Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 39 of 47
Found at i:6306990 original size:29 final size:29
Alignment explanation
Indices: 6306957--6307013 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
6306947 TTTTAAATAG
*
6306957 TATCATATTTTAA-TTACTTTAATATTTTT
1 TATCATATTTTAATTTA-TATAATATTTTT
6306986 TATCATATTTTAATTTATATAATATTTT
1 TATCATATTTTAATTTATATAATATTTT
6307014 ATATAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (29 bp):
TATCATATTTTAATTTATATAATATTTTT
Found at i:6307407 original size:18 final size:21
Alignment explanation
Indices: 6307355--6307415 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
6307345 AATGGTATGG
* *
6307355 TTAATTATTATAATGATAAAA
1 TTAAATATTATAATAATAAAA
6307376 TTAAATATTATAATAATAAAA
1 TTAAATATTATAATAATAAAA
6307397 TTAAA-A-T-TAATAATAAAA
1 TTAAATATTATAATAATAAAA
6307415 T
1 T
6307416 ATATATTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 12 0.32
19 1 0.03
20 1 0.03
21 24 0.63
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAATATTATAATAATAAAA
Found at i:6307544 original size:16 final size:16
Alignment explanation
Indices: 6307473--6307578 Score: 65
Period size: 16 Copynumber: 6.4 Consensus size: 16
6307463 AATTATTATT
6307473 AATAATAT-T-TAATTA
1 AATAATATATATAA-TA
*
6307488 AATAAATATATAAAATA
1 AAT-AATATATATAATA
* * *
6307505 AATAATTTAAAATTATTAA
1 AATAATAT-ATA-TAAT-A
*
6307524 AATAATATTTATAATA
1 AATAATATATATAATA
*
6307540 AATAATAAATATAA-A
1 AATAATATATATAATA
* *
6307555 ATATATTATATATATTA
1 A-ATAATATATATAATA
6307572 AATAATA
1 AATAATA
6307579 AAAAATTTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 15
0.69 0.15 0.15
Matches are distributed among these distances:
15 5 0.07
16 37 0.54
17 13 0.19
18 5 0.07
19 8 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATATATATAATA
Found at i:6307573 original size:25 final size:25
Alignment explanation
Indices: 6307488--6307581 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
6307478 TATTTAATTA
*
6307488 AATAAATATATAAA-AT-AAATAATTT
1 AATAAATAT-TAAATATAAAAT-ATAT
* * *
6307513 AA-AATTATTAAA-ATAATATTTAT
1 AATAAATATTAAATATAAAATATAT
*
6307536 AATAAATAATAAATATAAAATATAT
1 AATAAATATTAAATATAAAATATAT
* *
6307561 TATATATATTAAATAATAAAA
1 AATAAATATTAAAT-ATAAAA
6307582 AATTTTTAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
23 10 0.19
24 16 0.30
25 22 0.41
26 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAAATATTAAATATAAAATATAT
Found at i:6307579 original size:32 final size:30
Alignment explanation
Indices: 6307521--6307580 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 30
6307511 TTAAAATTAT
6307521 TAAAATAATATTTATAATAAATAATAAATA
1 TAAAATAATATTTATAATAAATAATAAATA
6307551 TAAAAT-ATATTATATATATTAAATAATAAA
1 TAAAATAATATT-TATA-A-TAAATAATAAA
6307581 AAATTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 5 0.19
30 10 0.37
31 1 0.04
32 11 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
TAAAATAATATTTATAATAAATAATAAATA
Found at i:6307613 original size:67 final size:66
Alignment explanation
Indices: 6307494--6307622 Score: 150
Period size: 67 Copynumber: 1.9 Consensus size: 66
6307484 ATTAAATAAA
** *
6307494 TATATAAAATAAATAATTTAAAATTATTAAAATAATATTTATAATAAATAATAAATATAAAATAT
1 TATATAAAATAAATAATAAAAAATTATTAAAATAATATTTATAATAAATAAT-AATAAAAAATAT
6307559 AT
65 AT
* * * * * ** *
6307561 TATATATATTAAATAATAAAAAATTTTTAAAATTATGTTTATGTTAACTAATAATAAAAAAT
1 TATATAAAATAAATAATAAAAAATTATTAAAATAATATTTATAATAAATAATAATAAAAAAT
6307623 TTTTAAAATT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
66 9 0.18
67 42 0.82
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (66 bp):
TATATAAAATAAATAATAAAAAATTATTAAAATAATATTTATAATAAATAATAATAAAAAATATA
T
Found at i:6307620 original size:37 final size:36
Alignment explanation
Indices: 6307572--6307694 Score: 131
Period size: 38 Copynumber: 3.3 Consensus size: 36
6307562 ATATATATTA
6307572 AATAATAAAAAATTTTTAAAATTATGTTTATGTTAACT
1 AATAATAAAAAATTTTTAAAATTA-GTTTATGTTAA-T
* * *
6307610 AATAATAAAAAATTTTTAAAATTACATTTATATTAAA
1 AATAATAAAAAATTTTTAAAATTA-GTTTATGTTAAT
* * *
6307647 AATAATAAAATATATATT-AAATTAGATTATGTTAAAT
1 AATAATAAAAAAT-TTTTAAAATTAGTTTATGTT-AAT
*
6307684 AATAATTAAAA
1 AATAATAAAAA
6307695 TATTAAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
36 6 0.08
37 29 0.41
38 36 0.51
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (36 bp):
AATAATAAAAAATTTTTAAAATTAGTTTATGTTAAT
Found at i:6307695 original size:38 final size:37
Alignment explanation
Indices: 6307569--6307699 Score: 137
Period size: 37 Copynumber: 3.6 Consensus size: 37
6307559 ATTATATATA
*
6307569 TTAAATAATAA-AAAAT-TT-TTAAAATTATGTTTATG
1 TTAAATAATAATAAAATATTATTAAAATTA-GATTATG
* * * * *
6307604 TTAACTAATAATAAAAAATTTTTAAAATTACATTTATA
1 TTAAATAATAATAAAATATTATTAAAATTAGA-TTATG
6307642 TTAAA-AATAATAAAATATATATT-AAATTAGATTATG
1 TTAAATAATAATAAAATAT-TATTAAAATTAGATTATG
6307678 TTAAATAATAATTAAAATATTA
1 TTAAATAATAA-TAAAATATTA
6307700 AAAAATAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
35 10 0.13
36 13 0.16
37 28 0.35
38 28 0.35
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (37 bp):
TTAAATAATAATAAAATATTATTAAAATTAGATTATG
Found at i:6307717 original size:75 final size:75
Alignment explanation
Indices: 6307534--6307717 Score: 177
Period size: 73 Copynumber: 2.5 Consensus size: 75
6307524 AATAATATTT
* * *
6307534 ATAATAAATAATAAATA-TAAAATAT-ATTATATATATTAAATAATAAAAAATTTTTAAAATTAT
1 ATAAT-AATAAAAAATATTAAAAAATAAATATATATATTAAATAATAAAAAATTTTTAAAATTAT
*
6307597 GTTTATGTTAA
65 GATTATGTTAA
* * * * *
6307608 CTAATAATAAAAAATTTTTAAAATTACAT-T-TATATTAAA-AATAATAAAATATATATT-AAAT
1 ATAATAATAAAAAATATTAAAAAATAAATATATATATTAAATAATAA-AAAAT-T-T-TTAAAAT
6307669 TA-GATTATGTTAA
62 TATGATTATGTTAA
*
6307682 ATAATAAT-TAAAATATTAAAAAATAAATATATATAT
1 ATAATAATAAAAAATATTAAAAAATAAATATATATAT
6307718 ATATTTAAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
72 5 0.06
73 38 0.44
74 29 0.33
75 13 0.15
76 2 0.02
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (75 bp):
ATAATAATAAAAAATATTAAAAAATAAATATATATATTAAATAATAAAAAATTTTTAAAATTATG
ATTATGTTAA
Found at i:6309500 original size:21 final size:22
Alignment explanation
Indices: 6309474--6309520 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
6309464 AAAAAATTAT
*
6309474 TTTTAT-ATTAATATTTATAT-A
1 TTTTATAATTAAT-TTTAAATAA
6309495 TTTTATAATTAATTTTAAATAA
1 TTTTATAATTAATTTTAAATAA
6309517 TTTT
1 TTTT
6309521 TTTATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTATAATTAATTTTAAATAA
Found at i:6309527 original size:22 final size:21
Alignment explanation
Indices: 6309471--6309534 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
6309461 TTAAAAAAAT
* *
6309471 TATTTTTATATTAATATTTATA
1 TATTTTTTTATTAAT-TTTAAA
* *
6309493 TATTTTATAATTAATTTTAAA
1 TATTTTTTTATTAATTTTAAA
6309514 TAATTTTTTTATT-A-TTTAAA
1 T-ATTTTTTTATTAATTTTAAA
6309534 T
1 T
6309535 TGTAATCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 7 0.20
21 7 0.20
22 21 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTTTATTAATTTTAAA
Found at i:6309869 original size:20 final size:20
Alignment explanation
Indices: 6309844--6309908 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
6309834 ATCATTGTTA
6309844 ATAATATATTAAATATAATT
1 ATAATATATTAAATATAATT
6309864 ATAATATA--AAATATGAATTT
1 ATAATATATTAAATAT-AA-TT
* *
6309884 AAAATTAAATTAAAT-T-ATT
1 ATAA-TATATTAAATATAATT
6309903 ATAATA
1 ATAATA
6309909 AAGTATACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 14 0.38
21 3 0.08
22 1 0.03
23 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAATATATTAAATATAATT
Found at i:6309875 original size:18 final size:20
Alignment explanation
Indices: 6309844--6309910 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 20
6309834 ATCATTGTTA
6309844 ATAATATATTAAATAT-AATT
1 ATAATATA-TAAATATGAATT
6309864 ATAATATA-AAATATGAATT
1 ATAATATATAAATATGAATT
* *
6309883 -TAAAAT-TAAAT-TAAATT
1 ATAATATATAAATATGAATT
*
6309900 ATTATA-ATAAA
1 ATAATATATAAA
6309911 GTATACAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
17 5 0.13
18 22 0.56
19 4 0.10
20 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
ATAATATATAAATATGAATT
Found at i:6310676 original size:24 final size:25
Alignment explanation
Indices: 6310649--6310701 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
6310639 TAAGATGACA
*
6310649 TAAAT-ATATGAATTTATTAA-AATT
1 TAAATAATATGAA-TTATTAATAAAT
*
6310673 TAAATAATATGTATTATTAATAAAT
1 TAAATAATATGAATTATTAATAAAT
6310698 TAAA
1 TAAA
6310702 ATTTATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
TAAATAATATGAATTATTAATAAAT
Found at i:6311381 original size:2 final size:2
Alignment explanation
Indices: 6311374--6311404 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6311364 TTTAAAACCC
*
6311374 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6311405 GCAAGCTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6314156 original size:20 final size:20
Alignment explanation
Indices: 6314080--6314153 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
6314070 AAGTACCCAG
6314080 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
6314100 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
* * * *
6314120 ATGTATCAATATAT-TCTTCA
1 ATGTATCGATACATGT-ATGA
6314140 ATGTATCGATACAT
1 ATGTATCGATACAT
6314154 TCTGTCTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 1 0.02
20 46 0.98
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:6315099 original size:20 final size:20
Alignment explanation
Indices: 6315063--6315100 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6315053 AGCCTTTAAC
**
6315063 CATGCATTTTTTTTATGTTT
1 CATGCATTTTTAATATGTTT
6315083 CATGCATTTTTAATATGT
1 CATGCATTTTTAATATGT
6315101 CCAGCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (20 bp):
CATGCATTTTTAATATGTTT
Found at i:6327984 original size:22 final size:20
Alignment explanation
Indices: 6327956--6328001 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 20
6327946 TATACTTGAA
6327956 AAAAAAATTAAAAACAAAGAAC
1 AAAAAAATTAAAAA-AAA-AAC
6327978 AAAAAAATTAAAAAAAAAAC
1 AAAAAAATTAAAAAAAAAAC
6327998 AAAA
1 AAAA
6328002 TACAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.29
21 3 0.12
22 14 0.58
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.09
Consensus pattern (20 bp):
AAAAAAATTAAAAAAAAAAC
Found at i:6328050 original size:27 final size:24
Alignment explanation
Indices: 6327954--6328044 Score: 67
Period size: 26 Copynumber: 3.5 Consensus size: 24
6327944 TTTATACTTG
* * *
6327954 AAAAAAAAATTAAAAACAAAGA-AC
1 AAAAAAAAA-AAAAAAAAAAAATAC
6327978 AAAAAAATTAAAAAAAAAACAAAATAC
1 AAAAAAA--AAAAAAAAAA-AAAATAC
* *
6328005 AAAACAAAAAACCAAGAAAAAAATAGC
1 AAAA-AAAAAA-AAAAAAAAAAATA-C
6328032 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
6328045 TAGAAAGGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
24 7 0.13
25 8 0.15
26 20 0.37
27 16 0.30
28 3 0.06
ACGTcount: A:0.81, C:0.09, G:0.03, T:0.07
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAAAAAAATAC
Found at i:6329309 original size:28 final size:28
Alignment explanation
Indices: 6329266--6330152 Score: 630
Period size: 28 Copynumber: 30.4 Consensus size: 28
6329256 CGTTCATCTC
* ** *
6329266 TTCAAAGCCCACAAGTCAGCAGCACCTT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* * *
6329294 TTTAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
*
6329322 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* * *
6329350 TTTAAAGCCCACGAGTTAGTGGCACCTT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* *
6329378 TTTAAAGCCCACGAGTCAGTGGTACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
