Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 319 of 328
Found at i:94647445 original size:73 final size:71
Alignment explanation
Indices: 94647307--94647459 Score: 238
Period size: 73 Copynumber: 2.1 Consensus size: 71
94647297 TATAATCTTT
*
94647307 AATGATATGCAATCTTAGATATGATATGTAATCTTAGATATGATACAATCTTAGATATGATTGCA
1 AATGATATGCAATCTTAGATATGATA-GCAATCTTAGATATGATACAATCTTAGATATGATTGCA
94647372 ATCTTAG
65 ATCTTAG
*
94647379 ATATGATATGCAATCTTAGATATGATA-CAATCTTAGATATGATTGCAATCTTAGATATGATATG
1 A-ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGA-TACAATCTTAGATATGAT-TG
94647443 CAATCTTAG
63 CAATCTTAG
94647452 AA-GATATG
1 AATGATATG
94647460 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
71 20 0.26
72 19 0.25
73 37 0.49
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (71 bp):
AATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATTGCAA
TCTTAG
Found at i:94647478 original size:22 final size:22
Alignment explanation
Indices: 94647308--94647475 Score: 111
Period size: 19 Copynumber: 8.8 Consensus size: 22
94647298 ATAATCTTTA
94647308 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
94647327 ATGATATGTAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
94647346 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
94647363 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
94647381 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
94647400 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
94647417 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
94647435 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
94647457 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
94647476 GATTTAATTT
Statistics
Matches: 135, Mismatches: 4, Indels: 16
0.87 0.03 0.10
Matches are distributed among these distances:
17 31 0.23
18 32 0.24
19 52 0.39
22 8 0.06
23 12 0.09
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:94647775 original size:16 final size:17
Alignment explanation
Indices: 94647742--94647775 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
94647732 TGTTTCTCTG
*
94647742 ATTTTTTTATATATTTT
1 ATTTTTTTATATAATTT
94647759 ATTTTTTTA-ATAATTT
1 ATTTTTTTATATAATTT
94647775 A
1 A
94647776 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTATATAATTT
Found at i:94657723 original size:2 final size:2
Alignment explanation
Indices: 94657711--94657754 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
94657701 AAAATATTAC
94657711 TA TA T- 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
94657752 TA T
1 TA T
94657755 TGCCATGGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94661604 original size:39 final size:40
Alignment explanation
Indices: 94661532--94661607 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 40
94661522 AATGGTTTTC
*
94661532 TATATTGTAGGAAGTTAGAGGACGAATAAGAGTAGTAGTT
1 TATATTATAGGAAGTTAGAGGACGAATAAGAGTAGTAGTT
* *
94661572 TATATTATAGGAAG-TAGAGGGCGAATAGGAGTAGTA
1 TATATTATAGGAAGTTAGAGGACGAATAAGAGTAGTA
94661608 CCACAAACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 20 0.61
40 13 0.39
ACGTcount: A:0.38, C:0.03, G:0.32, T:0.28
Consensus pattern (40 bp):
TATATTATAGGAAGTTAGAGGACGAATAAGAGTAGTAGTT
Found at i:94663224 original size:93 final size:93
Alignment explanation
Indices: 94663115--94663285 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
94663105 GACCCTAAGT
* ** *
94663115 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA-TAAGTAAACTCGAACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT-CAGTAAGTAAACTCGAACTCAACTCA
*
94663179 ACGAGTTCAGATGCCTAGTTATATCTCAC
65 ACAAGTTCAGATGCCTAGTTATATCTCAC
* * *
94663208 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCAGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCAGTAAGTAAACTCGAACTCAACTCAA
*
94663273 CAAGTTCGGATGC
66 CAAGTTCAGATGC
94663286 TCAACCATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCAGTAAGTAAACTCGAACTCAACTCAA
CAAGTTCAGATGCCTAGTTATATCTCAC
Found at i:94663271 original size:46 final size:45
Alignment explanation
Indices: 94663110--94663280 Score: 136
Period size: 46 Copynumber: 3.7 Consensus size: 45
94663100 AACCCGACCC
* * * *
94663110 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT-CAG
* * * *
94663156 TAAGTAAACTCGAACTCAACTCAACGAGTTC-AGA-T-GCCT-AG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCAG
*
94663197 TTATATCTCACGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCAG
1 -TA-A-GT---GAACTCGGACTCAACTCAACGAGTTCG-ACATTCGCATCAG
*
94663249 TAAGTGAACTCGGACTCAACTCAACAAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
94663281 GATGCTCAAC
Statistics
Matches: 98, Mismatches: 15, Indels: 24
0.72 0.11 0.18
Matches are distributed among these distances:
40 1 0.01
42 5 0.05
43 2 0.02
44 1 0.01
46 53 0.54
47 24 0.24
49 3 0.03
50 2 0.02
51 5 0.05
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCAG
Found at i:94669364 original size:2 final size:2
Alignment explanation
Indices: 94669357--94669387 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
94669347 TTTGCAATCC
94669357 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 T
94669388 TACTTAAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94669577 original size:25 final size:27
Alignment explanation
Indices: 94669511--94669577 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
94669501 TATTTTCTCG
94669511 AAATTTTACT-AGGAATAAAATCATCAA
1 AAATTTTACTAAGG-ATAAAATCATCAA
* * *
94669538 AAAATTTATCGAAGG-TAAAATCGTC-A
1 AAATTTTA-CTAAGGATAAAATCATCAA
94669564 AAATTTTACTAAGG
1 AAATTTTACTAAGG
94669578 GCAAAATAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
25 5 0.15
26 8 0.24
27 16 0.48
28 1 0.03
29 3 0.09
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (27 bp):
AAATTTTACTAAGGATAAAATCATCAA
Found at i:94673601 original size:58 final size:58
Alignment explanation
Indices: 94673468--94673619 Score: 146
Period size: 57 Copynumber: 2.6 Consensus size: 58
94673458 TGTCAAAGAC
* * * *
94673468 TAACTTGAGTACAAAAAAAGTTAAAAACCTAAATATGGGAACAATTATCAAGTTCGAGGCT
1 TAACTT-AG-ACAAAAAAAGTTCAAACCCT-AATGTGGGAACAATTATCAAGTTCAAGGCT
* * * *
94673529 TAACTTAGA-TAAAAAAGTTCAAGCCCTAATGTGGTAACAATTATCAAGTTCAAGGTT
1 TAACTTAGACAAAAAAAGTTCAAACCCTAATGTGGGAACAATTATCAAGTTCAAGGCT
* * * *
94673586 TAATTTGGACAAAAAAAAATTCAATCCC-AATGTG
1 TAACTTAGAC-AAAAAAAGTTCAAACCCTAATGTG
94673620 AGAATAGTCG
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
57 33 0.43
58 20 0.26
59 15 0.20
60 2 0.03
61 6 0.08
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (58 bp):
TAACTTAGACAAAAAAAGTTCAAACCCTAATGTGGGAACAATTATCAAGTTCAAGGCT
Found at i:94676327 original size:25 final size:25
Alignment explanation
Indices: 94676293--94676344 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
94676283 CTTGAATAAA
94676293 CACTTCTCCATTTCCAGCAATTTAT
1 CACTTCTCCATTTCCAGCAATTTAT
94676318 CACTTCTCCATTTCCAGCAATTTAT
1 CACTTCTCCATTTCCAGCAATTTAT
94676343 CA
1 CA
94676345 TTCACACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.38
Consensus pattern (25 bp):
CACTTCTCCATTTCCAGCAATTTAT
Found at i:94693665 original size:44 final size:45
Alignment explanation
Indices: 94693575--94693703 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
94693565 GACAGAACGA
*
94693575 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
94693621 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
94693665 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
94693704 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:94701046 original size:44 final size:45
Alignment explanation
Indices: 94700956--94701084 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
94700946 GACAGAACGA
*
94700956 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
94701002 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
94701046 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
94701085 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:94705615 original size:38 final size:38
Alignment explanation
Indices: 94705570--94705719 Score: 156
Period size: 38 Copynumber: 3.9 Consensus size: 38
94705560 GGCTTAAAGA
* * * *
94705570 CCCGCAGGCTTAATGCTAGAATTATATCCGTGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
*
94705608 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
* * *
94705646 CCCGCAGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCG-GGTTAAA-T
* * * * * *
94705686 CTCGTAGGCTTCGTGCTGGTGTTATGTTCGGGTT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTT
94705720 TTATACCTCG
Statistics
Matches: 92, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
38 60 0.65
39 9 0.10
40 23 0.25
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
Found at i:94705718 original size:78 final size:77
Alignment explanation
Indices: 94705554--94705719 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 77
94705544 ATTTGATGTG
* *
94705554 TATTCGGGCTTAAAGACCCGCAGGCTTAATGCTAGAATTATATCCGTGTTAAATCCCGCAGGCTT
1 TATTCGGG-TTAAAGACCCGCAGGCCTAATGCTAGAATTATATCCGAGTTAAATCCCGCAGGCTT
94705619 CGTGCTGGTATTA
65 CGTGCTGGTATTA
* * * * * * * *
94705632 TATCCGGGTTAAA-TCCCGCAGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGTCTCGTAGGCT
1 TATTCGGGTTAAAGACCCGCAGGCCTAATGCTAGAATTATATCCGAG-TTAAA-TCCCGCAGGCT
*
94705696 TCGTGCTGGTGTTA
64 TCGTGCTGGTATTA
*
94705710 TGTTCGGGTT
1 TATTCGGGTT
94705720 TTATACCTCG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
76 26 0.36
77 10 0.14
78 37 0.51
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (77 bp):
TATTCGGGTTAAAGACCCGCAGGCCTAATGCTAGAATTATATCCGAGTTAAATCCCGCAGGCTTC
GTGCTGGTATTA
Found at i:94713485 original size:28 final size:28
Alignment explanation
Indices: 94713445--94713521 Score: 145
Period size: 28 Copynumber: 2.8 Consensus size: 28
94713435 ATGTACTAGA
94713445 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
94713473 ATACCCCTATGTATGCAAAATTAGCATT
1 ATACCCCTATGTATGCAAAATTACCATT
94713501 ATACCCCTATGTATGCAAAAT
1 ATACCCCTATGTATGCAAAAT
94713522 GACCTCTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:94713531 original size:28 final size:27
Alignment explanation
Indices: 94713445--94713533 Score: 133
Period size: 28 Copynumber: 3.2 Consensus size: 27
94713435 ATGTACTAGA
94713445 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACC-TT
*
94713473 ATACCCCTATGTATGCAAAATTAGCATT
1 ATACCCCTATGTATGCAAAATTA-CCTT
*
94713501 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATTACCT-T
94713529 ATACC
1 ATACC
94713534 TCCAGGGTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
27 2 0.04
28 53 0.95
29 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (27 bp):
ATACCCCTATGTATGCAAAATTACCTT
Found at i:94713701 original size:27 final size:28
Alignment explanation
Indices: 94713640--94713724 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 28
94713630 TGGAGGAAGC
94713640 GTCCTGGTGGCTA-TGCCACAAATTATCT
1 GTCCTGGTGGC-ACTGCCACAAATTATCT
* * **
94713668 GTTCTGGTGGCCCTGCCACGTA-TATCT
1 GTCCTGGTGGCACTGCCACAAATTATCT
*
94713695 GTCCTGGTGGCACTGCCACAAAATATCT
1 GTCCTGGTGGCACTGCCACAAATTATCT
