Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 163 of 240
Found at i:51028188 original size:50 final size:50
Alignment explanation
Indices: 51028134--51028454 Score: 225
Period size: 50 Copynumber: 6.4 Consensus size: 50
51028124 CATCGTCGTA
* ***
51028134 GCTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCAATATCAGGGAAGTAAGATCCGCCGTTGTG
* ** * * * * *
51028184 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACT-AGATCTGCCGTCGTA
1 GCTTCAATCTGTTCCACTGCAATATCAGGG-AAGTAAGATCCGCCGTTGTG
* * * * *
51028234 GCTTCAATCTGTTCCACTGCACT-GCTAAGGAAGTAAGATTCGTCGTTGTG
1 GCTTCAATCTGTTCCACTGCAATATC-AGGGAAGTAAGATCCGCCGTTGTG
* ** * * *** ** * *
51028284 GCTTCAATCTTTTTAAGTACAATATCAGGGAAACCAGATCCATCGTCGTA
1 GCTTCAATCTGTTCCACTGCAATATCAGGGAAGTAAGATCCGCCGTTGTG
* *
51028334 GCTTCAATCTGTTCCACTGCACTA-CTAAGGAAGTAAGATCCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCAATATC-AGGGAAGTAAGATCCGCCGTTGTG
* ** * *** * * *
51028384 GCTTCAATCTTTTTAAGTGCAATATCAGGGAAACCAGATCCGTCGTCGTA
1 GCTTCAATCTGTTCCACTGCAATATCAGGGAAGTAAGATCCGCCGTTGTG
51028434 GCTTCAATCTGTTCCACTGCA
1 GCTTCAATCTGTTCCACTGCA
51028455 CTGCTAAGGA
Statistics
Matches: 195, Mismatches: 70, Indels: 12
0.70 0.25 0.04
Matches are distributed among these distances:
49 5 0.03
50 185 0.95
51 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTGTTCCACTGCAATATCAGGGAAGTAAGATCCGCCGTTGTG
Found at i:51028231 original size:100 final size:101
Alignment explanation
Indices: 51028111--51028469 Score: 548
Period size: 100 Copynumber: 3.6 Consensus size: 101
51028101 TGTAATGTCG
* * * *
51028111 GGGAAACCAGATTCATCGTCGTAGCTTCAATCTGTTCCACCGCACCGTC-AGGGAAGTAAGATCC
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCTAAGGAAGTAAGATCC
*
51028175 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 GCCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCA
* * * * *
51028211 GGGAAACTAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATTC
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCTAAGGAAGTAAGATCC
* *
51028275 GTCGTTGTGGCTTCAATCTTTTTAAGTACAATATCA
66 GCCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCA
*
51028311 GGGAAACCAGATCCATCGTCGTAGCTTCAATCTGTTCCACTGCA-C-TACTAAGGAAGTAAGATC
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGT-CTAAGGAAGTAAGATC
51028374 CGCCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCA
65 CGCCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCA
*
51028411 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAA
1 GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCTAAGGAAGTAA
51028470 AATCTATGGT
Statistics
Matches: 232, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
99 1 0.00
100 231 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (101 bp):
GGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCTAAGGAAGTAAGATCC
GCCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCA
Found at i:51029722 original size:7 final size:7
Alignment explanation
Indices: 51029703--51029746 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
51029693 TTAGCCTCTC
51029703 CATTTTT
1 CATTTTT
51029710 -ACTTTTT
1 CA-TTTTT
51029717 CATTTTT
1 CATTTTT
51029724 CA-TTTT
1 CATTTTT
51029730 CATCTTTT
1 CAT-TTTT
51029738 CATTTTT
1 CATTTTT
51029745 CA
1 CA
51029747 CATCACTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:51029758 original size:21 final size:21
Alignment explanation
Indices: 51029712--51029758 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
51029702 CCATTTTTAC
**
51029712 TTTTTCATTTTTCATTTTCAT
1 TTTTTCATTTTTCATCATCAT
*
51029733 CTTTTCATTTTTCA-CATCACT
1 TTTTTCATTTTTCATCATCA-T
51029754 TTTTT
1 TTTTT
51029759 TTTGGACTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTCATTTTTCATCATCAT
Found at i:51035449 original size:11 final size:11
Alignment explanation
Indices: 51035433--51035463 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51035423 GTATTAAGCA
51035433 AAAATAAAACG
1 AAAATAAAACG
*
51035444 AAAATAAAATG
1 AAAATAAAACG
51035455 AAAATAAAA
1 AAAATAAAA
51035464 AAAAACCGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (11 bp):
AAAATAAAACG
Found at i:51041497 original size:15 final size:15
Alignment explanation
Indices: 51041479--51041513 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
51041469 CAAATGCTAT
51041479 AATAATAAATACAAC
1 AATAATAAATACAAC
*
51041494 AATAATAAATACATC
1 AATAATAAATACAAC
51041509 AATAA
1 AATAA
51041514 CATATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:51046604 original size:14 final size:15
Alignment explanation
Indices: 51046582--51046616 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
51046572 ATTTACATTA
*
51046582 TTTAAAAAATAT-AT
1 TTTACAAAATATAAT
51046596 TTTACAAAATATAAT
1 TTTACAAAATATAAT
51046611 TTTACA
1 TTTACA
51046617 TTTCAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTACAAAATATAAT
Found at i:51047418 original size:19 final size:18
Alignment explanation
Indices: 51047396--51047442 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 18
51047386 AATATTATAA
51047396 AATAAATAATAAACAAAAT
1 AATAAATAATAAAC-AAAT
51047415 AATAAATAATAAACAAAT
1 AATAAATAATAAACAAAT
*
51047433 AAAAAATAAT
1 AATAAATAAT
51047443 TTTGATCACC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (18 bp):
AATAAATAATAAACAAAT
Found at i:51050264 original size:3 final size:3
Alignment explanation
Indices: 51050256--51050295 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
51050246 TGTTTAGCTC
51050256 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
51050296 TTGTTTAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:51058688 original size:10 final size:11
Alignment explanation
Indices: 51058665--51058711 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
51058655 AGTAACTAAC
51058665 AAAATAACATT
1 AAAATAACATT
51058676 AAAATAA-ATT
1 AAAATAACATT
* *
51058686 AAAAACAACATA
1 -AAAATAACATT
*
51058698 AAAATAACAAT
1 AAAATAACATT
51058709 AAA
1 AAA
51058712 CAAACTACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
10 3 0.10
11 24 0.83
12 2 0.07
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAACATT
Found at i:51060236 original size:43 final size:43
Alignment explanation
Indices: 51060175--51060262 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
51060165 AATTTCACGT
51060175 TAGATATCTATTTATCATTTTAACAGGAGTGAT-TAAACTGATC
1 TAGATATCTATTTATCATTTTAACAGGAGTG-TGTAAACTGATC
* *
51060218 TAGATCTCTATTTATCATTTTCACAGGAGTGTGTAAACTGATC
1 TAGATATCTATTTATCATTTTAACAGGAGTGTGTAAACTGATC
51060261 TA
1 TA
51060263 ACAGGTGTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.40
Consensus pattern (43 bp):
TAGATATCTATTTATCATTTTAACAGGAGTGTGTAAACTGATC
Found at i:51068250 original size:21 final size:21
Alignment explanation
Indices: 51068226--51068268 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
51068216 TGCTCATTAA
51068226 ACTT-ATTAATAAAATATATAT
1 ACTTGATT-ATAAAATATATAT
* *
51068247 ACTTGATTTTCAAATATATAT
1 ACTTGATTATAAAATATATAT
51068268 A
1 A
51068269 ATATTTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
ACTTGATTATAAAATATATAT
Found at i:51068452 original size:41 final size:41
Alignment explanation
Indices: 51068378--51068486 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
51068368 ACCGACTTTT
* * * * *
51068378 AGCCTGCTAGAC-TTATAGTCCGAATAATTTCACTGGCATGA
1 AGCCTGCTAGACAATA-AGTCTGAATTATATCACTGGCATCA
*
51068419 AGCCTGCTAGGCAATGAA-TCTGAATTATATCACTGGCATCA
1 AGCCTGCTAGACAAT-AAGTCTGAATTATATCACTGGCATCA
51068460 AGCCTGCTAGACAATAAGTCTGAATTA
1 AGCCTGCTAGACAATAAGTCTGAATTA
51068487 CATTCGATCA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.03
41 53 0.91
42 2 0.03
43 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACAATAAGTCTGAATTATATCACTGGCATCA
Found at i:51073379 original size:23 final size:22
Alignment explanation
Indices: 51073345--51073389 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
51073335 AATAGGTTTT
* * *
51073345 GCATGTATAACATGTATGGTTC
1 GCATGAATAACATATAAGGTTC
51073367 GCATGAATAAACATATAAGGTTC
1 GCATGAAT-AACATATAAGGTTC
51073390 ACACATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (22 bp):
GCATGAATAACATATAAGGTTC
Found at i:51073595 original size:29 final size:29
Alignment explanation
Indices: 51073551--51073628 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 29
51073541 GTTTTCATTC
*
51073551 ATAATGGTTT-GCATACAAGGGTTCGCCT
1 ATAAGGGTTTCGCATACAAGGGTTCGCCT
* * *
51073579 ATAGGGGTTTCGCATACATGGGTTCTCCT
1 ATAAGGGTTTCGCATACAAGGGTTCGCCT
51073608 ATAAGGG-TTCGCATACAAGGG
1 ATAAGGGTTTCGCATACAAGGG
51073629 GGTCATACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 21 0.49
29 22 0.51
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (29 bp):
ATAAGGGTTTCGCATACAAGGGTTCGCCT
Found at i:51073627 original size:14 final size:14
Alignment explanation
Indices: 51073556--51073628 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
51073546 CATTCATAAT
*
51073556 GGTTTGCATACAAG
1 GGTTCGCATACAAG
* * *
51073570 GGTTCGCCTATAGG
1 GGTTCGCATACAAG
*
51073584 GGTTTCGCATACATG
1 GG-TTCGCATACAAG
* * *
51073599 GGTTCTCCTATAAG
1 GGTTCGCATACAAG
51073613 GGTTCGCATACAAG
1 GGTTCGCATACAAG
51073627 GG
1 GG
51073629 GGTCATACAT
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
14 33 0.75
15 11 0.25
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (14 bp):
GGTTCGCATACAAG
Found at i:51073714 original size:15 final size:15
Alignment explanation
Indices: 51073694--51073727 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
51073684 TTTAGATCCC
*
51073694 ACACCTGATTTGAGG
1 ACACCTGATTTGAAG
51073709 ACACCTGATTTGAAG
1 ACACCTGATTTGAAG
51073724 ACAC
1 ACAC
51073728 AAAAAACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (15 bp):
ACACCTGATTTGAAG
Found at i:51082456 original size:20 final size:20
Alignment explanation
Indices: 51082431--51082468 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51082421 ATTATTTTAT
51082431 TTTATATAAATATTTGTTTC
1 TTTATATAAATATTTGTTTC
**
51082451 TTTATATTTATATTTGTT
1 TTTATATAAATATTTGTT
51082469 CGCTAACGCG
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:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTATATAAATATTTGTTTC
Found at i:51082739 original size:86 final size:85
Alignment explanation
