Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 356 of 425
Found at i:109930100 original size:79 final size:80
Alignment explanation
Indices: 109929924--109930146 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 80
109929914 TCGAATGATG
* * * *
109929924 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
109929988 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
*
109930004 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
* *
109930066 TGGTGTGAGTTACTAAA
64 TCGTGCGAGTTACTAAA
* * * *
109930083 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
109930147 TGAACGAGTA
Statistics
Matches: 126, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.55
80 48 0.38
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:109930147 original size:119 final size:120
Alignment explanation
Indices: 109929924--109930148 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
109929914 TCGAATGATG
* *
109929924 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
109929989 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
* * **
109930044 TCCGGGCTAAG-CCCGAAGGCATTGGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
109930106 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
109930149 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 2 0.02
119 72 0.78
120 18 0.20
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:109930155 original size:40 final size:39
Alignment explanation
Indices: 109929925--109930148 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 39
109929915 CGAATGATGT
* * *
109929925 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
109929965 CCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
109930004 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
109930045 CCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
109930083 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
109930124 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
109930149 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:109936482 original size:27 final size:26
Alignment explanation
Indices: 109936443--109936530 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
109936433 AGCAAGGCTG
* * *
109936443 CCAGAACCGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
109936469 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
109936496 CCAAAAACAGATATTTGTGGTAGAGCCA
1 CC-AGAACAGATA-TTGTGGCAGAGCCA
109936524 CCAGAAC
1 CCAGAAC
109936531 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.09
27 31 0.58
28 17 0.32
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:109942569 original size:55 final size:56
Alignment explanation
Indices: 109942504--109942618 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
109942494 AGCATGGCTG
* * *
109942504 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* *
109942560 CCAGA-ACAGATATACGTGGCAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
109942615 CCAG
1 CCAG
109942619 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:109942586 original size:27 final size:27
Alignment explanation
Indices: 109942518--109942618 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 27
109942508 ATACAGAAAA
* *
109942518 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* *
109942547 TGTGGCAGTGCCACCAGAACAGATATA
1 TGTGGCAGAGCCACCAGAACAGATATT
*
109942574 CGTGGCAGAGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
109942602 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
109942619 GACGCTTCCT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 23 0.37
28 24 0.39
29 15 0.24
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:109942771 original size:28 final size:28
Alignment explanation
Indices: 109942724--109942788 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
109942714 AAATTAACCC
* *
109942724 TAGGGGTATAAAGGTCATTTTGTACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
109942752 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
109942780 TAGGGGTAT
1 TAGGGGTAT
109942789 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:109945929 original size:28 final size:28
Alignment explanation
Indices: 109945883--109945951 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
109945873 TTTAAAACCC
*
109945883 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
109945910 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
109945938 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
109945952 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:109947602 original size:20 final size:20
Alignment explanation
Indices: 109947579--109947616 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109947569 CACATCCAAA
*
109947579 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
109947599 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
109947617 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:109953939 original size:28 final size:28
Alignment explanation
Indices: 109953893--109953961 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
109953883 TTTAAAACCC
*
109953893 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
109953920 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
109953948 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
109953962 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:109955613 original size:20 final size:20
Alignment explanation
Indices: 109955590--109955627 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109955580 CACATCCAAA
*
109955590 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
109955610 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
109955628 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:109956159 original size:27 final size:27
Alignment explanation
Indices: 109956129--109956324 Score: 200
Period size: 27 Copynumber: 7.3 Consensus size: 27
109956119 TACTGAAATG
* *
109956129 CCCTCGATTTCTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *** *
109956156 CCCTCGATTTATAGAATTAGTGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
109956183 -CCTCGATTTACAAAATTACC-GTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* **
109956208 CCCTCGATTTATATAATTACCATTTCG
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
109956235 CCCTCGATTGATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
109956262 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
109956289 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
*
109956316 TCCTCGATT
1 CCCTCGATT
109956325 GTGAAATTAC
Statistics
Matches: 138, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
25 3 0.02
26 35 0.25
27 99 0.72
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:109956280 original size:54 final size:54
Alignment explanation
Indices: 109956128--109956324 Score: 222
Period size: 54 Copynumber: 3.7 Consensus size: 54
109956118 TTACTGAAAT
* * * ***
109956128 GCCCTCGATTT-CTAGAATTACCATTTTACCCTCGATTTATAGAATTAGTGTTTC
1 GCCCTCGATTTAC-AAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTC
* *
109956182 -ACCTCGATTTACAAAATTACCG-TTTACCCTCGATTTATATAATTACCATTTC
1 GCCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTC
* * * *
109956234 GCCCTCGATTGATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTT
1 GCCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTC
* *
109956288 ACCCTC-AGTTTACAAAATTACCGTTTTATCCTCGATT
1 GCCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATT
109956325 GTGAAATTAC
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
52 26 0.21
53 36 0.30
54 59 0.49
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (54 bp):
GCCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTC
Found at i:109956368 original size:27 final size:27
Alignment explanation
Indices: 109956338--109956482 Score: 105
Period size: 27 Copynumber: 5.4 Consensus size: 27
109956328 AAATTACTGG
*
109956338 AATACCCCT-GTAGGATAGAATTACCAA
1 AATACCCCTAGTAGG-TAAAATTACCAA
**
109956365 AATACCCCTAGTTTGTAAAATTACCAA
1 AATACCCCTAGTAGGTAAAATTACCAA
* ** *
109956392 AATACCCGTAGTTTGTAAAATTACCGA
1 AATACCCCTAGTAGGTAAAATTACCAA
* * ** * *
109956419 AATGCCACTAGTTTGTGAAATTACCGA
1 AATACCCCTAGTAGGTAAAATTACCAA
* * **
109956446 AATA-CCTTCAATTTGTAAAATTACCAA
1 AATACCCCT-AGTAGGTAAAATTACCAA
109956473 AATACCCCTA
1 AATACCCCTA
109956483 ATTTACAAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.02
27 91 0.92
28 6 0.06
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
AATACCCCTAGTAGGTAAAATTACCAA
Found at i:109956396 original size:54 final size:53
Alignment explanation
Indices: 109956338--109956504 Score: 165
Period size: 54 Copynumber: 3.1 Consensus size: 53
109956328 AAATTACTGG
** *
109956338 AATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AATACCCCTGTTTG-TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
* * * * * *
109956392 AATACCCGTAGTTTGTAAAATTACCGAAATGCCACTAGTTTGTGAAATTACCGA
1 AATACCCCT-GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
* ** * **
109956446 AATACCTTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA-CAA
1 AATACC-CCTGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
109956499 AATACC
1 AATACC
109956505 ATTGACTTTC
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
53 8 0.09
54 79 0.88
55 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (53 bp):
AATACCCCTGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
Found at i:109956485 original size:27 final size:27