94713723 GT
1 GT
94713725 ATCTGGTGAC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
27 23 0.49
28 24 0.51
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (28 bp):
GTCCTGGTGGCACTGCCACAAATTATCT
Found at i:94713743 original size:29 final size:28
Alignment explanation
Indices: 94713640--94713743 Score: 77
Period size: 28 Copynumber: 3.7 Consensus size: 28
94713630 TGGAGGAAGC
* *
94713640 GTCCTGGTGGCTA-TGCCACAAATTATCT
1 GTCCTGGTGAC-ACTGCCACAAAATATCT
* * * **
94713668 GTTCTGGTGGCCCTGCCAC-GTATATCT
1 GTCCTGGTGACACTGCCACAAAATATCT
*
94713695 GTCCTGGTGGCACTGCCACAAAATATCT
1 GTCCTGGTGACACTGCCACAAAATATCT
* * *
94713723 GTATCTGGTGACTCTGTCACA
1 GT-CCTGGTGACACTGCCACA
94713744 TTTTCTGTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
27 22 0.37
28 24 0.40
29 14 0.23
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (28 bp):
GTCCTGGTGACACTGCCACAAAATATCT
Found at i:94713751 original size:55 final size:55
Alignment explanation
Indices: 94713640--94713744 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
94713630 TGGAGGAAGC
* * *
94713640 GTCCTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCT
1 GTCCTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCT
* *
94713695 GTCCTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT
1 GTCCTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAT
94713745 TTTCTGTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
54 1 0.02
55 27 0.63
56 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (55 bp):
GTCCTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCT
Found at i:94714220 original size:19 final size:19
Alignment explanation
Indices: 94714196--94714234 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
94714186 TTTTAATTAT
* *
94714196 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
94714215 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
94714234 T
1 T
94714235 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:94714891 original size:38 final size:38
Alignment explanation
Indices: 94714832--94714951 Score: 161
Period size: 38 Copynumber: 3.1 Consensus size: 38
94714822 ATTTGATGTG
* *
94714832 TATCCGGGCTTAAAGACCCGCAGGCTTTATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTTATGCTGGTATTA
* *
94714872 TATCCGTGTTAAATCCCGCAGGCTTCATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTATGCTGGTATTA
*
94714910 TATCCGGGTTAAATCCCGCAGGC-CTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTA-TGCTGGTATTA
94714948 TATC
1 TATC
94714952 TGAGTTTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 59 0.82
39 5 0.07
40 7 0.10
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTTATGCTGGTATTA
Found at i:94725747 original size:68 final size:71
Alignment explanation
Indices: 94725651--94725788 Score: 196
Period size: 68 Copynumber: 2.0 Consensus size: 71
94725641 TTTAATAATT
* *
94725651 TTAATATTAAATTTAATTTAATTCTTATCTTGATAG-T-AT-TT-TATTAATTTAATATTAAATT
1 TTAATATTAAATTTAATTTAATTCTTATCTT-ATAGATAATATTCTATTAATTTAATACTAAAAT
94725712 GATTATC
65 GATTATC
94725719 TTAATATTAAATTTAATTTAATAT-TTATCTTATAGATAAATATTCTATTAATTTAATACTAAAA
1 TTAATATTAAATTTAATTTAAT-TCTTATCTTATAGAT-AATATTCTATTAATTTAATACTAAAA
94725783 TGATTA
64 TGATTA
94725789 AGTTTAACAA
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
67 4 0.06
68 30 0.48
69 1 0.02
70 2 0.03
71 2 0.03
72 23 0.37
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (71 bp):
TTAATATTAAATTTAATTTAATTCTTATCTTATAGATAATATTCTATTAATTTAATACTAAAATG
ATTATC
Found at i:94733047 original size:77 final size:76
Alignment explanation
Indices: 94732884--94733287 Score: 308
Period size: 77 Copynumber: 5.2 Consensus size: 76
94732874 AGAAATTAGC
* * * * * * *
94732884 GAACTGTTAGAATATCGAAAGTTGCGATCTTAAATCAGCGAAGCGTAAAAATTATAGACGCAATA
1 GAACTGTTAAAATATCGAAGGTTGCGATCTTAATTGAGCGAACCGTAAAAATGACAGACGCAATA
94732949 TTAAGTCAAGT
66 TTAAGTCAAGT
* * * *
94732960 GAACTGTTAAAATATAGAAGGTTGCGATCTTAAGTTGAACGAACCGTAAAAATGACAGTCGCGAT
1 GAACTGTTAAAATATCGAAGGTTGCGATCTTAA-TTGAGCGAACCGTAAAAATGACAGACGCAAT
*
94733025 ATT-AGATCAATT
65 ATTAAG-TCAAGT
* * * * ** * * * *
94733037 GAACTATTAAAATATCGAAGGTCGCAATCTTTAATCGAGCGAACCGTAAAAACCATAGCCGTAAC
1 GAACTGTTAAAATATCGAAGGTTGCGATC-TTAATTGAGCGAACCGTAAAAATGACAGACGCAAT
* * *
94733102 ATTAAATCGAGC
65 ATTAAGTCAAGT
* * * * * * * * *
94733114 AAACTGTTAGAATATCGAAGGTTGTGATCTTTAATCGAGCGAACCGTAAAAATCATAGCCGTAAC
1 GAACTGTTAAAATATCGAAGGTTGCGATC-TTAATTGAGCGAACCGTAAAAATGACAGACGCAAT
* * *
94733179 ATTAAATCGAGC
65 ATTAAGTCAAGT
* * * * * * *
94733191 AAACTGTTAGAATATCGAAGGTCGAGATCTTAAAATTAAGCGAACCGTAAATATGACA-ACCGCG
1 GAACTGTTAAAATATCGAAGGTTGCGATCTT--AATTGAGCGAACCGTAAAAATGACAGA-CGCA
* *
94733255 ATATTAAATCAAGC
63 ATATTAAGTCAAGT
*
94733269 GAACTGTTAGAATATCGAA
1 GAACTGTTAAAATATCGAA
94733288 TATCGCGATA
Statistics
Matches: 272, Mismatches: 49, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
76 34 0.12
77 181 0.67
78 57 0.21
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (76 bp):
GAACTGTTAAAATATCGAAGGTTGCGATCTTAATTGAGCGAACCGTAAAAATGACAGACGCAATA
TTAAGTCAAGT
Found at i:94733110 original size:37 final size:37
Alignment explanation
Indices: 94733069--94733190 Score: 104
Period size: 37 Copynumber: 3.2 Consensus size: 37
94733059 CGCAATCTTT
94733069 AATCGAGCGAACCGTAAAAACCATAGCCGTAACATTA
1 AATCGAGCGAACCGTAAAAACCATAGCCGTAACATTA
* * * * ** * *
94733106 AATCGAGCAAACTGTTAGAATATCGA-AGGTTGTGATC-TTT
1 AATCGAGCGAACCG-TA-AA-AACCATA-GCCGT-AACATTA
*
94733146 AATCGAGCGAACCGTAAAAATCATAGCCGTAACATTA
1 AATCGAGCGAACCGTAAAAACCATAGCCGTAACATTA
94733183 AATCGAGC
1 AATCGAGC
94733191 AAACTGTTAG
Statistics
Matches: 61, Mismatches: 17, Indels: 14
0.66 0.18 0.15
Matches are distributed among these distances:
36 2 0.03
37 27 0.44
38 5 0.08
39 5 0.08
40 20 0.33
41 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCGAGCGAACCGTAAAAACCATAGCCGTAACATTA
Found at i:94733205 original size:154 final size:153
Alignment explanation
Indices: 94732885--94733287 Score: 405
Period size: 154 Copynumber: 2.6 Consensus size: 153
94732875 GAAATTAGCG
* * * * * *
94732885 AACTGTTAGAATATCGAAAGTTGCGATCTTAAATCAGCGAAGCGTAAAAATTATAGACGCAATAT
1 AACTGTTAGAATATCGAAGGTCGCAATCTTAAATCAGCGAACCGTAAAAATCATAGCCGCAATAT
* * * * * *
94732950 TAAGTCAAGTGAACTGTTAAAATATAGAAGGTTGCGATCTTAAGTTGAACGAACCGTAAAAATGA
66 TAAATCAAGCGAACTGTTAGAATATCGAAGGTTGCGATCTTAAGTCGAACGAACCGTAAAAATCA
* * * * ***
94733015 CAGTCGCGATATTAGATCAATTG
131 CAGCCGCAACATTAAATCAAGCA
* * * * * *
94733038 AACTATTAAAATATCGAAGGTCGCAATCTTTAATCGAGCGAACCGTAAAAACCATAGCCGTAACA
1 AACTGTTAGAATATCGAAGGTCGCAATCTTAAATC-AGCGAACCGTAAAAATCATAGCCGCAATA
* * * *
94733103 TTAAATCGAGCAAACTGTTAGAATATCGAAGGTTGTGATCTTTAA-TCGAGCGAACCGTAAAAAT
65 TTAAATCAAGCGAACTGTTAGAATATCGAAGGTTGCGATC-TTAAGTCGAACGAACCGTAAAAAT
* * *
94733167 CATAGCCGTAACATTAAATCGAGCA
129 CACAGCCGCAACATTAAATCAAGCA
* * * * * *
94733192 AACTGTTAGAATATCGAAGGTCG-AGATCTTAAAATTAAGCGAACCGTAAATATGACAACCGCGA
1 AACTGTTAGAATATCGAAGGTCGCA-ATCTT-AAA-TCAGCGAACCGTAAAAATCATAGCCGCAA
94733256 TATTAAATCAAGCGAACTGTTAGAATATCGAA
63 TATTAAATCAAGCGAACTGTTAGAATATCGAA
94733288 TATCGCGATA
Statistics
Matches: 199, Mismatches: 46, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
153 30 0.15
154 113 0.57
155 55 0.28
156 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (153 bp):
AACTGTTAGAATATCGAAGGTCGCAATCTTAAATCAGCGAACCGTAAAAATCATAGCCGCAATAT
TAAATCAAGCGAACTGTTAGAATATCGAAGGTTGCGATCTTAAGTCGAACGAACCGTAAAAATCA
CAGCCGCAACATTAAATCAAGCA
Found at i:94733303 original size:40 final size:39
Alignment explanation
Indices: 94733179--94733305 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 39
94733169 TAGCCGTAAC
* * * *
94733179 ATTAAATCGAGCAAACTGTTAGAATATCGAAGGTCGAGAT
1 ATTAAATCAAGCGAACTGTTAGAATATCGAA-ATCGCGAT
* * * *
94733219 CTTAAAATTAAGCGAACCG-TA-AATAT-GACAACCGCGAT
1 ATT-AAATCAAGCGAACTGTTAGAATATCGA-AATCGCGAT
94733257 ATTAAATCAAGCGAACTGTTAGAATATCGAATATCGCGAT
1 ATTAAATCAAGCGAACTGTTAGAATATCGAA-ATCGCGAT
*
94733297 AGTAAATCA
1 ATTAAATCA
94733306 GCAAACCTAC
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
37 13 0.19
38 11 0.16
39 12 0.18
40 21 0.31
41 11 0.16
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (39 bp):
ATTAAATCAAGCGAACTGTTAGAATATCGAAATCGCGAT
Found at i:94738935 original size:25 final size:25
Alignment explanation
Indices: 94738906--94738953 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94738896 TTATAATATG
* * *
94738906 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
94738931 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
94738954 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:94739015 original size:20 final size:20
Alignment explanation
Indices: 94738990--94739049 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
94738980 ATTTTGATAA
94738990 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
94739010 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
94739030 ACATGATAGGTATGATATGC
1 ACATGATATGTATGATATGC
94739050 GCACGAGATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:94739161 original size:23 final size:24
Alignment explanation
Indices: 94739106--94739224 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
94739096 GAGGAAGTGC
94739106 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
94739130 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
94739154 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
94739177 AAAAAAGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
94739201 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94739225 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
23 28 0.32
24 43 0.49
25 16 0.18
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:94739176 original size:47 final size:47
Alignment explanation
Indices: 94739107--94739203 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
94739097 AGGAAGTGCA
*
94739107 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGCTT-TGCCCCAGTTATT
94739154 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGCTTTGCCCCAGTTATT
94739201 AAA
1 AAA
94739204 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 39 0.81
48 9 0.19
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAAGGCTTTGCCCCAGTTATT
Found at i:94742770 original size:16 final size:17
Alignment explanation
Indices: 94742742--94742773 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94742732 ATAAATTTTT
94742742 AAAATGTATAAATATAA
1 AAAATGTATAAATATAA
94742759 AAAATGTA-AAATATA
1 AAAATGTATAAATATA
94742774 TACATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAATGTATAAATATAA
Found at i:94743800 original size:3 final size:3
Alignment explanation
Indices: 94743792--94743872 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
94743782 TTAATATGGA
94743792 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
94743840 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
94743873 ATATATAAAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:94743978 original size:19 final size:18
Alignment explanation
