Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 264 of 427
Found at i:76078956 original size:46 final size:46
Alignment explanation
Indices: 76078856--76079059 Score: 207
Period size: 46 Copynumber: 4.5 Consensus size: 46
76078846 TTCTATCGAG
* * * * * **
76078856 TAAGAGCATAGCTGAAAGACATTATGGCATCATG-AATCAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAAGAAAATGAA
76078901 TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAAGAAAATGAA
* * * * *
76078947 TAAGACCATAGTTGAAAAACACTAAGGCGACACGACAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAAGAAAATGAA
* * * * * * *
76078993 TTAGAACATGGTTGAAAGACACTATGACATCAAGTCAAG--AATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAAG-AAAGAAAATGAA
76079038 TAAGACCATAGTTGAAAGACAC
1 TAAGACCATAGTTGAAAGACAC
76079060 CATGAAACCC
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
45 53 0.41
46 75 0.58
47 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (46 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAAGAAAATGAA
Found at i:76080934 original size:9 final size:9
Alignment explanation
Indices: 76080919--76080966 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
76080909 TCATCATTTG
76080919 AAAAAATATT
1 AAAAAATA-T
*
76080929 AAAAATATTT
1 AAAAA-ATAT
76080939 AAAAAATAT
1 AAAAAATAT
*
76080948 AAAAAATAA
1 AAAAAATAT
76080957 AAAAAATAT
1 AAAAAATAT
76080966 A
1 A
76080967 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 20 0.61
10 11 0.33
11 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAAATAT
Found at i:76080944 original size:20 final size:21
Alignment explanation
Indices: 76080914--76080955 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
76080904 GGATGTCATC
*
76080914 ATTTGAAAAAATATTAAAAAT
1 ATTTGAAAAAATATAAAAAAT
76080935 ATTT-AAAAAATATAAAAAAT
1 ATTTGAAAAAATATAAAAAAT
76080955 A
1 A
76080956 AAAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
ATTTGAAAAAATATAAAAAAT
Found at i:76080962 original size:20 final size:20
Alignment explanation
Indices: 76080919--76080967 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
76080909 TCATCATTTG
* ***
76080919 AAAAAATATTAAAAATATTT
1 AAAAAATATAAAAAATAAAA
76080939 AAAAAATATAAAAAATAAAA
1 AAAAAATATAAAAAATAAAA
*
76080959 AAAATATAT
1 AAAAAATAT
76080968 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAAATATAAAAAATAAAA
Found at i:76081410 original size:30 final size:30
Alignment explanation
Indices: 76081359--76081459 Score: 115
Period size: 29 Copynumber: 3.5 Consensus size: 30
76081349 AAAAAAAATT
*
76081359 ATAAAAA-AT-AAAAATTA-TTAAACTTTA
1 ATAAAAATATAAAAAAATATTTAAACTTTA
76081386 ATAAAAATATAAAAAAATATTTAAACTTTA
1 ATAAAAATATAAAAAAATATTTAAACTTTA
* * *
76081416 CTAAAAAT-TAGAAAAATATATAAA-TTGTA
1 ATAAAAATATAAAAAAATATTTAAACTT-TA
76081445 A-AAAAATATAAAAAA
1 ATAAAAATATAAAAAA
76081460 CTCTAAAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
27 7 0.11
28 10 0.16
29 29 0.46
30 17 0.27
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (30 bp):
ATAAAAATATAAAAAAATATTTAAACTTTA
Found at i:76081795 original size:21 final size:20
Alignment explanation
Indices: 76081771--76081813 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
76081761 TTTTTCTATA
* *
76081771 TTTTTATAGATTTTTACACTT
1 TTTTTATAAAATTTTACA-TT
76081792 TTTTTATAAAATTTTACATT
1 TTTTTATAAAATTTTACATT
76081812 TT
1 TT
76081814 ATGTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTATAAAATTTTACATT
Found at i:76081890 original size:27 final size:29
Alignment explanation
Indices: 76081847--76081900 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 29
76081837 TTTTAATAAA
76081847 AATTAAATATTTCTTAT-A-TTTTATTAC
1 AATTAAATATTTCTTATAACTTTTATTAC
*
76081874 AATTTAATAATTT-TTATAACTTTTATT
1 AATTAAAT-ATTTCTTATAACTTTTATT
76081901 GATCTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 11 0.48
28 5 0.22
29 7 0.30
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (29 bp):
AATTAAATATTTCTTATAACTTTTATTAC
Found at i:76082221 original size:88 final size:90
Alignment explanation
Indices: 76082045--76082290 Score: 234
Period size: 88 Copynumber: 2.7 Consensus size: 90
76082035 TGCATTTTGG
* * * *
76082045 CAATTGAGTGCAAAAA-AAAAAATCATGGGCTTAATTGCT-TTTTTGAAAAAGTTTGAGGGTCTT
1 CAATTGAGT--AAAAAGAAAAAACCAGGGGCTTAGTTACTATTTTTGAAAAAGTTTGAGGG-CTT
* ** *
76082108 TTTTATGCATTTTGGCAGTTCAAGTACC
63 TTTGATGCATTTTGAAAATTCAAGTACC
* * * *
76082136 CGATTGAGT-ATAA-AAAAAACCA-GTGCTTCA-TTTCTATTTTTGAAAAAGTTTGAGGGCCTTT
1 CAATTGAGTAAAAAGAAAAAACCAGGGGCTT-AGTTACTATTTTTGAAAAAGTTTGAGGG-CTTT
* * *
76082197 TTGATGTATTTTGAAAATTTAAGTATC
64 TTGATGCATTTTGAAAATTCAAGTACC
* *
76082224 CAATTGAGTGCAAAAAGAAAAAAGCAGGGGCTTAGTTACTTTTTTTGAAAAAGTTTGAGGGCTTT
1 CAATTGAGT--AAAAAGAAAAAACCAGGGGCTTAGTTACTATTTTTGAAAAAGTTTGAGGGCTTT
76082289 TT
64 TT
76082291 ACACTCTTAA
Statistics
Matches: 128, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
87 9 0.07
88 64 0.50
91 11 0.09
92 15 0.12
93 29 0.23
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (90 bp):
CAATTGAGTAAAAAGAAAAAACCAGGGGCTTAGTTACTATTTTTGAAAAAGTTTGAGGGCTTTTT
GATGCATTTTGAAAATTCAAGTACC
Found at i:76082395 original size:19 final size:19
Alignment explanation
Indices: 76082371--76082416 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
76082361 ATTTATAAAG
*
76082371 AAAATTATATGTTTATATA
1 AAAATTAGATGTTTATATA
76082390 AAAATTTTAGATGTTTATATA
1 AAAA--TTAGATGTTTATATA
76082411 AAAATT
1 AAAATT
76082417 TTAAATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
21 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (19 bp):
AAAATTAGATGTTTATATA
Found at i:76082405 original size:21 final size:21
Alignment explanation
Indices: 76082379--76082419 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
76082369 AGAAAATTAT
76082379 ATGTTTATATAAAAATTTTAG
1 ATGTTTATATAAAAATTTTAG
76082400 ATGTTTATATAAAAATTTTA
1 ATGTTTATATAAAAATTTTA
76082420 AATATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
ATGTTTATATAAAAATTTTAG
Found at i:76082858 original size:11 final size:10
Alignment explanation
Indices: 76082838--76082892 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
76082828 TTCTAATATA
76082838 TTTTTA-AAT
1 TTTTTATAAT
76082847 TTTTTATTAA-
1 TTTTTA-TAAT
76082857 TTTTTAT-AT
1 TTTTTATAAT
76082866 TTGTTATATATAT
1 TT-TT-TATA-AT
76082879 TTTTTATAAT
1 TTTTTATAAT
76082889 TTTT
1 TTTT
76082893 CAATAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
8 1 0.03
9 9 0.23
10 14 0.36
11 9 0.23
12 2 0.05
13 4 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:76085266 original size:2 final size:2
Alignment explanation
Indices: 76085261--76085286 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76085251 GCACACACAC
76085261 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
76085287 TCATTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76086613 original size:23 final size:19
Alignment explanation
Indices: 76086571--76086609 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
76086561 CTGATAAGTA
76086571 TAAAAATGTTTGTCATGAG
1 TAAAAATGTTTGTCATGAG
76086590 TAAAAATGTTTGTCATGAG
1 TAAAAATGTTTGTCATGAG
76086609 T
1 T
76086610 GAGTCAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (19 bp):
TAAAAATGTTTGTCATGAG
Found at i:76094846 original size:17 final size:17
Alignment explanation
Indices: 76094824--76094874 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
76094814 AGTATATATG
76094824 TGATAAGGCCTAATGGC
1 TGATAAGGCCTAATGGC
**
76094841 TGATAAGAGTATATAT-G-
1 TGATAAG-GCCTA-ATGGC
76094858 TGATAAGGCCTAATGGC
1 TGATAAGGCCTAATGGC
76094875 CGATGTGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
15 2 0.08
16 4 0.15
17 14 0.54
18 4 0.15
19 2 0.08
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
TGATAAGGCCTAATGGC
Found at i:76094906 original size:49 final size:47
Alignment explanation
Indices: 76094845--76094989 Score: 236
Period size: 47 Copynumber: 3.0 Consensus size: 47
76094835 AATGGCTGAT
76094845 AAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
76094892 AGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
1 AAGAG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
76094941 AAGAGTATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGA
1 AAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
76094988 AA
1 AA
76094990 CATATGTGTG
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
47 45 0.51
49 44 0.49
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:76095035 original size:48 final size:48
Alignment explanation
Indices: 76094981--76095180 Score: 337
Period size: 48 Copynumber: 4.2 Consensus size: 48
76094971 CGATGTGATG
*
76094981 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
76095029 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
76095077 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * * *
76095125 AATGTGAAATATGTGTATGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
76095173 AATGTGAA
1 AATGTGAA
76095181 TGTTGTAACA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:76095274 original size:37 final size:37
Alignment explanation
Indices: 76095220--76095308 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
