT
1 TAGTG-TATCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTT
* * ** *
764411 AATTACAGTCCCGAATATGACACATAAGGTCATGCCCACCATATACACTGGGTATCCTT
1 TAGTGTA-TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTT
764470 TAGTGTATTCCCGAATATG
1 TAGTGTA-TCCCGAATATG
764489 CAGCCTGCTG
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
58 1 0.02
59 61 0.98
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (58 bp):
TAGTGTATCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTT
Found at i:783088 original size:15 final size:15
Alignment explanation
Indices: 783068--783097 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
783058 TATCACAATC
783068 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
783083 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
783098 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:785427 original size:27 final size:29
Alignment explanation
Indices: 785397--785470 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 29
785387 TTCTTTCTCC
785397 AAGTAAAATTAGAACTATTAATAA-A-AA
1 AAGTAAAATTAGAACTATTAATAAGAGAA
** *
785424 AAGTATGATTAGAATTATTAATAAGTAGAA
1 AAGTAAAATTAGAACTATTAATAAG-AGAA
*
785454 AAGTAACATTAGAACTA
1 AAGTAAAATTAGAACTA
785471 CAATTAGGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 21 0.55
29 1 0.03
30 16 0.42
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.28
Consensus pattern (29 bp):
AAGTAAAATTAGAACTATTAATAAGAGAA
Found at i:790420 original size:17 final size:16
Alignment explanation
Indices: 790394--790427 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
790384 TTTCACTAAT
*
790394 AGAGGAAATATTACAA
1 AGAGGAAATAGTACAA
790410 AGAGAGAAATAGTACAA
1 AGAG-GAAATAGTACAA
790427 A
1 A
790428 TAACCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.06, G:0.21, T:0.15
Consensus pattern (16 bp):
AGAGGAAATAGTACAA
Found at i:790772 original size:2 final size:2
Alignment explanation
Indices: 790765--790793 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
790755 AAAGGTGAAA
790765 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 A
790794 AATTCGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:791394 original size:22 final size:23
Alignment explanation
Indices: 791366--791419 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 23
791356 CTATTCTTTC
791366 GCTTCAATTGAG-CAAATTTTAG
1 GCTTCAATTGAGCCAAATTTTAG
791388 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGC-CAAATTTTAG
791412 GCTTCAAT
1 GCTTCAAT
791420 CGAACTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 12 0.40
24 18 0.60
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (23 bp):
GCTTCAATTGAGCCAAATTTTAG
Found at i:794200 original size:41 final size:42
Alignment explanation
Indices: 794137--794243 Score: 135
Period size: 41 Copynumber: 2.5 Consensus size: 42
794127 AAAAAGTGAT
* * * * *
794137 AAGTAAAAAGTGGGATTTAAAAA-TTAGTGCCTCAATTATAA
1 AAGTAAAAAGTGAGATTAAAAAAGTAAGGGCCACAATTATAA
* *
794178 AGGTAAAAAGTGAGATTAAAAAAGTAAGGGTCACAATTATAA
1 AAGTAAAAAGTGAGATTAAAAAAGTAAGGGCCACAATTATAA
794220 AAGTAAAAAAGTGAGATTAAAAAA
1 AAGT-AAAAAGTGAGATTAAAAAA
794244 CTAGAGGTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 20 0.36
42 17 0.30
43 19 0.34
ACGTcount: A:0.53, C:0.05, G:0.19, T:0.23
Consensus pattern (42 bp):
AAGTAAAAAGTGAGATTAAAAAAGTAAGGGCCACAATTATAA
Found at i:794274 original size:42 final size:42
Alignment explanation
Indices: 794169--794285 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
794159 ATTAGTGCCT
*
794169 CAATTATAAAGGTAAAAAGTGAGATTAAAAAAGTAAGGGTCA
1 CAATTATAAAGGTAAAAAGTGAGATTAAAAAACTAAGGGTCA
*
794211 CAATTATAAAAGTAAAAAAGTGAGATTAAAAAACT-AGAGGTCTA
1 CAATTATAAAGGT-AAAAAGTGAGATTAAAAAACTAAG-GGTC-A
* ** * *
794255 -AATTTTAAAGGTTGAAAGTGATATTGAAAAA
1 CAATTATAAAGGTAAAAAGTGAGATTAAAAAA
794286 TTTTGGTGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 29 0.45
43 34 0.53
44 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.19, T:0.25
Consensus pattern (42 bp):
CAATTATAAAGGTAAAAAGTGAGATTAAAAAACTAAGGGTCA
Found at i:811985 original size:18 final size:19
Alignment explanation
Indices: 811950--811985 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
811940 CGAATGGTTG
*
811950 AATCGAATATAAATTTAAA
1 AATCGAATATAAAATTAAA
811969 AATCGAAT-TAAAATTAA
1 AATCGAATATAAAATTAA
811986 TCTTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (19 bp):
AATCGAATATAAAATTAAA
Found at i:814033 original size:65 final size:65
Alignment explanation
Indices: 813873--814033 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
813863 TTGTTTAAGG
* * * **
813873 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
813936 A
65 A
*
813937 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
* *
814001 TGCCTCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
814034 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:814547 original size:18 final size:18
Alignment explanation
Indices: 814524--814558 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
814514 CTAGGAGATT
814524 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
814542 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
814559 CTAGATGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:814898 original size:2 final size:2
Alignment explanation
Indices: 814891--814952 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
814881 GAACATGTGA
814891 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
814933 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
814953 GTCTAAGAGA
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:815717 original size:149 final size:148
Alignment explanation
Indices: 815497--815810 Score: 542
Period size: 149 Copynumber: 2.1 Consensus size: 148
815487 GAGTCGAGGG
* **
815497 TCTACGCGGTCCTTCGGGATATATATATATCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TCTACGCGGTCCTTCGGGATATATATATATCTGTGGAACATGTGTGAAGTCTGGAAAGACACATA
