Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
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: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 10 of 18
Found at i:1646402 original size:107 final size:105
Alignment explanation
Indices: 1646086--1646505 Score: 349
Period size: 107 Copynumber: 3.9 Consensus size: 105
1646076 TTCTTAATCA
* * * * * * * * *
1646086 GGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAACTGGGGATACTCCAACC
1 GGGATACTCCAACCCCGACTTTATATCTAAAATA-TTATTTTTCATAATTGGGGGTACTCCAACC
* * * *
1646151 CTGTCATTTCATCAGGGATACTCCAACCCCGTTATTTTTGAG
65 CCGTTATTTCATCGGGGATACTCCAACCCCGTTA-TTTCGAG
* * * * * * *
1646193 AGGATACTCCAAACCC-AGCTTTATATTTAAAAATATCATTTTTTTTATAATCGGGGGGTACTCT
1 GGGATACTCCAACCCCGA-CTTTATATCT-AAAATAT--TATTTTTCATAAT-TGGGGGTACTCC
* * *
1646257 AGCCCCGTTATTTCATCGGGGACACTCCAACCCCGTTATTTCAGTG
61 AACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTC-GAG
*
1646303 GGGATAGTCCAACCCCGACTTTATATCTAAAATATTGATTTTTCATAATTGGGGGTACTCCAACC
1 GGGATACTCCAACCCCGACTTTATATCTAAAATATT-ATTTTTCATAATTGGGGGTACTCCAACC
* * *
1646368 CCGTTATGTCATCGGGGATACTCCAATCTCGTTATTTTCGAG
65 CCGTTATTTCATCGGGGATACTCCAACCCCGTTA-TTTCGAG
* * * * * * * * *
1646410 GGGATACTCTAACCCCGATTTTAT-TCCCAAAACACTAATTTTTCATAATCGAGGATACTCCAAT
1 GGGATACTCCAACCCCGACTTTATAT-CTAAAATA-TTATTTTTCATAATTGGGGGTACTCCAAC
* * ***
1646474 CCCTTTATTCCCGAGGGGATACTCCAACCCCG
64 CCCGTTATTTCATCGGGGATACTCCAACCCCG
1646506 ATTTTATTTC
Statistics
Matches: 247, Mismatches: 55, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
106 2 0.01
107 140 0.57
108 20 0.08
109 18 0.07
110 66 0.27
111 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (105 bp):
GGGATACTCCAACCCCGACTTTATATCTAAAATATTATTTTTCATAATTGGGGGTACTCCAACCC
CGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCGAG
Found at i:1646529 original size:79 final size:79
Alignment explanation
Indices: 1646378--1646551 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 79
1646368 CCGTTATGTC
* * ** *
1646378 ATCGGGGATACTCCAATCTCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTCCCAAAAC
1 ATCGAGGATACTCCAATCCCGTTATTCCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAAC
*
1646443 ACTAATTTTTCA-T
66 ACCAATTTTTCACT
* * *
1646456 AATCGAGGATACTCCAATCCCTTTATTCCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
1 -ATCGAGGATACTCCAATCCCGTTATTCCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
*
1646521 TACCAATTTTTCACT
65 CACCAATTTTTCACT
* *
1646536 ATTGAGGATATTCCAA
1 ATCGAGGATACTCCAA
1646552 CTCTGGTTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
79 81 0.99
80 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (79 bp):
ATCGAGGATACTCCAATCCCGTTATTCCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAAC
ACCAATTTTTCACT
Found at i:1646596 original size:51 final size:51
Alignment explanation
Indices: 1646488--1646605 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
1646478 TTATTCCCGA
* * * * *
1646488 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACTATT
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTCTAACGATC
* * * * *
1646539 GAGGATATTCCAACTCTGGTTTTATTTCCAAAATACCAATTTCTAACGATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTCTAACGATC
1646590 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1646606 TGTTATTTCT
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTCTAACGATC
Found at i:1653060 original size:61 final size:61
Alignment explanation
Indices: 1652984--1654563 Score: 1486
Period size: 61 Copynumber: 26.3 Consensus size: 61
1652974 TAGCCCTTCC
* * *
1652984 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * **
1653045 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * *
1653106 AGTCCTCAAAGAGCAAGACGTCTTTTTTCTTTTTAAATCCCACACAAGTTGGTGGCACCCTTT
1 AGTCCTCAAAGAGCAGGACG-CCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * * * * **
1653169 AGTCCTCAAAAAGCAGGACG-ATTTCTC-CTTCAAAGCCCACACGAGTTGGTGGGACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * *
1653229 AGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * * *
1653291 AGTCCTCAAAGGGCAGGATGCCTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTT
* * ** **
1653352 AGTCCTCAAAGAGCAGGACGCC-TTCTC-CTTCAAAGCCCACATGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * *
1653412 AGTCCTCAAATAGCAGGACGCCTTTTCCCTTTT-AAAGCCCACACAAGTTAGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTT-T
* *
