Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 95 of 356
Found at i:29995604 original size:43 final size:43
Alignment explanation
Indices: 29995541--29995650 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 43
29995531 GACACCTCAA
* *
29995541 TGCATTATTGGATAAGCCAAAGTAAATATACTAGCACACATAG
1 TGCATCATTGGATAAACCAAAGTAAATATACTAGCACACATAG
*
29995584 TGCATCATTGGATAAACCAAAGTAAATATACTAGCATACATAG
1 TGCATCATTGGATAAACCAAAGTAAATATACTAGCACACATAG
* *
29995627 TGCATCATTTGATAAACCGAAGTA
1 TGCATCATTGGATAAACCAAAGTA
29995651 TAAACTTTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.26
Consensus pattern (43 bp):
TGCATCATTGGATAAACCAAAGTAAATATACTAGCACACATAG
Found at i:29998798 original size:43 final size:43
Alignment explanation
Indices: 29998701--29998822 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
29998691 TAAGAAGTCT
* * * * * *
29998701 GAACTCATTGAGTGGTCCGGGTTCGTGA-GGTATG-TAGCATTC
1 GAACTCATTGAGAGGTCTGAGTTCATGATGG-ATGCGAGCATCC
* * *
29998743 GAGCTCATTGAGAGGT-TCGAGTTCATTATGGTTGCGAGCATCC
1 GAACTCATTGAGAGGTCT-GAGTTCATGATGGATGCGAGCATCC
*
29998786 GAACTCGTTGAGAGGTCTGAGTTCATGATGGATGCGA
1 GAACTCATTGAGAGGTCTGAGTTCATGATGGATGCGA
29998823 TTCATATAAC
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
42 23 0.37
43 39 0.62
44 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (43 bp):
GAACTCATTGAGAGGTCTGAGTTCATGATGGATGCGAGCATCC
Found at i:30013527 original size:28 final size:27
Alignment explanation
Indices: 30013488--30013547 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
30013478 CCCTGTTTAG
*
30013488 AATA-CTTTAGTTTACTAAAATTACCGA
1 AATACCTTTAGTTT-CTAAAAATACCGA
* *
30013515 AATACCTTTAGTTTGTAAAAATACTGA
1 AATACCTTTAGTTTCTAAAAATACCGA
30013542 AATACC
1 AATACC
30013548 CTCGATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (27 bp):
AATACCTTTAGTTTCTAAAAATACCGA
Found at i:30013533 original size:27 final size:27
Alignment explanation
Indices: 30013503--30013601 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
30013493 TTTAGTTTAC
30013503 TAAAATTACCGAAATACCTTTAG-TTTG
1 TAAAATTACCGAAATACC-TTAGATTTG
* * * *
30013530 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
30013557 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
30013584 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
30013602 CCCGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.08
27 57 0.92
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:30013602 original size:54 final size:54
Alignment explanation
Indices: 30013503--30013609 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
30013493 TTTAGTTTAC
* * * *
30013503 TAAAATTACCGAAATACCTTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTGAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* *
30013557 TAAAATTACTGAAATACCTTCGA-CTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCTT-GAGCTTGTAAAAATACTCAAA-TACCCCCGATTT
30013610 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 3 0.07
54 41 0.91
55 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (54 bp):
TAAAATTACCGAAATACCTTGAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:30013617 original size:27 final size:27
Alignment explanation
Indices: 30013587--30013647 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
30013577 CGACTTGTAA
30013587 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
***** *
30013614 AATTACTGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
30013641 AATTACC
1 AATTACC
30013648 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:30013651 original size:27 final size:27
Alignment explanation
Indices: 30013598--30013809 Score: 266
Period size: 27 Copynumber: 7.9 Consensus size: 27
30013588 ATTACCAAAG
*
30013598 TACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
30013625 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
30013652 TACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAGAATTACT-GTTT
* * *
30013679 TACCCTTGACTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
30013706 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
30013733 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
30013760 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
30013787 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
30013810 AAAATACCCT
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 160 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:30013817 original size:27 final size:27
Alignment explanation
Indices: 30013733--30013953 Score: 101
Period size: 27 Copynumber: 8.1 Consensus size: 27
30013723 ATTACCGTTT
* * ****
30013733 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
30013760 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
30013787 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
30013814 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
30013841 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
*
30013868 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
30013895 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
30013924 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
30013951 TAC
1 TAC
30013954 GCTTGGTTTG
Statistics
Matches: 159, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.01
27 131 0.82
28 8 0.05
29 19 0.12
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:30013819 original size:81 final size:82
Alignment explanation
Indices: 30013605--30013808 Score: 297
Period size: 81 Copynumber: 2.5 Consensus size: 82
30013595 AAGTACCCCC
* * *
30013605 GATTTACAGAATTACTGTTTTACCCCCGATTTACATAATTACCGTTTTACCC-CTGATTTACATA
1 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCTGATTTACAGA
30013669 ATTATCGTTTTACCCTT
66 ATTATCGTTTTACCCTT
* * * * * *
30013686 GACTTACAGAATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTC-GATTTATAGA
1 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCTGATTTACAGA
30013750 ATTA-CTGTTTTACCCTT
66 ATTATC-GTTTTACCCTT
30013767 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
30013809 TAAAATACCC
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 106 0.98
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (82 bp):
GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCTGATTTACAGA
ATTATCGTTTTACCCTT
Found at i:30013834 original size:54 final size:54
Alignment explanation
Indices: 30013585--30013889 Score: 171
Period size: 54 Copynumber: 5.6 Consensus size: 54
30013575 TTCGACTTGT
* * ** * * *
30013585 AAAATTACCAAAGTACCCCCGATTTACAGAATTACTGTTTTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* ***** * * * * *
30013639 ATAATTACCGTTTTACCCCTGATTTACATAATTATCGTTTTACCCTTGACTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* *** ** * * *
30013693 AGAATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* **** * *
30013747 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* ** **** * **
30013801 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGA-TTTAC
* * *
30013855 AAAATTACCAAAATACCCCTGATTTACAAAGTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTAC
30013890 AGAAATACCC
Statistics
Matches: 197, Mismatches: 53, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
53 2 0.01
54 195 0.99
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
Found at i:30013845 original size:81 final size:81
Alignment explanation
Indices: 30013544--30013845 Score: 237
Period size: 81 Copynumber: 3.7 Consensus size: 81
30013534 AATACTGAAA
** * * * * **
30013544 TACCCTCGATTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCCCGAT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTT-GATTTATAAAATTACCAAATTACCCTTGAT
30013608 TTACAGAATTACTGTTT
65 TTACAGAATTACTGTTT
* * *** * * * * *** *
30013625 TACCCCCGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCGTTTTACCCTTGACT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTTGATTTATAAAATTACCAAATTACCCTTGATT
*
30013690 TACAGAATTACTATTT
66 TACAGAATTACTGTTT
* * * *** * * ****
30013706 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTTGATTTATAAAATTACCAAATTACCCTTGATT
30013771 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
** * * *
30013787 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC
1 TACCCTCGATTTACAAAATTACCGAAATACCCTTGATTTATAAAATTACCAAATTACCC
30013846 CTAGTTTGTA
Statistics
Matches: 169, Mismatches: 51, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
81 166 0.98
82 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGAAATACCCTTGATTTATAAAATTACCAAATTACCCTTGATT
TACAGAATTACTGTTT
Found at i:30013959 original size:27 final size:27
Alignment explanation
Indices: 30013760--30013962 Score: 133
Period size: 27 Copynumber: 7.4 Consensus size: 27
30013750 ATTACTGTTT
* * ****
30013760 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
30013787 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
** *
30013814 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** *
30013841 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * *
30013868 TACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
*
30013895 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
* *
30013924 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
30013951 TACGCTTGGTTT
1 TACCCTTGGTTT
30013963 GTAGATTTAC
Statistics
Matches: 143, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.01
27 116 0.81
28 7 0.05
29 19 0.13
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:30014080 original size:27 final size:27
Alignment explanation
Indices: 30014003--30014080 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
30013993 AAATGACTAA
* *
30014003 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
30014030 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
30014057 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
30014081 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:30014518 original size:253 final size:253
Alignment explanation
Indices: 30014067--30014574 Score: 998
Period size: 253 Copynumber: 2.0 Consensus size: 253
30014057 AATACCCCTG
30014067 TATGGTAAAATGACGAATATGCCCTTATGTTCCGTATGGCTGATGTACTTAGGATTTACATATAT
1 TATGGTAAAATGACGAATATGCCCTTATGTTCCGTATGGCTGATGTACTTAGGATTTACATATAT
30014132 TGATATGGGATTAGTTAAGTTTGAGTGACAGGTGGTGGTCATCGTAGGCGATTGATTTTGGAAAC
66 TGATATGGGATTAGTTAAGTTTGAGTGACAGGTGGTGGTCATCGTAGGCGATTGATTTTGGAAAC
*
30014197 GTTTCAACTTCAACCCGTAACAGGTGTGTACTAACCCTCGTAATAGCTTAGATTAATATTTGCTG
131 GTTTCAACTTCAACCCGTAACAGGTGTGTACTAACCCTCGTAATAGCTTAGATTAATATTTACTG
30014262 AGAAGCCGAAATGCTAAAATACCGGTATTTTGGGAACTTGTAATGTTGCGTTTGGGTA
196 AGAAGCCGAAATGCTAAAATACCGGTATTTTGGGAACTTGTAATGTTGCGTTTGGGTA
30014320 TATGGTAAAATGACGAATATGCCCTTATGTTCCGTATGGCTGATGTACTTAGGATTTACATATAT
1 TATGGTAAAATGACGAATATGCCCTTATGTTCCGTATGGCTGATGTACTTAGGATTTACATATAT
30014385 TGATATGGGATTAGTTAAGTTTGAGTGACAGGTGGTGGTCATCGTAGGCGATTGATTTTGGAAAC
66 TGATATGGGATTAGTTAAGTTTGAGTGACAGGTGGTGGTCATCGTAGGCGATTGATTTTGGAAAC