Indices: 51082594--51082905 Score: 362
Period size: 86 Copynumber: 3.7 Consensus size: 85
51082584 TGAAAATAAA
* * * * *
51082594 AATTAAAATTGAATAAAATTTGTTTTGGGATTTATTCCCGCCGTTCAATAGATTTTATTCCTTTT
1 AATT-AAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCCTTTT
* *
51082659 TTTATTTTTTTTCTAAGCGAG
65 TTTATTTTATTTCTAAACGAG
* *
51082680 AATTAAAATTAAGTAAAATATGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATT-CTATT
1 AATT-AAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCCT-TT
* *
51082744 TTTTATTTTATTTGTAAACAAG
64 TTTTATTTTATTTCTAAACGAG
* * *
51082766 AATTAAATTAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTTAACAGATTTTATTCC-ATTT
1 AATTAAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCCTTTTT
* * *
51082830 TGATTTTGTTTCCAAACGAG
66 TTATTTTATTTCTAAACGAG
* * ** * *
51082850 AATT-AATCAAAT-AATTATGTTTCGGGATTTATTCCTACCATTTAACAAATTTTATT
1 AATTAAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATT
51082906 TTGATTTTGT
Statistics
Matches: 198, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
82 38 0.19
83 7 0.04
84 22 0.11
85 52 0.26
86 79 0.40
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (85 bp):
AATTAAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCCTTTTT
TTATTTTATTTCTAAACGAG
Found at i:51082902 original size:82 final size:80
Alignment explanation
Indices: 51082610--51082941 Score: 278
Period size: 86 Copynumber: 4.0 Consensus size: 80
51082600 AATTGAATAA
* * * * * * * *
51082610 AATT-TGTTTTGGGATTTATTCCCGCCGTTCAATAGATTTTATTCCTTTTTTTATTTTTTTTCTA
1 AATTATGTTTCGGGATTTATT-CCACCGTTTAACAGATTTTATT-C-ATTTTGATTTTGTTTCCA
* * *
51082674 AGCGAGAATTAAAATTAAGT
63 AACAAGAATT--AATTAAAT
* * * * * **
51082694 AAAATATGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCTATTTTTTATTTTATTTGT
1 -AATTATGTTTCGGGATTTATT-CCACCGTTTAACAGATTTTATTC-A-TTTTGATTTTGTTTCC
51082759 AAACAAGAATTAAATTAAAT
62 AAACAAGAATT-AATTAAAT
* *
51082779 AAAATCTGTTTCGGGATTTATTCCAGCCGTTTAACAGATTTTATTCCATTTTGATTTTGTTTCCA
1 -AATTATGTTTCGGGATTTATTCCA-CCGTTTAACAGATTTTATT-CATTTTGATTTTGTTTCCA
* *
51082844 AACGAGAATTAATCAAAT
63 AACAAGAATTAATTAAAT
* *
51082862 AATTATGTTTCGGGATTTATTCCTACCATTTAACA-A-ATT-TT-ATTTTGATTTTGTTTCCAAA
1 AATTATGTTTCGGGATTTATTCC-ACCGTTTAACAGATTTTATTCATTTTGATTTTGTTTCCAAA
*
51082923 CAAGATTTAATTAAAT
65 CAAGAATTAATTAAAT
51082939 AAT
1 AAT
51082942 CCAAGTTATA
Statistics
Matches: 217, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
77 36 0.17
79 2 0.01
80 2 0.01
81 1 0.00
82 30 0.14
83 8 0.04
84 24 0.11
85 53 0.24
86 61 0.28
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.46
Consensus pattern (80 bp):
AATTATGTTTCGGGATTTATTCCACCGTTTAACAGATTTTATTCATTTTGATTTTGTTTCCAAAC
AAGAATTAATTAAAT
Found at i:51082941 original size:77 final size:81
Alignment explanation
Indices: 51082698--51082941 Score: 255
Period size: 85 Copynumber: 3.0 Consensus size: 81
51082688 TTAAGTAAAA
* * * * * * **
51082698 TATGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCTATTTTTTATTTTATTTGTAAAC
1 TATGTTTCGGGATTTATTCCAGCCATTTAACAGATATTATTC-A-TTTTGATTTTGTTTCCAAAC
* *
51082763 AAGAATTAAATTAAATAAAA
64 AAG-ATTTAATTAAAT-AAT
* * * *
51082783 TCTGTTTCGGGATTTATTCCAGCCGTTTAACAGATTTTATTCCATTTTGATTTTGTTTCCAAACG
1 TATGTTTCGGGATTTATTCCAGCCATTTAACAGATATTATT-CATTTTGATTTTGTTTCCAAACA
* *
51082848 AGAATTAATCAAATAAT
65 AGATTTAATTAAATAAT
51082865 TATGTTTCGGGATTTATTCCTA-CCATTTAACA-A-ATT-TT-ATTTTGATTTTGTTTCCAAACA
1 TATGTTTCGGGATTTATTCC-AGCCATTTAACAGATATTATTCATTTTGATTTTGTTTCCAAACA
51082925 AGATTTAATTAAATAAT
65 AGATTTAATTAAATAAT
51082942 CCAAGTTATA
Statistics
Matches: 139, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
77 36 0.26
79 2 0.01
80 2 0.01
81 1 0.01
82 30 0.22
83 10 0.07
84 18 0.13
85 39 0.28
86 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (81 bp):
TATGTTTCGGGATTTATTCCAGCCATTTAACAGATATTATTCATTTTGATTTTGTTTCCAAACAA
GATTTAATTAAATAAT
Found at i:51083910 original size:28 final size:28
Alignment explanation
Indices: 51083835--51084084 Score: 244
Period size: 28 Copynumber: 9.0 Consensus size: 28
51083825 GACCATGTGT
* *
51083835 CCCCTATTTATTAGAGTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
* * * * *
51083863 TCCCCTA-CTTTAAAATTTTTACAGTTTTA
1 -CCCCTATTTTTTAGA-TTTTACAATTTTG
*
51083892 CCCCTATTTTTCTA-ATTTTATAATTTT-
1 CCCCTATTTTT-TAGATTTTACAATTTTG
* *
51083919 CACCTATTTTTTAAATTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
* *
51083947 CTCATATTTTTTAGATTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
51083975 CCCCCTATTTTTTAGATTTTACAATATTT-
1 -CCCCTATTTTTTAGATTTTACAAT-TTTG
* * *
51084004 CTCAT-TTTTTTAAATTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
*
51084031 CCCATATTTTTTAGATTTTA-AAGTTTTG
1 CCCCTATTTTTTAGATTTTACAA-TTTTG
*
51084059 CCCTTA-TTTTTAGATTTTACAATTTT
1 CCCCTATTTTTTAGATTTTACAATTTT
51084085 ACCCAAAATT
Statistics
Matches: 186, Mismatches: 24, Indels: 24
0.79 0.10 0.10
Matches are distributed among these distances:
26 5 0.03
27 62 0.33
28 73 0.39
29 42 0.23
30 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (28 bp):
CCCCTATTTTTTAGATTTTACAATTTTG
Found at i:51083980 original size:84 final size:83
Alignment explanation
Indices: 51083879--51084081 Score: 279
Period size: 84 Copynumber: 2.4 Consensus size: 83
51083869 ACTTTAAAAT
* * * *
51083879 TTTTACAGTTTTACCCCTATTTTTCTA-ATTTTATAAT-TTTCACCTATTTTTTAAATTTTACAA
1 TTTTACAATTTTGCCCCTATTTTT-TAGATTTTACAATATTTCACAT-TTTTTTAAATTTTACAA
*
51083942 TTTTGCTCATATTTTTTAGA
64 TTTTGCCCATATTTTTTAGA
*
51083962 TTTTACAATTTTGCCCCCTATTTTTTAGATTTTACAATATTTCTCATTTTTTTAAATTTTACAAT
1 TTTTACAATTTTG-CCCCTATTTTTTAGATTTTACAATATTTCACATTTTTTTAAATTTTACAAT
51084027 TTTGCCCATATTTTTTAGA
65 TTTGCCCATATTTTTTAGA
*
51084046 TTTTA-AAGTTTTGCCCTTA-TTTTTAGATTTTACAAT
1 TTTTACAA-TTTTGCCCCTATTTTTTAGATTTTACAAT
51084082 TTTACCCAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
82 17 0.16
83 20 0.18
84 66 0.61
85 6 0.06
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.56
Consensus pattern (83 bp):
TTTTACAATTTTGCCCCTATTTTTTAGATTTTACAATATTTCACATTTTTTTAAATTTTACAATT
TTGCCCATATTTTTTAGA
Found at i:51084070 original size:55 final size:55
Alignment explanation
Indices: 51083879--51084089 Score: 207
Period size: 55 Copynumber: 3.8 Consensus size: 55
51083869 ACTTTAAAAT
* * * * * *
51083879 TTTTACAGTTTTACCCCTATTTTTCTAATTTTATAATTTT-CACC-TATTTTTTAAA
1 TTTTACAATTTTGCCCTTATTTTT-AAATTTTACAATTTTGC-CCATATTTTTTAGA
* * * *
51083934 TTTTACAATTTTGCTCATATTTTTTAGATTTTACAATTTTGCCCCCTATTTTTTAGA
1 TTTTACAATTTTGCCCTTA-TTTTTAAATTTTACAATTTTG-CCCATATTTTTTAGA
*
51083991 TTTTACAATATTT-CTCATT-TTTTTAAATTTTACAATTTTGCCCATATTTTTTAGA
1 TTTTACAAT-TTTGC-CCTTATTTTTAAATTTTACAATTTTGCCCATATTTTTTAGA
* *
51084046 TTTTA-AAGTTTTGCCCTTATTTTTAGATTTTACAATTTTACCCA
1 TTTTACAA-TTTTGCCCTTATTTTTAAATTTTACAATTTTGCCCA
51084090 AAATTTTAAG
Statistics
Matches: 131, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
54 8 0.06
55 71 0.54
56 27 0.21
57 21 0.16
58 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (55 bp):
TTTTACAATTTTGCCCTTATTTTTAAATTTTACAATTTTGCCCATATTTTTTAGA
Found at i:51084681 original size:46 final size:45
Alignment explanation
Indices: 51084562--51084685 Score: 169
Period size: 45 Copynumber: 2.7 Consensus size: 45
51084552 GCAATTTGTC
* **
51084562 TGCACTGTTTAGTGGTTTATCCACACCATATTAGCAACTTTTATT
1 TGCACTGATTAGTGGTTTATCCACACTGTATTAGCAACTTTTATT
*
51084607 TGCACTGATTAGCGGTTTATCCACACTGTATTAGCAACTTTTATT
1 TGCACTGATTAGTGGTTTATCCACACTGTATTAGCAACTTTTATT
* *
51084652 TGCA-TCGAATTAGTGGTTTACCCTCACTGTATTA
1 TGCACT-G-ATTAGTGGTTTATCCACACTGTATTA
51084686 TTAGTTTTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 46 0.66
46 23 0.33
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (45 bp):
TGCACTGATTAGTGGTTTATCCACACTGTATTAGCAACTTTTATT
Found at i:51100935 original size:51 final size:52
Alignment explanation
Indices: 51100880--51101073 Score: 204
Period size: 51 Copynumber: 3.8 Consensus size: 52
51100870 ATGTGAAAGT
* *
51100880 GAAAGTGAT-GGTCACGA-GTGTAGTACTGTGTGCAGGCTACTACGTGTACCA
1 GAAAGTGATAGGTCAC-ATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * *
51100931 GAAA--GATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCG
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * * **
51100981 GATAGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTG
1 GAAAG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* *
51101032 GATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
51101074 TGTGAACTCG
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
49 4 0.03
50 39 0.33
51 75 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (52 bp):
GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
Found at i:51101169 original size:42 final size:42
Alignment explanation
Indices: 51101082--51101422 Score: 381
Period size: 42 Copynumber: 8.1 Consensus size: 42
51101072 TATGTGAACT
*
51101082 CGTATCATTGATTATAAGGTGGTTGTTAAGTGCTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
* * * *
51101124 CGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCC-C
1 CGTATCATTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCAC
* *
51101166 CGTATCATTGATTATAAGGTGGTTGTTAAGTGTTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
* * * *
51101208 CGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCC-C
1 CGTATCATTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCAC
*
51101250 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAT
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
* *
51101292 CGTATCCTTGATTGTGAAAGG-GGTTGCTATA-TGCTGATTCC-C
1 CGTATCATTGATTAT--AAGGTGGTTGCTA-AGTGCTGATTCCAC
51101334 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
* * ** *
51101376 CGGGATCCTTTGAACATGAGGTGGTTGCTAAGTGCTGATTCCAC
1 C-GTAT-CATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
51101420 CGT
1 CGT
51101423 GTAATGGTTA
Statistics
Matches: 254, Mismatches: 29, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
40 13 0.05
41 54 0.21
42 83 0.33
43 57 0.22
44 47 0.19
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (42 bp):
CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
Found at i:51101223 original size:84 final size:84
Alignment explanation
Indices: 51101082--51101377 Score: 538