*
6329406 TTCAAAGCTCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
*
6329434 TTCAAAGCCCATGAGTCAGTGGCACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
6329462 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* * **
6329490 TTCAAAGCCCACAAATCAGTGGCACTTTT
1 TTCAAAGCCCACGAGTCAGTGGCAC-CCT
* *
6329519 TTCAAAGCCCAGGAGTCAGTGGCACTCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
6329547 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* *
6329575 TTTAAAGCCCATGAGTCAGTGGCACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* * *
6329603 TTCAAAGCCCATGAGTCAATGGAACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
*
6329631 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* * ** * *
6329659 TTCAAAGCCCACACAAATTGGTGGCATCAT
1 TTCAAAG-CC-CACGAGTCAGTGGCACCCT
* * * *
6329689 TTCAAAGCCCACACAAATCGGTGGCAACTCAT
1 TTCAAAG-CC-CACGAGTCAGTGGC-AC-CCT
* * ** *
6329721 TTGAAAGCCCACACAAGTTGGTGGTAACCCAT
1 TTCAAAG-CC-CACGAGTCAGTGG-CACCC-T
* * *
6329753 TTCAAAGCCCACATAAGTCGGTGGCAACCTAT
1 TTCAAAGCCCAC--GAGTCAGTGGC-ACC-CT
** * *
6329785 TTCAAAGCCCATAAGTCAGTGGCATCAT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* * ** *
6329813 TTCAAAGCCCACACAAATTGGTGGCAACTCAT
1 TTCAAAG-CC-CACGAGTCAGTGGC-AC-CCT
* * **
6329845 TTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACGAGTCAGTGGC-ACCC-T
* **
6329877 TTC--AGCCTACACAAGTTGGTGGCAACCCAT
1 TTCAAAGCC--CACGAGTCAGTGGC-ACCC-T
* *
6329907 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACGAGTCAGTGGC-ACCC-T
* * * *
6329939 TTCAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* * *
6329967 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* *
6329995 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACGAGTCAGTGGCAC-CCT
* * * * *
6330024 TTCAAAGCCCACAAATCAATAGCATCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* * * *
6330052 TTCAAAGCCCACAAGTCAATAGCGCCCT
1 TTCAAAGCCCACGAGTCAGTGGCACCCT
* *
6330080 TTCAAAGCCTA-GAAG-CTAGTGGCACTCTT
1 TTCAAAGCCCACG-AGTC-AGTGGCAC-CCT
* *
6330109 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACGAGTCAGTGGC-AC-CCT
6330141 TTCAAAGCCCAC
1 TTCAAAGCCCAC
6330153 ACAAGTTAGT
Statistics
Matches: 740, Mismatches: 90, Indels: 56
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.00
28 414 0.56
29 66 0.09
30 105 0.14
31 18 0.02
32 134 0.18
33 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACGAGTCAGTGGCACCCT
Found at i:6329353 original size:56 final size:56
Alignment explanation
Indices: 6329266--6330167 Score: 730
Period size: 56 Copynumber: 15.4 Consensus size: 56
6329256 CGTTCATCTC
** * * *
6329266 TTCAAAGCCCACAAGTCAGCAGCACCTTTTTAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
6329322 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACGAGTTAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
6329378 TTTAAAGCCCACGAGTCAGTGGTACCCTTTCAAAGCTCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
** *
6329434 TTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* ** ** *
6329490 TTCAAAGCCCACAAATCAGTGGCACTTTTTTCAAAGCCCAGGAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
6329547 TTCAAAGCCCACGAGTCAGTGGCACCCTTTTAAAGCCCATGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
6329603 TTCAAAGCCCATGAGTCAATGGAACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* ** * * * * *
6329659 TTCAAAGCCCACACAAATTGGTGGCATCATTTCAAAGCCCACACAAATCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* ** * * *
6329721 TTGAAAGCCCACACAAGTTGGTGGTAACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCTAT
1 TTCAAAG-CC-CACAAGTCAGTGG-CACCC-TTTCAAAGCCCAC--AAGTCAGTGGC-ACC-CT
* * * * ** *
6329785 TTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACACAAATTGGTGGCAACTCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* ** **
6329845 TTGAAAGCCCACACAAGTTGGTGGCAACCCATTTC--AGCCTACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCC--CACAAGTCAGTGGC-ACCC-T
* * * *
6329907 TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
6329967 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * * * * *
6330024 TTCAAAGCCCACAAATCAATAGCATCCTTTCAAAGCCCACAAGTCAATAGCGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
6330080 TTCAAAGCCTAGAAG-CTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
6330141 TTCAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAG-CC-CACAAGTCAGTGGCAC
6330168 TTTTTTTTTT
Statistics
Matches: 709, Mismatches: 104, Indels: 59
0.81 0.12 0.07
Matches are distributed among these distances:
55 1 0.00
56 300 0.42
57 118 0.17
58 30 0.04
59 11 0.02
60 49 0.07
61 23 0.03
62 119 0.17
63 21 0.03
64 37 0.05
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:6329728 original size:32 final size:32
Alignment explanation
Indices: 6329625--6329979 Score: 375
Period size: 32 Copynumber: 11.6 Consensus size: 32
6329615 GAGTCAATGG
**
6329625 AACCC-TTTCAAAG-CC-CACAAGTCAGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
*
6329654 -ACCC-TTTCAAAGCCCACACAAATTGGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
* * *
6329684 -A-TCATTTCAAAGCCCACACAAATCGGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
* * *
6329714 AACTCATTTGAAAGCCCACACAAGTTGGTGGT
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
* *
6329746 AACCCATTTCAAAGCCCACATAAGTCGGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
* * **
6329778 AACCTATTTCAAAG-CC-CATAAGTCAGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
* *
6329808 -A-TCATTTCAAAGCCCACACAAATTGGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
* *
6329838 AACTCATTTGAAAGCCCACACAAGTTGGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
*
6329870 AACCCATTTC--AGCCTACACAAGTTGGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
*
6329900 AACCCATTTCAAAGCCCACACAAGTCGGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
*
6329932 AACCCATTTCAAAG-CC-CACAAGTTAGTGGC
1 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
* *
6329962 -A-TCTTTTCAAAGCCCACA
1 AACCCATTTCAAAGCCCACA
6329980 AGTCAGTGGC
Statistics
Matches: 280, Mismatches: 33, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
28 30 0.11
29 9 0.03
30 103 0.37
31 6 0.02
32 132 0.47
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (32 bp):
AACCCATTTCAAAGCCCACACAAGTTGGTGGC
Found at i:6329910 original size:154 final size:153
Alignment explanation
Indices: 6329625--6330007 Score: 549
Period size: 154 Copynumber: 2.5 Consensus size: 153
6329615 GAGTCAATGG
* *
6329625 AACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAATTGGTGGCATCAT
1 AACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAATTGGTGGCATCAT
* *
6329689 TTCAAAGCCCACACAAATCGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGTAACCCATT
66 TTCAAAGCCCACACAAATCGGTGGCAACCCATTT-AAAGCCCACACAAGTTGGTGGCAACCCATT
*
6329754 TCAAAGCCCACATAAGTCGGTGGC
130 TCAAAGCCCACACAAGTCGGTGGC
* *
6329778 AACCTATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACACAAATTGGTGGCAACTC
1 AACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAATTGGTGGC-A-TC
* * * * *
6329843 ATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTT-CAGCCTACACAAGTTGGTGGCAACCCAT
64 ATTTCAAAGCCCACACAAATCGGTGGCAACCCATTTAAAGCCCACACAAGTTGGTGGCAACCCAT
6329907 TTCAAAGCCCACACAAGTCGGTGGC
129 TTCAAAGCCCACACAAGTCGGTGGC
* * * ** *
6329932 AACCCATTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGCATCTT
1 AACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAATTGGTGGCATCAT
6329995 TTCAAAGCCCACA
66 TTCAAAGCCCACA
6330008 AGTCAGTGGC
Statistics
Matches: 206, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
150 15 0.07
151 1 0.00
152 11 0.05
153 6 0.03
154 138 0.67
155 1 0.00
156 34 0.17
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (153 bp):
AACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAATTGGTGGCATCAT
TTCAAAGCCCACACAAATCGGTGGCAACCCATTTAAAGCCCACACAAGTTGGTGGCAACCCATTT
CAAAGCCCACACAAGTCGGTGGC
Found at i:6329962 original size:124 final size:125
Alignment explanation
Indices: 6329625--6329951 Score: 454
Period size: 124 Copynumber: 2.6 Consensus size: 125
6329615 GAGTCAATGG
* * *
6329625 AACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACACAAATTGGTGGCA
1 AACCCATTTC-AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
* *
6329685 TCATTTCAAAGCCCACACAAATCGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGT
65 TCATTTCAAAGCCCACACAAATTGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGC
* * * *
6329746 AACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCTATTTCAAAG-CC-CATAAGTCAGTGGCA
1 AACCCATTTC-AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
6329809 TCATTTCAAAGCCCACACAAATTGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGC
65 TCATTTCAAAGCCCACACAAATTGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGC
* *
6329870 AACCCATTTC-AGCCTACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAA
1 AACCCATTTCAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-A
*
6329934 CCCATTTCAAAGCCCACA
65 -TCATTTCAAAGCCCACA
6329952 AGTTAGTGGC
Statistics
Matches: 181, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
121 5 0.03
122 38 0.21
123 4 0.02
124 104 0.57
125 6 0.03
126 24 0.13
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (125 bp):
AACCCATTTCAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAT
CATTTCAAAGCCCACACAAATTGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGC
Found at i:6330383 original size:48 final size:46
Alignment explanation
Indices: 6330236--6330398 Score: 202
Period size: 46 Copynumber: 3.5 Consensus size: 46
6330226 CTGTCCGATA
* * *
6330236 TCGTTGGCATTGAATCAGCATATTA-GCACCTTTGTTAGCTCAATG
1 TCGTTGGCCTTGAATCAGCACATTATCCACCTTTGTTAGCTCAATG
* * *
6330281 TCGCTGGCCTTAAATCAGCACATTGTCCACCTTTGTTAGCTCAATG
1 TCGTTGGCCTTGAATCAGCACATTATCCACCTTTGTTAGCTCAATG
* * *
6330327 TCGTTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTCGATG
1 TCGTTGGCCTTGAATCAGCACATTATCCACCTTT--GTTAGCTCAATG
**
6330375 TCGTTGGCCTTGAATTGGCACATT
1 TCGTTGGCCTTGAATCAGCACATT
6330399 GGCTTCCTCT
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
45 20 0.20
46 49 0.49
48 32 0.32
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (46 bp):
TCGTTGGCCTTGAATCAGCACATTATCCACCTTTGTTAGCTCAATG
Found at i:6331118 original size:20 final size:20
Alignment explanation
Indices: 6331095--6331166 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
6331085 AAGTACCTAG
6331095 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *
6331115 ATGTATCGAT--ATATGT-A
1 ATGTATCGATACATTTTTCA
*
6331132 ATGTATCGATACAATTTTCA
1 ATGTATCGATACATTTTTCA
*
6331152 ATGTATTGATACATT
1 ATGTATCGATACATT
6331167 CTATCTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 11 0.26
18 4 0.10
19 3 0.07
20 24 0.57
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:6333677 original size:20 final size:20
Alignment explanation
Indices: 6333649--6333723 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
6333639 TTTTACCCAG
*
6333649 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * *
6333669 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
6333689 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
6333709 ATGTATCGATACATT
1 ATGTATCGATACATT
6333724 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:6333716 original size:40 final size:39
Alignment explanation
Indices: 6333649--6333726 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6333639 TTTTACCCAG
* *
6333649 ATGTATCGATACATTTTTTAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
6333689 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
6333727 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:6339370 original size:78 final size:79