815562 TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
66 TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
815627 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
*
815645 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATA-TCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
815710 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATT
65 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
815774 ATATGGCACTACGGTGCAAT
129 ATATGGCACTACGGTGCAAT
815794 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
815811 TGCAATTATA
Statistics
Matches: 158, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
148 30 0.19
149 127 0.80
150 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGATATATATATATCTGTGGAACATGTGTGAAGTCTGGAAAGACACATA
TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
ATGGCACTACGGTGCAAT
Found at i:815811 original size:23 final size:23
Alignment explanation
Indices: 815778--815822 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
815768 ATTATTATAT
*
815778 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
815801 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
815823 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:816994 original size:42 final size:41
Alignment explanation
Indices: 816947--817076 Score: 190
Period size: 42 Copynumber: 3.1 Consensus size: 41
816937 CCAGTTAAAC
816947 CTTCTAATAAT-CTGATTAGAAATTCCAATGATTCACCTAATA
1 CTTCTAATAATCCT-ATT-GAAATTCCAATGATTCACCTAATA
*
816989 CTTCTAATAATCCTATTGAAAATTTCAATGATTCACCTAATA
1 CTTCTAATAATCCTATTG-AAATTCCAATGATTCACCTAATA
* *
817031 CTTCTAATAATCCTATTGGAAATTCCAATGATTTACCTAATG
1 CTTCTAATAATCCTATT-GAAATTCCAATGATTCACCTAATA
817073 CTTC
1 CTTC
817077 GGTTGATAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
41 1 0.01
42 77 0.95
43 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (41 bp):
CTTCTAATAATCCTATTGAAATTCCAATGATTCACCTAATA
Found at i:819762 original size:21 final size:21
Alignment explanation
Indices: 819738--819779 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
819728 GTACATACCC
*
819738 AGCCCTCCACTTCATATGCCA
1 AGCCCACCACTTCATATGCCA
*
819759 AGCCCACCAGTTCATATGCCA
1 AGCCCACCACTTCATATGCCA
819780 TCTCCGCAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.40, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCCACCACTTCATATGCCA
Found at i:819809 original size:21 final size:21
Alignment explanation
Indices: 819783--819855 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
819773 TATGCCATCT
*
819783 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
819804 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
819825 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
819846 CCGCAGGGTT
1 CCGCAGGGTT
819856 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:820416 original size:34 final size:34
Alignment explanation
Indices: 820378--820476 Score: 117
Period size: 35 Copynumber: 2.9 Consensus size: 34
820368 AAATGTTTTT
* **
820378 AAAATACAAATTATATTATTTGAAATTTAAAATA
1 AAAATAAAAATTATATTATTAAAAATTTAAAATA
* *
820412 AAAATAAAAATAATATTATTCAAAAATTTAAAATT
1 AAAATAAAAATTATATTATT-AAAAATTTAAAATA
* * *
820447 AAAATATAAATTATAGTATTCAAAATTTAA
1 AAAATAAAAATTATATTATTAAAAATTTAA
820477 CATTAAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 27 0.49
35 28 0.51
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTAAAAATTTAAAATA
Found at i:820482 original size:34 final size:34
Alignment explanation
Indices: 820376--820483 Score: 135
Period size: 34 Copynumber: 3.1 Consensus size: 34
820366 ATAAATGTTT
* **
820376 TTAAAATACAAATTATATTATTTGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
* *
820410 TAAAAATAAAAATAATATTATTCAAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTC-AAAATTTAAAA
* * *
820445 TTAAAATATAAATTATAGTATTCAAAATTTAACA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
820479 TTAAA
1 TTAAA
820484 TTTCAACTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 34 0.54
35 29 0.46
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCAAAATTTAAAA
Found at i:821141 original size:128 final size:128
Alignment explanation
Indices: 820876--821481 Score: 1115
Period size: 128 Copynumber: 4.7 Consensus size: 128
820866 ACAATCCATC
820876 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
820941 GGAATGCGC-CCCCCGGGAACGCGCCTTCAAGTCCTCTGAGAAATAATAGGTAGTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
821003 TAGTGTCCCCGATGGACATGAGTGACATAATAGAGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
821068 GGAAGGCGCGCCCCCGGGAACGCACCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
821131 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
821196 GGAAGGCGCGCCCCCGGGATCGCGCCTTCAAGTCCCCTGAGAAATAATAGGCACTGACATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
821259 TAGTGTCCCCGAGGGACATGTGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
821324 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
821387 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
821452 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
821482 TGTGAATAAT
Statistics
Matches: 461, Mismatches: 17, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
127 71 0.15
128 390 0.85
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:821575 original size:8 final size:8
Alignment explanation
Indices: 821562--821602 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
821552 TCATAAGCTT
821562 TCAAATTC
1 TCAAATTC
821570 TCAAATTC
1 TCAAATTC
* *
821578 CCAAACTC
1 TCAAATTC
821586 T-AAATTC
1 TCAAATTC
821593 TCAAATTC
1 TCAAATTC
821601 TC
1 TC
821603 TAAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:825514 original size:22 final size:23
Alignment explanation