30014450 GTTTCAACTTCAACCCGTAACAGGTGTGTACTAACCCTCGTAATAGCTTAGATTAATATTTACTG
131 GTTTCAACTTCAACCCGTAACAGGTGTGTACTAACCCTCGTAATAGCTTAGATTAATATTTACTG
*
30014515 AGAAGCTGAAATGCTAAAATACCGGTATTTTGGGAACTTGTAATGTTGCGTTTGGGTA
196 AGAAGCCGAAATGCTAAAATACCGGTATTTTGGGAACTTGTAATGTTGCGTTTGGGTA
30014573 TA
1 TA
30014575 GATGCGATAA
Statistics
Matches: 253, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
253 253 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (253 bp):
TATGGTAAAATGACGAATATGCCCTTATGTTCCGTATGGCTGATGTACTTAGGATTTACATATAT
TGATATGGGATTAGTTAAGTTTGAGTGACAGGTGGTGGTCATCGTAGGCGATTGATTTTGGAAAC
GTTTCAACTTCAACCCGTAACAGGTGTGTACTAACCCTCGTAATAGCTTAGATTAATATTTACTG
AGAAGCCGAAATGCTAAAATACCGGTATTTTGGGAACTTGTAATGTTGCGTTTGGGTA
Found at i:30015165 original size:26 final size:26
Alignment explanation
Indices: 30015136--30015259 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
30015126 GAGGAAGTGC
*
30015136 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
30015162 AAAAGGGCTTATGCCTCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
**
30015188 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACCA
* * *
30015214 AAAAGGGCTTATGCTCCAGGTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
30015240 AAAAGGGCTT-TTCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
30015260 ATTAAAGAGG
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 7 0.08
26 78 0.92
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:30015463 original size:42 final size:42
Alignment explanation
Indices: 30015404--30015495 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
30015394 TAGTCTCCCC
* ** *
30015404 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
30015446 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
30015488 AAATGGGC
1 AAATGGGC
30015496 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:30015554 original size:31 final size:31
Alignment explanation
Indices: 30015519--30015597 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
30015509 CGTTTACAGT
30015519 AAAGGTTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGTTTCGGCCCAGTGAAATGATTTATGA
* *
30015550 AAAGGCTTT-GGCCTAGTGATATGATTTATGA
1 AAAGG-TTTCGGCCCAGTGAAATGATTTATGA
**
30015581 AAAGACTTCGGCCCAGT
1 AAAGGTTTCGGCCCAGT
30015598 AATCGTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.05
31 36 0.88
32 3 0.07
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGTTTCGGCCCAGTGAAATGATTTATGA
Found at i:30022710 original size:27 final size:28
Alignment explanation
Indices: 30022601--30022723 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
30022591 GAGATTGGCG
* * * *
30022601 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
30022630 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
30022658 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
30022686 CTAAGTGTGAGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
30022713 CTGAGTGTGCG
1 CTAAGTGTGCG
30022724 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.26
28 49 0.56
29 15 0.17
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:30022734 original size:27 final size:27
Alignment explanation
Indices: 30022626--30022737 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 27
30022616 TAAATTGTAC
*
30022626 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
30022654 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
* *
30022682 AGCACTAAGTGTGAGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
30022709 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTGAT-TATAT
30022738 TTTTGAATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 22 0.29
28 49 0.64
29 5 0.07
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:30039293 original size:159 final size:159
Alignment explanation
Indices: 30039004--30039323 Score: 552
Period size: 159 Copynumber: 2.0 Consensus size: 159
30038994 ATATCCTCAA
*
30039004 AGGGCTTGGGATAAGTCTAGAATATTTAGGATATACTTCCAAGTTTTGGGAAGTCGATTACCTTG
1 AGGGCTTAGGATAAGTCTAGAATATTTAGGATATACTTCCAAGTTTTGGGAAGTCGATTACCTTG
* *
30039069 ATTCCATGTAAACCAATCTCTAAGATATGTTGCACTAAGCAATTTGGATATCAAATATAGGCTTG
66 ATTCCATGCAAACCAATCTCGAAGATATGTTGCACTAAGCAATTTGGATATCAAATATAGGCTTG
*
30039134 TTGCTGCCCAAAGTATCTGCTAGAATCAT
131 TTGCCGCCCAAAGTATCTGCTAGAATCAT
**
30039163 AGGGCTTAGGATAAGTCTAGAATATTTAGGATATACTTCCAAGTTTTGGGAAGTCGATTGTCTTG
1 AGGGCTTAGGATAAGTCTAGAATATTTAGGATATACTTCCAAGTTTTGGGAAGTCGATTACCTTG
*
30039228 ATTCCATGCAAACCAATCTCGAAGATATGTTGCACTAAGCAGTTTGGATATCAAATAT-GAGCTT
66 ATTCCATGCAAACCAATCTCGAAGATATGTTGCACTAAGCAATTTGGATATCAAATATAG-GCTT
*
30039292 GTTGCCGCCCAATGTATCTGCTAGAATCAT
130 GTTGCCGCCCAAAGTATCTGCTAGAATCAT
30039322 AG
1 AG
30039324 CCCAAAGATT
Statistics
Matches: 152, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
158 1 0.01
159 151 0.99
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (159 bp):
AGGGCTTAGGATAAGTCTAGAATATTTAGGATATACTTCCAAGTTTTGGGAAGTCGATTACCTTG
ATTCCATGCAAACCAATCTCGAAGATATGTTGCACTAAGCAATTTGGATATCAAATATAGGCTTG
TTGCCGCCCAAAGTATCTGCTAGAATCAT
Found at i:30054040 original size:22 final size:22
Alignment explanation
Indices: 30054015--30054068 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
30054005 TGTTTCAAGC
*
30054015 TTCCAAGCTCCATAGTAAGTGA
1 TTCCAAGCCCCATAGTAAGTGA
30054037 TTCCAAGCCCCATAGTAAGTGA
1 TTCCAAGCCCCATAGTAAGTGA
30054059 TTCCAAGCCC
1 TTCCAAGCCC
30054069 TGTTTTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (22 bp):
TTCCAAGCCCCATAGTAAGTGA
Found at i:30054929 original size:46 final size:46
Alignment explanation
Indices: 30054879--30055054 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
30054869 TGGTTGAGCA
30054879 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30054925 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
30054970 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30055018 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30055055 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30055035 original size:93 final size:93
Alignment explanation
Indices: 30054876--30055046 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
30054866 GGATGGTTGA
* *
30054876 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30054941 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30054969 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30055034 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30055047 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30059886 original size:27 final size:27
Alignment explanation
Indices: 30059856--30060060 Score: 164
Period size: 27 Copynumber: 7.6 Consensus size: 27
30059846 ATATTGAGCC
* *
30059856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
30059883 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30059910 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * **
30059938 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
30059965 CGCACACTTAGTGC-ATCGTATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * **
30059992 CGCACACTTAGTG-TATCGTATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
30060019 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
30060046 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30060061 GTACAGTTTA
Statistics
Matches: 149, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
27 126 0.85
28 23 0.15
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30064949 original size:23 final size:23
Alignment explanation
Indices: 30064919--30064963 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
30064909 CTCAAAATAC
30064919 TAAGATTAGGGTCCGAGACTAAG
1 TAAGATTAGGGTCCGAGACTAAG
30064942 TAAGATTAGGGTCCGAGACTAA
1 TAAGATTAGGGTCCGAGACTAA
30064964 AGTTACGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (23 bp):
TAAGATTAGGGTCCGAGACTAAG
Found at i:30068397 original size:14 final size:14
Alignment explanation
Indices: 30068378--30068405 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30068368 CTTGTAAAAT
30068378 AGGTTTAAATTGAA
1 AGGTTTAAATTGAA
30068392 AGGTTTAAATTGAA
1 AGGTTTAAATTGAA
30068406 TGCTTATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
AGGTTTAAATTGAA
Found at i:30068729 original size:70 final size:70
Alignment explanation
Indices: 30068587--30068735 Score: 176
Period size: 70 Copynumber: 2.1 Consensus size: 70
30068577 GCATTGGGCA
* * * * **
30068587 CATATTACTTCAGACATTCCTATGAGTGTTGGGCACACATTACTTTGAATGTACTGAGAAGTGCT
1 CATATTATTTCAGACATTCCAATGAGTGTTGAGCACACATTACTTTGAATGTACCGAGAAGCACT
30068652 AGGTG
66 AGGTG
* **
30068657 CATATTATTTCAGACATTCCAATGAGTGTTGAGCACTCATTACTTT-AGATGTACCGTTAAGCAC
1 CATATTATTTCAGACATTCCAATGAGTGTTGAGCACACATTACTTTGA-ATGTACCGAGAAGCAC
30068721 T-GGATG
65 TAGG-TG
*
30068727 CATTTTATT
1 CATATTATT
30068736 GAAGAGTTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
69 3 0.04
70 64 0.96
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (70 bp):
CATATTATTTCAGACATTCCAATGAGTGTTGAGCACACATTACTTTGAATGTACCGAGAAGCACT
AGGTG
Found at i:30069548 original size:31 final size:31
Alignment explanation
Indices: 30069511--30069592 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
30069501 TTGACGGCCA
30069511 AATAACTTAAATAAAAATTTTTAAATAGTTT
1 AATAACTTAAATAAAAATTTTTAAATAGTTT
* *
30069542 AGTAACTTAAATAAAAAATTTTAAATAGTTT
1 AATAACTTAAATAAAAATTTTTAAATAGTTT
* *
30069573 AATGACTAAAATAAAAATTT
1 AATAACTTAAATAAAAATTT
30069593 ATTCATAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (31 bp):
AATAACTTAAATAAAAATTTTTAAATAGTTT
Found at i:30070748 original size:6 final size:6
Alignment explanation
Indices: 30070728--30070761 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
30070718 CTATGTGTTC
*
30070728 TTTATT TTATTTT TTTATT TTTATT TTTATT TTT
1 TTTATT TT-TATT TTTATT TTTATT TTTATT TTT
30070762 TTCACAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:30076208 original size:16 final size:16
Alignment explanation
Indices: 30076187--30076217 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30076177 TGTGTTCTTT
30076187 ATTTTATTTTTATTTC
1 ATTTTATTTTTATTTC
30076203 ATTTTATTTTTATTT
1 ATTTTATTTTTATTT
30076218 TTTTCACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTATTTTTATTTC
Found at i:30078023 original size:31 final size:31
Alignment explanation
Indices: 30077988--30078056 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
30077978 ATTGAAGTAC
* * * *
30077988 TTTTGGAAAGATTTAGCTCTTATTTGAGCAT
1 TTTTGAAAAGATCTAGCCCTTATTTGACCAT
*
30078019 TTTTGAAAAGGTCTAGCCCTTATTTGACCA-
1 TTTTGAAAAGATCTAGCCCTTATTTGACCAT
30078049 TTTTGAAA
1 TTTTGAAA
30078057 TGTTTGATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (31 bp):
TTTTGAAAAGATCTAGCCCTTATTTGACCAT
Found at i:30081501 original size:6 final size:6
Alignment explanation
Indices: 30081490--30081533 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
30081480 TGGTTTTTTC
* *
30081490 AAAATG AAAATG GAAATG GAAATG AAAATG AAAATG AGAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG A