Alignment explanation
Indices: 6339260--6339465 Score: 225
Period size: 78 Copynumber: 2.6 Consensus size: 79
6339250 GAGATAATAA
* * * * * * * *
6339260 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTAGAGTATCCCCGGTTGTGAGAAATCGAT-G
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
*
6339324 CTTAGAAAAAAAAT
66 CTTAGAAAAAAAAC
* * * *
6339338 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
* * * * *
6339403 TTTGGGAATAAAGC
66 CTTAGAAAAAAAAC
* *
6339417 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
6339466 GAAATAACGA
Statistics
Matches: 104, Mismatches: 23, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
78 52 0.50
79 52 0.50
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
CTTAGAAAAAAAAC
Found at i:6339457 original size:28 final size:28
Alignment explanation
Indices: 6339417--6339488 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
6339407 GGAATAAAGC
** *
6339417 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
6339445 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
6339473 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
6339489 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:6341973 original size:13 final size:13
Alignment explanation
Indices: 6341955--6341980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6341945 ACAAAGATCC
6341955 ATGTATCGATACA
1 ATGTATCGATACA
6341968 ATGTATCGATACA
1 ATGTATCGATACA
6341981 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6341976 original size:33 final size:33
Alignment explanation
Indices: 6341934--6342000 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6341924 AAAATTTCCA
***
6341934 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
6341967 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
6342000 A
1 A
6342001 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:6342044 original size:19 final size:18
Alignment explanation
Indices: 6342020--6342087 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
6342010 CAGTAGCTAA
6342020 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
6342039 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
6342054 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
6342071 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
6342088 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:6342060 original size:13 final size:13
Alignment explanation
Indices: 6342042--6342066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6342032 ACAATACTTA
6342042 TGTATCGATACAT
1 TGTATCGATACAT
6342055 TGTATCGATACA
1 TGTATCGATACA
6342067 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6342064 original size:32 final size:32
Alignment explanation
Indices: 6342023--6342085 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6342013 TAGCTAATTA
*
6342023 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
6342055 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
6342086 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:6342167 original size:21 final size:21
Alignment explanation
Indices: 6342143--6342199 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
6342133 CATTTGTAGG
6342143 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
6342164 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
6342185 ATGTATCGATACATT
1 ATGTATCGATACATT
6342200 TAAAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:6342228 original size:13 final size:13
Alignment explanation
Indices: 6342212--6342237 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6342202 AAATTTTTTT
6342212 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
6342225 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
6342238 ACACTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:6358147 original size:57 final size:57
Alignment explanation
Indices: 6358059--6359773 Score: 1655
Period size: 57 Copynumber: 29.6 Consensus size: 57
6358049 GAATGTTCAT
* *
6358059 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACGAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
6358116 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
6358173 CTCTTTTCAAACCCCACAAGTCAGTGGCAC-CCTTTCAAAACCCACAAGTCAATGACA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358230 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTCTCAAAGCCCACAAATCAATGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358288 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358345 CTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
6358403 CCTTTTCAAACCCCACAAGTCAATGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
6358460 CTCTTTTCAAAGCCCACAAATCAATGGCACTCTTTTCAAAGCCCACAAGTCAGTGACA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
6358518 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358575 CTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358632 CCCTTTCAAAGCCCACAAATCAGTGGCACTATTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358689 CCCTTTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358746 CTCTTTTCAAAGCCCACAGGTCAGTGGCAC-CCTTTCAAAGCCCACGAA-TCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC-AAGTCAGTGGCA
* * * * * *
6358803 CTCTTTTCAAAGCCCACGAGTCAATGGCAC-CCTTTCAAAGTCCACGAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
6358860 CCCTTTCAAAGCCCATAAGTCAGTGGCAC-CCTTTCAACGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
6358916 CCCTTTTAAAGCCCACGAGTCAGTGGCAC-CCTTTCAAAGCCCACGAGTCAATGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * **
6358972 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACAAATTGGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGCA
* * * * * * **
6359030 TCATTTCAAAGCCCACACAAATCGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-A
* * *
6359093 CCCATTTCAAAGCCCACACAAGTCGGTGGTAAC-CTATTTCAAAGCCCATAAGTCAGTGGCA
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGG-CACTCT-TTTCAAAGCCCACAAGTCAGTGGCA
* * * * * * **
6359154 TCATTTCAAAGCCCACACAAATCGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-A
** * * **
6359217 CCCATTTCAAAGCCTACACAAGTTGGTGGCAACCCATTTCAAAGCCTACACAAGTTGGTGGCAA
1 CCC-TTTCAAAGCC--CACAAGTCAGTGGC-ACTCTTTTCAAAGCC--CACAAGTCAGTGGC-A
* * * *
6359281 TCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCA
1 -CCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6359342 TCCTTTCAAAGCCCACAAATCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
6359398 CTCTTTTCAAAGCCCACAAATCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTAGCG
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * ** **
6359455 TCATTTCAAAGCCCACAAGTTTCA-AAG--C-C---T---A---CACAAGTTGGTGGCAA
1 CCCTTTCAAAGCCCACAAG--TCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC-A
* * * *
6359502 TCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCA
1 -CCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
6359563 TCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCACAAATTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * * * *
6359620 TCCTTTCAAAGCCCACAAGTCAGTAGC-GTCATTTCAAAGCCCCCAAGTTAGTAGCG
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
6359676 TCCTTTCAAAGCCTAAAAGCCAGTGACACTCTTTTCAAAGCCCACACGAGTCGGTGGCAA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-A
* * *
6359736 CTCTTTTCAAAGCCCACACAAGTTAGTGGCACTTTTTT
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGCACTCTTTT
6359774 TAAAAAAAAA
Statistics
Matches: 1427, Mismatches: 172, Indels: 112
0.83 0.10 0.07
Matches are distributed among these distances:
46 11 0.01
48 12 0.01
49 4 0.00
50 6 0.00
52 2 0.00
53 1 0.00
55 1 0.00
56 251 0.18
57 564 0.40
58 255 0.18
59 14 0.01
60 63 0.04
61 18 0.01
62 73 0.05
63 27 0.02
64 121 0.08
65 4 0.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (57 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:6358207 original size:86 final size:86
Alignment explanation
Indices: 6358062--6359767 Score: 1662
Period size: 86 Copynumber: 19.6 Consensus size: 86
6358052 TGTTCATCCC
* * *
6358062 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACGAGTCAATGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
6358127 CCCACAAGTCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCT
* * * *
6358148 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAACCCCACAAGTCAGTGGCACCCTTTCAAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
6358213 CCCACAAGTCAATGACACTCC
66 CCCACAAGTCAGTGGCACTCT
* * *
6358234 TTTCAAAGCCCACAAGTCAGTGGCACT-CTTCTCAAAGCCCACAAATCAATGGCACTCTTTTCAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTT-TCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAA
*
6358298 AGCCCACAAGTCAGTGGCACCCT
64 AGCCCACAAGTCAGTGGCACTCT
* * *
6358321 TTT-AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
6358385 GCCCACAAGTCAGTGGCAC-CT
65 GCCCACAAGTCAGTGGCACTCT
* * *
6358406 TTTCAAACCCCACAAGTCAATGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* *
6358471 GCCCACAAATCAATGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
* *
6358493 TTTCAAAGCCCACAAGTCAGTGACAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
6358557 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
*
6358579 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
6358643 CCCACAAATCAGTGGCACTAT
66 CCCACAAGTCAGTGGCACTCT
* * *
6358664 TTTCAAAGCCCACGAGTCAGTGGCAC-CCTTTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
6358728 GCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCACTCT
* *
6358750 TTTCAAAGCCCACAGGTCAGTGGCAC-CCTTTCAAAGCCCACGAA-TCAGTGGCACTCTTTTCAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC-AAGTCAGTGGCAC-CCTTTCAA
* * *
6358813 AGCCCACGAGTCAATGGCAC-CC
64 AGCCCACAAGTCAGTGGCACTCT
* * * *
6358835 TTTCAAAGTCCACGAGTCAGTGGCAC-CCTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAACG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
6358899 CCCACGAGTCAGTGGCACCCT
66 CCCACAAGTCAGTGGCACTCT
* * * *
6358920 TTT-AAAGCCCACGAGTCAGTGGCAC-CCTTTCAAAGCCCACGAGTCAATGACACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
6358983 CCCACAAGTCAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACTCT
* ** * * * *
6359003 TTTCAAAGCCCACACAAATTGGTGGCA-TCATTTCAAAGCCCACACAAATCGGTGGCAACTCATT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTT
* ** * *
6359067 TGAAAGCCCACACAAGTTGGTGGCAACCCA
60 TCAAAG-CC-CACAAGTCAGTGGC-ACTCT
* * * * * *
6359097 TTTCAAAGCCCACACAAGTCGGTGGTAAC-CTATTTCAAAGCCCATAAGTCAGTGGCATCATTTC
1 TTTCAAAG-CC-CACAAGTCAGTGG-CACTC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
6359161 AAAGCCCACACAAATCGGTGGCAACTCA
62 AAAG-CC-CACAAGTCAGTGGC-ACTCT
* ** **
6359189 TTTGAAAGCCCACACAAGTTGGTGGCAAC-CCATTTCAAAGCCTACACAAGTTGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAGCC--CACAAGTCAGTGGC-ACCC-
** * *
6359253 TTTCAAAGCCTACACAAGTTGGTGGCAATCCA
58 TTTCAAAGCC--CACAAGTCAGTGGCACT-CT
* *
6359285 TTTCAAAGCCCACACAAGTCGGTGGCAAC-CCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* *
6359349 AAAGCCCACAAATCAGTGGCAC-CC
62 AAAGCCCACAAGTCAGTGGCACTCT
* * *
6359373 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
6359438 CCCACAAGTCAGTAGC-GTCA
66 CCCACAAGTCAGTGGCACTCT
* ** ** *
6359458 TTTCAAAGCCCACAAGT---T-TCAAAGCC--T---A---CACAAGTTGGTGGCAATCCATTTCA
1 TTTCAAAGCCCACAAGTCAGTGGC-ACTCCTTTCAAAGCCCACAAGTCAGTGGC-A-CCCTTTCA
* * *
6359511 AAGCCCACACAAGTCGGTGGCAACCCA
63 AAG-CC-CACAAGTCAGTGGC-ACTCT
* *
6359538 TTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * *
6359602 GCCCACAAATTAGTGGCA-TCC
65 GCCCACAAGTCAGTGGCACTCT
* * * * * * **
6359623 TTTCAAAGCCCACAAGTCAGTAGC-GTCATTTCAAAGCCCCCAAGTTAGTAGCGTCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
