Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 216 of 221
Found at i:63378774 original size:858 final size:858
Alignment explanation
Indices: 63376832--63380254 Score: 4503
Period size: 852 Copynumber: 4.0 Consensus size: 858
63376822 AGGTCGCTAC
* * *
63376832 ATATATGTATTTGAAAGGTGTATAAAAAGAGAAACTTACCCCTTTCTCTTTGATTTCACCGAAAA
1 ATATATGTATTTCAAAGGTGTATGAAAAGAGAAACTTACCCCTTTCTCTTTGATTTCACCAAAAA
* * ** * * * * * * *
63376897 AAATG-ACATTTGGCCTTTCGGTCATCGTCAACGATAGCGACGTCTCCGGATACCGATGGCTGAC
66 AAAGGAACTTTTGGCCTTTCGGTCGCCGTCGACGACAGCGTCATCGCCGGATACCGGTGGCCGAC
* *
63376961 GCGGCAGCGGTTCGCCGGATTCTGGAAAAGGGGAAAGAGTTTTGGAGAGAAAATTTTGGTTTTTT
131 GCGGCATCAGTTCGCCGGATTCTGGAAAAGGGGAAAGAGTTTTGGAGAGAAAATTTTGGTTTTTT
* *
63377026 TTGGAGAAGTGCAGAAATGAGGCTATTTTTAAAAAATTGACTTAAATAGGCCTTACGAAACGGCG
196 TTGGAGAAGTGCAGAAATGAGGCTATTTTAAAAAAATTGACTTAAATAGGCCCTACGAAACGGCG
* * * * * * * * * *
63377091 TCATTTTGGGTCAGTGCTCCAAACGACGAAACGACATCGTTTAGCCCATTGA-CCACCGTGCGCG
261 TCGTTTTTGGCCACTGCTCCAGACGACAAAACGGCGTCGTTTAGCCCATTGACCCA-TGCGCGCG
* * * * ** *
63377155 ACCTAACCTGCCAAGGGGTCCGCGCGTTTTCAACTTTTGGGTTCTTTATCCAGCATGTCCTTCCG
325 ACCCAACCTGCCAAGGGATCCGCGTGTTTTCAACTTTTGGGTTATTTATGTAGCATGTCCTTTCG
* *
63377220 ATTTTTCCACATAATTTAATTAGATCCTTTTTGTTTATTTTTGTTTCTTTTATTTCGGCCTAATA
390 ATTTTTCCACATATTTTAATTAGATCCTTTTTGTTTATTTTTGTTTCTTTTATTTCGGCCTGATA
* * * * * *
63377285 ATTTTGATTTCAGCAAAATAGAAACCCTAGCCCCACCACCAGCTGCACTACCTCTTCGCGTCATA
455 ATTTTGTTTTCAGCAAAATAAAAACCCTAGCCCCACCACTAGCCGCACCACCTCTTCGCGCCATA
* * * *
63377350 CCCTCCCCGTGCCGTCTGACACCTTTCTGCCGTCGTTACCTGTAAGGAAGAACAGACACACAAAG
520 CCCTCCACGTGCCGTCTGACACCTTTCTGCCATCGTTACCTGCAAGGAAGAACAGACACGCAAAG
* * *
63377415 CAGCAACAAAGAAACAGTAGCAAAGAGAAATAATAAACAATGTAATATTGGTAGGCCATGGATTG
585 CAGCAACAGAGAAACAATAGCAAAGAGAAATAATAAACAATGTAATATTGGCAGGCCATGGATTG
* * *
63377480 TAACGTTTTCAAAAAAATGGAGAAATACACAAATTTCGAATAAACAAAAAAGAACATATTGAAAG
650 TAACGTTTTCAAAAAAAGGGAGAAATACACAAATTTTGAATAAACAAAAAAGAACATATTCAAAG
* * * *
63377545 CATACAAACGAAAAATATAGCAACAAAGCAAAGAAACAGTGAGAAACATGCAAAAGTCCTCTTCA
715 CATACAAACGAAAAATATAGCAACCAAGCAAAGAAAAAGTGAGAAACGTGCAAAGGTCCTCTTCA
*
63377610 TTTTTATTTTCTTTGATTTTTCTTTTTTTTTTGAAATCGTTTATACATACAAATATTTCTTTTTT
780 TTTTTATTTTCTTTG--TTTT-TTTTTTTTTTGAAACCGTTTATACATACAAATATTTCTTTTTT
** *
63377675 AATACAATGTAT-TTAT
842 AATACTGTGTATACTAT
* *
63377691 ATATATGTATTTCAAAGGTGTATGAAAAGAGAAACTTACCCCTTTCTCTTCGATTTCACAAAAAA
1 ATATATGTATTTCAAAGGTGTATGAAAAGAGAAACTTACCCCTTTCTCTTTGATTTCACCAAAAA
* * * * * *
63377756 AAAAGAGACTTTTGGCCTTTCGGTCGCCATCGACGGCAGCGTCGTCGCCGGATACCTGTGGCCAA
66 AAAGGA-ACTTTTGGCCTTTCGGTCGCCGTCGACGACAGCGTCATCGCCGGATACCGGTGGCCGA
* * * *
63377821 CACGGCAACGGTTCTCCGGATTCTGGAAAAGGGGAAAGAGTTTTGGAGAGAAAATTTTGGTTTTT
130 CGCGGCATCAGTTCGCCGGATTCTGGAAAAGGGGAAAGAGTTTTGGAGAGAAAATTTTGGTTTTT
* *
63377886 TTT-GAGAAGTGCAGAAATGAGGCTATTTTAAAAAAAATTGACTTAAATAGGCCCTACAAAATGG
195 TTTGGAGAAGTGCAGAAATGAGGCTATTTT-AAAAAAATTGACTTAAATAGGCCCTACGAAACGG
* * * *
63377950 CGTCGTTTTTGGCCACTGCTCCAGACGACAAAACGGTGTCATTTAGCTCATTGACCCATGCGCAC
259 CGTCGTTTTTGGCCACTGCTCCAGACGACAAAACGGCGTCGTTTAGCCCATTGACCCATGCGCGC
* * * * * * *
63378015 GACCCAACGTGCC-AGGGATCTGCATTTTTTTAACTTTTGGGTAATTTATGTACCATGTCCTTTC
324 GACCCAACCTGCCAAGGGATCCGCGTGTTTTCAACTTTTGGGTTATTTATGTAGCATGTCCTTTC
* *
63378079 GATTTTTTCACATATTTTAATTAGATCCTTTTTGTTTATTTTTGTTTCTTTTATTTCAGCCTGAT
389 GATTTTTCCACATATTTTAATTAGATCCTTTTTGTTTATTTTTGTTTCTTTTATTTCGGCCTGAT
* * * * * ***
63378144 AA-TTT-TTTTCAAG-AAAATAGAAGCCCTAGCCCCACCACTAGCTGTACCACCTCTTCACGTTG
454 AATTTTGTTTTC-AGCAAAATAAAAACCCTAGCCCCACCACTAGCCGCACCACCTCTTCGCGCCA
* * * *
63378206 TACCCTCCATGTGCCATCTGACACCTTTCTGCCATCATTTCCTGCAAGGAAGAACAGACACGCAA
518 TACCCTCCACGTGCCGTCTGACACCTTTCTGCCATCGTTACCTGCAAGGAAGAACAGACACGCAA
* * * * *
63378271 AGCAGCAATAGAGAAATAGTAGCAAAGAGAAATAATAAACAATGTACTATTGGCAGGCTATAGG-
583 AGCAGCAACAGAGAAACAATAGCAAAGAGAAATAATAAACAATGTAATATTGGCAGGCCAT-GGA
* ** *
63378335 TTGTAACATTTAAAAAAAAAAGGGAGAAATACACAAATTTTGAATAAACAAAAAAGAACAGATTC
647 TTGTAACGTTT-TCAAAAAAAGGGAGAAATACACAAATTTTGAATAAACAAAAAAGAACATATTC
* ** * * * *
63378400 AAAGCATACGAACGAAAAATATTCCAAGCAAGCAAAGAAAAAGTGAGTAATGTGCAAAGCTCCTC
711 AAAGCATACAAACGAAAAATATAGCAACCAAGCAAAGAAAAAGTGAGAAACGTGCAAAGGTCCTC
* **
63378465 TTCATTTTTATTTTCTTTG-TGTTTTTTTTTTCAAAACCGTTTATACATACAAATATTTCTTTTT
776 TTCATTTTTATTTTCTTTGTTTTTTTTTTTTTTGAAACCGTTTATACATACAAATATTTCTTTTT
63378529 TAATACTGTGTATACATAT
841 TAATACTGTGTATAC-TAT
* * *
63378548 ATATATGTATTTCAAAGGTGT-GGAAAAAGAGAAACTTACCCCTTTCTATTTGATTTCACCGAAA
1 ATATATGTATTTCAAAGGTGTATG-AAAAGAGAAACTTACCCCTTTCTCTTTGATTTCACCAAAA
* * * * * * *
63378612 GAAAGGAACTTTTGGCCTTTCAGTCGCCGTCGACGATAGTGCCATCGCTGGATAGCGGTGGCCGA
65 AAAAGGAACTTTTGGCCTTTCGGTCGCCGTCGACGACAGCGTCATCGCCGGATACCGGTGGCCGA
* * * *
63378677 TGCGGCATCAGTTCGCTGGATTCTGGAAAAGGGGAAAGAGTTTTGGGGGGAAAATTTTGGTTTTT
130 CGCGGCATCAGTTCGCCGGATTCTGGAAAAGGGGAAAGAGTTTTGGAGAGAAAATTTTGGTTTTT
* * *
63378742 CTTGGAGAAGTGAAGAAATGAGGCTAATTTTAAAAAAATTGACTTAAATAGGCCCTATGAAACGG
195 TTTGGAGAAGTGCAGAAATGAGGCT-ATTTTAAAAAAATTGACTTAAATAGGCCCTACGAAACGG
* * *
63378807 CATCGTTTTAT-GCCACTGCTCTAGACGACAAAATGGCGTCGTTTAGCACC-TTGACCCATGCGC
259 CGTCGTTTT-TGGCCACTGCTCCAGACGACAAAACGGCGTCGTTTAGC-CCATTGACCCATGCGC
*
63378870 GCGACCCAACTTGCCAAGGGATCCGCGTGTTTTCAACTTTTGGGTTATTTATGTAGCATGTCC-T
322 GCGACCCAACCTGCCAAGGGATCCGCGTGTTTTCAACTTTTGGGTTATTTATGTAGCATGTCCTT
* * * *
63378934 TCTGATTTTTCCACATATTTTAATTATATCCTTTTT-TAT-TTTTTGTTTCTTTTATTTTGGCTT
387 TC-GATTTTTCCACATATTTTAATTAGATCCTTTTTGTTTATTTTTGTTTCTTTTATTTCGGCCT
* *
63378997 G-TCAATTTTGTTTTCAGCAAAATAAAAACCCTAGCCCCACCACTAGCCGCAGCACCTCTTCGCA
451 GAT-AATTTTGTTTTCAGCAAAATAAAAACCCTAGCCCCACCACTAGCCGCACCACCTCTTCGCG
* * * * * *
63379061 CCATACCCTTCACGTGCCGTCTGAGACTTTTCTACCATCGTTACCTGCAAGGAAGAATAGACATG
515 CCATACCCTCCACGTGCCGTCTGACACCTTTCTGCCATCGTTACCTGCAAGGAAGAACAGACACG
* *
63379126 CAAAGCAACAACAGAGAAACAATAGCAAAGAGAAATAATAAACAATGCAATATTGGCAGGCCATG
580 CAAAGCAGCAACAGAGAAACAATAGCAAAGAGAAATAATAAACAATGTAATATTGGCAGGCCATG
*
63379191 GATTGTAACGTTTTCAAAAAAAGGGAGAAATACACAAATTTTGAATAAACAAAAAAGACCATATT
645 GATTGTAACGTTTTCAAAAAAAGGGAGAAATACACAAATTTTGAATAAACAAAAAAGAACATATT
* * * *
63379256 CAAAGCATTCAAACGGAAAATATAGCAACCAAACAAAGAAAAAGTGAGAAACGTGCAAAGGTCAT
710 CAAAGCATACAAACGAAAAATATAGCAACCAAGCAAAGAAAAAGTGAGAAACGTGCAAAGGTCCT
* * *** * * * *
63379321 CGTC-----GA-CGGC-CT-TTCTTTTTTTTTTTGAAATCATTTATACATACAAATATTTCTTTT
775 CTTCATTTTTATTTTCTTTGTTTTTTTTTTTTTTGAAACCGTTTATACATACAAATATTTCTTTT
*
63379378 TTAATATTGTGTATAC-AT
840 TTAATACTGTGTATACTAT
63379396 ATATATGTATTTCAAAGGTGTATGAAAAGAGAAACTTACCCCTTTCTCTTTGATTTCACCAAAAA
1 ATATATGTATTTCAAAGGTGTATGAAAAGAGAAACTTACCCCTTTCTCTTTGATTTCACC--AAA
* * * * *
63379461 AAAAAGGAA-TTTTGGCCTTTCGGTCGTCGTCGACGGCAACGTCATCACCGGATACCAGTGGCCG
64 AAAAAGGAACTTTTGGCCTTTCGGTCGCCGTCGACGACAGCGTCATCGCCGGATACCGGTGGCCG
* * * *
63379525 ACGCTGCAGTGA-TTCGCCGGATTCTAGAAAAGGGGAAAGAGTTTTGGAGAGAAAATTTTAGTTT
129 ACGCGGCA-TCAGTTCGCCGGATTCTGGAAAAGGGGAAAGAGTTTTGGAGAGAAAATTTTGGTTT
* *
63379589 TTTTTGGAGAAGTGCAGAAATAAGGCTATTTTAAAAAAAAAATTTGACTTAAATACGCCCTACGA
193 TTTTTGGAGAAGTGCAGAAATGAGGCTATTTT---AAAAAAA-TTGACTTAAATAGGCCCTACGA
* * * *
63379654 AATGGCGTCGTTTTTGGCCAGTGCTCCAGACGACAAAACGGCGTCGTTTAGCCCCTTGACCCACG
254 AACGGCGTCGTTTTTGGCCACTGCTCCAGACGACAAAACGGCGTCGTTTAGCCCATTGACCCATG
* * * * *
63379719 CGCGCGATCGAACCTGCCAGGGGATCCGCGTGTTTTCAAC--TTGGGTTATTTATGGAGCATGTT
319 CGCGCGACCCAACCTGCCAAGGGATCCGCGTGTTTTCAACTTTTGGGTTATTTATGTAGCATGTC
* * *
63379782 ATTTCGATTTTTCCACATATTTTAATTAGATCCTTTTTATTTATTTTTGTTTCTTTTATTTCGGT
384 CTTTCGATTTTTCCACATATTTTAATTAGATCCTTTTTGTTTATTTTTGTTTCTTTTATTTCGGC
* * *
63379847 CTGATAATTTTGTTTTCAACAAAATAAAAACCCTATCCCTACCACTAGCCGCACCACCTCTTCGC
449 CTGATAATTTTGTTTTCAGCAAAATAAAAACCCTAGCCCCACCACTAGCCGCACCACCTCTTCGC
* * * * *
63379912 GCCGTACCCTCCACGTGCCGTCTGACACCTTTCTGCCGTCGTTACCTACAAGGAATAATAGACAC
514 GCCATACCCTCCACGTGCCGTCTGACACCTTTCTGCCATCGTTACCTGCAAGGAAGAACAGACAC
*
63379977 GCAAAGCAGCAACAGAGAAACAATAGCAAAGAGAAATAATAAACAATGTAATATTGGTAGGCCAT
579 GCAAAGCAGCAACAGAGAAACAATAGCAAAGAGAAATAATAAACAATGTAATATTGGCAGGCCAT
* * * *
63380042 GGATTGTAATGTTTTCAAAAAAATGGAGAAATACACAAATTTTGAATAAACAAAATAGAATATAT
644 GGATTGTAACGTTTTCAAAAAAAGGGAGAAATACACAAATTTTGAATAAACAAAAAAGAACATAT
** *
63380107 TCAAAGCATACAAACGAAAAATGCAACAACCAAGCAAAGAAAAAGTGAGAAACGTGCAAAGGTCC
709 TCAAAGCATACAAACGAAAAATATAGCAACCAAGCAAAGAAAAAGTGAGAAACGTGCAAAGGTCC
*
63380172 TCTTCATTTTTATTTTCTTTGTTTTTTACTTTTTTTTTGAAACCGTTTATGCATACAAATATTTC
774 TCTTCATTTTTATTTTCTTTG-TTTTT--TTTTTTTTTGAAACCGTTTATACATACAAATATTTC
* *
63380237 TTTTGTAGTACTGTGTAT
836 TTTTTTAATACTGTGTAT
63380255 GTAGCGACCT
Statistics
Matches: 2218, Mismatches: 299, Indels: 90
0.85 0.11 0.03
Matches are distributed among these distances:
848 63 0.03
849 122 0.06
850 120 0.05
851 16 0.01
852 428 0.19
853 1 0.00
855 51 0.02
856 133 0.06
857 300 0.14
858 411 0.19
859 192 0.09
860 128 0.06
861 202 0.09
862 3 0.00
863 48 0.02
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (858 bp):
ATATATGTATTTCAAAGGTGTATGAAAAGAGAAACTTACCCCTTTCTCTTTGATTTCACCAAAAA
AAAGGAACTTTTGGCCTTTCGGTCGCCGTCGACGACAGCGTCATCGCCGGATACCGGTGGCCGAC
GCGGCATCAGTTCGCCGGATTCTGGAAAAGGGGAAAGAGTTTTGGAGAGAAAATTTTGGTTTTTT
TTGGAGAAGTGCAGAAATGAGGCTATTTTAAAAAAATTGACTTAAATAGGCCCTACGAAACGGCG
TCGTTTTTGGCCACTGCTCCAGACGACAAAACGGCGTCGTTTAGCCCATTGACCCATGCGCGCGA
CCCAACCTGCCAAGGGATCCGCGTGTTTTCAACTTTTGGGTTATTTATGTAGCATGTCCTTTCGA
TTTTTCCACATATTTTAATTAGATCCTTTTTGTTTATTTTTGTTTCTTTTATTTCGGCCTGATAA
TTTTGTTTTCAGCAAAATAAAAACCCTAGCCCCACCACTAGCCGCACCACCTCTTCGCGCCATAC
CCTCCACGTGCCGTCTGACACCTTTCTGCCATCGTTACCTGCAAGGAAGAACAGACACGCAAAGC
AGCAACAGAGAAACAATAGCAAAGAGAAATAATAAACAATGTAATATTGGCAGGCCATGGATTGT
AACGTTTTCAAAAAAAGGGAGAAATACACAAATTTTGAATAAACAAAAAAGAACATATTCAAAGC
ATACAAACGAAAAATATAGCAACCAAGCAAAGAAAAAGTGAGAAACGTGCAAAGGTCCTCTTCAT
TTTTATTTTCTTTGTTTTTTTTTTTTTTGAAACCGTTTATACATACAAATATTTCTTTTTTAATA
CTGTGTATACTAT
Found at i:63380011 original size:16 final size:17
Alignment explanation
Indices: 63379984--63380017 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
63379974 CACGCAAAGC
63379984 AGCAACAGAGAAACAAT
1 AGCAACAGAGAAACAAT
*
63380001 AGCAA-AGAGAAATAAT
1 AGCAACAGAGAAACAAT
63380017 A
1 A
63380018 AACAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.12, G:0.18, T:0.09
Consensus pattern (17 bp):
AGCAACAGAGAAACAAT
Found at i:63380662 original size:20 final size:20
Alignment explanation
Indices: 63380637--63380715 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 20
63380627 CAACTTTTTC
63380637 TTTTCTGAAAACACGAAAAT
1 TTTTCTGAAAACACGAAAAT
* * *
63380657 TTTTCTTAAAATA--AAAGAA
1 TTTTCTGAAAACACGAAA-AT
*
63380676 TTTT-AG-AAACACG-AAAT
1 TTTTCTGAAAACACGAAAAT
* *
63380693 TTTTTTAAAAACACGAAAAT
1 TTTTCTGAAAACACGAAAAT
63380713 TTT
1 TTT
63380716 GAAACACGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
17 9 0.20
18 5 0.11
19 12 0.27
20 18 0.41
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (20 bp):
TTTTCTGAAAACACGAAAAT
Found at i:63380698 original size:19 final size:19
Alignment explanation
Indices: 63380676--63380797 Score: 83
Period size: 19 Copynumber: 6.5 Consensus size: 19
63380666 AATAAAAGAA
63380676 TTTTAGAAACACGAAATTT
1 TTTTAGAAACACGAAATTT
* *
63380695 TTTTAAAAACACGAAA--A
1 TTTTAGAAACACGAAATTT
*
63380712 TTTT-GAAACACGAGATTTT
1 TTTTAGAAACACGA-AATTT
* * *
63380731 TTTTTGAAAACAAGAAGTTT
1 TTTTAG-AAACACGAAATTT
* *
63380751 CTTTTTGAAACACGAAA-AT
1 -TTTTAGAAACACGAAATTT
*
63380770 TTTTA-AAACACAAAATTT
1 TTTTAGAAACACGAAATTT
*
63380788 GTTTTTGAAA
1 -TTTTAGAAA
63380798 ACATAAAAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
16 8 0.10
17 14 0.17
18 5 0.06
19 24 0.30
20 16 0.20
21 13 0.16
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (19 bp):
TTTTAGAAACACGAAATTT
Found at i:63380720 original size:35 final size:35
Alignment explanation
Indices: 63380645--63380733 Score: 103
Period size: 35 Copynumber: 2.5 Consensus size: 35
63380635 TCTTTTCTGA
63380645 AAACACGAAAATTTTTCTTAAAATAAAAGAATTTTAG
1 AAACACG-AAATTTTT-TTAAAATAAAAGAATTTTAG
63380682 AAACACGAAATTTTTTTAAAA-ACACGAA-AATTTT-G
1 AAACACGAAATTTTTTTAAAATA-A--AAGAATTTTAG
*
63380717 AAACACGAGATTTTTTT
1 AAACACGAAATTTTTTT
63380734 TTGAAAACAA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
34 1 0.02
35 24 0.50
36 14 0.29
37 9 0.19
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAACACGAAATTTTTTTAAAATAAAAGAATTTTAG
Found at i:63380737 original size:20 final size:22
Alignment explanation
Indices: 63380712--63380765 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
63380702 AACACGAAAA
*
63380712 TTTTGAAACACGAG-A-TTTTT
1 TTTTGAAACACGAGAAGTTTCT
*
63380732 TTTTGAAA-ACAAGAAGTTTCT
1 TTTTGAAACACGAGAAGTTTCT
63380753 TTTTGAAACACGA