Indices: 94743956--94744000 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
94743946 AACGAAAAGC
*
94743956 AGGAGAAGGAAAGAAAGAA
1 AGGAGAAGAAAAGAAA-AA
94743975 AGGAGAAAGAAAAGAAAAA
1 AGGAG-AAGAAAAGAAAAA
*
94743994 GGGAGAA
1 AGGAGAA
94744001 TTTGAGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 10 0.43
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
AGGAGAAGAAAAGAAAAA
Found at i:94744866 original size:2 final size:2
Alignment explanation
Indices: 94744859--94744884 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94744849 CAAATTATGA
94744859 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
94744885 GATTGTTGAG
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:94745131 original size:57 final size:59
Alignment explanation
Indices: 94745039--94745166 Score: 145
Period size: 57 Copynumber: 2.2 Consensus size: 59
94745029 AAGTGTCGCC
* * * * * *
94745039 TTACTGTTACTGTTTCGGATTCGTTCTGAAGAGGTACTC-CGTACC-TTACTGTTATTG
1 TTACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTACTCACGTACCACTACTATTACTG
* *
94745096 TTACTGTTACTGTTCCAGATTTGTTCCGATA-AGGTACTCTATGTACCACTACTATTACTG
1 TTACTGTTACTGTTCCAGATTCGTTCCGA-AGAGGTACTC-ACGTACCACTACTATTACTG
94745156 TTACTGTTACT
1 TTACTGTTACT
94745167 ATTACTATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
57 33 0.56
58 1 0.02
59 5 0.08
60 20 0.34
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (59 bp):
TTACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTACTCACGTACCACTACTATTACTG
Found at i:94745159 original size:6 final size:6
Alignment explanation
Indices: 94745145--94745189 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
94745135 TATGTACCAC
* * * *
94745145 TACTAT TACTGT TACTGT TACTAT TACTAT TACTGT TACCAT TAC
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TAC
94745190 GGTGTATTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (6 bp):
TACTAT
Found at i:94745165 original size:12 final size:12
Alignment explanation
Indices: 94745145--94745189 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
94745135 TATGTACCAC
94745145 TACTATTACTGT
1 TACTATTACTGT
* *
94745157 TACTGTTACTAT
1 TACTATTACTGT
94745169 TACTATTACTGT
1 TACTATTACTGT
*
94745181 TACCATTAC
1 TACTATTAC
94745190 GGTGTATTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (12 bp):
TACTATTACTGT
Found at i:94745168 original size:18 final size:18
Alignment explanation
Indices: 94745145--94745189 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
94745135 TATGTACCAC
*
94745145 TACTATTACTGTTACTGT
1 TACTATTACTATTACTGT
94745163 TACTATTACTATTACTGT
1 TACTATTACTATTACTGT
*
94745181 TACCATTAC
1 TACTATTAC
94745190 GGTGTATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (18 bp):
TACTATTACTATTACTGT
Found at i:94745333 original size:18 final size:17
Alignment explanation
Indices: 94745296--94745334 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
94745286 TAAATAAAGG
* *
94745296 TACTGAATAATTATTGC
1 TACTGAATAATGACTGC
94745313 TACTGAATAACTGACTGC
1 TACTGAATAA-TGACTGC
94745331 TACT
1 TACT
94745335 CTGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (17 bp):
TACTGAATAATGACTGC
Found at i:94746796 original size:12 final size:12
Alignment explanation
Indices: 94746779--94746819 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
94746769 GCTGTAGTTA
94746779 ATTCTCTTTCTT
1 ATTCTCTTTCTT
*
94746791 ATTCTCTTGT-TA
1 ATTCTCTT-TCTT
94746803 ATTCTCTTTCTT
1 ATTCTCTTTCTT
94746815 ATTCT
1 ATTCT
94746820 TGCTCCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTCTCTTTCTT
Found at i:94747595 original size:105 final size:107
Alignment explanation
Indices: 94747362--94747682 Score: 430
Period size: 108 Copynumber: 3.0 Consensus size: 107
94747352 GGCCAGGCCG
* * *
94747362 TGTGGCACACATGGCCAATTGACATGCCCGTGTTGTAACCCGTGTAAGCATTGGATGTGAGGCAC
1 TGTGGCACACATGGCCAAGTGACATGCCCGTGTTGTAAACCGTGTGAGCATTGGATGTGAGG-AC
* * * *
94747427 ACAGCTATGTCCCAGCCTGTGCTCATGCCATTCAAAGTGTGAT
65 ACAGCTGTGTCCTAGCCCGTGCTCATGCCAATCAAAGTGTGAT
* ** * *
94747470 TGTTGCACACATGGCCAAGTGACATGCCTATGTTGTAAGCCGTGTGAGCATTGAATGTGAGG-CA
1 TGTGGCACACATGGCCAAGTGACATGCCCGTGTTGTAAACCGTGTGAGCATTGGATGTGAGGACA
* *
94747534 CA-CTGTGTCCTAACCCATGCTCATGCCAATCAAAGTGTGAT
66 CAGCTGTGTCCTAGCCCGTGCTCATGCCAATCAAAGTGTGAT
* * *
94747575 TGTGGCACACATGGCCAAGTGACATGCCCGTGTCGTAAACTGTGTGGGCATTGGATGTGAGGCAC
1 TGTGGCACACATGGCCAAGTGACATGCCCGTGTTGTAAACCGTGTGAGCATTGGATGTGAGG-AC
* * *
94747640 ACAGCTGTATCCTAGCCCGTACTCATGCCAGTCAAAGTGTGAT
65 ACAGCTGTGTCCTAGCCCGTGCTCATGCCAATCAAAGTGTGAT
94747683 GGAATTACTA
Statistics
Matches: 184, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
105 87 0.47
106 4 0.02
107 4 0.02
108 89 0.48
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (107 bp):
TGTGGCACACATGGCCAAGTGACATGCCCGTGTTGTAAACCGTGTGAGCATTGGATGTGAGGACA
CAGCTGTGTCCTAGCCCGTGCTCATGCCAATCAAAGTGTGAT
Found at i:94748635 original size:24 final size:24
Alignment explanation
Indices: 94748589--94748649 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
94748579 TTATTTGTTT
94748589 CTATTTGTTTATCAGATTCTGTATTA
1 CTATTTG-TT-TCAGATTCTGTATTA
*
94748615 CTATTTGTTTCCGATTCTGTATTA
1 CTATTTGTTTCAGATTCTGTATTA
*
94748639 CTATTCGTTTC
1 CTATTTGTTTC
94748650 TATTTCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 24 0.73
25 2 0.06
26 7 0.21
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.54
Consensus pattern (24 bp):
CTATTTGTTTCAGATTCTGTATTA
Found at i:94751602 original size:5 final size:5
Alignment explanation
Indices: 94751594--94751621 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
94751584 AACCTAAATT
94751594 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
94751622 CTTTTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:94753928 original size:18 final size:17
Alignment explanation
Indices: 94753885--94753947 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 17
94753875 AAGTATTTAG
94753885 AAAAATATTATAAAATAATAT
1 AAAAATA-TATAAAAT--T-T
94753906 AAAAATAGTATAAAATTT
1 AAAAATA-TATAAAATTT
*
94753924 AAAAAT-TATTAAAAATT
1 AAAAATATA-TAAAATTT
94753941 AAAAATA
1 AAAAATA
94753948 AGCTATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.05
17 13 0.34
18 7 0.18
19 1 0.03
21 15 0.39
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAATATATAAAATTT
Found at i:94753940 original size:10 final size:9
Alignment explanation
Indices: 94753885--94753947 Score: 51
Period size: 10 Copynumber: 6.8 Consensus size: 9
94753875 AAGTATTTAG
94753885 AAAAATATT
1 AAAAATATT
94753894 ATAAAATAATAT
1 A-AAAAT-AT-T
*
94753906 AAAAATAGT
1 AAAAATATT
94753915 ATAAAAT-TT
1 A-AAAATATT
94753924 AAAAATTATT
1 AAAAA-TATT
94753934 -AAAA-ATT
1 AAAAATATT
94753941 AAAAATA
1 AAAAATA
94753948 AGCTATATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
7 3 0.07
8 8 0.18
9 11 0.25
10 13 0.30
11 7 0.16
12 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:94754589 original size:28 final size:30
Alignment explanation
Indices: 94754545--94754674 Score: 92
Period size: 30 Copynumber: 4.3 Consensus size: 30
94754535 ATTCTAAATT
94754545 TTTTTTATAACATTT-A-ACATTTTCTATA
1 TTTTTTATAACATTTAATACATTTTCTATA
* *
94754573 TTTTTTATAA-TTATTAATAGATTTTCTATA
1 TTTTTTATAACAT-TTAATACATTTTCTATA
* *
94754603 TTTTTCTATAA-AGTTGTGTAATA-TTTTTCTAAAA
1 TTTTT-TATAACA--T-T-TAATACATTTTCT-ATA
* *
94754637 TTTCTTATAACATTTAA-AAATTTTCTATA
1 TTTTTTATAACATTTAATACATTTTCTATA
*
94754666 ATTTTTATA
1 TTTTTTATA
94754675 TTTTCAATCA
Statistics
Matches: 81, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
27 1 0.01
28 12 0.15
29 11 0.14
30 25 0.31
31 6 0.07
32 1 0.01
33 13 0.16
34 12 0.15
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTTTTATAACATTTAATACATTTTCTATA
Found at i:94754677 original size:18 final size:18
Alignment explanation
Indices: 94754656--94754692 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
94754646 ACATTTAAAA
*
94754656 ATTTTCTATAATTTTTAT
1 ATTTTCAATAATTTTTAT
*
94754674 ATTTTCAATCATTTTTAT
1 ATTTTCAATAATTTTTAT
94754692 A
1 A
94754693 ATTATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTCAATAATTTTTAT
Found at i:94755050 original size:16 final size:15
Alignment explanation
Indices: 94755025--94755068 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
94755015 TGTTTGTGGA
94755025 TTTTTAAAAAATATT
1 TTTTTAAAAAATATT
*
94755040 TTTTTATAAAAGTATT
1 TTTTTA-AAAAATATT
* *
94755056 ATTTTAAGAAATA
1 TTTTTAAAAAATA
94755069 AATTTCATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TTTTTAAAAAATATT
Found at i:94757762 original size:14 final size:14
Alignment explanation
Indices: 94757743--94757776 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
94757733 TCTATTACAA
94757743 TTACTTAGATTATT
1 TTACTTAGATTATT
94757757 TTACTTAGATTATT
1 TTACTTAGATTATT
94757771 TT-CTTA
1 TTACTTA
94757777 AATCCATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (14 bp):
TTACTTAGATTATT
Found at i:94761073 original size:35 final size:37
Alignment explanation
Indices: 94761011--94761092 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 37
94761001 TTTTTCTTGT
* * *
94761011 AAAATAACTTATTGTTTACATAAATTATTTTT-T-TA
1 AAAATAACTCATTGTATAAATAAATTATTTTTATATA
94761046 AAAATAACTCATT-TATAAATAATATTATTTTTATATA
1 AAAATAACTCATTGTATAAATAA-ATTATTTTTATATA
94761083 AAAATTAACT
1 AAAA-TAACT
94761093 TCAATTAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
34 7 0.17
35 21 0.52
36 1 0.03
37 6 0.15
38 5 0.12
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (37 bp):
AAAATAACTCATTGTATAAATAAATTATTTTTATATA
Found at i:94761146 original size:20 final size:20
Alignment explanation
Indices: 94761104--94761146 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
94761094 CAATTAAACC
* *
94761104 TAATTTTTTTATATTGATAA
1 TAATTTTTTAATATTAATAA
* *
94761124 TAATTTTTTAATTTTAATTA
1 TAATTTTTTAATATTAATAA
94761144 TAA
1 TAA
94761147 AAATTAAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TAATTTTTTAATATTAATAA
Found at i:94761777 original size:19 final size:19
Alignment explanation
Indices: 94761739--94761778 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94761729 CTTTCCTACT
* *
94761739 TTAATGCGTCAATATATAC
1 TTAATGCATCAATAGATAC
*
94761758 TTAATGCATCAATAGGTAC
1 TTAATGCATCAATAGATAC
94761777 TT
1 TT
94761779 TCATATATAT
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:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
TTAATGCATCAATAGATAC
Found at i:94765883 original size:12 final size:12
Alignment explanation
Indices: 94765862--94765891 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
94765852 TATTTTATTT
*
94765862 TTAATAAAAATA
1 TTAATTAAAATA
94765874 TTAATTAAAATA
1 TTAATTAAAATA
94765886 TTAATT
1 TTAATT
94765892 GTTTCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAATTAAAATA
Found at i:94766004 original size:9 final size:9
Alignment explanation
Indices: 94765981--94766046 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 9
94765971 TGTCACACTA
94765981 ATAAATAATT
1 ATAAA-AATT
*
94765991 TTAAAAATT
1 ATAAAAATT
94766000 ATAAAAAAATT
1 AT--AAAAATT
94766011 ATAAAAA-T
1 ATAAAAATT
94766019 -T-AAAATT
1 ATAAAAATT