Indices: 825452--825514 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
825442 ATTATCTATT
* *
825452 TAATAGATTTTAATTATTTTATAA
1 TAATATATTTAAATT-TTTTATAA
825476 TAA-ATATTTAAACATTTTTTAT-A
1 TAATATATTT-AA-ATTTTTTATAA
825499 TAATATATTTAAATTT
1 TAATATATTTAAATTT
825515 AAGATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.12
23 11 0.32
24 16 0.47
25 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TAATATATTTAAATTTTTTATAA
Found at i:835518 original size:8 final size:8
Alignment explanation
Indices: 835505--835531 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
835495 GCATGTATAA
835505 ATAAATAC
1 ATAAATAC
835513 ATAAATAC
1 ATAAATAC
835521 ATAAATAC
1 ATAAATAC
835529 ATA
1 ATA
835532 GCTAAACAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (8 bp):
ATAAATAC
Found at i:840948 original size:37 final size:37
Alignment explanation
Indices: 840889--841008 Score: 167
Period size: 35 Copynumber: 3.3 Consensus size: 37
840879 ATCCCATTAT
* * *
840889 CATTTTTC-AACAAACATCTACCAAAATTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
*
840925 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
840961 CA-TTTTCAAAGAAACATTTACCAAACTTT-AAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
840996 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
841009 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
35 34 0.45
36 13 0.17
37 28 0.37
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
Found at i:840964 original size:21 final size:21
Alignment explanation
Indices: 840940--841000 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
840930 TTCAAAGAAA
840940 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
840961 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
840975 CATTTACCAAACTTTAAAAAC
1 CATTTACCAAACTTTGAAAAC
840996 CATTT
1 CATTT
841001 TTTCAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
20 7 0.23
21 10 0.33
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:845530 original size:36 final size:36
Alignment explanation
Indices: 845459--845612 Score: 217
Period size: 35 Copynumber: 4.3 Consensus size: 36
845449 ATCCCATTAT
* * *
845459 CATTTTTC-AACAAACATCTACCAAAATTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
845495 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
845531 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
*
845566 CA-TTTTCAAAGAAACA-TTATCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
845600 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
845613 TTGGTTACCA
Statistics
Matches: 109, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
34 19 0.17
35 49 0.45
36 22 0.20
37 19 0.17
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:845534 original size:21 final size:21
Alignment explanation
Indices: 845510--845570 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
845500 TTCAAAGAAA
845510 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
845531 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
845545 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
845566 CATTT
1 CATTT
845571 TCAAAGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:845621 original size:69 final size:69
Alignment explanation
Indices: 845477--845639 Score: 197
Period size: 69 Copynumber: 2.3 Consensus size: 69
845467 AACAAACATC
* *
845477 TACCAAAATTTGAAAAACTATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 TACCAAACTTTG-AAAACCA-TTTTCAAAGAAACATTTACCAAACTTTGAAAACCATTTTCAAAG
*
845542 AAACATT
64 -AACAGT
*
845549 TACCAAACTTTGAAAACCATTTTCAAAGAAACA-TTATCAAACTTTGAAAACCATTTTTTCAAAG
1 TACCAAACTTTGAAAACCATTTTCAAAGAAACATTTACCAAACTTTGAAAACCA--TTTTCAAAG
***
845613 -TTGGT
64 AACAGT
845618 TACCAAAC-TTGAAAACCATTTT
1 TACCAAACTTTGAAAACCATTTT
845640 AACAACCATC
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
68 14 0.17
69 28 0.34
70 14 0.17
71 15 0.18
72 11 0.13
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (69 bp):
TACCAAACTTTGAAAACCATTTTCAAAGAAACATTTACCAAACTTTGAAAACCATTTTCAAAGAA
CAGT
Found at i:850430 original size:16 final size:16
Alignment explanation
Indices: 850417--850449 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
850407 TTTAGTTCGA
850417 GTTGCTTTCGGTTCAG
1 GTTGCTTTCGGTTCAG
*
850433 GTTGTTTTCGGTTCAG
1 GTTGCTTTCGGTTCAG
850449 G
1 G
850450 ATAAATTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.33, T:0.45
Consensus pattern (16 bp):
GTTGCTTTCGGTTCAG
Found at i:870626 original size:20 final size:19
Alignment explanation
Indices: 870596--870637 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
870586 GTAAAGACAG
*
870596 TAAATAAATAAAAATAAAA
1 TAAATAAATAAAAAGAAAA
*
870615 TAAATAAAATAAGAAGAAAA
1 TAAAT-AAATAAAAAGAAAA
870635 TAA
1 TAA
870638 TCCTCACGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (19 bp):
TAAATAAATAAAAAGAAAA
Found at i:876004 original size:108 final size:106
Alignment explanation
Indices: 875810--876126 Score: 345
Period size: 108 Copynumber: 3.0 Consensus size: 106
875800 TTCAAATGAT
* * * **** * *
875810 GGGTTCGTTCCCTCTTG-TTCAGGGATTAAGGAACTCGAACAATCTTCTAAAAAAAGGGTTTGCT
1 GGGTTCGCTCCCTCTTGCTTCAGGAAGT-A-GAACTCGAACAATCTTCTGCCTACA-GGTTCGCT
* * *
875874 CCCTA-TTACTTCAGGGAGTAGAACACGAACAATCTTC-GAC-TAGC
63 CCC-ACTTGCTTAAGGGAGTAGAACTCGAACAATCTTCTG-CTTA-C
* * *
875918 GGGTTCGCTCCCTCTTGCTTCAGGAAGTAGAACTCGAACAGTCTTCTGCCTACGGGTTCGCTCTC
1 GGGTTCGCTCCCTCTTGCTTCAGGAAGTAGAACTCGAACAATCTTCTGCCTACAGGTTCGCTCCC
* * *
875983 ACTTGCTTAATGGAGCATAGAACTCGAAAAATATTCTGCTTAC
66 ACTTGCTTAAGGGAG--TAGAACTCGAACAATCTTCTGCTTAC
*
876026 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACAGGTTCGCTCCC
1 GGGTTCGCTCCCTCTTGCTTCAGGAAGTAGAACTCGAACAATCTTCTGCCTACAGGTTCGCTCCC
* *
876091 TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
66 ACTTGCTTAAGGGAGTAGAACTCGAACAATCTTCTG
876127 GTGTGATTCT
Statistics