76095210 AACTTGGAAA
*
76095220 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
76095258 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
76095295 TATGTCCGGGTAAG
1 TATGTCCGGGTAAG
76095309 GCTTCGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:76097855 original size:21 final size:21
Alignment explanation
Indices: 76097827--76097890 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
76097817 TAAAGAACAT
76097827 TTACATTGCGAGAAAGATGAC
1 TTACATTGCGAGAAAGATGAC
* * * * *
76097848 TTATATTG-TAG-AGGA-CAT
1 TTACATTGCGAGAAAGATGAC
76097866 TTACATTGCGAGAAAGATGAC
1 TTACATTGCGAGAAAGATGAC
76097887 TTAC
1 TTAC
76097891 TTCAGTAGAT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 5 0.17
21 12 0.40
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (21 bp):
TTACATTGCGAGAAAGATGAC
Found at i:76097856 original size:39 final size:39
Alignment explanation
Indices: 76097813--76097889 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
76097803 GATAAGTGAC
76097813 ATTGTAAAGAACATTTACATTGCGAGAAAGATGACTTAT
1 ATTGTAAAGAACATTTACATTGCGAGAAAGATGACTTAT
* *
76097852 ATTGTAGAGGACATTTACATTGCGAGAAAGATGACTTA
1 ATTGTAAAGAACATTTACATTGCGAGAAAGATGACTTA
76097890 CTTCAGTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (39 bp):
ATTGTAAAGAACATTTACATTGCGAGAAAGATGACTTAT
Found at i:76099447 original size:48 final size:48
Alignment explanation
Indices: 76099358--76099482 Score: 151
Period size: 48 Copynumber: 2.6 Consensus size: 48
76099348 TTCCAAAAAT
* * * * *
76099358 AATATTATTTTAATAGTTTAATATTAAATTTAATTTTATATTCATCTA
1 AATAATATTTTATTAATTTAATATTAAATTTAATCTAATATTCATCTA
* * *
76099406 AATAGTATTTTATTAATTTAATATTAAATTTAATCTAATATTTATCTT
1 AATAATATTTTATTAATTTAATATTAAATTTAATCTAATATTCATCTA
* *
76099454 GATAAATATTATATTAATTTAATATTAAA
1 AAT-AATATTTTATTAATTTAATATTAAA
76099483 GTGATTAAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 43 0.65
49 23 0.35
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (48 bp):
AATAATATTTTATTAATTTAATATTAAATTTAATCTAATATTCATCTA
Found at i:76100555 original size:25 final size:25
Alignment explanation
Indices: 76100502--76100557 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
76100492 AAACCAAACT
* * *
76100502 AAGCTTTTGTGGCAATTTACTTGGG
1 AAGCCTTTGTGGCAATTTACTTAGA
* *
76100527 AAGCCTTTGTGGCAATTTATTTATA
1 AAGCCTTTGTGGCAATTTACTTAGA
76100552 AAGCCT
1 AAGCCT
76100558 ATGTAGCGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (25 bp):
AAGCCTTTGTGGCAATTTACTTAGA
Found at i:76102688 original size:8 final size:8
Alignment explanation
Indices: 76102675--76102712 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
76102665 ATAGACAGTG
76102675 ACATCACA
1 ACATCACA
76102683 ACATCAC-
1 ACATCACA
*
76102690 ACAGCACA
1 ACATCACA
76102698 ACATCACA
1 ACATCACA
*
76102706 ACGTCAC
1 ACATCAC
76102713 GATAAACAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.45, C:0.39, G:0.05, T:0.11
Consensus pattern (8 bp):
ACATCACA
Found at i:76108528 original size:19 final size:19
Alignment explanation
Indices: 76108501--76108540 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
76108491 TACATAAAAA
* * *
76108501 TTATGTAAATATTTTAAAT
1 TTATCTAAACATTTCAAAT
76108520 TTATCTAAACATTTCAAAT
1 TTATCTAAACATTTCAAAT
76108539 TT
1 TT
76108541 TATTTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (19 bp):
TTATCTAAACATTTCAAAT
Found at i:76112615 original size:13 final size:13
Alignment explanation
Indices: 76112594--76112668 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
76112584 GTTTTTTATT
*
76112594 ATTATTATTTTTA
1 ATTAATATTTTTA
*
76112607 ATTAATATTTTAA
1 ATTAATATTTTTA
* *
76112620 ATATATTATTTTAAA
1 AT-TAATATTTT-TA
**
76112635 AGTTTTTATTTTTA
1 A-TTAATATTTTTA
* *
76112649 ATTCATATTTTTG
1 ATTAATATTTTTA
76112662 ATTAATA
1 ATTAATA
76112669 ACTTTTTTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
13 28 0.56
14 10 0.20
15 11 0.22
16 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (13 bp):
ATTAATATTTTTA
Found at i:76112631 original size:14 final size:13
Alignment explanation
Indices: 76112594--76112634 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
76112584 GTTTTTTATT
*
76112594 ATTATTATTTTTA
1 ATTATTATTTTAA
*
76112607 ATTAATATTTTAA
1 ATTATTATTTTAA
76112620 ATATATTATTTTAA
1 AT-TATTATTTTAA
76112634 A
1 A
76112635 AGTTTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTATTATTTTAA
Found at i:76112978 original size:18 final size:18
Alignment explanation
Indices: 76112945--76112979 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76112935 TTTAAATATA
*
76112945 AAAATAATAATTATATTT
1 AAAATAATAATAATATTT
*
76112963 AAAATAATTATAATATT
1 AAAATAATAATAATATT
76112980 AGTTGGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATAATAATAATATTT
Found at i:76123054 original size:40 final size:40
Alignment explanation
Indices: 76122851--76123033 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
76122841 ACTCGTTCAT
* * * *
76122851 ATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
*
76122891 ACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
*
76122931 ACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
76122971 ATGCCTTCGGGACTTAGCCCGGA-ATTAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGATA-TAGTAGCTCGCACGA
76123011 ATGCCTTCGGGACTTAGCCCGGA
1 ATGCCTTCGGGACTTAGCCCGGA
76123034 ATTAGCCACT
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 135 0.99
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
Found at i:76123054 original size:80 final size:79
Alignment explanation
Indices: 76122851--76123072 Score: 279
Period size: 80 Copynumber: 2.8 Consensus size: 79
76122841 ACTCGTTCAT
* * *
76122851 ATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAACGCCTTCGGGACTTAGCCCGGATA
1 ATGCCTTCGGGACTTAGCCCGGATATAG-AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
76122916 TAGTAGCTCGCACGA
65 TAGTAGCTCGCACGA
* * *
76122931 ACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGGA-A
1 ATGCCTTCGGGACTTAGCCCGGATATAG-AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
76122995 TTAGTAGCTCGCACGA
65 -TAGTAGCTCGCACGA
* * * *
76123011 ATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGATTTAGCCCGG
1 ATGCCTTCGGGACTTAGCCCGGATA-TAG-AACTCGCACAAATGCCT-TCGGGACTTAGCCCGG
76123073 TTATCATCCG
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 4 0.03
80 121 0.97
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (79 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTAGCTCGCACGA
Found at i:76123061 original size:40 final size:40
Alignment explanation
Indices: 76122851--76123072 Score: 202
Period size: 40 Copynumber: 5.5 Consensus size: 40
76122841 ACTCGTTCAT
* * * * *
76122851 ATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGAAT-TAGCAGCTAGCACAA
* * * *
76122891 ACGCCTTCGGGACTTAGCCCGG-ATATAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGAAT-TAGCAGCTAGCACAA
* * * *
76122931 ACGCCTTCGGGACTTAGCCCGG-ATATAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGAAT-TAGCAGCTAGCACAA
* * *
76122971 ATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGAATTAGCAGCTAGCACAA
*
76123011 ATGCCTTCGGGACTTAGCCCGGAATTAGCCA-CTAGCTCAA
1 ATGCCTTCGGGACTTAGCCCGGAATTAG-CAGCTAGCACAA
*
76123051 ATG-CTCTCGGGATTTAGCCCGG
1 ATGCCT-TCGGGACTTAGCCCGG
76123073 TTATCATCCG
Statistics
Matches: 168, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 163 0.97
41 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGAATTAGCAGCTAGCACAA
Found at i:76124957 original size:26 final size:26
Alignment explanation
Indices: 76124928--76125035 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
76124918 TGGTACAAAT
76124928 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
76124954 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76124980 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76125006 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76125032 TGAT
1 TGAT
76125036 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:76126743 original size:54 final size:53
Alignment explanation
Indices: 76126661--76126798 Score: 222
Period size: 54 Copynumber: 2.5 Consensus size: 53
76126651 AAGCGTCCTG
76126661 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
*
76126715 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
* *
76126769 GTGGCTCTGCCACAATATCTGTATCTGGTG
1 GTGGCTATGCCACATTATCTG-ATCTGGTG
76126799 ACTTCGTCAC
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 72 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
GTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
Found at i:76126809 original size:27 final size:27
Alignment explanation
Indices: 76126658--76126816 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
76126648 AGGAAGCGTC
*
76126658 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
76126685 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * *
76126712 CTAGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
76126739 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
76126766 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
76126793 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