Period size: 84 Copynumber: 3.5 Consensus size: 84
51101072 TATGTGAACT
*
51101082 CGTATCATTGATTATAAGGTGGTTGTTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
51101147 TTGCTATGTGTTGATTCCC
66 TTGCTATGTGTTGATTCCC
* *
51101166 CGTATCATTGATTATAAGGTGGTTGTTAAGTGTTGATTCCACCGTATCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
51101231 TTGCTATGTGTTGATTCCC
66 TTGCTATGTGTTGATTCCC
*
51101250 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCATCGTATCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
* *
51101315 TTGCTATATGCTGATTCCC
66 TTGCTATGTGTTGATTCCC
51101334 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCG
51101378 GGATCCTTTG
Statistics
Matches: 205, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 205 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.38
Consensus pattern (84 bp):
CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
TTGCTATGTGTTGATTCCC
Found at i:51112267 original size:22 final size:22
Alignment explanation
Indices: 51112228--51112269 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
51112218 ATTTTAAATA
* *
51112228 GTGTGTTTATTGGGTCCTAATG
1 GTGTATTTATTGGATCCTAATG
*
51112250 GTGTATTTATTGTATCCTAA
1 GTGTATTTATTGGATCCTAA
51112270 GAGTACCAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.48
Consensus pattern (22 bp):
GTGTATTTATTGGATCCTAATG
Found at i:51115076 original size:19 final size:19
Alignment explanation
Indices: 51115052--51115166 Score: 140
Period size: 19 Copynumber: 5.8 Consensus size: 19
51115042 AATCTTCAGG
51115052 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
51115071 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
51115090 AATATATAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
51115109 GATATATAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
51115128 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
51115150 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
51115167 GATTTAATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
19 63 0.76
20 3 0.04
22 8 0.10
23 9 0.11
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:51115827 original size:22 final size:23
Alignment explanation
Indices: 51115764--51115842 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 23
51115754 TCATATACGC
* *
51115764 ATATTTATTTTTTCTAGTAT-AAT
1 ATATTTATTTTATCTA-TATGTAT
* *
51115787 ATAATTATTTT-TTTATATGTA-
1 ATATTTATTTTATCTATATGTAT
51115808 ATTATTT-TTTTATCTATATGTAT
1 A-TATTTATTTTATCTATATGTAT
51115831 ATATTTATTTTA
1 ATATTTATTTTA
51115843 GTATACATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
21 8 0.17
22 22 0.48
23 16 0.35
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (23 bp):
ATATTTATTTTATCTATATGTAT
Found at i:51121088 original size:19 final size:19
Alignment explanation
Indices: 51121060--51121170 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
51121050 AATCTTCAGG
*
51121060 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
51121079 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
51121098 AATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
51121117 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
51121136 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
51121155 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
51121171 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:51121110 original size:38 final size:38
Alignment explanation
Indices: 51121067--51121170 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
51121057 AGGGATATGC
*
51121067 AATCTTAGATATGATATACAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
51121105 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
51121143 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
51121171 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:51121196 original size:22 final size:21
Alignment explanation
Indices: 51121060--51121196 Score: 105
Period size: 19 Copynumber: 6.9 Consensus size: 21
51121050 AATCTTCAGG
*
51121060 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
**
51121079 GATATACAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
51121098 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
51121117 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
51121136 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
51121155 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
51121177 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
51121197 TTAATTTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
19 79 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:51121494 original size:75 final size:75
Alignment explanation
Indices: 51121377--51121529 Score: 306
Period size: 75 Copynumber: 2.0 Consensus size: 75
51121367 TACTATTTTT
51121377 TTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCACTGCGA
1 TTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCACTGCGA
51121442 ATTTTATTTA
66 ATTTTATTTA
51121452 TTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCACTGCGA
1 TTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCACTGCGA
51121517 ATTTTATTTA
66 ATTTTATTTA
51121527 TTT
1 TTT
51121530 ATTTTTATTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.46
Consensus pattern (75 bp):
TTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCACTGCGA
ATTTTATTTA
Found at i:51121935 original size:22 final size:23
Alignment explanation
Indices: 51121872--51121950 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 23
51121862 TCATATACGC
* *
51121872 ATATTTATTTTTTCTAGTAT-AAT
1 ATATTTATTTTATCTA-TATGTAT
* *
51121895 ATAATTATTTT-TTTATATGTA-
1 ATATTTATTTTATCTATATGTAT
51121916 ATTATTT-TTTTATCTATATGTAT
1 A-TATTTATTTTATCTATATGTAT
51121939 ATATTTATTTTA
1 ATATTTATTTTA
51121951 GTATACATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
21 8 0.17
22 22 0.48
23 16 0.35
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (23 bp):
ATATTTATTTTATCTATATGTAT
Found at i:51127332 original size:3 final size:3
Alignment explanation
Indices: 51127324--51127349 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51127314 ATAGTAGGGT
51127324 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
51127350 TTTTTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:51130515 original size:1 final size:1
Alignment explanation
Indices: 51130509--51130535 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
51130499 TGAGCTCCAC
51130509 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
51130536 GCTTAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:51140509 original size:21 final size:22
Alignment explanation
Indices: 51140468--51140510 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
51140458 GGTCTACTTA
51140468 TTTAAACAATAATTCAAATATT
1 TTTAAACAATAATTCAAATATT
* *
51140490 TTTAAA-AATGATTTAAATATT
1 TTTAAACAATAATTCAAATATT
51140511 ATATGTAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTAAACAATAATTCAAATATT
Found at i:51148769 original size:27 final size:27
Alignment explanation
Indices: 51148719--51148808 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 27
51148709 ATCATGGTAT
* *
51148719 GCCACTAAGGCAACCCATTCAGAGTAC
1 GCCACAAAAGCAACCCATTCAGAGTAC
* * * *
51148746 GTCACAAAAGCAATCCATTTAGAGTAT
1 GCCACAAAAGCAACCCATTCAGAGTAC
* *** *
51148773 GCCACAAAAGTAGTTCTTTCAGAGTAC
1 GCCACAAAAGCAACCCATTCAGAGTAC
51148800 GCCA-AAAAG
1 GCCACAAAAG
51148809 GTTATTCATA
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 5 0.10
27 45 0.90
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (27 bp):
GCCACAAAAGCAACCCATTCAGAGTAC
Found at i:51152186 original size:172 final size:171
Alignment explanation
Indices: 51151871--51152210 Score: 581
Period size: 172 Copynumber: 2.0 Consensus size: 171
51151861 TTACTTAAAC
* * * *
51151871 ACAATAAATAATTCAGTGATTTTATCACAAACATATAAACAACGTCCACACACTTAAAATGTACA
1 ACAACAAATAATTCAGGGATTTTATCACAAACATATAAACAACCTCCACACACTTAAAATATACA
*
51151936 TTGTCCTCAATGTAGAAACATATATAAGCACAAAATAAGAAAAATATCAAAAGAGAGGGAGACAA
66 TTGTCCTCAATGTAAAAACATATATAAGCACAAAATAAGAAAAATATCAAAAGAGAGGGAGACAA
51152001 CTGAAACTACCCTGAATATGGATGAAATTGCTAGAATATAA
131 CTGAAACTACCCTGAATATGGATGAAATTGCTAGAATATAA
* * *
51152042 ACAACAAATAATTTAGGGATTTTATCACAAACATATAAACAACCTCCCCACACTTAAACTATACA
1 ACAACAAATAATTCAGGGATTTTATCACAAACATATAAACAACCTCCACACACTTAAAATATACA
*
51152107 TTGTCCTCAATGTAAAAAACATATATAAGCACAAAATAAGCAAAATATCAAAAGAGAGGGAGACA
66 TTGTCCTCAATGT-AAAAACATATATAAGCACAAAATAAGAAAAATATCAAAAGAGAGGGAGACA
*
51152172 ATTGAAACTACCCTGAATATGGATGAAATTGCTAGAATA
130 ACTGAAACTACCCTGAATATGGATGAAATTGCTAGAATA
51152211 GAGAAAACCA
Statistics
Matches: 158, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
171 71 0.45
172 87 0.55
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (171 bp):
ACAACAAATAATTCAGGGATTTTATCACAAACATATAAACAACCTCCACACACTTAAAATATACA
TTGTCCTCAATGTAAAAACATATATAAGCACAAAATAAGAAAAATATCAAAAGAGAGGGAGACAA
CTGAAACTACCCTGAATATGGATGAAATTGCTAGAATATAA
Found at i:51152719 original size:19 final size:20
Alignment explanation
Indices: 51152683--51152720 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
51152673 AATTATAGTA
*
51152683 AAACTAATAGTTATAATAAT
1 AAACTAATAGTAATAATAAT
51152703 AAACTAA-AGTAATAATAA
1 AAACTAATAGTAATAATAA
51152721 GTATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAACTAATAGTAATAATAAT
Found at i:51157300 original size:28 final size:28
Alignment explanation
Indices: 51157260--51157316 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
51157250 ACTTTTAAAG
51157260 TCTGAGAAATTATGCTTAATTACATGAT
1 TCTGAGAAATTATGCTTAATTACATGAT
*
51157288 TCTGTGAAATTATGCTTAATTACATGAT
1 TCTGAGAAATTATGCTTAATTACATGAT
51157316 T
1 T
51157317 TTTGTACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (28 bp):
TCTGAGAAATTATGCTTAATTACATGAT
Found at i:51163743 original size:7 final size:7
Alignment explanation
Indices: 51163720--51163777 Score: 64
Period size: 7 Copynumber: 8.3 Consensus size: 7
51163710 TGAGCTTGAA
51163720 TTTAAGG
1 TTTAAGG
51163727 TTT-AGTG
1 TTTAAG-G
51163734 TTTAAGG
1 TTTAAGG
51163741 TTTAAGG
1 TTTAAGG
*
51163748 TTTATGG
1 TTTAAGG
* *
51163755 TTTGATG
1 TTTAAGG
*
51163762 TTTGAGG
1 TTTAAGG
51163769 TTTAAGG
1 TTTAAGG
51163776 TT
1 TT