Matches: 176, Mismatches: 27, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
105 1 0.01
106 38 0.22
107 18 0.10
108 108 0.61
109 11 0.06
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (106 bp):
GGGTTCGCTCCCTCTTGCTTCAGGAAGTAGAACTCGAACAATCTTCTGCCTACAGGTTCGCTCCC
ACTTGCTTAAGGGAGTAGAACTCGAACAATCTTCTGCTTAC
Found at i:876027 original size:55 final size:53
Alignment explanation
Indices: 875810--876126 Score: 368
Period size: 53 Copynumber: 5.9 Consensus size: 53
875800 TTCAAATGAT
* * **** *
875810 GGGTTCGTTCCCTCTTG-TTCAGGGATTAAGGAACTCGAACAATCTTCTAAAAAAA
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCT-GCCTAC
* * * * *
875865 GGGTTTGCTCCCTATTACTTCAGGGAGTAGAACACGAACAATCTTC-GACTAGC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTA-C
* *
875918 GGGTTCGCTCCCTCTTGCTTCAGGAAGTAGAACTCGAACAGTCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * * * * *
875971 GGGTTCGCTCTCACTTGCTTAATGGAGCATAGAACTCGAAAAATATTCTGCTTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTCTGCCTAC
876026 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
*
876079 AGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
876127 GTGTGATTCT
Statistics
Matches: 223, Mismatches: 34, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.01
53 133 0.60
54 20 0.09
55 59 0.26
56 9 0.04
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (53 bp):
GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
Found at i:876577 original size:22 final size:21
Alignment explanation
Indices: 876549--876619 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
876539 ACAAATGAGC
876549 CGAAAGATTTAATCATCATGCT
1 CGAAAGATTT-ATCATCATGCT
* * *
876571 CGAAAGACTTAT--TGATGACC
1 CGAAAGATTTATCATCATG-CT
*
876591 CGAAGGATTTCATCATCATGCT
1 CGAAAGATTT-ATCATCATGCT
876613 CGAAAGA
1 CGAAAGA
876620 GTTACTGACG
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
19 4 0.11
20 9 0.24
21 4 0.11
22 16 0.43
23 4 0.11
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (21 bp):
CGAAAGATTTATCATCATGCT
Found at i:876719 original size:42 final size:42
Alignment explanation
Indices: 876672--876761 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
876662 AAAATTACCT
* * * *
876672 GAAGGATTTAATTATCATGCTCGAAAGACTTATTGATGGCCC
1 GAAGGATTTAATCATCACGCTCGAAAGACTTACTGATGACCC
* *
876714 GAAGGATTTCATCATCACGCTTGAAAGACTTACTGATGACCC
1 GAAGGATTTAATCATCACGCTCGAAAGACTTACTGATGACCC
876756 GAAGGA
1 GAAGGA
876762 CTTATAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (42 bp):
GAAGGATTTAATCATCACGCTCGAAAGACTTACTGATGACCC
Found at i:894791 original size:30 final size:30
Alignment explanation
Indices: 894755--894812 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
894745 TTACTCTAGC
* *
894755 ATGACAT-GACTTATTTTATTAATATTTTCT
1 ATGACATAG-CTTATCTTATCAATATTTTCT
894785 ATGACATAGCTTATCTTATCAATATTTT
1 ATGACATAGCTTATCTTATCAATATTTT
894813 ACCCAGGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (30 bp):
ATGACATAGCTTATCTTATCAATATTTTCT
Found at i:895470 original size:30 final size:31
Alignment explanation
Indices: 895436--895504 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
895426 TCAATTTGTA
* * *
895436 CTCGTTAAAA-AATTTATTGCTCAACTCGTG
1 CTCGTTAAAAGAACTTATTACTCAACGCGTG
* *
895466 CTCGTTAAAAGAACTTGTTACTTAACGCGTG
1 CTCGTTAAAAGAACTTATTACTCAACGCGTG
895497 CTCGTTAA
1 CTCGTTAA
895505 GCTTACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (31 bp):
CTCGTTAAAAGAACTTATTACTCAACGCGTG
Found at i:913249 original size:20 final size:20
Alignment explanation
Indices: 913224--913261 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
913214 GGTCGGGTTA
913224 TGTATTGTG-TGGGTATTGGT
1 TGTATTGTGCT-GGTATTGGT
913244 TGTATTGTGCTGGTATTG
1 TGTATTGTGCTGGTATTG
913262 TATAAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.11, C:0.03, G:0.37, T:0.50
Consensus pattern (20 bp):
TGTATTGTGCTGGTATTGGT
Found at i:926115 original size:64 final size:63
Alignment explanation
Indices: 926030--926160 Score: 174
Period size: 64 Copynumber: 2.0 Consensus size: 63
926020 TTGTTTAAGG
* *
926030 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * * *
926094 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
926158 TGC
1 TGC
926161 GATGCATGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 51 0.86
65 7 0.12
66 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:927687 original size:145 final size:145
Alignment explanation
Indices: 927519--927817 Score: 548
Period size: 145 Copynumber: 2.1 Consensus size: 145
927509 GAGTCGAGGG
*
927519 TCTACGCGGTCCTTCGGGATATATATAT-TCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
1 TCTACGCGGTCCTTAGGGATATATATATATCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
927583 CTTGAT-CCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTA-T-T
927647 ATGGCACTACGTGCAAT
129 ATGGCACTACGTGCAAT
*
927664 TCTACGCGGTCCTTAGGGATATATATATATCTGTGGAACATGTGTGAAGTCTTGTAAGACACATA
1 TCTACGCGGTCCTTAGGGATATATATATATCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
927729 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
927794 GGCACTACGTGCAAT
131 GGCACTACGTGCAAT
927809 TCTACGCGG
1 TCTACGCGG
927818 CACTTCGGTG
Statistics
Matches: 150, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
145 54 0.36
146 42 0.28
147 54 0.36
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (145 bp):
TCTACGCGGTCCTTAGGGATATATATATATCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
GGCACTACGTGCAAT
Found at i:927830 original size:23 final size:22
Alignment explanation
Indices: 927794--927837 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
927784 ACATTATTAT
*
927794 GGCACTACGTGCAATTCTACGC
1 GGCACTACGTGCAATTATACGC
*
927816 GGCACTTCGGTGCAATTATACG
1 GGCACTAC-GTGCAATTATACG
927838 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (22 bp):
GGCACTACGTGCAATTATACGC