Alignment explanation
Indices: 109956356--109956504 Score: 176
Period size: 27 Copynumber: 5.6 Consensus size: 27
109956346 TGTAGGATAG
109956356 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
109956383 AATTACCAAAATACCCGTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
109956410 AATTACCGAAATGCCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
109956437 AATTACCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
109956464 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
109956491 AATTA-CAAAATACC
1 AATTACCAAAATACC
109956505 ATTGACTTTC
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.10
27 91 0.87
28 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:109956565 original size:27 final size:27
Alignment explanation
Indices: 109956484--109956568 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
109956474 ATACCCCTAA
*
109956484 TTTACAAAATTAC-AAAATACCATTGAC
1 TTTACAAAATTACTAAAATACCATTG-G
109956511 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACTA-AAATACCATTGG
*
109956539 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAAATACCATTGG
109956566 TTT
1 TTT
109956569 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
26 1 0.02
27 24 0.48
28 13 0.26
29 12 0.24
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCATTGG
Found at i:109957419 original size:20 final size:20
Alignment explanation
Indices: 109957394--109957460 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
109957384 GATATAATAT
* *
109957394 ACATGATGTATATGATATGC
1 ACATGATATATATGAAATGC
* *
109957414 ACATGATATGTATAAAATGC
1 ACATGATATATATGAAATGC
*
109957434 ACATGATATGTATGAAATGC
1 ACATGATATATATGAAATGC
109957454 ACATGAT
1 ACATGAT
109957461 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATATATGAAATGC
Found at i:109957588 original size:52 final size:51
Alignment explanation
Indices: 109957510--109957645 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 51
109957500 GAGGAAGTGC
109957510 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCC-CTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCTC-AGTTTACCG
* *
109957562 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCTCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCTCAGTTTACCG
*
109957613 AAAAGGGATT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
109957646 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
48 5 0.06
49 8 0.10
50 8 0.10
51 21 0.27
52 36 0.46
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCTCAGTTTACCG
Found at i:109957607 original size:25 final size:26
Alignment explanation
Indices: 109957510--109957645 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
109957500 GAGGAAGTGC
109957510 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
109957536 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
109957562 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * *
109957588 AAAAGGGATT-TGCCTCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
109957613 AAAAGGGATT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
109957636 AAAAGAGGCT
1 AAAAG-GGCT
109957646 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.31
26 55 0.57
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:109957837 original size:42 final size:42
Alignment explanation
Indices: 109957778--109957871 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
109957768 TAGTCTCCCC
* ** *
109957778 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
109957820 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
109957862 AAATGGGCTT
1 AAATGGGCTT
109957872 ATGGGTCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:109957928 original size:31 final size:31
Alignment explanation
Indices: 109957893--109958002 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
109957883 CGTTTACAGT
* * *
109957893 AAAGGCTTCAGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
109957924 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
109957955 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
109957986 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
109958003 AACCGTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:109960282 original size:27 final size:27
Alignment explanation
Indices: 109960244--109960437 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
109960234 TAAAATGCCT
* *
109960244 TCGATTTGTAGAATTACCATTTTACAC
1 TCGATTTATAGAATTACCATTTTACCC
* * * *
109960271 TTGATATATAGAATTACCGTTTCACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * * *
109960298 TCGATTTACAAAATTACCGTTTCACCC
1 TCGATTTATAGAATTACCATTTTACCC
109960325 TCGATTTATAGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
*
109960352 TCGATTTATAGAATTACCA-TTTAACC
1 TCGATTTATAGAATTACCATTTTACCC
* *
109960378 TCGATTTACAAAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * * *
109960405 TC-AGTTTACAAAATTACCGTTTTATCC
1 TCGA-TTTATAGAATTACCATTTTACCC
109960432 TCGATT
1 TCGATT
109960438 GTGAAATTAC
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
26 24 0.17
27 119 0.83
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TCGATTTATAGAATTACCATTTTACCC
Found at i:109960362 original size:81 final size:80
Alignment explanation
Indices: 109960244--109960437 Score: 255
Period size: 80 Copynumber: 2.4 Consensus size: 80
109960234 TAAAATGCCT
* * * * * *
109960244 TCGATTTGTAGAATTACCATTTTACACTTGATATATAGAATTACCGTTTCACCCTCGATTTACAA
1 TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT-AACCTCGATTTACAA
*
109960309 AATTACCGTTTCACCC
65 AATTACCATTTCACCC
109960325 TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTAACCTCGATTTACAAA
1 TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTAACCTCGATTTACAAA
*
109960390 ATTACCATTTTACCC
66 ATTACCATTTCACCC
* * * *
109960405 TC-AGTTTACAAAATTACCGTTTTATCCTCGATT
1 TCGA-TTTATAGAATTACCATTTTACCCTCGATT
109960438 GTGAAATTAC
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.01
80 55 0.55
81 44 0.44
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (80 bp):
TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTAACCTCGATTTACAAA
ATTACCATTTCACCC
Found at i:109960447 original size:53 final size:53
Alignment explanation
Indices: 109960282--109960437 Score: 190
Period size: 53 Copynumber: 2.9 Consensus size: 53
109960272 TGATATATAG
* * * * *
109960282 AATTACCGTTTCACCCTCGATTTACAAAATTACCGTTTCACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTAACCTCGATTTA-AA
* * *
109960336 AATTACCATTTTACCCTCGATTTATAGAATTACC-ATTTAACCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTAACCTCGATTTA-AA
*
109960389 AATTACCATTTTACCCTC-AGTTTACAAAATTACCGTTTTATCCTCGATT
1 AATTACCATTTTACCCTCGA-TTTACAAAATTACCGTTTTAACCTCGATT
109960438 GTGAAATTAC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.51
54 42 0.48
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (53 bp):
AATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTAACCTCGATTTAAA
Found at i:109960480 original size:27 final size:27
Alignment explanation
Indices: 109960441--109960595 Score: 125
Period size: 27 Copynumber: 5.7 Consensus size: 27
109960431 CTCGATTGTG
*
109960441 AAATTACTAAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* **
109960468 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
109960495 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* * * * ** *
109960522 AAATTATCGAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTAGGTA
* * **
109960549 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTAGGTA
109960576 AAATTACCAAAATACCCCTA
1 AAATTACCAAAATACCCCTA
109960596 ATTTACAAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.03
27 99 0.91
28 7 0.06
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:109960507 original size:54 final size:53
Alignment explanation
Indices: 109960436--109960619 Score: 181
Period size: 54 Copynumber: 3.4 Consensus size: 53
109960426 TTATCCTCGA
* * ** *
109960436 TTGTGAAATTACTAAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGTTTG-TAAAATTACCAAAATACCCCTAGT
* * * *
109960490 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCCTAGT
* * ** *
109960544 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCC-CTGTTTGTAAAATTACCAAAATACCCCTAGT
**
109960598 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
109960620 TTAACTTTCT
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
53 1 0.01
54 100 0.95
55 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCCTGTTTGTAAAATTACCAAAATACCCCTAGT
Found at i:109960556 original size:81 final size:81
Alignment explanation
Indices: 109960469--109960618 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
109960459 TGTAGGATAG
* * **
109960469 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATC-GA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA-CAGA
109960532 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
*
109960550 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
109960615 TACC
66 TACC
109960619 CTTAACTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 1 0.02
81 60 0.97
82 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:109960598 original size:27 final size:27
Alignment explanation
Indices: 109960469--109960633 Score: 172
Period size: 27 Copynumber: 6.1 Consensus size: 27
109960459 TGTAGGATAG
*
109960469 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
*
109960496 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * * ** *