51163778 CATGGTTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 2 0.05
7 39 0.91
8 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (7 bp):
TTTAAGG
Found at i:51163756 original size:28 final size:27
Alignment explanation
Indices: 51163720--51163791 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
51163710 TGAGCTTGAA
*
51163720 TTTAAGGTTTAGTGTTTAAGGTTTAAGG
1 TTTATGGTTT-GTGTTTAAGGTTTAAGG
*
51163748 TTTATGGTTTGATGTTTGAGGTTTAAGG
1 TTTATGGTTTG-TGTTTAAGGTTTAAGG
*
51163776 TTCATGGTTTGGTGTT
1 TTTATGGTTT-GTGTT
51163792 CGGGGTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 37 0.95
29 1 0.03
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (27 bp):
TTTATGGTTTGTGTTTAAGGTTTAAGG
Found at i:51163798 original size:28 final size:28
Alignment explanation
Indices: 51163738--51163798 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
51163728 TTAGTGTTTA
* *
51163738 AGGTTTAAGGTTTATGGTTTGATGTTTG
1 AGGTTTAAGGTTCATGGTTTGATGTTCG
*
51163766 AGGTTTAAGGTTCATGGTTTGGTGTTCG
1 AGGTTTAAGGTTCATGGTTTGATGTTCG
*
51163794 GGGTT
1 AGGTT
51163799 CAAAGTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.15, C:0.03, G:0.36, T:0.46
Consensus pattern (28 bp):
AGGTTTAAGGTTCATGGTTTGATGTTCG
Found at i:51169703 original size:16 final size:15
Alignment explanation
Indices: 51169665--51169703 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
51169655 TTACTTTTAA
51169665 AAAAATTAAAAAACT
1 AAAAATTAAAAAACT
*
51169680 ATATAATTAAAAAAGCT
1 A-AAAATTAAAAAA-CT
51169697 AAAAATT
1 AAAAATT
51169704 CCAAAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.80
17 3 0.15
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATTAAAAAACT
Found at i:51169905 original size:19 final size:20
Alignment explanation
Indices: 51169863--51169902 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
51169853 CACACATATA
*
51169863 TATACCATTGTTAAGACTTT
1 TATACCATAGTTAAGACTTT
51169883 TATACCATAGTTAAGACTTT
1 TATACCATAGTTAAGACTTT
51169903 ATAATTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (20 bp):
TATACCATAGTTAAGACTTT
Found at i:51171104 original size:20 final size:20
Alignment explanation
Indices: 51171066--51171113 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
51171056 TCAACCTTTT
51171066 AAATATAATTTAAAACTAAAG
1 AAATA-AATTTAAAACTAAAG
* * *
51171087 TAATAAATTTGAATCTAAAG
1 AAATAAATTTAAAACTAAAG
51171107 AAATAAA
1 AAATAAA
51171114 AAACAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATAAATTTAAAACTAAAG
Found at i:51177601 original size:23 final size:23
Alignment explanation
Indices: 51177571--51177627 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
51177561 ATGTGAGCCA
51177571 TGTAACAGGAAGCTTATCTGGGC
1 TGTAACAGGAAGCTTATCTGGGC
51177594 TGTAACAGGAAGCTTATCTGGGC
1 TGTAACAGGAAGCTTATCTGGGC
*
51177617 TATAACAGGAA
1 TGTAACAGGAA
51177628 ACTCATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (23 bp):
TGTAACAGGAAGCTTATCTGGGC
Found at i:51183477 original size:16 final size:18
Alignment explanation
Indices: 51183456--51183490 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
51183446 TTAAATTAAT
51183456 TAATTTTCT-AA-CCAAA
1 TAATTTTCTCAACCCAAA
51183472 TAATTTTCTCAACCCAAA
1 TAATTTTCTCAACCCAAA
51183490 T
1 T
51183491 CTAATTCCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATTTTCTCAACCCAAA
Found at i:51184428 original size:41 final size:40
Alignment explanation
Indices: 51184383--51184522 Score: 129
Period size: 41 Copynumber: 3.5 Consensus size: 40
51184373 CGCAATAAGA
*
51184383 AAAGCAATAACGACGTTTATGAGAAAAACGCCATAAAAGGT
1 AAAGCAATAGCGACGTTTATGA-AAAAACGCCATAAAAGGT
* * * * ** * * * *
51184424 AAAGCAGTAGTGACATTTTTCTCATAATCGCTACAAAAGGT
1 AAAGCAATAGCGACGTTTAT-GAAAAAACGCCATAAAAGGT
* *
51184465 AAAGCAATAGCGGCGTTTATGAAAAAACGCCGCT-AAAGGT
1 AAAGCAATAGCGACGTTTATGAAAAAACGCC-ATAAAAGGT
51184505 AAAGCAATAGCGACGTTT
1 AAAGCAATAGCGACGTTT
51184523 TGCCCATAAA
Statistics
Matches: 73, Mismatches: 24, Indels: 5
0.72 0.24 0.05
Matches are distributed among these distances:
40 29 0.40
41 44 0.60
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAGCAATAGCGACGTTTATGAAAAAACGCCATAAAAGGT
Found at i:51184531 original size:81 final size:82
Alignment explanation
Indices: 51184383--51184541 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 82
51184373 CGCAATAAGA
* * * *
51184383 AAAGCAATAACGACGTTTATGAGAAAAACGCCATAAAAGGTAAAGCAGTAGTGACATTTTTCTCA
1 AAAGCAATAACGACGTTTATGAGAAAAACGCCATAAAAGGTAAAGCAATAGCGACATTTTGCCCA
* *
51184448 TAATCGCTACAAAAGGT
66 TAAACGCCACAAAAGGT
* * * *
51184465 AAAGCAATAGCGGCGTTTATGA-AAAAACGCCGCT-AAAGGTAAAGCAATAGCGACGTTTTGCCC
1 AAAGCAATAACGACGTTTATGAGAAAAACGCC-ATAAAAGGTAAAGCAATAGCGACATTTTGCCC
51184528 ATAAACGCCACAAA
65 ATAAACGCCACAAA
51184542 TATCCTTTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
81 45 0.68
82 21 0.32
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (82 bp):
AAAGCAATAACGACGTTTATGAGAAAAACGCCATAAAAGGTAAAGCAATAGCGACATTTTGCCCA
TAAACGCCACAAAAGGT
Found at i:51184880 original size:2 final size:2
Alignment explanation
Indices: 51184873--51184903 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
51184863 ACAACGCAAA
51184873 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
51184904 CAAGCGAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:51186235 original size:20 final size:20
Alignment explanation
Indices: 51186210--51186249 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
51186200 GCAGTATTTC
*
51186210 TTGTTTTGTGCTGTCAGTGT
1 TTGTTTTGTGCTATCAGTGT
51186230 TTGTTTTGTGCTATCAGTGT
1 TTGTTTTGTGCTATCAGTGT
51186250 GAAAGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.28, T:0.55
Consensus pattern (20 bp):
TTGTTTTGTGCTATCAGTGT
Found at i:51188941 original size:42 final size:42
Alignment explanation
Indices: 51188889--51189003 Score: 106
Period size: 43 Copynumber: 2.7 Consensus size: 42
51188879 ATCTGCTAAA
*
51188889 TTTAGTGGCGTTTTCTCACAAACGCCGCTATAA-AACATGATC
1 TTTAGCGGCGTTTTCTCACAAACGCCGCTA-AAGAACATGATC
* * * * * *
51188931 TTTAGCGGCGTTTTTATGAGAAGCGCCGCTAAAGACCATGCTC
1 TTTAGCGGCG-TTTTCTCACAAACGCCGCTAAAGAACATGATC
* *
51188974 TATAGCGGCATTTTCTCACATAAACGCCGC
1 TTTAGCGGCGTTTTCTCAC--AAACGCCGC
51189004 AAAATTTAGC
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 17 0.30
43 31 0.55
44 8 0.14
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTTCTCACAAACGCCGCTAAAGAACATGATC
Found at i:51189380 original size:20 final size:19
Alignment explanation
Indices: 51189340--51189380 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
51189330 ACATATTAGT
**
51189340 TTTTCAATTGGTTTGCTCA
1 TTTTCAATTGGTTTGAGCA
51189359 TTTTCAATTGGGTTTGAGCA
1 TTTTCAATT-GGTTTGAGCA
51189379 TT
1 TT
51189381 AAAATTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.17, C:0.12, G:0.20, T:0.51
Consensus pattern (19 bp):
TTTTCAATTGGTTTGAGCA
Found at i:51190301 original size:21 final size:21
Alignment explanation
Indices: 51190277--51190316 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
51190267 ACTCTTGGAA
*
51190277 GAGGAAGAGGAGGAGGAAGTG
1 GAGGAAGAAGAGGAGGAAGTG
51190298 GAGGAAGAAGAGGAGGAAG
1 GAGGAAGAAGAGGAGGAAG
51190317 AGTCGGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (21 bp):
GAGGAAGAAGAGGAGGAAGTG
Found at i:51190315 original size:12 final size:12
Alignment explanation
Indices: 51190280--51190317 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
51190270 CTTGGAAGAG
*
51190280 GAAGAGGAGGAG
1 GAAGAGGAGGAA
*
51190292 GAAGTGGAGGAA
1 GAAGAGGAGGAA
51190304 GAAGAGGAGGAA
1 GAAGAGGAGGAA
51190316 GA
1 GA
51190318 GTCGGAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.03
Consensus pattern (12 bp):
GAAGAGGAGGAA
Found at i:51201908 original size:26 final size:26
Alignment explanation
Indices: 51201857--51201918 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
51201847 TACCTATAGT
*
51201857 AGTTTCAAAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
51201883 AGTTTTAGAATATCATAGCA-AGTATC
1 AGTTTCAGAATATCATAACATA-TATC
51201909 AGTTTCAGAA
1 AGTTTCAGAA
51201919 AACTTACAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:51205431 original size:63 final size:63
Alignment explanation
Indices: 51205332--51205460 Score: 197
Period size: 63 Copynumber: 2.0 Consensus size: 63
51205322 CAACCTGATT
* ** *
51205332 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGTGCCTCATT-CTCGATGTGGTAAGAA
1 TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCACCTCATTCCT-GATGTGATAAGAA
*
51205395 TATAACTTAAATTTGGTAATTTAAAATCTATTAAGATGCACCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCACCTCATTCCTGATGTGATAAGAA
51205458 TAT
1 TAT
51205461 CTCCATGTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 58 0.97
64 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCACCTCATTCCTGATGTGATAAGAA
Found at i:51205848 original size:12 final size:12
Alignment explanation
Indices: 51205831--51205855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51205821 TTATTTTGTG
51205831 TGTGTATATATA
1 TGTGTATATATA
51205843 TGTGTATATATA
1 TGTGTATATATA
51205855 T
1 T
51205856 ATCTAAAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TGTGTATATATA
Found at i:51207174 original size:23 final size:23
Alignment explanation
Indices: 51207148--51207269 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
51207138 ATAAGTGCAA
*
51207148 CACTGATATGTAGCCGAAGCTTC
1 CACTGATATGTAGCCGAAGCTAC
51207171 CACT-ATTATGTAGCCGAAGCTAC
1 CACTGA-TATGTAGCCGAAGCTAC
*
51207194 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
51207217 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
51207240 CACTGAAACGTAGCCGAAGCGAC
1 CACTGATATGTAGCCGAAGCTAC
51207263 CACTGAT
1 CACTGAT
51207270 CAATAACATT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
22 1 0.01
23 86 0.98
24 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:51207267 original size:46 final size:46
Alignment explanation
Indices: 51207148--51207267 Score: 195
Period size: 46 Copynumber: 2.6 Consensus size: 46
51207138 ATAAGTGCAA
* * *
51207148 CACTGATATGTAGCCGAAGCTTCCACTATTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
51207194 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
* *
51207240 CACTGAAACGTAGCCGAAGCGACCACTG
1 CACTGAAATGTAGCCGAAGCTACCACTG