76126817 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:76128638 original size:27 final size:27
Alignment explanation
Indices: 76128601--76128766 Score: 221
Period size: 27 Copynumber: 6.2 Consensus size: 27
76128591 AGCATGGCTG
* * *
76128601 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
76128627 CCAGATACAGATA-ATCGTGGCAG-GCCA
1 CCAGAT-CAGATATAT-GTGGCAGAGCCA
*
76128654 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
76128681 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
76128708 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* *
76128735 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
76128762 CCAGA
1 CCAGA
76128767 ACGCTTCCTC
Statistics
Matches: 129, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
26 18 0.14
27 105 0.81
28 6 0.05
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGATCAGATATATGTGGCAGAGCCA
Found at i:76130413 original size:25 final size:26
Alignment explanation
Indices: 76130379--76130486 Score: 184
Period size: 25 Copynumber: 4.2 Consensus size: 26
76130369 CATGAAATTC
76130379 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
*
76130404 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
76130430 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
76130456 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
76130481 TTATCA
1 TTATCA
76130487 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 47 0.59
26 33 0.41
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:76130468 original size:51 final size:51
Alignment explanation
Indices: 76130379--76130486 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
76130369 CATGAAATTC
76130379 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
* *
76130430 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-ATTATCATGAAACATTTACCTAACCCA
76130481 TTATCA
1 TTATCA
76130487 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
51 45 0.83
52 9 0.17
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:76132578 original size:49 final size:49
Alignment explanation
Indices: 76132522--76132708 Score: 257
Period size: 49 Copynumber: 3.8 Consensus size: 49
76132512 TAGCCAAAGC
**
76132522 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
76132571 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * *
76132621 CATCTGATACACATAGTAACCTGCACTTAGTACTACACATGCGACAAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
76132670 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
76132709 CGTGACCTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 77 0.65
50 41 0.35
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:76132694 original size:99 final size:99
Alignment explanation
Indices: 76132533--76132716 Score: 341
Period size: 99 Copynumber: 1.9 Consensus size: 99
76132523 ATCTGGTATG
* * *
76132533 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACT
1 CATAGTAACCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACGTAGTAGCCTGCACT
76132598 TAGTACTACACACGTGACCTAACCATCTGATACA
66 TAGTACTACACACGTGACCTAACCATCTGATACA
76132632 CATAGTAACCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACGTAGTAGCCTGCACT
1 CATAGTAACCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACGTAGTAGCCTGCACT
76132697 TAGTACTACACACGTGACCT
66 TAGTACTACACACGTGACCT
76132717 CACAATAGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (99 bp):
CATAGTAACCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGACCTAACCATCTGATACA
Found at i:76134954 original size:47 final size:48
Alignment explanation
Indices: 76134882--76135048 Score: 162
Period size: 49 Copynumber: 3.4 Consensus size: 48
76134872 GGTATAATAC
* * *
76134882 CGATGCCATGGCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCAAGG
* * **
76134929 CGATGCCATGTCCCAGACATAGTCTTACACTGACT-ATCGAAATTGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-AAATCAAGG
* *
76134977 CTGACGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATATC-CGTG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-A-ATCAAG-G
*
76135027 CCGATGCCATGTCCTAGACATG
1 -CGATGCCATGTCCCAGACATG
76135049 ATACTGACAC
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
46 3 0.03
47 32 0.33
48 6 0.06
49 35 0.36
50 21 0.21
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCAAGG
Found at i:76135466 original size:43 final size:43
Alignment explanation
Indices: 76135418--76135503 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
76135408 TAAGATAGAT
76135418 TCAAGTATATTAACAATAACATGGATAACATGCTTATTTAGTC
1 TCAAGTATATTAACAATAACATGGATAACATGCTTATTTAGTC
76135461 TCAAGTATATTAACAATAACATGGATAACATGCTTATTTAGTC
1 TCAAGTATATTAACAATAACATGGATAACATGCTTATTTAGTC
76135504 ATACGAACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (43 bp):
TCAAGTATATTAACAATAACATGGATAACATGCTTATTTAGTC
Found at i:76136414 original size:14 final size:14
Alignment explanation
Indices: 76136395--76136422 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
76136385 GCACTCAAAT
76136395 GCCAAAATTAATTC
1 GCCAAAATTAATTC
76136409 GCCAAAATTAATTC
1 GCCAAAATTAATTC
76136423 ACTAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
GCCAAAATTAATTC
Found at i:76136429 original size:14 final size:14
Alignment explanation
Indices: 76136396--76136431 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
76136386 CACTCAAATG
*
76136396 CCAAAATTAATTCG
1 CCAAAATTAATTCA
76136410 CCAAAATTAATTCA
1 CCAAAATTAATTCA
*
76136424 CTAAAATT
1 CCAAAATT
76136432 TTCATGCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (14 bp):
CCAAAATTAATTCA
Found at i:76147656 original size:93 final size:93
Alignment explanation
Indices: 76147544--76147714 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
76147534 GCCCATAAGT
* *
76147544 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76147609 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
76147637 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76147702 CGAGTTCGGATGC
66 CGAGTTCGGATGC
76147715 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:76147730 original size:46 final size:46
Alignment explanation
Indices: 76147536--76147716 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
76147526 TGTAACCCGC
* * *
76147536 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
76147582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
76147632 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
76147675 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
76147717 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:76150135 original size:30 final size:30
Alignment explanation
Indices: 76150091--76150179 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
76150081 CAAAGATAAC
76150091 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
76150120 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
76150150 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
76150180 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:76150139 original size:15 final size:15
Alignment explanation
Indices: 76150091--76150170 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
76150081 CAAAGATAAC
*
76150091 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
76150105 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
76150120 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
76150135 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
76150150 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
76150165 AAGAAA
1 AAGAAA
76150171 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:76150179 original size:15 final size:15
Alignment explanation
Indices: 76150102--76150179 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
76150092 AGAAAACCGA
76150102 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
76150117 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
76150131 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
76150146 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
76150162 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
76150177 ATA
1 ATA
76150180 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:76153240 original size:93 final size:93
Alignment explanation
Indices: 76153128--76153298 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
76153118 GCCCATAAGT
* *
76153128 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76153193 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
76153221 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76153286 CGAGTTCGGATGC
66 CGAGTTCGGATGC
76153299 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:76153314 original size:46 final size:46
Alignment explanation
Indices: 76153120--76153300 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
76153110 TGTAACCCGC
* * *
76153120 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
76153166 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
76153216 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
76153259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
76153301 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:76163382 original size:17 final size:17