30081534 TTAATTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.61, C:0.00, G:0.23, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:30081514 original size:18 final size:19
Alignment explanation
Indices: 30081491--30081533 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
30081481 GGTTTTTTCA
*
30081491 AAATGAAAATGGAAATG-G
1 AAATGAAAATGAAAATGAG
30081509 AAATGAAAATGAAAATGAG
1 AAATGAAAATGAAAATGAG
30081528 AAATGA
1 AAATGA
30081534 TTAATTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.16
Consensus pattern (19 bp):
AAATGAAAATGAAAATGAG
Found at i:30089236 original size:17 final size:16
Alignment explanation
Indices: 30089193--30089239 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
30089183 TACTTAACAA
30089193 AAGAGTTCGCCAAACC
1 AAGAGTTCGCCAAACC
*
30089209 ACAGA-TCTCGCCAAAGCT
1 A-AGAGT-TCGCCAAA-CC
30089227 AAGAGTTCGCCAA
1 AAGAGTTCGCCAA
30089240 TTGGCGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 2 0.08
17 21 0.81
18 3 0.12
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (16 bp):
AAGAGTTCGCCAAACC
Found at i:30089294 original size:33 final size:33
Alignment explanation
Indices: 30089252--30089317 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
30089242 GGCGTAATAA
30089252 TCACAACTCTATACTTAACCATCACAAACATGT
1 TCACAACTCTATACTTAACCATCACAAACATGT
30089285 TCACAACTCTATACTTAACCATCACAAACATGT
1 TCACAACTCTATACTTAACCATCACAAACATGT
30089318 ACTTACTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.30, G:0.03, T:0.27
Consensus pattern (33 bp):
TCACAACTCTATACTTAACCATCACAAACATGT
Found at i:30100464 original size:5 final size:4
Alignment explanation
Indices: 30100414--30100468 Score: 76
Period size: 4 Copynumber: 13.2 Consensus size: 4
30100404 GAGGTTAATT
30100414 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTTA GTCT- GTTA GATTA
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA G-TTA GT-TA GTTA G-TTA
30100464 GTTA G
1 GTTA G
30100469 CATGAGCTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.02
4 37 0.79
5 9 0.19
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.49
Consensus pattern (4 bp):
GTTA
Found at i:30105463 original size:21 final size:21
Alignment explanation
Indices: 30105428--30105485 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
30105418 AATTAAGTTT
* **
30105428 ATTTAAAAT-AAAAATATTAA
1 ATTTAAATTAAAAAATAAAAA
30105448 ATTTAAATTAAAAAATAAAAA
1 ATTTAAATTAAAAAATAAAAA
*
30105469 ATATAATATTAAAAAAT
1 ATTTAA-ATTAAAAAAT
30105486 TATTGATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.25
21 14 0.44
22 10 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTTAAATTAAAAAATAAAAA
Found at i:30105798 original size:15 final size:15
Alignment explanation
Indices: 30105778--30105808 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30105768 TTTTTTTAGA
30105778 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
30105793 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
30105808 A
1 A
30105809 AAAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:30105857 original size:24 final size:24
Alignment explanation
Indices: 30105779--30105857 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
30105769 TTTTTTAGAA
* *
30105779 TTTTAGAATTATATATTTTAGAATT
1 TTTTAAAAATATATATTTTA-AATT
*
30105804 TTATAAAAA-AT-TATTTTAAACCTT
1 TTTTAAAAATATATATTTTAAA--TT
*
30105828 TCTTAAAAATATATA-TTTACAATT
1 TTTTAAAAATATATATTTTA-AATT
30105852 TTTTAA
1 TTTTAA
30105858 TAATTTTTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.16
24 18 0.42
25 12 0.28
26 4 0.09
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (24 bp):
TTTTAAAAATATATATTTTAAATT
Found at i:30107805 original size:42 final size:42
Alignment explanation
Indices: 30107695--30107816 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
30107685 TACCGTACCA
* * * *
30107695 ATGCCATATCCCAAATATGGTCTTATA-TATAGTCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCATATCG
* * * *
30107737 ATTCCAATAGCCTAGATATAGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
30107780 ATGCCATATCCCAGATATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
30107817 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:30132330 original size:24 final size:24
Alignment explanation
Indices: 30132317--30132364 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
30132307 AACATTTACG
*
30132317 ATTTAGTTCCTTTTAATTAATTAA
1 ATTTAGTTCCTTTTAATCAATTAA
*
30132341 ATTTAGTTCCTTTTAATTAATTAA
1 ATTTAGTTCCTTTTAATCAATTAA
30132365 TTATCTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTAGTTCCTTTTAATCAATTAA
Found at i:30142592 original size:276 final size:276
Alignment explanation
Indices: 30142099--30142655 Score: 1078
Period size: 276 Copynumber: 2.0 Consensus size: 276
30142089 CTTGATTGGT
**
30142099 TGTAATGACCCGATAGTCACGAGTATCAGAAAGTGTATTTTCAGGTCTCCATTTTCAGAAAATGG
1 TGTAATGACCCGATAGTCACGAGTATCAGAAAGTGTATTTTCAGGTCTCCATTTTCAGAAAACAG
*
30142164 ATTCGTAAATATTTAATAAAAATATTTACGAAGTTAGTTGTGTGGTTAATTAGATTTTGATTCGG
66 ATTCGTAAATATTTAATAAAAATATTTACGAAGTTAGTTGTATGGTTAATTAGATTTTGATTCGG
30142229 TGAATTTGTTTAATTTATGAGTAATTAGGTGTAAGGACTAGATTGCATATAGGGAGAAAGTTAAA
131 TGAATTTGTTTAATTTATGAGTAATTAGGTGTAAGGACTAGATTGCATATAGGGAGAAAGTTAAA
30142294 TTATAGATTAGAGAAAAGTGAAGGGACTAAATAAGCAATTAAACCTTAAATTAACAAGTGTGTGG
196 TTATAGATTAGAGAAAAGTGAAGGGACTAAATAAGCAATTAAACCTTAAATTAACAAGTGTGTGG
30142359 TATTGGTAATGACATG
261 TATTGGTAATGACATG
30142375 TGTAATGACCCGATAGTCACGAGTATCAGAAAGTGTATTTTCAGGTCTCCATTTTCAGAAAACAG
1 TGTAATGACCCGATAGTCACGAGTATCAGAAAGTGTATTTTCAGGTCTCCATTTTCAGAAAACAG
*
30142440 ATTCGTAAATATTTAATAAAAATATTTATGAAGTTAGTTGTATGGTTAATTAGATTTTGATTCGG
66 ATTCGTAAATATTTAATAAAAATATTTACGAAGTTAGTTGTATGGTTAATTAGATTTTGATTCGG
30142505 TGAATTTGTTTAATTTATGAGTAATTAGGTGTAAGGACTAGATTGCATATAGGGAGAAAGTTAAA
131 TGAATTTGTTTAATTTATGAGTAATTAGGTGTAAGGACTAGATTGCATATAGGGAGAAAGTTAAA
30142570 TTATAGATTAGAGAAAAGTGAAGGGACTAAATAAGCAATTAAACCTTAAATTAACAAGTGTGTGG
196 TTATAGATTAGAGAAAAGTGAAGGGACTAAATAAGCAATTAAACCTTAAATTAACAAGTGTGTGG
30142635 TATTGGTAATGACATG
261 TATTGGTAATGACATG
30142651 TGTAA
1 TGTAA
30142656 CATTTAAATA
Statistics
Matches: 277, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
276 277 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (276 bp):
TGTAATGACCCGATAGTCACGAGTATCAGAAAGTGTATTTTCAGGTCTCCATTTTCAGAAAACAG
ATTCGTAAATATTTAATAAAAATATTTACGAAGTTAGTTGTATGGTTAATTAGATTTTGATTCGG
TGAATTTGTTTAATTTATGAGTAATTAGGTGTAAGGACTAGATTGCATATAGGGAGAAAGTTAAA
TTATAGATTAGAGAAAAGTGAAGGGACTAAATAAGCAATTAAACCTTAAATTAACAAGTGTGTGG
TATTGGTAATGACATG
Found at i:30143139 original size:18 final size:19
Alignment explanation
Indices: 30143110--30143145 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30143100 GTACAATTTT
*
30143110 TGAAATTTAGAGATTTGAG
1 TGAAATTTAGAGAGTTGAG
30143129 TGAAA-TTAGAGAGTTGA
1 TGAAATTTAGAGAGTTGA
30143146 ATTTAGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGAGAGTTGAG
Found at i:30148267 original size:47 final size:47
Alignment explanation
Indices: 30148125--30148635 Score: 864
Period size: 47 Copynumber: 10.8 Consensus size: 47
30148115 ATTTAGGATT
30148125 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
30148174 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
30148223 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
30148270 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
30148317 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
* *
30148366 TGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
30148413 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
30148460 CGATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
30148505 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
30148552 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
30148599 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30148636 TCCCGAAAGG
Statistics
Matches: 444, Mismatches: 14, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
45 45 0.10
47 282 0.64
49 117 0.26
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:30148311 original size:143 final size:143
Alignment explanation
Indices: 30148125--30148635 Score: 881
Period size: 143 Copynumber: 3.6 Consensus size: 143
30148115 ATTTAGGATT
30148125 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
30148190 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
64 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
30148255 ATAAGGCCTAATGGC
129 ATAAGGCCTAATGGC
30148270 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30148335 AGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
30148400 AAGGCCTAATAGC
131 AAGGCCTAATGGC
30148413 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30148478 AGTG--TATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
30148539 AAGGCCTAATGGC
131 AAGGCCTAATGGC
* * * * * * *
30148552 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30148617 AGTGTATA-A-ATGTGATAAG
66 AGTGTATATATATGTGATAAG
30148636 TCCCGAAAGG
Statistics
Matches: 351, Mismatches: 11, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
139 125 0.36
140 1 0.00
141 15 0.04
143 188 0.54
145 22 0.06
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATGGC
Found at i:30148810 original size:37 final size:37
Alignment explanation
Indices: 30148754--30148832 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30148744 CCGAGCTCTA
* * *
30148754 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30148791 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30148828 AAGAC
1 AAGAC
30148833 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30150547 original size:43 final size:43
Alignment explanation
Indices: 30150486--30150570 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
30150476 TTCAAAGTAT
*
30150486 GTTAAATCACCCCATCTAACATTCAACCAATATGCCTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGCCTAACATA
*
30150529 GTTAAATCACACCATCTAACATTCAATCAATATGCCTAACAT
1 GTTAAATCACACCATCTAACATTCAACCAATATGCCTAACAT
30150571 GGGCACCTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.27
Consensus pattern (43 bp):
GTTAAATCACACCATCTAACATTCAACCAATATGCCTAACATA
Found at i:30151149 original size:37 final size:37
Alignment explanation
Indices: 30151104--30151212 Score: 141
Period size: 37 Copynumber: 3.0 Consensus size: 37
30151094 GATATTTCAA
30151104 CCGA-AACATGCCAGATGCTCATAAGAGCTAATCCAC
1 CCGATAACATGCCAGATGCTCATAAGAGCTAATCCAC
* * *
30151140 CTGATAACATGTCAGATGCTCATAAGAGCCAATCCAC
1 CCGATAACATGCCAGATGCTCATAAGAGCTAATCCAC
* * *
30151177 CCGATAACACGCCA-ATTGCTCCTAAGAGCTAGTCCA
1 CCGATAACATGCCAGA-TGCTCATAAGAGCTAATCCA
30151213 ACTAAAAACA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 4 0.06
37 58 0.94
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (37 bp):
CCGATAACATGCCAGATGCTCATAAGAGCTAATCCAC
Found at i:30153096 original size:29 final size:29