94766026 ATAAAAATTT
1 ATAAAAA-TT
94766036 CATAAAAATT
1 -ATAAAAATT
94766046 A
1 A
94766047 ACATGAAGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
6 4 0.09
7 2 0.04
8 2 0.04
9 15 0.32
10 8 0.17
11 16 0.34
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:94766025 original size:15 final size:15
Alignment explanation
Indices: 94766005--94766034 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94765995 AAATTATAAA
94766005 AAAATTATAAAAATT
1 AAAATTATAAAAATT
94766020 AAAATTATAAAAATT
1 AAAATTATAAAAATT
94766035 TCATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTATAAAAATT
Found at i:94766040 original size:26 final size:26
Alignment explanation
Indices: 94765994--94766047 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
94765984 AATAATTTTA
94765994 AAAATTATAAAAAAATTATAAAAATT
1 AAAATTATAAAAAAATTATAAAAATT
*
94766020 AAAATTAT-AAAAATTTCATAAAAATT
1 AAAATTATAAAAAAATT-ATAAAAATT
94766046 AA
1 AA
94766048 CATGAAGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAATTATAAAAAAATTATAAAAATT
Found at i:94769295 original size:19 final size:20
Alignment explanation
Indices: 94769273--94769316 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
94769263 GTTCATCGAC
*
94769273 AAATAATTTAAAA-ATTAAA
1 AAATAATATAAAATATTAAA
*
94769292 AAAT-ATATAAAATATTTAA
1 AAATAATATAAAATATTAAA
94769311 AAATAA
1 AAATAA
94769317 AATTAACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 13 0.62
20 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAATATAAAATATTAAA
Found at i:94770451 original size:2 final size:2
Alignment explanation
Indices: 94770444--94770469 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94770434 AAAATTATTT
94770444 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
94770470 ATACACTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94770528 original size:22 final size:22
Alignment explanation
Indices: 94770497--94770538 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
94770487 AAAAAAAGAC
*
94770497 TAATATTAAAATAGTAGCAACA
1 TAATAGTAAAATAGTAGCAACA
94770519 TAATAGTAAAATAGTAGCAA
1 TAATAGTAAAATAGTAGCAA
94770539 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (22 bp):
TAATAGTAAAATAGTAGCAACA
Found at i:94770542 original size:11 final size:11
Alignment explanation
Indices: 94770504--94770543 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
94770494 GACTAATATT
94770504 AAAATAGTAGC
1 AAAATAGTAGC
* * *
94770515 AACATAATAGT
1 AAAATAGTAGC
94770526 AAAATAGTAGC
1 AAAATAGTAGC
94770537 AAAATAG
1 AAAATAG
94770544 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:94770849 original size:6 final size:6
Alignment explanation
Indices: 94770834--94770873 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
94770824 ATTAGTAATT
94770834 TAAA-A TAAATA TAAATA TAAATA TAAATA T--ATA TAAATA T
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA T
94770874 TATTTAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.12
5 4 0.12
6 24 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:94770885 original size:22 final size:22
Alignment explanation
Indices: 94770830--94770898 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
94770820 TTGGATTAGT
*
94770830 AATTTAAAATAAATATAAATATA
1 AATTT-AAATATATATAAATATA
*
94770853 AATATAAATATATATAAATAT-
1 AATTTAAATATATATAAATATA
* *
94770874 TATTTAACATATATAATTAATATA
1 AATTTAA-ATATAT-ATAAATATA
94770898 A
1 A
94770899 TATTATTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
21 5 0.14
22 21 0.57
23 11 0.30
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTAAATATATATAAATATA
Found at i:94770914 original size:29 final size:30
Alignment explanation
Indices: 94770849--94770920 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
94770839 TAAATATAAA
*
94770849 TATAA-ATATAAATATATATAAATATTATT
1 TATAATATATAATTATATATAAATATTATT
94770878 TA-ACATATATAATTA-ATAT-AATATTATTT
1 TATA-ATATATAATTATATATAAATATTA-TT
*
94770907 TATAATATAAAATT
1 TATAATATATAATT
94770921 TTGGTCTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 8 0.22
29 20 0.54
30 9 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
TATAATATATAATTATATATAAATATTATT
Found at i:94771895 original size:15 final size:15
Alignment explanation
Indices: 94771874--94771904 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
94771864 TCCTGCACCC
94771874 AAAAAAAATAAAAAAT
1 AAAAAAAA-AAAAAAT
94771890 AAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAT
94771905 CTCTCTCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAAAAAAT
Found at i:94777032 original size:18 final size:18
Alignment explanation
Indices: 94776985--94777032 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
94776975 GTTTTTTGAA
94776985 TTTTTAAGAATTT--TTTT
1 TTTTTAA-AATTTAATTTT
*
94777002 TTTTGAAAA-TTAATTTT
1 TTTTTAAAATTTAATTTT
94777019 TTTTTAAAATTTAA
1 TTTTTAAAATTTAA
94777033 ATTATTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 18 0.69
18 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTAAAATTTAATTTT
Found at i:94784124 original size:13 final size:13
Alignment explanation
Indices: 94784106--94784130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94784096 GCCGGTTTCC
94784106 ATTTATTTTTTTG
1 ATTTATTTTTTTG
94784119 ATTTATTTTTTT
1 ATTTATTTTTTT
94784131 TCAATTTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
ATTTATTTTTTTG
Found at i:94785106 original size:10 final size:10
Alignment explanation
Indices: 94785091--94785139 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
94785081 AATTTTAGTT
*
94785091 TTTATCTTTG
1 TTTATCTTTA
94785101 TTTATCTTTA
1 TTTATCTTTA
*
94785111 ATTATCTTTA
1 TTTATCTTTA
94785121 TTTAT-TTGTA
1 TTTATCTT-TA
94785131 TTTATCTTT
1 TTTATCTTT
94785140 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:94787603 original size:3 final size:3
Alignment explanation
Indices: 94787595--94787724 Score: 63
Period size: 3 Copynumber: 44.0 Consensus size: 3
94787585 TAAATTAATA
* * * *
94787595 TAT TAT TAT TACT TAT TAT T-T TAC TAT TAT TAT TAT TGT CAT GAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
94787640 TAT CAC TAT TAT TAT TAC T-T TAC TAT TAT AAT T-T AAT GTAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
** * *
94787684 CCT TAT TAT TAT T-T TTT TAC TAT T-T TCAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
94787725 CTTCATACTA
Statistics
Matches: 92, Mismatches: 27, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
2 8 0.09
3 77 0.84
4 7 0.08
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:94787627 original size:24 final size:26
Alignment explanation
Indices: 94787595--94787659 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
94787585 TAAATTAATA
* *
94787595 TATTATTATTACTT-ATTATT-TTAC
1 TATTATTATTACTTCATGATTATCAC
*
94787619 TATTATTATTATTGTCATGATTATCAC
1 TATTATTATTACT-TCATGATTATCAC
94787646 TATTATTATTACTT
1 TATTATTATTACTT
94787660 TACTATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 12 0.35
25 1 0.03
26 6 0.18
27 15 0.44
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.58
Consensus pattern (26 bp):
TATTATTATTACTTCATGATTATCAC
Found at i:94787655 original size:44 final size:44
Alignment explanation
Indices: 94787600--94787716 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 44
94787590 TAATATATTA
*
94787600 TTATTACTTATTATTTTACTATTATTATTATTGTCATG-ATTATCAC
1 TTATTA-TTATTATTTTACTATTATTATTATT-TAATGTATTATC-C
* *
94787646 -TATTATTATTACTTTACTATTA-TA--ATTTAATGTATTGTCC
1 TTATTATTATTATTTTACTATTATTATTATTTAATGTATTATCC
*
94787686 TTATTATTATTTTTTTACTATT-TTCATTATT
1 TTATTATTATTATTTTACTATTATT-ATTATT
94787717 ATTATTATCT
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
40 5 0.08
41 28 0.47
42 1 0.02
43 2 0.03
44 19 0.32
45 5 0.08
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.60
Consensus pattern (44 bp):
TTATTATTATTATTTTACTATTATTATTATTTAATGTATTATCC
Found at i:94787834 original size:7 final size:7
Alignment explanation
Indices: 94787786--94787845 Score: 59
Period size: 7 Copynumber: 8.3 Consensus size: 7
94787776 TCTTTTTGTG
94787786 TTTATTTA
1 TTTA-TTA
*
94787794 TTTATTGT
1 TTTATT-A
94787802 TTTATTA
1 TTTATTA
*
94787809 TTAATTAA
1 TTTATT-A
*
94787817 TTTAGTA
1 TTTATTA
94787824 -TTATTA
1 TTTATTA
94787830 TTTATTA
1 TTTATTA
94787837 TTTATTA
1 TTTATTA
94787844 TT
1 TT
94787846 GTCCTTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
6 5 0.12
7 23 0.53
8 15 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:94787941 original size:3 final size:3
Alignment explanation
Indices: 94787933--94788074 Score: 90
Period size: 3 Copynumber: 46.0 Consensus size: 3
94787923 TTGTTGCGTC
* * * * *
94787933 ATT ATT ATT GTT ATT GTT ACT GTT ATT ATT CATGT ATAT ATT ATG ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T AT-T ATT ATT ATT
* ** * * * * * *
94787981 ATT GTT ATT ATT AAC ACTC A-T ATC GTT ACT ATT ATT TTT ATT CCTT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
94788027 -TT ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
94788072 ATT
1 ATT
94788075 GTCACTATCA
Statistics
Matches: 106, Mismatches: 26, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
2 3 0.03
3 88 0.83
4 14 0.13
5 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:94788618 original size:33 final size:33
Alignment explanation
Indices: 94788576--94788640 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
94788566 GCAATGATCC
94788576 GTATTTGGAATTTCGAGAAAATCGTGCCCTAAT
1 GTATTTGGAATTTCGAGAAAATCGTGCCCTAAT
*
94788609 GTATTTGGAATTTCGAGAAAATTGTGCCCTAA
1 GTATTTGGAATTTCGAGAAAATCGTGCCCTAA
94788641 CTTACTGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (33 bp):
GTATTTGGAATTTCGAGAAAATCGTGCCCTAAT
Found at i:94789438 original size:20 final size:21
Alignment explanation
Indices: 94789401--94789442 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
94789391 GATTCATGCA
94789401 TAAGTTTAGAAGAAACACATG
1 TAAGTTTAGAAGAAACACATG
*
94789422 TAAGTTTAG-ATAAACACATG
1 TAAGTTTAGAAGAAACACATG
94789442 T
1 T
94789443 TAAAATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
TAAGTTTAGAAGAAACACATG
Found at i:94792486 original size:23 final size:24
Alignment explanation
Indices: 94792451--94792495 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
94792441 TCTTTACCCC
*
94792451 TTTTGTTACTTTT-GTCTTTAACTT
1 TTTTATTACTTTTAG-CTTTAACTT
94792475 TTTTATTA-TTTTAGCTTTAAC
1 TTTTATTACTTTTAGCTTTAAC
94792496 CATTAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.18, C:0.11, G:0.07, T:0.64
Consensus pattern (24 bp):
TTTTATTACTTTTAGCTTTAACTT
Found at i:94797411 original size:86 final size:85
Alignment explanation
Indices: 94797288--94797539 Score: 285
Period size: 86 Copynumber: 2.9 Consensus size: 85
94797278 TATAAGACTT
* * *
94797288 GTGGCTTTAATCTGTCCACTATTGCTTAGGGAGACAAGATTTGCCATGGTCAG-CCTACTCCACT
1 GTGGCTTAAATCTCTCCACTATTGCTTAGGGAGACAAGATTTGCCAT-CTCAGACCTACTCCACT
94797352 ACTACTAAGGGAGATAGGATG
65 ACTACTAAGGGAGATAGGATG
* * * ** * *
94797373 GTGGCTTAAATCTATTCCACTACTGCTTAGGG-GAACAAGATTTGCCGTCTTGGATCTGCTCCAC
1 GTGGCTTAAATCT-CTCCACTATTGCTTAGGGAG-ACAAGATTTGCCATCTCAGACCTACTCCAC