Found at i:929455 original size:31 final size:31
Alignment explanation
Indices: 929391--929526 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
929381 GTCCTAGATT
* *
929391 CCGAAGAACCTAGGT-AACAGTCC-TATGTT
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
929420 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
929451 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
929482 CCGAAG-A-ATAGGTAAA-AGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
929510 CCGAAGAACATAGGTAA
1 CCGAAGAACATAGGTAA
929527 CCCTCGACCC
Statistics
Matches: 101, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
28 18 0.18
29 24 0.24
30 17 0.17
31 42 0.42
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAACAGTCCATATGTC
Found at i:929519 original size:59 final size:61
Alignment explanation
Indices: 929391--929526 Score: 217
Period size: 59 Copynumber: 2.3 Consensus size: 61
929381 GTCCTAGATT
* *
929391 CCGAAGAACCTAGGT-AACAGTCCTATGTTCCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCTATGTCCCGAAGAACATAGGTAAACAGTCCATATGTC
929451 CCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAG-A-ATAGGTAAA-AGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCC-TATGTCCCGAAGAACATAGGTAAACAGTCCATATGTC
929510 CCGAAGAACATAGGTAA
1 CCGAAGAACATAGGTAA
929527 CCCTCGACCC
Statistics
Matches: 72, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
59 29 0.40
60 23 0.32
61 9 0.12
62 11 0.15
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (61 bp):
CCGAAGAACATAGGTAAACAGTCCTATGTCCCGAAGAACATAGGTAAACAGTCCATATGTC
Found at i:933713 original size:31 final size:31
Alignment explanation
Indices: 933675--933827 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
933665 CCCGAAGGAC
* *
933675 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
933706 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
933737 CAGTCCATATGTCCCGAA-AACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
933767 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
933798 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
933828 CCCTCGACCC
Statistics
Matches: 118, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
30 30 0.25
31 87 0.74
32 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:933772 original size:61 final size:62
Alignment explanation
Indices: 933675--933827 Score: 256
Period size: 61 Copynumber: 2.5 Consensus size: 62
933665 CCCGAAGGAC
* * *
933675 CAGTCCATA-GATTCCGAAGAACCTAGGTAAACAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
933737 CAGTCCATATGTCCCGAA-AACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
933798 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
933828 CCCTCGACCC
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
61 59 0.69
62 26 0.30
63 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (62 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:938055 original size:3 final size:3
Alignment explanation
Indices: 938047--938071 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
938037 TCTGAAGAGG
938047 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
938072 ATTTAAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:938605 original size:15 final size:15
Alignment explanation
Indices: 938587--938618 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
938577 TAATTGTTAC
938587 ACTGTTTTATTTATA
1 ACTGTTTTATTTATA
938602 ACTGTTTTATTTATA
1 ACTGTTTTATTTATA
938617 AC
1 AC
938619 ACATGTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.56
Consensus pattern (15 bp):
ACTGTTTTATTTATA
Found at i:945870 original size:23 final size:23
Alignment explanation
Indices: 945844--945891 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
945834 ATAAAGTACA
*
945844 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
945867 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
945890 AT
1 AT
945892 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:946307 original size:23 final size:23
Alignment explanation
Indices: 946281--946340 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
946271 TAACCACTAT
946281 CTATTACATTATATAAACGATAC
1 CTATTACATTATATAAACGATAC
** *
946304 CTATTACATTATATAAGGGCTAC
1 CTATTACATTATATAAACGATAC
*
946327 CTATTACATCATAT
1 CTATTACATTATAT
946341 GTTTACCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:946798 original size:38 final size:39
Alignment explanation
Indices: 946730--946815 Score: 147
Period size: 38 Copynumber: 2.2 Consensus size: 39
946720 TCAAGTTGTA
*
946730 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
946769 GATTTTGATTTCC-TTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
946807 GATTTTGAT
1 GATTTTGAT
946816 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 32 0.71
39 13 0.29
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:947095 original size:18 final size:18
Alignment explanation
Indices: 947072--947108 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
947062 CGAAATATAT
947072 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
947090 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
947108 A
1 A
947109 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:947394 original size:24 final size:25
Alignment explanation
Indices: 947350--947399 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
947340 TTAATCCAAA
947350 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCATAACAATGTTCAAT
*
947375 TAATGTACCCA-AACAATGTTTAAT
1 TAATGTACCCATAACAATGTTCAAT
947399 T
1 T
947400 GATTTGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (25 bp):
TAATGTACCCATAACAATGTTCAAT
Found at i:947654 original size:18 final size:19
Alignment explanation
Indices: 947617--947653 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
947607 TCCACAGTGA
* *
947617 AAAAAGTATGGACACTTTT
1 AAAAAGGATAGACACTTTT
947636 AAAAAGGATAGACACTTT