109960523 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
109960550 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
109960577 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
109960604 AATTA-CAGAAATACCCTTAACTTTCTAA
1 AATTACCA-AAATACCCCTAA-TTTGTAA
109960632 AA
1 AA
109960634 ATTATAGAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.04
27 102 0.86
28 11 0.09
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:109960620 original size:54 final size:54
Alignment explanation
Indices: 109960469--109960676 Score: 179
Period size: 54 Copynumber: 3.8 Consensus size: 54
109960459 TGTAGGATAG
* ** *
109960469 AATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTA-CAGAAATACCCTC-AATTTGTAA
* * * *** *
109960523 AATTATCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCCTCAATTTGTAA
* * * *
109960577 AATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCTTAACTTTCTAAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCCTCAA-TTTGT-AA
* * * *
109960633 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCA-AAATACCACTAGTTTACAAAATTACAGAAATACCCT
109960677 TGGTTTGTAG
Statistics
Matches: 125, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 80 0.64
55 6 0.05
56 38 0.30
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCCTCAATTTGTAA
Found at i:109960670 original size:27 final size:27
Alignment explanation
Indices: 109960631--109960682 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
109960621 TAACTTTCTA
109960631 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
109960658 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
109960683 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:109961533 original size:20 final size:20
Alignment explanation
Indices: 109961508--109961574 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
109961498 GATATGATTT
*
109961508 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
109961528 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
109961548 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
109961568 ACATGAT
1 ACATGAT
109961575 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:109961657 original size:26 final size:26
Alignment explanation
Indices: 109961624--109961757 Score: 138
Period size: 26 Copynumber: 5.3 Consensus size: 26
109961614 GAGGAAGTGC
109961624 AAAA-GGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTATTG
* **
109961649 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTG
109961675 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTATTG
* **
109961701 AAAAGGGATT-TG-CCTCAGTTTACCG
1 AAAAGGGCTTATGCCCT-AGTTTATTG
*
109961726 AAAAAGGCTT-TGCCC-AG-TTATT-
1 AAAAGGGCTTATGCCCTAGTTTATTG
109961748 AAAAGAGGCT
1 AAAAG-GGCT
109961758 AGGCCTCCAG
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.04
23 7 0.08
24 5 0.05
25 23 0.25
26 52 0.57
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCTAGTTTATTG
Found at i:109961724 original size:51 final size:51
Alignment explanation
Indices: 109961624--109961752 Score: 187
Period size: 52 Copynumber: 2.6 Consensus size: 51
109961614 GAGGAAGTGC
*
109961624 AAAAGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGCTTATGCCCTAGTTTATTGAAAAGGGATTATGCCCCAGTTTACCG
*
109961675 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGATT-TGCCTCAGTTTACCG
1 AAAA-GGCTTATGCCCTAGTTTATTGAAAAGGGATTATGCCCCAGTTTACCG
109961726 AAAAAGGCTT-TGCCC-AG-TTATT-AAAAG
1 -AAAAGGCTTATGCCCTAGTTTATTGAAAAG
109961753 AGGCTAGGCC
Statistics
Matches: 74, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
47 5 0.07
48 5 0.07
49 2 0.03
50 5 0.07
51 23 0.31
52 34 0.46
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAAGGCTTATGCCCTAGTTTATTGAAAAGGGATTATGCCCCAGTTTACCG
Found at i:109961949 original size:42 final size:42
Alignment explanation
Indices: 109961890--109961981 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
109961880 TAGTCTCCCC
* ** *
109961890 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
109961932 AAATGGGCTTGCATACATCCATTGACATTACATGTGGTATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
109961974 AAATGGGC
1 AAATGGGC
109961982 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:109962049 original size:31 final size:31
Alignment explanation
Indices: 109962008--109962082 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
109961998 TTACAGTAAA
*
109962008 GCTTCAGCCCAGTGAAATGATTTATGAAAAG
1 GCTTCGGCCCAGTGAAATGATTTATGAAAAG
*
109962039 GCTTCGGCCCAGTGATATGATTTATGAAAAG
1 GCTTCGGCCCAGTGAAATGATTTATGAAAAG
109962070 GCTTCGGCCCAGT
1 GCTTCGGCCCAGT
109962083 AACCGTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (31 bp):
GCTTCGGCCCAGTGAAATGATTTATGAAAAG
Found at i:109963106 original size:49 final size:47
Alignment explanation
Indices: 109963034--109963205 Score: 194
Period size: 49 Copynumber: 3.7 Consensus size: 47
109963024 GGTATAATCT
* *
109963034 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCG-AGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGAC-ATC-ATATCGTA-GC
109963083 CGATGCCATGTCCCAAACATGGTCTTACACTGACACTC-TATACGTA-C
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACA-TCATAT-CGTAGC
* * * * *
109963130 CAATGCCAGGTACCAGACATGGTCTTACACTGACA-CATCTCGTAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACATCATATCGTAGC
109963176 CGATG-CATGTCCCAAACAT-GTCTTACACTG
1 CGATGCCATGTCCCAAACATGGTCTTACACTG
109963206 GCTTAAATCT
Statistics
Matches: 107, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
44 11 0.10
45 16 0.15
46 7 0.07
47 34 0.32
48 3 0.03
49 36 0.34
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACATCATATCGTAGC
Found at i:109963305 original size:48 final size:46
Alignment explanation
Indices: 109963177--109963307 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 46
109963167 TCTCGTAGCC
* * *
109963177 GATGCATGTCCCAAACATGTCTTACACTGGCT-TAAATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAGGCT
* * * * *
109963223 GATGTATGTCCCAGACATGTTTTACACTAGCTCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCT
109963269 GATGGCATGTCCCAGACATAGTCTTACACTGGCTCTCAT
1 GAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT
109963308 AATGTGGCCG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 39 0.56
47 15 0.21
48 16 0.23
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCT
Found at i:109963324 original size:47 final size:46
Alignment explanation
Indices: 109963034--109963342 Score: 142
Period size: 47 Copynumber: 6.6 Consensus size: 46
109963024 GGTATAATCT
* *
109963034 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGA-AATCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTCTC-ATAAT-GTGGC
* * * *
109963083 CGATGCCATGTCCCAAACATGGTCTTACACTGACACTC-TATACGT-AC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTCTCATA-ATGTGGC
* * * * * *
109963130 CAATGCCAGGTACCAGACATGGTCTTACACTGACACATC-T--CGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTC-TCATAATGTGGC
* * *
109963176 CGATGCATGTCCCAAACATGTCTTACACTGGCT-T-A-AATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTCTCATAA--T-GTGGC
* * * *
109963222 TGATGTATGTCCCAGACATGTTTTACACT-AGCTCTCGTCTCAA--T-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGA-CTCTC--AT-AATGTGGC
* *
109963268 TGATGGCATGTCCCAGACATAGTCTTACACTGGCTCTCATAATGTGGC
1 CGAT-GCATGTCCCAGACAT-GTCTTACACTGACTCTCATAATGTGGC
*
109963316 CGATGCATG-CCTCATACATGTCTTACA
1 CGATGCATGTCC-CAGACATGTCTTACA
109963343 TTAGCACACA
Statistics
Matches: 203, Mismatches: 33, Indels: 51
0.71 0.11 0.18
Matches are distributed among these distances:
42 1 0.00
44 12 0.06
45 16 0.08
46 52 0.26
47 60 0.30
48 24 0.12
49 36 0.18
52 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTCTCATAATGTGGC
Found at i:109971945 original size:33 final size:33
Alignment explanation
Indices: 109971898--109971963 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
109971888 CTTAAGCCAT
109971898 GTAAAAACTGGAGCTAAATTTTCAATTTTTAAA
1 GTAAAAACTGGAGCTAAATTTTCAATTTTTAAA
*
109971931 GTAAGAACTGGAGCTAAATTTTCAATTTTTAAA
1 GTAAAAACTGGAGCTAAATTTTCAATTTTTAAA
109971964 CATGTCAGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (33 bp):
GTAAAAACTGGAGCTAAATTTTCAATTTTTAAA
Found at i:109972746 original size:26 final size:25
Alignment explanation
Indices: 109972717--109972774 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
109972707 ACTTTTTCTC
*
109972717 TATTTTTATTTATTTAG-TTATTTCAT
1 TATTATTATTTA-TTAGATTATTT-AT
*
109972743 TATTATTCTTTATTAGTATTATTTAT
1 TATTATTATTTATTAG-ATTATTTAT
109972769 TATTAT
1 TATTAT
109972775 AATTATTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
26 18 0.64
27 6 0.21
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (25 bp):
TATTATTATTTATTAGATTATTTAT
Found at i:109974429 original size:6 final size:6
Alignment explanation
Indices: 109974414--109974505 Score: 98
Period size: 6 Copynumber: 15.5 Consensus size: 6
109974404 ATTGAGTCTG
* * * * * *
109974414 TTTATC TTTATG TTTATT TTTATT TTTCTC TTTATG TTTATG TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
109974462 TTTATT TTTATT TTTATT TTTATG TTTA-- TTTATT TTTATAT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTAT-T TTT
109974506 GAACTTTATT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
4 4 0.05
6 67 0.89
7 4 0.05
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:109974450 original size:24 final size:24
Alignment explanation