Alignment explanation
Indices: 30153064--30153120 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
30153054 CTGGTTTGTC
* *
30153064 AAGTCAGTTAGTTAGTTAG-TAGTTAGTTG
1 AAGTCAATTAGTT-GTTAGCTAGGTAGTTG
*
30153093 AAGTCAATTGGTTGTTAGCTAGGTAGTT
1 AAGTCAATTAGTTGTTAGCTAGGTAGTT
30153121 TTTACTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.40
Consensus pattern (29 bp):
AAGTCAATTAGTTGTTAGCTAGGTAGTTG
Found at i:30157482 original size:31 final size:30
Alignment explanation
Indices: 30157425--30157483 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
30157415 ATTAGATAAA
* *
30157425 ATCTAATTACAAAATAATAACATAAAATTG
1 ATCTAATTAAAAAATAAGAACATAAAATTG
30157455 ATCTAATTAAAAAAATAAGAA-AGTAAAAT
1 ATCTAATT-AAAAAATAAGAACA-TAAAAT
30157484 CTATATAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (30 bp):
ATCTAATTAAAAAATAAGAACATAAAATTG
Found at i:30163094 original size:15 final size:14
Alignment explanation
Indices: 30163064--30163102 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
30163054 TTTAATCTAT
30163064 TATTTCTATTACTA
1 TATTTCTATTACTA
*
30163078 TATTTCTATATATTA
1 TATTTCTAT-TACTA
30163093 TATTTCTATT
1 TATTTCTATT
30163103 TGTATTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTCTATTACTA
Found at i:30163153 original size:3 final size:3
Alignment explanation
Indices: 30163108--30163255 Score: 77
Period size: 3 Copynumber: 49.0 Consensus size: 3
30163098 CTATTTGTAT
* * * *
30163108 TTA TGTA TTA ATA TCA TTA TT- TTCA TTA TTT TTA -TA CTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * * *
30163153 TTT TCTA TTA TTA TTA CTA TTT TTA TTG CTA TTA TCTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
** * ** * * *
30163200 TCC CTA TTA TTA TTA ACA -TA TCA TTA TTC TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
30163247 TCA TTA TTA
1 TTA TTA TTA
30163256 ACGTAATATT
Statistics
Matches: 104, Mismatches: 34, Indels: 14
0.68 0.22 0.09
Matches are distributed among these distances:
2 5 0.05
3 89 0.86
4 10 0.10
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:30163388 original size:3 final size:3
Alignment explanation
Indices: 30163380--30163456 Score: 138
Period size: 3 Copynumber: 25.7 Consensus size: 3
30163370 TATATTACTC
30163380 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30163428 TTA TTA TTA TTA TTA TT- TTA CTTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT
30163457 TACCTATTTA
Statistics
Matches: 72, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30175642 original size:5 final size:5
Alignment explanation
Indices: 30175622--30175660 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
30175612 TCAAACTACT
*
30175622 TTTTA TTTTT TATTTA TTTTA TTTTA TTTT- TTTTA TTTT
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTT
30175661 TTTAGTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTA
Found at i:30175648 original size:14 final size:14
Alignment explanation
Indices: 30175629--30175664 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
30175619 ACTTTTTATT
30175629 TTTTATTTATTTTA
1 TTTTATTTATTTTA
*
30175643 TTTTATTTTTTTTA
1 TTTTATTTATTTTA
30175657 TTTT-TTTA
1 TTTTATTTA
30175665 GTAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:30179415 original size:46 final size:47
Alignment explanation
Indices: 30179305--30179395 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 47
30179295 CAGATTAATT
*
30179305 GATT-GAAGAAGCAACAAATCCTATACCCTTGAGTTGCAGTGGGATA
1 GATTAGAAGAAGCAACAAATCCTATACCCCTGAGTTGCAGTGGGATA
* **
30179351 GATTA-AAGATGGTACAAATCCTATACCCCTGAGTTGCAGTGGGAT
1 GATTAGAAGAAGCAACAAATCCTATACCCCTGAGTTGCAGTGGGAT
30179396 GCATAGAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (47 bp):
GATTAGAAGAAGCAACAAATCCTATACCCCTGAGTTGCAGTGGGATA
Found at i:30179839 original size:45 final size:43
Alignment explanation
Indices: 30179772--30179883 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
30179762 CATACCCTTG
30179772 AAGTTGTAGTGGAGCAGATTGAAGCCACTAAA-CCTTATCTCCCTA
1 AAGTTGTAGTGGAGCAGATTGAAG---CTAAAGCCTTATCTCCCTA
* * *
30179817 AAGTTGCAGTGGAGCACG-TTGAAGTTAAAGTCTTATCTCCCTA
1 AAGTTGTAGTGGAGCA-GATTGAAGCTAAAGCCTTATCTCCCTA
*
30179860 AAGTTGTAGTGGAGCAGACTGAAG
1 AAGTTGTAGTGGAGCAGATTGAAG
30179884 ATAGCAAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 5 0.08
43 32 0.54
45 21 0.36
46 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
AAGTTGTAGTGGAGCAGATTGAAGCTAAAGCCTTATCTCCCTA
Found at i:30179909 original size:45 final size:45
Alignment explanation
Indices: 30179770--30180245 Score: 300
Period size: 45 Copynumber: 10.6 Consensus size: 45
30179760 TCCATACCCT
* ** *
30179770 TGAAGTTGTAGTGGAGCAGATTGAAGCCA-CTAAACCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGC-AAATCTTATCTCCC
* * *
30179815 TAAAGTTGCAGTGGAGCACG-TTGAAGTTA--AAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCA-GATTGAAGATAGCAAATCTTATCTCCC
* * * *
30179858 TAAAGTTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCC
** * * * *
30179903 TGAAGTTGCAGTGGAATATATTGAAGCTATAAATAAACAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAG------AT-AGCAAATCTTATCTCCC
* * *
30179955 TGAAGTTGCAGTAGAGCAGA-T---CATAGCAAACCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCC
* * * *
30179996 TGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCC
* * * **
30180041 TGAAGTTGAAGTGGAACAGATTGAAGCTATAAACAAACAGATCTTATCTCTT
1 TGAAGTTGCAGTGGAGCAGATTGAAG--AT-AGC--A-A-ATCTTATCTCCC
* * *
30180093 TGAAGTTGCAGTAGAGCAGA-T---CATAGCAAACCTTAT-TCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCC
* * * * * * *
30180133 TGAAGTTGCAATGAAGCAGGTTAAAGTTA--AAGTTTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCC
* *
30180176 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCC
* **
30180221 TG-AGTTACAGTGGAATAGATTGAAG
1 TGAAGTTGCAGTGGAGCAGATTGAAG
30180246 TTATAAATAA
Statistics
Matches: 328, Mismatches: 74, Indels: 59
0.71 0.16 0.13
Matches are distributed among these distances:
40 18 0.05
41 38 0.12
42 11 0.03
43 65 0.20
44 22 0.07
45 107 0.33
46 3 0.01
47 2 0.01
48 2 0.01
51 5 0.02
52 55 0.17
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (45 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCC
Found at i:30180019 original size:138 final size:138
Alignment explanation
Indices: 30179848--30180142 Score: 502
Period size: 138 Copynumber: 2.1 Consensus size: 138
30179838 AAGTTAAAGT
* * * *
30179848 CTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGAA
* * *
30179913 GTGGAATATATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
66 GTGGAACAGATTGAAGCTATAAACAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
30179978 TAGCAAAC
131 TAGCAAAC
*
30179986 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGAA
*
30180051 GTGGAACAGATTGAAGCTATAAACAAACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCA
66 GTGGAACAGATTGAAGCTATAAACAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
30180116 TAGCAAAC
131 TAGCAAAC
30180124 CTTAT-TCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCA
30180143 ATGAAGCAGG
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
137 14 0.09
138 134 0.91
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (138 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGAA
GTGGAACAGATTGAAGCTATAAACAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
TAGCAAAC
Found at i:30180110 original size:97 final size:90
Alignment explanation
Indices: 30179986--30180252 Score: 241
Period size: 87 Copynumber: 2.9 Consensus size: 90
30179976 CATAGCAAAC
30179986 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGC-AA-TGAAGATAGCGAATCTTATTTCCCTGAAGTTGAA
30180051 GTGGAACAGATTGAAGCTATAAACAAACAGAT
64 GTGGAACAGATTGAAG-TAT-AA-AAA-AG-T
** * ** * *
30180083 CTTATCTCTTTGAAGTTGCAGTAGAGC-A-GATCATAGCAAACCTTA-TTCCCTGAAGTTGCAA-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAATGAAGATAGCGAATCTTATTTCCCTGAAGTTG-AAG
* *
30180144 T-GAAGCAGGTTAAAGT-T---AAAGT
65 TGGAA-CAGATTGAAGTATAAAAAAGT
*
30180166 TTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTG-AGTT-AC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-A-TGAAGATAGCGAATCTTATTTCCCTGAAGTTGA-
*
30180229 AGTGGAATAGATTGAAGTTATAAA
63 AGTGGAACAGATTGAAG-TATAAA
30180253 TAATCTGAAG
Statistics
Matches: 135, Mismatches: 20, Indels: 35
0.71 0.11 0.18
Matches are distributed among these distances:
83 24 0.18
84 2 0.01
85 4 0.03
86 1 0.01
87 25 0.19
88 11 0.08
89 1 0.01
90 1 0.01
91 4 0.03
92 22 0.16
93 15 0.11
95 1 0.01
97 24 0.18
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (90 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAATGAAGATAGCGAATCTTATTTCCCTGAAGTTGAAGT
GGAACAGATTGAAGTATAAAAAAGT
Found at i:30180309 original size:45 final size:45
Alignment explanation
Indices: 30180258--30180460 Score: 173
Period size: 45 Copynumber: 4.5 Consensus size: 45
30180248 ATAAATAATC
* *
30180258 TGAAGATAGCAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
1 TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
30180303 TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * ** **
30180348 CGAAGCCA-CA-ATCCTTATCTCTCTGAAGTTGCAGCAGAATAGGA-
1 TGAAGATAGCAGAT-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT
* * * * * * *
30180392 TAAAAATACACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGT
1 TGAAGATA-GCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
30180438 TGAA-ATTAGCA-ATTCTTATCTCC
1 TGAAGA-TAGCAGA-TCTTATCTCC
30180461 TTTAAGTTCC
Statistics
Matches: 124, Mismatches: 26, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
43 2 0.02
44 29 0.23
45 63 0.51
46 29 0.23
47 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (45 bp):
TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:30180898 original size:23 final size:23
Alignment explanation
Indices: 30180872--30180922 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
30180862 ACCCAAAATG
30180872 CCCAAACAAATTAAGTTACACGA
1 CCCAAACAAATTAAGTTACACGA
*
30180895 CCCAAACAAATTAAGTTACACGG
1 CCCAAACAAATTAAGTTACACGA
30180918 CCCAA
1 CCCAA
30180923 CAGGCCCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (23 bp):
CCCAAACAAATTAAGTTACACGA
Found at i:30182131 original size:15 final size:14
Alignment explanation
Indices: 30182098--30182136 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
30182088 TTTAATCTAT
30182098 TATTTCTATTACAA
1 TATTTCTATTACAA
**
30182112 TATTTCTATGTATTA
1 TATTTCTAT-TACAA
30182127 TATTTCTATT
1 TATTTCTATT
30182137 TGTATTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (14 bp):
TATTTCTATTACAA
Found at i:30182188 original size:3 final size:3
Alignment explanation
Indices: 30182142--30182265 Score: 62
Period size: 3 Copynumber: 42.0 Consensus size: 3
30182132 CTATTTGTAT
* * *
30182142 TTA TGTA TTA ATA TCA TTA TT- TTCA TTA TT- TT- TTA -TA CTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * **
30182185 TTA TTG CTA TTA TCTA TTA TTA TTA TCT- CTA TTA TTA TTA ACA -TA