* *
94797437 TACTGCTTAGGGAGATAGGATG
64 TACTACTAAGGGAGATAGGATG
* * *
94797459 GTGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACAAGATTTGCCATCTTC-GATCTGCTCTAC
1 GTGGCTTAAATCT-CTCCACTATTGCTTAGGGAGACAAGATTTGCCATC-TCAGACCTACTCCAC
* *
94797523 TACTGCTTAGGGAGATA
64 TACTACTAAGGGAGATA
94797540 AGATCTACAA
Statistics
Matches: 145, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
85 15 0.10
86 128 0.88
87 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (85 bp):
GTGGCTTAAATCTCTCCACTATTGCTTAGGGAGACAAGATTTGCCATCTCAGACCTACTCCACTA
CTACTAAGGGAGATAGGATG
Found at i:94797525 original size:130 final size:130
Alignment explanation
Indices: 94797431--94798459 Score: 1529
Period size: 130 Copynumber: 7.9 Consensus size: 130
94797421 CTTGGATCTG
*
94797431 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* *
94797496 AGATTTGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
*
94797561 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * * *
94797626 AAATTTGCCATCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* * * *
94797691 CTCCACTACTGCTTAGGGAGATAGGATGGTGCCTTAAATCTACTCCATTACTACTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* *
94797756 AGATTTTCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* *
94797821 CTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
** * * * * *
94797886 AGATTTTTCGTCTTCGATCTACTCCACTACTGCTTAAGGAGATGAGATCTACAATCTCCAACCTA
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* ** *
94797951 CTCCACTACCGCTTAGGGAGATAGGATGGTGGCTTAAATCTATTCCACTACCGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * * * ** *
94798016 AAATTCGCCGTCTTCGATCTGCTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTCAGCCT
94798081 A
130 A
94798082 CTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGAC
1 CTCCACTACTGC-TTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGAC
* * * *
94798147 AAAATTTGTCGTCTTCGATCTGCTCCAGTACTGCTTAGGAAGATAAGATCTACAATCTTCAGCCT
65 AAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCT
94798212 A
130 A
* * *
94798213 CTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTGCTGCTTAGGAAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * * * * * *
94798278 AGATTCGCCATCTTTGATCTGCTCCACT-GTAACTTCAGGGATACAAGATCTACAATCTTCAGCC
66 AGATTTGCCGTCTTCGATCTGCTCCACTACT-GCTT-AGGGAGATAAGATCTACAATCTTCAGCC
94798342 TA
129 TA
94798344 CTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGAC
1 CTCCACTACTGC-TTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGAC
** * * *
94798409 AAGATTTTTCGTTTTCGATCTGCTTCACTACTGCTTAGGAAGATAAGATCT
65 AAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
94798460 GTGAATTCAC
Statistics
Matches: 805, Mismatches: 88, Indels: 11
0.89 0.10 0.01
Matches are distributed among these distances:
129 1 0.00
130 525 0.65
131 125 0.16
132 153 0.19
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (130 bp):
CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
Found at i:94797531 original size:44 final size:44
Alignment explanation
Indices: 94797296--94798457 Score: 539
Period size: 44 Copynumber: 26.8 Consensus size: 44
94797286 TTGTGGCTTT
* * **
94797296 AATCTG-TCCACTATTGCTTAGGGAGACAAGATTTGCCATGGTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
** * * * * * * *
94797339 AGCCTACTCCACTACTACTAAGGGAGATAGGATGGTG---GCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTC
** * * *
94797381 AATCTATTCCACTACTGCTTAGGG-GAACAAGATTTGCCGTCTTG
1 AATCTGCTCCACTACTGCTTAGGGAG-ATAAGATTTGCCATCTTC
* * * * *
94797425 GATCTGCTCCACTACTGCTTAGGGAGATAGGATGGTG---GCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTC
* *
94797467 AATCTGCTCCACTATTGCTTAGGGAGACAAGATTTGCCATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * * * *
94797511 GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
** * * * * *
94797555 AGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTG---GCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTC
* * *
94797597 AATTTGCTCCACTACTGCTTAGGGAGACAAAATTTGCCATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * * * * *
94797641 GATCTGCTCCACTATTTCTTAGGGAGATAAGATCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
** * * * *
94797685 AGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTG-C--CTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTC
* * * * * * *
94797727 AATCTACTCCATTACTACTTAGGGAGACAAGATTTTCCGTCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * * *
94797771 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
** * * * * * *
94797815 AGCCTACTCCACTACTACTTAGGGAGATAGGATGGTG---GCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTC
* * ** *
94797857 AATCTACTCCACTACTGCTTAGGGAGACAAGATTTTTCGTCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * * * * * * *
94797901 GATCTACTCCACTACTGCTTAAGGAGATGAGATCTACAATCTCC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * * * * * *
94797945 AACCTACTCCACTACCGCTTAGGGAGATAGGATGGTG---GCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTC
** * * * * *
94797987 AATCTATTCCACTACCGCTTAGGGAGACAAAATTCGCCGTCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * * ** * * * *
94798031 GATCTGCTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTC
1 AATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGCCATCTTC
** * * * * *
94798076 AGCCTACTCCACTACTGCTTTAGGGAGATAGGATGGTG---GCTTA
1 AATCTGCTCCACTACTGC-TTAGGGAGATAAGAT-TTGCCATCTTC
* * * *
94798119 AATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGTCGTCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * * * * *
94798163 GATCTGCTCCAGTACTGCTTAGGAAGATAAGATCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
** * * * * * *
94798207 AGCCTACTCCACTACTGTTTAGGGAGATAGGATGGTG---GCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTC
* * * * *
94798249 AATCTGCTCCACTGCTGCTTAGGAAGACAAGATTCGCCATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * * * * * * *
94798293 GATCTGCTCCACT-GTAACTTCAGGGATACAAGATCTACAATCTTC
1 AATCTGCTCCACTACT-GCTT-AGGGAGATAAGATTTGCCATCTTC
** * * * * *
94798338 AGCCTACTCCACTACTGCTTTAGGGAGATAGGATGGTG---GCTTA
1 AATCTGCTCCACTACTGC-TTAGGGAGATAAGAT-TTGCCATCTTC
* ** * *
94798381 AATCTGCTCCACTACTGCTTAGGGAGACAAGATTTTTCGTTTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
* * *
94798425 GATCTGCTTCACTACTGCTTAGGAAGATAAGAT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT
94798458 CTGTGAATTC
Statistics
Matches: 814, Mismatches: 260, Indels: 89
0.70 0.22 0.08
Matches are distributed among these distances:
41 14 0.02
42 231 0.28
43 40 0.05
44 436 0.54
45 86 0.11
46 7 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTC
Found at i:94797605 original size:86 final size:85
Alignment explanation
Indices: 94797512--94798413 Score: 412
Period size: 86 Copynumber: 10.4 Consensus size: 85
94797502 GCCATCTTCG
* *
94797512 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC-ATCTTCAGTCTACTCCACTACTGCTTAG
94797577 GGAGATAGGATGGTGGCTTAA
65 GGAGATAGGATGGTGGCTTAA
* * * * * * * *
94797598 ATTTGCTCCACTACTGCTTAGGGAGACAAAATTTGCCATCTTC-GATCTGCTCCACTATTTCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACATCTTCAG-TCTACTCCACTACTGCTTA
* * ** *
94797662 GGGAGATAAGAT-CTACAATCTTCA
64 GGGAGATAGGATGGT---GGCTTAA
** * * * * * * * *
94797686 GCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGC--CTTAAATCTACTCCATTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTACATCTTCAGTCTACTCCACTACTGCTTAG
* * ** * **
94797749 GGAGACAAGATTTTCCGTCTTTG
65 GGAGATAGGATGGT--GGCTTAA
* *
94797772 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC-ATCTTCAGTCTACTCCACTACTGCTTAG
94797837 GGAGATAGGATGGTGGCTTAA
65 GGAGATAGGATGGTGGCTTAA
* * * * *
94797858 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTTTCGTCTTC-GATCTACTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACATCTTCAG-TCTACTCCACTACTGCTTA
* * * *
94797922 AGGAGAT-GAGAT-CT-ACAATCTCCA
64 GGGAGATAG-GATGGTGGC--T-T-AA
* * * * * ** * * * *
94797946 ACCTACTCCACTACCGCTTAGGGAGATAGGATGGT--GGCTTAAATCTATTCCACTACCGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTACATCTTCAGTCTACTCCACTACTGCTTAG
* ** ** * **
94798009 GGAGACAAAATTCGCCGTCTTCG
65 GGAGATAGGA-T-GGTGGCTTAA
* * ** * *
94798032 ATCTGCTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTT
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTAC-ATCTTCAGTCTACTCCACTACTGC-TT
94798097 AGGGAGATAGGATGGTGGCTTAA
63 AGGGAGATAGGATGGTGGCTTAA
* * * * * * *
94798120 ATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGTCGTCTTC-GATCTGCTCCAGTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACATCTTCAG-TCTACTCCACTACTGCTTA
* * * ** *
94798184 GGAAGATAAGAT-CTACAATCTTCA
64 GGGAGATAGGATGGT---GGCTTAA
** * * * * ** * * * *
94798208 GCCTACTCCACTACTGTTTAGGGAGATAGGATGGT--GGCTTAAATCTGCTCCACTGCTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTACATCTTCAGTCTACTCCACTACTGCTTAG
* * * **** **
94798271 GAAGACAAGATTCGCCATCTTTG
65 GGAGATAGGA-T-GGTGGCTTAA
* * * * *
94798294 ATCTGCTCCACT-GTAACTTCAGGGATACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTT
1 ATCTGCTCCACTACT-GCTT-AGGGAGATAAGATCTAC-ATCTTCAGTCTACTCCACTACTGC-T
94798358 TAGGGAGATAGGATGGTGGCTTAA
62 TAGGGAGATAGGATGGTGGCTTAA
*
94798382 ATCTGCTCCACTACTGCTTAGGGAGACAAGAT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT
94798414 TTTTCGTTTT
Statistics
Matches: 601, Mismatches: 168, Indels: 93
0.70 0.19 0.11
Matches are distributed among these distances:
84 1 0.00
85 9 0.01
86 292 0.49
87 74 0.12
88 161 0.27
89 41 0.07
90 23 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (85 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACATCTTCAGTCTACTCCACTACTGCTTAGG
GAGATAGGATGGTGGCTTAA
Found at i:94797654 original size:260 final size:262
Alignment explanation
Indices: 94797431--94798459 Score: 1555
Period size: 262 Copynumber: 3.9 Consensus size: 262
94797421 CTTGGATCTG
* *
94797431 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* * * *
94797496 AGATTTGCCATCTTCGATCTGCTCTACTACTGCTT-AGGGAGATAAGATCTACAATCTTCAGCCT
66 AGATTCGCCATCTTCGATCTGCTCCACTACTACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
*
94797560 ACTCCACTACTGC-TTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGA
131 ACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGA
* * * *
94797624 CAAAATTTGCCATCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTACAATCTTCAGCC
196 CAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCC
94797689 TA
261 TA
* * *
94797691 CTCCACTACTGCTTAGGGAGATAGGATGGTGCCTTAAATCTACTCCATTACTACTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
** * * * *
94797756 AGATTTTCCGTCTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTCAGCCT
66 AGATTCGCCATCTTCGATCTGCTCCACTACTACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
* *
94797820 ACTCCACTACTAC-TTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGA
131 ACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGA
* * * * * * *
94797884 CAAGATTTTTCGTCTTCGATCTACTCCACTACTGCTTAAGGAGATGAGATCTACAATCTCCAACC
196 CAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCC
94797949 TA
261 TA
* * *
94797951 CTCCACTACCGCTTAGGGAGATAGGATGGTGGCTTAAATCTATTCCACTACCGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* * * * *
94798016 AAATTCGCCGTCTTCGATCTGCTCTACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
66 AGATTCGCCATCTTCGATCTGCTCCACTACTACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
94798081 ACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGA
131 ACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGA
* *
94798146 CAAAATTTGTCGTCTTCGATCTGCTCCAGTACTGCTTAGGAAGATAAGATCTACAATCTTCAGCC
196 CAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCC
94798211 TA
261 TA
* * * *
94798213 CTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTGCTGCTTAGGAAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* * *
94798278 AGATTCGCCATCTTTGATCTGCTCCACT-GTAACTTCAGGGATACAAGATCTACAATCTTCAGCC
66 AGATTCGCCATCTTCGATCTGCTCCACTACT-ACTTCAGGGAGACAAGATCTACAATCTTCAGCC
94798342 TACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAG
130 TACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAG
* * * * *
94798407 ACAAGATTTTTCGTTTTCGATCTGCTTCACTACTGCTTAGGAAGATAAGATCT
195 ACAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
94798460 GTGAATTCAC
Statistics
Matches: 698, Mismatches: 68, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
260 323 0.46
261 40 0.06
262 335 0.48
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (262 bp):
CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
AGATTCGCCATCTTCGATCTGCTCCACTACTACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
ACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGA
CAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCC
TA
Found at i:94804238 original size:20 final size:21
Alignment explanation
Indices: 94804213--94804251 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
94804203 GCATGGAATA
94804213 ATACAA-CACAAT-ACAATATT
1 ATACAAGCA-AATGACAATATT
94804233 ATACAAGCAAATGACAATA
1 ATACAAGCAAATGACAATA
94804252 ATATGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (21 bp):
ATACAAGCAAATGACAATATT
Found at i:94806072 original size:34 final size:35
Alignment explanation
Indices: 94806033--94806111 Score: 83
Period size: 38 Copynumber: 2.3 Consensus size: 35
94806023 GCATATGTTT
*
94806033 TATATAAATAT-TTTCTTTTAAATCCATTTATGTA
1 TATATAAATATATTTCTTCTAAATCCATTTATGTA
**
94806067 TATATATATATATACTTTCTTCTAAATTTATTTATGTA
1 TATATA-A-ATATA-TTTCTTCTAAATCCATTTATGTA
94806105 -A-ATAAAT
1 TATATAAAT
94806112 TTGTTTCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
34 8 0.21
35 2 0.05
36 7 0.18
37 1 0.03
38 20 0.53
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (35 bp):
TATATAAATATATTTCTTCTAAATCCATTTATGTA
Found at i:94816994 original size:10 final size:10
Alignment explanation
Indices: 94816906--94816995 Score: 57
Period size: 10 Copynumber: 9.2 Consensus size: 10
94816896 ATTAATAAAC
*
94816906 ATAATATATG
1 ATAATATATA
94816916 A-AA-ATATA
1 ATAATATATA
94816924 ATAATATATA
1 ATAATATATA
* *
94816934 AAAGATATGTA
1 ATA-ATATATA
94816945 A-AATA-ATA
1 ATAATATATA
* *
94816953 ATTTAAGA-AAA
1 A--TAATATATA
94816964 ATAATATATA
1 ATAATATATA
94816974 ATAAGTA-ATA
1 ATAA-TATATA
94816984 ATAATATATA
1 ATAATATATA
94816994 AT
1 AT
94816996 TAAAAATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
8 8 0.13
9 13 0.21
10 27 0.43
11 15 0.24
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (10 bp):
ATAATATATA
Found at i:94816994 original size:17 final size:18
Alignment explanation
Indices: 94816963--94817006 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
94816953 ATTTAAGAAA
94816963 AATAAT-ATATAATAAGT
1 AATAATAATATAATAAGT
*
94816980 AATAATAATAT-ATAATT
1 AATAATAATATAATAAGT
*
94816997 AAAAATAATA
1 AATAATAATA
94817007 CTTATAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATAATATAATAAGT
Found at i:94817003 original size:20 final size:21
Alignment explanation
Indices: 94816921--94817006 Score: 78
Period size: 20 Copynumber: 4.3 Consensus size: 21
94816911 ATATGAAAAT
94816921 ATAATAATATATAA--AAGATA
1 ATAATAATATATAATTAAGA-A
*
94816941 TGTAA-AATA-ATAATTTAAGAA
1 -ATAATAATATATAA-TTAAGAA
*
94816962 A-AATAATATATAA-TAAGTA
1 ATAATAATATATAATTAAGAA
94816981 ATAATAATATATAATTAA-AA
1 ATAATAATATATAATTAAGAA
94817001 ATAATA
1 ATAATA
94817007 CTTATAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
19 12 0.22
20 27 0.50
21 11 0.20
22 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAATAATATATAATTAAGAA
Found at i:94817021 original size:37 final size:32
Alignment explanation
Indices: 94816944--94817022 Score: 77
Period size: 37 Copynumber: 2.2 Consensus size: 32
94816934 AAAGATATGT
*
94816944 AAAATAATAATTTAAGAAAAATAATATATAAT
1 AAAATAATAATTTAAGAAAAATAATATATAAC
*
94816976 AAGTAATAATAATATATAATTAAAAATAATACTTATAAC
1 AA--AATAATAAT-T-TAA-GAAAAATAATA--TATAAC
94817015 AAAATAAT
1 AAAATAAT
94817023 TTTATAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
32 2 0.05
34 9 0.24
35 1 0.03
36 3 0.08
37 16 0.42
39 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAATAATAATTTAAGAAAAATAATATATAAC
Found at i:94823150 original size:2 final size:2
Alignment explanation
Indices: 94823143--94823169 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94823133 TCAACCCTTT
94823143 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 T
94823170 GTCTTGTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94824204 original size:19 final size:19
Alignment explanation
Indices: 94824169--94824206 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
94824159 TTCTCTTATA
*
94824169 TAAAATGTATTTCAATTTT
1 TAAAATGTATTTAAATTTT
94824188 TAAAAT-TATTTAAAATTTT
1 TAAAATGTATTT-AAATTTT
94824207 GGTCGGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TAAAATGTATTTAAATTTT
Found at i:94824206 original size:18 final size:19
Alignment explanation
Indices: 94824169--94824206 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
94824159 TTCTCTTATA
* *
94824169 TAAAATGTATTTCAATTTT
1 TAAAATGTATTTAAAATTT
94824188 TAAAAT-TATTTAAAATTT
1 TAAAATGTATTTAAAATTT
94824206 T
1 T
94824207 GGTCGGGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TAAAATGTATTTAAAATTT
Found at i:94828518 original size:17 final size:18
Alignment explanation
Indices: 94828486--94828520 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
94828476 CAAAAAATTA
*
94828486 TAAAATTTATTTAAAAAG
1 TAAAAATTATTTAAAAAG
94828504 TAAAAATTA-TTAAAAAG
1 TAAAAATTATTTAAAAAG
94828521 GTATAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
TAAAAATTATTTAAAAAG
Found at i:94830455 original size:68 final size:70
Alignment explanation
Indices: 94830383--94830580 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
94830373 ATACCCTGTA
* * * *
94830383 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
94830445 ATAAAT
65 ATAAAT
*
94830451 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
94830516 ATAAAT
65 ATAAAT
*
94830522 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
94830581 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:94830494 original size:41 final size:41
Alignment explanation
Indices: 94830449--94830566 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94830439 TGAAAGATAA
94830449 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94830490 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94830520 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94830561 ATGTAG
1 ATGTAG
94830567 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94830506 original size:71 final size:71
Alignment explanation
Indices: 94830417--94830580 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94830407 GAGATGTATC
94830417 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94830482 AGGACA
66 AGGACA
94830488 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94830553 AGGACA
66 AGGACA
94830559 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94830581 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94834318 original size:18 final size:18
Alignment explanation
Indices: 94834278--94834320 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
94834268 TTGGAAATTA
*
94834278 GTAAAAAATATTAGAAAT
1 GTAAAAAATATTACAAAT
*
94834296 ATAAAAAATA-TACAAAT
1 GTAAAAAATATTACAAAT
94834313 GGTAAAAA
1 -GTAAAAA
94834321 GAAATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
GTAAAAAATATTACAAAT
Found at i:94836259 original size:2 final size:2
Alignment explanation
Indices: 94836252--94836281 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
94836242 AAAATAATAC
*
94836252 TA TA TA TA AA 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
94836282 CATACACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:94836328 original size:3 final size:3
Alignment explanation
Indices: 94836308--94836668 Score: 114
Period size: 3 Copynumber: 118.7 Consensus size: 3
94836298 AAACATACAC
* * * * * *
94836308 TAA TAT TAA TAA TGA TAA TAA TAC TAA CAA TAG TAA TGA -AA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * *
94836353 AAA AAA GTAA -ATA TAA T-A TAA TAA TAA TAT TAA -AA TAA -AG TAA
1 TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
94836396 TAA -AA -AA TAA TAC T-A TATA TAAA TATA TATA TACA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A T-AA TA-A TA-A TA-A TA-A TAA TAA
* * * *
94836441 -AA CATA TAC TAA TAT TAA TAA TAA TAA TAA TAC TAGA -AA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * *
94836486 TGA -AA TACA AAA AAA TAA -AA TAA TAA AAA TAA AAA TAA -ACA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * *
94836530 -ACA TAA T-A TAA TAA TAA TAT TAA -AA TAA -AG TAA TTAA AAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
* *
94836573 TAC T-A TATA TAAA TATA TATA TATA TACC TATA TAA TAA -AA -ACA TACA
1 TAA TAA TA-A T-AA TA-A TA-A TA-A TA-A TA-A TAA TAA TAA TA-A TA-A
* *
94836621 CTAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94836667 TA
1 TA
94836669 TTGAAATACA
Statistics
Matches: 270, Mismatches: 53, Indels: 70
0.69 0.13 0.18
Matches are distributed among these distances:
2 29 0.11
3 183 0.68
4 54 0.20
5 4 0.01
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:94836455 original size:20 final size:21
Alignment explanation
Indices: 94836393--94836485 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 21
94836383 TAAAATAAAG
94836393 TAATAAAAAATAATACTATATA
1 TAATAAAAAAT-ATACTATATA
* *
94836415 TAA-ATATATATATAC-ATATA
1 TAATA-AAAAATATACTATATA
*
94836435 TAATAAAACATATACTA-ATA
1 TAATAAAAAATATACTATATA
* *
94836455 TTAATAATAATAATAATACTAGAAA
1 -TAATAA-AA-AAT-ATACTATATA
94836480 TAATAA
1 TAATAA
94836486 TGAAATACAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
20 19 0.33
21 13 0.23
22 9 0.16
23 2 0.04
24 12 0.21
25 2 0.04
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (21 bp):
TAATAAAAAATATACTATATA
Found at i:94836469 original size:157 final size:156
Alignment explanation
Indices: 94836213--94836818 Score: 652
Period size: 157 Copynumber: 3.7 Consensus size: 156
94836203 ATATAATATA
* *