Alignment explanation
Indices: 76163313--76163382 Score: 58
Period size: 18 Copynumber: 4.2 Consensus size: 17
76163303 AGTTATTTTA
*
76163313 GTTTAATTAACTAAGTT
1 GTTTAATTAATTAAGTT
* *
76163330 GTTTTAATTGTATTTAGTT
1 G-TTTAATT-AATTAAGTT
*
76163349 GTTTAAATAATT-A---
1 GTTTAATTAATTAAGTT
76163362 GTTTAATTAATTAAGTT
1 GTTTAATTAATTAAGTT
76163379 GTTT
1 GTTT
76163383 TAATAATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
13 11 0.27
14 1 0.02
16 1 0.02
17 8 0.20
18 13 0.32
19 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (17 bp):
GTTTAATTAATTAAGTT
Found at i:76167992 original size:40 final size:40
Alignment explanation
Indices: 76167948--76168044 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
76167938 GATTCAGATA
* *
76167948 TATATATTGCACTTAGTGTGCAATTCAGAATAACTTTGAC
1 TATATATAGCACTTAGTGTGCAATTCAGAATAACTTCGAC
* * * * *
76167988 TATATATAGCACTTAGTGTGCGATTCGGGATAGCTTCGGC
1 TATATATAGCACTTAGTGTGCAATTCAGAATAACTTCGAC
*
76168028 TATATATGGCACTTAGT
1 TATATATAGCACTTAGT
76168045 TTGTGAGGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (40 bp):
TATATATAGCACTTAGTGTGCAATTCAGAATAACTTCGAC
Found at i:76168097 original size:41 final size:37
Alignment explanation
Indices: 76167987--76168129 Score: 144
Period size: 36 Copynumber: 3.7 Consensus size: 37
76167977 ATAACTTTGA
* * *
76167987 CTATATATAGCACTTAGTGTGCGATTCGGGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGTGA---GAGATAGCTTCGG
*
76168027 CTATATATGGCACTTAGTTTGTGAG-GATAGCTTCGG
1 CTATATATGGCACTTAGTGTGTGAGAGATAGCTTCGG
* *
76168063 ATATATATGGCACTTAGTGTGTGAGACCAAGATAGCTTTGG
1 CTATATATGGCACTTAGTGTGTGAG----AGATAGCTTCGG
* *
76168104 CTATGTATGGCACTTAGTGTGCGAGA
1 CTATATATGGCACTTAGTGTGTGAGA
76168130 TATTGAGTAC
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
36 34 0.38
37 2 0.02
40 21 0.24
41 32 0.36
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (37 bp):
CTATATATGGCACTTAGTGTGTGAGAGATAGCTTCGG
Found at i:76179974 original size:19 final size:19
Alignment explanation
Indices: 76179950--76179987 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
76179940 CTGTATAAGA
76179950 AACGTTAAATTGTTTTATT
1 AACGTTAAATTGTTTTATT
76179969 AACGTTAAATTGTTTTATT
1 AACGTTAAATTGTTTTATT
76179988 CCTAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (19 bp):
AACGTTAAATTGTTTTATT
Found at i:76181771 original size:73 final size:73
Alignment explanation
Indices: 76181645--76181794 Score: 237
Period size: 73 Copynumber: 2.1 Consensus size: 73
76181635 CTCCACTCAT
* * *
76181645 TGGGTTATTTGAGGCGCTATAAGGAAGCATGTGCTTCAGCCCACTCAATTCGGTGGACTGTATTT
1 TGGGTTATTTGAGGCGCTATAAGGAAGCACGTGCTTCAGCCCAATCAACTCGGTGGACTGTATTT
76181710 GATATTTG
66 GATATTTG
* * * *
76181718 TGGGTTATTTGAGGTGCTATAAGGAAGCGCGTGCTTCGGCCCAATCAACTCGGTGGACTGTGTTT
1 TGGGTTATTTGAGGCGCTATAAGGAAGCACGTGCTTCAGCCCAATCAACTCGGTGGACTGTATTT
76181783 GATATTTG
66 GATATTTG
76181791 TGGG
1 TGGG
76181795 AGTTCAGAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (73 bp):
TGGGTTATTTGAGGCGCTATAAGGAAGCACGTGCTTCAGCCCAATCAACTCGGTGGACTGTATTT
GATATTTG
Found at i:76182543 original size:10 final size:9
Alignment explanation
Indices: 76182517--76182547 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
76182507 TTATGTGTTC
76182517 TTTATTTTA
1 TTTATTTTA
76182526 TTTATTTTA
1 TTTATTTTA
76182535 TTCTATTTTA
1 TT-TATTTTA
76182545 TTT
1 TTT
76182548 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:76189530 original size:39 final size:39
Alignment explanation
Indices: 76189467--76189648 Score: 301
Period size: 39 Copynumber: 4.7 Consensus size: 39
76189457 TTCCAACACA
* *
76189467 AATGCCTTCGGGACTTAGCTCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACG
* * * *
76189506 AATACCTTTGGGACTTAGCCCGGATATAACACTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACG
*
76189545 AATGCCTTCGGGACTTAGCTCGGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACG
76189584 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACG
76189623 AATGCCTTCGGGACTTAGCCCGGACA
1 AATGCCTTCGGGACTTAGCCCGGACA
76189649 CACACACAAT
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 133 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACG
Found at i:76198627 original size:93 final size:93
Alignment explanation
Indices: 76198515--76198686 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76198505 CGCCCATAAG
* *
76198515 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76198580 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
76198608 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76198673 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
76198687 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76198683 original size:46 final size:46
Alignment explanation
Indices: 76198508--76198683 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
76198498 TGTAACCCGC
* * *
76198508 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76198554 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
76198604 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
76198647 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
76198684 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:76206201 original size:93 final size:93
Alignment explanation
Indices: 76206089--76206260 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76206079 CGCCCATAAG
* *
76206089 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76206154 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
76206182 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76206247 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
76206261 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76206257 original size:46 final size:46
Alignment explanation
Indices: 76206082--76206257 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
76206072 TGTAACCCGC
* * *
76206082 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76206128 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
76206178 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
76206221 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
76206258 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:76210586 original size:27 final size:24
Alignment explanation
Indices: 76210539--76210587 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
76210529 AACAATGGAT
*
76210539 AATAAAAGAAAATTTAACAACTGA
1 AATAAAAGAAAAGTTAACAACTGA
76210563 AATAAAAGAACATAGTTAAGCAACT
1 AATAAAAGAA-A-AGTTAA-CAACT
76210588 AACCAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 5 0.24
27 5 0.24
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (24 bp):
AATAAAAGAAAAGTTAACAACTGA
Found at i:76212037 original size:44 final size:43
Alignment explanation
Indices: 76211948--76212070 Score: 124
Period size: 44 Copynumber: 2.9 Consensus size: 43
76211938 CATAGGATTT
* * * * * *
76211948 TCGGTATGTGATTTCATGTAATACCACGTCTGGGACTTTGGCA
1 TCGGTTTGTGATTTCATGTAAGACCATGTCTGGGACATCGACA
* *
76211991 TCGGTTTGAGATTTACATGTAAGACCATGACTGGGACATCGACA
1 TCGGTTTGTGATTT-CATGTAAGACCATGTCTGGGACATCGACA
* *
76212035 TC-GTATT-TGATTTCGTGTAAGACCCTGTCTGGGACA
1 TCGGT-TTGTGATTTCATGTAAGACCATGTCTGGGACA
76212071 GTGGCATCGA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 20 0.30
43 19 0.29
44 27 0.41
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGGTTTGTGATTTCATGTAAGACCATGTCTGGGACATCGACA
Found at i:76212067 original size:42 final size:43
Alignment explanation
Indices: 76212003--76212102 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
76211993 GGTTTGAGAT
*
76212003 TTACATGTAAGACCATGACTGGGACA-TCGACATCG-TATTTGA
1 TTACATGTAAGACCATGACTGGGACAGT-GACATCGACATTTGA
* * * * *
76212045 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGACATTTGA
1 TTACATGTAAGACCATGACTGGGACAGTGACATCGACATTTGA
76212088 TTACATGTAAGACCA
1 TTACATGTAAGACCA
76212103 CATCTGAGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 28 0.60
43 19 0.40
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCATGACTGGGACAGTGACATCGACATTTGA
Found at i:76212119 original size:43 final size:42
Alignment explanation
Indices: 76211956--76212120 Score: 129
Period size: 43 Copynumber: 3.9 Consensus size: 42
76211946 TTTCGGTATG
* * * * *
76211956 TGATTTCATGTAATACCACGTCTGGGACTTTGGCATCG-GTT
1 TGATTACATGTAAGACCACATCTGGGACATTGGCATCGCATT
* * * *
76211997 TGAGATTTACATGTAAGACCATGA-CTGGGACATCGACATCGTATT
1 T--GA-TTACATGTAAGACCA-CATCTGGGACATTGGCATCGCATT
* * * *
76212042 TGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGACATT
1 TGATTACATGTAAGACCAC-ATCTGGGACATTGGCATCG-CATT
*
76212085 TGATTACATGTAAGACCACATCTGAGACATTGGCAT
1 TGATTACATGTAAGACCACATCTGGGACATTGGCAT
76212121 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 36 0.38
44 28 0.30
45 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TGATTACATGTAAGACCACATCTGGGACATTGGCATCGCATT
Found at i:76219221 original size:8 final size:8
Alignment explanation
Indices: 76219204--76219236 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
76219194 AATTTTGTGT
*
76219204 ATTTTGTG
1 ATTTTATG
76219212 ATTTTATG
1 ATTTTATG
76219220 ATTTTATG
1 ATTTTATG
76219228 ATTTTATG
1 ATTTTATG