1653475 AGTCCTCAAAGAGCAAGACGCC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1653535 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTT
* * * * * **
1653596 AGTCCTCAAAGAGCAGGATGCC-TTCTC-CTTCCAAGCCCACACGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTT
* *
1653656 AGTCCTCAAAGAGTAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * * *
1653718 AGTCCTCAAAGAACAGGACACCTTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACATTT
1 AGTCCTCAAAGAGCAGGACGCC---TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* ** **
1653782 TGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * *
1653843 AGTCCTCAAAGGGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
1 AGTCCTCAAAGAGCAGGACGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* ** * *
1653905 TGTCCTCAAAGAGCAGGATACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T
* *
1653968 AGTCCTCAAAGAGCAGGACACC-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* *
1654028 CAGTCCTCAAAGAGTAGGATG-C-----C-TTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* **
1654083 CAGTCCTCAAAGAGCAGGACG-C-----C-TTTCAAAGCCCACACAAGTTGGTAGCATTTTTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * *
1654139 AGTCCTCAAAGAGCAGGAC-AC-----CTTTT-AAAGCCTACACAAGTTGATGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTT-T
* * * * *
1654195 AGTCCTCAAAGAGCAGGACGCCTTTTACTTTT-AAAGCCCGCACAAATGGGTGGCA-TTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * * *
1654254 CCAGTCCTCAAAGAGCAGGATG-C-----C-TTTCAAAGCCCACACAGGTCGGTGGCA-TTTT
1 --AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * * * * *
1654309 CCAGTCCTCAAAGAGCAAGATG-CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCATCTTCC
1 --AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T
* * * * *
1654372 AATCCTAAAAGAGCAAGACG-C-----CTTTT-AAAGCCCCCACAAGTTGGTGGCA-TTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
*
1654425 CCAGTCCTCAAAGAGCAGGACG-C-----C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
1 --AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
1654480 CCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCTT
1 --AGTCCTCAAAGAGCAGGACGCCTTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT-TT
*
1654543 AGTCCTCAAAGAGTAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
1654564 TCTCTCCTTT
Statistics
Matches: 1301, Mismatches: 154, Indels: 127
0.82 0.10 0.08
Matches are distributed among these distances:
54 8 0.01
55 257 0.20
56 31 0.02
57 1 0.00
59 5 0.00
60 266 0.20
61 311 0.24
62 202 0.16
63 162 0.12
64 58 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:1653100 original size:60 final size:60
Alignment explanation
Indices: 1652984--1654563 Score: 1512
Period size: 60 Copynumber: 26.4 Consensus size: 60
1652974 TAGCCCTTCC
* * * *
1652984 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
* **
1653045 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * *
1653106 AGTCCTCAAAGAGCAAGACGTCTTTTTTCTTTTTAAATCCCACACAAGTTGGTGGCACCCTTT
1 AGTCCTCAAAGAGCAGGACG-C-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * * * **
1653169 AGTCCTCAAAAAGCAGGACG-ATTTCTCC-TTCAAAGCCCACACGAGTTGGTGGGACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * *
1653229 AGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
1653291 AGTCCTCAAAGGGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* * ** **
1653352 AGTCCTCAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACATGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * *
1653412 AGTCCTCAAATAGCAGGACGCCTTTTCCCTTTTAAAGCCCACACAAGTTAGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTT-T
* *
1653475 AGTCCTCAAAGAGCAAGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
1653535 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* * ** * **
1653596 AGTCCTCAAAGAGCAGGATGCCTTCTCC-TTCCAAGCCCACACGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* *
1653656 AGTCCTCAAAGAGTAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * *
1653718 AGTCCTCAAAGAACAGGACACCTTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACATTT
1 AGTCCTCAAAGAGCAGGACGCC----TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* ** **
1653782 TGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACATGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * *
1653843 AGTCCTCAAAGGGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTT
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* ** * *