94836213 ATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATATATATA
1 ATAATAATAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATATACATATA
* * * * *
94836278 T-ATACATACACATA-TAATA--AAAACATACACTAATATTAATAATGATAATAATACTAACAAT
66 TAATA-AAACATATACTAATATTAATA-ATA-A-TAATATTAATAATAATAATAATACTAAAAAT
94836339 AGTAATGAAATACAAAAAAAGTAAATATAAT
127 A-TAATGAAATACAAAAAAAGTAAATATAAT
94836370 ATAATAATAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATATACATATA
1 ATAATAATAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATATACATATA
*
94836435 TAATAAAACATATACTAATATTAATAATAATAATAATACTAGA-AATAATAATGAAATACAAAAA
66 TAATAAAACATATACTAATATTAATAATAATAAT-AT--TA-ATAATAATAAT--AATAC-TAAA
* * *
94836499 AATAAAATAATAAAAATA-AAAATAAACATAAACATAAT
124 AAT---ATAAT-GAAATACAAAA-AAA-GTAAATATAAT
* *
94836537 ATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATATATACC
1 ATAATAATAATATTAAAATAAAGTAATAAAAAATAATACTATATAT--A-A-ATATATATATACA
* * * *
94836602 TATATAATAAAAACATACACTAATATTAATAATAATAATAATAATAATAATAATAATAGTAATAA
62 TATATAAT-AAAACATATACTAATATTAATAATAATAATATTAATAATAATAATAATACTAAAAA
* * *
94836667 TAT--TGAAATACAAAAGAAGCAAATGTAAT
126 TATAATGAAATACAAAAAAAGTAAATATAAT
* *
94836696 ATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATGTATAAATATAAATACATATAC
1 ATAATAATAATATTAAAATAAAGTAA-TAAAAAATAATACTATATATAAATAT--AT--ATATAC
* * *
94836761 GTATATAATAAAAAATATACACTAATATATAATAATAATAATAGTAATAATAATAATA
61 ATATATAATAAAACATAT--ACTAATAT-TAATAATAATAATATTAATAATAATAATA
94836819 TAAAAAATAA
Statistics
Matches: 386, Mismatches: 31, Indels: 59
0.81 0.07 0.12
Matches are distributed among these distances:
156 4 0.01
157 76 0.20
158 14 0.04
159 42 0.11
160 52 0.13
161 14 0.04
162 33 0.09
163 7 0.02
165 8 0.02
166 14 0.04
167 58 0.15
168 1 0.00
169 12 0.03
170 1 0.00
171 21 0.05
172 29 0.08
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (156 bp):
ATAATAATAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATATACATATA
TAATAAAACATATACTAATATTAATAATAATAATATTAATAATAATAATAATACTAAAAATATAA
TGAAATACAAAAAAAGTAAATATAAT
Found at i:94836487 original size:142 final size:137
Alignment explanation
Indices: 94836259--94836517 Score: 387
Period size: 142 Copynumber: 1.9 Consensus size: 137
94836249 TACTATATAT
* *
94836259 AAATATATATATATATATATATACATACACATATAATAAAAACATACACTAATATTAATAATGAT
1 AAATATATATATATAAATATATACATACACATATAATAAAAACATACACTAATATTAATAATAAT
*
94836324 AATAATACTAACAATAGTAATGAAATACAAAAAAAGTAAATATAATATAATAATAATATTAAAAT
66 AATAATACTAACAATAATAATGAAATACAAAAAAA-TAAA-ATAATA-AA-AATAATATTAAAAT
94836389 AAAGTAATAAA
127 AAAGTAATAAA
* * *
94836400 AAATAATACTATATATAAATATATATATACATATATAAT-AAAACATATACTAATATTAATAATA
1 AAAT-ATA-TATATATAAATATATACATACACATATAATAAAAACATACACTAATATTAATAATA
94836464 ATAATAATACTAGA-AATAATAATGAAATACAAAAAAATAAAATAATAAAAATAA
64 ATAATAATACTA-ACAATAATAATGAAATACAAAAAAATAAAATAATAAAAATAA
94836518 AAATAAACAT
Statistics
Matches: 109, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
138 5 0.05
139 2 0.02
140 6 0.06
141 8 0.07
142 60 0.55
143 28 0.26
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.30
Consensus pattern (137 bp):
AAATATATATATATAAATATATACATACACATATAATAAAAACATACACTAATATTAATAATAAT
AATAATACTAACAATAATAATGAAATACAAAAAAATAAAATAATAAAAATAATATTAAAATAAAG
TAATAAA
Found at i:94836520 original size:15 final size:14
Alignment explanation
Indices: 94836496--94836572 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
94836486 TGAAATACAA
94836496 AAAAATAAAATAAT
1 AAAAATAAAATAAT
94836510 AAAAAT-AAA-AAT
1 AAAAATAAAATAAT
*
94836522 AAACATAAACATAAT
1 AAAAATAAA-ATAAT
*
94836537 -ATAATAATAAT-AT
1 AAAAATAA-AATAAT
* *
94836550 TAAAATAAAGTAATT
1 AAAAATAAAATAA-T
94836565 AAAAATAA
1 AAAAATAA
94836573 TACTATATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
12 8 0.16
13 9 0.18
14 21 0.42
15 12 0.24
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:94836797 original size:3 final size:3
Alignment explanation
Indices: 94836783--94836842 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
94836773 AAATATACAC
*
94836783 TAA TATA TAA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA -AA -AA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
94836826 TAA AAA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TA
94836843 GTGTTAGACA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 6 0.12
3 39 0.81
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:94836810 original size:15 final size:14
Alignment explanation
Indices: 94836763--94836842 Score: 68
Period size: 12 Copynumber: 6.2 Consensus size: 14
94836753 ACATATACGT
94836763 ATATAATAA-AA-A
1 ATATAATAATAATA
* *
94836775 ATAT-ACACTAAT-
1 ATATAATAATAATA
94836787 ATATAATAATAATA
1 ATATAATAATAATA
94836801 ATAGTAATAATAATA
1 ATA-TAATAATAATA
94836816 ATATAA-AA-AATA
1 ATATAATAATAATA
*
94836828 A-A-AATAAAAATA
1 ATATAATAATAATA
94836840 ATA
1 ATA
94836843 GTGTTAGACA
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.04
11 5 0.09
12 20 0.36
13 9 0.16
14 6 0.11
15 14 0.25
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.29
Consensus pattern (14 bp):
ATATAATAATAATA
Found at i:94837409 original size:10 final size:10
Alignment explanation
Indices: 94837394--94837426 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
94837384 AAAAGGTATA
94837394 TTTTTTTA-T
1 TTTTTTTACT
94837403 TTTTTTTACT
1 TTTTTTTACT
94837413 TTTTTTATACT
1 TTTTTT-TACT
94837424 TTT
1 TTT
94837427 AATATATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 8 0.36
10 7 0.32
11 7 0.32
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTACT
Found at i:94839393 original size:44 final size:43
Alignment explanation
Indices: 94839346--94840041 Score: 208
Period size: 44 Copynumber: 15.9 Consensus size: 43
94839336 GTAACAAGCT
* *
94839346 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATT
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * * * * *
94839390 GAAGACGGT-GAG-CCTTAACCCCCTAAGCAGTAGGGTAACA-AGC
1 GAAGA--TTACAGATCTTATCTCCCTAAGCAGTAGGG-AGCAGATC
* * *
94839433 TGAAAATTAAAGATCTTATCTCCCTATGCAGTAGTGGAGCAGATC
1 -GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * * * * * *
94839478 GAAGACGGT-GAG-CCTTAACACCTTAAGCAGTAGGGTAACAG-GC
1 GAAGA--TTACAGATCTTATCTCCCTAAGCAGTAGGG-AGCAGATC
* * * * *
94839521 TGAAAATTATAGATCTTATCTCCTTATGCAGTAGCGGAGCAGATA
1 -GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * * * * * * *
94839566 GAAGACGGT-GAG-CCTTAACCCCCTAAACAGTAGGGTAACAGGCTG
1 GAAGA--TTACAGATCTTATCTCCCTAAGCAGTAGGG-AGCA-GATC
* *
94839611 GAA-ATTACAGATCTTATCTCCTTAAGCAGTAGCGGAGTAGATC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * *
94839654 GAAGACCGTA-AG-CCTTAATC-CCCTAAGCAGTAGGGTAACAGACC
1 GAAGA--TTACAGATCTT-ATCTCCCTAAGCAGTAGGG-AGCAGATC
* *
94839698 GAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
** * * *
94839742 GAAGACGAC-GAATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATT
1 GAAGATTACAG-ATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* ** * * * * *
94839786 TAAG-CCAC-CATCCTATCTCCCTAAGCAGTAGTGAAGTA-AGC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
** * *
94839827 TGAAGATTGTAGATTTTATCTCCTTAAGCAGTAGTGGAGCAGATC
1 -GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
*** * * *
94839872 GAAGACGGC-GAATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATT
1 GAAGATTACAG-ATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* ** * * * * *
94839916 TAAG-CCAC-TATCCTATCTTCCTAAGCAGTAGTGGAGTA-AGC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* ** * *
94839957 TAAAGATTGTAGATCTTATCTCCCTCAGCAGTAGTGGAGTAGATC
1 -GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCAGATC
* * * * * *
94840002 GAAGATAACAAATTTTGTTTTCCTAAGCAGTAGTGGAGCA
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-GGAGCA
94840042 TATTTAAGCC
Statistics
Matches: 470, Mismatches: 140, Indels: 84
0.68 0.20 0.12
Matches are distributed among these distances:
41 2 0.00
42 61 0.13
43 32 0.07
44 341 0.73
45 29 0.06
46 5 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (43 bp):
GAAGATTACAGATCTTATCTCCCTAAGCAGTAGGGAGCAGATC
Found at i:94839429 original size:88 final size:88
Alignment explanation
Indices: 94839317--94839748 Score: 623
Period size: 88 Copynumber: 4.9 Consensus size: 88
94839307 GCCACCATCC
* * *
94839317 TAACCCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGCAG
1 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
*
94839382 AGCAGATTGAAGACGGTGAGCCT
66 AGCAGATCGAAGACGGTGAGCCT
* * *
94839405 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTAAAGATCTTATCTCCCTATGCAGTAGTGG
1 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
94839470 AGCAGATCGAAGACGGTGAGCCT
66 AGCAGATCGAAGACGGTGAGCCT
* * * * * *
94839493 TAACACCTTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCTCCTTATGCAGTAGCGG
1 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
*
94839558 AGCAGATAGAAGACGGTGAGCCT
66 AGCAGATCGAAGACGGTGAGCCT
* * * *
94839581 TAACCCCCTAAACAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCTTAAGCAGTAGCGG
1 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
* * *
94839646 AGTAGATCGAAGACCGTAAGCCT
66 AGCAGATCGAAGACGGTGAGCCT
* * **
94839669 TAATCCCCTAAGCAGTAGGGTAAC-AGACCGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTA
1 TAACCCCCTAAGCAGTAGGGTAACAAG-CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCG
94839733 GAGCAGATCGAAGACG
65 GAGCAGATCGAAGACG
94839749 ACGAATCTTG
Statistics
Matches: 309, Mismatches: 34, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 308 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (88 bp):
TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
AGCAGATCGAAGACGGTGAGCCT
Found at i:94840079 original size:130 final size:130
Alignment explanation
Indices: 94839707--94840081 Score: 552
Period size: 130 Copynumber: 2.9 Consensus size: 130
94839697 CGAAAATTAC
*
94839707 AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
* * *
94839772 TAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGAAGTAAGCTGAAGATTGT
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAAGCTAAAGATTGT
* * * *
94839837 AGATTTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGTAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
* *
94839902 TAGTGGAGCAGATTTAAGCCACTATCCTATCTTCCTAAGCAGTAGTGGAGTAAGCTAAAGATTGT
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAAGCTAAAGATTGT
* * ** * * * *
94839967 AGATCTTATCTCCCTCAGCAGTAGTGGAGTAGATCGAAGATAACAAATTTTGTTTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
* * * *
94840032 TAGTGGAGCATATTTAAGCCACCATCCTGTCTCCCTAAACAATAGTGGAG
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAG
94840082 CAGGTTGAAA
Statistics
Matches: 217, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
130 217 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (130 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAAGCTAAAGATTGT
Found at i:94840215 original size:44 final size:44
Alignment explanation
Indices: 94840167--94840296 Score: 120
Period size: 44 Copynumber: 3.0 Consensus size: 44
94840157 AAATGACATT