1 AAAAAGGATAGACACTTT
947654 ACAATATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (19 bp):
AAAAAGGATAGACACTTTT
Found at i:951243 original size:22 final size:23
Alignment explanation
Indices: 951212--951257 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
951202 TTTCCACAGG
951212 AAAAAAGTATAG-ACACTTTTAT
1 AAAAAAGTATAGCACACTTTTAT
* * *
951234 AAAAAGGTATCGCACATTTTTAT
1 AAAAAAGTATAGCACACTTTTAT
951257 A
1 A
951258 CCGGTTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (23 bp):
AAAAAAGTATAGCACACTTTTAT
Found at i:951518 original size:18 final size:19
Alignment explanation
Indices: 951492--951527 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
951482 CTGATGTGTA
*
951492 AAATGTCGACAC-TTTTTT
1 AAATATCGACACATTTTTT
951510 AAATATCGACACATTTTT
1 AAATATCGACACATTTTT
951528 CTTCCAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (19 bp):
AAATATCGACACATTTTTT
Found at i:951889 original size:22 final size:22
Alignment explanation
Indices: 951858--951899 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
951848 TTCCACAGTG
*
951858 AAAAAAGTATAGACACTTTTAT
1 AAAAAAGTATAGACAATTTTAT
* *
951880 AAAAAGGTATCGACAATTTT
1 AAAAAAGTATAGACAATTTT
951900 TATACCGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (22 bp):
AAAAAAGTATAGACAATTTTAT
Found at i:951933 original size:646 final size:651
Alignment explanation
Indices: 950665--952829 Score: 3775
Period size: 646 Copynumber: 3.4 Consensus size: 651
950655 TTCAAATTAC
*
950665 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAC
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAC
950730 ATTATAAAGTGTCGATATAGG-TGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
950794 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTT
950859 TAAATCGTATCGACACATTTTCTTCCAATATGGACCTATTTTATTATAATATGTTGAAAGTGTCC
196 TAAA--GTATCGACACATTTTCTTCCAATATGGACCTA-TTTATTATAATATGTTGAAAGTGTCC
950924 ATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGATATGTAATTTATGTTTCAATATTTTT
258 ATACTTTTTATAAAAAGGATCGATACTTTTTTTT-AAGATATGTAATTTATGTTTCAATATTTTT
*
950989 TAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTAG
322 TAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA-TAA
951054 TTT-AGTGTTTTGATA-TTTATAAAATAATATTAAGAATTTTTAATTTAATAATAATATTATACC
386 TTTGAGTGTTTTGATATTTTATAAAATAATATTAAGAATTTTTAATTTAATAATAATA-TATACC
951117 GTAACGTAAAAAATTAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
450 GTAACGTAAAAAATTAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
951182 AAGATAACCTTAAATTAATGTTTCCACAG-GAAAAAAGTATAGACACTTTTATAAAAAGGTATCG
515 AAGATAACCTTAAATTAATGTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGTATCG
951246 -CACATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTG
580 ACACATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTG
951310 TAAATGT
645 TAAATGT
951317 CGACACTTTTTTAAATGGTATCGAC-CATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAC
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAC
*
951381 ATTATAAAGTGTCGATATAGGTTGTAGACCTATT-GCTCATAAAACCAGTATATTTATA-CGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
*
951444 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCTGATGTGTAAAATGTCGACACTTTTT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTT
951509 TAAA-TATCGACACATTTTTCTTCCAATATGGACCTATTTATTATAATATGTTGAAAGTGTCCAT
196 TAAAGTATCGACACA-TTTTCTTCCAATATGGACCTATTTATTATAATATGTTGAAAGTGTCCAT
*
951573 AC-TTTTATAAAAAGGATCGATACTTTTTTTTAAGATATGTAATTTATGTTTCAATTTTTTTTAA
260 ACTTTTTATAAAAAGGATCGATACTTTTTTTTAAGATATGTAATTTATGTTTCAATATTTTTTAA
951637 GTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATAATTTG
325 GTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATAATTTG
951702 AGTGTTTTGATATTTTATAAAATAATATTAAGAATTTTTAA-TTAATAATAATATATACCGTAAC
390 AGTGTTTTGATATTTTATAAAATAATATTAAGAATTTTTAATTTAATAATAATATATACCGTAAC
951766 GTAAAAAATT-ATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
455 GTAAAAAATTAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
951830 AACCTTAAATTAATGTTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGTATCGACA
520 AACCTTAAATTAATG--TTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGTATCGACA
951895 -ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
583 CATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
951959 ATGT
648 ATGT
951963 CGACAC-TTTTTAAAT-GTATCGACACA-TTTTCTTCCAATCTGGACATAAAGTACCGACACAAC
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAC
* *
952025 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAATTGTACCGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
*
952090 AGATTGA-AAAATTA-CATATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTT
131 ATATT-ACAAAATTATC-TATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTT
952153 TTTAAATCGTATCGACACATTTT-TCTCC-ATATGGACCTATTTATTATAATATGTTGAAAGTGT
194 TTTAAA--GTATCGACACATTTTCT-TCCAATATGGACCTATTTATTATAATATGTTGAAAGTGT
* *
952216 CCATACTTTTTATAAAAAGGATCTATACTTTTTTTAAAGATATGTAA-TTATGTTTCAATATTTT
256 CCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAGATATGTAATTTATGTTTCAATATTTT
*
952280 TTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTT-ATAATTTCATTTGCACAAAAAATTA
321 TTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATAA
*
952344 GTTGAGTGTTTTGATATTTTAT-AAATAATATTAAGAATTTTTAATTTAATAATAAATATATACC
386 TTTGAGTGTTTTGATATTTTATAAAATAATATTAAGAATTTTTAATTTAATAAT-AATATATACC
952408 GTAACGTAAAAAATTAATCATTAGA-GCCTATAATTACTAAATTAATATCTTAAAA-TCACTCAA
450 GTAACGTAAAAAATTAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
952471 AAGATAACCTTAAATTAATGTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGG--TCG
515 AAGATAACCTTAAATTAATGTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGTATCG
952534 ACACATTTTTATACCGGTTATATTACAAAATTA--TATTACATTATAAATCTGGGTTCCGATGTG