76219236 A
1 A
76219237 ATTAGGGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (8 bp):
ATTTTATG
Found at i:76219675 original size:43 final size:43
Alignment explanation
Indices: 76219628--76219799 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
76219618 CATAGGATTT
*
76219628 TCGATATGTGATTTCCTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
* * * * * *
76219671 TCGATTTGAGATTTACGTGTAAG-CTATGTCTGGGACATCGTCA
1 TCGATATGTGATTT-CGTGTAAGACCACGTCTGGGACATTGGCA
* * *
76219714 TCG-TATTTGATTTCGTGTAATACC-CTGTCTGGGACAGTGGCA
1 TCGATATGTGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCA
* * *
76219756 TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
76219799 T
1 T
76219800 TATACAAGCT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
41 7 0.07
42 24 0.23
43 65 0.62
44 8 0.08
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:76219787 original size:85 final size:85
Alignment explanation
Indices: 76219636--76219793 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
76219626 TTTCGATATG
* * * *
76219636 TGATTTCCTGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGATTTACGTGTAAGCTATGTC
1 TGATTTCCTGTAAGACCACGTCTGGGACAGTGGCATCGATTTGAGATTTACATGTAAGCCACGTC
76219701 TGGGACATCGTCATCGTATT
66 TGGGACATCGTCATCGTATT
* * *
76219721 TGATTTCGTGTAATACC-CTGTCTGGGACAGTGGCATCGATATT-TGA-TTACATGTAAGACCAC
1 TGATTTCCTGTAAGACCAC-GTCTGGGACAGTGGCATCGAT-TTGAGATTTACATGTAAG-CCAC
76219783 GTCTGGGACAT
63 GTCTGGGACAT
76219794 TGGCATTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
84 11 0.17
85 50 0.79
86 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (85 bp):
TGATTTCCTGTAAGACCACGTCTGGGACAGTGGCATCGATTTGAGATTTACATGTAAGCCACGTC
TGGGACATCGTCATCGTATT
Found at i:76221871 original size:22 final size:21
Alignment explanation
Indices: 76221831--76221871 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
76221821 TGTCCTCAAT
*
76221831 GTATAAACATATATAATCACA
1 GTATAAACAAATATAATCACA
*
76221852 GTATAAACAGAATATCATCA
1 GTATAAACA-AATATAATCA
76221872 GAAAGGGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (21 bp):
GTATAAACAAATATAATCACA
Found at i:76222101 original size:15 final size:17
Alignment explanation
Indices: 76222083--76222180 Score: 94
Period size: 18 Copynumber: 5.6 Consensus size: 17
76222073 AGTTGAAGAA
76222083 AATAAAATAA-AATAA-
1 AATAAAATAATAATAAT
*
76222098 AATAAAATAA-AATTAAA
1 AATAAAATAATAA-TAAT
* *
76222115 AAGGAAGATAAATAATAAT
1 AA-TAAAAT-AATAATAAT
76222134 AATAATAATAATAATAAT
1 AATAA-AATAATAATAAT
76222152 AATAATAATAATAATAAT
1 AATAA-AATAATAATAAT
76222170 AATAATAATAA
1 AATAA-AATAA
76222181 ACTCAATGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
15 12 0.17
16 3 0.04
17 2 0.03
18 44 0.61
19 9 0.12
20 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
AATAAAATAATAATAAT
Found at i:76222133 original size:3 final size:3
Alignment explanation
Indices: 76222125--76222180 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
76222115 AAGGAAGATA
76222125 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
76222173 AAT AAT AA
1 AAT AAT AA
76222181 ACTCAATGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:76222264 original size:3 final size:3
Alignment explanation
Indices: 76222258--76222313 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
76222248 GAAATAACAA
*
76222258 AAT AAT AAT AAT AAT AAT AAAT AAT -AT AAC AATT AAT AAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT -AAT AAT
76222304 AAT AA- AAT AA
1 AAT AAT AAT AA
76222314 AATTGGGGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
2 6 0.13
3 31 0.69
4 8 0.18
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:76222316 original size:15 final size:16
Alignment explanation
Indices: 76222242--76222316 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 16
76222232 AAATACGAAA
76222242 AAAATAGAAATAACAA-
1 AAAATA-AAATAACAAT
*
76222258 AATAATAATAATAATAAT
1 AA-AATAA-AATAACAAT
*
76222276 -AAATAATATAACAATT
1 AAAATAAAATAACAA-T
76222292 AATAAT-AAATAA-AAT
1 AA-AATAAAATAACAAT
76222307 AAAATAAAAT
1 AAAATAAAAT
76222317 TGGGGTGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
14 3 0.06
15 13 0.27
16 11 0.23
17 18 0.38
18 3 0.06
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAACAAT
Found at i:76222674 original size:30 final size:30
Alignment explanation
Indices: 76222640--76222696 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
76222630 TGAGAGATCT
* *
76222640 CACACGCCCGTGTGGCTAGGCCATGTGCTC
1 CACACACCCGTGTGGCCAGGCCATGTGCTC
* *
76222670 CACACACTCGTGTGGCCAGGCCGTGTG
1 CACACACCCGTGTGGCCAGGCCATGTG
76222697 GGTCAAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.35, G:0.32, T:0.19
Consensus pattern (30 bp):
CACACACCCGTGTGGCCAGGCCATGTGCTC
Found at i:76243157 original size:568 final size:568
Alignment explanation
Indices: 76242081--76243216 Score: 2200
Period size: 568 Copynumber: 2.0 Consensus size: 568
76242071 ATTACAGACT
*
76242081 GTCCCAAAAGACTTGACAATACTATAGATACTTTAGACATATCAGCTGCTAAACTTCCTGATTTA
1 GTCCCAAAAGACTTGACAACACTATAGATACTTTAGACATATCAGCTGCTAAACTTCCTGATTTA
*
76242146 ACTAATTCAGCATTAACATATGAGTGTGAAGATCCCAGGTCTATCAAAGCATAAATAGGTTCTGG
66 ACTAATTCAGCATTAACATATGAGTGTGAAGATCCCAGGGCTATCAAAGCATAAATAGGTTCTGG
*
76242211 ATCCAATAAAAAGATACCTACCACAACGTCGGTAGCATCATCGTCCTCACGTGTCCATACAACAT
131 ATCCAATAAAAAGATACCTACCACAACGTCGGTAGCATCATCATCCTCACGTGTCCATACAACAT
76242276 AAGCTCGTGCTAGCACTCTGGCCTCTACCTAATGAGTAACAGTATCGCTTCCCTTTCTAGCATCA
196 AAGCTCGTGCTAGCACTCTGGCCTCTACCTAATGAGTAACAGTATCGCTTCCCTTTCTAGCATCA
76242341 CCTCTAACAAAAGAACTACCGCAACTTGTTCCACAACCCCTAGATGAAGGCACAGACCTTTAAGA
261 CCTCTAACAAAAGAACTACCGCAACTTGTTCCACAACCCCTAGATGAAGGCACAGACCTTTAAGA
76242406 AAAAACATGAGTAGCATTCTCATTCTTCGGACACTCTCGAGCAAAATGCTCCATATATACACAGC
326 AAAAACATGAGTAGCATTCTCATTCTTCGGACACTCTCGAGCAAAATGCTCCATATATACACAGC
*
76242471 GAAAACAAGCCCAAGTTAGCTTCCAACATTCACTATGGTACTTTTTCCCACAATGTTCACAATTC
391 GAAAACAAGCCCAAGTTAGCTTCCAACATTCACCATGGTACTTTTTCCCACAATGTTCACAATTC
76242536 GAAATATCAGCATCCCTGGACGGACTTTACACACTACCTGTAGTCACAGTCGATTCTCAATCAAG
456 GAAATATCAGCATCCCTGGACGGACTTTACACACTACCTGTAGTCACAGTCGATTCTCAATCAAG
76242601 GTTTTTATCAAATCTATCAGACTTAAAAGTCGATTTTCAGCCACCACA
521 GTTTTTATCAAATCTATCAGACTTAAAAGTCGATTTTCAGCCACCACA
*
76242649 GTCCCAAAAGACTTGACACCACTATAGATACTTTAGACATATCAGCTGCTAAACTTCCTGATTTA
1 GTCCCAAAAGACTTGACAACACTATAGATACTTTAGACATATCAGCTGCTAAACTTCCTGATTTA
76242714 ACTAATTCAGCATTAACATATGAGTGTGAAGATCCCAGGGCTATCAAAGCATAAATAGGTTCTGG
66 ACTAATTCAGCATTAACATATGAGTGTGAAGATCCCAGGGCTATCAAAGCATAAATAGGTTCTGG
76242779 ATCCAATAAAAAGATACCTACCACAACGTCGGTAGCATCATCATCCTCACGTGTCCATACAACAT
131 ATCCAATAAAAAGATACCTACCACAACGTCGGTAGCATCATCATCCTCACGTGTCCATACAACAT
76242844 AAGCTCGTGCTAGCACTCTGGCCTCTACCTAATGAGTAACAGTATCGCTTCCCTTTCTAGCATCA
196 AAGCTCGTGCTAGCACTCTGGCCTCTACCTAATGAGTAACAGTATCGCTTCCCTTTCTAGCATCA
* *
76242909 CCTCTAGCAAAAGAACTACCGCAACTTGTTCCACGACCCCTAGATGAAGGCACAGACCTTTAAGA
261 CCTCTAACAAAAGAACTACCGCAACTTGTTCCACAACCCCTAGATGAAGGCACAGACCTTTAAGA
*
76242974 AGAAACATGAGTAGCATTCTCATTCTTCGGACACTCTCGAGCAAAATGCTCCATATATACACAGC
326 AAAAACATGAGTAGCATTCTCATTCTTCGGACACTCTCGAGCAAAATGCTCCATATATACACAGC
76243039 GAAAACAAGCCCAAGTTAGCTTCCAACATTCACCATGGTACTTTTTCCCACAATGTTCACAATTC
391 GAAAACAAGCCCAAGTTAGCTTCCAACATTCACCATGGTACTTTTTCCCACAATGTTCACAATTC
76243104 GAAATATCAGCATCCCTGGACGGACTTTACACACTACCTGTAGTCACAGTCGATTCTCAATCAAG
456 GAAATATCAGCATCCCTGGACGGACTTTACACACTACCTGTAGTCACAGTCGATTCTCAATCAAG
76243169 GTTTTTATCAAATCTATCAGACTTAAAAGTCGATTTTCAGCCACCACA
521 GTTTTTATCAAATCTATCAGACTTAAAAGTCGATTTTCAGCCACCACA
76243217 AAATTCCTTG
Statistics
Matches: 560, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
568 560 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (568 bp):
GTCCCAAAAGACTTGACAACACTATAGATACTTTAGACATATCAGCTGCTAAACTTCCTGATTTA
ACTAATTCAGCATTAACATATGAGTGTGAAGATCCCAGGGCTATCAAAGCATAAATAGGTTCTGG
ATCCAATAAAAAGATACCTACCACAACGTCGGTAGCATCATCATCCTCACGTGTCCATACAACAT
AAGCTCGTGCTAGCACTCTGGCCTCTACCTAATGAGTAACAGTATCGCTTCCCTTTCTAGCATCA
CCTCTAACAAAAGAACTACCGCAACTTGTTCCACAACCCCTAGATGAAGGCACAGACCTTTAAGA
AAAAACATGAGTAGCATTCTCATTCTTCGGACACTCTCGAGCAAAATGCTCCATATATACACAGC
GAAAACAAGCCCAAGTTAGCTTCCAACATTCACCATGGTACTTTTTCCCACAATGTTCACAATTC
GAAATATCAGCATCCCTGGACGGACTTTACACACTACCTGTAGTCACAGTCGATTCTCAATCAAG
GTTTTTATCAAATCTATCAGACTTAAAAGTCGATTTTCAGCCACCACA
Found at i:76244700 original size:25 final size:25
Alignment explanation
Indices: 76244652--76244700 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
76244642 CATAATTGAA
* * *
76244652 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
76244677 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
76244701 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:76245143 original size:43 final size:43
Alignment explanation
Indices: 76245095--76245180 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
76245085 TATGTGATTG
76245095 ATATTGAAATGGAAAAAATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGAAAAAATGAGAAATGAATATGAGATGAGAAA
* * *
76245138 ATATTGAAATGGAAAATATGAGAAATGATTCTGAGATGAGAAA
1 ATATTGAAATGGAAAAAATGAGAAATGAATATGAGATGAGAAA