6359687 CCTAAAAGCCAGTGACACTCT
66 CCCACAAGTCAGTGGCACTCT
* * *
6359708 TTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCAC
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCCTTTCAAAG-CC-CACAAGTCAGTGGCAC
6359768 TTTTTTTAAA
Statistics
Matches: 1394, Mismatches: 164, Indels: 119
0.83 0.10 0.07
Matches are distributed among these distances:
74 11 0.01
75 1 0.00
76 9 0.01
77 3 0.00
78 12 0.01
80 20 0.01
81 1 0.00
82 5 0.00
83 6 0.00
84 124 0.09
85 274 0.20
86 523 0.38
87 81 0.06
88 21 0.02
89 22 0.02
90 33 0.02
91 14 0.01
92 88 0.06
93 6 0.00
94 58 0.04
95 10 0.01
96 72 0.05
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (86 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACTCT
Found at i:6359016 original size:28 final size:28
Alignment explanation
Indices: 6358059--6359767 Score: 1604
Period size: 28 Copynumber: 59.0 Consensus size: 28
6358049 GAATGTTCAT
6358059 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358087 CTCTTTTCAAAGCCCACGAGTCAATGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
6358116 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358144 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358173 CTCTTTTCAAACCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358202 CCCTTTCAAAACCCACAAGTCAATGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
6358230 CTCCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358259 CTCTTCTCAAAGCCCACAAATCAATGGCA
1 CCCTT-TCAAAGCCCACAAGTCAGTGGCA
*
6358288 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
6358317 CCCTTTTAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358345 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
6358374 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358403 CCTTTTCAAACCCCACAAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
6358431 CTCCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358460 CTCTTTTCAAAGCCCACAAATCAATGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358489 CTCTTTTCAAAGCCCACAAGTCAGTGACA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
6358518 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358546 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
6358575 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
6358604 CCCTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
6358632 CCCTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
** *
6358660 CTATTTTCAAAGCCCACGAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
6358689 CCCTTTCAAAACCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358717 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358746 CTCTTTTCAAAGCCCACAGGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
6358775 CCCTTTCAAAGCCCACGAA-TCAGTGGCA
1 CCCTTTCAAAGCCCAC-AAGTCAGTGGCA
* * *
6358803 CTCTTTTCAAAGCCCACGAGTCAATGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358832 CCCTTTCAAAGTCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
6358860 CCCTTTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358888 CCCTTTCAACGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6358916 CCCTTTTAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6358944 CCCTTTCAAAGCCCACGAGTCAATGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
6358972 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* **
6359000 CCCTTTCAAAGCCCACACAAATTGGTGGCA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* * * *
6359030 TCATTTCAAAGCCCACACAAATCGGTGGCAA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGC-A
* * **
6359061 CTCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
* *
6359093 CCCATTTCAAAGCCCACACAAGTCGGTGGTAA
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGG-CA
* *
6359125 CCTATTTCAAAGCCCATAAGTCAGTGGCA
1 CC-CTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
6359154 TCATTTCAAAGCCCACACAAATCGGTGGCAA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGC-A
* * **
6359185 CTCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
**
6359217 CCCATTTCAAAGCCTACACAAGTTGGTGGCAA
1 CCC-TTTCAAAGCC--CACAAGTCAGTGGC-A
**
6359249 CCCATTTCAAAGCCTACACAAGTTGGTGGCAA
1 CCC-TTTCAAAGCC--CACAAGTCAGTGGC-A
* *
6359281 TCCATTTCAAAGCCCACACAAGTCGGTGGCAA
1 -CCCTTTCAAAG-CC-CACAAGTCAGTGGC-A
6359313 CCCATTTCAAAGCCCACAAGTCAGTGGCA
1 CCC-TTTCAAAGCCCACAAGTCAGTGGCA
* *
6359342 TCCTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
6359370 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6359398 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6359427 TCCTTTCAAAGCCCACAAGTCAGTAGCG
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * ***
6359455 TCATTTCAAAGCCCACAAGT--TTCAAA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *** **
6359481 GCC-TACACAAG----TTGGT--G-GCAA
1 CCCTTTCA-AAGCCCACAAGTCAGTGGCA
* *
6359502 TCCATTTCAAAGCCCACACAAGTCGGTGGCAA
1 -CCCTTTCAAAG-CC-CACAAGTCAGTGGC-A
6359534 CCCATTTCAAAGCCCACAAGTCAGTGGCA
1 CCC-TTTCAAAGCCCACAAGTCAGTGGCA
* *
6359563 TCCTTTCAAAGCCCACAAGTCAGTAGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6359591 CTCTTTTCAAAGCCCACAAATTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
6359620 TCCTTTCAAAGCCCACAAGTCAGTAGCG
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
6359648 TCATTTCAAAGCCCCCAAGTTAGTAGCG
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
6359676 TCCTTTCAAAGCCTAAAAGCCAGTGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
6359704 CTCTTTTCAAAGCCCACACGAGTCGGTGGCAA
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-A
* *
6359736 CTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGCA
6359767 C
1 C
6359768 TTTTTTTAAA
Statistics
Matches: 1445, Mismatches: 185, Indels: 99
0.84 0.11 0.06
Matches are distributed among these distances:
21 2 0.00
22 6 0.00
23 3 0.00
25 3 0.00
26 5 0.00
28 589 0.41
29 504 0.35
30 89 0.06
31 26 0.02
32 208 0.14
33 6 0.00
34 4 0.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:6359479 original size:16 final size:17
Alignment explanation
Indices: 6359458--6359493 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
6359448 AGTAGCGTCA
6359458 TTTCAAAGCC-CACAAG
1 TTTCAAAGCCACACAAG
6359474 TTTCAAAGCCTACACAAG
1 TTTCAAAGCC-ACACAAG
6359492 TT
1 TT
6359494 GGTGGCAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (17 bp):
TTTCAAAGCCACACAAG
Found at i:6359514 original size:221 final size:221
Alignment explanation
Indices: 6359253--6359688 Score: 739
Period size: 221 Copynumber: 2.0 Consensus size: 221
6359243 TGGCAACCCA
6359253 TTTCAAAGCCTACACAAGTTGGTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTTCAAAGCCTACACAAGTTGGTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
6359318 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTGGCAC-CCTTTCAAAGC
66 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTAGCACTCCTTTCAAAGC
* * * *
6359382 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGT
131 CCACAAATCAGTGGCA-TCCTTTCAAAGCCCACAAATCAGTAGCATCATTTCAAAGCCCACAAGT
6359447 CAGTAGCGTCATTTCAAAGCCCACAAG
195 CAGTAGCGTCATTTCAAAGCCCACAAG
6359474 TTTCAAAGCCTACACAAGTTGGTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTTCAAAGCCTACACAAGTTGGTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
6359539 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGC
66 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTAGCACTCCTTTCAAAGC
* * * * *
6359604 CCACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCGTCATTTCAAAGCCCCCAAGTT
131 CCACAAATCAGTGGCATCCTTTCAAAGCCCACAAATCAGTAGCATCATTTCAAAGCCCACAAGTC
*
6359669 AGTAGCGTCCTTTCAAAGCC
196 AGTAGCGTCATTTCAAAGCC
6359689 TAAAAGCCAG
Statistics
Matches: 201, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
221 177 0.88
222 24 0.12
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (221 bp):
TTTCAAAGCCTACACAAGTTGGTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTAGCACTCCTTTCAAAGC
CCACAAATCAGTGGCATCCTTTCAAAGCCCACAAATCAGTAGCATCATTTCAAAGCCCACAAGTC
AGTAGCGTCATTTCAAAGCCCACAAG
Found at i:6359555 original size:108 final size:101
Alignment explanation
Indices: 6359373--6359582 Score: 276
Period size: 108 Copynumber: 2.0 Consensus size: 101
6359363 AGTGGCACCC
* * *
6359373 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCAATCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAG
*
6359438 CCCACAAGTCAGTAGCGTCATTTCAAAGCCCACAAG
66 CCCACAAGTCAGTAGCATCATTTCAAAGCCCACAAG
** *
6359474 TTTCAAAGCCTACACAAGTTGGTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTTCAAAGCC--CACAAGTCAGTGGCAAT-CATTTCAAAGCCCACA-AA-TCAGTGGC-ACCC-T
* *
6359539 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
59 TTCAAAGCCCACAAGTCAGTAGCATCATTTCAAAGCCCACAAG
6359582 T
1 T
6359583 CAGTAGCACT
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
101 10 0.11
103 14 0.15
104 15 0.16
105 2 0.02
106 7 0.08
107 3 0.03
108 42 0.45
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (101 bp):
TTTCAAAGCCCACAAGTCAGTGGCAATCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTAGCATCATTTCAAAGCCCACAAG
Found at i:6359610 original size:193 final size:189
Alignment explanation
Indices: 6359285--6359668 Score: 642
Period size: 193 Copynumber: 2.0 Consensus size: 189
6359275 TGGCAATCCA
*
6359285 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
*
6359350 AAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
66 AAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCAC
6359415 AAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCGTCATTTCAAAGCCCACAAG
131 AAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCGTCATTTCAAAGCCCACAAG
* * * *
6359474 TTTCAAAGCCTACACAAGTTGGTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
* *
6359539 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGC
62 TTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGC
* *
6359604 CCACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCGTCATTTCAAAGCCCCCAAG
127 CCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCGTCATTTCAAAGCCCACAAG
6359667 TT
1 TT
6359669 AGTAGCGTCC
Statistics
Matches: 181, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
189 37 0.20
190 2 0.01
191 13 0.07
192 3 0.02
193 126 0.70
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (189 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
AAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCAC
AAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCGTCATTTCAAAGCCCACAAG
Found at i:6359920 original size:46 final size:46
Alignment explanation
Indices: 6359857--6359994 Score: 204
Period size: 46 Copynumber: 3.0 Consensus size: 46
6359847 AGCATTTTAG
6359857 CACCTTTGTTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTC
1 CACCTTTGTTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTC
*
6359903 CACCTTTGTTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTATC
1 CACCTTTGTTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTC
* * * **
6359949 CACTTTTCCCTTAGCTCGATGTCGTTGGCCTTGAATTGGCACATTG
1 CACCTTT--GTTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTG
6359995 GCCTCCTCTC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 51 0.61
48 32 0.39
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.36
Consensus pattern (46 bp):
CACCTTTGTTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTC
Found at i:6359932 original size:24 final size:24
Alignment explanation
Indices: 6359859--6359932 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
6359849 CATTTTAGCA
6359859 CCTTTGTTAGCTCAATGTCGTTGG
1 CCTTTGTTAGCTCAATGTCGTTGG
* * ***
6359883 CC-TTGAATCAGCAC-AT-T-GTCCA
1 CCTTTG--TTAGCTCAATGTCGTTGG
6359905 CCTTTGTTAGCTCAATGTCGTTGG
1 CCTTTGTTAGCTCAATGTCGTTGG
6359929 CCTT