580 ACACATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTG
952597 TAAATGT
645 TAAATGT
* *
952604 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCT-GA-ACAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAC
* *
952667 ATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTAT-TTTATACCGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
* *
952731 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGT-AAATGTCGACACTTTTT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTT
*
952795 TAAATGGTATCGACACATTTTCTTCCAATCTGGAC
196 TAAA--GTATCGACACATTTTCTTCCAATATGGAC
952830 ATAAAGTACC
Statistics
Matches: 1458, Mismatches: 26, Indels: 69
0.94 0.02 0.04
Matches are distributed among these distances:
640 41 0.03
641 101 0.07
642 82 0.06
643 111 0.08
644 158 0.11
645 178 0.12
646 315 0.22
647 195 0.13
648 75 0.05
649 10 0.01
650 73 0.05
651 82 0.06
652 37 0.03
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (651 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAC
ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTTT
TAAAGTATCGACACATTTTCTTCCAATATGGACCTATTTATTATAATATGTTGAAAGTGTCCATA
CTTTTTATAAAAAGGATCGATACTTTTTTTTAAGATATGTAATTTATGTTTCAATATTTTTTAAG
TATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATAATTTGA
GTGTTTTGATATTTTATAAAATAATATTAAGAATTTTTAATTTAATAATAATATATACCGTAACG
TAAAAAATTAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
ACCTTAAATTAATGTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGTATCGACACAT
TTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATG
T
Found at i:954230 original size:3 final size:3
Alignment explanation
Indices: 954222--954292 Score: 63
Period size: 3 Copynumber: 24.0 Consensus size: 3
954212 ACTTGTTTGG
* * * ** *
954222 ATC ATC ATC TTC ATC A-C ATC ATC ATC ATC GTC ATC TTC ATC GCC AGC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
954269 TTC ATC GTC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC
954293 GTCAGCTTCA
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.25, C:0.35, G:0.06, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:954274 original size:30 final size:30
Alignment explanation
Indices: 954240--954304 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
954230 CTTCATCACA
* *
954240 TCATCATCATCGTCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCGCCAGCT
* *
954270 TCATCGTCATCATCATCATCATCGTCAGCT
1 TCATCATCATCATCATCATCATCGCCAGCT
954300 TCATC
1 TCATC
954305 TTATGCGACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.35, G:0.09, T:0.34
Consensus pattern (30 bp):
TCATCATCATCATCATCATCATCGCCAGCT
Found at i:956079 original size:194 final size:195
Alignment explanation
Indices: 955744--956106 Score: 612
Period size: 194 Copynumber: 1.9 Consensus size: 195
955734 TATTTAAATT
*
955744 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTCATAAAACCGGTA
955809 TAATTGTACCGTTAGATTGAAAAATTACTATTACATTATACTTTTGGGTTCGATGATTTGGGATC
66 TAATTGTACCGTTAGATTGAAAAATTACTATTACATTATACTTTTGGGTTCGATGATTTGGGATC
955874 GACACTTTTTATATA-GGAT-GACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAA
131 GACACTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAA
955937 A
195 A
*
955938 AGTATCGACACAAACTCTATTAGTGTCGACACATTATTTAGAAATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTCATAAAACCGGTA
956003 TAATTGTACCGGTTAGATTG-AAAATTACATATT-CATTATAC-TTTGGGTTCGA-GATTTTGGG
66 TAATTGTACC-GTTAGATTGAAAAATTAC-TATTACATTATACTTTTGGGTTCGATGA-TTTGGG
*
956064 ATTGACACTTTTTTATATATGGATCGACACTTATGGGTGCACC
128 ATCGACAC-TTTTTATATATGGATCGACACTTATGGGTGCACC
956107 CGTTGGCCAT
Statistics
Matches: 160, Mismatches: 3, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
192 2 0.01
193 24 0.15
194 99 0.62
195 30 0.19
196 5 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (195 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGAAATATTCTCTCATAAAACCGGTA
TAATTGTACCGTTAGATTGAAAAATTACTATTACATTATACTTTTGGGTTCGATGATTTGGGATC
GACACTTTTTATATATGGATCGACACTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAAA
Found at i:956273 original size:19 final size:19
Alignment explanation
Indices: 956227--956275 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
956217 TTATATTCAC
*
956227 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
956246 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
956265 ATACAAAATTA
1 ATACAAAATTA
956276 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:958049 original size:32 final size:31
Alignment explanation
Indices: 958013--958075 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
958003 CATCTTAATA
*
958013 TCACCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCTCAAC-CCCCAACTTCTTTCACCACT
* *
958045 TCACCCTCAACCCTCTACTTCTTTCACCACT
1 TCACCCTCAACCCCCAACTTCTTTCACCACT
958076 CCATCTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.22, C:0.48, G:0.00, T:0.30
Consensus pattern (31 bp):
TCACCCTCAACCCCCAACTTCTTTCACCACT
Found at i:958148 original size:21 final size:21
Alignment explanation
Indices: 958108--958172 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
958098 CCCCTTATTC
* *
958108 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
958129 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
958150 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
958171 CT
1 CT
958173 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:960375 original size:19 final size:20
Alignment explanation
Indices: 960349--960394 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
960339 TCCGGTATCA
960349 TTTTACCGG-TTTATCAT-T
1 TTTTACCGGTTTTATCATAT
960367 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
960388 TTTTACC
1 TTTTACC
960395 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 13 0.52
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:961012 original size:217 final size:212