76245181 TGAAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.52, C:0.01, G:0.23, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGGAAAAAATGAGAAATGAATATGAGATGAGAAA
Found at i:76245164 original size:16 final size:16
Alignment explanation
Indices: 76245100--76245164 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 16
76245090 GATTGATATT
*
76245100 GAAATGGAAAAAATGA
1 GAAATGGAAAATATGA
76245116 GAAAT-G--AATATGA
1 GAAATGGAAAATATGA
*
76245129 G--ATGAGAAAATAT-T
1 GAAATG-GAAAATATGA
76245143 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
76245159 GAAATG
1 GAAATG
76245165 ATTCTGAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.21
14 1 0.03
15 14 0.36
16 14 0.36
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:76249363 original size:24 final size:24
Alignment explanation
Indices: 76249314--76249425 Score: 89
Period size: 24 Copynumber: 4.6 Consensus size: 24
76249304 TCTTACTTAT
* **
76249314 TCGCACACATAGTGTCACGTTTTC
1 TCGCACACATAGTGCCACGTAATC
*
76249338 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTAATC
** * * *
76249362 TCTTACACATAGTGCCACTTAGTTT
1 TCGCACACATAGTGCCACGTA-ATC
* * * *
76249387 TTGCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCACGTAATC
*
76249411 TTGCACACATAGTGC
1 TCGCACACATAGTGC
76249426 TGATATTTCT
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
24 52 0.75
25 17 0.25
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAATC
Found at i:76250729 original size:20 final size:21
Alignment explanation
Indices: 76250696--76250744 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
76250686 ACTTATTTTT
* * *
76250696 TTATTTCTTCTTTTATTCCTA
1 TTATTTATTTTTTTATTCATA
76250717 TT-TTTATTTTTTTATTCATA
1 TTATTTATTTTTTTATTCATA
76250737 TTATTTAT
1 TTATTTAT
76250745 GATATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTTATTTTTTTATTCATA
Found at i:76252084 original size:40 final size:41
Alignment explanation
Indices: 76252029--76252125 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
76252019 CGACTATGAT
*
76252029 TGGCACTAAGTGTGCG-GTTTAATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGCGAG-TTAACATAGCTTCGGCTATAGAA
**
76252069 TGGCACTAAGTGTGCGAGTTGGCATAGCTTCGGCTATAGAA
1 TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTATAGAA
*
76252110 -GGCACTGAGTGTGCGA
1 TGGCACTAAGTGTGCGA
76252126 TACCGATTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 48 0.94
41 3 0.06
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTATAGAA
Found at i:76253283 original size:20 final size:21
Alignment explanation
Indices: 76253252--76253292 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
76253242 GCAGGGGAAG
76253252 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
76253273 GAAAG-AAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
76253293 TTGAAGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:76255786 original size:46 final size:46
Alignment explanation
Indices: 76255725--76255851 Score: 184
Period size: 46 Copynumber: 2.8 Consensus size: 46
76255715 AATGAAATGT
*
76255725 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGAAAATGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT-AA
*
76255772 -TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAA
* * * *
76255817 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
76255852 TTAAAGATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.03
46 71 0.97
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAA
Found at i:76258586 original size:7 final size:7
Alignment explanation
Indices: 76258576--76258601 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
76258566 AATGATGAAT
76258576 GATGAGG
1 GATGAGG
76258583 GATGAGG
1 GATGAGG
76258590 GATGAGG
1 GATGAGG
76258597 GATGA
1 GATGA
76258602 TTAGAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:76258586 original size:14 final size:14
Alignment explanation
Indices: 76258553--76258601 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
76258543 AATTTAGAGA
*
76258553 GGATAGAATGATGAA
1 GGAT-GAATGATGAG
*
76258568 TGATGAATGATGAG
1 GGATGAATGATGAG
**
76258582 GGATGAGGGATGAG
1 GGATGAATGATGAG
76258596 GGATGA
1 GGATGA
76258602 TTAGAAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 26 0.90
15 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (14 bp):
GGATGAATGATGAG
Found at i:76259969 original size:15 final size:15
Alignment explanation
Indices: 76259930--76259969 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
76259920 ATTTGGACAC
* *
76259930 AAATGTATGGCTCGA
1 AAATGTATGTCTCAA
76259945 AAATGTATGTCTCAA
1 AAATGTATGTCTCAA
76259960 AAATGTATGT
1 AAATGTATGT
76259970 TTACTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (15 bp):
AAATGTATGTCTCAA
Found at i:76265261 original size:27 final size:28
Alignment explanation
Indices: 76265205--76265274 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
76265195 AAATTTGTAC
76265205 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
76265233 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
76265260 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
76265275 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:76265285 original size:27 final size:27
Alignment explanation
Indices: 76265205--76265286 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
76265195 AAATTTGTAC
* *
76265205 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
76265233 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
76265260 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
76265287 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:76270680 original size:40 final size:40
Alignment explanation
Indices: 76270615--76270782 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
76270605 TCTTCGGAAT
* ** *
76270615 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
76270654 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
76270694 TTAGCCTGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
76270734 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
76270774 TTAGCCCGG
1 TTAGCCCGG
76270783 GTGTCATTCA
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.03
40 108 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:76273533 original size:49 final size:49
Alignment explanation
Indices: 76273445--76273541 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
76273435 TCTGGAAGGG
* * * *
76273445 ATAAATAGTGATAAGAGTGTAGACTGTGGGAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGCAGACTGTGGAAGACCAAGTTTAGAAATGT
*
76273494 ATAAATAGTGATAAGAGTGCAG-GTAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGCAGACT-GTGGAAGACCAAGTTTAGAAATG
76273542 CATAGCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.02
49 41 0.98
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGCAGACTGTGGAAGACCAAGTTTAGAAATGT
Found at i:76274810 original size:14 final size:14
Alignment explanation
Indices: 76274791--76274818 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
76274781 TTTGTTTGCA
76274791 TGTAAAATATTTTC
1 TGTAAAATATTTTC
76274805 TGTAAAATATTTTC
1 TGTAAAATATTTTC
76274819 ATTGTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TGTAAAATATTTTC
Found at i:76275919 original size:14 final size:14
Alignment explanation
Indices: 76275900--76275937 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
76275890 TAAAAAAAAT
76275900 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
76275914 AAATTATTTTTCAG
1 AAATTATTTTTCAA
*
76275928 AAACTATTTT
1 AAATTATTTT
76275938 CAATAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:76278131 original size:19 final size:19
Alignment explanation
Indices: 76278090--76278129 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
76278080 ATAATTATTT
*
76278090 AATTTTTAAAAAAATTTAA
1 AATTTTTAAAAAAATATAA
*
76278109 AATTTTTAAAATATATATAA
1 AATTTTTAAAA-AAATATAA
76278129 A
1 A
76278130 TTATAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTTTAAAAAAATATAA
Found at i:76282463 original size:47 final size:47
Alignment explanation
Indices: 76282400--76282837 Score: 723
Period size: 47 Copynumber: 9.3 Consensus size: 47
76282390 GTATGAGATA
* *
76282400 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
76282447 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76282494 TATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
76282541 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76282588 TATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
76282635 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76282682 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
76282729 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
76282776 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76282823 TATAAATGTGATAAG
1 TATATATGTGATAAG
76282838 TCCCGAAGGG
Statistics
Matches: 369, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 369 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:76283014 original size:37 final size:37
Alignment explanation
Indices: 76282955--76283037 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
76282945 CCGAGCTCTA
* * *
76282955 AAGACCTGATGACTACATGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACAGGTGGAGATTATGTCCGGGT
* *
76282992 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACAGGTGGAGATTATGTCCGGGT
*
76283029 AAGCCCCGA
1 AAGACCCGA
76283038 ACTAATGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (37 bp):
AAGACCCGATGACCACAGGTGGAGATTATGTCCGGGT
Found at i:76284997 original size:40 final size:40
Alignment explanation
Indices: 76284942--76285262 Score: 484
Period size: 40 Copynumber: 8.1 Consensus size: 40
76284932 GAGAATTGAG
76284942 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
76284982 AGTGATATAACCGGACTAAGTT-CGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
76285021 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
76285061 AATGATATAACCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
76285101 AGTGATATATCCGGACTAATTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
76285141 AGTGATATAACCGGACTAACTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
76285181 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * **
76285221 AGTGATATATTCGGGCGAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTC-CGAAGAGCATTCGTGCT
76285261 AG
1 AG
76285263 AATTATGAGG
Statistics
Matches: 259, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 39 0.15
40 220 0.85
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:76288535 original size:22 final size:22
Alignment explanation
Indices: 76288507--76288582 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
76288497 AAGTGTATGT
76288507 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
76288529 ATGTGATGAATGTGAAAGTGTATG
1 ATGTGAT-AAGGCCTAA-TGGCCG
76288553 TATGTGATAAGGCCTAATGGCCG
1 -ATGTGATAAGGCCTAATGGCCG
76288576 ATGTGAT
1 ATGTGAT
76288583 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:76288536 original size:47 final size:47
Alignment explanation
Indices: 76288409--76288939 Score: 893
Period size: 47 Copynumber: 11.3 Consensus size: 47
76288399 GAGATATATA
* * *
76288409 TATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76288456 TATATA-GTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76288502 TATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76288549 TATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
76288596 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
76288643 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76288690 TATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
76288737 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
76288784 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
76288831 CATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
76288878 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
76288925 TATAAATGTGATAAG
1 TATATATGTGATAAG
76288940 TCCCGAAGGA
Statistics
Matches: 462, Mismatches: 21, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
46 41 0.09
47 421 0.91
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:76288557 original size:25 final size:25
Alignment explanation
Indices: 76288529--76288607 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
76288519 CTAATGGCCG
76288529 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* *** ***
76288554 ATGTGAT-AAGGCCTAA-TGGCCG-
1 ATGTGATGAATGTGAAAGTGTATGT
*
76288576 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATGT
76288601 ATGTGAT
1 ATGTGAT
76288608 AAGGCCTAAT
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 7 0.19
25 14 0.39
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:76289116 original size:37 final size:37
Alignment explanation
Indices: 76289057--76289139 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
76289047 CCGAGCTCTA
* *
76289057 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
76289094 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
76289131 AAGCCCCGA
1 AAGACCCGA
76289140 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:76294503 original size:48 final size:46
Alignment explanation
Indices: 76294432--76294657 Score: 256
Period size: 48 Copynumber: 4.7 Consensus size: 46
76294422 GGTAAATTGC
* *
76294432 CGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGT-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AATGTG
* * *
76294480 CGATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATAATGTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G
*
76294527 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G
* * *
76294575 CCGATGTCATGTCCTAGACATGGTCTTACACTGACTCTCATAATGTGG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G
* * *
76294623 CCGATGTCATGTCCCAAACATAGTCTTACACTGGC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGC
76294658 ACACATATCA
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
45 5 0.03
46 1 0.01
48 152 0.96
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:76294596 original size:96 final size:95
Alignment explanation
Indices: 76294430--76294657 Score: 300
Period size: 96 Copynumber: 2.4 Consensus size: 95
76294420 AGGGTAAATT
* *
76294430 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CTCAATGTCGATGCCATGTTCCA
* *
76294495 AACATGGTCTTACATTGGCTCTCATAATGTG
65 AACATGGTCTTACACTGACTCTCATAATGTG
* *
76294526 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCA-T-AATGTGGCCGATGTCATG-TC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACTCAATGT---CGATGCCATGTTC
*
76294588 CTAGACATGGTCTTACACTGACTCTCATAATGTG
63 C-AAACATGGTCTTACACTGACTCTCATAATGTG
* * *
76294622 GCCGATGTCATGTCCCAAACATAGTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
76294658 ACACATATCA
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
93 5 0.04
94 1 0.01
95 3 0.03
96 109 0.92
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACTCAATGTCGATGCCATGTTCCAA
ACATGGTCTTACACTGACTCTCATAATGTG
Found at i:76300379 original size:46 final size:46
Alignment explanation
Indices: 76300329--76300504 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
76300319 TGGTTGAGCA
76300329 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
76300375 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
76300420 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
76300468 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76300505 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76300485 original size:93 final size:93
Alignment explanation
Indices: 76300326--76300496 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
76300316 GGATGGTTGA
* *
76300326 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76300391 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
76300419 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76300484 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
76300497 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76310084 original size:2 final size:2
Alignment explanation
Indices: 76310077--76310109 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
76310067 TTGGTATGTT
76310077 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76310110 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76313202 original size:2 final size:2
Alignment explanation
Indices: 76313195--76313245 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
76313185 TGTTTCTAAC
76313195 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76313237 TA TA T- TA TA
1 TA TA TA TA TA
76313246 GATTATAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:76321894 original size:13 final size:13
Alignment explanation
Indices: 76321876--76321910 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
76321866 ATCCTTTCCA
76321876 ATTATAATGATTG
1 ATTATAATGATTG
76321889 ATTATAATGATTG
1 ATTATAATGATTG
76321902 ATTATAATG
1 ATTATAATG
76321911 GTATTTCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (13 bp):
ATTATAATGATTG
Found at i:76334301 original size:20 final size:20
Alignment explanation
Indices: 76334276--76334314 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
76334266 TGTCTGGCTC
76334276 ATTTTAATTTTAATTTTTCA
1 ATTTTAATTTTAATTTTTCA
*
76334296 ATTTTATTTTTAATTTTTC
1 ATTTTAATTTTAATTTTTC
76334315 CCTCTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTAATTTTAATTTTTCA
Found at i:76342142 original size:5 final size:5
Alignment explanation
Indices: 76342132--76342171 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
76342122 TTGTGTGTTC
*
76342132 TTTAT TTTAT TTTATT TTTATT TTTAT TCTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTT
76342172 CACAAATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 21 0.66
6 11 0.34
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:76342153 original size:16 final size:15
Alignment explanation
Indices: 76342132--76342171 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
76342122 TTGTGTGTTC
*
76342132 TTTATTTTATTTTATT
1 TTTATTTTATTCTA-T
76342148 TTTATTTTTATTCTAT
1 TTTA-TTTTATTCTAT
76342164 TTTATTTT
1 TTTATTTT
76342172 CACAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
17 9 0.41
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTTTATTCTAT
Found at i:76348302 original size:2 final size:2
Alignment explanation