1 CCTT
6359933 GAATCAGCAC
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 5 0.15
22 6 0.18
23 8 0.24
24 10 0.29
25 5 0.15
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (24 bp):
CCTTTGTTAGCTCAATGTCGTTGG
Found at i:6359982 original size:48 final size:46
Alignment explanation
Indices: 6359831--6359993 Score: 193
Period size: 46 Copynumber: 3.5 Consensus size: 46
6359821 CTGTCCGATA
** ** * *
6359831 TCGTTGGTATTGAATCAGCATTTTA-GCACCTTTGTTAGCTCAATG
1 TCGTTGGCCTTGAATCAGCACATTATCCACCTTTCTTAGCTCAATG
* *
6359876 TCGTTGGCCTTGAATCAGCACATTGTCCACCTTTGTTAGCTCAATG
1 TCGTTGGCCTTGAATCAGCACATTATCCACCTTTCTTAGCTCAATG
* *
6359922 TCGTTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTCGATG
1 TCGTTGGCCTTGAATCAGCACATTATCCACCTTT--CTTAGCTCAATG
**
6359970 TCGTTGGCCTTGAATTGGCACATT
1 TCGTTGGCCTTGAATCAGCACATT
6359994 GGCCTCCTCT
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
45 20 0.19
46 51 0.50
48 32 0.31
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (46 bp):
TCGTTGGCCTTGAATCAGCACATTATCCACCTTTCTTAGCTCAATG
Found at i:6361660 original size:20 final size:21
Alignment explanation
Indices: 6361623--6361661 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6361613 AGCCTTTGAC
**
6361623 CATGCATTTTTTTTTATGTTT
1 CATGCATTTTTTAATATGTTT
6361644 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
6361662 CCAGCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:6363255 original size:20 final size:20
Alignment explanation
Indices: 6363223--6363297 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
6363213 TTTTACCCAG
6363223 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
6363243 ATATATTGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
6363263 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
6363283 ATGTATCGATACATT
1 ATGTATCGATACATT
6363298 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:6363267 original size:40 final size:39
Alignment explanation
Indices: 6363223--6363300 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6363213 TTTTACCCAG
* *
6363223 ATGTATCGATACATTTTTCAATATATTGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
6363263 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
6363301 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:6373025 original size:112 final size:114
Alignment explanation
Indices: 6372824--6373084 Score: 300
Period size: 112 Copynumber: 2.3 Consensus size: 114
6372814 GGACTTGAAG
* * *
6372824 AACATCAAGTTT-TTCTGATTTCCAAAGAAATTCATGTTTTATACAACTTGATCCATTTGTGCTT
1 AACATCAAATTTGTT-TGATTTTCAAAGAAATTCATGTTTTATACAACTTGATCCATTCGTGCTT
* ** * *
6372888 AAGAAAATGGGGTATGTATGCTATCAATTTGGAAATTT-TTTGAA-CTAAT
65 AAGAAAATAGGACATATATGCTATCAATTTGGAAATTTATTT-AAGCTAAC
* *
6372937 AGCATCAAATTTGTTTGATTTTCAAAG-AATTCATGTTTTATGCAACTTGATCCATTCGTGCCTT
1 AACATCAAATTTGTTTGATTTTCAAAGAAATTCATGTTTTATACAACTTGATCCATTCGTG-CTT
* * * *
6373001 -GGAAAATATGACATATAT-CTTATCAGTTTTGAAATTTATTTAAGCTAAC
65 AAGAAAATAGGACATATATGC-TATCAATTTGGAAATTTATTTAAGCTAAC
* *
6373050 AACATCAAATTTGTTTGATTTTTAAAAAAATTCAT
1 AACATCAAATTTGTTTGATTTTCAAAGAAATTCAT
6373085 ATTTGATATG
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
111 1 0.01
112 60 0.48
113 55 0.44
114 9 0.07
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (114 bp):
AACATCAAATTTGTTTGATTTTCAAAGAAATTCATGTTTTATACAACTTGATCCATTCGTGCTTA
AGAAAATAGGACATATATGCTATCAATTTGGAAATTTATTTAAGCTAAC
Found at i:6373119 original size:114 final size:111
Alignment explanation
Indices: 6372909--6373153 Score: 271
Period size: 114 Copynumber: 2.2 Consensus size: 111
6372899 GTATGTATGC
* * * * * * *
6372909 TATCAATTTGGAAATTTTTTGAACTAATAGCATCAAATTTGTTTGATTTTCAAAGAATTCATGTT
1 TATCAGTTTTGAAATTTTTTGAACTAACAACATCAAATTTGTTTGATTTTAAAAAAATTCATATT
** * *
6372974 TTATGCAACTTGATCCATTCGTGCCTTGGAAAATATGA-CATATATCT
66 TTATG-AACTTGATCCATTCGAACCTAGGAAAATA-AATCATATATCT
6373021 TATCAGTTTTGAAATTTATTT-AAGCTAACAACATCAAATTTGTTTGATTTTTAAAAAAATTCAT
1 TATCAGTTTTGAAATTT-TTTGAA-CTAACAACATCAAATTTGTTTGA-TTTTAAAAAAATTCAT
* * *
6373085 ATTTGATATG-ATTTGATCCATTTGAACCTAGGAAAATAAATCATGTATCT
63 ATTT--TATGAACTTGATCCATTCGAACCTAGGAAAATAAATCATATATCT
*
6373135 TATTAGTTTTGAAATTTTT
1 TATCAGTTTTGAAATTTTT
6373154 GAGCCAACCA
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
112 17 0.15
113 27 0.24
114 64 0.57
116 4 0.04
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (111 bp):
TATCAGTTTTGAAATTTTTTGAACTAACAACATCAAATTTGTTTGATTTTAAAAAAATTCATATT
TTATGAACTTGATCCATTCGAACCTAGGAAAATAAATCATATATCT
Found at i:6373817 original size:60 final size:60
Alignment explanation
Indices: 6373716--6374164 Score: 462
Period size: 60 Copynumber: 7.5 Consensus size: 60
6373706 TACTCATATA
* *
6373716 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAAACCATTTAGTTGAGTCTTGGTTCCACCT
1 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAAGCCATTTAGTTGAGTCTTGGTTTCACCT
* * * *
6373776 AAGTCATTGTTTAGGTTTCTAGTTTTGTCCAAGCCACTTAGTTGAGTCATAGTTTCACCT
1 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAAGCCATTTAGTTGAGTCTTGGTTTCACCT
* * * ** * * *
6373836 AAGTCATTGTTTAGGTTTCTAGCTTTATCTAGGTTATTTAGTTGAGTTTTGATTTCACCC
1 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAAGCCATTTAGTTGAGTCTTGGTTTCACCT
* * *
6373896 AAGTCATTGTTTAGGTTT-TTGATTTCATCCAAGCCATTTAGTTGAGTCTTGGTTTCACCA
1 AAGTCATTGTTTAGGTTTCTAG-TTTTATCCAAGCCATTTAGTTGAGTCTTGGTTTCACCT
* * * * * *
6373956 AAGTCATTGTTTAGGTTTTTGGTTTTGTCCAGGCCATTTAATTAAGTCTTGGTTTCA-CT
1 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAAGCCATTTAGTTGAGTCTTGGTTTCACCT
* * * * *
6374015 CAAGTC-TTTTTTAGGTTT-TTGATTTTATCCAAGCTATTTCA-TTGAATCTTGATTTCACCT
1 -AAGTCATTGTTTAGGTTTCTAG-TTTTATCCAAGCCATTT-AGTTGAGTCTTGGTTTCACCT
* * * * * * * * *
6374075 AAATCATTGTTTAGGTTT-TTGGTTTGTCCAAGCCATTTAATTGAGTTTTGATTTCGCCC
1 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAAGCCATTTAGTTGAGTCTTGGTTTCACCT
* *
6374134 AAGTCATT-TTTAGATTTCTAGTTTTGTCCAA
1 AAGTCATTGTTTAGGTTTCTAGTTTTATCCAA
6374165 ACTTTTTTTT
Statistics
Matches: 324, Mismatches: 56, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
58 11 0.03
59 92 0.28
60 219 0.68
61 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.46
Consensus pattern (60 bp):
AAGTCATTGTTTAGGTTTCTAGTTTTATCCAAGCCATTTAGTTGAGTCTTGGTTTCACCT
Found at i:6373916 original size:30 final size:30
Alignment explanation
Indices: 6373882--6373976 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
6373872 TTTAGTTGAG
6373882 TTTTGATTTCACCCAAGTCATTGTTTAGGT
1 TTTTGATTTCACCCAAGTCATTGTTTAGGT
* * *
6373912 TTTTGATTTCATCCAAGCCATTTAGTTGA-G-
1 TTTTGATTTCACCCAAGTCA-TT-GTTTAGGT
* * *
6373942 TCTTGGTTTCACCAAAGTCATTGTTTAGGT
1 TTTTGATTTCACCCAAGTCATTGTTTAGGT
6373972 TTTTG
1 TTTTG
6373977 GTTTTGTCCA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
28 4 0.08
29 3 0.06
30 37 0.73
31 3 0.06
32 4 0.08
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (30 bp):
TTTTGATTTCACCCAAGTCATTGTTTAGGT
Found at i:6374551 original size:33 final size:33
Alignment explanation
Indices: 6374489--6374551 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
6374479 TATCCTGGTC
*
6374489 AACCTTTTTCATTTGTTAACTTGTCAGTTTATT
1 AACCTTTTTCATTTGTTAACTTATCAGTTTATT
* * *
6374522 AACCTTTTTTATTTGTTGACTTATTAGTTT
1 AACCTTTTTCATTTGTTAACTTATCAGTTT
6374552 CATTCGGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.57
Consensus pattern (33 bp):
AACCTTTTTCATTTGTTAACTTATCAGTTTATT
Found at i:6374727 original size:40 final size:40
Alignment explanation
Indices: 6374672--6374763 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
6374662 TATTAGTTTG
*
6374672 TCTTAATCAACCCTTCCCATTTATCGACTTGTAGGATTTC-
1 TCTTGATCAACCCTTCCCATTTATCGACTTGTAGG-TTTCA
* * * * *
6374712 TCTTGATCAATCCTTCTCATTTATTGATTTGTTGGTTTCA
1 TCTTGATCAACCCTTCCCATTTATCGACTTGTAGGTTTCA
*
6374752 TCTTGGTCAACC
1 TCTTGATCAACC
6374764 TCTTAAACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.45
Consensus pattern (40 bp):
TCTTGATCAACCCTTCCCATTTATCGACTTGTAGGTTTCA
Found at i:6375048 original size:65 final size:65
Alignment explanation
Indices: 6374909--6375074 Score: 187
Period size: 65 Copynumber: 2.5 Consensus size: 65
6374899 CTTTTAACTT
* *** * *
6374909 GTTGACTATTCTAGTTTCATCC-TAGTCAACCTTTTTTTTATTTAAGTTTTATCTCAATCACTCC
1 GTTGACTATTCTAGTTTCA-CCTTAGTCAACC-CTTTCCGACTTAAGTTTCATCTCAATCACTCC
6374973 TA
64 TA
* *
6374975 GTTGACTATTTTGGTTTCTACC-TAGTCAACCCTTTCCGACTTAAGTTTCATC-CTAATCACT-C
1 GTTGACTATTCTAGTTTC-ACCTTAGTCAACCCTTTCCGACTTAAGTTTCATCTC-AATCACTCC
6375037 TCA
64 T-A
6375040 GTTGACTATTCTAGTTTCACCTTAGTCAACCCTTT
1 GTTGACTATTCTAGTTTCACCTTAGTCAACCCTTT
6375075 GCAATTTAGC
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
64 6 0.07
65 52 0.60
66 27 0.31
67 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.44
Consensus pattern (65 bp):
GTTGACTATTCTAGTTTCACCTTAGTCAACCCTTTCCGACTTAAGTTTCATCTCAATCACTCCTA
Found at i:6375089 original size:65 final size:62
Alignment explanation
Indices: 6374909--6375116 Score: 177
Period size: 65 Copynumber: 3.2 Consensus size: 62
6374899 CTTTTAACTT
* *** *
6374909 GTTGACTATTCTAGTTTCATCCTAGTCAACCTTTTTTTTATTTAAGTTTTATCTCAATCACTC-C
1 GTTGACTATTCTAGTTTCA-CCTAGTCAACC-CTTTCCAATTT-AGTTTCATCT-AATCACTCTC
6374973 TA
62 -A
* * * *
6374975 GTTGACTATTTTGGTTTCTACCTAGTCAACCCTTTCCGACTTAAGTTTCATCCTAATCACTCTCA
1 GTTGACTATTCTAGTTTC-ACCTAGTCAACCCTTTCC-AATTTAGTTTCAT-CTAATCACTCTCA
* * *
6375040 GTTGACTATTCTAGTTTCACCTTAGTCAACCCTTTGCAATTTAGCTTTCATACTAGTCAGC-CTT
1 GTTGACTATTCTAGTTTCACC-TAGTCAACCCTTTCCAATTTAG-TTTCAT-CTAATCA-CTCTC
6375104 A
62 A
*
6375105 ATTGACTATTCT
1 GTTGACTATTCT
6375117 GATTTTATCT
Statistics
Matches: 117, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
64 8 0.07
65 75 0.64
66 33 0.28
67 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (62 bp):
GTTGACTATTCTAGTTTCACCTAGTCAACCCTTTCCAATTTAGTTTCATCTAATCACTCTCA
Found at i:6375812 original size:23 final size:23
Alignment explanation
Indices: 6375779--6375822 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6375769 CACGCAAAAT
6375779 GATTTTCAATTTTAACTTGGAAC
1 GATTTTCAATTTTAACTTGGAAC
*
6375802 GATTTTTAATTTTAACTTGGA
1 GATTTTCAATTTTAACTTGGA
6375823 TCAACCAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.48
Consensus pattern (23 bp):
GATTTTCAATTTTAACTTGGAAC
Found at i:6376406 original size:28 final size:29
Alignment explanation
Indices: 6376370--6376435 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
6376360 TTTAATTTTT
* *
6376370 TTATATTAATTTATT-TTTAATATAATTA
1 TTATTTTAATTTATTATTTAATAAAATTA
6376398 TTATTTTAA-TTATTATTTAATAAAATTA
1 TTATTTTAATTTATTATTTAATAAAATTA
* *
6376426 ATAGTTTAAT
1 TTATTTTAAT
6376436 AAAATTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TTATTTTAATTTATTATTTAATAAAATTA
Found at i:6376435 original size:17 final size:17
Alignment explanation
Indices: 6376413--6376449 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6376403 TTAATTATTA
6376413 TTTAATAAAATTAATAG
1 TTTAATAAAATTAATAG
6376430 TTTAATAAAATTAATAG
1 TTTAATAAAATTAATAG
6376447 TTT
1 TTT
6376450 TTTTCGTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TTTAATAAAATTAATAG
Found at i:6379633 original size:17 final size:17
Alignment explanation
Indices: 6379600--6379652 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
6379590 AGATAATGAT
* *
6379600 AAAA-TTATGTGATTTA
1 AAAATTTATTTGAATTA
6379616 AAAATTTATTTGAATT-
1 AAAATTTATTTGAATTA
6379632 AAAATTTAATTT-AA-TA
1 AAAATTT-ATTTGAATTA
6379648 AAAAT
1 AAAAT
6379653 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 1 0.03
16 18 0.56
17 13 0.41
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
AAAATTTATTTGAATTA