94840167 GAAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTCCAGC
1 GAAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTCCAGC
* * * * * * ** **
94840211 GAAGCAGATCGAAGCTAAAATCTCTTATC-CC-TGAAATGGCATT
1 GAAGCGGCTCGAAGCCACAAT-TCGTATCTCCTTGAAGTTCCAGC
* * *
94840254 GGAGCGGCTCGAAGCCACAGTTCGTATCTCTTTGAAGTTCCAG
1 GAAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTCCAG
94840297 TGGAGTAGAT
Statistics
Matches: 61, Mismatches: 22, Indels: 6
0.69 0.25 0.07
Matches are distributed among these distances:
42 6 0.10
43 23 0.38
44 26 0.43
45 6 0.10
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (44 bp):
GAAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTCCAGC
Found at i:94840225 original size:88 final size:88
Alignment explanation
Indices: 94840097--94840995 Score: 1065
Period size: 88 Copynumber: 10.2 Consensus size: 88
94840087 TGAAATCAAT
** *
94840097 AATTCGTATCTAATTGAAGTTCCAGCGGAGTAGATTGAAGCTACAAATCTCTTCTCCCTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
*
94840162 ACATTGAAGCGGCTCGAAGCCAC
66 GCATTGAAGCGGCTCGAAGCCAC
* * *
94840185 AATTCGTATCTCCTTGAAGTTCCAGCGAAGCAGATCGAAGCTA-AAATCTCTTATCCCTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
*
94840249 GCATTGGAGCGGCTCGAAGCCAC
66 GCATTGAAGCGGCTCGAAGCCAC
* * * * * * *
94840272 AGTTCGTATCTCTTTGAAGTTCCAGTGGAGTAGATCGAGGCTACAAATCCCTTCTCCTTAAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
* **
94840337 GCATTGGAGCGATTCGAAGCCAC
66 GCATTGAAGCGGCTCGAAGCCAC
* * * * * * *
94840360 AGTTGGTATCTCCTTGAAGTTTCATCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGATATT
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
* * * *
94840425 GTATTAAAACGACTCGAAGCCAC
66 GCATTGAAGCGGCTCGAAGCCAC
* * * * *
94840448 AGTTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTATAAATCTCTTCTCCTTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
*
94840513 GTATT-AGAGCGGCTCGAAGCCAC
66 GCATTGA-AGCGGCTCGAAGCCAC
** * ** * * *
94840536 AATTTTTATCTCTTTGAAGTTTTAGCGGAGTAGATTGAAACTATAAATCTCTTCTCCCTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
* ** *
94840601 GCATTGGAGCGGCTTAAAGGCAC
66 GCATTGAAGCGGCTCGAAGCCAC
* * * * *
94840624 AATTCGTATCT-CTCTGAAATTCCAGCAGAGTAGATCGAGGCTACAAAACTGTTCTCCCTGAAAT
1 AATTCGTATCTCCT-TGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
*
94840688 GGCATTGGAA-CGGCTCGAAGCTAC
65 GGCATT-GAAGCGGCTCGAAGCCAC
* * *
94840712 AATTTGTATCTCTTTGAAGTT-CATGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAAT
1 AATTCGTATCTCCTTGAAGTTCCA-GCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
* *
94840776 GGCATTGGAGCGACTCGAAGCCAC
65 GGCATTGAAGCGGCTCGAAGCCAC
*
94840800 AATTCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
* *
94840865 GTATTGGAA-CGGCTCAAAGCCAC
66 GCATT-GAAGCGGCTCGAAGCCAC
* **
94840888 AATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTGGCTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
* * *
94840953 GCATTGGAGC-GATTGAAGCCAC
66 GCATTGAAGCGGCTCGAAGCCAC
** * *
94840975 AAACCTTATCTCCCTGAAGTT
1 AATTCGTATCTCCTTGAAGTT
94840996 ACAGTGGGGC
Statistics
Matches: 694, Mismatches: 106, Indels: 23
0.84 0.13 0.03
Matches are distributed among these distances:
87 113 0.16
88 574 0.83
89 7 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (88 bp):
AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATG
GCATTGAAGCGGCTCGAAGCCAC
Found at i:94840268 original size:43 final size:43
Alignment explanation
Indices: 94840133--94840268 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 43
94840123 GGAGTAGATT
*
94840133 GAAGCTACAAATCTCTTCTCCCTGAAATGACATTGAAGCGGCTC
1 GAAGCTA-AAATCTCTTATCCCTGAAATGACATTGAAGCGGCTC
* * * * ** ** * *
94840177 GAAGCCACAAT-TCGTATCTCCTTGAAGTTCCAGCGAAGCAGATC
1 GAAGCTAAAATCTCTTATC-CC-TGAAATGACATTGAAGCGGCTC
* *
94840221 GAAGCTAAAATCTCTTATCCCTGAAATGGCATTGGAGCGGCTC
1 GAAGCTAAAATCTCTTATCCCTGAAATGACATTGAAGCGGCTC
94840264 GAAGC
1 GAAGC
94840269 CACAGTTCGT
Statistics
Matches: 67, Mismatches: 22, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
42 5 0.07
43 24 0.36
44 32 0.48
45 6 0.09
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (43 bp):
GAAGCTAAAATCTCTTATCCCTGAAATGACATTGAAGCGGCTC
Found at i:94840711 original size:44 final size:44
Alignment explanation
Indices: 94840580--94840963 Score: 168
Period size: 44 Copynumber: 8.7 Consensus size: 44
94840570 TTGAAACTAT
* **
94840580 AAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTTAAAGGC-AC
1 AAATCTGTTCTCCCTGAAATGGCATTGGAGCGGCTCGAA-GCTAC
* * ** *** ** * *
94840624 AATTC-GTATCTCTCTGAAATTCCAGCAGAGTAGATCGAGGCTAC
1 AAATCTGT-TCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCTAC
* *
94840668 AAAACTGTTCTCCCTGAAATGGCATTGGAACGGCTCGAAGCTAC
1 AAATCTGTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCTAC
* ** * * * ** * *
94840712 -AATTTGTATCTCTTTGAAGT-TCATGCGGAGTAGATCGAGGCTAC
1 AAATCTGT-TCTCCCTGAAATGGCAT-TGGAGCGGCTCGAAGCTAC
* * *
94840756 AAATCTCTTCTCCCTGAAATGGCATTGGAGCGACTCGAAGCCAC
1 AAATCTGTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCTAC
* * * ** * ** *
94840800 AATTC-GTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTAC
1 AAATCTGT-TCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCTAC
* * * * *
94840844 AAATCTCTTCTCCCTGAAATGGTATTGGAACGGCTCAAAGCCAC
1 AAATCTGTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCTAC
* * * ** ** ** *
94840888 AATTCT-TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAC
1 AAATCTGT-TCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCTAC
* **
94840932 AAATCTCTTCTGGCTGAAATGGCATTGGAGCG
1 AAATCTGTTCTCCCTGAAATGGCATTGGAGCG
94840964 ATTGAAGCCA
Statistics
Matches: 226, Mismatches: 103, Indels: 22
0.64 0.29 0.06
Matches are distributed among these distances:
43 13 0.06
44 201 0.89
45 12 0.05
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
AAATCTGTTCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCTAC
Found at i:94841132 original size:45 final size:45
Alignment explanation
Indices: 94840973--94841218 Score: 146
Period size: 45 Copynumber: 5.5 Consensus size: 45
94840963 GATTGAAGCC
* * *
94840973 ACAAACCTTATCTCCCTGAAGTTACAGTGGGGCAG-G-TAGAAGTT
1 ACAAACCTTATCCCCCTGAAGTTGCAGTAGGGCAGAGTTA-AAGTT
** * * * ** *
94841017 ACGAGTCC-TATCTCCCTAAAGTTGCAGT-GAAGCAGA-TCGAAGAT
1 AC-AAACCTTATCCCCCTGAAGTTGCAGTAG-GGCAGAGTTAAAGTT
* * * * * * *
94841061 AGCAAATCTTATCTCTCTAAAATTGCAGTAGAGCAGAGTTAAAGCT
1 A-CAAACCTTATCCCCCTGAAGTTGCAGTAGGGCAGAGTTAAAGTT
* *
94841107 ATAAACCTTATCCCCCTGAAGTTGCAATAGGGCAG-GTTAAAGTT
1 ACAAACCTTATCCCCCTGAAGTTGCAGTAGGGCAGAGTTAAAGTT
** * * *
94841151 ACGAGTCCTTATCCCTCTGAAGTTTCAGTAGGGCA-AGTTGAAGTT
1 AC-AAACCTTATCCCCCTGAAGTTGCAGTAGGGCAGAGTTAAAGTT
** *
94841196 ACAAGTCTTATCTCCCTGAAGTT
1 ACAAACCTTATCCCCCTGAAGTT
94841219 ATAGTGGAGC
Statistics
Matches: 155, Mismatches: 37, Indels: 20
0.73 0.17 0.09
Matches are distributed among these distances:
43 1 0.01
44 56 0.36
45 91 0.59
46 7 0.05
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (45 bp):
ACAAACCTTATCCCCCTGAAGTTGCAGTAGGGCAGAGTTAAAGTT
Found at i:94842127 original size:2 final size:2
Alignment explanation
Indices: 94842120--94842149 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
94842110 TTAAAAACAG
*
94842120 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94842150 GCAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:94842911 original size:6 final size:6
Alignment explanation
Indices: 94842895--94842983 Score: 106
Period size: 6 Copynumber: 14.8 Consensus size: 6
94842885 GTTTATTTGC
* * * *
94842895 TATATG TATATA CATATA TATATA TACATA TATATA TATATA TACATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * *
94842943 TACATA TATATA CACATA TATATA TACATA TATATA TATAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATAT
94842984 TTTTTAATTC
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:94842918 original size:14 final size:14
Alignment explanation
Indices: 94842895--94842982 Score: 104
Period size: 14 Copynumber: 5.9 Consensus size: 14
94842885 GTTTATTTGC
*
94842895 TATATGTATATACA
1 TATATATATATACA
94842909 TATATATATATACATATA
1 TATATATATATAC----A
94842927 TATATATATATACA
1 TATATATATATACA
94842941 TATACATATATATACA
1 TAT--ATATATATACA
*
94842957 CATATATATATACA
1 TATATATATATACA
94842971 TATATATATATA
1 TATATATATATA
94842983 TTTTTTAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
14 38 0.58
16 13 0.20
18 14 0.22
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (14 bp):
TATATATATATACA
Found at i:94843092 original size:21 final size:22
Alignment explanation
Indices: 94843066--94843112 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
94843056 TTTACGCCTT
*
94843066 TATTATTATTAATTT-TTTATC
1 TATTATTATTAATTTATTCATC
94843087 TATTATTATTAATTTATTCATC
1 TATTATTATTAATTTATTCATC
94843109 TATT
1 TATT
94843113 TGTTTATCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATTATTAATTTATTCATC
Found at i:94843317 original size:6 final size:6
Alignment explanation
Indices: 94843306--94843333 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
94843296 ACCCTTTTTC
94843306 TTATAT TTATAT TTATAT TTATAT TTAT
1 TTATAT TTATAT TTATAT TTATAT TTAT
94843334 CTATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:94844438 original size:123 final size:123
Alignment explanation
Indices: 94844276--94844523 Score: 478
Period size: 123 Copynumber: 2.0 Consensus size: 123
94844266 TAAAATCGTC
94844276 TTTCCCTTTCAAACGGTAATCCATTTGTCATTTTCAGTAAACTCTTTATAACATACCTATTACAT
1 TTTCCCTTTCAAACGGTAATCCATTTGTCATTTTCAGTAAACTCTTTATAACATACCTATTACAT
94844341 AAAATATTGGAACTCGACAAAATATTTATACATCATATTAGTATATACTCCTATCGAG
66 AAAATATTGGAACTCGACAAAATATTTATACATCATATTAGTATATACTCCTATCGAG
* *
94844399 TTTCCCTTTCAAACGGTAATTCATTTGTCATTTTGAGTAAACTCTTTATAACATACCTATTACAT
1 TTTCCCTTTCAAACGGTAATCCATTTGTCATTTTCAGTAAACTCTTTATAACATACCTATTACAT
94844464 AAAATATTGGAACTCGACAAAATATTTATACATCATATTAGTATATACTCCTATCGAG
66 AAAATATTGGAACTCGACAAAATATTTATACATCATATTAGTATATACTCCTATCGAG
94844522 TT
1 TT
94844524 AATGTAATAA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (123 bp):
TTTCCCTTTCAAACGGTAATCCATTTGTCATTTTCAGTAAACTCTTTATAACATACCTATTACAT
AAAATATTGGAACTCGACAAAATATTTATACATCATATTAGTATATACTCCTATCGAG
Found at i:94848703 original size:21 final size:22
Alignment explanation
Indices: 94848679--94848727 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
94848669 TTTTAAATAT
* *
94848679 TATTTTATTA-TATTTTGCTAC
1 TATTTTACTATTATATTGCTAC
94848700 TATTTTACTATTATATTGCTAC
1 TATTTTACTATTATATTGCTAC
94848722 TATTTT
1 TATTTT
94848728 GTTGTTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.24, C:0.10, G:0.04, T:0.61
Consensus pattern (22 bp):
TATTTTACTATTATATTGCTAC
Found at i:94848705 original size:11 final size:11
Alignment explanation
Indices: 94848689--94848728 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
94848679 TATTTTATTA
94848689 TATTTTGCTAC
1 TATTTTGCTAC
* *
94848700 TATTTTACTAT
1 TATTTTGCTAC
*
94848711 TATATTGCTAC
1 TATTTTGCTAC
94848722 TATTTTG
1 TATTTTG
94848729 TTGTTACTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Done.