Indices: 76348295--76348319 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
76348285 TGATTAATGC
76348295 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
76348320 TTGCATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76348680 original size:23 final size:23
Alignment explanation
Indices: 76348646--76348796 Score: 136
Period size: 23 Copynumber: 6.6 Consensus size: 23
76348636 TGAGTTGATG
*
76348646 AACAATAAGCTCTATTGAGCTGA
1 AACAATAAGCTCTATCGAGCTGA
**
76348669 AACGGTAAGCTCTATCGAGCTG-
1 AACAATAAGCTCTATCGAGCTGA
*
76348691 GACAATAAGCTC-ATACGAGCTGA
1 AACAATAAGCTCTAT-CGAGCTGA
*
76348714 AACAATAAGCTCTAAT-GAGTTGA
1 AACAATAAGCTCT-ATCGAGCTGA
*
76348737 AA-ATAGTAAGCT-TTTACGAGCTG-
1 AACA-A-TAAGCTCTAT-CGAGCTGA
*
76348760 GACAATAAGCTC-ATACGAGCTGA
1 AACAATAAGCTCTAT-CGAGCTGA
76348783 AACAATAAGCTCTA
1 AACAATAAGCTCTA
76348797 ATGAGTTGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
21 2 0.02
22 33 0.32
23 53 0.51
24 13 0.13
25 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (23 bp):
AACAATAAGCTCTATCGAGCTGA
Found at i:76348764 original size:69 final size:69
Alignment explanation
Indices: 76348646--76348828 Score: 298
Period size: 69 Copynumber: 2.7 Consensus size: 69
76348636 TGAGTTGATG
* * ** *
76348646 AACAATAAGCTCTATTGAGCTG-AAACGGTAAGC-TCTATCGAGCTGGACAATAAGCTCATACGA
1 AACAATAAGCTCTAATGAGTTGAAAATAGTAAGCTTTTA-CGAGCTGGACAATAAGCTCATACGA
76348709 GCTGA
65 GCTGA
76348714 AACAATAAGCTCTAATGAGTTGAAAATAGTAAGCTTTTACGAGCTGGACAATAAGCTCATACGAG
1 AACAATAAGCTCTAATGAGTTGAAAATAGTAAGCTTTTACGAGCTGGACAATAAGCTCATACGAG
76348779 CTGA
66 CTGA
76348783 AACAATAAGCTCTAATGAGTTGAAAATAGTAAGCTTTTACGAGCTG
1 AACAATAAGCTCTAATGAGTTGAAAATAGTAAGCTTTTACGAGCTG
76348829 ATATATTAGT
Statistics
Matches: 108, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
68 20 0.19
69 85 0.79
70 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (69 bp):
AACAATAAGCTCTAATGAGTTGAAAATAGTAAGCTTTTACGAGCTGGACAATAAGCTCATACGAG
CTGA
Found at i:76355999 original size:176 final size:179
Alignment explanation
Indices: 76355677--76356016 Score: 449
Period size: 176 Copynumber: 1.9 Consensus size: 179
76355667 GGCACTCAAG
* * * *
76355677 TTATGTCAAAATTAAAGTATAGAGATTAAGTCTCAAATTTAAGCAAAATATAGGGATAGAAACTA
1 TTATGTCAAAATTAAAGTATAGAAATTAAATCTCAAAATTAAGCAAAATATAGAGATAGAAACTA
* * *
76355742 AAATTTGACCATTCTCATATAAACTTAAACAATTAGATGGATTAGAATTGAAATTTAGTCATTAT
66 AAATTTAACCATTCTCATATAAACTTAAACAATTAGAGGGATTAGAATTGAAATTTAGCCATTAT
*** * *
76355807 TTTCTTGTGTCAAAAG-AGAGAAAAAAAAAAGAATGGACAAGTACCTAAA
131 TTTCCCATGCCAAAAGAAAAG-AAAAAAAAAGAATGGACAAGTACCTAAA
* * *
76355856 TTATGTCAAAATTGAAGTATAGAAATTAAATCTCAAAATTGAG-AAAATATA-ATATCA-AAACT
1 TTATGTCAAAATTAAAGTATAGAAATTAAATCTCAAAATTAAGCAAAATATAGAGAT-AGAAACT
* * *
76355918 AAAATTTAACCATTCTTATATAATCTTTAAA-AA-TAGAGGGATTAGAATTGAAATTTAGCCGTT
65 AAAATTTAACCATTCTCATATAAAC-TTAAACAATTAGAGGGATTAGAATTGAAATTTAGCCATT
76355981 ATTTTCCCATGCCAAAAGAAAAGAAAAAAAAAGAAT
129 ATTTTCCCATGCCAAAAGAAAAGAAAAAAAAAGAAT
76356017 TGGGAGATGT
Statistics
Matches: 140, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
176 54 0.39
177 34 0.24
178 14 0.10
179 38 0.27
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.30
Consensus pattern (179 bp):
TTATGTCAAAATTAAAGTATAGAAATTAAATCTCAAAATTAAGCAAAATATAGAGATAGAAACTA
AAATTTAACCATTCTCATATAAACTTAAACAATTAGAGGGATTAGAATTGAAATTTAGCCATTAT
TTTCCCATGCCAAAAGAAAAGAAAAAAAAAGAATGGACAAGTACCTAAA
Found at i:76358951 original size:35 final size:35
Alignment explanation
Indices: 76358860--76358954 Score: 172
Period size: 35 Copynumber: 2.7 Consensus size: 35
76358850 CATGGCAAAG
* *
76358860 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
76358895 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
76358930 TGTGAAATGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATC
76358955 AAATCCATAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.36
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
Found at i:76359014 original size:76 final size:75
Alignment explanation
Indices: 76358864--76359031 Score: 197
Period size: 76 Copynumber: 2.3 Consensus size: 75
76358854 GCAAAGTGTG
*** *
76358864 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTATCCATA
* **
76358924 CTGAGCTGTG
66 CCGAGCTGAA
76358934 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAAATGTAGGTATGGCATT-TCCCA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAAATGTAGGTATGGCATTAT-CCA
*
76358998 TACCGAGTTGAA
64 TACCGAGCTGAA
76359010 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
76359032 TGAGGAAAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
70 14 0.17
73 4 0.05
75 19 0.23
76 46 0.55
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTATCCATA
CCGAGCTGAA
Found at i:76359019 original size:35 final size:35
Alignment explanation
Indices: 76358864--76359029 Score: 165
Period size: 35 Copynumber: 4.6 Consensus size: 35
76358854 GCAAAGTGTG
* **
76358864 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGAA
* **
76358899 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTG
1 AAATGTAGGTATGGTATT-TCCCATACTGAGTTGAA
*
76358934 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAA
1 AAATGTAGGTATGGTATT-TC----CCATACTGAGTT-GAA
* *
76358975 AAATGTAGGTATGGCATTTCCCATACCGAGTTGAA
1 AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
76359010 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
76359030 AATGAGGAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
35 73 0.64
36 11 0.10
40 13 0.11
41 17 0.15
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
Found at i:76368284 original size:41 final size:41
Alignment explanation
Indices: 76368227--76368310 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
76368217 TTGGGAGATG
* *
76368227 TGCCTATATTGTAGTAAACATGTGATTGTTTTTTATGTATT
1 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
76368268 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
1 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
76368309 TG
1 TG
76368311 AACAACGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (41 bp):
TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
Found at i:76370753 original size:68 final size:69
Alignment explanation
Indices: 76370613--76370831 Score: 193
Period size: 68 Copynumber: 3.2 Consensus size: 69
76370603 TAGAGTTAGC
* * *
76370613 GATTT-AAGATCGTTTCC-TTATTTTGCAGCCCGCTGATTTAAGATCACAACTAATCTACATAGC
1 GATTTAAAGATCG-TGCCTTTATTTTACAGTCCGCTGATTTAAGATCACAACTAATCTACATAGC
*
76370676 ACGCA
65 AAGCA
* * * **
76370681 GATTT-AAGATAACGT--CTCTT-TTTTATAGTCCGCTGATTTTAGGTCAGGACTAATCTACATA
1 GATTTAAAGAT--CGTGCCT-TTATTTTACAGTCCGCTGATTTAAGATCACAACTAATCTACATA
**
76370742 GCAAGTT
63 GCAAGCA
* * *
76370749 GATTTAAAGATCGTGCCTTTATTTTACAGTCCGCTGATTTAATATCACGAC-AGATCTACATAAC
1 GATTTAAAGATCGTGCCTTTATTTTACAGTCCGCTGATTTAAGATCACAACTA-ATCTACATAGC
* *
76370813 ATGTA
65 AAGCA
76370818 GATTT-AAGATCGTG
1 GATTTAAAGATCGTG
76370832 TCCCTATTTT
Statistics
Matches: 124, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
67 4 0.03
68 65 0.52
69 53 0.43
70 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (69 bp):
GATTTAAAGATCGTGCCTTTATTTTACAGTCCGCTGATTTAAGATCACAACTAATCTACATAGCA
AGCA
Found at i:76370857 original size:68 final size:69
Alignment explanation
Indices: 76370613--76370863 Score: 171
Period size: 68 Copynumber: 3.7 Consensus size: 69
76370603 TAGAGTTAGC
* * * * * *
76370613 GATTT-AAGATCGTTTCCT-TATTTTGCAGCCCGCTGATTTAAGATCACAACTA-ATCTACATAG
1 GATTTAAAGATCG-TGCCTCTATTTTACAGTCCGCTAATTTAAGATCACGAC-AGATCTACATAA
* *
76370675 CACGCA
64 CAAGTA
* * * * * *
76370681 GATTT-AAGATAACGT--CTCTTTTTTATAGTCCGCTGATTTTAGGTCAGGACTA-ATCTACATA
1 GATTTAAAGAT--CGTGCCTCTATTTTACAGTCCGCTAATTTAAGATCACGAC-AGATCTACATA
* *
76370742 GCAAGTT
63 ACAAGTA
* * *
76370749 GATTTAAAGATCGTGCCTTTATTTTACAGTCCGCTGATTTAATATCACGACAGATCTACATAACA
1 GATTTAAAGATCGTGCCTCTATTTTACAGTCCGCTAATTTAAGATCACGACAGATCTACATAACA
*
76370814 TGTA
66 AGTA
* *
76370818 GATTT-AAGATCGTGTCC-CTATTTTGCA-TCTTGCTAATTTAAGATCA
1 GATTTAAAGATCGTG-CCTCTATTTTACAGTC-CGCTAATTTAAGATCA
76370864 TAATTGATCT
Statistics
Matches: 148, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
67 7 0.05
68 85 0.57
69 54 0.36
70 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (69 bp):
GATTTAAAGATCGTGCCTCTATTTTACAGTCCGCTAATTTAAGATCACGACAGATCTACATAACA
AGTA
Found at i:76372974 original size:25 final size:25
Alignment explanation
Indices: 76372940--76372992 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
76372930 CGGATACTTA
76372940 AGTATTATATATGTGAGATATTAAT
1 AGTATTATATATGTGAGATATTAAT
76372965 AGTATTATATATGTGAGATATTAAT
1 AGTATTATATATGTGAGATATTAAT
76372990 AGT
1 AGT
76372993 TGACTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (25 bp):
AGTATTATATATGTGAGATATTAAT
Found at i:76377181 original size:6 final size:6
Alignment explanation
Indices: 76377170--76377207 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
76377160 TTCAAATTCC
*
76377170 CATATA CATATA CCTATA CATATA CATATA CATATA CA
1 CATATA CATATA CATATA CATATA CATATA CATATA CA
76377208 AATCATACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (6 bp):
CATATA
Done.