Indices: 109974414--109974490 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
109974404 ATTGAGTCTG
109974414 TTTATCTTTATGTTTATTTTTATT
1 TTTATCTTTATGTTTATTTTTATT
* *
109974438 TTTCTCTTTATGTTTATGTTTATT
1 TTTATCTTTATGTTTATTTTTATT
* * *
109974462 TTTATTTTTATTTTTATTTTTATG
1 TTTATCTTTATGTTTATTTTTATT
109974486 TTTAT
1 TTTAT
109974491 TTATTTTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTATCTTTATGTTTATTTTTATT
Found at i:109974504 original size:30 final size:30
Alignment explanation
Indices: 109974414--109974518 Score: 126
Period size: 30 Copynumber: 3.5 Consensus size: 30
109974404 ATTGAGTCTG
* *
109974414 TTTATCTTTATGTTTATTTTTATTTTTCTC
1 TTTATCTTTATGTTTATTTTTATTTTTATT
*
109974444 TTTATGTTTATGTTTATTTTTATTTTTATT
1 TTTATCTTTATGTTTATTTTTATTTTTATT
*
109974474 TTTATTTTTATGTTTA--TTTATTTTTATAT
1 TTTATCTTTATGTTTATTTTTATTTTTAT-T
*
109974503 TTTGAACTTTAT-TTTA
1 TTT-ATCTTTATGTTTA
109974519 ATTATTATGG
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
28 11 0.16
29 8 0.12
30 48 0.72
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (30 bp):
TTTATCTTTATGTTTATTTTTATTTTTATT
Found at i:109974513 original size:24 final size:22
Alignment explanation
Indices: 109974426--109974516 Score: 73
Period size: 24 Copynumber: 4.1 Consensus size: 22
109974416 TATCTTTATG
**
109974426 TTTATTTTTATTTTTCTCTTTA
1 TTTATTTTTATTTTTAACTTTA
*
109974448 TGTTTATGTTTATTTTT-A--TT-
1 --TTTATTTTTATTTTTAACTTTA
**
109974468 TTTATTTTTATTTTTATGTTTA
1 TTTATTTTTATTTTTAACTTTA
109974490 TTTATTTTTATATTTTGAACTTTA
1 TTTATTTTTAT-TTTT-AACTTTA
109974514 TTT
1 TTT
109974517 TAATTATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
18 14 0.25
21 4 0.07
22 11 0.20
23 4 0.07
24 22 0.40
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTATTTTTATTTTTAACTTTA
Found at i:109983533 original size:33 final size:33
Alignment explanation
Indices: 109983496--109983569 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
109983486 CTACTGGGAT
* *
109983496 AGTAAACACCAAATAGAGTAAGTCCATT-AGGAC
1 AGTAAACACAAAACAGAGTAAGTCC-TTCAGGAC
*
109983529 AGTAAACACAAAACAGATTAAGTCCTTCAGGAC
1 AGTAAACACAAAACAGAGTAAGTCCTTCAGGAC
109983562 AGTAAACA
1 AGTAAACA
109983570 TGGGTAAGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (33 bp):
AGTAAACACAAAACAGAGTAAGTCCTTCAGGAC
Found at i:109991350 original size:81 final size:81
Alignment explanation
Indices: 109991253--109991486 Score: 276
Period size: 81 Copynumber: 2.9 Consensus size: 81
109991243 CTAAAGTACT
* * * **
109991253 CCCGATTTACAAAATTACCATTTTACCCTCAGTTTATAGAATTACTGTTTTACCCTCGATTTGTA
1 CCCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTACA
109991318 AAATTACCGTTTTACC
66 AAATTACCGTTTTACC
* * ** *
109991334 CCCGATTTACAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCCCCGATTTAC
1 CCCGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCTCGATTTAC
* *
109991398 ATAATTATCGTTTTACC
65 AAAATTACCGTTTTACC
* ** *
109991415 CTC-AGTTTACAGAATTATTGTTTTACCCT-TGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCCGA-TTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTGTTTTACCCTCGATTTA
109991478 CAAAATTAC
64 CAAAATTAC
109991487 TAAAATACCC
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 2 0.02
81 124 0.98
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTACA
AAATTACCGTTTTACC
Found at i:109991487 original size:27 final size:27
Alignment explanation
Indices: 109991255--109991487 Score: 231
Period size: 27 Copynumber: 8.6 Consensus size: 27
109991245 AAAGTACTCC
* **
109991255 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
109991282 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
** * * *
109991309 CGATTTGTAAAATTACCGTTTTACCCC
1 CGATTTACAGAATTACTGTTTTACCCT
*
109991336 CGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACTGTTTTACCCT
* * ** *
109991362 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACTGTTTTACCCT
*
109991390 CGATTTACATAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
*
109991417 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
109991444 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
109991471 CGATTTACAAAATTACT
1 CGATTTACAGAATTACT
109991488 AAAATACCCT
Statistics
Matches: 175, Mismatches: 23, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.02
27 168 0.96
28 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:109991495 original size:27 final size:27
Alignment explanation
Indices: 109991465--109991631 Score: 117
Period size: 27 Copynumber: 6.2 Consensus size: 27
109991455 ATTACTGTTT
*
109991465 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * * ***
109991492 TACCCTTGGTTTGTGAAATTACCGCAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
109991519 TACCCTCAATTTGTAAAACTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
109991546 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* *
109991573 TACCCTTTG-TTTATAAAATTACCAAAA
1 TACCC-TCGATTTATAAAATTACTAAAA
*
109991600 TACCCAT-GGTTTGA-AAAATTACTAAAA
1 TACCC-TCGATTT-ATAAAATTACTAAAA
109991627 TACCC
1 TACCC
109991632 CTATAGGGTA
Statistics
Matches: 111, Mismatches: 24, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
26 2 0.02
27 107 0.96
28 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:109991499 original size:54 final size:54
Alignment explanation
Indices: 109991255--109991486 Score: 265
Period size: 54 Copynumber: 4.3 Consensus size: 54
109991245 AAAGTACTCC
* *
109991255 CGATTTACAAAATTACCATTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCT
1 CGATTTACAAAATTACCATTTTACCCCCGA-TTTACAGAATTACTGTTTTACCCT
** * *
109991309 CGATTTGTAAAATTACCGTTTTACCCCCGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAAAATTACCATTTTACCCCCGATTTACAGAATTACTGTTTTACCCT
* * *
109991362 CTAATTTACATAATTACCATTTTACCCCCGATTTACATAATTA-TCGTTTTACCCT
1 C-GATTTACAAAATTACCATTTTACCCCCGATTTACAGAATTACT-GTTTTACCCT
* *** **
109991417 C-AGTTTACAGAATTATTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAAAATTACCATTTTACCCCCGATTTACAGAATTACTGTTTTACCCT
109991471 CGATTTACAAAATTAC
1 CGATTTACAAAATTAC
109991487 TAAAATACCC
Statistics
Matches: 149, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
53 2 0.01
54 143 0.96
55 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
CGATTTACAAAATTACCATTTTACCCCCGATTTACAGAATTACTGTTTTACCCT
Found at i:109991512 original size:54 final size:54
Alignment explanation
Indices: 109991465--109991631 Score: 192
Period size: 54 Copynumber: 3.1 Consensus size: 54
109991455 ATTACTGTTT
* * * * * *
109991465 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTGAAATTACCGCAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCATGGTTTGTAAAATTACTGAAA
* * * * *
109991519 TACCCTCAATTTGTAAAACTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCATGGTTTGTAAAATTACTGAAA
* * *
109991573 TACCCTTTG-TTTATAAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAA
1 TACCC-TCGATTTATAAAATTACCAAAATACCCATGGTTTGTAAAATTACTGAAA
109991627 TACCC
1 TACCC
109991632 CTATAGGGTA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 95 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCATGGTTTGTAAAATTACTGAAA
Found at i:109991627 original size:81 final size:81
Alignment explanation
Indices: 109991479--109991661 Score: 208
Period size: 81 Copynumber: 2.3 Consensus size: 81
109991469 CTCGATTTAC
* * ** *
109991479 AAAATTACTAAAATACCCTTGGTTTGTGAAATTACCGCAATACCCTCAATTTGTAAAACTACCAA
1 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCAATTTGAAAAACTACCAA
* **
109991544 AATACCCCTGGT-TTGT
66 AATACCCCT-ATAGGGT
* ** * *
109991560 AAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCAT-GGTTTGAAAAATTACTA
1 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-TCAATTTGAAAAACTACCA
109991624 AAATACCCCTATAGGGT
65 AAATACCCCTATAGGGT
*
109991641 AAAATTACTGAAATACCCTTG
1 AAAATTACTAAAATACCCTTG
109991662 TGGGGTAAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 83 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCAATTTGAAAAACTACCAA
AATACCCCTATAGGGT
Found at i:109991644 original size:27 final size:27
Alignment explanation
Indices: 109991614--109991675 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
109991604 CATGGTTTGA
109991614 AAAATTACTAAAATACCCCTATAGGGT
1 AAAATTACTAAAATACCCCTATAGGGT
* * * *
109991641 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTATAGGGT
109991668 AAAATTAC
1 AAAATTAC
109991676 CATTTTGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTATAGGGT
Found at i:109991644 original size:54 final size:53
Alignment explanation
Indices: 109991479--109991658 Score: 155
Period size: 54 Copynumber: 3.3 Consensus size: 53
109991469 CTCGATTTAC
* * ** *** * * *
109991479 AAAATTACTAAAATACCCTTGGTTTGTGAAATTACCGCAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCT-TAGTGGT
* * * * **
109991533 AAAACTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCTTAG-TGGT
109991587 AAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCCTATAG-GGT
1 AAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATA-CCCT-TAGTGGT
**
109991641 AAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
109991659 TTGTGGGGTA
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
54 98 0.94
55 4 0.04
56 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCTTAGTGGT
Found at i:109992329 original size:28 final size:28
Alignment explanation
Indices: 109992296--109992392 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
109992286 GCGTAGATCA
109992296 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