1 TTTTGAAACACGA
63380766 AAATTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.14
20 9 0.32
21 12 0.43
22 3 0.11
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (22 bp):
TTTTGAAACACGAGAAGTTTCT
Found at i:63380784 original size:16 final size:17
Alignment explanation
Indices: 63380752--63380787 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
63380742 AAGAAGTTTC
*
63380752 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
63380769 TTTTTAAAACAC-AAAA
1 TTTTTAAAACACGAAAA
63380785 TTT
1 TTT
63380788 GTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:63380798 original size:21 final size:21
Alignment explanation
Indices: 63380712--63380810 Score: 61
Period size: 21 Copynumber: 5.0 Consensus size: 21
63380702 AACACGAAAA
* * *
63380712 TTTTG-AAACACGAGATTTTT
1 TTTTGAAAACACAAAATTTGT
* *
63380732 TTTTGAAAACA-AGAAGTTTCT
1 TTTTGAAAACACA-AAATTTGT
63380753 TTTTG-AAACACGAAAA----T
1 TTTTGAAAACAC-AAAATTTGT
63380770 TTTT-AAAACACAAAATTTGT
1 TTTTGAAAACACAAAATTTGT
*
63380790 TTTTGAAAACATAAAAATTTG
1 TTTTGAAAACA-CAAAATTTG
63380811 GATAAAATAC
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
16 4 0.06
17 11 0.18
20 15 0.24
21 23 0.37
22 9 0.15
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (21 bp):
TTTTGAAAACACAAAATTTGT
Found at i:63380809 original size:22 final size:20
Alignment explanation
Indices: 63380769--63380810 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
63380759 AACACGAAAA
*
63380769 TTTTTAAAACACAAAATTTG
1 TTTTTAAAACAAAAAATTTG
63380789 TTTTTGAAAACATAAAAATTTG
1 TTTTT-AAAACA-AAAAATTTG
63380811 GATAAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACAAAAAATTTG
Found at i:63380862 original size:17 final size:17
Alignment explanation
Indices: 63380836--63380949 Score: 75
Period size: 17 Copynumber: 6.3 Consensus size: 17
63380826 ACGAGGATTT
63380836 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* * **
63380853 TTTATGAAACATGGCCAA
1 TTTTTGAAACA-CGAAAA
*
63380871 TTCTTTGAAAACATGAAAA
1 TT-TTTG-AAACACGAAAA
* *
63380890 TTTTTGAAAGACGAGAATTT
1 TTTTTGAAACACGA-AA--A
*
63380910 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* *
63380928 TTTATGAAACACGGAAA
1 TTTTTGAAACACGAAAA
63380945 TTTTT
1 TTTTT
63380950 TTTTTGAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
17 31 0.42
18 16 0.22
19 8 0.11
20 13 0.18
21 6 0.08
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:63380929 original size:38 final size:38
Alignment explanation
Indices: 63380821--63380989 Score: 143
Period size: 38 Copynumber: 4.4 Consensus size: 38
63380811 GATAAAATAC
* * *
63380821 GAAACACGAGGATTTTTTTTG-AAACACGAAAATTTAT
1 GAAACACGAGAATTTTTTTTGAAAACAAGAAAATTTTT
* * *
63380858 GAAACATG-GCCAA--TTCTTTGAAAACATGAAAATTTTT
1 GAAACACGAG--AATTTTTTTTGAAAACAAGAAAATTTTT
* * * *
63380895 GAAAGACGAGAATTTTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAGAATTTTTTTTGAAAACAAGAAAATTTTT
63380933 GAAACACG-GAAATTTTTTTTTTGAAAACAAGAAAATTTTT
1 GAAACACGAG-AA--TTTTTTTTGAAAACAAGAAAATTTTT
*
63380973 GAAATAC-AGGAATTTTT
1 GAAACACGA-GAATTTTT
63380990 AAAAACACGA
Statistics
Matches: 105, Mismatches: 16, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
36 9 0.09
37 28 0.27
38 36 0.34
40 31 0.30
41 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.34
Consensus pattern (38 bp):
GAAACACGAGAATTTTTTTTGAAAACAAGAAAATTTTT
Found at i:63380989 original size:18 final size:18
Alignment explanation
Indices: 63380869--63381055 Score: 53
Period size: 20 Copynumber: 9.8 Consensus size: 18
63380859 AAACATGGCC
* *
63380869 AATTCTTTGAAAACATGA
1 AATTTTTTGAAAACAAGA
* *
63380887 AAATTTTTGAAAGACGAGA
1 AATTTTTTGAAA-ACAAGA
* *
63380906 ATTTTTTTTGAAAACACGGA
1 A-ATTTTTTGAAAACA-AGA
* *
63380926 AA-TTTATG-AAACACGGA
1 AATTTTTTGAAAACA-AGA
63380943 AATTTTTTTTTTGAAAACAAGA
1 AA----TTTTTTGAAAACAAGA
* *
63380965 AAATTTTTGAAATAC-AGG
1 AATTTTTTGAAA-ACAAGA
* *
63380983 AA-TTTTTAAAAACACGA
1 AATTTTTTGAAAACAAGA
* *
63381000 GATTGTTTTTTAAAA-AACCCGGA
1 -AAT-TTTTTGAAAACAA----GA
63381023 AA-TTTTTGAAATACAAGA
1 AATTTTTTGAAA-ACAAGA
63381041 AATTTTTCTGAAAAC
1 AATTTTT-TGAAAAC
63381056 GCAAAAATTT
Statistics
Matches: 125, Mismatches: 22, Indels: 43
0.66 0.12 0.23
Matches are distributed among these distances:
16 2 0.02
17 20 0.16
18 33 0.26
19 16 0.13
20 34 0.27
21 1 0.01
22 12 0.10
23 7 0.06
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (18 bp):
AATTTTTTGAAAACAAGA
Found at i:63382010 original size:7 final size:7
Alignment explanation
Indices: 63382000--63382079 Score: 63
Period size: 7 Copynumber: 11.0 Consensus size: 7
63381990 TTATTTTTCC
63382000 TTTTCTT
1 TTTTCTT
*
63382007 TTTTTTT
1 TTTTCTT
63382014 CTCTTTCTCT
1 -T-TTTCT-T
*
63382024 TTTT-TA
1 TTTTCTT
63382030 TTTTCTT
1 TTTTCTT
63382037 TTTTCTT
1 TTTTCTT
*
63382044 TCTTCTT
1 TTTTCTT
*
63382051 CTTTCTT
1 TTTTCTT
*
63382058 CTTTCTT
1 TTTTCTT
63382065 TCTTTCTT
1 T-TTTCTT
*
63382073 TCTTCTT
1 TTTTCTT
63382080 CCCTTTTTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
6 4 0.07
7 38 0.64
8 11 0.19
9 5 0.08
10 1 0.02
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTCTT
Found at i:63382028 original size:25 final size:24
Alignment explanation
Indices: 63382000--63382071 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
63381990 TTATTTTTCC
63382000 TTTTCTTTTTTTTTCTCTTTCTCTT
1 TTTTCTTTTTTTTT-TCTTTCTCTT
*
63382025 TTTTATTTTCTTTTTTCTTTCTTCTT
1 TTTTCTTTT-TTTTTTCTTTC-TCTT
* * *
63382051 CTTTCTTCTTTCTTTCTTTCT
1 TTTTCTTTTTTTTTTCTTTCT
63382072 TTCTTCTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 24 0.60
26 15 0.38
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTCTTTTTTTTTTCTTTCTCTT
Found at i:63382047 original size:29 final size:29
Alignment explanation
Indices: 63382000--63382080 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
63381990 TTATTTTTCC
* *
63382000 TTTTCTTTTTTTTTCTCTTTC-TCTTTTTT
1 TTTTCTTTTTTCTT-TCTTTCTTCTTTCTT
63382029 ATTTTCTTTTTTCTTTC-TTCTTCTTTCTT
1 -TTTTCTTTTTTCTTTCTTTCTTCTTTCTT
*
63382058 CTTTCTTTCTTTCTTTC-TTCTTC
1 TTTTCTTT-TTTCTTTCTTTCTTC
63382081 CCTTTTTCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.22
29 23 0.50
30 13 0.28
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTTCTTTTTTCTTTCTTTCTTCTTTCTT
Found at i:63382055 original size:21 final size:19
Alignment explanation
Indices: 63382002--63382079 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
63381992 ATTTTTCCTT
*
63382002 TTCTTT-TTTTTTCTCTTTC
1 TTCTTTCTTTCTT-TCTTTC
* *
63382021 -TCTTT-TTTATTTTCTTTT
1 TTCTTTCTTT-CTTTCTTTC
63382039 TTCTTTC-TTC-TTCTTTC
1 TTCTTTCTTTCTTTCTTTC
63382056 TTCTTTCTTTCTTTCTTTC
1 TTCTTTCTTTCTTTCTTTC
63382075 TTCTT
1 TTCTT
63382080 CCCTTTTTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
17 13 0.25
18 16 0.31
19 22 0.43
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (19 bp):
TTCTTTCTTTCTTTCTTTC
Found at i:63382061 original size:42 final size:41
Alignment explanation
Indices: 63381982--63382098 Score: 105
Period size: 41 Copynumber: 2.9 Consensus size: 41
63381972 TGTTAATTAA
* *
63381982 TTTTTTATTTATTTTTCCTTTTCTTTTTTTTTCTCTTTCTC
1 TTTTTTATTTATTTTTCCTTTTCTTCTTCTTTCTCTTTCTC
* *
63382023 TTTTTTATTTTCTTTTTTC-TTTCTTCTTCTTTCTTCTTTCT-
1 TTTTTTA-TTTATTTTTCCTTTTCTTCTTCTTTC-TCTTTCTC
* * * * * *
63382064 TTCTTTCTTTCTTCTTCCCTTT-TTCTTCCTTCTCT
1 TTTTTTATTTATTTTTCCTTTTCTTCTTCTTTCTCT
63382099 GTTCAGCAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.05
40 18 0.28
41 27 0.42
42 16 0.25
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (41 bp):
TTTTTTATTTATTTTTCCTTTTCTTCTTCTTTCTCTTTCTC
Found at i:63382080 original size:3 final size:4
Alignment explanation
Indices: 63382031--63382076 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
63382021 TCTTTTTTAT
63382031 TTTC TTT- TTTC TTTC -TTC -TTC TTTC -TTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
63382075 TT
1 TT
63382077 CTTCCCTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 12 0.31
4 27 0.69
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:63382096 original size:29 final size:29
Alignment explanation
Indices: 63382038--63382096 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
63382028 TATTTTCTTT
*
63382038 TTTCTTTCTTCTTCTTTCTTCTTTCTTTC
1 TTTCTTTCTTCTTCTTTCTTCTTTCCTTC
63382067 TTTCTTTCTTCTTCCCTTT-TTC-TTCCTTC
1 TTTCTTTCTTCTT--CTTTCTTCTTTCCTTC
63382096 T
1 T
63382097 CTGTTCAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 20 0.74
30 3 0.11
31 4 0.15
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTCTTTCTTCTTCTTTCTTCTTTCCTTC
Found at i:63382266 original size:24 final size:25
Alignment explanation
Indices: 63382219--63382266 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
63382209 TACTCTTTTC
*
63382219 TTTTTTTCCTCTTTTGCTTGCTTGT
1 TTTTTTTCCTCTTTTGCCTGCTTGT
* *
63382244 TTTTTTTCTTTTTTTGCCT-CTTG
1 TTTTTTTCCTCTTTTGCCTGCTTG
63382267 GTTGTTTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.00, C:0.19, G:0.10, T:0.71
Consensus pattern (25 bp):
TTTTTTTCCTCTTTTGCCTGCTTGT
Found at i:63382616 original size:30 final size:30
Alignment explanation
Indices: 63382581--63382726 Score: 136
Period size: 30 Copynumber: 4.9 Consensus size: 30
63382571 AAACGTAGTA
**
63382581 AAAGTTTTAGGGCCAAAACATAATTTTGAG
1 AAAGTTTTAGGGCCAAAATGTAATTTTGAG
* * *
63382611 AAAG-TTCAGGGGTCAAAATGTAATTTAGA-
1 AAAGTTTTA-GGGCCAAAATGTAATTTTGAG
* *
63382640 AAAGTTTAAGGGTCAAAATGTAATTTTGAG
1 AAAGTTTTAGGGCCAAAATGTAATTTTGAG
* *
63382670 AAAGTTTATAGGTCAAAAATGTAATTTT-AG
1 AAAGTTT-TAGGGCCAAAATGTAATTTTGAG
* * *
63382700 AAAATTTTAGGGGTCAAAATGCAATTT
1 AAAGTTTTA-GGGCCAAAATGTAATTT
63382727 ATTTTAAACA
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
29 28 0.29
30 51 0.54
31 16 0.17
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (30 bp):
AAAGTTTTAGGGCCAAAATGTAATTTTGAG
Found at i:63382644 original size:29 final size:30
Alignment explanation
Indices: 63382601--63382727 Score: 150
Period size: 29 Copynumber: 4.2 Consensus size: 30
63382591 GGCCAAAACA
* *
63382601 TAATTTTGAGAAAGTTCAGGGGTCAAAATG
1 TAATTTAGAGAAAGTTTAGGGGTCAAAATG
*
63382631 TAATTTAGA-AAAGTTTAAGGGTCAAAATG
1 TAATTTAGAGAAAGTTTAGGGGTCAAAATG
* **
63382660 TAATTTTGAGAAAGTTTATAGGTCAAAAATG
1 TAATTTAGAGAAAGTTTAGGGGTC-AAAATG
*
63382691 TAATTTTAGA-AAATTTTAGGGGTCAAAATG
1 TAA-TTTAGAGAAAGTTTAGGGGTCAAAATG
*
63382721 CAATTTA
1 TAATTTA
63382728 TTTTAAACAC
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
29 30 0.36
30 28 0.34
31 20 0.24
32 5 0.06
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (30 bp):
TAATTTAGAGAAAGTTTAGGGGTCAAAATG
Found at i:63382657 original size:59 final size:61
Alignment explanation
Indices: 63382580--63382718 Score: 183
Period size: 59 Copynumber: 2.3 Consensus size: 61
63382570 TAAACGTAGT
* * *
63382580 AAAAGTTTTAGGGCCAAAACATAATTTTGAGAAAGTTCAGGGGTC-AAAATGTAA-TTTAG
1 AAAAGTTTAAGGGTCAAAACATAATTTTGAGAAAGTTCAGAGGTCAAAAATGTAATTTTAG
** * *
63382639 AAAAGTTTAAGGGTCAAAATGTAATTTTGAGAAAGTTTATAGGTCAAAAATGTAATTTTAG
1 AAAAGTTTAAGGGTCAAAACATAATTTTGAGAAAGTTCAGAGGTCAAAAATGTAATTTTAG
* *
63382700 AAAATTTTAGGGGTCAAAA
1 AAAAGTTTAAGGGTCAAAA
63382719 TGCAATTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 38 0.55
60 9 0.13
61 22 0.32
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (61 bp):
AAAAGTTTAAGGGTCAAAACATAATTTTGAGAAAGTTCAGAGGTCAAAAATGTAATTTTAG
Found at i:63382715 original size:31 final size:30
Alignment explanation
Indices: 63382601--63382726 Score: 150
Period size: 30 Copynumber: 4.2 Consensus size: 30
63382591 GGCCAAAACA
*
63382601 TAATTTT-GAGAAAGTTCAGGGGTCAAAATG
1 TAATTTTAGA-AAAGTTTAGGGGTCAAAATG
*
63382631 TAA-TTTAGAAAAGTTTAAGGGTCAAAATG
1 TAATTTTAGAAAAGTTTAGGGGTCAAAATG
**
63382660 TAATTTT-GAGAAAGTTTATAGGTCAAAAATG
1 TAATTTTAGA-AAAGTTTAGGGGTC-AAAATG
*
63382691 TAATTTTAGAAAATTTTAGGGGTCAAAATG
1 TAATTTTAGAAAAGTTTAGGGGTCAAAATG
*
63382721 CAATTT
1 TAATTT
63382727 ATTTTAAACA
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
29 26 0.31
30 31 0.37
31 24 0.29
32 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (30 bp):
TAATTTTAGAAAAGTTTAGGGGTCAAAATG
Found at i:63383400 original size:92 final size:88
Alignment explanation
Indices: 63383244--63383413 Score: 277
Period size: 92 Copynumber: 1.9 Consensus size: 88
63383234 TATGAGTTGA
*
63383244 TTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTGTGCCCGGGGCTCAACTCACCTCTAGCAAT
1 TTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTAGCAAT
*
63383309 ATGAGTTGATTTTGATTTTTGTT
66 ATGAGTCGATTTTGATTTTTGTT
*
63383332 TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAACAGAAA-TT--AA-AAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTAG
63383397 CAATATGAGTCGATTTT
62 CAATATGAGTCGATTTT
63383414 TGAAAAACAG
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
88 17 0.23