1653905 TGTCCTCAAAGAGCAGGATACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-T
* *
1653968 AGTCCTCAAAGAGCAGGACACCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
* *
1654028 CAGTCCTCAAAGAGTAGGATGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCTTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* **
1654083 CAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTAGCATTTTTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * * *
1654139 AGTCCTCAAAGAGCAGGA---C---ACCTTTTAAAGCCTACACAAGTTGATGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTT-T
* * * * *
1654195 AGTCCTCAAAGAGCAGGACGCCTTTTACTTTTAAAGCCCGCACAAATGGGTGGCA-TTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * *
1654254 CCAGTCCTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAGGTCGGTGGCA-TTTT
1 --AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * * *
1654309 CCAGTCCTCAAAGAGCAAGATG-C-TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCATCTTCC
1 --AGTCCTCAAAGAGCAGGACGCCTTTTC-CTTT-TAAAGCCCACACAAGTTGGTGGCACCTT-T
* * * * *
1654372 AATCCTAAAAGAGCAAGACG------CCTTTTAAAGCCCCCACAAGTTGGTGGCA-TTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
1654425 CCAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA-TTTT
1 --AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
1654480 CCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTT
1 --AGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TT
*
1654543 AGTCCTCAAAGAGTAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
1654564 TCTCTCCTTT
Statistics
Matches: 1294, Mismatches: 154, Indels: 141
0.81 0.10 0.09
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
54 7 0.01
55 247 0.19
56 28 0.02
57 2 0.00
59 8 0.01
60 289 0.22
61 288 0.22
62 190 0.15
63 171 0.13
64 62 0.05
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:1653204 original size:123 final size:121
Alignment explanation
Indices: 1652978--1654564 Score: 1560
Period size: 123 Copynumber: 13.2 Consensus size: 121
1652968 CTCTTTTAGC
* * * * *
1652978 CCTTCCAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
*
1653043 TTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
66 TTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1653100 CCCTCCAGTCCTCAAAGAGCAAGACGTCTTTTTTCTTTTTAAATCCCACACAAGTTGGTGGCACC
1 CCTTCCAGTCCTCAAAGAGCAGGACG-CTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-C
* * * * * *
1653165 CTTTAGTCCTCAAAAAGCAGGACG-ATTTCTCCTTCAAAGCCCACACGAGTTGGTGGGA
64 CTTTAGTCCTCAAAGAGCAGGACGCCTTT-TCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1653223 CCCTCCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCACC
1 CCTTCCAGTCCTCAAAGAGCAGGACG-CTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
1653288 TTTAGTCCTCAAAGGGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * * **
1653346 CCTTTTAGTCCTCAAAGAGCAGGACGC-CTTCTC-CTTCAAAGCCCACATGAGTTGGTGGCACCC
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CC
** * *
1653409 TCCAGTCCTCAAATAGCAGGACGCCTTTTCCCTTTTAAAGCCCACACAAGTTAGTGGCA
65 TTTAGTCCTCAAAGAGCAGGACGCCTTTT--CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1653468 CTTTTCTAGTCCTCAAAGAGCAAGACGC-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
1 C-CTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
1653532 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * * ** *
1653590 CCTTTTAGTCCTCAAAGAGCAGGATGC-CTTCTC-CTTCCAAGCCCACACGAGTTGGTGGCACCC
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CC
** *
1653653 TCCAGTCCTCAAAGAGTAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAGGACGCC--TTTTC-TTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1653713 CCTT-TAGTCCTCAAAGAACAGGACACCTTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGAC-GC--TTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
1653777 CATTTTGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCA
63 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
1653837 CCCTCCAGTCCTCAAAGGGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACT
1 CCTTCCAGTCCTCAAAGAGCAGGACG-CTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
* **
1653902 TTTTGTCCTCAAAGAGCAGGATACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAGGACGCC--TTTTC-TTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1653962 CCTTCCAGTCCTCAAAGAGCAGGACAC-CTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
1654026 TTCAGTCCTCAAAGAGTAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