109992324 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
109992352 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
109992380 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
109992393 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:109994268 original size:44 final size:44
Alignment explanation
Indices: 109994219--109994310 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
109994209 TGTTCAGGGA
*
109994219 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
* **
109994263 TACTTCGACTTCGATTCGATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
109994307 TACT
1 TACT
109994311 GTTACTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
Found at i:109999838 original size:22 final size:23
Alignment explanation
Indices: 109999813--109999859 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
109999803 TAAATTTTAA
109999813 AATAGG-AAAA-AAAAATAGACAT
1 AATAGGAAAAATAAAAATAGA-AT
109999835 AATAGGAAAAATAAAAATAGAAT
1 AATAGGAAAAATAAAAATAGAAT
109999858 AA
1 AA
109999860 AAGATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.26
23 8 0.35
24 9 0.39
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (23 bp):
AATAGGAAAAATAAAAATAGAAT
Found at i:109999868 original size:24 final size:24
Alignment explanation
Indices: 109999819--109999871 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
109999809 TTAAAATAGG
*
109999819 AAAA-AAAAATAGACATAATAGGA
1 AAAATAAAAATAGACATAAAAGGA
*
109999842 AAAATAAAAATAGA-ATAAAAGATA
1 AAAATAAAAATAGACATAAAAG-GA
109999866 AAAATA
1 AAAATA
109999872 CAGATAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (24 bp):
AAAATAAAAATAGACATAAAAGGA
Found at i:110006198 original size:14 final size:14
Alignment explanation
Indices: 110006153--110006203 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
110006143 ACCCACCTTC
110006153 TCCTCTTCCTTTCCCT
1 TCCTCTTCCTTT--CT
* *
110006169 TCCTCTTTCTTACT
1 TCCTCTTCCTTTCT
*
110006183 TCCTCATCCTTTCT
1 TCCTCTTCCTTTCT
110006197 T-CTCTTC
1 TCCTCTTC
110006204 TCTCTTCATC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 5 0.17
14 14 0.48
16 10 0.34
ACGTcount: A:0.04, C:0.43, G:0.00, T:0.53
Consensus pattern (14 bp):
TCCTCTTCCTTTCT
Found at i:110008741 original size:44 final size:39
Alignment explanation
Indices: 110008654--110008732 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
110008644 TTTTATGAGT
*
110008654 ATGTTAGTATTGATTTGCTATTCTAGAACTTGCATCGAC
1 ATGTCAGTATTGATTTGCTATTCTAGAACTTGCATCGAC
110008693 ATGTCAGTATTGATTTGCTATTCTAGAACTTGCATCGAC
1 ATGTCAGTATTGATTTGCTATTCTAGAACTTGCATCGAC
110008732 A
1 A
110008733 ATACATGTCG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (39 bp):
ATGTCAGTATTGATTTGCTATTCTAGAACTTGCATCGAC
Found at i:110015661 original size:18 final size:18
Alignment explanation
Indices: 110015624--110015662 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
110015614 TTGAAAATCA
*
110015624 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
110015642 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
110015660 AAA
1 AAA
110015663 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:110021711 original size:31 final size:30
Alignment explanation
Indices: 110021665--110021722 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
110021655 TTTGTATAAT
110021665 TTTCTCTCTAGTTTTAGACTTTAGTTTTTTA
1 TTTCTCTCTAGTTTTAGACTTTA-TTTTTTA
110021696 TTTCTCT-TAGATTTTAGACTTTATTTT
1 TTTCTCTCTAG-TTTTAGACTTTATTTT
110021723 CCATTATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.17, C:0.12, G:0.09, T:0.62
Consensus pattern (30 bp):
TTTCTCTCTAGTTTTAGACTTTATTTTTTA
Found at i:110022304 original size:18 final size:18
Alignment explanation
Indices: 110022256--110022304 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
110022246 GATTTGATAT
110022256 TTACTTTCATTCAATTTG
1 TTACTTTCATTCAATTTG
*
110022274 TTGCTTTCCATTC-ATTTAG
1 TTACTTT-CATTCAATTT-G
*
110022293 TTACTTTTATTC
1 TTACTTTCATTC
110022305 CCATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.57
Consensus pattern (18 bp):
TTACTTTCATTCAATTTG
Found at i:110027333 original size:3 final size:3
Alignment explanation
Indices: 110027325--110027367 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
110027315 TTCAAAAATA
110027325 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
110027368 ATGGACTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:110028991 original size:23 final size:23
Alignment explanation
Indices: 110028959--110029004 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
110028949 AGCGACAAAG
*
110028959 AGAAATAAAATAAAATAA-AATAA
1 AGAAACAAAATAAAA-AATAATAA
110028982 AGAAACAAAATAAAAAATAATAA
1 AGAAACAAAATAAAAAATAATAA
110029005 TTAAACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AGAAACAAAATAAAAAATAATAA
Found at i:110036974 original size:55 final size:55
Alignment explanation
Indices: 110036850--110036975 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 55
110036840 GAGCCTACCA
* * * * *
110036850 AAAC-AACACGGGCGTGCGACATGCCTGTGTTGAAGACCCGTGGTTGAAACTGAG
1 AAACTAACACGGGCGTGCGACACGCCCGTGTTGAACACCCGTGGTCGAAACTGAC
* * *
110036904 AAACTAGCACGGGCGTGCGACACGCCCGTGTCT-AACACCCGTGGTCGAACCTGTC
1 AAACTAACACGGGCGTGCGACACGCCCGTGT-TGAACACCCGTGGTCGAAACTGAC
* *
110036959 AAATTAACACAGGCGTG
1 AAACTAACACGGGCGTG
110036976 GGGCGTGAAC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 4 0.07
55 54 0.92
56 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (55 bp):
AAACTAACACGGGCGTGCGACACGCCCGTGTTGAACACCCGTGGTCGAAACTGAC
Found at i:110041590 original size:41 final size:41
Alignment explanation
Indices: 110041545--110041662 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
110041535 TGAAAGATAA
110041545 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
110041586 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
110041616 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
110041657 ATGTAG
1 ATGTAG
110041663 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:110041601 original size:71 final size:71
Alignment explanation
Indices: 110041513--110041676 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
110041503 GAGATGTATC
110041513 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
110041578 AGGACA
66 AGGACA
110041584 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
110041649 AGGACA
66 AGGACA
110041655 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
110041677 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:110051398 original size:47 final size:49
Alignment explanation
Indices: 110051321--110051450 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 49
110051311 AACCCGCCCC
* *
110051321 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
110051369 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
110051414 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
110051451 TCAACCATCC
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 29 0.42
47 28 0.41
48 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:110051466 original size:46 final size:45
Alignment explanation
Indices: 110051323--110051466 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
110051313 CCCGCCCCTA
*
110051323 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
110051370 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
110051416 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
110051462 AGTGA
1 AGTGA
110051467 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 30 0.38
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:110061742 original size:3 final size:3
Alignment explanation
Indices: 110061734--110061760 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
110061724 TAAACATTAA
110061734 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
110061761 TTACTCGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:110080322 original size:5 final size:5
Alignment explanation
Indices: 110080312--110080337 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
110080302 GCCTTTGAAT
110080312 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
110080338 GCAACATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:110086472 original size:18 final size:19
Alignment explanation
Indices: 110086444--110086481 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
110086434 AGAATCTTCA
110086444 AAAATTAATAAAATAAAAT
1 AAAATTAATAAAATAAAAT
*
110086463 AAAA-TAATAAAGTAAAAT
1 AAAATTAATAAAATAAAAT
110086481 A
1 A
110086482 GGATAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAATTAATAAAATAAAAT
Found at i:110092840 original size:40 final size:40
Alignment explanation
Indices: 110092791--110092998 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
110092781 TCTTCGGAAT
* *
110092791 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
110092830 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
110092870 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
110092910 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
110092950 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
110092990 TTAGCCCGG
1 TTAGCCCGG
110092999 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:110100940 original size:40 final size:40
Alignment explanation
Indices: 110100891--110101098 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
110100881 TCTTCGGAAT
* *
110100891 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