51207268 ATCAATAACA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
Found at i:51209253 original size:16 final size:16
Alignment explanation
Indices: 51209229--51209293 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
51209219 CTGATTGCAA
51209229 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
* * *
51209245 TTTTATTCCATTACAA
1 CTCTATTCCATTACAG
*
51209261 CTCTATTCCATTATAG
1 CTCTATTCCATTACAG
51209277 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
51209293 C
1 C
51209294 GAACCAAGCG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.42
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:51209264 original size:32 final size:32
Alignment explanation
Indices: 51209226--51209291 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
51209216 TTACTGATTG
* *
51209226 CAACTCTATTCCATTACAGTTTTATTCCATTA
1 CAACTCTATTCCATTACAGCTCTATTCCATTA
*
51209258 CAACTCTATTCCATTATAGCTCTATTCCATTA
1 CAACTCTATTCCATTACAGCTCTATTCCATTA
51209290 CA
1 CA
51209292 GCGAACCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (32 bp):
CAACTCTATTCCATTACAGCTCTATTCCATTA
Found at i:51218007 original size:25 final size:26
Alignment explanation
Indices: 51217948--51218010 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
51217938 ATACATGTAT
51217948 GCTCATACGAGC--AATAAACGGTAA
1 GCTCATACGAGCTGAATAAACGGTAA
* * * *
51217972 GTTCCTTCGAGCTGAAT-AATGGTAA
1 GCTCATACGAGCTGAATAAACGGTAA
51217997 GCTCATACGAGCTG
1 GCTCATACGAGCTG
51218011 GGTATCGGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
24 9 0.30
25 18 0.60
26 3 0.10
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (26 bp):
GCTCATACGAGCTGAATAAACGGTAA
Found at i:51227155 original size:137 final size:136
Alignment explanation
Indices: 51226885--51227254 Score: 443
Period size: 137 Copynumber: 2.7 Consensus size: 136
51226875 GTATTCTAAG
* * ** * *
51226885 AGCTCGCAGCTCCAACATAGCTAGCAGACCTACGCTCCTAATTGATGTTATAAAGTTTTGTCGGT
1 AGCTCGCAGCTCC-ACACAGCTAGGA-ACCTACGCTCCTAGCTGATGTTATAAAGGTTTGTCAGT
** * *
51226950 TTACAATTGCAACCTCCAAAAATAGCTAGTGGACCTACACTCCCAACTAGTAATCTAAGAGCTCG
64 TTATGATTGCAACCTCCAAAAATAGCTAGCGGACCTACACTCCCAACTAGTAATCTAAAAGCTCG
51227015 TAGAGTTA
129 TAGAGTTA
*
51227023 AGCTCGCAGCTCCACACAGCTAGTGAACCTACACTCCTAGCTGATGTTATAAAGGTTTGTCAGTT
1 AGCTCGCAGCTCCACACAGCTAG-GAACCTACGCTCCTAGCTGATGTTATAAAGGTTTGTCAGTT
* * ** * * *
51227088 TATGGTTGCAACCTCCAAAAATAGCTAGCGGACCTACGCTCCCAGTTGGTATTCTAAAAGCTTGT
65 TATGATTGCAACCTCCAAAAATAGCTAGCGGACCTACACTCCCAACTAGTAATCTAAAAGCTCGT
51227153 AGAGTTA
130 AGAGTTA
* * * * * * *
51227160 AGCTTGCAGCTCTTACACAGGTAGCGGACCTATGCTCCCAGCTGATGTTATAAAGGTTTGCCAGT
1 AGCTCGCAGCTC-CACACAGCTAG-GAACCTACGCTCCTAGCTGATGTTATAAAGGTTTGTCAGT
* * *
51227225 TTATGATCGTAACCTACAAAAATAGCTAGC
64 TTATGATTGCAACCTCCAAAAATAGCTAGC
51227255 CGAGCTGATA
Statistics
Matches: 199, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
137 115 0.58
138 84 0.42
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (136 bp):
AGCTCGCAGCTCCACACAGCTAGGAACCTACGCTCCTAGCTGATGTTATAAAGGTTTGTCAGTTT
ATGATTGCAACCTCCAAAAATAGCTAGCGGACCTACACTCCCAACTAGTAATCTAAAAGCTCGTA
GAGTTA
Found at i:51227459 original size:17 final size:17
Alignment explanation
Indices: 51227437--51227562 Score: 137
Period size: 17 Copynumber: 7.4 Consensus size: 17
51227427 AAATCCACCC
* *
51227437 AAGTTCAGAACTTGCTT
1 AAGTTCAAAATTTGCTT
* *
51227454 AAGTTCAAAATATCCTT
1 AAGTTCAAAATTTGCTT
51227471 AAGTTCAAAATTTGCTT
1 AAGTTCAAAATTTGCTT
*
51227488 AAGTCCAAAATTTG-TT
1 AAGTTCAAAATTTGCTT
51227504 GAAAGTTCAAAATTTGCTT
1 --AAGTTCAAAATTTGCTT
* *
51227523 AAGTTCAAGATTTGATT
1 AAGTTCAAAATTTGCTT
* *
51227540 AAATTCAAAAATTGCTT
1 AAGTTCAAAATTTGCTT
*
51227557 GAGTTC
1 AAGTTC
51227563 GTAGAAAGAT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
16 2 0.02
17 73 0.81
18 13 0.14
19 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (17 bp):
AAGTTCAAAATTTGCTT
Found at i:51227549 original size:52 final size:53
Alignment explanation
Indices: 51227454--51227558 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 53
51227444 GAACTTGCTT
* * *
51227454 AAGTTCAAAATATCCTTAAGTTCAAAATTTGCTTAAGTCCAAAATTTG-TTGA
1 AAGTTCAAAATATCCTTAAGTTCAAAATTTGATTAAATCCAAAAATTGCTTGA
* * * *
51227506 AAGTTCAAAATTTGCTTAAGTTCAAGATTTGATTAAATTCAAAAATTGCTTGA
1 AAGTTCAAAATATCCTTAAGTTCAAAATTTGATTAAATCCAAAAATTGCTTGA
51227559 GTTCGTAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 41 0.91
53 4 0.09
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (53 bp):
AAGTTCAAAATATCCTTAAGTTCAAAATTTGATTAAATCCAAAAATTGCTTGA
Found at i:51232622 original size:24 final size:24
Alignment explanation
Indices: 51232590--51232635 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
51232580 TGTAAATGAA
51232590 ATATATGTAATTGCAAAAACTGAG
1 ATATATGTAATTGCAAAAACTGAG
51232614 ATATATGTAATTGCAAAAACTG
1 ATATATGTAATTGCAAAAACTG
51232636 TTAAAGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (24 bp):
ATATATGTAATTGCAAAAACTGAG
Found at i:51233505 original size:27 final size:27
Alignment explanation
Indices: 51233467--51233522 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
51233457 CTTCTAGGTT
51233467 TAGACAAACACAACAAAAGAGTACACC
1 TAGACAAACACAACAAAAGAGTACACC
51233494 TAGACAAACACAACAAAAGAGTACACC
1 TAGACAAACACAACAAAAGAGTACACC
51233521 TA
1 TA
51233523 AGCACGCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.55, C:0.25, G:0.11, T:0.09
Consensus pattern (27 bp):
TAGACAAACACAACAAAAGAGTACACC
Found at i:51233853 original size:20 final size:20
Alignment explanation
Indices: 51233816--51233854 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51233806 GTCTTCTCAT
*
51233816 ATGTTTTAGAGACTTTTGGG
1 ATGTTTTAGAGACCTTTGGG
51233836 ATGTTTTAG-GAACCTTTGG
1 ATGTTTTAGAG-ACCTTTGG
51233855 ACTCTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.21, C:0.08, G:0.28, T:0.44
Consensus pattern (20 bp):
ATGTTTTAGAGACCTTTGGG
Found at i:51238134 original size:27 final size:27
Alignment explanation
Indices: 51238090--51238343 Score: 250
Period size: 27 Copynumber: 9.4 Consensus size: 27
51238080 AGCGATTCGT
* *
51238090 GGGTAAAATGATCGAAATACCTTTGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* *
51238117 GGGTAAAATGA-CAAAAATACCCCCGAA
1 GGGTAAAATGATC-GAAATACCCTCGAA
* *
51238144 GAGTAAAATGATCGAAATATCCTCGGAA
1 GGGTAAAATGATCGAAATACCCTC-GAA
* * *
51238172 GAGTAAAATGACCGAAATACCCTCAAA
1 GGGTAAAATGATCGAAATACCCTCGAA
51238199 GGGTAAAATGA-CTGAAATA-CCTCGAA
1 GGGTAAAATGATC-GAAATACCCTCGAA
* *
51238225 GGATAAAATGATCGAAATACCCTTGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* * *
51238252 GGGTAAAATAAACGAAATACCCTCGGA
1 GGGTAAAATGATCGAAATACCCTCGAA
* * *
51238279 GGGTATAGTGACCGAAATAACCC-CGAA
1 GGGTAAAATGATCGAAAT-ACCCTCGAA
*
51238306 GGGTAAAATGA-CTGAAATACCC-CCATA
1 GGGTAAAATGATC-GAAATACCCTCGA-A
51238333 GGGTAAAATGA
1 GGGTAAAATGA
51238344 CTATTATACC
Statistics
Matches: 190, Mismatches: 28, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
26 31 0.16
27 129 0.68
28 30 0.16
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.18
Consensus pattern (27 bp):
GGGTAAAATGATCGAAATACCCTCGAA
Found at i:51238559 original size:27 final size:26
Alignment explanation
Indices: 51238529--51238587 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
51238519 GTACTGGTGG
51238529 CTTTGCCAC-ATATACTGTTACTGGCAA
1 CTTTGCCACGAT-T-CTGTTACTGGCAA
** *
51238556 CTTTGCTGCGATTCTGTTACTGGCAG
1 CTTTGCCACGATTCTGTTACTGGCAA
51238582 CTTTGC
1 CTTTGC
51238588 TGCGATATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 18 0.64
27 8 0.29
28 2 0.07
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
CTTTGCCACGATTCTGTTACTGGCAA
Found at i:51238579 original size:26 final size:26
Alignment explanation
Indices: 51238543--51238593 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
51238533 GCCACATATA
51238543 CTGTTACTGGCAACTTTGCTGCGATT
1 CTGTTACTGGCAACTTTGCTGCGATT
*
51238569 CTGTTACTGGCAGCTTTGCTGCGAT
1 CTGTTACTGGCAACTTTGCTGCGAT
51238594 ATTGGTGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.37
Consensus pattern (26 bp):
CTGTTACTGGCAACTTTGCTGCGATT
Found at i:51238777 original size:33 final size:32
Alignment explanation
Indices: 51238691--51238796 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 32
51238681 TGCATTATTG
51238691 CACTGTACTGGTTAATGTATTGGGCTAAGGCCCA
1 CACTGTACT-GTT-ATGTATTGGGCTAAGGCCCA
51238725 CACTGTTAC---TAT-T-TTGGGCTAAGGCCCA
1 CACTG-TACTGTTATGTATTGGGCTAAGGCCCA
* *
51238753 CACTGTACTGTTACTGTATAGGGCTTAGGCCCA
1 CACTGTACTGTTA-TGTATTGGGCTAAGGCCCA
*
51238786 GACTGGTACTG
1 CACT-GTACTG
51238797 CATGATTACT
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
27 3 0.05
28 20 0.33
29 1 0.02
30 4 0.07
31 2 0.03
32 1 0.02
33 16 0.26
34 11 0.18
35 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (32 bp):
CACTGTACTGTTATGTATTGGGCTAAGGCCCA
Found at i:51245884 original size:48 final size:50
Alignment explanation
Indices: 51245826--51245929 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 50
51245816 CTGCATCAAT
*
51245826 TAAATATTTATATTAGCACT-AATTAAATTAAAATAAT-AAA-ATTAATAA
1 TAAATATTTATATTAGCACTAAATT-AATTAAAATAATAAAAGATAAATAA
* * * * **
51245874 TAAATGTTTATTTTATCTCTAAATTAATTAATTTAATAAAAGATAAATAA
1 TAAATATTTATATTAGCACTAAATTAATTAAAATAATAAAAGATAAATAA
51245924 TAAATA
1 TAAATA
51245930 AAAGAGTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
48 26 0.58
49 7 0.16
50 12 0.27
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (50 bp):
TAAATATTTATATTAGCACTAAATTAATTAAAATAATAAAAGATAAATAA
Found at i:51250489 original size:6 final size:6
Alignment explanation
Indices: 51250478--51250506 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51250468 ATTATCGGTA
51250478 AATCCT AATCCT AATCCT AATCCT AATCC
1 AATCCT AATCCT AATCCT AATCCT AATCC
51250507 ATATCCATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (6 bp):
AATCCT
Found at i:51252558 original size:12 final size:12
Alignment explanation
Indices: 51252541--51252566 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51252531 ACAAAGGTAC
51252541 TTGTCTCAGGGT
1 TTGTCTCAGGGT
51252553 TTGTCTCAGGGT
1 TTGTCTCAGGGT
51252565 TT
1 TT
51252567 TTCCCACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTGTCTCAGGGT
Found at i:51256743 original size:11 final size:11