Alignment explanation
Indices: 960618--961037 Score: 620
Period size: 217 Copynumber: 1.9 Consensus size: 212
960608 TTAAAACTGC
960618 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATT
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATT
*
960683 AATTTAATAATTTTTACACAAAATATATTTGATTGTTTTGATATTTATAAATATTATTTAGAATT
66 AATTTAATAATTTTTACACAAAAAATATTTGATTGTTTTGATATTTATAAATATTATTTAGAATT
* *
960748 TAAATTTAACATATTAACCAATATATATAAATATGTTTTCAACAGTGAAATAAGTATGGACA-TT
131 TAAATTTAACATATTAACAAAGATATATAAATA--TTTTCAACAGTGAAATAAGTATGGACACTT
960812 TTATAAAATGATATATACT
194 TTATAAAATGATATATACT
*
960831 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT-TTTCATG-TTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTAC-A-
960894 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTG-TTTGATATTT-TATAATATTAT
63 ATTAATTTAATAA-TT--TTTACACAAAAAA-TATTTGATTGTTTTGATATTTATA-AATATTAT
*
960957 TTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATA-TTTC-ACAGTGAAATAAGT
123 TTAGAATTTAAATTTAAC-ATATTAAC-AAAGAT-AT-ATAAATATTTTCAACAGTGAAATAAGT
961020 ATGGACACTTTTATAAAA
184 ATGGACACTTTTATAAAA
961038 AGGATAGATA
Statistics
Matches: 189, Mismatches: 5, Indels: 21
0.88 0.02 0.10
Matches are distributed among these distances:
212 11 0.06
213 12 0.06
214 49 0.26
215 2 0.01
216 2 0.01
217 68 0.36
218 32 0.17
219 4 0.02
220 2 0.01
221 7 0.04
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (212 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATT
AATTTAATAATTTTTACACAAAAAATATTTGATTGTTTTGATATTTATAAATATTATTTAGAATT
TAAATTTAACATATTAACAAAGATATATAAATATTTTCAACAGTGAAATAAGTATGGACACTTTT
ATAAAATGATATATACT
Found at i:966523 original size:23 final size:23
Alignment explanation
Indices: 966478--966523 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
966468 TTCTATTTTT
* *
966478 ACTTTAATTACTTTTATTTAATC
1 ACTTTAATTACTTTTACTAAATC
966501 ACTTT-ATTATCTTTTACTAAATC
1 ACTTTAATTA-CTTTTACTAAATC
966524 CCCCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.54
Consensus pattern (23 bp):
ACTTTAATTACTTTTACTAAATC
Found at i:973463 original size:20 final size:22
Alignment explanation
Indices: 973424--973464 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
973414 AATTTTTAAA
*
973424 AAATAAAAACTATTTTAAATTT
1 AAATAAAAACTATATTAAATTT
973446 AAAT-AAAA-TATATTAAATT
1 AAATAAAAACTATATTAAATT
973465 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATAAAAACTATATTAAATTT
Found at i:980276 original size:20 final size:20
Alignment explanation
Indices: 980225--980282 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
980215 ATTATTTTTC
*
980225 TCAATTCCAAAACCCTTAAA
1 TCAATTCCAAATCCCTTAAA
**
980245 TC-ATTAAAAAATCCCTTAAA
1 TCAATT-CCAAATCCCTTAAA
980265 TCAATTCCAAAT-CCTTAA
1 TCAATTCCAAATCCCTTAA
980283 CACTAACTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.29
20 19 0.61
21 3 0.10
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (20 bp):
TCAATTCCAAATCCCTTAAA
Found at i:982139 original size:28 final size:27
Alignment explanation
Indices: 982072--982145 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
982062 ATTATGGTGT
* *
982072 CAAGTAAATACTTGAAACATTAGACGC
1 CAAGTCAATGCTTGAAACATTAGACGC
* * *
982099 CAAGTTAATGCTTGAAACATTATATCGT
1 CAAGTCAATGCTTGAAACATTAGA-CGC
* *
982127 CAAGTCAGTGCTTGGAACA
1 CAAGTCAATGCTTGAAACA
982146 ATGACAGTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
CAAGTCAATGCTTGAAACATTAGACGC
Found at i:989498 original size:20 final size:20
Alignment explanation
Indices: 989473--989527 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
989463 GGTTCACGGA
*
989473 ATGTAAGATTATTAGTGGGG
1 ATGTAAGATTATCAGTGGGG
989493 ATGTAAGATTATCAGTGGGG
1 ATGTAAGATTATCAGTGGGG
989513 ATGTAAGATTATCAG
1 ATGTAAGATTATCAG
989528 GGAATAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.33
Consensus pattern (20 bp):
ATGTAAGATTATCAGTGGGG
Found at i:996173 original size:21 final size:20
Alignment explanation
Indices: 996136--996174 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
996126 TAAGAATATA
*
996136 TTTATATTTATAAATATAAT
1 TTTATATATATAAATATAAT
*
996156 TTTATAATATATATATATA
1 TTTAT-ATATATAAATATA
996175 TTATAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATATATATAAATATAAT
Found at i:996187 original size:35 final size:33
Alignment explanation
Indices: 996123--996203 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 33
996113 TATATTACAA
*
996123 TTATAAGAATATATTTATATTTATAAATATAATT
1 TTATAA-AATATATATATATTTATAAATATAATT
* * **
996157 TTATAATATATATATATATTATAGTTAATATTTTT
1 TTATAAAATATATATATATT-TA-TAAATATAATT
996192 TTATAAAATATA
1 TTATAAAATATA
996204 ATTTTATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
33 12 0.31
34 8 0.21
35 19 0.49
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
TTATAAAATATATATATATTTATAAATATAATT
Found at i:996221 original size:15 final size:15
Alignment explanation
Indices: 996142--996213 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
996132 TATATTTATA
996142 TTTAT-AAATATAAT
1 TTTATAAAATATAAT
996156 TTTATAATATATATATAT
1 TTTATAA-A-ATATA-AT
* * **
996174 ATTATAGTTAATATTTT
1 TTTATA--AAATATAAT
996191 TTTATAAAATATAAT
1 TTTATAAAATATAAT
996206 TTTATAAA
1 TTTATAAA
996214 TTTCAATTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
14 5 0.11
15 15 0.34
16 1 0.02
17 11 0.25
18 11 0.25
19 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
TTTATAAAATATAAT
Found at i:1002184 original size:15 final size:15
Alignment explanation
Indices: 1002159--1002196 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1002149 TGAAAGGTTC
1002159 GAGCC-AGGTTAGTG
1 GAGCCAAGGTTAGTG
1002173 GAGCCAAGGTTAGTG
1 GAGCCAAGGTTAGTG
1002188 GAGCCAAGG
1 GAGCCAAGG
1002197 ACTTTAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.26, C:0.16, G:0.42, T:0.16
Consensus pattern (15 bp):
GAGCCAAGGTTAGTG
Done.