110100930 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
110100970 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
110101010 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
110101050 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
110101090 TTAGCCCGG
1 TTAGCCCGG
110101099 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:110104941 original size:13 final size:13
Alignment explanation
Indices: 110104923--110104948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110104913 GCTCGGCAGG
110104923 GACACGCCCGTGT
1 GACACGCCCGTGT
110104936 GACACGCCCGTGT
1 GACACGCCCGTGT
110104949 TTGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:110109561 original size:26 final size:25
Alignment explanation
Indices: 110109543--110109691 Score: 194
Period size: 25 Copynumber: 5.9 Consensus size: 25
110109533 AAAAGTGCTA
*
110109543 TGCCCCAGTTTATCGAAAAGGACTTT
1 TGCCCCAGTTTATC-AAAAGGGCTTT
* *
110109569 TACCCCAGTTTACCGAAAAGGGCTTT
1 TGCCCCAGTTTATC-AAAAGGGCTTT
*
110109595 TGCCCCAGTTTATTAAAAGGGCTTT
1 TGCCCCAGTTTATCAAAAGGGCTTT
* *
110109620 TGCCCTAGTTTATTAAAAGGGCTTT
1 TGCCCCAGTTTATCAAAAGGGCTTT
110109645 TGCCCCAGTTTATCAAAAGGGC-TT
1 TGCCCCAGTTTATCAAAAGGGCTTT
*
110109669 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAG-GGCT
110109692 AGGCCTCTAG
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.08
24 13 0.12
25 55 0.50
26 34 0.31
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (25 bp):
TGCCCCAGTTTATCAAAAGGGCTTT
Found at i:110109946 original size:31 final size:31
Alignment explanation
Indices: 110109901--110109961 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
110109891 GTTTACAATA
*
110109901 AAGGCTTTGGCCCAGTAATATGAAATATGAT
1 AAGGCTTCGGCCCAGTAATATGAAATATGAT
* **
110109932 AAGGCTTCGTCCCAGTGTTATGAAATATGA
1 AAGGCTTCGGCCCAGTAATATGAAATATGA
110109962 AATATGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAT
Found at i:110118953 original size:42 final size:42
Alignment explanation
Indices: 110118901--110119023 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
110118891 TGATATGTGT
*
110118901 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTTCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
* * *
110118943 TTTCTTGTAAGACCTTGTCTAGGG-CAGTGGCATCGATATTTGA
1 TTTCATGTAAGACCATGTCT-GGGACATTGGCATCG-TATTTGA
* * * ** *
110118986 TTACATGTAAGACCACGTCTAGGATGTTGGCATTGTAT
1 TTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAT
110119024 GTGCTTTCCG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
TTTCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
Found at i:110118997 original size:43 final size:43
Alignment explanation
Indices: 110118906--110119008 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
110118896 TGTGTTTTCG
* * *
110118906 TGTAAGACCATGTCT-GGGACATTGGCATCGTATTTGATTTCT
1 TGTAAGACCATGTCTAGGGACAGTGGCATCGTATTTGATTACA
*
110118948 TGTAAGACCTTGTCTAGGG-CAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGGACAGTGGCATCG-TATTTGATTACA
*
110118991 TGTAAGACCACGTCTAGG
1 TGTAAGACCATGTCTAGG
110119009 ATGTTGGCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 24 0.45
43 29 0.55
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGGACAGTGGCATCGTATTTGATTACA
Found at i:110119017 original size:43 final size:41
Alignment explanation
Indices: 110118906--110119023 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
110118896 TGTGTTTTCG
* * * *
110118906 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCT
1 TGTAAGACCATGTCTAGGA-GTTGGCATCGTATTTGATTACA
*
110118948 TGTAAGACCTTGTCTAGGGCAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTA-GG-AGTTGGCATCG-TATTTGATTACA
* *
110118991 TGTAAGACCACGTCTAGGATGTTGGCATTGTAT
1 TGTAAGACCATGTCTAGGA-GTTGGCATCGTAT
110119024 GTGCTTTCCG
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 33 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (41 bp):
TGTAAGACCATGTCTAGGAGTTGGCATCGTATTTGATTACA
Found at i:110122741 original size:27 final size:27
Alignment explanation
Indices: 110122710--110122762 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
110122700 CATCACATAG
110122710 GGGCAAAATAGTCATCTTACCATATAA
1 GGGCAAAATAGTCATCTTACCATATAA
* * *
110122737 GGGCAAAATAGTTATTTTATCATATA
1 GGGCAAAATAGTCATCTTACCATATA
110122763 TGGGGGTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (27 bp):
GGGCAAAATAGTCATCTTACCATATAA
Found at i:110125456 original size:51 final size:51
Alignment explanation
Indices: 110125349--110125488 Score: 241
Period size: 51 Copynumber: 2.8 Consensus size: 51
110125339 TCATACTTGG
*
110125349 CTGCCATAACATCTTTCATCTATAGTCTTA--CCATATACCTTATATCAGA
1 CTGCCATAACATCTTTCATCTATGGTCTTACGCCATATACCTTATATCAGA
*
110125398 CTACCATAACATCTTTCATCTATGGTCTTACGCCATATACCTTATATCAGA
1 CTGCCATAACATCTTTCATCTATGGTCTTACGCCATATACCTTATATCAGA
110125449 CTGCCATAACATCTTTCATC-ATGGTCTTACGCCATATACC
1 CTGCCATAACATCTTTCATCTATGGTCTTACGCCATATACC
110125489 ATCATCACGA
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
49 28 0.33
50 20 0.23
51 38 0.44
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (51 bp):
CTGCCATAACATCTTTCATCTATGGTCTTACGCCATATACCTTATATCAGA
Found at i:110130544 original size:61 final size:61
Alignment explanation
Indices: 110130445--110130562 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 61
110130435 ACTACAAATG
* * *
110130445 GAAAGGTTACATAGAATACTATTACAATAGAATCAGATCAATTTT-CTAATGGAAATAACTA
1 GAAAGGCTACACAGAATACTATTACAATAGAATAAGATC-ATTTTGCTAATGGAAATAACTA
* * *
110130506 GAAAGGCTACACAGAATATTATTGCACTAGAATAAGATCATTTTGCTAATGGAAATA
1 GAAAGGCTACACAGAATACTATTACAATAGAATAAGATCATTTTGCTAATGGAAATA
110130563 CTACAGCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
60 5 0.10
61 45 0.90
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (61 bp):
GAAAGGCTACACAGAATACTATTACAATAGAATAAGATCATTTTGCTAATGGAAATAACTA
Found at i:110135219 original size:42 final size:42
Alignment explanation
Indices: 110135106--110135275 Score: 139
Period size: 43 Copynumber: 4.0 Consensus size: 42
110135096 TTTCGATACG
* * *
110135106 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATC-AATT
1 TGATTTCATGTAAGACC-CTGTCTGGGACATTGGCATCGTATT
* * * *
110135147 TGAGATTTACGTGTAATACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CATGTAAGACCCTGTCTGGGACATTGGCATCGTATT
* * *
110135192 TGATTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGATGTT
1 TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCG-TATT
* * * *
110135235 TGATTACATGTAAGA-CATCGTCTGGGACGTTGGCATTGTAT
1 TGATTTCATGTAAGACCCT-GTCTGGGACATTGGCATCGTAT
110135276 GAGCTTTTCG
Statistics
Matches: 103, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 41 0.40
44 27 0.26
45 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCGTATT
Found at i:110135250 original size:43 final size:42
Alignment explanation
Indices: 110135114--110135275 Score: 125
Period size: 42 Copynumber: 3.8 Consensus size: 42
110135104 CGTGATTTCG
* * * *
110135114 TGTAAGACCACGTCTGGGAC-GTTGGCATC-AATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTATAT--GA-TTACA
* * *
110135158 TGTAATACCATGTCTGGGACATTGGCATCGTATATGATTTCA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
* * * *
110135200 TGTAAGACCCTGTTTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGATTACA
*
110135243 TGTAAGA-CATCGTCTGGGAC-GTTGGCATTGTAT
1 TGTAAGACCAT-GTCTGGGACAG-TGGCATCGTAT
110135276 GAGCTTTTCG
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 34 0.36
43 33 0.35
44 25 0.26
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
Found at i:110156000 original size:2 final size:2
Alignment explanation
Indices: 110155993--110156018 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
110155983 GGCCATTAGA
110155993 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
110156019 GGAGTGATAT
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:110159662 original size:44 final size:44
Alignment explanation
Indices: 110159554--110159643 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
110159544 TAATTGTAAT
* * * * *
110159554 TTAAATTCTAATTATTTTTAAATGTGTATTTATCACAACTTCTA
1 TTAAATTATAACTATTTTTAAATATATAATTATCACAACTTCTA
*
110159598 TTAAATTATAACTATTTTTAAATATATAATTATCGCAACTTCTA
1 TTAAATTATAACTATTTTTAAATATATAATTATCACAACTTCTA
110159642 TT
1 TT
110159644 TTATTTAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (44 bp):
TTAAATTATAACTATTTTTAAATATATAATTATCACAACTTCTA
Found at i:110167942 original size:40 final size:40
Alignment explanation
Indices: 110167877--110167971 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
110167867 CCATCTCCAT
* * *
110167877 CCAACCCAACACACC-A-TGTGGGGATAAAATTGACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
* * *
110167915 CCAGCCCTACACACCAAGTATGGGGATAAAATTAACTCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
110167955 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
110167972 AAAGTATCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 13 0.27
39 1 0.02
40 34 0.71
ACGTcount: A:0.38, C:0.35, G:0.13, T:0.15
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
Found at i:110170190 original size:29 final size:29
Alignment explanation
Indices: 110170148--110170224 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
110170138 AATTATATTC
* * *
110170148 ATATGGCCCATTAGGGCCAAATCACCTGT
1 ATATGGCCTATTAGGCCCAAATCACATGT
*
110170177 ATATGGCCTATTAGGCCCAAATCACATTT
1 ATATGGCCTATTAGGCCCAAATCACATGT