Found at i:6379651 original size:16 final size:16
Alignment explanation
Indices: 6379614--6379652 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6379604 TTATGTGATT
6379614 TAAAAATTTATTTGAA
1 TAAAAATTTATTTGAA
*
6379630 TTAAAATTTAATTT-AA
1 TAAAAATTT-ATTTGAA
6379646 TAAAAAT
1 TAAAAAT
6379653 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TAAAAATTTATTTGAA
Found at i:6379682 original size:39 final size:39
Alignment explanation
Indices: 6379636--6379742 Score: 114
Period size: 39 Copynumber: 2.7 Consensus size: 39
6379626 TGAATTAAAA
6379636 TTTAATTTAATAA-AAA-TAAAATTTAAAATTTAAAAGTAT-
1 TTTAATTTAA-AATAAATTAAAATTT-AAATTTAAAA-TATG
*
6379675 TTTAATTTAAAATAAATTATAATTTAAATTTAAAATATG
1 TTTAATTTAAAATAAATTAAAATTTAAATTTAAAATATG
* * *
6379714 TTAAATTTAAAA-ATTATTAAAATATAAAT
1 TTTAATTTAAAATA-AATTAAAATTTAAAT
6379743 AATTTGAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
38 6 0.10
39 46 0.78
40 7 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (39 bp):
TTTAATTTAAAATAAATTAAAATTTAAATTTAAAATATG
Found at i:6379949 original size:21 final size:21
Alignment explanation
Indices: 6379899--6379951 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6379889 TTACTTTTTT
*
6379899 AAATCTAAAATTTAAAATACA
1 AAATATAAAATTTAAAATACA
* * *
6379920 AAATTTAAAATTTAATATATA
1 AAATATAAAATTTAAAATACA
*
6379941 AGATATAAAAT
1 AAATATAAAAT
6379952 AATTTTATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATATAAAATTTAAAATACA
Found at i:6380070 original size:31 final size:31
Alignment explanation
Indices: 6380011--6380071 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
6380001 AATATTAGAG
* *
6380011 TAAAACACTTTAAATTATATAAATAAATTAC
1 TAAAACACTTCAAATTATATAAAAAAATTAC
*
6380042 TAAAATCACTTCAAA-TATTTAAAAAAATTA
1 TAAAA-CACTTCAAATTATATAAAAAAATTA
6380072 ATTATGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (31 bp):
TAAAACACTTCAAATTATATAAAAAAATTAC
Found at i:6380121 original size:32 final size:31
Alignment explanation
Indices: 6380052--6380121 Score: 72
Period size: 32 Copynumber: 2.2 Consensus size: 31
6380042 TAAAATCACT
*
6380052 TCAAATATTTAAAAAAATTAATTATGTAAAAA
1 TCAAATATTTAAAAAAA-TAATTAAGTAAAAA
*
6380084 ACAAATA-TTAAATAAAA-AATTAAGATAAACAA
1 TCAAATATTTAAA-AAAATAATTAAG-TAAA-AA
6380116 TCAAAT
1 TCAAAT
6380122 GAATAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
30 6 0.19
31 9 0.28
32 17 0.53
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (31 bp):
TCAAATATTTAAAAAAATAATTAAGTAAAAA
Found at i:6391631 original size:15 final size:15
Alignment explanation
Indices: 6391611--6391674 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
6391601 CTCTTCAAAA
6391611 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
6391626 AAAAAACAAAA-AAA-
1 AAAAAA-AAAAGAAAG
* *
6391640 AAAAACAAAACAAAG
1 AAAAAAAAAAGAAAG
* * *
6391655 AAAAAGAGAGGAAAG
1 AAAAAAAAAAGAAAG
6391670 AAAAA
1 AAAAA
6391675 CCTACTTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
13 4 0.10
14 8 0.20
15 25 0.61
16 4 0.10
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:6391631 original size:18 final size:18
Alignment explanation
Indices: 6391607--6391661 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
6391597 CCTTCTCTTC
6391607 AAAAAAAAAAAAAAGAAAG
1 AAAAAAAAAAAAAA-AAAG
*
6391626 AAAAAACAAAAAAAAAA-
1 AAAAAAAAAAAAAAAAAG
* * *
6391643 AACAAAACAAAGAAAAAG
1 AAAAAAAAAAAAAAAAAG
6391661 A
1 A
6391662 GAGGAAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 13 0.43
18 4 0.13
19 13 0.43
ACGTcount: A:0.87, C:0.05, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAAAG
Found at i:6391674 original size:1 final size:1
Alignment explanation
Indices: 6391607--6391659 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
6391597 CCTTCTCTTC
* * * * * *
6391607 AAAAAAAAAAAAAAGAAAGAAAAAACAAAAAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6391660 GAGAGGAAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:6392822 original size:56 final size:54
Alignment explanation
Indices: 6392700--6393757 Score: 680
Period size: 55 Copynumber: 18.8 Consensus size: 54
6392690 TCTCTGCTTT
*
6392700 AGTCC-CAAAGAGCAGGACACCTCTTAAAGACCCGACACAAGTTGAGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAG-CCC-ACACAAGTTG-GTGGCA-TTTTCC
*
6392758 A-TCC-CAAAGA-CAGGACACCTTTCAAGCCCACACAAGTTGGTGGTCATTGTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGG-CATT-TTCC
*
6392811 AGTCACTCAAAGAGCAGGCCACCTTTATAATAG-CCA-ACAAGTTGTGTGGCATTTTCCGC
1 AGTC-CTCAAAGAGCAGGACACC-TT-TAA-AGCCCACACAAGTTG-GTGGCATTTT-C-C
6392870 AGTCCTGCACAA-AGGCAGGACACCTTATCAAAGCCCACACCACAGTTGGTGGCATTTTCC
1 AGTCCT-CA-AAGA-GCAGGACACCTT-T-AAAGCCCACA-CA-AGTTGGTGGCATTTTCC
* * *
6392930 AGTCCTCAACGAGCAGGACACCGTCTTAAAGCCCAAACAATGTTGGTGGCAAACCTTT-C
1 AGTCCTCAAAGAGCAGGACACC-T-TTAAAGCCCACACAA-GTTGGTGGC--A-TTTTCC
* *
6392989 A-TCCCCAAAGAGCAGGACACCAATCTTACAGCCCCACACAAG-TGG-GGTCATCGAGCCTTTCC
1 AGTCCTCAAAGAGCAGGACACC--T-TTAAAG-CCCACACAAGTTGGTGG-CAT------TTTCC
*
6393051 AG-CCTCAAAGAGCAGGA-ACCTTTCAAAGCCCACCACAAGTTTGG-GGACATTGTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCA-CACAAG-TTGGTGG-CATTTTCC
* *
6393106 -GTCCTCAAAGAGCAGGACA-CTCTT-AAGCCCACACCAAGTTGGGGGCA-CTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACA-CAAGTTGGTGGCATTTTCC
* * *
6393157 AGTCCCCAAAAGAGCAGGCCACCTCTT-AAG-CCACACAAGTTGGT-GCAACATTT-C
1 AGTCCTC-AAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGC-A-TTTTCC
*
6393211 AGTCCTCAAA-AGCAGGACACCTTTCACAAGCCCACACAAGTATGGTGGCATTTTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTT-A-AAGCCCACACAAGT-TGGTGGCA--TTTTCC
**
6393269 AGTACCTC-AAGA--AGGACACCTTTAAAGCCCACACAAAGTTGGTGGACCGTTT-C
1 AGT-CCTCAAAGAGCAGGACACCTTTAAAGCCCACAC-AAGTTGGTGG-CATTTTCC
**
6393322 AGATCCTCAAAGAGCAGGACACCTTTCAAAG-CCACACAAGTTGGTGG-ATTGGCCC
1 AG-TCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCATT-TTCC
*
6393377 AGTCCTCAAAG-GC-GGTACAACCTCTTAAAAGCCCACACAAG-TGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGG-AC-ACCT-TT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
6393432 AGTCC-CCAAGAGCAGGATCACCTCTTAAAGCCCCACACACAGTTGGT-GCACCTTTCC
1 AGTCCTCAAAGAGCAGGA-CACCT-TTAAAG-CCCACACA-AGTTGGTGGCA-TTTTCC
6393489 AGTCC-CAAAGAGCAGGGACACCTTTCAAAGCCCAC-CAAGTTGGTGCCGCATTGTTCC
1 AGTCCTCAAAGAGCA-GGACACCTTT-AAAGCCCACACAAGTTGGTG--GCATT-TTCC
* *
6393546 AGCTCCTCAAAGAACAAGGGACACCTTTCAAAGCCCACACAAGGTGGTGGCA-TTTCC
1 AG-TCCTCAAAGAGC-A-GGACACCTTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
* *
6393603 AGTCCTCAAAGCGCA-GACACCTCTTAAAGCCCAC-CAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * * * **
6393656 ATTCC-CAAAGAGCAAGGACCACTTTTTCAAGCCACACACCAGTGGGTGGCAAACCTT-C
1 AGTCCTCAAAGAGC-AGGA-CAC-CTTTAAAGCC-CACACAAGTTGGTGGC--ATTTTCC
* *
6393714 AGTCC-CACAAGAGCAGG--ACCTTTGCAAGCCCACACGAGTTGGTG
1 AGTCCTCA-AAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTG
6393758 CCTTTTTACC
Statistics
Matches: 835, Mismatches: 57, Indels: 220
0.75 0.05 0.20
Matches are distributed among these distances:
51 5 0.01
52 52 0.06
53 79 0.09
54 97 0.12
55 123 0.15
56 94 0.11
57 105 0.13
58 92 0.11
59 71 0.09
60 59 0.07
61 25 0.03
62 28 0.03
63 5 0.01
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:6393785 original size:445 final size:447
Alignment explanation
Indices: 6392879--6393757 Score: 928
Period size: 445 Copynumber: 2.0 Consensus size: 447
6392869 CAGTCCTGCA
** *
6392879 CAAAG-GCAGGACACCTTATCAAAGCCCACACCACAGTTGGTGGCATTTTCCAGTCCTCAACGAG
1 CAAAGAGCAGGACACCTTATCAAAGCCCACACCACAGTTGGTGGCATTGCCCAGTCCTCAAAGAG
6392943 CAGGACACCGTCTTAAAGCCCAAACAATGTTGGTGGCAAACCTTTCATCCCCAAAGAGCAGGACA
66 CAGGACACCGTCTTAAAGCCCAAACAATGTTGGTGGC-AACCTTTCATCCCCAAAGAGCAGGACA
* *
6393008 CCAATCTTACAGCCCCACACAAGTGGGGTCATCGAGCCTTTCCAGCCTCAAAGAGCAGGAACCTT
130 CC-ATCTTAAAGCCCCACACAAGTGGGGT-AGCGAGCCTTTCCAGCCTCAAAGAGCAGGAACCTT
*
6393073 TCAAAGCCCACCACAAGTTTGGGGACATTGTCCGTCCTCAAAGAGCAGGACACTCTTAAGCCCAC
193 TCAAAGCCCACCACAAGTTTGGGGACATTGTCCGTCCTCAAAGAACAGGACACTCTTAAGCCCAC
* *
6393138 ACCAAGTTGGGGGCACTTCAGTCCCCAAAAGAGCAGGCCACCTCTTAAGCCACACAAGTTGGTGC
258 ACCAAGGTGGGGGCACTTCAGTCCCCAAAAGAGCAGGACACCTCTTAAGCCACACAAGTTGGTGC
* ****
6393203 AACATTTCAGTCCTCAAAAGCAGGACACCTTTCACAAGCCCACACAAGTATGGTGGCATTTTTTT
323 AACATTTCAGTCCTCAAAAGCAGGACACCTTTCACAAGCCCACACAAGTAGGGTGGCATAACCTT
* *
6393268 CAGTACCTCAAGAAGGACACCTTTAAAGCCCACACAAAGTTGGTGGACCGTTTCAGATCCT
388 CAGTACCACAAGAAGGA-ACCTTTAAAGCCCACACAAAGTTGGTGGACCGTTTCACATCCT
6393329 CAAAGAGCAGGACACCTT-TCAAAG-CCACA-CA-AGTTGGTGG-ATTGGCCCAGTCCTCAAAG-
1 CAAAGAGCAGGACACCTTATCAAAGCCCACACCACAGTTGGTGGCATT-GCCCAGTCCTCAAAGA
*
6393388 GC-GGTACAACC-TCTTAAAAGCCCACACAA-G-TGGTGGC-ACCTTTCAGTCCCC-AAGAGCAG
65 GCAGG-AC-ACCGTCTT-AAAGCCCAAACAATGTTGGTGGCAACCTTTCA-TCCCCAAAGAGCAG
*
6393447 GATCACC-TCTTAAAGCCCCACACACAGT-TGGT-GC-A-CCTTTCCAGTCC-CAAAGAGCAGGG
126 GA-CACCATCTTAAAGCCCCACACA-AGTGGGGTAGCGAGCCTTTCCAG-CCTCAAAGAGCA-GG
6393506 ACACCTTTCAAAGCCCA-C-CAAG-TTGGTGCCG-CATTGTTCCAGCTCCTCAAAGAACAAGGGA
187 A-ACCTTTCAAAGCCCACCACAAGTTTGG-G--GACATTG-TCC-G-TCCTCAAAGAAC-A-GGA
* * * *
6393567 CAC-CTTTCAAAGCCCACA-CAAGGTGGTGGCATTTCCAGTCCTC-AAAGCGCA-GACACCTCTT
243 CACTC-TT--AAGCCCACACCAAGGTGGGGGCACTT-CAGTCCCCAAAAGAGCAGGACACCTCTT
* * **
6393628 AAAGCC-CACCAAGTTGGTGGC-ACCTTTCATTCC-CAAAGAGCAAGGAC-CACTTTTTCAAGCC
304 -AAGCCACA-CAAGTTGGT-GCAACATTTCAGTCCTCAAA-AGC-AGGACAC-CTTTCACAAGCC
* * * *
6393689 ACACACCAGT-GGGTGGCA-AACCTTCAGTCCCACAAGAGCAGG-ACCTTTGCAAGCCCACAC-G
363 -CACACAAGTAGGGTGGCATAACCTTCAGTACCACAAGA--AGGAACCTTT-AAAGCCCACACAA
6393750 AGTTGGTG
424 AGTTGGTG
6393758 CCTTTTTACC
Statistics
Matches: 368, Mismatches: 28, Indels: 71
0.79 0.06 0.15
Matches are distributed among these distances:
437 4 0.01
438 23 0.06
439 12 0.03
440 20 0.05
441 1 0.00
442 30 0.08
443 23 0.06
444 32 0.09
445 84 0.23
446 62 0.17
447 47 0.13
448 2 0.01
449 5 0.01
450 11 0.03
451 12 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (447 bp):
CAAAGAGCAGGACACCTTATCAAAGCCCACACCACAGTTGGTGGCATTGCCCAGTCCTCAAAGAG
CAGGACACCGTCTTAAAGCCCAAACAATGTTGGTGGCAACCTTTCATCCCCAAAGAGCAGGACAC
CATCTTAAAGCCCCACACAAGTGGGGTAGCGAGCCTTTCCAGCCTCAAAGAGCAGGAACCTTTCA
AAGCCCACCACAAGTTTGGGGACATTGTCCGTCCTCAAAGAACAGGACACTCTTAAGCCCACACC
AAGGTGGGGGCACTTCAGTCCCCAAAAGAGCAGGACACCTCTTAAGCCACACAAGTTGGTGCAAC
ATTTCAGTCCTCAAAAGCAGGACACCTTTCACAAGCCCACACAAGTAGGGTGGCATAACCTTCAG
TACCACAAGAAGGAACCTTTAAAGCCCACACAAAGTTGGTGGACCGTTTCACATCCT
Found at i:6394399 original size:17 final size:17
Alignment explanation
Indices: 6394377--6394410 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6394367 GATAAAGTGT
6394377 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
6394394 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
6394411 AAAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
TTGAAAAAAAAAAAAAA
Found at i:6394452 original size:20 final size:21
Alignment explanation
Indices: 6394419--6394473 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
6394409 AAAAAATTTA
6394419 AATG-ATCGATACATTTGT-AG
1 AATGTATCGA-ACATTTGTGAG
*
6394439 AATGTATCGAACATTTGTGGG
1 AATGTATCGAACATTTGTGAG
6394460 AATGTATCGAACAT
1 AATGTATCGAACAT
6394474 CCTAAAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 12 0.38
21 20 0.62
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (21 bp):
AATGTATCGAACATTTGTGAG
Found at i:6394552 original size:19 final size:19
Alignment explanation
Indices: 6394528--6394593 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
6394518 AATTCAACAA
6394528 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
6394547 TTTGTATCG-TAC--AA--
1 TTTGTATCGATACATAAGT
6394561 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
6394578 ATTGTATCGATACATA
1 TTTGTATCGATACATA