89 2 0.03
91 2 0.03
92 54 0.72
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (88 bp):
TTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTCGATTTTGATTTTTGTT
Found at i:63383431 original size:92 final size:87
Alignment explanation
Indices: 63383247--63383434 Score: 207
Period size: 92 Copynumber: 2.1 Consensus size: 87
63383237 GAGTTGATTT
*
63383247 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGTGCCCGGGGCTCAACTCACCTCTAGCAATATG
1 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTAGCAATATG
* ***** ***
63383312 AGTTGATTTTGATTTTTGTTTTT
66 AGTCGATTTTGAAAACAG-TAAA
*
63383335 TTGAAAAACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAA
1 TTGAAAAACAGAAA-TT--AA-AAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTAGCAA
63383400 TATGAGTCGATTTTTGAAAAACAG-AAA
62 TATGAGTCGA-TTTTG-AAAACAGTAAA
63383427 TTGAAAAA
1 TTGAAAAA
63383435 TACCTCAGCG
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
88 14 0.17
89 2 0.02
91 2 0.02
92 58 0.70
93 5 0.06
94 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (87 bp):
TTGAAAAACAGAAATTAAAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTAGCAATATG
AGTCGATTTTGAAAACAGTAAA
Found at i:63383459 original size:166 final size:156
Alignment explanation
Indices: 63382907--63384150 Score: 1132
Period size: 157 Copynumber: 7.8 Consensus size: 156
63382897 GCGACTCAAA
* * *
63382907 GCTCAACTCACCTCTTG-AATTATGAGTTGATTTTTTGGAAAACAGAAATTGAAAAGAATACCTC
1 GCTCAACTCACCTCTCGCAA-TATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAAAAATACCTC
* * * *
63382971 GACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA-GTTGA--TTTTTAAAAAACAAAAA
63 GGC--GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGGTTGATTTTTTTGAAAAACAGAAA
* * *
63383033 TTT---A-AAATACCTCAGCTTGCGACCCGAG
126 TTTAAAAGAAATACCTCGGCATGTG-CCCGAG
* * * *
63383061 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACGGAAATT--TAAAATACTTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTC-G-
* * * * * *
63383124 GTGTGACCCGAGGCTCAACACACTTCTAGCAATAT-AAGTTGA--TTTTTGACAAACAGAATTTT
64 GCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGGTTGATTTTTTTGAAAAACAGAAATTT
* ** *
63383186 CAGGGAAATACCTCAGCATGTGACCCGAG
129 AAAAGAAATACCTCGGCATGTG-CCCGAG
63383215 GCTCAACTCACC-CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAATACCTCGGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTCGGC
* *
63383277 GTGTGCCCGGGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGATTTTTGTTTTTTTGAAAA
66 GTG-ACCCGAGGCTCAACTCACCTCTAGCAATATGAG--G---TTGA------TTTTTTTGAAAA
*
63383342 ACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAG
119 ACAGAAATTTAAAAGAAATACCTCGGCATGTGCCCGAG
* * *
63383380 GCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATT-GAAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTCGGC
* * * *
63383444 GTGACTCGAGGCTCAACTCACCTCTCGCAATATGA-GTTGATTTTTTTAAAAAACAGAAA-TT-G
66 GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGGTTGATTTTTTTGAAAAACAGAAATTTAA
* *
63383506 AA-AAATACCTCGGCGTGTGCCCGAT
131 AAGAAATACCTCGGCATGTGCCCGAG
*
63383531 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTGGAAAAATAGAAATTTAA
1 GCTCAACTCACCTCTCGCAATATGA---G---TTGA------TTTTT-GAAAAACAGAAA-TTAA
* *
63383596 AAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGA-GTTGATTTTTTTG
52 AA-AAATACCTCGGCGTG-ACCCGAGGCTCAACTCACCTCTAGCAATATGAGGTTGATTTTTTTG
* ***
63383660 AAAAACAAAAATTTAAAAGAAATACCTCGGCATGTGTTTGAG
115 AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGCCCGAG
* *
63383702 GCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAAACAGAAATTAAAAAAATACGTCGGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTCGGC
* * * * *
63383767 GTGCGACCCGAGACTCAACTCACCTC-ACGTAATATG-CGCTGATTTTTTTGAAAAACAAAAATT
66 GT--GACCCGAGGCTCAACTCACCTCTA-GCAATATGAGGTTGATTTTTTTGAAAAACAGAAATT
*
63383830 TAAAAGAAATACCTCGGCATGTGTCCGAG
128 TAAAAGAAATACCTCGGCATGTGCCCGAG
*
63383859 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAAAAATACCTCGG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAAAATACCTCGG
* * * * *
63383924 CGTGCGACCTGAGACTCAACTCACATC-ACGTAATATGA-GCTGA--TTTTTGAAAAACAGAAAT
65 CGT--GACCCGAGGCTCAACTCACCTCTA-GCAATATGAGGTTGATTTTTTTGAAAAACAGAAAT
* * **
63383985 TT---A-AAATACCTCAGCGTACGACCCGAG
127 TTAAAAGAAATACCTCGGCATGTG-CCCGAG
** ** * *
63384012 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAGTAAAAATTGAAAAGAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAAAATACCTC
* * * *
63384077 GGCATGCGACCCGAGGCTCAACTCACCTCTTGCACTATGAGTTGATTGATTTTTTT-TAAAACAG
63 GGC--GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAG--G-TTGATTTTTTTGAAAAACAG
*
63384141 AAATTGAAAA
123 AAATTTAAAA
63384151 ATATTTCTTG
Statistics
Matches: 928, Mismatches: 96, Indels: 123
0.81 0.08 0.11
Matches are distributed among these distances:
149 1 0.00
150 59 0.06
151 52 0.06
152 42 0.05
153 99 0.11
154 78 0.08
155 59 0.06
156 32 0.03
157 135 0.15
158 71 0.08
159 7 0.01
160 16 0.02
161 5 0.01
163 7 0.01
164 11 0.01
165 24 0.03
166 100 0.11
167 30 0.03
168 53 0.06
169 2 0.00
170 2 0.00
171 43 0.05
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (156 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTCGGC
GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGGTTGATTTTTTTGAAAAACAGAAATTTAA
AAGAAATACCTCGGCATGTGCCCGAG
Found at i:63383637 original size:91 final size:86
Alignment explanation
Indices: 63383244--63384150 Score: 647
Period size: 80 Copynumber: 11.3 Consensus size: 86
63383234 TATGAGTTGA
* * *
63383244 TTTTTGAAAAACAGAAA-TT--AA-AAATACCTCGGCGTGTGCCCGGGGCTCAACTCACCTCTAG
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
63383305 CAATATGAGTTGATTTTGATTTTTGTT
66 CAATATGAGTTGATTTTGA------TT
*
63383332 TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
*
63383397 CAATATGA---G---TCGA--
66 CAATATGAGTTGATTTTGATT
* * * * *
63383410 TTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCGTG-ACTCGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
63383471 CAATATGA---G---TTGATT
66 CAATATGAGTTGATTTTGATT
* * * *
63383486 TTTTTAAAAAACAGAAA-TT-GAA-AAATACCTCGGCGTGTGCCCGATGCTCAACTCACCTCTCG
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
63383548 CAATATGAGTTGATTTTGATTTTT
66 CAATATGAGTTGATTTTGA---TT
* *
63383572 GTTTTTGGAAAAATAGAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCT
1 -TTTTT-GAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCT
63383637 CGCAATATGA---G---TTGATT
64 CGCAATATGAGTTGATTTTGATT
* ***
63383654 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCATGTGTTTGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
63383719 CAATATGAGTTGA---T-A--
66 CAATATGAGTTGATTTTGATT
* * * * *
63383734 --TTTGAAAAACAGAAA-TTAAAA-AAATACGTCGGCGTGCGACCCGAGACTCAACTCACCTCAC
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTG-CCCGAGGCTCAACTCACCTCTC
* * *
63383795 GTAATAT--G-CG---CTGATT
65 GCAATATGAGTTGATTTTGATT
* *
63383811 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
63383876 CAATATGA---G---TTGA--
66 CAATATGAGTTGATTTTGATT
* * * * * * * *
63383889 TTTTTGAAAAATAGAAA-TTAAAAAAAATACCTCGGCGTGCGACCTGAGACTCAACTCACATCAC
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTG-CCCGAGGCTCAACTCACCTCTC
* *
63383953 GTAATATGA---G---CTGA--
65 GCAATATGAGTTGATTTTGATT
* * **
63383967 TTTTTGAAAAACAGAAATTT---A-AAATACCTCAGCGTACGACCCGAGGCTCAACTCACCTCTC
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTG-CCCGAGGCTCAACTCACCTCTC
63384028 GCAATATGAGTTGA--TT--TT
65 GCAATATGAGTTGATTTTGATT
** * * * *
63384046 TTTTT--AAAGTAAAAATTGAAAAG-AATACCTCGGCATGCGACCCGAGGCTCAACTCACCTCTT
1 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTG-CCCGAGGCTCAACTCACCTCTC
*
63384108 GCACTATGAGTTGA--TTGATT
65 GCAATATGAGTTGATTTTGATT
* * *
63384128 TTTTT-TAAAACAGAAATTGAAAA
1 TTTTTGAAAAACAAAAATTTAAAA
63384151 ATATTTCTTG
Statistics
Matches: 692, Mismatches: 76, Indels: 107
0.79 0.09 0.12
Matches are distributed among these distances:
74 36 0.05
75 58 0.08
76 52 0.08
77 90 0.13
78 92 0.13
79 22 0.03
80 149 0.22
81 19 0.03
82 10 0.01
83 20 0.03
85 4 0.01
86 5 0.01
87 5 0.01
88 28 0.04
89 5 0.01
90 2 0.00
91 49 0.07
92 46 0.07
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (86 bp):
TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCGTGTGCCCGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTGATT
Found at i:63383706 original size:80 final size:81
Alignment explanation
Indices: 63382907--63384150 Score: 1183
Period size: 75 Copynumber: 15.7 Consensus size: 81
63382897 GCGACTCAAA
* * *
63382907 GCTCAACTCACCTCTTG-AATTATGAGTTGA-TTTTTTGGAAAACAGAAATTGAAAAG-AATACC
1 GCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACC
* *
63382969 TCGACATGTGACCCGAG
65 TCGGCGTGTGACCCGAG
* *
63382986 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTAAAAAACAAAAATTT---A-AAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* * *
63383045 CAGCTTGCGACCCGAG
66 CGGCGTGTGACCCGAG
* * *
63383061 GCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAAACGGAAATTT---A-AAATACTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
*
63383120 CAGCGTGTGACCCGAG
66 CGGCGTGTGACCCGAG
* * * * * * * **
63383136 GCTCAACACACTTCTAGCAATATAAGTTGA--TTTTTGACAAACAGAATTTTCAGGGAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* *
63383199 CAGCATGTGACCCGAG
66 CGGCGTGTGACCCGAG
63383215 GCTCAACTCACC-CTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAA-TT--AA-AAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
*
63383273 CGGCGTGTG-CCCGGG
66 CGGCGTGTGACCCGAG
*
63383288 GCTCAACTCACCTCTAGCAATATGAGTTGATTTTGATTTTTGTTTTTTTGAAAAACAGAAATTTA
1 GCTCAACTCACCTCTCGCAATATGA---G---TTGA------TTTTTTTGAAAAACAGAAATTTA
63383353 AAAGAAATACCTCGGCGTGTG-CCCGAG
54 AAAGAAATACCTCGGCGTGTGACCCGAG
* *
63383380 GCTCAACTCACCTCTCGCAATATGAGTCGA--TTTTTGAAAAACAGAAA-TT-GAA-AAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* *
63383440 CAGC--GTGACTCGAG
66 CGGCGTGTGACCCGAG
* *
63383454 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAA-TT-GAA-AAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
*
63383516 CGGCGTGTG-CCCGAT
66 CGGCGTGTGACCCGAG
*
63383531 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATTTTTGTTTTTGGAAAAATAGAAATTTAA
1 GCTCAACTCACCTCTCGCAATATGA---G---TTGA---TT-TTTTT-GAAAAACAGAAATTTAA
63383596 AAGAAATACCTCGGCGTGTG-CCCGAG
55 AAGAAATACCTCGGCGTGTGACCCGAG
*
63383622 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTTAAAAGAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* ***
63383687 CGGCATGTG-TTTGAG
66 CGGCGTGTGACCCGAG
* *
63383702 GCTCAACTCACCTCTCGCAATATGAGTTGA--TATTTGAAAAACAGAAA-TTAAAA-AAATACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
*
63383763 CGGCGTGCGACCCGAG
66 CGGCGTGTGACCCGAG
* * * * * *
63383779 ACTCAACTCACCTCACGTAATATGCGCTGATTTTTTTGAAAAACAAAAATTTAAAAGAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* *
63383844 CGGCATGTG-TCCGAG
66 CGGCGTGTGACCCGAG
* *
63383859 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATAGAAA-TTAAAAAAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* *
63383921 CGGCGTGCGACCTGAG
66 CGGCGTGTGACCCGAG
* * * * *
63383937 ACTCAACTCACATCACGTAATATGAGCTGA--TTTTTGAAAAACAGAAATTT---A-AAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* **
63383996 CAGCGTACGACCCGAG
66 CGGCGTGTGACCCGAG
** ** * *
63384012 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAGTAAAAATTGAAAAG-AATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* *
63384076 CGGCATGCGACCCGAG
66 CGGCGTGTGACCCGAG
* * ** *
63384092 GCTCAACTCACCTCTTGCACTATGAGTTGATTGATTTTTTTTAAAACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-T--TTTTTTGAAAAACAGAAATTTAAAA
63384151 ATATTTCTTG
Statistics
Matches: 986, Mismatches: 119, Indels: 116
0.81 0.10 0.10
Matches are distributed among these distances:
73 20 0.02
74 60 0.06
75 187 0.19
76 49 0.05
77 103 0.10
78 141 0.14
79 75 0.08
80 159 0.16
81 20 0.02
82 2 0.00
83 26 0.03
85 4 0.00
86 5 0.01
87 5 0.01
88 28 0.03
89 5 0.01
90 2 0.00
91 49 0.05
92 46 0.05
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (81 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCT
CGGCGTGTGACCCGAG
Found at i:63385024 original size:20 final size:19
Alignment explanation
Indices: 63385001--63385053 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
63384991 TTCATCTTGA
*
63385001 TTTTTCTTTTTTTTCTTTTT
1 TTTTTGTTTTTTTT-TTTTT
63385021 TTTTTGTTTTTTGTTTTTTT
1 TTTTTGTTTTTT-TTTTTTT
*
63385041 GTTTTGTTTTTTT
1 TTTTTGTTTTTTT
63385054 AGGCATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 27 0.90
21 2 0.07
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.89
Consensus pattern (19 bp):
TTTTTGTTTTTTTTTTTTT
Found at i:63385068 original size:1 final size:1
Alignment explanation
Indices: 63385001--63385053 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