Alignment explanation
Indices: 51256717--51256790 Score: 64
Period size: 11 Copynumber: 6.9 Consensus size: 11
51256707 AAATTTTAAA
*
51256717 AATATTTTTTT
1 AATAATTTTTT
* *
51256728 TATAATTCTTT
1 AATAATTTTTT
**
51256739 AATAATAATTT
1 AATAATTTTTT
51256750 AAT-ATTTTTT
1 AATAATTTTTT
*
51256760 AA-ACTTTTTTT
1 AATA-ATTTTTT
51256771 AATAATTTTTT
1 AATAATTTTTT
51256782 AA-AATTTTT
1 AATAATTTTT
51256791 ATATATAGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
10 14 0.28
11 35 0.70
12 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
AATAATTTTTT
Found at i:51256757 original size:44 final size:43
Alignment explanation
Indices: 51256697--51256783 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
51256687 AGCAAGTAAT
* *
51256697 TAATATTTTAAAATTTTAAAAATATTTTTTTTATAATTCTTTAA
1 TAATAATTTAAAATTTTAAAAA-ATTTTTTTAATAATTCTTTAA
* ** * *
51256741 TAATAATTTAATATTTTTTAAACTTTTTTTAATAATTTTTTAA
1 TAATAATTTAAAATTTTAAAAAATTTTTTTAATAATTCTTTAA
51256784 AATTTTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 18 0.50
44 18 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (43 bp):
TAATAATTTAAAATTTTAAAAAATTTTTTTAATAATTCTTTAA
Found at i:51256771 original size:21 final size:22
Alignment explanation
Indices: 51256702--51256790 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 22
51256692 GTAATTAATA
**
51256702 TTTTAA-AATTTTAAAAATATTT
1 TTTTAATAATTTTTTAAA-ATTT
* * *
51256724 TTTTTATAATTCTTTAATAA-TA
1 TTTTAATAATTTTTTAA-AATTT
* *
51256746 ATTTAAT-ATTTTTTAAACTTT
1 TTTTAATAATTTTTTAAAATTT
51256767 TTTTAATAATTTTTTAAAATTT
1 TTTTAATAATTTTTTAAAATTT
51256789 TT
1 TT
51256791 ATATATAGAC
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
20 1 0.02
21 15 0.29
22 26 0.51
23 8 0.16
24 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAATAATTTTTTAAAATTT
Found at i:51260343 original size:13 final size:13
Alignment explanation
Indices: 51260325--51260352 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51260315 TGCAAATCAG
51260325 TTTTGAGTGACTA
1 TTTTGAGTGACTA
51260338 TTTTGAGTGACTA
1 TTTTGAGTGACTA
51260351 TT
1 TT
51260353 GTAATGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (13 bp):
TTTTGAGTGACTA
Found at i:51260589 original size:18 final size:18
Alignment explanation
Indices: 51260566--51260600 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
51260556 ATTGGTTAAA
51260566 ATAAAAATAATTAAATTC
1 ATAAAAATAATTAAATTC
51260584 ATAAAAATAATTAAATT
1 ATAAAAATAATTAAATT
51260601 ATATATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAAATAATTAAATTC
Found at i:51260599 original size:26 final size:26
Alignment explanation
Indices: 51260563--51260637 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 26
51260553 AGCATTGGTT
*
51260563 AAAATAA--AAATAATTA-AATTCATA
1 AAAATAATTAAATAA-TATAATTAATA
* * *
51260587 AAAATAATTAAATTATATATTTAATT
1 AAAATAATTAAATAATATAATTAATA
* *
51260613 AAAATAATTAAATTATATATTTAAT
1 AAAATAATTAAATAATATAATTAAT
51260638 TATTAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.16
25 2 0.05
26 35 0.80
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (26 bp):
AAAATAATTAAATAATATAATTAATA
Found at i:51260610 original size:13 final size:12
Alignment explanation
Indices: 51260597--51260640 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
51260587 AAAATAATTA
51260597 AATTATATATTT
1 AATTATATATTT
* *
51260609 AATTAAAATAATTA
1 AATT-ATAT-ATTT
51260623 AATTATATATTT
1 AATTATATATTT
51260635 AATTAT
1 AATTAT
51260641 TAAATATCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 13 0.50
13 6 0.23
14 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTATATATTT
Found at i:51260638 original size:26 final size:26
Alignment explanation
Indices: 51260587--51260639 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
51260577 TAAATTCATA
51260587 AAAATAATTAAATTATATATTTAATT
1 AAAATAATTAAATTATATATTTAATT
51260613 AAAATAATTAAATTATATATTTAATT
1 AAAATAATTAAATTATATATTTAATT
51260639 A
1 A
51260640 TTAAATATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAATAATTAAATTATATATTTAATT
Found at i:51260762 original size:138 final size:138
Alignment explanation
Indices: 51260613--51260886 Score: 487
Period size: 138 Copynumber: 2.0 Consensus size: 138
51260603 ATATTTAATT
* *
51260613 AAAATAATTAAA-TTATATATTTAATTATTAAATATCGTTTAATAATTACAAAGTCTTTAGTTTT
1 AAAATAATTAAATTTATA-ATTTAATTATTAAATACCGTTTAATAATTACAAAGTCTTCAGTTTT
* *
51260677 AATTAAAAAAATATTGTTTTAATTAACTGTAATGAATATTAATAATAAATATGGAAACAACAAAA
65 AATTAAAAAAATATTGTTTTAATTAAATGTAATGAATATTAATAATAAATAGGGAAACAACAAAA
51260742 TTTGAAATG
130 TTTGAAATG
51260751 AAAATAATTAAATTTATAATTTAATTATTAAATACCGTTTAATAATTACAAAGTCTTCAGTTTTA
1 AAAATAATTAAATTTATAATTTAATTATTAAATACCGTTTAATAATTACAAAGTCTTCAGTTTTA
*
51260816 ATTAACAAAATATTGTTTTAATTAAATGTAATGAATATTAATAATAAATAGGGAAACAACAAAAT
66 ATTAAAAAAATATTGTTTTAATTAAATGTAATGAATATTAATAATAAATAGGGAAACAACAAAAT
51260881 TTGAAA
131 TTGAAA
51260887 AAAATCTAAA
Statistics
Matches: 130, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
138 125 0.96
139 5 0.04
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (138 bp):
AAAATAATTAAATTTATAATTTAATTATTAAATACCGTTTAATAATTACAAAGTCTTCAGTTTTA
ATTAAAAAAATATTGTTTTAATTAAATGTAATGAATATTAATAATAAATAGGGAAACAACAAAAT
TTGAAATG
Found at i:51261250 original size:23 final size:20
Alignment explanation
Indices: 51261194--51261233 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
51261184 AAGATAATTT
51261194 TAAGTTCTATATTTTTCTTC
1 TAAGTTCTATATTTTTCTTC
51261214 TAAGTTCTATATTTTTCTTC
1 TAAGTTCTATATTTTTCTTC
51261234 GTAAAGATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.60
Consensus pattern (20 bp):
TAAGTTCTATATTTTTCTTC
Found at i:51262924 original size:49 final size:48
Alignment explanation
Indices: 51262851--51262953 Score: 143
Period size: 49 Copynumber: 2.1 Consensus size: 48
51262841 TCATGTGTTA
* * *
51262851 TAATTTTATAAAGTGTTGAGCTTTTGATCCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATCCATGATATTAAACTTAA-TT
* **
51262900 TAATTTTATAAAGTGTTCACCTTTTGGTTTATGATATTAAACTTAATT
1 TAATTTTATAAAGTGTTCACCTTTTGATCCATGATATTAAACTTAATT
51262948 TAATTT
1 TAATTT
51262954 GTTTTTTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 8 0.17
49 40 0.83
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (48 bp):
TAATTTTATAAAGTGTTCACCTTTTGATCCATGATATTAAACTTAATT
Found at i:51264438 original size:28 final size:27
Alignment explanation
Indices: 51264389--51264464 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 27
51264379 TTCATATAAG
* *
51264389 AATAATTA-TATTGAATTTTATTAAAT
1 AATAATTATTATTAAATTATATTAAAT
* * * *
51264415 TATATGTTTTTATTAAATTATATTTAAT
1 AATA-ATTATTATTAAATTATATTAAAT
51264443 AATAATTATT-TTAAATTATATT
1 AATAATTATTATTAAATTATATT
51264465 TATAGTATTA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 15 0.38
27 6 0.15
28 18 0.46
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
AATAATTATTATTAAATTATATTAAAT
Found at i:51264529 original size:15 final size:16
Alignment explanation
Indices: 51264501--51264530 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51264491 TAAATTCATG
51264501 TAAGAATATTTAATAT
1 TAAGAATATTTAATAT
51264517 TAAGAAT-TTTAATA
1 TAAGAATATTTAATA
51264531 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (16 bp):
TAAGAATATTTAATAT
Found at i:51264576 original size:26 final size:28
Alignment explanation
Indices: 51264546--51264602 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 28
51264536 TATATTTTTA
51264546 TTAAATTATATTTAATA-ATAA-ATATT
1 TTAAATTATATTTAATAGATAATATATT
*
51264572 TTAAATTATATTTTATAGTATAATATATT
1 TTAAATTATATTTAATAG-ATAATATATT
51264601 TT
1 TT
51264603 GATTTTAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 16 0.59
28 4 0.15
29 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
TTAAATTATATTTAATAGATAATATATT
Found at i:51264646 original size:120 final size:120
Alignment explanation
Indices: 51264341--51265055 Score: 1262
Period size: 120 Copynumber: 6.0 Consensus size: 120
51264331 TAGATTATAT
* *
51264341 ATTAT-TTTTATAGTATTATATATTGTGATTTTAGTAAATTCATATAAGAATAATT-ATATT--G
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
51264402 AATTTTATTAAATTATATGTTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
51264457 ATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTCATGTAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
51264521 AATTTTAATAAATTATATATTTTTATTAAATTATATTTAATAATAAATATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
* *
51264576 ATTATATTTTATAGTATAATATATTTTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
51264641 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAAATATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
51264696 ATTATATTTTATAGTATTATATATTTTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
51264761 AATTTTATTAAATCATATATTTTTATTAAATTATATTTAATAATTATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
51264816 ATTATATTTTATATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
51264881 AATTTTA-TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
51264935 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
51265000 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
51265055 A
1 A
51265056 ATATGATTAA
Statistics
Matches: 573, Mismatches: 20, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
116 51 0.09
117 5 0.01
119 175 0.31
120 342 0.60
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:51264797 original size:16 final size:17
Alignment explanation
Indices: 51264763--51264798 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
51264753 ATATTAAGAA
51264763 TTTTATTAAATCATATAT
1 TTTTATTAAAT-ATATAT
51264781 TTTTATTAAAT-TATAT
1 TTTTATTAAATATATAT
51264797 TT
1 TT
51264799 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
18 11 0.61
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:51264815 original size:26 final size:25
Alignment explanation
Indices: 51264786--51264835 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
51264776 TATATTTTTA
51264786 TTAAATTATATTTAATAATTATTATT
1 TTAAATTATATTTAAT-ATTATTATT
*
51264812 TTAAATTATATTTTATATTATTAT
1 TTAAATTATATTTAATATTATTAT
51264836 ATATTATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAAATTATATTTAATATTATTATT
Found at i:51264916 original size:239 final size:240
Alignment explanation
Indices: 51264341--51265055 Score: 1262
Period size: 239 Copynumber: 3.0 Consensus size: 240
51264331 TAGATTATAT
* *
51264341 ATTAT-TTTTATAGTATTATATATTGTGATTTTAGTAAATTCATATAAGAATAATT-ATATT--G
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
51264402 AATTTTATTAAATTATATGTTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTT
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
* *
51264466 ATAGTATTATATATTATGATTTTAGTAAATTCATGTAAGAATATTTAATATTAAGAATTTTAATA
131 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
*
51264531 AATTATATATTTTTATTAAATTATATTTAATAATAAATATTTTAA
196 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
* *
51264576 ATTATATTTTATAGTATAATATATTTTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
51264641 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAAATATTTTAAATTATATTTT
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
*
51264706 ATAGTATTATATATTTTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
131 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
* *
51264771 AATCATATATTTTTATTAAATTATATTTAATAATTATTATTTTAA
196 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
51264816 ATTATATTTTATATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
51264881 AATTTTA-TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
51264945 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
131 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
*
51265010 AATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
196 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
51265055 A
1 A
51265056 ATATGATTAA
Statistics
Matches: 456, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
235 5 0.01
236 47 0.10
237 5 0.01
239 223 0.49
240 176 0.39
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (240 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:51265002 original size:359 final size:355
Alignment explanation
Indices: 51264341--51265055 Score: 1270
Period size: 359 Copynumber: 2.0 Consensus size: 355
51264331 TAGATTATAT
51264341 ATTATTTTTATAGTATTATATATTGTGATTTTAGTAAATTCATATAAGAATAATTATATTGAATT
1 ATTATTTTTATAGTATTATATATTGTGATTTTAGTAAATTCATATAAGAATAATTATATTGAATT
* *
51264406 TTATTAAATTATATGTTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTATAGT
66 TTATTAAATCATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTATAGT
*
51264471 ATTATATATTATGATTTTAGTAAATTCATGTAAGAATATTTAATATTAAGAATTTTAATAAATTA
131 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAATAAATTA
51264536 TATATTTTTATTAAATTATATTTAATAATAAATATTTTAAATTATATTTTATAGTATAATATATT
196 TATATTTTTATTAAATTATATTTAATAATAAATATTTTAAATTATATTTTATAGTATAATATATT
*
51264601 TTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
261 ATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
*
51264666 TTAAATTATATTTAATAATAAATATTTTAA
326 TTAAATTATATTTAATAATAAATATGTTAA
* *
51264696 ATTATATTTTATAGTATTATATATTTTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTAT-TTTTATAGTATTATATATTGTGATTTTAGTAAATTCATATAAGAATAATT-ATATT--G
*
51264761 AATTTTATTAAATCATATATTTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTT
62 AATTTTATTAAATCATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTT
*
51264826 ATATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT-ATA
126 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAATA
* *
51264890 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
191 AATTATATATTTTTATTAAATTATATTTAATAATAAATATTTTAAATTATATTTTATAGTATAAT
51264955 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
256 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
51265020 TTTTATTAAATTATATTTAATAATAATTATGTTAA
321 TTTTATTAAATTATATTTAATAATAAATATGTTAA
51265055 A
1 A
51265056 ATATGATTAA
Statistics
Matches: 343, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
355 5 0.01
356 48 0.14
357 5 0.01
359 223 0.65
360 62 0.18
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (355 bp):
ATTATTTTTATAGTATTATATATTGTGATTTTAGTAAATTCATATAAGAATAATTATATTGAATT
TTATTAAATCATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTATAGT
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAATAAATTA
TATATTTTTATTAAATTATATTTAATAATAAATATTTTAAATTATATTTTATAGTATAATATATT
ATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
TTAAATTATATTTAATAATAAATATGTTAA
Found at i:51265321 original size:16 final size:16
Alignment explanation
Indices: 51265275--51265322 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
51265265 CTATTACGCA
*
51265275 TCTATTCCATTACACC
1 TCTATTCCATTACAGC
51265291 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
51265307 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
51265323 GAACCAAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.38
Consensus pattern (16 bp):
TCTATTCCATTACAGC
Found at i:51269778 original size:44 final size:44
Alignment explanation
Indices: 51269715--51269805 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
51269705 ATATGTTAAA
*
51269715 TAATATTAAAATAACCTACATTAATCAAAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAAC
* * *
51269759 TAATATTAAAATAATCTACACTGATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAAC
51269803 TAA
1 TAA
51269806 AAACATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAAC
Found at i:51272327 original size:114 final size:112
Alignment explanation
Indices: 51272134--51272696 Score: 367
Period size: 114 Copynumber: 4.9 Consensus size: 112
51272124 AAAAATGTTA
* * * * * * * **
51272134 ACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTAGTTAAAAACGCCGC
1 ACCAAAACGCAG-AGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTTG-GAAAAGTGCCGC
** * * *
51272198 TAAAGTATAAAATTAGCGGCGATTTTCTAGAATCACCGCAAGATATGCAC
64 TAAAG-ATACTATTAGCGGCGCTTTTCTAGAAGCGCCGCAAGATATGCAC
* *
51272248 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCGTTTGGAGAAGTGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGC-TTTGGAAAAGTGCCGCT
* * ** * * *
51272313 AAAGAGTATTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATAT-TTCTTA-
65 AAAGA-TACTATTAGCGGCGCTTTTCTAGAAGCGCCGCAAGATATGC--AC
* * * * * *** *
51272362 ACCAAAACTCA-ACGTTTTGGTCTTGATGTATAATATAATTCGTGGCGCTTACAATAAAATGCCG
1 ACCAAAACGCAGA-G-TTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTTGGA-AAAGTGCCG
* *
51272426 CTAAATATCAGTATTAGCGGCGC-TTTC-AGTTAAGCGCCGCAAGATATGCAC
63 CTAAAGAT-ACTATTAGCGGCGCTTTTCTAG--AAGCGCCGCAAGATATGCAC
*
51272477 ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATTGGAAAACGT--CG
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGC-T-TTGGAAAA-GTGCCG
**
51272540 CTAAAGTATACTATTAGCGGCGCTTTAT-TAGAAGCGCCGCAAGATATATTA-
63 CTAAAG-ATACTATTAGCGGCGCTTT-TCTAGAAGCGCCGCAAGATAT-GCAC
* * * ** * * * **
51272591 ACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCG-TTCACGAGAAA-TCGCC
1 ACCAAAACGCAGAGTTT-GGTCTTGAGGTATATTAGAATTAGTGGCGCTT-TGGA-AAAGT-GCC
* * * *
51272654 GCTAAATCATATTATTAGCGGCGCTTTTTTATAAGCGCCGCAA
62 GCTAAA-GATACTATTAGCGGCGCTTTTCTAGAAGCGCCGCAA
51272697 AAGATCTTTA
Statistics
Matches: 352, Mismatches: 67, Indels: 59
0.74 0.14 0.12
Matches are distributed among these distances:
112 2 0.01
113 37 0.11
114 153 0.43
115 151 0.43
116 9 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (112 bp):
ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTTGGAAAAGTGCCGCTA
AAGATACTATTAGCGGCGCTTTTCTAGAAGCGCCGCAAGATATGCAC
Found at i:51272691 original size:229 final size:228
Alignment explanation
Indices: 51272131--51272696 Score: 587
Period size: 229 Copynumber: 2.5 Consensus size: 228
51272121 TCAAAAAATG
* ** * * ** *
51272131 TTAACCAAAACGCAGCGGTTT-GGTCTCGATGTATAATACAATTAGTGGCG-TTA-GTTAAAAAC
1 TTAACCAAAACGCAAC-GTTTAAATCTTGATGTATAATAGAATTAGTGGCGCTTACAATAAAATC
* * * * *
51272193 GCCGCTAAAGTATAAAATTAGCGGCGATTTTCTAGAATCACCGCAAGATATGCACACCAAAACGC
65 GCCGCTAAA-TATAATATTAGCGGCGCTTTTCTATAAGCGCCGCAAGATATGCACACCAAAACGC
* * * *
51272258 AGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCGTTTGGAGAAGTGCCGCTAAAGAGTATT
129 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGAAAAGT-CCGCTAAAGAGTACT
* * * *
51272323 ATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTC
193 ATTAGCGGCGCGTTTGGAGAAGCGCCGCAAGATATA
* *** * *
51272359 TTAACCAAAACTCAACGTTTTGGTCTTGATGTATAATATAATTCGTGGCGCTTACAATAAAAT-G
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCGCTTACAATAAAATCG
*
51272423 CCGCTAAATATCAGTATTAGCGGCGC-TTTC-AGTTAAGCGCCGCAAGATATGCACACCAAAACG
66 CCGCTAAATAT-AATATTAGCGGCGCTTTTCTA--TAAGCGCCGCAAGATATGCACACCAAAACG
*
51272486 CAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATTGGAAAACGT-CGCTAAAGTA-T
128 CAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGT-TTGGAAAA-GTCCGCTAAAG-AGT
**
51272549 ACTATTAGCGGCGC-TTTATTAGAAGCGCCGCAAGATATA
190 ACTATTAGCGGCGCGTTT-GGAGAAGCGCCGCAAGATATA
* ** * * * *
51272588 TTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCG-TTCACGA-GAAATC
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCGCTT-ACAATAAAATC
* *
51272651 GCCGCTAAATCATATTATTAGCGGCGCTTTTTTATAAGCGCCGCAA
65 GCCGCTAAAT-ATAATATTAGCGGCGCTTTTCTATAAGCGCCGCAA
51272697 AAGATCTTTA
Statistics
Matches: 283, Mismatches: 40, Indels: 29
0.80 0.11 0.08
Matches are distributed among these distances:
227 5 0.02
228 56 0.20
229 201 0.71
230 18 0.06
231 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (228 bp):
TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCGCTTACAATAAAATCG
CCGCTAAATATAATATTAGCGGCGCTTTTCTATAAGCGCCGCAAGATATGCACACCAAAACGCAG
AGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGAAAAGTCCGCTAAAGAGTACTATT
AGCGGCGCGTTTGGAGAAGCGCCGCAAGATATA
Found at i:51273066 original size:21 final size:21
Alignment explanation
Indices: 51273038--51273092 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
51273028 GGGTTATGGT
* *
51273038 GTTTTGGGTTTAAGGTTTAGAA
1 GTTTGGGGTTTAAGATTTAG-A
*
51273060 GTTTGGGGTTTAAGATTTAGG
1 GTTTGGGGTTTAAGATTTAGA
51273081 GTTTGGGGTTTA
1 GTTTGGGGTTTA
51273093 GACAGCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (21 bp):
GTTTGGGGTTTAAGATTTAGA
Found at i:51273498 original size:14 final size:17
Alignment explanation
Indices: 51273464--51273499 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