6394594 TTAGCTACTG
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
12 7 0.17
13 3 0.08
15 2 0.05
16 2 0.05
18 3 0.08
19 23 0.57
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:6394565 original size:31 final size:32
Alignment explanation
Indices: 6394530--6394591 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
6394520 TTCAACAATT
*
6394530 TGTATCGATACATAAGTTTTGTATCG-TACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
6394561 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
6394592 TATTAGCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:6400194 original size:20 final size:21
Alignment explanation
Indices: 6400171--6400209 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
6400161 ATTGTTAACA
6400171 TAAAATTA-TTAAT-TTAATAT
1 TAAAA-TACTTAATATTAATAT
6400191 TAAAATACTTAATATTAAT
1 TAAAATACTTAATATTAAT
6400210 TGTAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 10 0.59
21 5 0.29
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATACTTAATATTAATAT
Found at i:6400851 original size:26 final size:27
Alignment explanation
Indices: 6400784--6400853 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
6400774 TTTCTTCACA
6400784 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
6400811 ATCGGGGATACTCCAACCCCGTT-AT-
1 ATCGGGGATACTCCAACCCCGTTAATC
*
6400836 TTCGAGGGATACTCCAAC
1 ATCG-GGGATACTCCAAC
6400854 TCCGGTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 3 0.07
26 15 0.37
27 23 0.56
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:6400890 original size:105 final size:103
Alignment explanation
Indices: 6400764--6401077 Score: 289
Period size: 104 Copynumber: 3.0 Consensus size: 103
6400754 ATTGCAAAAA
*
6400764 AAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACC
1 AAAACACCAATTT-TTCACAATCGGGGATACTCCAACCTCGTTAATCATCGGGGATACTCCAACC
6400829 CCGTTATTTCGAGGGATACTCCAACTCCGGTTTTATCGTT-
65 CCGTTATTTCGAGGGATACTCCAACTCCGGTTTTAT--TTC
* * * ** * * *
6400869 AAAACACTAATTTTTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTC---AAAACGCCAA
1 AAAACACCAATTTTT-CACAATCGGGGATACTCCAA-CCTCG-TTAATCATCGGGGATACTCCAA
** * * *
6400931 TTTTCCTTTA-ATCG-GGGATACTCCAACTCCGATTTTATTTCC
63 --CCCCGTTATTTCGAGGGATACTCCAACTCCGGTTTTATTT-C
* * *
6400973 AAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAAC
1 -AAAACACCAATTTTTCACAATCGGGGATACTCCAACCTCGTTA-ATCATCGGGGATACTCCAAC
* * *
6401038 CCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATT
64 CCCGTTA-TTTCGA-GGGATACTCCAACTCCGGTTTTATT
6401078 CCCAAAATAT
Statistics
Matches: 160, Mismatches: 33, Indels: 29
0.72 0.15 0.13
Matches are distributed among these distances:
102 4 0.03
103 7 0.04
104 56 0.35
105 48 0.30
106 17 0.11
107 6 0.04
108 22 0.14
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (103 bp):
AAAACACCAATTTTTCACAATCGGGGATACTCCAACCTCGTTAATCATCGGGGATACTCCAACCC
CGTTATTTCGAGGGATACTCCAACTCCGGTTTTATTTC
Found at i:6400925 original size:52 final size:52
Alignment explanation
Indices: 6400841--6401009 Score: 193
Period size: 52 Copynumber: 3.2 Consensus size: 52
6400831 GTTATTTCGA
* *
6400841 GGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATCG
1 GGGATACTCCAACTCCGGTTTTAT-TTTCAAAACACCAATTTTTCCACAATCG
* **
6400893 GGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATCG
1 GGGATACTCCAACTCC-GGTTTTATTTTCAAAACACCAATTTTTCC-ACAATCG
* * *
6400945 GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATCG
1 GGGATACTCCAACTCCGGTTTTATTTTC-AAAACACCAATTTTTCCACAATCG
*
6400997 AGGATACTCCAAC
1 GGGATACTCCAAC
6401010 CTCGTTATTT
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
51 11 0.11
52 72 0.73
53 12 0.12
54 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGATACTCCAACTCCGGTTTTATTTTCAAAACACCAATTTTTCCACAATCG
Found at i:6401029 original size:28 final size:28
Alignment explanation
Indices: 6400993--6401069 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
6400983 ATTTTTCACA
* * *
6400993 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
6401021 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
6401049 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
6401070 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:6401143 original size:28 final size:28
Alignment explanation
Indices: 6401103--6401156 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
6401093 TCTCATAATT
6401103 AGGGATACTCCAACCCCG-TTATTTTCGA
1 AGGGATACTCCAACCCCGATT-TTTTCGA
*
6401131 AGGGATACTCCAATCCCGATTTTTTC
1 AGGGATACTCCAACCCCGATTTTTTC
6401157 TAATCATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (28 bp):
AGGGATACTCCAACCCCGATTTTTTCGA
Found at i:6401202 original size:76 final size:78
Alignment explanation
Indices: 6401023--6401224 Score: 223
Period size: 76 Copynumber: 2.6 Consensus size: 78
6401013 GTTATTTCAT
* * * *
6401023 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
6401088 TGATTTCTCATAAT
65 CGATTTCTCACAAC
** * * *
6401102 TAGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTT-TT-TC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
6401164 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* *
6401178 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
6401225 TTATTATCTC
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
75 8 0.08
76 50 0.48
77 2 0.02
78 4 0.04
79 40 0.38
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:6413655 original size:16 final size:16
Alignment explanation
Indices: 6413631--6413671 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
6413621 CCTTCTCTTC
6413631 AAAAAA-AAAAAA-AA
1 AAAAAACAAAAAACAA
*
6413645 AGAAAACAAAAAACAA
1 AAAAAACAAAAAACAA
6413661 AAAAAACAAAA
1 AAAAAACAAAA
6413672 CAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 5 0.22
15 6 0.26
16 12 0.52
ACGTcount: A:0.90, C:0.07, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAAAACAA
Found at i:6414748 original size:55 final size:55
Alignment explanation
Indices: 6414663--6415725 Score: 1604
Period size: 55 Copynumber: 19.3 Consensus size: 55
6414653 TCCGCTTTTT
*
6414663 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
6414718 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
6414773 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
6414828 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
6414883 AGTCCTCAACGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
6414938 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
6414993 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T-C
6415048 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
6415103 AGTCCCCAAAGAGCAGGCCACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
6415158 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
6415213 AGTCCTCAAAGAACAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
6415268 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T-C
6415323 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
6415378 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
6415433 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
6415488 AGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
6415543 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
6415598 ATTCCCCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
6415653 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
6415708 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
6415726 TACAATTTAT
Statistics
Matches: 946, Mismatches: 39, Indels: 46
0.92 0.04 0.04
Matches are distributed among these distances:
53 4 0.00
54 21 0.02
55 898 0.95
56 19 0.02
57 4 0.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:6416340 original size:17 final size:17
Alignment explanation
Indices: 6416318--6416351 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6416308 GATAAAGTGT
6416318 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
6416335 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
6416352 AATTTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
TTGAAAAAAAAAAAAAA
Found at i:6416382 original size:21 final size:21
Alignment explanation
Indices: 6416358--6416414 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
6416348 AAAAAATTTA
6416358 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
6416379 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
6416400 AATGTATCGATACAT
1 AATGTATCGATACAT
6416415 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:6416494 original size:19 final size:19
Alignment explanation
Indices: 6416470--6416537 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
6416460 AATTCAACAA
6416470 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
6416489 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
6416504 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
6416521 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
6416538 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:6416509 original size:13 final size:13
Alignment explanation
Indices: 6416491--6416515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6416481 ACATAAGTTT
6416491 TGTATCGATACAA
1 TGTATCGATACAA
6416504 TGTATCGATACA
1 TGTATCGATACA
6416516 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6416513 original size:32 final size:32
Alignment explanation
Indices: 6416472--6416534 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6416462 TTCAACAATT
*
6416472 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
6416504 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
6416535 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:6416595 original size:13 final size:13
Alignment explanation
Indices: 6416577--6416602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6416567 CATTTTTCTG
6416577 TGTATCGATACAT
1 TGTATCGATACAT
6416590 TGTATCGATACAT
1 TGTATCGATACAT
6416603 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6416599 original size:33 final size:33
Alignment explanation
Indices: 6416557--6416623 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6416547 GCCAAGGAAA
***
6416557 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
6416590 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
6416623 T
1 T
6416624 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:6419151 original size:52 final size:51
Alignment explanation
Indices: 6419078--6419247 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 51
6419068 TTATTTTCGA
*
6419078 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* **
6419130 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCC-ACAATC
* *
6419182 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
6419234 GAGGATACTCCAAC
1 GGGGATACTCCAAC
6419248 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 14 0.14
52 69 0.69
53 13 0.13
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:6419267 original size:28 final size:28
Alignment explanation
Indices: 6419231--6419307 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
6419221 ATTTTTCACA
* * *
6419231 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
6419259 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
6419287 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
6419308 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:6419795 original size:23 final size:23
Alignment explanation
Indices: 6419762--6419805 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6419752 CATGCAAAAT
6419762 GATTTTCAATTTTAACTTGGAAC
1 GATTTTCAATTTTAACTTGGAAC
*
6419785 GATTTTTAATTTTAACTTGGA
1 GATTTTCAATTTTAACTTGGA
6419806 TCAACCAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.48
Consensus pattern (23 bp):