1 TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
30182230 TCA TTA TTC TTA TTA TTA TTT TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30182266 ACCACTACAG
Statistics
Matches: 90, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
2 10 0.11
3 71 0.79
4 9 0.10
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:30182208 original size:22 final size:21
Alignment explanation
Indices: 30182180--30182249 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
30182170 TTTTTTATAC
30182180 TATTATTAT-TGCTATTATCTAT
1 TATTATTATCT-CTATTAT-TAT
30182202 TATTATTATCTCTATTATTAT
1 TATTATTATCTCTATTATTAT
** *
30182223 TAACA-TATCAT-TATTCTTAT
1 TATTATTATC-TCTATTATTAT
30182243 TATTATT
1 TATTATT
30182250 TTTATTATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
20 15 0.38
21 8 0.20
22 16 0.40
23 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (21 bp):
TATTATTATCTCTATTATTAT
Found at i:30182313 original size:13 final size:12
Alignment explanation
Indices: 30182284--30182313 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30182274 AGCAAAACAG
30182284 GTTTTTAGCGGC
1 GTTTTTAGCGGC
30182296 GTTTTTAGCGGC
1 GTTTTTAGCGGC
*
30182308 GCTTTT
1 GTTTTT
30182314 CAAAAAATGC
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:0.07, C:0.17, G:0.30, T:0.47
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:30182343 original size:39 final size:39
Alignment explanation
Indices: 30182300--30182405 Score: 149
Period size: 39 Copynumber: 2.7 Consensus size: 39
30182290 AGCGGCGTTT
* *
30182300 TTAGCGGCGCTTTTCAAAAAATGCCGCTATAGGTTCAAA
1 TTAGCGGCGCTTTTCAAAAAACGCCGCTATAGGTACAAA
* *
30182339 TTAGCAGCGCTTTTCAAAAAACGCCGCTATAGGTACACA
1 TTAGCGGCGCTTTTCAAAAAACGCCGCTATAGGTACAAA
* *
30182378 CTAGCGGCGCTTTTTAAAAAAACGCCGC
1 TTAGCGGCGC-TTTTCAAAAAACGCCGC
30182406 AAAACTTATG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 43 0.73
40 16 0.27
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (39 bp):
TTAGCGGCGCTTTTCAAAAAACGCCGCTATAGGTACAAA
Found at i:30182850 original size:40 final size:39
Alignment explanation
Indices: 30182780--30182872 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
30182770 TTTAGTGGCT
* ***
30182780 TTAGCAGCGCTTTTTAAAAACGCCGTTATAGGTCGAGTA
1 TTAGCGGCGCTTTTTAAAAACGCAACTATAGGTCGAGTA
30182819 TTAGCGGCGCTTTTTGAAAAACGCAACTATAGGTCGAGTA
1 TTAGCGGCGCTTTTT-AAAAACGCAACTATAGGTCGAGTA
* *
30182859 TGAGTGGCG-TTTTT
1 TTAGCGGCGCTTTTT
30182873 CATTTCATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 19 0.40
40 28 0.60
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTAAAAACGCAACTATAGGTCGAGTA
Found at i:30183133 original size:22 final size:21
Alignment explanation
Indices: 30183106--30183154 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
30183096 TGTTAAATAT
*
30183106 TTTAAGGTTTATAGATTATGGG
1 TTTAAGGATTATAGATTAT-GG
* *
30183128 TTTAAGGATTATGGTTTATGG
1 TTTAAGGATTATAGATTATGG
30183149 TTTAAG
1 TTTAAG
30183155 AGTTAGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
TTTAAGGATTATAGATTATGG
Found at i:30183164 original size:21 final size:22
Alignment explanation
Indices: 30183121--30183166 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
30183111 GGTTTATAGA
*
30183121 TTATGGGTTTAAGGATTATGGT
1 TTATGGGTTTAAGGATTAGGGT
30183143 TTAT-GGTTTAA-GAGTTAGGGT
1 TTATGGGTTTAAGGA-TTAGGGT
30183164 TTA
1 TTA
30183167 AAGCTTAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 16 0.73
22 4 0.18
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (22 bp):
TTATGGGTTTAAGGATTAGGGT
Found at i:30183165 original size:35 final size:34
Alignment explanation
Indices: 30183106--30183239 Score: 92
Period size: 35 Copynumber: 3.8 Consensus size: 34
30183096 TGTTAAATAT
*
30183106 TTTAAGGTTTATAGA-TTATGGGTTTAAGGATTATGG
1 TTTATGGTTTA-AGAGTTA-GGGTTTAAGGATTA-GG
* *
30183142 TTTATGGTTTAAGAGTTAGGGTTTAAAGCTTAGGG
1 TTTATGGTTTAAGAGTTAGGGTTTAAGGATTA-GG
* * * * * *
30183177 GTTAGGGGTTAAGTGTTAGGTTTTTAAGGTTTAGAG
1 TTTATGGTTTAAGAGTTAGG-GTTTAAGGATTAG-G
* * *
30183213 ATTAT-GTTTATGATTTAGGGTTTAAGG
1 TTTATGGTTTAAGAGTTAGGGTTTAAGG
30183240 GGTTTAAAAT
Statistics
Matches: 77, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
34 7 0.09
35 44 0.57
36 26 0.34
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (34 bp):
TTTATGGTTTAAGAGTTAGGGTTTAAGGATTAGG
Found at i:30183559 original size:6 final size:7
Alignment explanation
Indices: 30183541--30183579 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
30183531 ATATATTTTG
30183541 GGTTTAT
1 GGTTTAT
30183548 GGTTTA-
1 GGTTTAT
30183554 GGTTTAT
1 GGTTTAT
30183561 GGTTTAT
1 GGTTTAT
*
30183568 GATTTAT
1 GGTTTAT
30183575 GGTTT
1 GGTTT
30183580 GGGGTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (7 bp):
GGTTTAT
Found at i:30183559 original size:13 final size:14
Alignment explanation
Indices: 30183541--30183579 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
30183531 ATATATTTTG
30183541 GGTTTATGGTTTA-
1 GGTTTATGGTTTAT
30183554 GGTTTATGGTTTAT
1 GGTTTATGGTTTAT
*
30183568 GATTTATGGTTT
1 GGTTTATGGTTT
30183580 GGGGTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (14 bp):
GGTTTATGGTTTAT
Found at i:30183587 original size:14 final size:13
Alignment explanation
Indices: 30183537--30183588 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
30183527 ATATATATAT
30183537 TTTGGGTTTATGG
1 TTTGGGTTTATGG
*
30183550 TTTAGGTTTATGG
1 TTTGGGTTTATGG
* *
30183563 TTTATGATTTATGG
1 TTT-GGGTTTATGG
30183577 TTTGGGGTTTAT
1 TTT-GGGTTTAT
30183589 TTTTTAGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 15 0.47
14 17 0.53
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (13 bp):
TTTGGGTTTATGG
Found at i:30184212 original size:9 final size:8
Alignment explanation
Indices: 30184194--30184273 Score: 58
Period size: 8 Copynumber: 9.9 Consensus size: 8
30184184 TTTATATGTT
30184194 AATTTAAA
1 AATTTAAA
30184202 AATTATAAA
1 AATT-TAAA
30184211 AATCTTCAAAA
1 AAT-TT--AAA
30184222 AATTT-AA
1 AATTTAAA
*
30184229 AATCT-AA
1 AATTTAAA
30184236 AA-TTAAA
1 AATTTAAA
*
30184243 AATTAAAA
1 AATTTAAA
**
30184251 AATAAAAA
1 AATTTAAA
*
30184259 AACTTAAA
1 AATTTAAA
30184267 AATTTAA
1 AATTTAA
30184274 TATTTAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
6 1 0.02
7 14 0.24
8 26 0.45
9 8 0.14
10 3 0.05
11 6 0.10
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (8 bp):
AATTTAAA
Found at i:30184256 original size:20 final size:21
Alignment explanation
Indices: 30184219--30184257 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
30184209 AAAATCTTCA
**
30184219 AAAAATTTAAAATCTAAAATT
1 AAAAATTTAAAAAATAAAATT
30184240 AAAAA-TTAAAAAATAAAA
1 AAAAATTTAAAAAATAAAA
30184258 AAACTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATTTAAAAAATAAAATT
Found at i:30189029 original size:43 final size:43
Alignment explanation
Indices: 30188968--30189194 Score: 240
Period size: 43 Copynumber: 5.2 Consensus size: 43
30188958 ATATTATAGT
*
30188968 GGCGTTTGTG-GCAAAAGCGCCGCTAAAGGTCATGTTCTTTAAC
1 GGCGTTTGTGAG-AAAAGCGCCGCTAAAGGCCATGTTCTTTAAC
* * * *
30189011 GGCGTTGGTCAGAAAAGCGCCGCGCCACTTAAGGCCATGTTCTTTAGC
1 GGCGTTTGTGAGAAAAGCG-C-CG---CTAAAGGCCATGTTCTTTAAC
* *
30189059 AGCGTTTGTGAGAAAAGCGCCGCTAAAGGCCATGTTCTTTAGC
1 GGCGTTTGTGAGAAAAGCGCCGCTAAAGGCCATGTTCTTTAAC
* * * * *
30189102 GGCGTTTTTGGGGAAAGCACCGCTAAAGGCCATGTTCTTTAAT
1 GGCGTTTGTGAGAAAAGCGCCGCTAAAGGCCATGTTCTTTAAC
* * * * *
30189145 GGTGTTTTTGAGAAAAGCGCCGTTAAAGGTCATGTTCTATAAC
1 GGCGTTTGTGAGAAAAGCGCCGCTAAAGGCCATGTTCTTTAAC
30189188 GGCGTTT
1 GGCGTTT
30189195 TTTTCATAAA
Statistics
Matches: 153, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
43 112 0.73
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.01
48 34 0.22
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGAGAAAAGCGCCGCTAAAGGCCATGTTCTTTAAC
Found at i:30189055 original size:48 final size:48
Alignment explanation
Indices: 30188984--30189099 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 48
30188974 TGTGGCAAAA
* * *
30188984 GCGCCGCTAAAGGTCATGTTCTTTAACGGCGTTGGTCAGAAAAGCGCC
1 GCGCCACTAAAGGCCATGTTCTTTAACAGCGTTGGTCAGAAAAGCGCC
* * * *
30189032 GCGCCACTTAAGGCCATGTTCTTTAGCAGCGTTTGTGAGAAAAGCG-C
1 GCGCCACTAAAGGCCATGTTCTTTAACAGCGTTGGTCAGAAAAGCGCC
30189079 -CG---CTAAAGGCCATGTTCTTTA
1 GCGCCACTAAAGGCCATGTTCTTTA
30189100 GCGGCGTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 18 0.30
46 2 0.03
47 1 0.02
48 39 0.65
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (48 bp):
GCGCCACTAAAGGCCATGTTCTTTAACAGCGTTGGTCAGAAAAGCGCC
Found at i:30189195 original size:43 final size:43
Alignment explanation
Indices: 30188913--30189196 Score: 236
Period size: 43 Copynumber: 6.5 Consensus size: 43
30188903 ATAATTTTAA
* * *
30188913 ATGTTCTTTAGCGGCATTTTTTGAGAAAAGCGCAGCTAAAGG--
1 ATGTTCTTTAACGGC-GTTTTTGAGAAAAGCGCCGCTAAAGGCC
* * * *
30188955 -T-TTATATTATAGTGGCGTTTGTG-GCAAAAGCGCCGCTAAAGGTC
1 ATGTTCT-TTA-A-CGGCGTTTTTGAG-AAAAGCGCCGCTAAAGGCC
** * *
30188999 ATGTTCTTTAACGGCGTTGGTCAGAAAAGCGCCGCGCCACTTAAGGCC
1 ATGTTCTTTAACGGCGTTTTTGAGAAAAGCG-C-CG---CTAAAGGCC
* * *
30189047 ATGTTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGCC
1 ATGTTCTTTAACGGCGTTTTTGAGAAAAGCGCCGCTAAAGGCC
* * * *
30189090 ATGTTCTTTAGCGGCGTTTTTGGGGAAAGCACCGCTAAAGGCC
1 ATGTTCTTTAACGGCGTTTTTGAGAAAAGCGCCGCTAAAGGCC
* * * *
30189133 ATGTTCTTTAATGGTGTTTTTGAGAAAAGCGCCGTTAAAGGTC
1 ATGTTCTTTAACGGCGTTTTTGAGAAAAGCGCCGCTAAAGGCC
*
30189176 ATGTTCTATAACGGCGTTTTT
1 ATGTTCTTTAACGGCGTTTTT
30189197 TTCATAAACA
Statistics
Matches: 195, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
40 3 0.02
41 5 0.03
42 21 0.11
43 117 0.60
44 3 0.02
45 6 0.03
46 5 0.03
47 1 0.01
48 34 0.17
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
ATGTTCTTTAACGGCGTTTTTGAGAAAAGCGCCGCTAAAGGCC
Found at i:30189310 original size:21 final size:24
Alignment explanation
Indices: 30189268--30189312 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
30189258 ATTACATTTG
30189268 TTATTATTTTATTATGTATCATTA
1 TTATTATTTTATTATGTATCATTA
30189292 TTATT-TTTTATTAT-T-TCATTA
1 TTATTATTTTATTATGTATCATTA
30189313 CCCTCTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 9 0.43
24 5 0.24
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TTATTATTTTATTATGTATCATTA
Found at i:30189373 original size:3 final size:3
Alignment explanation
Indices: 30189367--30189414 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
30189357 CTTATACATA
30189367 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
30189415 CATCTACTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30196495 original size:4 final size:4
Alignment explanation
Indices: 30196495--30196541 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
30196485 CTATATATAT
* * *
30196495 ATAG ATAG ATAA ATAG ATAG ATAG ATAG ATAT ATAG ATAT ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