51273454 TATAATACAT
51273464 TAATTGAATAATATAAA
1 TAATTGAATAATATAAA
51273481 TAATT-AATAAT-T-AA
1 TAATTGAATAATATAAA
51273495 TAATT
1 TAATT
51273500 TTAAATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 6 0.32
17 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAATTGAATAATATAAA
Found at i:51274328 original size:44 final size:44
Alignment explanation
Indices: 51274265--51274351 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
51274255 TCTTGCGTCC
* *
51274265 TTCTTGGCCAATTTCTTGAATTCAC-AAATCCGTAAATCGCCTCA
1 TTCTTGGCCAATTTCTTGAAATC-CGAAATCCCTAAATCGCCTCA
51274309 TTCTT-GCCGAATTTCTTGAAATCCGAAATCCCTAAATCGCCTC
1 TTCTTGGCC-AATTTCTTGAAATCCGAAATCCCTAAATCGCCTC
51274352 CTTCCTCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 4 0.10
44 35 0.90
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (44 bp):
TTCTTGGCCAATTTCTTGAAATCCGAAATCCCTAAATCGCCTCA
Found at i:51276078 original size:35 final size:35
Alignment explanation
Indices: 51275991--51276071 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
51275981 TAAAGTTATA
* *
51275991 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
1 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
51276026 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
51276061 TTTTAAATATT
1 TTTTAAATATT
51276072 AAATTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTGAATCACGAATAT
Found at i:51276121 original size:18 final size:17
Alignment explanation
Indices: 51276090--51276145 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
51276080 TTAAAGTTCA
51276090 AATTTCATAACTTACGT
1 AATTTCATAACTTACGT
* *
51276107 AATTTACATATCTTACAT
1 AATTT-CATAACTTACGT
51276125 AA-TTCATAACTTACGT
1 AATTTCATAACTTACGT
51276141 AATTT
1 AATTT
51276146 AAATTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.36
17 9 0.27
18 12 0.36
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTCATAACTTACGT
Found at i:51276165 original size:29 final size:33
Alignment explanation
Indices: 51276095--51276167 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 33
51276085 GTTCAAATTT
*
51276095 CATAACTTACGTAATTTACATATCTTACATAATT
1 CATAACTTACGTAATTTACATATCTTA-ATAATA
51276129 CATAACTTACGTAATTTA-A-AT-TT-ATAATA
1 CATAACTTACGTAATTTACATATCTTAATAATA
51276158 CATAACTTAC
1 CATAACTTAC
51276168 ATAACTTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
29 15 0.39
31 2 0.05
32 2 0.05
33 1 0.03
34 18 0.47
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (33 bp):
CATAACTTACGTAATTTACATATCTTAATAATA
Found at i:51276263 original size:23 final size:22
Alignment explanation
Indices: 51276213--51276413 Score: 74
Period size: 24 Copynumber: 9.3 Consensus size: 22
51276203 ATAAAAATTG
51276213 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
51276236 CTACATACATAAGCTTACAT---
1 ATACATACATAA-CTTACATAAC
*
51276256 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
* * * *
51276277 TTAAATTTAGCA-ATCATATCATAAC
1 ATACA--TA-CATAACTTA-CATAAC
* *
51276302 TTACATACATAA-TTA-GT-A-
1 ATACATACATAACTTACATAAC
*
51276320 AT-CATATCACAACTTACATAACC
1 ATACATA-CATAACTTACATAA-C
* *
51276343 A-ACATA-ATGACTTACATAATA
1 ATACATACATAACTTACATAA-C
*
51276364 ATCTACATA-ATAACTTACATAATA
1 A--TACATACATAACTTACATAA-C
51276388 ATACATA-ATAA--TACATAAC
1 ATACATACATAACTTACATAAC
51276407 ATACATA
1 ATACATA
51276414 AATTAAATAA
Statistics
Matches: 138, Mismatches: 20, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
17 4 0.03
18 11 0.08
19 19 0.14
20 11 0.08
21 15 0.11
22 22 0.16
23 19 0.14
24 26 0.19
25 11 0.08
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:51276361 original size:12 final size:11
Alignment explanation
Indices: 51276344--51276397 Score: 56
Period size: 12 Copynumber: 4.7 Consensus size: 11
51276334 TACATAACCA
51276344 ACATAATGACTT
1 ACATAAT-ACTT
*
51276356 ACATAATAATCT
1 ACATAATACT-T
51276368 ACATAATAACTT
1 ACATAAT-ACTT
*
51276380 ACATAATA-AT
1 ACATAATACTT
51276390 ACATAATA
1 ACATAATA
51276398 ATACATAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 9 0.24
11 3 0.08
12 23 0.62
13 2 0.05
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (11 bp):
ACATAATACTT
Found at i:51276371 original size:24 final size:22
Alignment explanation
Indices: 51276330--51276414 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 22
51276320 ATCATATCAC
**
51276330 AACTTACATAACCA-ACATAAT
1 AACTTACATAATAATACATAAT
*
51276351 GACTTACATAATAATCTACATAAT
1 AACTTACATAATAA--TACATAAT
51276375 AACTTACATAATAATACATAAT
1 AACTTACATAATAATACATAAT
*
51276397 AA--TACATAA-CATACATAA
1 AACTTACATAATAATACATAA
51276415 ATTAAATAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 8 0.14
20 7 0.12
21 11 0.20
22 10 0.18
24 20 0.36
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (22 bp):
AACTTACATAATAATACATAAT
Found at i:51276394 original size:10 final size:10
Alignment explanation
Indices: 51276355--51276414 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 10
51276345 CATAATGACT
51276355 TACATAATAA
1 TACATAATAA
51276365 TCTACATAATAA
1 --TACATAATAA
51276377 CTTACATAATAA
1 --TACATAATAA
51276389 TACATAATAA
1 TACATAATAA
*
51276399 TACATAA-CA
1 TACATAATAA
51276408 TACATAA
1 TACATAA
51276415 ATTAAATAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
9 8 0.18
10 17 0.38
12 20 0.44
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (10 bp):
TACATAATAA
Found at i:51276463 original size:34 final size:33
Alignment explanation
Indices: 51276420--51276563 Score: 86
Period size: 34 Copynumber: 4.5 Consensus size: 33
51276410 CATAAATTAA
*
51276420 ATAAGTTACATAATACACAAAAACAAAAACTTAC
1 ATAACTTACATAATAC-CAAAAACAAAAACTTAC
* * * ***
51276454 ATAACTTACATAATATCCTACATC-CCTACTTAC
1 ATAACTTACATAATA-CCAAAAACAAAAACTTAC
** * *
51276487 ATAA--TA-ATACATACC--GTACATAAA-TTAA
1 ATAACTTACATA-ATACCAAAAACAAAAACTTAC
* *
51276515 ATAAGTTACATAATAAACAAAAACAAAAACTTAC
1 ATAACTTACATAAT-ACCAAAAACAAAAACTTAC
51276549 ATAACTTACATAATA
1 ATAACTTACATAATA
51276564 ACTTACATAA
Statistics
Matches: 80, Mismatches: 20, Indels: 21
0.66 0.17 0.17
Matches are distributed among these distances:
28 8 0.10
29 1 0.01
30 9 0.11
31 10 0.12
33 17 0.21
34 34 0.43
35 1 0.01
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (33 bp):
ATAACTTACATAATACCAAAAACAAAAACTTAC
Found at i:51276499 original size:95 final size:95
Alignment explanation
Indices: 51276367--51276629 Score: 397
Period size: 95 Copynumber: 2.8 Consensus size: 95
51276357 CATAATAATC
* *
51276367 TACATAATAACTTACATAATAA--TACATAATAATACATAACATACATAAATTAAATAAGTTACA
1 TACATAATAACCTACATAATAACTTACATAATAATACATACCATACATAAATTAAATAAGTTACA
51276430 TAATACACAAAAACAAAAACTTACATAACT
66 TAATACACAAAAACAAAAACTTACATAACT
* ** *
51276460 TACATAATATCCTACATCCCT-ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTAC
1 TACATAATAACCTACAT-AATAACTTACATAATAATACATACCATACATAAATTAAATAAGTTAC
*
51276524 ATAATAAACAAAAACAAAAACTTACATAACT
65 ATAATACACAAAAACAAAAACTTACATAACT
* * *
51276555 TACATAATAACTTACATAATAACTTACATAATAATGCATACCCTACATAAATTAAATAAGTTACA
1 TACATAATAACCTACATAATAACTTACATAATAATACATACCATACATAAATTAAATAAGTTACA
*
51276620 CAATACACAA
66 TAATACACAA
51276630 TAAGGTTAAA
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
93 16 0.11
94 2 0.01
95 133 0.88
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.27
Consensus pattern (95 bp):
TACATAATAACCTACATAATAACTTACATAATAATACATACCATACATAAATTAAATAAGTTACA
TAATACACAAAAACAAAAACTTACATAACT
Found at i:51276589 original size:15 final size:12
Alignment explanation
Indices: 51276549--51276588 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
51276539 AAAAACTTAC
51276549 ATAACTTACATA
1 ATAACTTACATA
51276561 ATAACTTACATA
1 ATAACTTACATA
51276573 ATAACTTACATA
1 ATAACTTACATA
51276585 ATAA
1 ATAA
51276589 TGCATACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:51276690 original size:19 final size:19
Alignment explanation
Indices: 51276660--51276726 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
51276650 AACCTACATA
51276660 ATAACTTACATAATAATAC
1 ATAACTTACATAATAATAC
51276679 AT-ACTCTACATAATAATAC
1 ATAACT-TACATAATAATAC
*
51276698 ATAACTTAC---ATAAGAC
1 ATAACTTACATAATAATAC
51276714 ATAACTTACATAA
1 ATAACTTACATAA
51276727 GTTTCATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 15 0.36
18 3 0.07
19 21 0.50
20 3 0.07
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAACTTACATAATAATAC
Found at i:51276707 original size:9 final size:9
Alignment explanation
Indices: 51276660--51276760 Score: 72
Period size: 9 Copynumber: 11.4 Consensus size: 9
51276650 AACCTACATA
51276660 ATAACTTAC
1 ATAACTTAC
51276669 ATAA-TAATAC
1 ATAACT--TAC
51276679 AT-ACTCTAC
1 ATAACT-TAC
51276688 ATAA-TAATAC
1 ATAACT--TAC
51276698 ATAACTTAC
1 ATAACTTAC
*
51276707 ATAA--GAC
1 ATAACTTAC
51276714 ATAACTTAC
1 ATAACTTAC
* *
51276723 ATAAGTTTC
1 ATAACTTAC
51276732 ATAA--TAC
1 ATAACTTAC
*
51276739 ACAACTTAC
1 ATAACTTAC
51276748 ATAACTTAC
1 ATAACTTAC
51276757 ATAA
1 ATAA
51276761 GACATAACTT
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
7 11 0.15
8 1 0.01
9 46 0.63
10 14 0.19
11 1 0.01
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:51276710 original size:16 final size:16
Alignment explanation
Indices: 51276691--51276771 Score: 76
Period size: 16 Copynumber: 4.9 Consensus size: 16
51276681 ACTCTACATA
51276691 ATAATACATAACTTAC
1 ATAATACATAACTTAC
*
51276707 ATAAGACATAACTTAC
1 ATAATACATAACTTAC
*
51276723 ATAAGTTTCATAA--TAC
1 ATAA--TACATAACTTAC
*
51276739 ACAACTTACATAACTTAC
1 ATAA--TACATAACTTAC
*
51276757 ATAAGACATAACTTA
1 ATAATACATAACTTA
51276772 TTCCTAAATC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
16 42 0.79
18 11 0.21
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (16 bp):
ATAATACATAACTTAC
Found at i:51276734 original size:25 final size:25
Alignment explanation
Indices: 51276695--51276771 Score: 118
Period size: 25 Copynumber: 3.1 Consensus size: 25
51276685 TACATAATAA
51276695 TACATAACTTACATAAGACATAACT
1 TACATAACTTACATAAGACATAACT
* * * *
51276720 TACATAAGTTTCATAATACACAACT
1 TACATAACTTACATAAGACATAACT
51276745 TACATAACTTACATAAGACATAACT
1 TACATAACTTACATAAGACATAACT
51276770 TA
1 TA
51276772 TTCCTAAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAAGACATAACT
Done.