GATTTTCAATTTTAACTTGGAAC
Found at i:6420382 original size:28 final size:28
Alignment explanation
Indices: 6420351--6420406 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
6420341 TTTAATTTTT
*
6420351 TTATATTAATTTATT-TTTAATATAATTA
1 TTATATTAA-TTATTATTTAATAAAATTA
*
6420379 TTATTTTAATTATTATTTAATAAAATTA
1 TTATATTAATTATTATTTAATAAAATTA
6420407 ATAGTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TTATATTAATTATTATTTAATAAAATTA
Found at i:6420414 original size:28 final size:27
Alignment explanation
Indices: 6420356--6420416 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
6420346 TTTTTTTATA
* * *
6420356 TTAATTTATTTTTAATATAATTATTATT
1 TTAA-TTATTTTTAATAAAATTAATAGT
6420384 TTAATTATTATTTAATAAAATTAATAGT
1 TTAATTATT-TTTAATAAAATTAATAGT
6420412 TTAAT
1 TTAAT
6420417 AAAATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TTAATTATTTTTAATAAAATTAATAGT
Found at i:6420416 original size:17 final size:17
Alignment explanation
Indices: 6420394--6420430 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6420384 TTAATTATTA
6420394 TTTAATAAAATTAATAG
1 TTTAATAAAATTAATAG
6420411 TTTAATAAAATTAATAG
1 TTTAATAAAATTAATAG
6420428 TTT
1 TTT
6420431 TTTTCGTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TTTAATAAAATTAATAG
Found at i:6423614 original size:17 final size:17
Alignment explanation
Indices: 6423581--6423633 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
6423571 AGATAATGAT
* *
6423581 AAAA-TTATGTGATTTA
1 AAAATTTATTTGAATTA
6423597 AAAATTTATTTGAATT-
1 AAAATTTATTTGAATTA
6423613 AAAATTTAATTT-AA-TA
1 AAAATTT-ATTTGAATTA
6423629 AAAAT
1 AAAAT
6423634 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 1 0.03
16 18 0.56
17 13 0.41
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
AAAATTTATTTGAATTA
Found at i:6423632 original size:16 final size:16
Alignment explanation
Indices: 6423595--6423633 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6423585 TTATGTGATT
6423595 TAAAAATTTATTTGAA
1 TAAAAATTTATTTGAA
*
6423611 TTAAAATTTAATTT-AA
1 TAAAAATTT-ATTTGAA
6423627 TAAAAAT
1 TAAAAAT
6423634 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TAAAAATTTATTTGAA
Found at i:6423663 original size:39 final size:39
Alignment explanation
Indices: 6423617--6423723 Score: 114
Period size: 39 Copynumber: 2.7 Consensus size: 39
6423607 TGAATTAAAA
6423617 TTTAATTTAATAA-AAA-TAAAATTTAAAATTTAAAAGTAT-
1 TTTAATTTAA-AATAAATTAAAATTT-AAATTTAAAA-TATG
*
6423656 TTTAATTTAAAATAAATTATAATTTAAATTTAAAATATG
1 TTTAATTTAAAATAAATTAAAATTTAAATTTAAAATATG
* * *
6423695 TTAAATTTAAAA-ATTATTAAAATATAAAT
1 TTTAATTTAAAATA-AATTAAAATTTAAAT
6423724 AATTTGAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
38 6 0.10
39 46 0.78
40 7 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (39 bp):
TTTAATTTAAAATAAATTAAAATTTAAATTTAAAATATG
Found at i:6423930 original size:21 final size:21
Alignment explanation
Indices: 6423880--6423932 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6423870 TTACTTTTTT
*
6423880 AAATCTAAAATTTAAAATACA
1 AAATATAAAATTTAAAATACA
* * *
6423901 AAATTTAAAATTTAATATATA
1 AAATATAAAATTTAAAATACA
*
6423922 AGATATAAAAT
1 AAATATAAAAT
6423933 AATTTTATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATATAAAATTTAAAATACA
Found at i:6424051 original size:31 final size:31
Alignment explanation
Indices: 6423992--6424052 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
6423982 AATATTAGAG
* *
6423992 TAAAACACTTTAAATTATATAAATAAATTAC
1 TAAAACACTTCAAATTATATAAAAAAATTAC
*
6424023 TAAAATCACTTCAAA-TATTTAAAAAAATTA
1 TAAAA-CACTTCAAATTATATAAAAAAATTA
6424053 ATTATGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (31 bp):
TAAAACACTTCAAATTATATAAAAAAATTAC
Found at i:6424102 original size:32 final size:31
Alignment explanation
Indices: 6424033--6424102 Score: 72
Period size: 32 Copynumber: 2.2 Consensus size: 31
6424023 TAAAATCACT
*
6424033 TCAAATATTTAAAAAAATTAATTATGTAAAAA
1 TCAAATATTTAAAAAAA-TAATTAAGTAAAAA
*
6424065 ACAAATA-TTAAATAAAA-AATTAAGATAAACAA
1 TCAAATATTTAAA-AAAATAATTAAG-TAAA-AA
6424097 TCAAAT
1 TCAAAT
6424103 GAATAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
30 6 0.19
31 9 0.28
32 17 0.53
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (31 bp):
TCAAATATTTAAAAAAATAATTAAGTAAAAA
Found at i:6429830 original size:2 final size:2
Alignment explanation
Indices: 6429823--6429860 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6429813 GCTTATCATC
6429823 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6429861 AGATTTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6436098 original size:23 final size:23
Alignment explanation
Indices: 6436064--6436109 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6436054 TAAATAAAAT
6436064 ATTTAAAAATAAAA-ATTATTAAA
1 ATTTAAAAATAAAATATT-TTAAA
*
6436087 ATTTAAATATAAAATATTTTAAA
1 ATTTAAAAATAAAATATTTTAAA
6436110 CATAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTTAAAAATAAAATATTTTAAA
Found at i:6436462 original size:21 final size:21
Alignment explanation
Indices: 6436438--6436477 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6436428 TAATAATTTT
* * *
6436438 TAAATTTTATTATGAAATATA
1 TAAATATTAATATAAAATATA
6436459 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
6436478 ATTTTTAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:6438013 original size:17 final size:18
Alignment explanation
Indices: 6437986--6438023 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
6437976 CACGATGACC
6437986 ATAATAATGA-TAATAAAT
1 ATAATAATGATTAA-AAAT
6438004 ATAA-AATGATTAAAAAT
1 ATAATAATGATTAAAAAT
6438021 ATA
1 ATA
6438024 TCTATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
ATAATAATGATTAAAAAT
Found at i:6439373 original size:22 final size:21
Alignment explanation
Indices: 6439348--6439426 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 21
6439338 TTTTTAATTT
6439348 TTATTTAATATAAATATAAGTA
1 TTATTTAATATAAATATAA-TA
**
6439370 TTATTTTTAATAT--ATATTTTA
1 TTA--TTTAATATAAATATAATA
6439391 TTATTTAATAT--ATAT-A-A
1 TTATTTAATATAAATATAATA
6439408 TT-TTTAATATAAATATAAT
1 TTATTTAATATAAATATAAT
6439427 TTTTAATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
16 8 0.17
17 3 0.06
18 4 0.08
19 13 0.27
21 5 0.10
22 7 0.15
24 8 0.17
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
TTATTTAATATAAATATAATA
Found at i:6439376 original size:35 final size:38
Alignment explanation
Indices: 6439296--6439415 Score: 101
Period size: 35 Copynumber: 3.3 Consensus size: 38
6439286 TTACTATAAT
* **
6439296 TAATATTTTAATTATTATTTAATATAATTAATATTTTAG
1 TAAT-TTTTAATTATTATTTAATATAAATAATATAGTAG
*
6439335 TAATTTTTAATTTTTATTTAATATAAAT-ATA-AGTA-
1 TAATTTTTAATTATTATTTAATATAAATAATATAGTAG
* * **
6439370 TTATTTTTAA-TATATATTTTAT-TATTTAATATA-TA-
1 TAATTTTTAATTAT-TATTTAATATAAATAATATAGTAG
6439405 TAATTTTTAAT
1 TAATTTTTAAT
6439416 ATAAATATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
34 5 0.07
35 30 0.45
36 3 0.04
37 3 0.04
38 22 0.33
39 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (38 bp):
TAATTTTTAATTATTATTTAATATAAATAATATAGTAG
Found at i:6439383 original size:18 final size:17
Alignment explanation
Indices: 6439360--6439433 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 17
6439350 ATTTAATATA
*
6439360 AATATAAGTATTATTTTT
1 AATATAA-TATAATTTTT
* *
6439378 AATATATATTTTATTATTT
1 AATATA-ATATAATT-TTT
6439397 AATAT-ATATAATTTTT
1 AATATAATATAATTTTT
6439413 AATATAAATATAATTTTT
1 AATAT-AATATAATTTTT
6439431 AAT
1 AAT
6439434 TATTATTCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
16 8 0.16
17 6 0.12
18 26 0.53
19 9 0.18
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (17 bp):
AATATAATATAATTTTT
Found at i:6439394 original size:21 final size:19
Alignment explanation
Indices: 6439370--6439405 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6439360 AATATAAGTA
6439370 TTATT-TTTAATATATATT
1 TTATTATTTAATATATATT
6439388 TTATTATTTAATATATAT
1 TTATTATTTAATATATAT
6439406 AATTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATTTAATATATATT
Found at i:6439406 original size:21 final size:21
Alignment explanation
Indices: 6439348--6439411 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
6439338 TTTTTAATTT
* **
6439348 TTATTTAATATAAATATAAGTA
1 TTATTTAATATATATAT-TTTA
*
6439370 TTATTT-TTAATATATATTTTA
1 TTATTTAAT-ATATATATTTTA
6439391 TTATTTAATATATATAATTTT
1 TTATTTAATATATAT-ATTTT
6439412 TAATATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 15 0.44
22 19 0.56
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTTAATATATATATTTTA
Found at i:6439646 original size:21 final size:22
Alignment explanation
Indices: 6439617--6439664 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
6439607 CCATTAATTT
*
6439617 TAATCTCATTATTATAAT-ATC
1 TAATTTCATTATTATAATAATC
6439638 TAATTTCATTATTATAATAATC
1 TAATTTCATTATTATAATAATC
6439660 -AATTT
1 TAATTT
6439665 TACCATCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTTCATTATTATAATAATC
Found at i:6447721 original size:20 final size:20
Alignment explanation
Indices: 6447684--6447746 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
6447674 ATGGAAATTA
* *
6447684 TGACGAAATGTCATAAGTTG
1 TGACGGAATGTCACAAGTTG
6447704 TGACGGAACT-TCACAAGTTG
1 TGACGGAA-TGTCACAAGTTG
6447724 TGACGGAATGTCACAAGTTG
1 TGACGGAATGTCACAAGTTG
6447744 TGA
1 TGA
6447747 TGAATTTAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
21 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (20 bp):
TGACGGAATGTCACAAGTTG
Found at i:6447914 original size:13 final size:13
Alignment explanation
Indices: 6447896--6447922 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6447886 TTTATACAAA
6447896 ACAAAAATTTGTG
1 ACAAAAATTTGTG
6447909 ACAAAAATTTGTG
1 ACAAAAATTTGTG
6447922 A
1 A
6447923 TACAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
ACAAAAATTTGTG
Found at i:6449101 original size:25 final size:25
Alignment explanation
Indices: 6449054--6449101 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6449044 TAAATCATAA
* * * *
6449054 ATTTATTATTAATTATATCAATACT
1 ATTTATAATTAAATAAATAAATACT
6449079 ATTTATAATTAAATAAATAAATA
1 ATTTATAATTAAATAAATAAATA
6449102 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTTATAATTAAATAAATAAATACT
Found at i:6449147 original size:27 final size:29
Alignment explanation
Indices: 6449089--6449161 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 29
6449079 ATTTATAATT
6449089 AAATAAATAAATATTTTTTAAATTATAAAAA
1 AAATAAAT--ATATTTTTTAAATTATAAAAA
** * *
6449120 ATTTATATATATTTTTTAAA-TA-ATAAA
1 AAATAAATATATTTTTTAAATTATAAAAA
6449147 AAATAAATATATTTT
1 AAATAAATATATTTT
6449162 CAAAGTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
27 16 0.46
28 2 0.06
29 12 0.34
31 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATAAATATATTTTTTAAATTATAAAAA
Found at i:6449156 original size:29 final size:29
Alignment explanation
Indices: 6449089--6449158 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
6449079 ATTTATAATT
* *
6449089 AAATAAATAAATATTTTTTAAATTATAAA
1 AAATAAATATATATTTTTTAAATAATAAA
**
6449118 AAATTTATATATATTTTTTAAATAATAAA
1 AAATAAATATATATTTTTTAAATAATAAA
6449147 AAATAAATATAT
1 AAATAAATATAT
6449159 TTTCAAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATAAATATATATTTTTTAAATAATAAA
Found at i:6451625 original size:17 final size:16
Alignment explanation
Indices: 6451600--6451634 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6451590 TTGCAATTCA
6451600 AAATGTTATTTAAATTT
1 AAATGTTA-TTAAATTT
*
6451617 AAATTTTATTAAATTT
1 AAATGTTATTAAATTT
6451633 AA
1 AA
6451635 TTTAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
AAATGTTATTAAATTT
Done.