30196542 TATTAAAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (4 bp):
ATAG
Found at i:30196538 original size:16 final size:16
Alignment explanation
Indices: 30196491--30196544 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
30196481 TACCCTATAT
*
30196491 ATATATAGATAGATAA
1 ATATATAGATAGATAG
*
30196507 ATAGATAGATAGATAG
1 ATATATAGATAGATAG
*
30196523 ATATATAGATATATAG
1 ATATATAGATAGATAG
30196539 ATATAT
1 ATATAT
30196545 TAAAGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (16 bp):
ATATATAGATAGATAG
Found at i:30196542 original size:8 final size:8
Alignment explanation
Indices: 30196486--30196544 Score: 73
Period size: 8 Copynumber: 7.4 Consensus size: 8
30196476 AAACTTACCC
*
30196486 TATATATA
1 TATAGATA
30196494 TATAGATA
1 TATAGATA
* *
30196502 GATAAATA
1 TATAGATA
*
30196510 GATAGATA
1 TATAGATA
*
30196518 GATAGATA
1 TATAGATA
30196526 TATAGATA
1 TATAGATA
30196534 TATAGATA
1 TATAGATA
30196542 TAT
1 TAT
30196545 TAAAGATAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 46 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.36
Consensus pattern (8 bp):
TATAGATA
Found at i:30202497 original size:177 final size:173
Alignment explanation
Indices: 30202194--30202761 Score: 615
Period size: 177 Copynumber: 3.3 Consensus size: 173
30202184 CTTTAGGCAA
* * ** * *
30202194 ATAAGGCTGGTGACTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCT-CCATCCTCAA
1 ATAAGGCTAGTGACTAAAATCTGCTCCATTGCCGGTACATGGAGATAAGATT-TGCCATCTTCGA
* * * * *
30202258 TCTACTCCGCAACTACTTTAGGGAAAT-AGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCA
65 TCTACTCCACTACTAC-TTAGGGAGATAAGATCTTAAATCTTCAGTCTGCTTCCTTGCTACCTCA
*
30202322 AAAAGATAAGACTAAAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAG
129 GAAAGATAAGACT--AAT--CCAACCTGCTCTCTTGCTACCTCAGAGAG
*
30202371 ATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTTGCCATCTTCGAT
1 ATAAGGCTAGTGACTAAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTTGCCATCTTCGAT
* * * * *
30202436 CTGCTCCACTACTGCTTAGGGAGATAAGATCTTTAATCTTCAGTTTGCTTCCTTGCTACCTCAGG
66 CTACTCCACTACTACTTAGGGAGATAAGATCTTAAATCTTCAGTCTGCTTCCTTGCTACCTCAGA
* * * *
30202501 AAGGTAAGACT-A--CAA-----TCAC---CAACCTCAGAGCG
131 AAGATAAGACTAATCCAACCTGCTCTCTTGCTACCTCAGAGAG
* * *
30202533 ATAAGGCCAGTGACTAAAATCTGCTCCATTGTCC-GTACATTGAGATAAGATTCGCCATCTTCGA
1 ATAAGGCTAGTGACTAAAATCTGCTCCATTG-CCGGTACATGGAGATAAGATTTGCCATCTTCGA
* * * * *
30202597 TCTACTCCACTACTACTTAGAGAGATAAGATCTTAAATCTTCAATCTACTTTCTTGTTACCTCAG
65 TCTACTCCACTACTACTTAGGGAGATAAGATCTTAAATCTTCAGTCTGCTTCCTTGCTACCTCAG
30202662 AAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAG
130 AAAGATAAGACT-AATC--CAACCTGCTCTCTTGCTACCTCAGAGAG
* * ** * *
30202709 ATAAGGCCTTGAGGTTTAAACCTGCTCCATTGCCGGTACATGGAGATAAGATT
1 ATAAGG-CTAGTGACTAAAATCTGCTCCATTGCCGGTACATGGAGATAAGATT
30202762 CACCTCTCCC
Statistics
Matches: 325, Mismatches: 47, Indels: 38
0.79 0.11 0.09
Matches are distributed among these distances:
162 134 0.41
163 2 0.01
164 1 0.00
165 3 0.01
168 3 0.01
170 3 0.01
173 3 0.01
174 1 0.00
176 29 0.09
177 146 0.45
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (173 bp):
ATAAGGCTAGTGACTAAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTTGCCATCTTCGAT
CTACTCCACTACTACTTAGGGAGATAAGATCTTAAATCTTCAGTCTGCTTCCTTGCTACCTCAGA
AAGATAAGACTAATCCAACCTGCTCTCTTGCTACCTCAGAGAG
Found at i:30202627 original size:162 final size:161
Alignment explanation
Indices: 30202360--30202678 Score: 469
Period size: 162 Copynumber: 2.0 Consensus size: 161
30202350 CTCTCTTGCT
* * *
30202360 ACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTTG
1 ACCTCAGAGAGATAAGGCCAGTGACTAAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTCG
* * * * * * *
30202425 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTTAATCTTCAGTTTGCTTCCTT
66 CCATCTTCGATCTACTCCACTACTACTTAGAGAGATAAGATCTTAAATCTTCAATCTACTTCCTT
* *
30202490 GCTACCTCAGGAAGGTAAGACTACAATCACCA
131 GCTACCTCAGAAAGATAAGACT-CAATCACCA
* *
30202522 ACCTCAGAGCGATAAGGCCAGTGACTAAAATCTGCTCCATTGTCC-GTACATTGAGATAAGATTC
1 ACCTCAGAGAGATAAGGCCAGTGACTAAAATCTGCTCCATTG-CCGGTACATGGAGATAAGATTC
*
30202586 GCCATCTTCGATCTACTCCACTACTACTTAGAGAGATAAGATCTTAAATCTTCAATCTACTTTCT
65 GCCATCTTCGATCTACTCCACTACTACTTAGAGAGATAAGATCTTAAATCTTCAATCTACTTCCT
*
30202651 TGTTACCTCAGAAAGATAAGACTCAATC
130 TGCTACCTCAGAAAGATAAGACTCAATC
30202679 TTCAACCTGC
Statistics
Matches: 140, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
161 5 0.04
162 133 0.95
163 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (161 bp):
ACCTCAGAGAGATAAGGCCAGTGACTAAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTCG
CCATCTTCGATCTACTCCACTACTACTTAGAGAGATAAGATCTTAAATCTTCAATCTACTTCCTT
GCTACCTCAGAAAGATAAGACTCAATCACCA
Found at i:30202682 original size:43 final size:43
Alignment explanation
Indices: 30202632--30202713 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
30202622 TAAGATCTTA
* * *
30202632 AATCTTCAATCTACTTTCTTGTTACCTCAGAAAGATAAGACTC
1 AATCTTCAACCTACTCTCTTGCTACCTCAGAAAGATAAGACTC
* *
30202675 AATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
1 AATCTTCAACCTACTCTCTTGCTACCTCAGAAAGATAAG
30202714 GCCTTGAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (43 bp):
AATCTTCAACCTACTCTCTTGCTACCTCAGAAAGATAAGACTC
Found at i:30202859 original size:44 final size:44
Alignment explanation
Indices: 30202775--30202861 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
30202765 CTCTCCCAAT
** **
30202775 CTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGA
1 CTTCAATCTTCAACCTGCTTCCTTGCTACCACAGGAAGATAAGA
30202819 CTTCAATCTTCAACCTGC-TCTCTTGCTACCACA-GAGAGATAAG
1 CTTCAATCTTCAACCTGCTTC-CTTGCTACCACAGGA-AGATAAG
30202862 GTCAGTGGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 4 0.11
44 33 0.89
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (44 bp):
CTTCAATCTTCAACCTGCTTCCTTGCTACCACAGGAAGATAAGA
Found at i:30202896 original size:147 final size:147
Alignment explanation
Indices: 30202626--30202909 Score: 408
Period size: 147 Copynumber: 1.9 Consensus size: 147
30202616 GAGAGATAAG
* *
30202626 ATCTTAAATCTTCAATCTACTTTCTTGTTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTC
1 ATCTTAAATCTTCAATCTACTTCCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTC
* * * * * *
30202691 TCTTGCTACCTCAGAGAGATAAGGCCTTGAGGTTTAAACCTGCTCCATTGCCGGTACATGGAGAT
66 TCTTGCTACCACAGAGAGATAAGGCCTAGAGGCTAAAACCTACTCCATTGCCGATACATGGAGAT
30202756 AAGATTCACCTCTCCCA
131 AAGATTCACCTCTCCCA
* * * * *
30202773 ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTTCAATCTTCAACCTGCT
1 ATCTTAAATCTTCAATCTACTTCCTTGCTACCTCAGAAAGATAAGAC-TCAATCTTCAACCTGCT
* * *
30202838 CTCTTGCTACCACAGAGAGATAAGGTC-AGTGGCTAAAATCTACTCCATTGCCGATACATGGAGA
65 CTCTTGCTACCACAGAGAGATAAGGCCTAGAGGCTAAAACCTACTCCATTGCCGATACATGGAGA
30202902 TAAGATTC
130 TAAGATTC
30202910 GCCATCTTCG
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
147 78 0.65
148 42 0.35
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (147 bp):
ATCTTAAATCTTCAATCTACTTCCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTC
TCTTGCTACCACAGAGAGATAAGGCCTAGAGGCTAAAACCTACTCCATTGCCGATACATGGAGAT
AAGATTCACCTCTCCCA
Found at i:30202997 original size:177 final size:177
Alignment explanation
Indices: 30202773--30203171 Score: 410
Period size: 177 Copynumber: 2.3 Consensus size: 177
30202763 ACCTCTCCCA
* * *
30202773 ATCTTCAATCTTCAGTCTGCTTCC-TTGCTA-CCTTAGGAAGATAAGACTTCAATCTTCAACCTG
1 ATCTTCAATCTTCAGTCTGC-TCCATTG-TAGCCTCAGGGAGATAAGACTTCAATATTCAACCTG
* * *
30202836 CTCTC-TTGCTACCACAGAGAGATAAGG-TCAGTGGCTAAAATCTACTCCATTGCCGATACATGG
64 CTC-CATTGCAACCACAGAGAGATAAGGCT-AGTGACTAAAATCTACTCCATTGCCGATACATAG
* * ** * *
30202899 AGATAAGATTCGCCATCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAG
127 AGATAAGACTCGCCATCTTCGATCTACTCCACTACTGCTTAAGGAAATAAG
* ** * *
30202950 ATCTTCAATCTTCAGTCTGCTCCACTGTAGCCTCAGGGAGATAAGACTTGTATATTGAGCCTGCT
1 ATCTTCAATCTTCAGTCTGCTCCATTGTAGCCTCAGGGAGATAAGACTTCAATATTCAACCTGCT
** * * * * *
30203015 CCATTGCAACTTCAGGGAGATAAGGCTGGTGACTTAAATCTGCTCCATTGCCGGTACATAGAGAT
66 CCATTGCAACCACAGAGAGATAAGGCTAGTGACTAAAATCTACTCCATTGCCGATACATAGAGAT
* * * * *
30203080 AAGACTCGTCATCTTTGGTCTATTCCATTACTGCTTAAGGAAATAAG
131 AAGACTCGCCATCTTCGATCTACTCCACTACTGCTTAAGGAAATAAG
* * ** * * *
30203127 ACCTGCAATCTTCAACCTGCTCTATTGCAGCTTCAGGGAGATAAG
1 ATCTTCAATCTTCAGTCTGCTCCATTGTAGCCTCAGGGAGATAAG
30203172 GTTTATAATC
Statistics
Matches: 181, Mismatches: 37, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
176 6 0.03
177 174 0.96
178 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (177 bp):
ATCTTCAATCTTCAGTCTGCTCCATTGTAGCCTCAGGGAGATAAGACTTCAATATTCAACCTGCT
CCATTGCAACCACAGAGAGATAAGGCTAGTGACTAAAATCTACTCCATTGCCGATACATAGAGAT
AAGACTCGCCATCTTCGATCTACTCCACTACTGCTTAAGGAAATAAG
Found at i:30203014 original size:44 final size:45
Alignment explanation
Indices: 30202939--30203038 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
30202929 GCTACTGCTT
* * * *
30202939 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGTAGCCTC
1 AGGGAGATAAGATCTTCAATATTCAGCCTGCTCCACTGCAACCTC
** * * *
30202984 AGGGAGATAAGA-CTTGTATATTGAGCCTGCTCCATTGCAACTTC
1 AGGGAGATAAGATCTTCAATATTCAGCCTGCTCCACTGCAACCTC
30203028 AGGGAGATAAG
1 AGGGAGATAAG
30203039 GCTGGTGACT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 34 0.74
45 12 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (45 bp):
AGGGAGATAAGATCTTCAATATTCAGCCTGCTCCACTGCAACCTC
Found at i:30203462 original size:64 final size:64
Alignment explanation
Indices: 30203285--30203475 Score: 276
Period size: 63 Copynumber: 3.0 Consensus size: 64
30203275 TCATGTATCT
* * *
30203285 ATGCTTATGCCAAATAATTAGGATGCCATGATCGAAATGAATCAAATGCTCCTAACTAGATGAG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* ** *
30203349 ATGCTTATATC-AACGATTAGGATGCTATGATCGAAATGAACCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * * *
30203412 ATGCTTGTGTCAAATAATTAGGATGCTATAATCAAAATGGATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
30203476 TTATGAATGA
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
63 56 0.50
64 55 0.50
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:30204595 original size:20 final size:20
Alignment explanation
Indices: 30204570--30204612 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
30204560 CTTTTTTCAA
30204570 TTTCTTTGATTGATTCTTTC
1 TTTCTTTGATTGATTCTTTC
** *
30204590 TTTCTTTTTTTGATTTTTTC
1 TTTCTTTGATTGATTCTTTC
30204610 TTT
1 TTT
30204613 TTATTTCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (20 bp):
TTTCTTTGATTGATTCTTTC
Found at i:30204609 original size:16 final size:16
Alignment explanation
Indices: 30204590--30204643 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
30204580 TGATTCTTTC
30204590 TTTCTTTTTTTGATTT
1 TTTCTTTTTTTGATTT
**
30204606 TTTCTTTTTATTTCTCTT
1 TTTCTTTTT-TTGAT-TT
*
30204624 TTTTTTTATTTTGATTT
1 TTTCTTT-TTTTGATTT
30204641 TTT
1 TTT