66 TT-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
1654078 CCTTTCAGTCCTCAAAGAGCAGGACGC------C-TTTCAAAGCCCACACAAGTTGGTAGCATTT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CC
* * *
1654136 TTTAGTCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCTACACAAGTTGATGGCA
65 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * *
1654188 CTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAC-TTTTAAAGCCCGCACAAATGGGTGGCA-T
1 C-CTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
1654251 TTTCCAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAGGTCGGTGGCA
65 TTT--AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * ** *
1654305 TTTTCCAGTCCTCAAAGAGCAAGATGC-TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCATCT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * *
1654369 TCCAATCCTAAAAGAGCAAGACG-C----CTTTTAAAGCCCCCACAAGTTGGTGGCA
66 T-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
1654421 TTTTCCAGTCCTCAAAGAGCAGGACGC------C-TTTCAAAGCCCACACAAGTTGGTGGCA-TT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
*
1654478 TTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 TT--AGTCCTCAAAGAGCAGGACGCCTTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1654537 -CTTCTTAGTCCTCAAAGAGTAGGACGCT
1 CCTTC-CAGTCCTCAAAGAGCAGGACGCT
1654565 CTCTCCTTTC
Statistics
Matches: 1242, Mismatches: 163, Indels: 125
0.81 0.11 0.08
Matches are distributed among these distances:
106 1 0.00
109 3 0.00
110 107 0.09
111 28 0.02
112 1 0.00
115 12 0.01
116 201 0.16
117 62 0.05
118 1 0.00
120 45 0.04
121 86 0.07
122 126 0.10
123 350 0.28
124 101 0.08
125 65 0.05
126 30 0.02
127 23 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (121 bp):
CCTTCCAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
TTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1654080 original size:55 final size:54
Alignment explanation
Indices: 1653939--1654563 Score: 631
Period size: 55 Copynumber: 10.9 Consensus size: 54
1653929 TTTTCTTTTT
* * *
1653939 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGAC-GC----C-TTTC
* * * *
1654000 AAAGCCCACACGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
*
1654055 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* * * *
1654110 AAAGCCCACACAAGTTGGTAGCATTTTTTAGTCCTCAAAGAGCAGGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* *
1654165 AAAGCCTACACAAGTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTC-AGTCCTCAAAGAGCAGGACGCC-TTT-C
* * * *
1654223 TTTTAAAGCCCGCACAAATGGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTC
1 ----AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGCCTTTC
* * * *
1654282 AAAGCCCACACAGGTCGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTCTCTTTGC
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGA--C--GC-CTTT-C
* * * * *
1654343 AAAGCCCACACAAGTTGGTGGCATCTTCCAATCCTAAAAGAGCAAGACGCCTTTT
1 AAAGCCCACACAAGTTGGTGGCAT-TTTCAGTCCTCAAAGAGCAGGACGCCTTTC
*
1654398 AAAGCCCCCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGCCTTTC
* *
1654453 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGA------CGCCTTTC
*
1654514 AAAGCCCACACAAGTTGGTGGCACTTCTT-AGTCCTCAAAGAGTAGGACGC
1 AAAGCCCACACAAGTTGGTGGCA-TT-TTCAGTCCTCAAAGAGCAGGACGC
1654564 TCTCTCCTTT
Statistics
Matches: 488, Mismatches: 52, Indels: 54
0.82 0.09 0.09
Matches are distributed among these distances:
54 2 0.00
55 265 0.54
56 26 0.05
57 4 0.01
59 3 0.01
60 8 0.02
61 155 0.32
62 23 0.05
63 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
Found at i:1654512 original size:116 final size:112
Alignment explanation
Indices: 1653263--1654563 Score: 912
Period size: 116 Copynumber: 11.0 Consensus size: 112
1653253 TTTTCTTTTT
* * *
1653263 AAAGCCCGCACAAGTTGGTGGCACCTTT--AGTCCTCAAAGGGCAGGATGCCTTTTCCTTTTAAA
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG-C----CCTTTTAAA
*
1653326 GCCCACACGAGTTGGTGGCACCTTTT--AGTCCTCAAAGAGCAGGACGCCTTCTCCTTC
60 GCCCACACAAGTTGGTGGCA-CTTTTCCAGTCCTCAAAGAGCAGGACG-C--CT--TTC
** *** * *
1653383 AAAGCCCACATGAGTTGGTGGCACCCTCCAGTCCTCAAATAGCAGGACGCCTTTTCCCTTTTAAA
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA------TGCCCTTTTAAA
* * *
1653448 GCCCACACAAGTTAGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTC
60 GCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCC-TTTC
* *
1653502 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--AGTCCTCAAAGAGCAGGACGCCTTTTTCTT
1 -----AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCC-----CTT