* *
110170206 ATATGGCCTGTTAAGCCCA
1 ATATGGCCTATTAGGCCCA
110170225 GTCACATTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (29 bp):
ATATGGCCTATTAGGCCCAAATCACATGT
Found at i:110170461 original size:8 final size:8
Alignment explanation
Indices: 110170448--110170490 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
110170438 GTAGCCAAAC
110170448 TTTCGGCT
1 TTTCGGCT
110170456 TTTCGGCAT
1 TTTCGGC-T
110170465 TTT-GGCT
1 TTTCGGCT
*
110170472 TTTCGGCA
1 TTTCGGCT
110170480 TTTCGGCT
1 TTTCGGCT
110170488 TTT
1 TTT
110170491 GTCGATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 4 0.13
8 23 0.74
9 4 0.13
ACGTcount: A:0.05, C:0.21, G:0.23, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:110170473 original size:16 final size:16
Alignment explanation
Indices: 110170448--110170490 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
110170438 GTAGCCAAAC
110170448 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
110170464 TTTTGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
110170480 TTTCGGCTTTT
1 TTTCGGCTTTT
110170491 GTCGATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.05, C:0.21, G:0.23, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:110172103 original size:18 final size:19
Alignment explanation
Indices: 110172077--110172117 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
110172067 TGCCTCTTGG
110172077 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
110172095 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
110172114 CGGT
1 CGGT
110172118 CCATAACTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:110172643 original size:13 final size:13
Alignment explanation
Indices: 110172621--110172653 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
110172611 AAGGGTTTGT
110172621 TTAT-TAAACTAA
1 TTATCTAAACTAA
110172633 TTATCTAAACTAA
1 TTATCTAAACTAA
*
110172646 TTAACTAA
1 TTATCTAA
110172654 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:110175639 original size:14 final size:14
Alignment explanation
Indices: 110175620--110175646 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110175610 AATATAATTA
110175620 TTACTATTATTATT
1 TTACTATTATTATT
110175634 TTACTATTATTAT
1 TTACTATTATTAT
110175647 CTAATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTACTATTATTATT
Found at i:110175645 original size:23 final size:23
Alignment explanation
Indices: 110175616--110175689 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
110175606 ACTTAATATA
110175616 ATTATTACTATTATTATTTTACT
1 ATTATTACTATTATTATTTTACT
*
110175639 ATTATTATCTAATA-TATTTTTA-T
1 ATTATTA-CTATTATTA-TTTTACT
* *
110175662 ATTATCACGATTTTTATTATTTTACT
1 ATTATTAC---TATTATTATTTTACT
110175688 AT
1 AT
110175690 GTCATCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
22 1 0.03
23 16 0.40
24 10 0.25
25 8 0.20
26 5 0.12
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.59
Consensus pattern (23 bp):
ATTATTACTATTATTATTTTACT
Found at i:110175812 original size:3 final size:3
Alignment explanation
Indices: 110175788--110175913 Score: 55
Period size: 3 Copynumber: 41.3 Consensus size: 3
110175778 TACAACTTCC
* *
110175788 ATT ATT -TT TTT ATGT ATAT ATT ATT AATT A-T ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT AT-T AT-T ATT ATT -ATT ATT ATT ATT ATT ATT ATT
* * * * * *
110175834 ACT ATT ATT AAAT ATC CTT ATT ATT ACT ATT ATT -TT CATT CCTT -TT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT -ATT ATT
* * *
110175880 ATT ATT GCTT ATT ATC ATT -GT ATT ATT ATT ATT A
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A
110175914 CTTTCTTTGT
Statistics
Matches: 92, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
2 9 0.10
3 65 0.71
4 18 0.20
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:110175959 original size:3 final size:3
Alignment explanation
Indices: 110175951--110176003 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
110175941 TTATTGTTTA
110175951 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
110175999 TAT TA
1 TAT TA
110176004 CTATATTTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:110178721 original size:28 final size:28
Alignment explanation
Indices: 110178689--110178752 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
110178679 ATTTACTAGA
*
110178689 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
110178717 ATA-CCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
110178744 ATACCCCTA
1 ATACCCCTA
110178753 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 24 0.75
28 8 0.25
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:110178912 original size:27 final size:28
Alignment explanation
Indices: 110178858--110178947 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
110178848 AGGAAGCGTC
* *
110178858 CTGGTGGCTA-TGCTACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
110178886 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
110178913 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
110178942 CTGGTG
1 CTGGTG
110178948 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:110178958 original size:29 final size:28
Alignment explanation
Indices: 110178872--110178958 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 28
110178862 TGGCTATGCT
* * *
110178872 ACAAATTATCTGTTCTGGTGGCCCTGCC
1 ACAAAATATCTGTTCTGGTGACACTGCC
** *
110178900 AC-GTATATCTGTTCTGGTGGCACTGCC
1 ACAAAATATCTGTTCTGGTGACACTGCC
* *
110178927 ACAAAATATCTGTATCTGGTGACTCTGTC
1 ACAAAATATCTGT-TCTGGTGACACTGCC
110178956 ACA
1 ACA
110178959 TTTTCTGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 23 0.48
28 10 0.21
29 15 0.31
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
ACAAAATATCTGTTCTGGTGACACTGCC
Found at i:110178966 original size:55 final size:56
Alignment explanation
Indices: 110178858--110178972 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
110178848 AGGAAGCGTC
* * * *
110178858 CTGGTGGCTATGCTACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
110178913 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
110178969 CTGG
1 CTGG
110178973 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:110191431 original size:43 final size:42
Alignment explanation
Indices: 110191378--110191705 Score: 182
Period size: 43 Copynumber: 7.6 Consensus size: 42
110191368 GTAAGCCTTA
*
110191378 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT
1 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
* ** ** *
110191420 AACCCCTTAAGCAGTAGGGAAACA-AATCGAAGGCGA-AGAGCCTT
1 AACCCC-TAAGCAGTAGGGTAACAGGCT-GAA-TTGACAGA-TCTT
* *
110191464 AAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
** * * * ** *
110191507 GTCTCCCTAAGCAGTAGTGAAACA-GATCGAAGGCGA-AGAGCCTT
1 AAC-CCCTAAGCAGTAGGGTAACAGGCT-GAA-TTGACAGA-TCTT
* *
110191551 AAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
** * * ** ** * * *
110191594 GTCTCTCTAAGCAGTAGTGG--AGAGAATCGAAGACGAAAAACCTT
1 AAC-CCCTAAGCAGTAG-GGTAACAGGCT-GAA-TTGACAGATCTT
*
110191638 AAACCCCTAAGCAGTAGGGTAACAGGCTGAATTAACAGATCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
*
110191681 AACCCCTTAAGCAGTAGGGAAACAG
1 AACCCC-TAAGCAGTAGGGTAACAG
110191706 ATGGAAGGCG
Statistics
Matches: 203, Mismatches: 61, Indels: 43
0.66 0.20 0.14
Matches are distributed among these distances:
42 21 0.10
43 92 0.45
44 75 0.37
45 15 0.07
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (42 bp):
AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
Found at i:110191473 original size:87 final size:87
Alignment explanation
Indices: 110191371--110191762 Score: 520
Period size: 87 Copynumber: 4.5 Consensus size: 87
110191361 AAAGACGGTA
110191371 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTA
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTA
110191436 GGGAAACAAATCGAAGGCGAAG
66 GGGAAACAAATCGAAGGCGAAG
* **
110191458 AGCCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTGTCTCCC-TAAGCAGT
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC-CCCTTAAGCAGT
* *
110191522 AGTGAAACAGATCGAAGGCGAAG
65 AGGGAAACAAATCGAAGGCGAAG
* ** *
110191545 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTT-GTCTCTCTAAGCAGT
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCT-TAAGCAGT
* * * *
110191609 AGTGGAGA-GAATCGAAGACGAAA
65 AG-GGAAACAAATCGAAGGCGAAG
* *
110191632 AACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTAACAGATCTTAACCCCTTAAGCAGTA
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTA
* * *
110191697 GGGAAACAGATGGAAGGCGATG
66 GGGAAACAAATCGAAGGCGAAG
* * ** *
110191719 GGCCTTAAACCCTTCTGCAGTAGGGTAACAGGCTGGAAATTACA
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA
110191763 ATTCTCTTAT
Statistics
Matches: 262, Mismatches: 36, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
85 2 0.01
86 4 0.02
87 240 0.92
88 16 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (87 bp):
AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTA
GGGAAACAAATCGAAGGCGAAG
Found at i:110191481 original size:44 final size:44
Alignment explanation
Indices: 110191420--110191574 Score: 129
Period size: 44 Copynumber: 3.5 Consensus size: 44
110191410 TACAGATCTT
110191420 AACCCCTTAAGCAGTAGGGAAACAAATCGAAGGCGAAGAGCCTTA
1 AACCCC-TAAGCAGTAGGGAAACAAATCGAAGGCGAAGAGCCTTA
* * ** *** *
110191465 AACCCCTAAGTAGTAGGGTAAC-AGGCTGAA-TTTACAGA-TCTT-
1 AACCCCTAAGCAGTAGGGAAACAAATC-GAAGGCGA-AGAGCCTTA
** * *
110191507 GTCTCCCTAAGCAGTAGTGAAACAGATCGAAGGCGAAGAGCCTTA