30204644 TTAAGGTCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 9 0.30
17 8 0.27
18 11 0.37
19 2 0.07
ACGTcount: A:0.07, C:0.07, G:0.04, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTTTGATTT
Found at i:30217077 original size:48 final size:47
Alignment explanation
Indices: 30217023--30217196 Score: 181
Period size: 48 Copynumber: 3.6 Consensus size: 47
30217013 GTGAATTTCA
* * *
30217023 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATGTCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTATACTAGCTC-CATGTCGAGGCC
* * * *
30217071 GATGCCATGTCCCAGACATGGTCTTATACTAGCT-CTTGTCTCATTGCC
1 GATGCCATGTCCCAAACATGGTCTTATACTAGCTCCATGTC-GA-GGCC
* * *
30217119 GATGCCATGTTCCAAACATGGTCTTATACTAGCTCTTATGAT-GTGGCC
1 GATGCCATGTCCCAAACATGGTCTTATACTAGCTC-CATG-TCGAGGCC
* *
30217167 AATGCCATGTCCCAGACATGGTCTTATACT
1 GATGCCATGTCCCAAACATGGTCTTATACT
30217197 GGCACACATA
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 5 0.05
47 1 0.01
48 95 0.91
50 2 0.02
51 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTATACTAGCTCCATGTCGAGGCC
Found at i:30217187 original size:96 final size:96
Alignment explanation
Indices: 30217023--30217196 Score: 278
Period size: 96 Copynumber: 1.8 Consensus size: 96
30217013 GTGAATTTCA
* *
30217023 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCGCATGTCGAGGCCAATGCCATGTCCCAGAC
30217088 ATGGTCTTATACTAGCTCTTGTCTCATTGCC
66 ATGGTCTTATACTAGCTCTTGTCTCATTGCC
* ** *
30217119 GATGCCATGTTCCAAACATGGTCTTATACTAGCTCTTATGAT-GTGGCCAATGCCATGTCCCAGA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCGCATG-TCGAGGCCAATGCCATGTCCCAGA
30217183 CATGGTCTTATACT
65 CATGGTCTTATACT
30217197 GGCACACATA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
96 70 0.99
97 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (96 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCGCATGTCGAGGCCAATGCCATGTCCCAGAC
ATGGTCTTATACTAGCTCTTGTCTCATTGCC
Found at i:30222368 original size:35 final size:35
Alignment explanation
Indices: 30222328--30222398 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
30222318 TTTTCATGGG
30222328 TTAACACACCCAACAAAATTAGTCAAGTAACCAAC
1 TTAACACACCCAACAAAATTAGTCAAGTAACCAAC
30222363 TTAACACACCCAACAAAATTAGTCAAGTAACCAAC
1 TTAACACACCCAACAAAATTAGTCAAGTAACCAAC
30222398 T
1 T
30222399 ATCTCTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.48, C:0.28, G:0.06, T:0.18
Consensus pattern (35 bp):
TTAACACACCCAACAAAATTAGTCAAGTAACCAAC
Found at i:30227599 original size:40 final size:40
Alignment explanation
Indices: 30227544--30227767 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
30227534 TATTCGGATG
*
30227544 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
30227584 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
30227627 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
30227667 ACATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
30227707 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
30227747 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
30227768 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 109 0.68
41 1 0.01
43 37 0.23
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:30227687 original size:83 final size:80
Alignment explanation
Indices: 30227548--30227767 Score: 266
Period size: 83 Copynumber: 2.7 Consensus size: 80
30227538 CGGATGATAT
* * * **
30227548 CCGGGCTAAGTCCCGAAGACATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTCA
30227613 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
30227631 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTACATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTCA
*
30227696 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * * *
30227711 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTACATCCGGGCTAAGTCCCGAAG
30227768 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.13
80 43 0.35
81 2 0.02
83 61 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:30227787 original size:123 final size:122
Alignment explanation
Indices: 30227546--30227768 Score: 317
Period size: 123 Copynumber: 1.8 Consensus size: 122
30227536 TTCGGATGAT
** * *
30227546 ATCCGGGCTAAGTCCCGAAGACATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGACATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATT
* * * *
30227611 TGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTAC
66 TGTGC-AGTAGTTGCTATACCCGGGCTAAATCCCGAAGACATTGGTGCAAGTGATTAC
* *
30227669 ATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGACATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATT
*
30227734 TGTGC-G-AGTTGCTATATCC-GGCTAAATCCCGAAGA
66 TGTGCAGTAGTTGCTATACCCGGGCTAAATCCCGAAGA
30227769 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
119 14 0.15
120 12 0.13
121 1 0.01
123 64 0.70
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (122 bp):
ATCCGGGCTAAGTCCCGAAGACATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAGTAGTTGCTATACCCGGGCTAAATCCCGAAGACATTGGTGCAAGTGATTAC
Found at i:30233847 original size:46 final size:46
Alignment explanation
Indices: 30233772--30234432 Score: 539
Period size: 46 Copynumber: 14.4 Consensus size: 46
30233762 TTGTTTTGTT
* ** * *
30233772 AATTGAAATGTTAAAGTGCTACAAATTGAAGTGTTTTAATGCTGTA
1 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGCA
* * * * *
30233818 AATTAAAGTGTTAAAGTACTGCAAATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGCA
** * *
30233864 AATTGAAGTGTTTAAA-TATTGTTAATTGAAATG-TTAAAGTGCTGCA
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAA-TGCTGCA
*
30233910 AATTGAAGTGTTTTAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAA-TGCTGCA
* * * **
30233956 AATTGAAGTGTTTGAA-TGCTATAAATTGAAGTGTTTAAATGTTGTT
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGCA
* * * * * *
30234002 AATTGAAATGTTAAAGTGCTGCAAATTGAA-TAGTTTTAGTCCTGTA
1 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGT-GTTTAAATGCTGCA
* * * **
30234048 AATTGAAGAGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATA
1 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGCA
*
30234094 AATTGAAGTGTTTAAA-TACTGTAAATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAA-TGCTGCA
* * *
30234140 ATTTGAAGTGTTTGAA-TGCTGTAAATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGCA
* * * *
30234186 AATTGAAGTGCTTAAA-TGTTGCAAATTGAAGTGTTTTAAGTACTGCA
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTG-TTTAAATGCTGCA
* * * * * *
30234233 AATTGAAGTGTT-TAGTTGCTGGACATTG-AGATGTTT-TATCACTG-T
1 AATTGAAGTGTTAAAG-TGCTGTAAATTGAAG-TGTTTAAAT-GCTGCA
* * *
30234278 AATTGAGGTGTATAAA-TGCTGTTAATTG-AGATG-TTAAAGTGGTGCA
1 AATTGAAGTGT-TAAAGTGCTGTAAATTGAAG-TGTTTAAA-TGCTGCA
* * *
30234324 AATTGAAGTGTTAAAGTGGTGCAAATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGCA
* * *
30234370 AATTGAAGTGTTTAAA-TGTTGTAAATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGCA
*
30234416 AATTGAAGTGTTTAAGT
1 AATTGAAGTGTTAAAGT
30234433 ACTTATTTTG
Statistics
Matches: 508, Mismatches: 83, Indels: 48
0.79 0.13 0.08
Matches are distributed among these distances:
44 2 0.00
45 50 0.10
46 392 0.77
47 64 0.13
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (46 bp):
AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGCA
Found at i:30233904 original size:115 final size:115
Alignment explanation
Indices: 30233767--30234428 Score: 736
Period size: 115 Copynumber: 5.8 Consensus size: 115
30233757 AAATGTTGTT
* *
30233767 TTGTTAATTGAAATGTTAAAGTGCTACAAATTGAAGTGTTTTAATGCTGTAAATTAAAGTGTTAA
1 TTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAA
* *
30233832 AGTACTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATA
66 AGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTTTAAATA
30233882 TTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAA
1 TTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAA
*
30233947 AGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTTTAAATG
66 AGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTTTAAATA
* * *
30233997 TTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAA-TAGTTTTAGTCCTGTAAATTGAAGAGTTA
1 TTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGT-GTTTTAATGCTGTAAATTGAAGTGTTA
30234061 AAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTTTAAATA
65 AAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTTTAAATA
* * * * *
30234112 CTGTAAATTGAAGTGTTAAAGTGCTGCAATTTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTA
1 TTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTG-TTA
* * * * ** *
30234177 AA-TGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTTAAGTA
65 AAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTG-TTTAAATA
* ** * * * * * *
30234228 CTGCAAATTGAAGTGTT-TAGTTGCTGGACATTG-AGATGTTTT-ATCACTGT-AATTGAGGTGT
1 TTGTTAATTGAAATGTTAAAG-TGCTGCAAATTGAAG-TGTTTTAAT-GCTGTAAATTGAAGTGT
** * * ** *
30234289 ATAAA-TGCTGTTAATTG-AGATG-TTAAAGTGGTGCAAATTGAAGTG-TTAAAGTG
63 -TAAAGTGCTGCAAATTGAAG-TGTTTGAA-TGCTATAAATTGAAGTGTTTAAA-TA
* ** * * * *
30234342 GTGCAAATTGAAGTGTTTGAA-TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTT
1 TTGTTAATTGAAATG-TTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTG-TT
*
30234406 AAA-TGTTGCAAATTGAAGTGTTT
64 AAAGTGCTGCAAATTGAAGTGTTT
30234429 AAGTACTTAT
Statistics
Matches: 481, Mismatches: 47, Indels: 37
0.85 0.08 0.07
Matches are distributed among these distances:
113 4 0.01
114 42 0.09
115 382 0.79
116 53 0.11
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (115 bp):
TTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAA
AGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTTTAAATA
Found at i:30234327 original size:23 final size:23
Alignment explanation
Indices: 30234301--30234432 Score: 146
Period size: 23 Copynumber: 5.7 Consensus size: 23
30234291 AAATGCTGTT
30234301 AATTG-AGATGTTAAAGTGGTGCA
1 AATTGAAG-TGTTAAAGTGGTGCA
30234324 AATTGAAGTGTTAAAGTGGTGCA
1 AATTGAAGTGTTAAAGTGGTGCA
* *
30234347 AATTGAAGTGTTTGAA-TGCTGCA
1 AATTGAAGTG-TTAAAGTGGTGCA
* *
30234370 AATTGAAGTGTTTAAA-TGTTGTA
1 AATTGAAGTG-TTAAAGTGGTGCA
*
30234393 AATTGAAGTGCTTAAA-TGTTGCA
1 AATTGAAGTG-TTAAAGTGGTGCA
*
30234416 AATTGAAGTGTTTAAGT
1 AATTGAAGTGTTAAAGT
30234433 ACTTATTTTG
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
22 4 0.04
23 88 0.90
24 6 0.06
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (23 bp):
AATTGAAGTGTTAAAGTGGTGCA
Found at i:30235311 original size:43 final size:43
Alignment explanation
Indices: 30235216--30235359 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
30235206 GCTAAAGGTT
* * ** *
30235216 ATGACTTTTAGCAGCGATTTTCCTACAAATGCTGCTAAAAG-C
1 ATGACTTTTAGCGGCGCTTCCCCAACAAATGCTGCTAAAAGCC
* * *
30235258 ATTGATTTTTAGCGGCGCCTTTCTC-ACAAACT-CTGCTAAAAGCC
1 A-TGACTTTTAGCGGCG-CTTCCCCAACAAA-TGCTGCTAAAAGCC
* ** *
30235302 AGGACTTTTAGCGATGCTTCCCCAACAAATGCCGCTAAAAGCC
1 ATGACTTTTAGCGGCGCTTCCCCAACAAATGCTGCTAAAAGCC
30235345 ATGACTTTTAGCGGC
1 ATGACTTTTAGCGGC