63384991 TTCATCTTGA
* * * * * *
63385001 TTTTTCTTTTTTTTCTTTTTTTTTTGTTTTTTGTTTTTTTGTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
63385054 AGGCATAATA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:63391114 original size:17 final size:17
Alignment explanation
Indices: 63391092--63391311 Score: 130
Period size: 17 Copynumber: 12.8 Consensus size: 17
63391082 GAGAACCTTT
63391092 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
*
63391109 TTTTT-AAACAC-AAAA
1 TTTTTAAAACACGAGAA
* * *
63391124 ATTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAGAA
* * *
63391142 TTTTTAAAACGCGACATTTT
1 TTTTTAAAACACGAGA---A
* *
63391162 TTTTTGAAACACGAGGA
1 TTTTTAAAACACGAGAA
* *
63391179 TTCTTAAAACA-GGGAA
1 TTTTTAAAACACGAGAA
* * *
63391195 ATTTTAGAAACACAAAAA
1 TTTTTA-AAACACGAGAA
63391213 TTTTTAAAACAC-A-ACA
1 TTTTTAAAACACGAGA-A
*
63391229 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
*
63391246 TTTTTAAAACA-GGGAA
1 TTTTTAAAACACGAGAA
*
63391262 ATTTTAGAAACACGA-AA
1 TTTTTA-AAACACGAGAA
* *
63391279 ATTTTAAAACACGACATA
1 TTTTTAAAACACGAGA-A
*
63391297 TTTTTTGAAACACGA
1 -TTTTTAAAACACGA
63391312 TTTTTTGTTT
Statistics
Matches: 157, Mismatches: 30, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
15 8 0.05
16 43 0.27
17 63 0.40
18 19 0.12
19 12 0.08
20 12 0.08
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.30
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:63391135 original size:33 final size:33
Alignment explanation
Indices: 63391093--63391289 Score: 166
Period size: 33 Copynumber: 5.8 Consensus size: 33
63391083 AGAACCTTTT
*
63391093 TTTTA-AAACACGAGAATTTTTAAACACA-AAAA
1 TTTTAGAAACACGAAAATTTTTAAA-ACAGAAAA
* * **
63391125 TTTTAGAAACATGAAAATTTTTAAAACGCGACATTTT
1 TTTTAGAAACACGAAAATTTTTAAAAC-AGA-A--AA
* ** * *
63391162 TTTTTGAAACACGAGGATTCTTAAAACAGGGAAA
1 TTTTAGAAACACGAAAATTTTTAAAACA-GAAAA
* * *
63391196 TTTTAGAAACACAAAAATTTTTAAAACACAACA
1 TTTTAGAAACACGAAAATTTTTAAAACAGAAAA
* * *
63391229 TTTTTGAAACACGAGAATTTTTAAAACAGGGAAA
1 TTTTAGAAACACGAAAATTTTTAAAACA-GAAAA
63391263 TTTTAGAAACACGAAAA-TTTTAAAACA
1 TTTTAGAAACACGAAAATTTTTAAAACA
63391290 CGACATATTT
Statistics
Matches: 127, Mismatches: 30, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
32 7 0.06
33 54 0.43
34 41 0.32
35 1 0.01
36 1 0.01
37 23 0.18
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (33 bp):
TTTTAGAAACACGAAAATTTTTAAAACAGAAAA
Found at i:63391317 original size:67 final size:68
Alignment explanation
Indices: 63391091--63391317 Score: 259
Period size: 67 Copynumber: 3.3 Consensus size: 68
63391081 CGAGAACCTT
* * * *
63391091 TTTTTTAAAACACGAGAATTTTTAAACACA--AAAATTTTAGAAACATGAAAATTTTTAAAACGC
1 TTTTTTGAAACAC--GAATTTTTAAA-ACAGGGAAATTTTAGAAACACGAAAATTTTTAAAACAC
*
63391154 GACATTT
63 GACA-TA
* *
63391161 TTTTTTGAAACACGAGGATTCTTAAAACAGGGAAATTTTAGAAACACAAAAATTTTTAAAACAC-
1 TTTTTTGAAACACGA--ATTTTTAAAACAGGGAAATTTTAGAAACACGAAAATTTTTAAAACACG
*
63391225 A-ACA
64 ACATA
63391229 -TTTTTGAAACACGAGAATTTTTAAAACAGGGAAATTTTAGAAACACGAAAA-TTTTAAAACACG
1 TTTTTTGAAACAC--GAATTTTTAAAACAGGGAAATTTTAGAAACACGAAAATTTTTAAAACACG
63391292 ACATA
64 ACATA
*
63391297 TTTTTTGAAACACGATTTTTT
1 TTTTTTGAAACACGAATTTTT
63391318 GTTTTTTCAA
Statistics
Matches: 136, Mismatches: 12, Indels: 21
0.80 0.07 0.12
Matches are distributed among these distances:
66 11 0.08
67 53 0.39
68 4 0.03
69 18 0.13
70 21 0.15
71 29 0.21
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (68 bp):
TTTTTTGAAACACGAATTTTTAAAACAGGGAAATTTTAGAAACACGAAAATTTTTAAAACACGAC
ATA
Found at i:63391440 original size:17 final size:17
Alignment explanation
Indices: 63391406--63391460 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 17
63391396 AAGTGAAAAT
63391406 TTTTTGAAATACGA-GAAA
1 TTTTTGAAA-AC-ACGAAA
63391424 TTTTTGAAAACACGAAA
1 TTTTTGAAAACACGAAA
* *
63391441 -ATTTG-AAACACGAGA
1 TTTTTGAAAACACGAAA
63391456 TTTTT
1 TTTTT
63391461 TTTTTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 9 0.28
16 8 0.25
17 6 0.19
18 9 0.28
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:63391442 original size:18 final size:17
Alignment explanation
Indices: 63391400--63391453 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
63391390 GGCAAAAAGT
*
63391400 GAAAATTTTTTGAAATAC
1 GAAAA-TTTTTGAAACAC
63391418 GAGAAATTTTTGAAAACAC
1 GA-AAATTTTTG-AAACAC
63391437 GAAAA--TTTGAAACAC
1 GAAAATTTTTGAAACAC
63391452 GA
1 GA
63391454 GATTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
18 11 0.33
19 10 0.30
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (17 bp):
GAAAATTTTTGAAACAC
Found at i:63391480 original size:20 final size:20
Alignment explanation
Indices: 63391442--63391491 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
63391432 AACACGAAAA
63391442 TTTGAAACACGAGATTTTTTT
1 TTTGAAA-ACGAGATTTTTTT
63391463 TTTGAAAACGCA-ATTTTTTT
1 TTTGAAAACG-AGATTTTTTT
*
63391483 TTTAAAAAC
1 TTTGAAAAC
63391492 ATGAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTGAAAACGAGATTTTTTT
Found at i:63391509 original size:18 final size:18
Alignment explanation
Indices: 63391488--63391574 Score: 65
Period size: 18 Copynumber: 4.9 Consensus size: 18
63391478 TTTTTTTTAA
*
63391488 AAACATGAAAATTTTTTG
1 AAACACGAAAATTTTTTG
*
63391506 AAACACG---ATTTTTTT
1 AAACACGAAAATTTTTTG
**
63391521 AAACACGCGAATTTTTTG
1 AAACACGAAAATTTTTTG
* * *
63391539 AAAACATGAAGA-TTTGTG
1 -AAACACGAAAATTTTTTG
63391557 AAACACGAGAAATTTTTT
1 AAACACGA-AAATTTTTT
63391575 TTAAAAAAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
15 14 0.27
17 7 0.13
18 20 0.38
19 11 0.21
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (18 bp):
AAACACGAAAATTTTTTG
Found at i:63391518 original size:15 final size:17
Alignment explanation
Indices: 63391497--63391541 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
63391487 AAAACATGAA
63391497 AATTTTTTGAAACA-CG
1 AATTTTTTGAAACACCG
*
63391513 -ATTTTTTTAAACACGCG
1 AATTTTTTGAAACAC-CG
63391530 AATTTTTTGAAA
1 AATTTTTTGAAA
63391542 ACATGAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 12 0.50
17 2 0.08
18 10 0.42
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (17 bp):
AATTTTTTGAAACACCG
Found at i:63391535 original size:17 final size:16
Alignment explanation
Indices: 63391497--63391564 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 16
63391487 AAAACATGAA
63391497 AATTTTTTGAAACACG
1 AATTTTTTGAAACACG
*
63391513 -ATTTTTTTAAACACGCG
1 AATTTTTTGAAACA--CG
*
63391530 AATTTTTTGAAAACATG
1 AATTTTTTG-AAACACG
* *
63391547 AAGATTTGTGAAACACG
1 AA-TTTTTTGAAACACG
63391564 A
1 A
63391565 GAAATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 12 0.29
17 12 0.29
18 12 0.29
19 5 0.12
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (16 bp):
AATTTTTTGAAACACG
Found at i:63391746 original size:17 final size:18
Alignment explanation
Indices: 63391614--63391816 Score: 123
Period size: 18 Copynumber: 11.2 Consensus size: 18
63391604 AATTTTCTAT
*
63391614 AAAACACGAAAAATTTTG
1 AAAACACGAAAATTTTTG
* *
63391632 AAAGCACG-TAATTTTT-
1 AAAACACGAAAATTTTTG
** *
63391648 AAAATGCGAGAA-TTTTG
1 AAAACACGAAAATTTTTG
* *
63391665 GAAACACGAAAATTTATCTAAA
1 AAAACACGAAAATTT-T-T--G
*
63391687 AAAACACGAAAGTTTTTG
1 AAAACACGAAAATTTTTG
* *
63391705 AAATGCGA-GAAATTTTTTTG
1 AAA-AC-ACGAAA-ATTTTTG
*
63391725 AAAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
**
63391743 -AAACACGGGAA-TTTTG
1 AAAACACGAAAATTTTTG
* *
63391759 AAAACACGAGAATTTTTT
1 AAAACACGAAAATTTTTG
*
63391777 AGAAACACGAAAATTTCTG
1 A-AAACACGAAAATTTTTG
63391796 AAAAC-CTGAAAATTTTTG
1 AAAACAC-GAAAATTTTTG
63391814 AAA
1 AAA
63391817 TGCGATTTTT
Statistics
Matches: 142, Mismatches: 28, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
16 14 0.10
17 35 0.25
18 41 0.29
19 26 0.18
20 12 0.08
21 1 0.01
22 13 0.09
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:63391782 original size:19 final size:18
Alignment explanation
Indices: 63391688--63391792 Score: 74
Period size: 17 Copynumber: 5.8 Consensus size: 18
63391678 TTATCTAAAA
*
63391688 AAACACGA-AAGTTTTTG
1 AAACACGAGAATTTTTTG
**
63391705 AAATGCGAGAAATTTTTTTG
1 AAACACGAG-AA-TTTTTTG
* *
63391725 AAAACATGA-AAATTTTTG
1 -AAACACGAGAATTTTTTG
*
63391743 AAACACGGGAA--TTTTG
1 AAACACGAGAATTTTTTG
63391759 AAAACACGAGAATTTTTTAG
1 -AAACACGAGAATTTTTT-G
*
63391779 AAACACGAAAATTT
1 AAACACGAGAATTT
63391793 CTGAAAACCT
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
16 5 0.07
17 22 0.32
18 8 0.12
19 21 0.31
20 7 0.10
21 5 0.07
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (18 bp):
AAACACGAGAATTTTTTG
Found at i:63391792 original size:36 final size:34
Alignment explanation
Indices: 63391614--63391816 Score: 131
Period size: 34 Copynumber: 5.6 Consensus size: 34
63391604 AATTTTCTAT
* * *
63391614 AAAACACGAAAAATTTTGAAAGCACG-TAATTTTT
1 AAAACACGAAAATTTTTGAAA-CACGAAAATTTTG
** * * *
63391648 AAAATGCGAGAATTTTGGAAACACGAAAATTTATCTAAA
1 AAAACACGAAAATTTTTGAAACACGAAAA-TT-T-T--G
* **
63391687 AAAACACGAAAGTTTTTGAAATGCGAGAAATTTTTTTG
1 AAAACACGAAAATTTTTGAAACACGA-AAA---TTTTG
* **
63391725 AAAACATGAAAATTTTTGAAACACGGGAATTTTG
1 AAAACACGAAAATTTTTGAAACACGAAAATTTTG
*
63391759 AAAACACGAGAATTTTTTAGAAACACGAAAATTTCTG
1 AAAACACGA-AAATTTTT-GAAACACGAAAATTT-TG
63391796 AAAAC-CTGAAAATTTTTGAAA
1 AAAACAC-GAAAATTTTTGAAA
63391817 TGCGATTTTT
Statistics
Matches: 130, Mismatches: 26, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
33 4 0.03
34 31 0.24
35 13 0.10
36 22 0.17
37 12 0.09
38 21 0.16
39 19 0.15
40 4 0.03
41 1 0.01
42 3 0.02
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (34 bp):
AAAACACGAAAATTTTTGAAACACGAAAATTTTG
Found at i:63391869 original size:71 final size:70
Alignment explanation
Indices: 63391722--63391870 Score: 162
Period size: 71 Copynumber: 2.1 Consensus size: 70
63391712 AGAAATTTTT
*
63391722 TTGAAAACATGAAAATTTTTGAAACACGGGAATTTTGAAAACACGAGAATTTTTTAGAAACACGA
1 TTGAAAACATGAAAATTTTTGAAACACGCGAATTTTGAAAACACGAGAATTTTTTAGAAACACGA
*
63391787 AAATT
66 AAATC
* * * *
63391792 TCTGAAAACCTGAAAATTTTTG-AA-ATGCGATTTTTTTAAAACAC-AGGAATTTCCTTT-GAAA
1 T-TGAAAACATGAAAATTTTTGAAACACGCGA-ATTTTGAAAACACGA-GAATTT--TTTAGAAA
63391853 CACGAAAACTC
61 CACGAAAA-TC
63391864 TTGAAAA
1 TTGAAAA
63391871 TGCGAAGAGT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
69 5 0.07
70 20 0.30
71 37 0.55
72 5 0.07
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (70 bp):
TTGAAAACATGAAAATTTTTGAAACACGCGAATTTTGAAAACACGAGAATTTTTTAGAAACACGA
AAATC
Found at i:63392588 original size:14 final size:14
Alignment explanation
Indices: 63392571--63392623 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
63392561 CTTTTTTATT
63392571 TCTTTCTTTTTCTC
1 TCTTTCTTTTTCTC
*
63392585 TCTTT-TTCTTTTTC
1 TCTTTCTT-TTTCTC
*
63392599 -CTTTCTTCTTCTC
1 TCTTTCTTTTTCTC
*
63392612 TATTTCTTTTTC
1 TCTTTCTTTTTC
63392624 CTTTTTTCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (14 bp):
TCTTTCTTTTTCTC
Found at i:63392617 original size:25 final size:23
Alignment explanation
Indices: 63392576--63392629 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 23
63392566 TTATTTCTTT
*
63392576 CTTTTTCTCTCTTTTTCTTTTTC
1 CTTTTTCTCTCTATTTCTTTTTC
63392599 CTTTCTTCTTCTCTATTTCTTTTTC
1 CTTT-TTC-TCTCTATTTCTTTTTC
63392624 CTTTTT
1 CTTTTT
63392630 TCGACCTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 4 0.14
24 5 0.18
25 19 0.68
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (23 bp):
CTTTTTCTCTCTATTTCTTTTTC
Found at i:63392631 original size:14 final size:14
Alignment explanation
Indices: 63392573--63392631 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
63392563 TTTTTATTTC
63392573 TTTCTTTTTCTCTCTT
1 TTTCTTTTTC-CT-TT
63392589 TTTCTTTTTCCTTT
1 TTTCTTTTTCCTTT
* * *
63392603 CTTC-TTCT-C-TA
1 TTTCTTTTTCCTTT
63392614 TTTCTTTTTCCTTT
1 TTTCTTTTTCCTTT
63392628 TTTC
1 TTTC
63392632 GACCTTGCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
11 4 0.12
12 4 0.12
13 4 0.12
14 10 0.29
15 2 0.06
16 10 0.29
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCTTTTTCCTTT
Found at i:63392789 original size:21 final size:21
Alignment explanation
Indices: 63392755--63392806 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
63392745 GAAGTTGCTC
63392755 TTTTGTTT--TTTGCTACTCT
1 TTTTGTTTGCTTTGCTACTCT
**
63392774 TTTTGTTTGCTTTGCTTTTCT
1 TTTTGTTTGCTTTGCTACTCT
*
63392795 TTTTGGTTGCTT
1 TTTTGTTTGCTT
63392807 GCGACTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 8 0.29
21 20 0.71
ACGTcount: A:0.02, C:0.13, G:0.15, T:0.69
Consensus pattern (21 bp):
TTTTGTTTGCTTTGCTACTCT
Found at i:63393170 original size:30 final size:29
Alignment explanation
Indices: 63393116--63393291 Score: 140
Period size: 30 Copynumber: 5.9 Consensus size: 29
63393106 TAAACGCAGA
*