1 AAC-CCCTAAGCAGTAGGGAAACAAATCGAAGGCGAAGAGCCTTA
*
110191552 AACCCCTAAGCAGTAGGGTAACA
1 AACCCCTAAGCAGTAGGGAAACA
110191575 GGCTAAATTT
Statistics
Matches: 79, Mismatches: 24, Indels: 15
0.67 0.20 0.13
Matches are distributed among these distances:
42 1 0.01
43 28 0.35
44 43 0.54
45 7 0.09
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (44 bp):
AACCCCTAAGCAGTAGGGAAACAAATCGAAGGCGAAGAGCCTTA
Found at i:110191575 original size:44 final size:44
Alignment explanation
Indices: 110191371--110191753 Score: 161
Period size: 43 Copynumber: 8.8 Consensus size: 44
110191361 AAAGACGGTA
***
110191371 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
* * **
110191415 A-TCTT-AACCCCTTAAGCAGTAGGGAAACA-AATCGAAGGCGA-AG
1 AGCCTTAAACCCC-TAAGCAGTAGGGTAACAGGCT-GAA-GCGACAG
* ***
110191458 AGCCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
* ** * * *
110191502 A-TCTT-GTCTCCCTAAGCAGTAGTGAAACA-GATCGAAGGCGA-AG
1 AGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAA-GCGACAG
* ***
110191545 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
* ** * * ** *
110191589 A-TCTT-GTCTCTCTAAGCAGTAGTGG--AGAGAATCGAAGACGA-AA
1 AGCCTTAAAC-CCCTAAGCAGTAG-GGTAACAGGCT-GAAG-CGACAG
* ***
110191632 AACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTAACAG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
* * * *
110191676 A-TCTT-AACCCCTTAAGCAGTAGGGAAACA-GATGGAAGGCGA-TG
1 AGCCTTAAACCCC-TAAGCAGTAGGGTAACAGGCT-GAA-GCGACAG
* * **
110191719 GGCCTTAAACCCTTCTGCAGTAGGGTAACAGGCTG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG
110191754 GAAATTACAA
Statistics
Matches: 238, Mismatches: 72, Indels: 58
0.65 0.20 0.16
Matches are distributed among these distances:
42 23 0.10
43 98 0.41
44 95 0.40
45 22 0.09
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.20
Consensus pattern (44 bp):
AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
Found at i:110191806 original size:22 final size:22
Alignment explanation
Indices: 110191775--110191852 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 22
110191765 TCTCTTATCC
110191775 CTGAA-ATAGCAGTGGAGCAGA
1 CTGAAGATAGCAGTGGAGCAGA
** * ***
110191796 CTGAAGATAGCAAGTCTTATCTCC
1 CTGAAGATAGC-AGT-GGAGCAGA
*
110191820 CTGAAG-TTGCAGTGGAGCAGA
1 CTGAAGATAGCAGTGGAGCAGA
110191841 CTGAAGATAGCA
1 CTGAAGATAGCA
110191853 AGTCTTAAAG
Statistics
Matches: 39, Mismatches: 14, Indels: 7
0.65 0.23 0.12
Matches are distributed among these distances:
21 13 0.33
22 12 0.31
23 6 0.15
24 8 0.21
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (22 bp):
CTGAAGATAGCAGTGGAGCAGA
Found at i:110191823 original size:45 final size:45
Alignment explanation
Indices: 110191772--110191859 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
110191762 AATTCTCTTA
110191772 TCCCTGAAATAGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATC
1 TCCCTGAAATAGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATC
* *
110191817 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTA
1 TCCCTGAAATAGCAGTGGAGCAGACTGAAGATAGCAAGTCTTA
110191860 AAGTTGCAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (45 bp):
TCCCTGAAATAGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATC
Found at i:110193259 original size:14 final size:14
Alignment explanation
Indices: 110193240--110193266 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110193230 AATATAATTA
110193240 TTACTATTATTATT
1 TTACTATTATTATT
110193254 TTACTATTATTAT
1 TTACTATTATTAT
110193267 CTAATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTACTATTATTATT
Found at i:110193433 original size:3 final size:3
Alignment explanation
Indices: 110193427--110193575 Score: 74
Period size: 3 Copynumber: 48.7 Consensus size: 3
110193417 TATTTCTAAC
* *
110193427 TAT TAT TAT TTT TAT GTAT ATAT TAT TAAT TA- TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * ** * *
110193474 TAC TAT TAT TAAA TAT CCT TAT TAT TAC TAT TAT T-T TCAT TCCT T-T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT T-AT TAT
* * * *
110193520 TAT TAT TGTT TAT TAT CAT T-G TAT TAT TAT TAT TACT T-C TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
*
110193565 TGT TAT TAT TA
1 TAT TAT TAT TA
110193576 CTTTCTTTGT
Statistics
Matches: 109, Mismatches: 26, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
2 8 0.07
3 81 0.74
4 20 0.18
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:110194093 original size:24 final size:24
Alignment explanation
Indices: 110194066--110194120 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
110194056 ATTATAAGTC
110194066 TGTTTACTTACTCATATGTTTATT
1 TGTTTACTTACTCATATGTTTATT
110194090 TGTTTACTTACTCATATGTTTATT
1 TGTTTACTTACTCATATGTTTATT
*
110194114 TGCTTAC
1 TGTTTAC
110194121 CCCCGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.09, T:0.56
Consensus pattern (24 bp):
TGTTTACTTACTCATATGTTTATT
Found at i:110196288 original size:17 final size:16
Alignment explanation
Indices: 110196266--110196316 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
110196256 AAATTAAAAT
* *
110196266 AATAAAATTGAAATGAA
1 AATAAAAATAAAAT-AA
110196283 AATAAAAATAAAAATAA
1 AATAAAAAT-AAAATAA
110196300 AAT-AAAATAAAATAA
1 AATAAAAATAAAATAA
110196315 AA
1 AA
110196317 GAATAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 9 0.29
16 5 0.16
17 13 0.42
18 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AATAAAAATAAAATAA
Found at i:110196289 original size:5 final size:5
Alignment explanation
Indices: 110196266--110196316 Score: 57
Period size: 5 Copynumber: 9.4 Consensus size: 5
110196256 AAATTAAAAT
*
110196266 AATAA AATTGA AATGAA AATAAA AATAAA AATAA AATAA AATAA AATAA
1 AATAA AA-TAA AAT-AA AAT-AA AAT-AA AATAA AATAA AATAA AATAA
110196315 AA
1 AA
110196317 GAATAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
5 22 0.54
6 19 0.46
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:110205045 original size:57 final size:57
Alignment explanation
Indices: 110204979--110205094 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 57
110204969 CAAACAATTT
* *
110204979 CAAATACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCC
1 CAAATACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
* * * *
110205035 CAAATCACCTGTATATGGCCTATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 CAAAT-ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
110205093 CA
1 CA
110205095 GTCACATTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 5 0.10
57 21 0.40
58 26 0.50
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (57 bp):
CAAATACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
Found at i:110205050 original size:29 final size:29
Alignment explanation
Indices: 110204979--110205094 Score: 130
Period size: 29 Copynumber: 4.1 Consensus size: 29
110204969 CAAACAATTT
* * *
110204979 CAAAT-ACCTGTATCTGGCCCATTAAGCC
1 CAAATCACATGTATATGGCCCATTAGGCC
*
110205007 C-AATCATAT-TCATATGGCCCATTAGGCC
1 CAAATCACATGT-ATATGGCCCATTAGGCC
* *
110205035 CAAATCACCTGTATATGGCCTATTAGGCC
1 CAAATCACATGTATATGGCCCATTAGGCC
* *
110205064 CAAATCACATTTATATGGCCCGTTAGGCC
1 CAAATCACATGTATATGGCCCATTAGGCC
110205093 CA
1 CA
110205095 GTCACATTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.05
28 19 0.26
29 49 0.67
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
CAAATCACATGTATATGGCCCATTAGGCC
Found at i:110205342 original size:16 final size:16
Alignment explanation
Indices: 110205318--110205360 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
110205308 GTAGCCAAAC
*
110205318 TTTCTACTTTTCGGCA
1 TTTCGACTTTTCGGCA
110205334 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCGGCA
*
110205350 TTTCGGCTTTT
1 TTTCGACTTTT
110205361 GCCGATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.09, C:0.23, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Found at i:110216249 original size:24 final size:24
Alignment explanation
Indices: 110216200--110216247 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
110216190 AAACATGGGG
110216200 TAAAAATATGTATAATTTACAGTT
1 TAAAAATATGTATAATTTACAGTT
110216224 TAAAAATATGTATAATTTAC-GTT
1 TAAAAATATGTATAATTTACAGTT
110216247 T
1 T
110216248 TATCAACCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (24 bp):
TAAAAATATGTATAATTTACAGTT
Found at i:110248564 original size:29 final size:29
Alignment explanation
Indices: 110248532--110248591 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
110248522 AATTTGACAG
110248532 GTTCGACCACAGGTGTTAGACACGGGCGT
1 GTTCGACCACAGGTGTTAGACACGGGCGT
110248561 GTTCGACCACAGGTGTTAGACACGGGCGT
1 GTTCGACCACAGGTGTTAGACACGGGCGT
110248590 GT
1 GT
110248592 CGGACGCCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.22
Consensus pattern (29 bp):
GTTCGACCACAGGTGTTAGACACGGGCGT
Found at i:110252849 original size:3 final size:3
Alignment explanation
Indices: 110252836--110252877 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
110252826 AATTTGGATG
*
110252836 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110252878 ATGTTTAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:110254346 original size:16 final size:15
Alignment explanation
Indices: 110254321--110254351 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
110254311 CTAGATCGGC
110254321 AAAAGCTGAAAAGCT
1 AAAAGCTGAAAAGCT
110254336 AAAATGCTGAAAAGCT
1 AAAA-GCTGAAAAGCT
110254352 GGCATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (15 bp):
AAAAGCTGAAAAGCT
Done.