30235360 ACTTTTCCCA
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 7 0.09
43 67 0.83
44 7 0.09
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGACTTTTAGCGGCGCTTCCCCAACAAATGCTGCTAAAAGCC
Found at i:30236465 original size:32 final size:32
Alignment explanation
Indices: 30236424--30236484 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
30236414 CATGACATAG
*
30236424 TTTCATTTACATTAGTGGAATTTATAGCCTGA
1 TTTCATTTACAGTAGTGGAATTTATAGCCTGA
30236456 TTTCATTTACAGTAGTGGAATTTATAGCC
1 TTTCATTTACAGTAGTGGAATTTATAGCC
30236485 CGATAAAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (32 bp):
TTTCATTTACAGTAGTGGAATTTATAGCCTGA
Found at i:30237690 original size:21 final size:21
Alignment explanation
Indices: 30237666--30237709 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
30237656 TTCTTTCTTC
30237666 TCATTCACTTTATGTGATTTA
1 TCATTCACTTTATGTGATTTA
30237687 TCATTCACTTTATGTGATTTA
1 TCATTCACTTTATGTGATTTA
30237708 TC
1 TC
30237710 TTTTTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (21 bp):
TCATTCACTTTATGTGATTTA
Found at i:30239951 original size:12 final size:13
Alignment explanation
Indices: 30239934--30239968 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
30239924 TGACATAACG
30239934 GTAGATGTAGA-A
1 GTAGATGTAGACA
30239946 GTAGATGTA-ACA
1 GTAGATGTAGACA
30239958 GTAGATGTAGA
1 GTAGATGTAGA
30239969 GGTGGTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (13 bp):
GTAGATGTAGACA
Found at i:30240693 original size:7 final size:7
Alignment explanation
Indices: 30240671--30240722 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
30240661 AGTTTTAATA
30240671 ATTATTT
1 ATTATTT
30240678 ATTTTATTT
1 A--TTATTT
30240687 ATTATTT
1 ATTATTT
30240694 ATTATTT
1 ATTATTT
*
30240701 GTTATTT
1 ATTATTT
*
30240708 -TAATTT
1 ATTATTT
*
30240714 ATTTTTT
1 ATTATTT
30240721 AT
1 AT
30240723 CTGAAAAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 5 0.13
7 26 0.68
9 7 0.18
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (7 bp):
ATTATTT
Found at i:30240694 original size:27 final size:28
Alignment explanation
Indices: 30240664--30240721 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
30240654 GTTTGGAAGT
30240664 TTTAATAATTAT-TTATTTT-ATTTATTA
1 TTTAATAATT-TGTTATTTTAATTTATTA
* *
30240691 TTT-ATTATTTGTTATTTTAATTTATTT
1 TTTAATAATTTGTTATTTTAATTTATTA
30240718 TTTA
1 TTTA
30240722 TCTGAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 1 0.04
26 12 0.46
27 13 0.50
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (28 bp):
TTTAATAATTTGTTATTTTAATTTATTA
Found at i:30257757 original size:58 final size:57
Alignment explanation
Indices: 30257657--30257768 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 57
30257647 CATGTCCGAA
* ** * *
30257657 ACATGTCTTACACTGGCTCTCATGCTAAGTCGACGCCGTGTCCCAGACATGGTTCAG
1 ACATGTCTTACACTGACTCTCACACTAAGTCGACGCCATGTCCCAAACATGGTTCAG
* * * *
30257714 ACATGGTCTTACACTGACTCTCACATTAAGTTGATGCCATGTCCCAAATATGGTT
1 ACAT-GTCTTACACTGACTCTCACACTAAGTCGACGCCATGTCCCAAACATGGTT
30257769 TTACACTGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 4 0.09
58 41 0.91
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (57 bp):
ACATGTCTTACACTGACTCTCACACTAAGTCGACGCCATGTCCCAAACATGGTTCAG
Found at i:30257903 original size:47 final size:45
Alignment explanation
Indices: 30257792--30257963 Score: 156
Period size: 47 Copynumber: 3.8 Consensus size: 45
30257782 CACGTATCCG
* * * * *
30257792 TGCCGATGCCATGTCCCAGACATGGTCTTATACTAACACATCATTTA
1 TGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCGTTAA
*
30257839 -GTCGATGCATG-CCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCGT-T-AA
*
30257883 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCG-TAA
1 TGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCGTTAA
* *
30257928 TGTGGCCAATGCATGTCCCAAACAT-GTCTTACACTA
1 --T-GCCGATGCATGTCCCAGACATGGTCTTACACTA
30257964 TCTCACAAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 13 0.12
44 10 0.10
45 12 0.11
46 21 0.20
47 23 0.22
48 23 0.22
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTTAA
Found at i:30264436 original size:28 final size:28
Alignment explanation
Indices: 30264394--30264454 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
30264384 TCTATGGCCG
30264394 GTGTCTCTCACACGGCCATGACACGCCC
1 GTGTCTCTCACACGGCCATGACACGCCC
*
30264422 GTGTCTCTCATACGGCCATGACACGCCC
1 GTGTCTCTCACACGGCCATGACACGCCC
30264450 GTGTC
1 GTGTC
30264455 CTAGCCAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.16, C:0.39, G:0.23, T:0.21
Consensus pattern (28 bp):
GTGTCTCTCACACGGCCATGACACGCCC
Found at i:30265506 original size:47 final size:47
Alignment explanation
Indices: 30265433--30265585 Score: 209
Period size: 47 Copynumber: 3.3 Consensus size: 47
30265423 GGTATAATAC
*
30265433 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGCTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTTAAGT
* * * *
30265480 CGACGCCATGTCCTAGACAGGGTCTTACA-TTGACTCTCACGTTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCACGTTAAGT
* * *
30265527 CGATGCCATGTCCCAGACATGGTCTTATACTAACTCTCATGTTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTTAAGT
*
30265574 CGATACCATGTC
1 CGATGCCATGTC
30265586 TCACGTTAAG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
46 2 0.02
47 88 0.97
48 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTTAAGT
Found at i:30265579 original size:23 final size:23
Alignment explanation
Indices: 30265553--30265600 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
30265543 ACATGGTCTT
* *
30265553 ATACTAACTCTCATGTTAAGTCG
1 ATACCAACTCTCACGTTAAGTCG
**
30265576 ATACCATGTCTCACGTTAAGTCG
1 ATACCAACTCTCACGTTAAGTCG
30265599 AT
1 AT
30265601 GCCATGTCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (23 bp):
ATACCAACTCTCACGTTAAGTCG
Found at i:30265605 original size:23 final size:23
Alignment explanation
Indices: 30265561--30265608 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
30265551 TTATACTAAC
*
30265561 TCTCATGTTAAGTCGATACCATG
1 TCTCACGTTAAGTCGATACCATG
*
30265584 TCTCACGTTAAGTCGATGCCATG
1 TCTCACGTTAAGTCGATACCATG
30265607 TC
1 TC
30265609 CCAAACATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (23 bp):
TCTCACGTTAAGTCGATACCATG
Found at i:30265627 original size:70 final size:70
Alignment explanation
Indices: 30265514--30265658 Score: 272
Period size: 70 Copynumber: 2.1 Consensus size: 70
30265504 TTACATTGAC
*
30265514 TCTCACGTTAAGTCGATGCCATGTCCCAGACATGGTCTTATACTAACTCTCATGTTAAGTCGATA
1 TCTCACGTTAAGTCGATGCCATGTCCCAAACATGGTCTTATACTAACTCTCATGTTAAGTCGATA
30265579 CCATG
66 CCATG
*
30265584 TCTCACGTTAAGTCGATGCCATGTCCCAAACATGGTCTTATACTAACTCTCATGTTAAGTCGATG
1 TCTCACGTTAAGTCGATGCCATGTCCCAAACATGGTCTTATACTAACTCTCATGTTAAGTCGATA
30265649 CCATG
66 CCATG
30265654 TCTCA
1 TCTCA
30265659 GACATGGTCT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (70 bp):
TCTCACGTTAAGTCGATGCCATGTCCCAAACATGGTCTTATACTAACTCTCATGTTAAGTCGATA
CCATG
Found at i:30265653 original size:47 final size:47
Alignment explanation
Indices: 30265584--30265863 Score: 186
Period size: 47 Copynumber: 6.0 Consensus size: 47
30265574 CGATACCATG
* *
30265584 TCTCACGTTAAGTCGATGCCATGTCCCAAACATGGTCTTATACTAAC
1 TCTCACGTTAAGTCGATGCCATGTCCCAGACATGGTCTTACACTAAC
* * *
30265631 TCTCATGTTAAGTCGATGCCATGTCTCAGACATGGTCTTACACTGAC
1 TCTCACGTTAAGTCGATGCCATGTCCCAGACATGGTCTTACACTAAC
** * ** *
30265678 TCTCACGTATCTGTGCCGATGCCATGTCCCAGACATGGTTTTTTACTGAC
1 TCTCACGT-TAAGT--CGATGCCATGTCCCAGACATGGTCTTACACTAAC
* * * * * *
30265728 ACATCA--TTTAGCCGATG-TATGTCCTAGACAT-GTCTTACACTAGC
1 TC-TCACGTTAAGTCGATGCCATGTCCCAGACATGGTCTTACACTAAC
* * * **
30265772 TCT--CGTCTCAATGCCGATGCCATGTCCCGGACATGGTGTTACACTGGC
1 TCTCACGT-T-AA-GTCGATGCCATGTCCCAGACATGGTCTTACACTAAC
30265820 TCTCA---TAATGTGGCCGATG-CATGTCCCAGACATGG-CTTACACTA
1 TCTCACGTTAA-GT---CGATGCCATGTCCCAGACATGGTCTTACACTA
30265864 GCTCACAAAT
Statistics
Matches: 183, Mismatches: 34, Indels: 33
0.73 0.14 0.13
Matches are distributed among these distances:
43 2 0.01
44 10 0.05
45 17 0.09
46 20 0.11
47 75 0.41
48 24 0.13
49 1 0.01
50 31 0.17
51 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
TCTCACGTTAAGTCGATGCCATGTCCCAGACATGGTCTTACACTAAC
Found at i:30265680 original size:117 final size:117
Alignment explanation
Indices: 30265467--30265682 Score: 324
Period size: 117 Copynumber: 1.8 Consensus size: 117
30265457 TTACACTAGC
* * * *
30265467 TCTCACGCTAAGTCGACGCCATGTCCTAGACAGGGTCTTACATTGACTCTCACGTTAAGTCGATG
1 TCTCACGCTAAGTCGACGCCATGTCCCAAACAGGGTCTTACACTAACTCTCACGTTAAGTCGATG
*
30265532 CCATGTCCCAGACATGGTCTTATACTAACTCTCATGTTAAGTCGATACCATG
66 CCATGTCCCAGACATGGTCTTACACTAACTCTCATGTTAAGTCGATACCATG
* * * * *
30265584 TCTCACGTTAAGTCGATGCCATGTCCCAAACATGGTCTTATACTAACTCTCATGTTAAGTCGATG
1 TCTCACGCTAAGTCGACGCCATGTCCCAAACAGGGTCTTACACTAACTCTCACGTTAAGTCGATG
* *
30265649 CCATGTCTCAGACATGGTCTTACACTGACTCTCA
66 CCATGTCCCAGACATGGTCTTACACTAACTCTCA
30265683 CGTATCTGTG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 87 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (117 bp):
TCTCACGCTAAGTCGACGCCATGTCCCAAACAGGGTCTTACACTAACTCTCACGTTAAGTCGATG
CCATGTCCCAGACATGGTCTTACACTAACTCTCATGTTAAGTCGATACCATG
Found at i:30265775 original size:94 final size:92
Alignment explanation
Indices: 30265597--30265867 Score: 269
Period size: 94 Copynumber: 2.9 Consensus size: 92
30265587 CACGTTAAGT
* * * *
30265597 CGATGCCATGTCCCAAACATGGTCTTATACTAACTCTCATGTTAAGTCGATGCCATGT-CTCAGA
1 CGATGCCATGTCCCAGACATGGTCTTATACTGACTCTCATATT-AGCCGATG-CATGTCCT-AGA
**
30265661 CATGGTCTTACACT-GACTCTCACGTATCTGTGC
63 CAT-GTCTTACACTAG-CTCT--CGTATCAATGC
* * * *
30265694 CGATGCCATGTCCCAGACATGGTTTTTTACTGACACATCAT-TTAGCCGATGTATGTCCTAGACA
1 CGATGCCATGTCCCAGACATGGTCTTATACTGACTC-TCATATTAGCCGATGCATGTCCTAGACA
*
30265758 TGTCTTACACTAGCTCTCGTCTCAATGC
65 TGTCTTACACTAGCTCTCGTATCAATGC
* * * * * *
30265786 CGATGCCATGTCCCGGACATGGTGTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTATACTGACTCTCAT-AT-TAGCCGATGCATGTCCTAGAC
*
30265851 ATGGCTTACACTAGCTC
64 ATGTCTTACACTAGCTC
30265868 ACAAATGATC
Statistics
Matches: 148, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
91 4 0.03
92 38 0.26
93 1 0.01
94 48 0.32
95 11 0.07
96 9 0.06
97 33 0.22
98 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTATACTGACTCTCATATTAGCCGATGCATGTCCTAGACAT
GTCTTACACTAGCTCTCGTATCAATGC
Found at i:30268869 original size:20 final size:24
Alignment explanation
Indices: 30268839--30268883 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 24
30268829 TCAATATACT
30268839 AATTCCATTCA-A-AAGG-ACATC
1 AATTCCATTCATAGAAGGAACATC
30268860 AATT-CATTCATAGAAGGAACATC
1 AATTCCATTCATAGAAGGAACATC
30268883 A
1 A
30268884 TATACATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 4 0.19
23 6 0.29
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.24
Consensus pattern (24 bp):
AATTCCATTCATAGAAGGAACATC
Done.