63393116 AAAAGTTTTGGGG-CAAAAGTGTAATTTCGAG
1 AAAA-TTTAGGGGTCAAAA-TGTAATTT-GAG
* * *
63393147 AAAATTTAGGGGTTAAAATGTAATTTTAA
1 AAAATTTAGGGGTCAAAATGTAATTTGAG
* *
63393176 AAAATATAGGGGTCAAAATATAATTT-AG
1 AAAATTTAGGGGTCAAAATGTAATTTGAG
** *
63393204 AAAAGTTTAGGGGGTTGAAATATAATTTTGAG
1 AAAA-TTTA-GGGGTCAAAATGTAA-TTTGAG
* * *
63393236 AAATTTTAGGGGTCAAAATGTAATTTTAA
1 AAAATTTAGGGGTCAAAATGTAATTTGAG
* * *
63393265 AAAAGTTTAGAGGTCAAATTGCAATTT
1 AAAA-TTTAGGGGTCAAAATGTAATTT
63393292 TTAATTAAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
28 5 0.04
29 34 0.29
30 59 0.50
31 15 0.13
32 5 0.04
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (29 bp):
AAAATTTAGGGGTCAAAATGTAATTTGAG
Found at i:63394836 original size:3 final size:3
Alignment explanation
Indices: 63394828--63394884 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
63394818 CCCTTTTTTG
* *
63394828 TTA TTA TTA TTA TTA TTA TTA -GA TTAA TTAA TCTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TT-A T-TA TTA TTA TTA TTA
*
63394875 CTA TTA TTA T
1 TTA TTA TTA T
63394885 ATTTTCCCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 1 0.02
3 36 0.80
4 7 0.16
5 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:63402916 original size:3 final size:3
Alignment explanation
Indices: 63402908--63402932 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
63402898 GGATACAATC
63402908 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
63402933 TGTCATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:63404089 original size:11 final size:14
Alignment explanation
Indices: 63404056--63404082 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63404046 TTTACATAGA
63404056 ATTTTTAAATTATG
1 ATTTTTAAATTATG
63404070 ATTTTTAAATTAT
1 ATTTTTAAATTAT
63404083 TTTTAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATTTTTAAATTATG
Found at i:63404166 original size:31 final size:34
Alignment explanation
Indices: 63404106--63404178 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 34
63404096 TAAACCTTTT
*
63404106 TAAAA-TTTTATATAAAAATATAT-ATTAAAAAG
1 TAAAAGTTTTATATAAAAATATATAATAAAAAAG
63404138 TAAAAGTTTTA-A-AAAAAGTA-ATAATAAAAAAG
1 TAAAAGTTTTATATAAAAA-TATATAATAAAAAAG
63404170 TAAAAGTTT
1 TAAAAGTTT
63404179 AAATTTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 7 0.19
32 25 0.68
33 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (34 bp):
TAAAAGTTTTATATAAAAATATATAATAAAAAAG
Found at i:63404290 original size:29 final size:30
Alignment explanation
Indices: 63404192--63404282 Score: 87
Period size: 36 Copynumber: 2.9 Consensus size: 30
63404182 TTTTATATAA
*
63404192 ATAATATTTAAAATTTTAAAAAAATAATTTCAAAT
1 ATAATATTTAAAA-TTT--AAAAA-AATGT-AAAT
* *
63404227 ATATATATTTAAAATTTAAAAAAATTTAAAA
1 ATA-ATATTTAAAATTTAAAAAAATGTAAAT
63404258 ATAATATTT-AAATTT-AAAAAATGTA
1 ATAATATTTAAAATTTAAAAAAATGTA
63404283 TATTATAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
28 9 0.17
29 6 0.11
30 6 0.11
31 6 0.11
32 5 0.09
33 5 0.09
35 6 0.11
36 10 0.19
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (30 bp):
ATAATATTTAAAATTTAAAAAAATGTAAAT
Found at i:63404338 original size:4 final size:4
Alignment explanation
Indices: 63404329--63404354 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
63404319 TAAAATTAAT
63404329 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
63404355 AATAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:63411075 original size:15 final size:15
Alignment explanation
Indices: 63411050--63411082 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
63411040 GGCCCAATTA
63411050 CAACACCCAATA-CC
1 CAACACCCAATAGCC
63411064 CAACAGCCCAATAGCC
1 CAACA-CCCAATAGCC
63411080 CAA
1 CAA
63411083 AATCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.42, C:0.45, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCCAATAGCC
Found at i:63422258 original size:30 final size:29
Alignment explanation
Indices: 63422205--63422266 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
63422195 TGAAATTTCT
** *
63422205 TTTTAACCCCAAACCTTATTAAAATTCACA
1 TTTTAACCCCAAAAATTATTAAAAAT-ACA
63422235 TTTTAACCCCAAAAATT-TCTAAAAATACA
1 TTTTAACCCCAAAAATTAT-TAAAAATACA
63422264 TTT
1 TTT
63422267 CGACCCTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (29 bp):
TTTTAACCCCAAAAATTATTAAAAATACA
Found at i:63422863 original size:14 final size:14
Alignment explanation
Indices: 63422840--63422901 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
63422830 GTACGGCCCG
*
63422840 AAGAAGAAGAAGAA
1 AAGAAAAAGAAGAA
63422854 AAGAAAAAGAA-AA
1 AAGAAAAAGAAGAA
*
63422867 AGGAAAAA-AGAGAA
1 AAGAAAAAGA-AGAA
* *
63422881 AGAAAAAAAGAAAAA
1 A-AGAAAAAGAAGAA
63422896 AAGAAA
1 AAGAAA
63422902 TATTTCACAG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
12 1 0.03
13 10 0.26
14 17 0.45
15 9 0.24
16 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAGAA
Found at i:63422865 original size:6 final size:6
Alignment explanation
Indices: 63422843--63422901 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
63422833 CGGCCCGAAG
* * *
63422843 AAGAAG AAG-AA AAGAAA AAGAAA AAGGAAAA AAGAGA AAGAAA AA-AAG
1 AAGAAA AAGAAA AAGAAA AAGAAA AA-G-AAA AAGAAA AAGAAA AAGAAA
63422891 AA-AAA AAGAAA
1 AAGAAA AAGAAA
63422902 TATTTCACAG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 12 0.27
6 25 0.57
7 2 0.05
8 5 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:63422888 original size:22 final size:22
Alignment explanation
Indices: 63422855--63422899 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
63422845 GAAGAAGAAA
*
63422855 AGAAAAAGAAAAAGGAAAAAAG
1 AGAAAAAGAAAAAGAAAAAAAG
63422877 AGAAAGAA-AAAAAGAAAAAAAG
1 AGAAA-AAGAAAAAGAAAAAAAG
63422899 A
1 A
63422900 AATATTTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AGAAAAAGAAAAAGAAAAAAAG
Found at i:63423236 original size:5 final size:5
Alignment explanation
Indices: 63423228--63423252 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
63423218 TTACTTCAAT
63423228 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
63423253 AATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:63423573 original size:17 final size:17
Alignment explanation
Indices: 63423542--63423902 Score: 192
Period size: 17 Copynumber: 20.5 Consensus size: 17
63423532 TTTAAAAAAA
* *
63423542 TCGTG-TTTCAAAATTG
1 TCGTGTTTTAAAAATTT
63423558 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
**
63423575 TCACGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTT
* * *
63423592 TCATGTTTCAAAAATCT
1 TCGTGTTTTAAAAATTT
63423609 TCGTGTTTTAAAAA-TT
1 TCGTGTTTTAAAAATTT
* *
63423625 CCAGTGTTTCAAAAATTT
1 TC-GTGTTTTAAAAATTT
63423643 TCGTGTTTTTAAAAAAATTT
1 TCGTG-TTTT--AAAAATTT
* * *
63423663 CCCATGTTTTCAAAAATTC
1 -TCGTGTTTT-AAAAATTT
* * *
63423682 CCGTATTTTGAAAATTT
1 TCGTGTTTTAAAAATTT
*
63423699 TCTTGTTTTCAAAAAAATTT
1 TCGTGTTTT---AAAAATTT
* * *
63423719 CCATGTTTTAAAAAAAATTC
1 TCGTGTTTT---AAAAATTT
* * * *
63423739 TCATATTTCAAAAATTG
1 TCGTGTTTTAAAAATTT
* *
63423756 TCGTATTTTCAAAAATTGA
1 TCGTGTTTT-AAAAATT-T
* * * *
63423775 CCATG-TTTCAAAATTG
1 TCGTGTTTTAAAAATTT
63423791 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
63423808 TCGTGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTT
* *
63423825 TCGTATTTCAAAAATTT
1 TCGTGTTTTAAAAATTT
* *
63423842 TCATGTTTTCAAAATTT
1 TCGTGTTTTAAAAATTT
** *
63423859 TGCGTGTTCCAAAAATCT
1 T-CGTGTTTTAAAAATTT
*
63423877 TCGTGTTTTAAAAAATTC
1 TCGTGTTTT-AAAAATTT
63423895 TCGTGTTT
1 TCGTGTTT
63423903 CAATTTTTTT
Statistics
Matches: 265, Mismatches: 61, Indels: 36
0.73 0.17 0.10
Matches are distributed among these distances:
16 10 0.04
17 151 0.57
18 51 0.19
19 9 0.03
20 41 0.15
21 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (17 bp):
TCGTGTTTTAAAAATTT
Found at i:63423696 original size:56 final size:55
Alignment explanation
Indices: 63423612--63423821 Score: 187
Period size: 56 Copynumber: 3.8 Consensus size: 55
63423602 AAAATCTTCG
* *
63423612 TGTTTT-AAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCA
1 TGTTTTCAAAAATTCCCGTATTTCAAAAATTTTCGTGTTTTTAAAAAAATTT-CCA
** * *
63423667 TGTTTTCAAAAATTCCCGTATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTCCA
1 TGTTTTCAAAAATTCCCGTATTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCA
* * * * * * *
63423722 TGTTTTAAAAAAAATTCTCATATTTCAAAAATTGTCGT-ATTTT-CAAAAATTGACCA
1 TGTTTT--CAAAAATTCCCGTATTTCAAAAATTTTCGTGTTTTTAAAAAAATT-TCCA
** * * *
63423778 TG-TTTC-AAAATTGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAA
1 TGTTTTCAAAAATTCCCGTATTTCAAAAATTTTCGTGTTTTTAAAA
63423822 TTTTCGTATT
Statistics
Matches: 123, Mismatches: 26, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
52 23 0.19
53 3 0.02
54 2 0.02
55 25 0.20
56 47 0.38
57 23 0.19
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (55 bp):
TGTTTTCAAAAATTCCCGTATTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCA
Found at i:63423735 original size:20 final size:20
Alignment explanation
Indices: 63423692--63423737 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
63423682 CCGTATTTTG
* * *
63423692 AAAATTTTCTTGTTTTCAAA
1 AAAATTTCCATGTTTTAAAA
63423712 AAAATTTCCATGTTTTAAAA
1 AAAATTTCCATGTTTTAAAA
63423732 AAAATT
1 AAAATT
63423738 CTCATATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (20 bp):
AAAATTTCCATGTTTTAAAA
Found at i:63423751 original size:20 final size:19
Alignment explanation
Indices: 63423705--63423752 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
63423695 ATTTTCTTGT
* *
63423705 TTTCAAAAAAATTTCCATG
1 TTTCAAAAAAAATTCCATA
*
63423724 TTTTAAAAAAAATTCTCATA
1 TTTCAAAAAAAATTC-CATA
63423744 TTTCAAAAA
1 TTTCAAAAA
63423753 TTGTCGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (19 bp):
TTTCAAAAAAAATTCCATA
Found at i:63434910 original size:1 final size:1
Alignment explanation
Indices: 63434906--63434962 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
63434896 AAAAGTAGAC
* * * * * * *
63434906 AAAAAACAAAAAAACAACAAAAAAAACAAAAAAAAAACAAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
63434963 TCAAGATGAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.09, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:63434919 original size:8 final size:8
Alignment explanation
Indices: 63434906--63434956 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
63434896 AAAAGTAGAC
63434906 AAAAAACA
1 AAAAAACA
63434914 AAAAAACA
1 AAAAAACA
63434922 ACAAAAA-A
1 A-AAAAACA
*
63434930 AACAAA-A
1 AAAAAACA
63434937 AAAAAACA
1 AAAAAACA
*
63434945 AAAAAAGA
1 AAAAAACA
63434953 AAAA
1 AAAA
63434957 GAAAAATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 10 0.26
8 23 0.61
9 5 0.13
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:63434924 original size:11 final size:10
Alignment explanation
Indices: 63434906--63434950 Score: 65
Period size: 10 Copynumber: 4.4 Consensus size: 10
63434896 AAAAGTAGAC
63434906 AAAAAACAAA
1 AAAAAACAAA
63434916 AAAACAAC-AA
1 AAAA-AACAAA
63434926 AAAAAACAAAA
1 AAAAAAC-AAA
63434937 AAAAAACAAA
1 AAAAAACAAA
63434947 AAAA
1 AAAA
63434951 GAAAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.09
10 17 0.53
11 12 0.38
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:63434928 original size:12 final size:11
Alignment explanation
Indices: 63434913--63434950 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
63434903 GACAAAAAAC
63434913 AAAAAAACAACA
1 AAAAAAACAA-A
63434925 AAAAAAACAAA
1 AAAAAAACAAA
63434936 AAAAAAACAAA
1 AAAAAAACAAA
63434947 AAAA
1 AAAA
63434951 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:63434956 original size:20 final size:20
Alignment explanation
Indices: 63434906--63434950 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
63434896 AAAAGTAGAC
*
63434906 AAAAAACAAAAAAACAACAA
1 AAAAAACAAAAAAAAAACAA
63434926 AAAAAACAAAAAAAAAACAA
1 AAAAAACAAAAAAAAAACAA
63434946 AAAAA
1 AAAAA
63434951 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAACAAAAAAAAAACAA
Found at i:63434961 original size:20 final size:18
Alignment explanation
Indices: 63434906--63434962 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 18
63434896 AAAAGTAGAC
63434906 AAAAAACAAAAAAACAACAA
1 AAAAAACAAAAAAA-AA-AA
63434926 AAAAAACAAAAAAAAAACA
1 AAAAAACAAAAAAAAAA-A
*
63434945 AAAAAAGAAAAAGAAAAA
1 AAAAAACAAAAA-AAAAA
63434963 TCAAGATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.03
19 14 0.41
20 19 0.56
ACGTcount: A:0.88, C:0.09, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAAAAAAA
Found at i:63435942 original size:76 final size:75
Alignment explanation
Indices: 63435819--63436566 Score: 918
Period size: 76 Copynumber: 9.8 Consensus size: 75
63435809 TCAAGAAATA
* * *
63435819 TTTTTAAAATTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCACAGGTCA
1 TTTTTAAATTTCTG-TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
* *
63435884 CGCTGAGGTA-T
64 TGCCGAGGTATT
63435895 TTTTT-AATTTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAAATTTCTG--TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTC
* *
63435959 ACGCTGAGGTATTT
63 ATGCCGAGGTA-TT
63435973 TTTTTAAATTTCTGCTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
63436038 TGCCGAGGTATT
64 TGCCGAGGTATT
* *
63436050 TCTTTTAAATTGCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
63436115 GCCGAGGTATT
65 GCCGAGGTATT
*
63436126 TCTTTTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
63436191 GCCGAGGTATT
65 GCCGAGGTATT
* *
63436202 TCTTTTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCAT
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
*
63436267 GCTGAGGTATT
65 GCCGAGGTATT
* * * * ** **
63436278 TCTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGACCAT
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCAT
63436343 GCCGAGGTATT
65 GCCGAGGTATT
* * *
63436354 TCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTAGGGTCA
1 T-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCA
* *
63436419 CGTCGAGGTA--
64 TGCCGAGGTATT
* * ** *
63436429 TTTTTCAA-TTCATGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTTTAAATTTC-TGTTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTC-GGG-T
*
63436493 CATGTCGAGGTA--
62 CATGCCGAGGTATT
** * * * * *
63436505 -TTTTCGATTTTTGTTTTTCGAAGATCAACTCATAATCCAAGAGGTGAGTTGAGTCTCGGGTC
1 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTC
63436567 GCACGCCGAG
Statistics
Matches: 610, Mismatches: 49, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
73 4 0.01
74 49 0.08
75 90 0.15
76 318 0.52
77 66 0.11
78 68 0.11
79 15 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (75 bp):
TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
CCGAGGTATT
Found at i:63436801 original size:30 final size:29
Alignment explanation
Indices: 63436760--63436890 Score: 97
Period size: 30 Copynumber: 4.4 Consensus size: 29
63436750 AATTTTTTTG
*
63436760 CATTTTAACCCCTATACTTATCAAAATTTA
1 CATTTTAACCCCTAAACTT-TCAAAATTTA
*
63436790 CATTTTGACCCC-AAACTTTTCTAAAA-TTA
1 CATTTTAACCCCTAAAC-TTTC-AAAATTTA
* * *
63436819 CATTTCAACCCTTAGACTTTCTCAAAATTT-
1 CATTTTAACCCCTAAAC-TT-TCAAAATTTA
* * * *
63436849 CACTTTGACCCCTAAACTCTTAAAAAATTA
1 CATTTTAACCCCTAAACT-TTCAAAATTTA
*
63436879 CATTTTAGCCCC
1 CATTTTAACCCC
63436891 ATATTTTCCT
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
29 25 0.32
30 49 0.63
31 4 0.05
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
CATTTTAACCCCTAAACTTTCAAAATTTA
Found at i:63436820 original size:29 final size:29
Alignment explanation
Indices: 63436760--63436922 Score: 93
Period size: 30 Copynumber: 5.5 Consensus size: 29
63436750 AATTTTTTTG
* * *
63436760 CATTTTAACCCCTATACTTATC-AAAATTTA
1 CATTTTGACCCC-AAACTTTTCTAAAA-TTA
63436790 CATTTTGACCCCAAACTTTTCTAAAATTA
1 CATTTTGACCCCAAACTTTTCTAAAATTA
** * * *
63436819 CATTTCAACCCTTAGAC-TTTCTCAAAATTT
1 CATTTTGACCC-CAAACTTTTCT-AAAATTA
* * **
63436849 CACTTTGACCCCTAAACTCTTAAAAAATTA
1 CATTTTGACCCC-AAACTTTTCTAAAATTA
*
63436879 CATTTT-AGCCCCATA-TTTTCCTAAAATTA
1 CATTTTGA-CCCCAAACTTTT-CTAAAATTA
*
63436908 CGTTTTTG-CCCCAAA
1 C-ATTTTGACCCCAAA
63436923 AACTTTGCAC
Statistics
Matches: 100, Mismatches: 24, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
28 3 0.03
29 41 0.41
30 54 0.54
31 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (29 bp):
CATTTTGACCCCAAACTTTTCTAAAATTA
Found at i:63437463 original size:6 final size:6
Alignment explanation
Indices: 63437454--63437531 Score: 79
Period size: 6 Copynumber: 12.8 Consensus size: 6
63437444 GAAGAAGAGA
*
63437454 AAAAAG AAAAAAG AAAAAG AAAAAG AAAAAG AAAAAAAG AAAAAG AGAAA-
1 AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG --AAAAAG AAAAAG AAAAAG
* * *
63437504 AAATAG AAAAA- TAAAAG AAAAAT AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
63437532 ACAAAAGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
5 7 0.12
6 41 0.68
7 6 0.10
8 6 0.10
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:63437482 original size:11 final size:10
Alignment explanation
Indices: 63437453--63437530 Score: 70
Period size: 11 Copynumber: 7.6 Consensus size: 10
63437443 AGAAGAAGAG
63437453 AAAAAAGAAA
1 AAAAAAGAAA
*
63437463 AAAGAA-AAA
1 AAAAAAGAAA
*
63437472 GAAAAAGAAA
1 AAAAAAGAAA
63437482 AAGAAAA-AAA
1 AA-AAAAGAAA
*
63437492 GAAAAAGAGAA
1 AAAAAAGA-AA
*
63437503 AAAATAGAAA
1 AAAAAAGAAA
63437513 AATAAAAGAAA
1 AA-AAAAGAAA
63437524 AATAAAA
1 AA-AAAA
63437531 AACAAAAGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
9 11 0.20
10 18 0.33
11 26 0.47
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:63437491 original size:28 final size:28
Alignment explanation
Indices: 63437441--63437531 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
63437431 GGGTTCGCCC
* *
63437441 AAAGAAGAAGAGAAAA-AAGAAAAAAGAA
1 AAAGAAAAAGA-AAAAGAAAAAAAAAGAA
63437469 AAAGAAAAAGAAAAAG--AAAAAAAGAA
1 AAAGAAAAAGAAAAAGAAAAAAAAAGAA
* *
63437495 AAAGAGAAA-AAATAGAAAAATAAAAGAA
1 AAAGAAAAAGAAAAAGAAAAA-AAAAGAA
*
63437523 AAATAAAAA
1 AAAGAAAAA
63437532 ACAAAAGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
25 5 0.09
26 17 0.32
27 7 0.13
28 24 0.45
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (28 bp):
AAAGAAAAAGAAAAAGAAAAAAAAAGAA
Found at i:63437491 original size:34 final size:34
Alignment explanation
Indices: 63437441--63437505 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
63437431 GGGTTCGCCC
*
63437441 AAAGAAGAAGAGAAAAAAGAAAAA-AGAAAAAGAA
1 AAAGAAAAAGA-AAAAAAGAAAAAGAGAAAAAGAA
63437475 AAAGAAAAAGAAAAAAAGAAAAAGAGAAAAA
1 AAAGAAAAAGAAAAAAAGAAAAAGAGAAAAA
63437506 ATAGAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (34 bp):
AAAGAAAAAGAAAAAAAGAAAAAGAGAAAAAGAA
Found at i:63437750 original size:21 final size:22
Alignment explanation
Indices: 63437725--63437772 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
63437715 GGCCTGCACT
63437725 CAGCAGGC-CAGCCAGCAGGCC-
1 CAGCAGGCGCAG-CAGCAGGCCA
63437746 CAGCA-GCGCAGCAGCAGGCCA
1 CAGCAGGCGCAGCAGCAGGCCA
63437767 CAGCAG
1 CAGCAG
63437773 AGCCCAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.27, C:0.40, G:0.33, T:0.00
Consensus pattern (22 bp):
CAGCAGGCGCAGCAGCAGGCCA
Found at i:63438330 original size:17 final size:17
Alignment explanation
Indices: 63438287--63438443 Score: 65
Period size: 17 Copynumber: 8.8 Consensus size: 17
63438277 TTTTTAAAAA
63438287 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
63438304 TCATGTTTTC-AAAATTT
1 TCGTG-TTTCAAAAATTT
*
63438321 CTCGTGTTTCCTTTTTAAAAAAAATT
1 -TCGTGTTT-C------AA-AAATTT
*
63438347 TCCGTGTTTCAAAAATTC
1 TC-GTGTTTCAAAAATTT
** *
63438365 TCGTGAATAAAAAATTT
1 TCGTGTTTCAAAAATTT
*
63438382 TCGTGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTT
* *
63438400 CCGTGTTTGAAAAA---
1 TCGTGTTTCAAAAATTT
*
63438414 T-GT-TTTCAAAAAATTC
1 TCGTGTTTC-AAAAATTT
63438430 TCGTGTTTCAAAAA
1 TCGTGTTTCAAAAA
63438444 AACTCTCGTG
Statistics
Matches: 104, Mismatches: 17, Indels: 38
0.65 0.11 0.24
Matches are distributed among these distances:
12 3 0.03
13 7 0.07
16 1 0.01
17 45 0.43
18 31 0.30
19 2 0.02
25 4 0.04
26 11 0.11
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:63438360 original size:18 final size:17
Alignment explanation
Indices: 63438339--63438444 Score: 66
Period size: 17 Copynumber: 6.4 Consensus size: 17
63438329 TCCTTTTTAA
63438339 AAAAAATTTCCGTGTTTC
1 AAAAAA-TTCCGTGTTTC
**
63438357 -AAAAATTCTCGTGAAT-
1 AAAAAATTC-CGTGTTTC
*
63438373 AAAAAATTTTCGTGTTTTC
1 AAAAAA-TTCCGTG-TTTC
63438392 -AAAAATTCCCGTGTTT-
1 AAAAAATT-CCGTGTTTC
*
63438408 GAAAAA-T--GT-TTTC
1 AAAAAATTCCGTGTTTC
63438421 AAAAAATTCTCGTGTTTC
1 AAAAAATTC-CGTGTTTC
63438439 AAAAAA
1 AAAAAA
63438445 ACTCTCGTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 26
0.67 0.07 0.26
Matches are distributed among these distances:
12 3 0.04
13 7 0.10
14 1 0.01
16 4 0.06
17 31 0.46
18 22 0.32
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAAATTCCGTGTTTC
Found at i:63438381 original size:34 final size:35
Alignment explanation
Indices: 63438339--63438404 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
63438329 TCCTTTTTAA
*
63438339 AAAAAATTTCCGTG-TTTCAAAAATTCTCGTGAAT
1 AAAAAATTTCCGTGTTTTCAAAAATTCCCGTGAAT
*
63438373 AAAAAATTTTCGTGTTTTCAAAAATTCCCGTG
1 AAAAAATTTCCGTGTTTTCAAAAATTCCCGTG
63438405 TTTGAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (35 bp):
AAAAAATTTCCGTGTTTTCAAAAATTCCCGTGAAT
Found at i:63438442 original size:29 final size:29
Alignment explanation
Indices: 63438385--63438443 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
63438375 AAAATTTTCG
63438385 TGTTTTCAAAAATTCCCGTGTTTGAAAAA
1 TGTTTTCAAAAATTCCCGTGTTTGAAAAA
* *
63438414 TGTTTTCAAAAAATTCTCGTGTTTCAAAAA
1 TGTTTTC-AAAAATTCCCGTGTTTGAAAAA
63438444 AACTCTCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (29 bp):
TGTTTTCAAAAATTCCCGTGTTTGAAAAA
Found at i:63438443 original size:19 final size:18
Alignment explanation
Indices: 63438417--63438453 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
63438407 TGAAAAATGT
*
63438417 TTTCAAAAAATTCTCGTG
1 TTTCAAAAAACTCTCGTG
63438435 TTTCAAAAAAACTCTCGTG
1 TTTC-AAAAAACTCTCGTG
63438454 AATATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (18 bp):
TTTCAAAAAACTCTCGTG
Found at i:63438493 original size:18 final size:18
Alignment explanation
Indices: 63438472--63438515 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
63438462 TTCATGTTAT
63438472 CGTGTTTTCAAAAATTTC
1 CGTGTTTTCAAAAATTTC
* * *
63438490 CGTG-TTTGAAAATTTTT
1 CGTGTTTTCAAAAATTTC
63438507 CGTGTTTTC
1 CGTGTTTTC
63438516 GTGTTTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (18 bp):
CGTGTTTTCAAAAATTTC
Found at i:63438519 original size:43 final size:45
Alignment explanation
Indices: 63438459--63438546 Score: 126
Period size: 43 Copynumber: 2.0 Consensus size: 45
63438449 TCGTGAATAT
* *
63438459 TTTTTCATGTTATCGTGTTTTC-AAAAATTTC-CGTGTTTGAAAA
1 TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
* *
63438502 TTTTTCGTGTTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
1 TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
63438547 AAACTCTCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 20 0.51
44 8 0.21
45 11 0.28
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (45 bp):
TTTTTCATGTTATCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAA
Found at i:63438544 original size:19 final size:20
Alignment explanation
Indices: 63438514--63438557 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
63438504 TTTCGTGTTT
*
63438514 TCGTGTTTTCAAAAAAATTC
1 TCGTGTTTTCAAAAAAACTC
63438534 TCGTG-TTTCAAAAAAACTC
1 TCGTGTTTTCAAAAAAACTC
63438553 TCGTG
1 TCGTG
63438558 AATATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (20 bp):
TCGTGTTTTCAAAAAAACTC
Found at i:63438598 original size:18 final size:18
Alignment explanation
Indices: 63438577--63438620 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
63438567 TTCATGTTAT
63438577 CGTGTTTTCAAAATTTTC
1 CGTGTTTTCAAAATTTTC
* *
63438595 CGTG-TTTGAAAATTTTT
1 CGTGTTTTCAAAATTTTC
63438612 CGTGTTTTC
1 CGTGTTTTC
63438621 GTGTTTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (18 bp):
CGTGTTTTCAAAATTTTC
Found at i:63438742 original size:106 final size:105
Alignment explanation
Indices: 63438414--63438741 Score: 565
Period size: 105 Copynumber: 3.1 Consensus size: 105
63438404 GTTTGAAAAA
63438414 TGTTTTC-AAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATA-TTTTTTCATGTTATCGTGT
1 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTGT
63438477 TTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
66 TTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
63438517 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTGT
1 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTGT
*
63438582 TTTCAAAATTTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
66 TTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
*
63438622 TGTTTTCAAAAAAAATTCTCGTGTTTC-AAAAAACTCTCGTGAATATTTTTTTGATGTTATCGTG
1 TGTTTTC-AAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTG
* *
63438686 TTTTCAAAAAATTCCCGTGTTTGACAAA-TTTTCATGTTTTCG
65 TTTTC-AAAAATTTCCGTGTTTGA-AAATTTTTCGTGTTTTCG
63438728 TGTTTTCAAAAAAA
1 TGTTTTCAAAAAAA
63438742 AAAATTTCTC
Statistics
Matches: 215, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
103 7 0.03
104 37 0.17
105 113 0.53
106 55 0.26
107 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (105 bp):
TGTTTTCAAAAAAATTCTCGTGTTTCAAAAAAACTCTCGTGAATATTTTTTTCATGTTATCGTGT
TTTCAAAAATTTCCGTGTTTGAAAATTTTTCGTGTTTTCG
Found at i:63438763 original size:67 final size:69
Alignment explanation
Indices: 63438681--63438809 Score: 192
Period size: 67 Copynumber: 1.9 Consensus size: 69
63438671 TTTGATGTTA
*
63438681 TCGTGTTTTCAAAAAATTCCCGTGTTTGAC-AAATTTTCATGTTTTCGTGTTTTCAAAAAAAAAA
1 TCGTGTTTTCAAAAAATTCCCGTGTTT-ACAAAATTTTCATGTTTTCATGTTTTCAAAAAAAAAA
63438745 ATTTC
65 ATTTC
** *
63438750 TCGTG-TTTC-AAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCATGTTTTCAAAAAAAA
1 TCGTGTTTTCAAAAAATTCCCGTGTTTACAAAATTTTCATGTTTTCATGTTTTCAAAAAAAA
63438810 TTCCCGTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
66 1 0.02
67 45 0.82
68 4 0.07
69 5 0.09
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (69 bp):
TCGTGTTTTCAAAAAATTCCCGTGTTTACAAAATTTTCATGTTTTCATGTTTTCAAAAAAAAAAA
TTTC
Found at i:63438792 original size:17 final size:17
Alignment explanation
Indices: 63438742--63438794 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
63438732 TTCAAAAAAA
63438742 AAAATTTCTCGTG-TTTC
1 AAAATTT-TCGTGTTTTC
63438759 AAAAATTTTCGTGTTTTC
1 -AAAATTTTCGTGTTTTC
*
63438777 AAAATTTTCATGTTTTC
1 AAAATTTTCGTGTTTTC
63438794 A
1 A
63438795 TGTTTTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.49
Consensus pattern (17 bp):
AAAATTTTCGTGTTTTC
Found at i:63438831 original size:38 final size:38
Alignment explanation
Indices: 63438789--63439006 Score: 213
Period size: 38 Copynumber: 5.9 Consensus size: 38
63438779 AATTTTCATG
* *
63438789 TTTTCATGTTTTCAAAAAAAATTCCCGTATTTCGA-AAA
1 TTTTCGTGTTTTCAAAAAAAATTCCCGTGTTTC-ATAAA
* * * *
63438827 TTTTCTTATTTTCAAAAAAAAAAT-CTGTGTTTCATAAA
1 TTTTCGTGTTTTC-AAAAAAAATTCCCGTGTTTCATAAA
*
63438865 TTTTCGTGTTTTCAAAAAAAATTGACCGTGTTTCATAAA
1 TTTTCGTGTTTTCAAAAAAAATT-CCCGTGTTTCATAAA
* *
63438904 TTTCCGTGTTTTC--AAAAAA-TCCCGTCTTTCA-AAA
1 TTTTCGTGTTTTCAAAAAAAATTCCCGTGTTTCATAAA
*
63438938 TTTTCGTGTTTTC--AAAAAATTGACCGTGTTTCATAAA
1 TTTTCGTGTTTTCAAAAAAAATT-CCCGTGTTTCATAAA
* *
63438975 TTCTCGTG-TCTCAAAAAAAA-TCCTCGTGTTTC
1 TTTTCGTGTTTTCAAAAAAAATTCC-CGTGTTTC
63439007 GTATTTTATC
Statistics
Matches: 152, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
34 21 0.14
35 10 0.07
36 14 0.09
37 35 0.23
38 38 0.25
39 34 0.22
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (38 bp):
TTTTCGTGTTTTCAAAAAAAATTCCCGTGTTTCATAAA
Found at i:63438875 original size:17 final size:17
Alignment explanation
Indices: 63438853--63438991 Score: 75
Period size: 17 Copynumber: 7.7 Consensus size: 17
63438843 AAAAAAATCT
* *
63438853 GTGTTTCATAAATTTTC
1 GTGTTTCAAAAATTTCC
*
63438870 GTGTTTTCAAAAAAAATTGACC
1 GTG-TTTC---AAAAATT-TCC
*
63438892 GTGTTTCATAAATTTCC
1 GTGTTTCAAAAATTTCC
* *
63438909 GTGTTTTCAAAAAATCCC
1 GTG-TTTCAAAAATTTCC
* *
63438927 GTCTTTC-AAAATTTTC
1 GTGTTTCAAAAATTTCC
*
63438943 GTGTTTTCAAAAAATTGACC
1 GTG-TTTC-AAAAATT-TCC
*
63438963 GTGTTTCATAAA-TTCTC
1 GTGTTTCAAAAATTTC-C
*
63438980 GTGTCTCAAAAA
1 GTGTTTCAAAAA
63438992 AAATCCTCGT
Statistics
Matches: 92, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
16 9 0.10
17 28 0.30
18 27 0.29
19 10 0.11
20 4 0.04
21 10 0.11
22 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (17 bp):
GTGTTTCAAAAATTTCC
Found at i:63438916 original size:18 final size:18
Alignment explanation
Indices: 63438856--63438955 Score: 71
Period size: 18 Copynumber: 5.5 Consensus size: 18
63438846 AAAATCTGTG
* *
63438856 TTTCATAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGT
*
63438874 TTTCAAAAAAAATTGACCGTG-
1 TTTC---AAAAATT-TCCGTGT
*
63438895 TTTCATAAATTTCCGTGT
1 TTTCAAAAATTTCCGTGT
* * *
63438913 TTTCAAAAAATCCCGT-C
1 TTTCAAAAATTTCCGTGT
*
63438930 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGT
63438947 TTTCAAAAA
1 TTTCAAAAA
63438956 ATTGACCGTG
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
16 8 0.13
17 13 0.21
18 27 0.44
21 10 0.16
22 4 0.06
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (18 bp):
TTTCAAAAATTTCCGTGT
Found at i:63438983 original size:71 final size:72
Alignment explanation
Indices: 63438856--63438992 Score: 217
Period size: 71 Copynumber: 1.9 Consensus size: 72
63438846 AAAATCTGTG
*
63438856 TTTCATAAATTTTCGTGTTTTCAAAAAAAATTGACCGTGTTTCATAAATTTCCGTGTTTTCAAAA
1 TTTCATAAATTTTCGTGTTTTC-AAAAAAATTGACCGTGTTTCATAAATTTCCGTG-TCTCAAAA
63438921 AATCCCGTC
64 AATCCCGTC
63438930 TTTCA-AAATTTTCGTGTTTTC-AAAAAATTGACCGTGTTTCATAAA-TTCTCGTGTCTCAAAAA
1 TTTCATAAATTTTCGTGTTTTCAAAAAAATTGACCGTGTTTCATAAATTTC-CGTGTCTCAAAAA
63438992 A
65 A
63438993 AATCCTCGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
70 12 0.20
71 28 0.46
73 16 0.26
74 5 0.08
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (72 bp):
TTTCATAAATTTTCGTGTTTTCAAAAAAATTGACCGTGTTTCATAAATTTCCGTGTCTCAAAAAA
TCCCGTC
Found at i:63441152 original size:129 final size:129
Alignment explanation
Indices: 63440920--63441157 Score: 370
Period size: 129 Copynumber: 1.8 Consensus size: 129
63440910 CTAATTTGAC
* *
63440920 CTACTGCAACTTCAGAGATATATGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAAAT
1 CTACTGCAACTTCAGAGAGATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAAAT
* *
63440985 AGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATGAGACTGGATACGATCTGCT
66 AGGATTGGTTTCTTCTGTCTGCTCCACTACAACCTCAGGGAGATGAGACTGGATACGATCTGCT
* * * *
63441049 CTACTGCAACTTCAGAGAGATAAGA-TCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGA
1 CTACTGCAACTTCAGAGAGATAAGATTC-ATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAAA
* *
63441113 TAGGATTGGTTTCTTTTGTCTGCTTCACTACAACCTCAGGGAGAT
65 TAGGATTGGTTTCTTCTGTCTGCTCCACTACAACCTCAGGGAGAT
63441158 AAGATCTGAG
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
128 2 0.02
129 96 0.98
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (129 bp):
CTACTGCAACTTCAGAGAGATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAAAT
AGGATTGGTTTCTTCTGTCTGCTCCACTACAACCTCAGGGAGATGAGACTGGATACGATCTGCT
Found at i:63441313 original size:44 final size:44
Alignment explanation
Indices: 63441260--63441500 Score: 140
Period size: 44 Copynumber: 5.5 Consensus size: 44
63441250 CCTTTATTTT
* *
63441260 AATCCGCTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * * * *
63441304 AATCTGCTCCGCTGTAATCTCAGGAAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACTA-GCTTC
** * * * * *
63441350 GGTCTGTTCCATTGTAATCTCAGGGAGAT-GAGA--CCT-GATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAG-GATTACTAGCTTC
* * * * * * * *
63441391 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAGGAT--TACTAGCTTC
63441435 AAT-TCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCT-GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
*
63441479 AATCTGCTCCGCTGTAATCTCA
1 AATCTGCTCCACTGTAATCTCA
63441501 AGGATATAAG
Statistics
Matches: 141, Mismatches: 39, Indels: 34
0.66 0.18 0.16
Matches are distributed among these distances:
40 1 0.01
41 25 0.18
42 1 0.01
43 3 0.02
44 77 0.55
45 4 0.03
46 30 0.21
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
Found at i:63441338 original size:175 final size:173
Alignment explanation
Indices: 63441019--63441534 Score: 687
Period size: 175 Copynumber: 2.9 Consensus size: 173
63441009 CACTGCAACT
* * * * **
63441019 TCAGGGAGATGAGA-CTGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT-CTGTGGT
1 TCAGGGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTAT
** ** *** * * **
63441082 TTTAATCCGCTCCACTGTAA-CTTCAAGGAGATAGGATTGGTTTCTTTTGTCTGCTTCACTACAA
64 TTTAATCCGCTCCACTGTAATC-TC-AGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA
* * *
63441146 CCTCAGGGAGATAAGATCTGAGATTCTTCGATCTATTCCACTATAATC
127 TCTCA-GGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATC
*
63441194 TCAGGGCGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
63441259 TAATCCGCTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCT
66 TAATCCGCTCCACTGTAATCTCAG-GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCT
* * *
63441324 CAGGAAGATAAGATCTGAAATTCTTCGGTCTGTTCCATTGTAATC
130 CAGG-AGATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATC
*
63441369 TCAGGGAGATGAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
*
63441434 TAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCT
66 TAATCCGCTCCACTGTAATCTCA-GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCT
*
63441499 CAAGGATATAAGATCTGAAATTCTTCGGTCTATTCC
130 C-AGGAGATAAGATCTGAAATTCTTCGGTCTATTCC
63441535 CTGAGGAACA
Statistics
Matches: 305, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
174 4 0.01
175 292 0.96
176 9 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (173 bp):
TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCGCTCCACTGTAATCTCAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTC
AGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATC
Found at i:63447526 original size:19 final size:19
Alignment explanation
Indices: 63447502--63447541 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
63447492 CAAATTGGGA
63447502 AAAAGACCAAGGGATTAAC
1 AAAAGACCAAGGGATTAAC
63447521 AAAAGACCAAGGGATTAAC
1 AAAAGACCAAGGGATTAAC
63447540 AA
1 AA
63447542 TCATGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.15, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAAGACCAAGGGATTAAC
Found at i:63448344 original size:13 final size:13
Alignment explanation
Indices: 63448326--63448402 Score: 127
Period size: 13 Copynumber: 5.9 Consensus size: 13
63448316 ACACTCAAAT
*
63448326 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
63448339 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
63448352 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
*
63448365 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
63448378 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
63448391 TTCTCAAAAGCA
1 TTCTCAAAAGCA
63448403 ATAAAGAACT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 59 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:63457563 original size:22 final size:22
Alignment explanation
Indices: 63457525--63457566 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
63457515 CAATTGCAAC
63457525 AAAAATAAGATAAATACAAAGT
1 AAAAATAAGATAAATACAAAGT
*
63457547 AAAAATCA-ATAACATACAAA
1 AAAAATAAGATAA-ATACAAA
63457567 ATAGCAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAAATAAGATAAATACAAAGT
Found at i:63458853 original size:3 final size:3
Alignment explanation
Indices: 63458833--63458880 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
63458823 GTATACTAAA
*
63458833 AAT ATAT AAT ATAT AAT AAT AAT AAT -AT TAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
63458879 AA
1 AA
63458881 CAACTATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:63458864 original size:17 final size:16
Alignment explanation
Indices: 63458833--63458880 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 16
63458823 GTATACTAAA
63458833 AATATATAATATATAAT
1 AATA-ATAATATATAAT
63458850 AATAATAATATTATAAT
1 AATAATAATA-TATAAT
63458867 AATAATAATA-ATAA
1 AATAATAATATATAA
63458881 CAACTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 20 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATAATATATAAT
Found at i:63460469 original size:100 final size:100
Alignment explanation
Indices: 63460284--63461043 Score: 1099
Period size: 100 Copynumber: 7.6 Consensus size: 100
63460274 ACAATGTCAA
* * * * * * * *
63460284 GGAAACAAGATCCGCCGTCGT-AGCTTCAATCTGTTCAACTGCACAGCTAAGGAGGTAAGATCCG
1 GGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCG
* * *
63460348 TCGTTGTGGCCTCTATCTTTTTAATTGCGCTGTCGG
65 CCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * **
63460384 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTTCACTACACCGCCAGGGAAGTAAGATCCAT
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* * *
63460449 CGTTATGGCTTCAATATTTTTAATTGCGCTGTTGG
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* *
63460484 GGAAACCAGATCCACCGTTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAAGTAAGATCCGC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* *
63460549 CGTTGTGGCTTCAATCTTTTTAATTACGCTGTCGA
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * *
63460584 GGAAACCAGATCTGCTGTTGTGACTTCAATCTGCTCCATTGCACCGCCAGGGAAGTAAGATCCGC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* * *
63460649 CATTGTGACTTCAATCTTTTTAATTGCGCTGTCGA
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * *
63460684 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCATCGCCAGGGAAGTAAGATCTGC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* *
63460749 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGCCGA
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * * *
63460784 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCACCAAGGAAGTAAGATTCGC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
* * *
63460849 TGTTGTGGCTTCAATCTTTTTAATTGCGCTATTGG
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * *
63460884 GGAAACCAGATTCGCCGTTGTGACTTCAATCTGCTCCACTGCACCACCAGGGAAGTAAGATCCAC
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
63460949 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
66 CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* *
63460984 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAATAAGA
1 GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGA
63461044 ATCTGCTATT
Statistics
Matches: 595, Mismatches: 64, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
100 594 1.00
101 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (100 bp):
GGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGC
CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
Found at i:63462373 original size:6 final size:7
Alignment explanation
Indices: 63462346--63462409 Score: 78
Period size: 7 Copynumber: 9.0 Consensus size: 7
63462336 TTAGCCTCTC
63462346 CATTTTT
1 CATTTTT
63462353 -ACTTTTT
1 CA-TTTTT
63462360 CCATTTTT
1 -CATTTTT
63462368 CATTTTT
1 CATTTTT
63462375 CATTTTT
1 CATTTTT
63462382 CATTTTT
1 CATTTTT
*
63462389 TATTTTT
1 CATTTTT
63462396 CTATTTTT
1 C-ATTTTT
63462404 -ATTTTT
1 CATTTTT
63462410 TCACATCCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
6 7 0.14
7 32 0.63
8 11 0.22
9 1 0.02
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:63467305 original size:23 final size:23
Alignment explanation
Indices: 63467279--63467328 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
63467269 ATATGTAGGT
63467279 ATAATAAAAATAT-ATAATATATA
1 ATAATAAAAATATAATAATA-ATA
*
63467302 ATAATAATAATATAATAATAATA
1 ATAATAAAAATATAATAATAATA
63467325 ATAA
1 ATAA
63467329 CAACTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATAAAAATATAATAATAATA
Found at i:63467307 original size:3 final size:3
Alignment explanation
Indices: 63467279--63467328 Score: 66
Period size: 3 Copynumber: 16.3 Consensus size: 3
63467269 ATATGTAGGT
*
63467279 ATA ATA AAA ATA TATA ATA TATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
63467325 ATA A
1 ATA A
63467329 CAACTATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.81
4 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:63467307 original size:17 final size:17
Alignment explanation
Indices: 63467278--63467328 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
63467268 TATATGTAGG
*
63467278 TATAATAAAAATATATAA
1 TATAATAATAATA-ATAA
63467296 TAT-ATAATAATAATAA
1 TATAATAATAATAATAA
63467312 TATAATAATAATAATAA
1 TATAATAATAATAATAA
63467329 CAACTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 7 0.23
17 21 0.68
18 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAATAATAATAATAA
Found at i:63467314 original size:14 final size:14
Alignment explanation
Indices: 63467279--63467327 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
63467269 ATATGTAGGT
63467279 ATAATAA-A-AATA
1 ATAATAATATAATA
63467291 TATAAT-ATATAATA
1 -ATAATAATATAATA
63467305 ATAATAATATAATA
1 ATAATAATATAATA
63467319 ATAATAATA
1 ATAATAATA
63467328 ACAACTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.03
13 11 0.33
14 21 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:63467318 original size:11 final size:11
Alignment explanation
Indices: 63467278--63467324 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
63467268 TATATGTAGG
*
63467278 TATAATAAAAA
1 TATAATAATAA
63467289 TAT-ATAATATA
1 TATAATAATA-A
63467300 TAATAATAATAA
1 T-ATAATAATAA
63467312 TATAATAATAA
1 TATAATAATAA
63467323 TA
1 TA
63467325 ATAACAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 4 0.12
13 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TATAATAATAA
Found at i:63467326 original size:20 final size:20
Alignment explanation
Indices: 63467279--63467348 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
63467269 ATATGTAGGT
*
63467279 ATAATAAAAAT-ATATAATA
1 ATAATAATAATAATATAATA
63467298 TATAATAATAATAATATAATA
1 -ATAATAATAATAATATAATA
* *
63467319 ATAATAATAACAACTATATTA
1 ATAATAATAATAA-TATAATA
63467340 ATAA-AATAA
1 ATAATAATAA
63467349 ACTAAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 27 0.60
21 18 0.40
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATAATAATAATATAATA
Found at i:63467337 original size:23 final size:20
Alignment explanation
Indices: 63467279--63467348 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 20
63467269 ATATGTAGGT
*
63467279 ATAATAAAAATATATAAT-AT
1 ATAAT-AAAATATATAATAAA
63467299 ATAATAATAATAATATAATAATA
1 ATAATAA-AAT-ATATAATAA-A
63467322 ATAATAACAACTATATTAATAAA
1 ATAATAA-AA-TATA-TAATAAA
63467345 ATAA
1 ATAA
63467349 ACTAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 2 0.05
20 8 0.19
21 7 0.17
22 1 0.02
23 17 0.40
24 7 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATAAAATATATAATAAA
Found at i:63468543 original size:26 final size:26
Alignment explanation
Indices: 63468488--63468544 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
63468478 GCATTATAAA
*
63468488 ATATATAAAAATATATGTATACAAGG
1 ATATATAAAAATATAAGTATACAAGG
*
63468514 ATATATAAATAA-ATAAGATATA-AAGT
1 ATATATAAA-AATATAAG-TATACAAGG
63468540 ATATA
1 ATATA
63468545 GATATGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (26 bp):
ATATATAAAAATATAAGTATACAAGG
Found at i:63471758 original size:21 final size:21
Alignment explanation
Indices: 63471715--63471758 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
63471705 TATTTACATG
**
63471715 TTTTTATAAATATTTAAATAA
1 TTTTTATAAATAAATAAATAA
63471736 TTTTTATCAAATAAATAAA-AA
1 TTTTTAT-AAATAAATAAATAA
63471757 TT
1 TT
63471759 CAATGCTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTATAAATAAATAAATAA
Found at i:63477148 original size:33 final size:33
Alignment explanation
Indices: 63477111--63477215 Score: 117
Period size: 33 Copynumber: 3.3 Consensus size: 33
63477101 CAGTTAGTAC
*
63477111 GGATGATGCTCCTTTAAGCGGGACAAATAGCAG
1 GGATGATGCTCCTTTAAGCGGGCCAAATAGCAG
* * * *
63477144 GGATG-TG-T-CTATAAGCCGGCCAACTAGTAG
1 GGATGATGCTCCTTTAAGCGGGCCAAATAGCAG
* * *
63477174 GGATGATGCCCCTTCAAGCGGGCCAAGTAGCAG
1 GGATGATGCTCCTTTAAGCGGGCCAAATAGCAG
63477207 GGATGATGC
1 GGATGATGC
63477216 CCCTATAATC
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
30 22 0.38
31 3 0.05
32 2 0.03
33 31 0.53
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (33 bp):
GGATGATGCTCCTTTAAGCGGGCCAAATAGCAG
Found at i:63480294 original size:145 final size:142
Alignment explanation
Indices: 63480049--63480315 Score: 374
Period size: 145 Copynumber: 1.9 Consensus size: 142
63480039 TGGTGTCATA
*
63480049 CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTATACTATCTCTGGTGTACCAT
1 CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTATACTATCCCTGGTGTACCAT
* *
63480114 CCTAGTCCCTGTTCGCCATCTGAATTTTCCTTTCTAGTGGAATTCAATACATACATATATGGTGT
66 CCTAGTCCCTGTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATATATGGTGT
63480179 CATACATAGATT
131 CATACATAGATT
* * *
63480191 CATACATGCTCTGAGTACTCTTAGGTTCTAACTATGGGTGCTTTTATACTATTTCCCTGGTGTGC
1 CATACATGCTCTGAGTACTCTGAGGGTCT-ACTATGGGTGCTTTTATACTA--TCCCTGGTGTAC
* * * * * **
63480256 CATTCTGGT-CTTGGTTAGCTATCTGAATTTTCCATTCTAGTGGCATTCGTTACATACATA
63 CATCCTAGTCCCT-GTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATA
63480316 CATACATGCT
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
142 27 0.25
143 21 0.19
144 2 0.02
145 58 0.54
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (142 bp):
CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTATACTATCCCTGGTGTACCAT
CCTAGTCCCTGTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATATATGGTGT
CATACATAGATT
Found at i:63488764 original size:111 final size:111
Alignment explanation
Indices: 63488648--63489004 Score: 562
Period size: 112 Copynumber: 3.2 Consensus size: 111
63488638 CCTAGTACAA
*
63488648 AAAAAAGT-AAAAAAAATATTTTTTTGGGAGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGT--
* *
63488712 AAAAAATCTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
64 AAAAATTTTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
* *
63488760 AAAAAAGT-AAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATATAGTAA
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
* *
63488824 AATTTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
66 AAATTTTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
**
63488870 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATTTCCGGCACCCAATACAGT--
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
*
63488933 -AATTTTTTTTACTTTTTTTCGTGTCAGTATAAGGTATCAGTATACG
66 AAATTTTTTTTA-TTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
63488979 AAAAAAGTAAAAAAAAATATTTTTTT
1 AAAAAAGTAAAAAAAAATATTTTTTT
63489005 TGGTACCGGC
Statistics
Matches: 230, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
108 10 0.04
109 58 0.25
110 52 0.23
111 51 0.22
112 59 0.26
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (111 bp):
AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
AAATTTTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
Found at i:63488863 original size:110 final size:110
Alignment explanation
Indices: 63488648--63489004 Score: 560
Period size: 109 Copynumber: 3.2 Consensus size: 110
63488638 CCTAGTACAA
*
63488648 AAAAAAGT-AAAAAAAATATTTTTTTGGGAGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGT--
* * *
63488712 AAAAAATCTTTTTATTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
64 -AAAATTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
* *
63488760 AAAAAAGT-AAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATATAGTAA
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
63488824 AATTTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
66 AA-TTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
**
63488870 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATTTCCGGCACCCAATACAGT--
1 AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
*
63488933 AATTTTTTTTACTTTTTTTCGTGTCAGTATAAGGTATCAGTATACG
66 AATTTTTTTTAC-TTTTTTCGTGTCAGTATCAGGTATCAGTATACG
63488979 AAAAAAGTAAAAAAAAATATTTTTTT
1 AAAAAAGTAAAAAAAAATATTTTTTT
63489005 TGGTACCGGC
Statistics
Matches: 232, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
108 10 0.04
109 64 0.28
110 48 0.21
111 51 0.22
112 59 0.25
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (110 bp):
AAAAAAGTAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATAGCCGGCACCCAATACAGTAA
AATTTTTTTTACTTTTTTCGTGTCAGTATCAGGTATCAGTATACG
Found at i:63500328 original size:109 final size:109
Alignment explanation
Indices: 63500187--63500533 Score: 486
Period size: 109 Copynumber: 3.2 Consensus size: 109
63500177 CCAAAATTTT
* *
63500187 TTTTTTTTACTTTTTTCATATATTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAATTTAC
1 TTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAATTTAC
* *
63500252 TGTACTGGGTGCCGACCATTGATAGGCTAGCACCCAAAAAAATA
66 TGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAATA
* * * * **
63500296 TTTTTTTTACTTTTTTCGTATACTAATTCCTGAAACTAACACGAAAAAAAGTAAAAAATTTTTAC
1 TTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAATTTAC
* * *
63500361 TGTACTGGGTGCCGGCCATTGACAGGCCAACACCC----AAATT
66 TGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAATA
*
63500401 TTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGATACGAAAAAAAGTAAAAGAAAATTGT
1 TTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAA-AAAATT-T
* * *
63500466 ACTGTATTGGGTGCCGGCCATTAATAGGCCAGCACCAAAAAAAATA
64 ACTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAATA
63500512 TTTTTTTTACTTTTTTTCGTAT
1 TTTTTTTTAC-TTTTTTCGTAT
63500534 TGGGTGCCGG
Statistics
Matches: 205, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
105 55 0.27
106 4 0.02
107 33 0.16
109 88 0.43
111 14 0.07
112 11 0.05
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (109 bp):
TTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAATTTAC
TGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAATA
Found at i:63500602 original size:57 final size:59
Alignment explanation
Indices: 63500467--63500623 Score: 210
Period size: 57 Copynumber: 2.7 Consensus size: 59
63500457 GAAAATTGTA
* * * ** *
63500467 CTGTATTGGGTGCCGGCCATTAATAGGCCAGCACCAAAAAAAATATTTTTTTTACTTTTT
1 CTGTATTGGGTGCCGGCCATTGACAGGCCAGCACC-CAAAAAATATTTTTTTTACTCCTG
*
63500527 TTCGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-ATTTTTTTTAC-CCTG
1 CT-GTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATATTTTTTTTACTCCTG
*
63500585 CTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
1 CTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
63500624 TTTTTTTTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
57 36 0.41
58 2 0.02
59 11 0.13
60 7 0.08
61 31 0.36
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (59 bp):
CTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATATTTTTTTTACTCCTG
Done.