*
1653565 TTAAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCTCAAAGAGCAGGATGCCTTCTCCTTC
55 TTAAAGCCCACACAAGTTGGTGGCA-CTTTTCCAGTCCTCAAAGAGCAGGACG-C--CT--TTC
* * *** * *
1653627 CAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTCAAAGAGTAGGACGCCTTTTTTCTTTTTAA
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCC------C-TTTTAA
* * *
1653692 AGCCCACACAAGTTGGTGGCACCTTT--AGTCCTCAAAGAACAGGACACCTTTTTTTTC
59 AGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCC-----TTTC
*
1653749 TTTTTAAAGCCCACACAAGTTGGTGGCACATTTT---GTCCTCAAAGAGCAGGACGCCTTTTCTT
1 -----AAAGCCCACACAAGTTGGTGG--CATTTTCCAGTCCTCAAAGAGCAGGATGCC----CTT
** ** * *
1653811 TTCAAAGCCCACATGAGTTGGTGGCAC-CCTCCAGTCCTCAAAGGGCAGGATGCCTTTTTTC
55 TT-AAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCC---TTTC
* *
1653872 TTTTTAAAGCCCACACAAGTTGGTGGCACTTTT--TGTCCTCAAAGAGCAGGATACCTTTTTTCT
1 -----AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCC------C-
* *
1653935 TTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTT
53 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGAC-GC----C-TTT
1653999 C
112 C
* * * *
1654000 AAAGCCCACACGAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGATG-CCTTTCAAAGCCCA
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCCCTTTTAAAGCCCA
*
1654063 CACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTC
65 CACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTC
* ** *
1654110 AAAGCCCACACAAGTTGGTAGCATTTTTTAGTCCTCAAAGAGCAGGA--CACCTTTTAAAGCCTA
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-CCTTTTAAAGCCCA
* *
1654173 CACAAGTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAC
65 CACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCC-TTT-C
* * * *
1654223 TTTTAAAGCCCGCACAAATGGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CCTTTCAAAGC
1 ----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCCTTTTAAAGC
* * * *
1654287 CCACACAGGTCGGTGGCA-TTTTCCAGTCCTCAAAGAGCAAGATGCTTTCTCTTTGC
62 CCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGA--C--GC-CTTT-C
* * * * * *
1654343 AAAGCCCACACAAGTTGGTGGCATCTTCCAATCCTAAAAGAGCAAGACG-CCTTTTAAAGCCCCC
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCCTTTTAAAGCCCAC
1654407 ACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTC
66 ACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTC
1654453 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTTAAAG
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG----C-CCTTTTAAAG
*
1654518 CCCACACAAGTTGGTGGCACTTCTT--AGTCCTCAAAGAGTAGGACGC
61 CCCACACAAGTTGGTGGCACTT-TTCCAGTCCTCAAAGAGCAGGACGC
1654564 TCTCTCCTTT
Statistics
Matches: 991, Mismatches: 106, Indels: 172
0.78 0.08 0.14
Matches are distributed among these distances:
109 3 0.00
110 117 0.12
111 27 0.03
112 4 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 206 0.21
117 72 0.07
118 3 0.00
119 8 0.01
120 47 0.05
121 65 0.07
122 90 0.09
123 153 0.15
124 67 0.07
125 71 0.07
126 26 0.03
127 20 0.02
128 5 0.01
129 3 0.00
130 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (112 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCCTTTTAAAGCCCAC
ACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTC
Found at i:1654679 original size:55 final size:53
Alignment explanation
Indices: 1654586--1654772 Score: 178
Period size: 55 Copynumber: 3.3 Consensus size: 53
1654576 CCCTTTAGCG
* *
1654586 CTCAAAGGGCAGGATGCCTTT-AAAGCCCACACAAGTTGGTGGCACCCTTCAGTC
1 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA--CTTCAGTC
* * * *
1654640 CTGAAAGAGCAGGACGCCTTTCAAAGCACACACAAGTTGGTGGCATTTTTTTAGTC
1 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA---CTTCAGTC
*
1654696 CTCAAAGAGCAGGATGCTTTCTCCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
1 CTCAAAGAGCAGGACGC---CT--TTC-AAAGCCCACACAAGTTGGTGGCACTT-C-AGTC
*
1654757 CTCAAAGAGCCGGACG
1 CTCAAAGAGCAGGACG
1654773 TTCTCTCCTT
Statistics
Matches: 108, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
54 18 0.17
55 22 0.20
56 21 0.19
59 4 0.04
61 21 0.19
62 22 0.20
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (53 bp):
CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCAGTC
Found at i:1654780 original size:210 final size:208
Alignment explanation
Indices: 1654374--1655227 Score: 1068
Period size: 210 Copynumber: 4.1 Consensus size: 208
1654364 CATCTTCCAA
* * * * **
1654374 TCCTAAAAGAGCAAGACGCCTTTTAAAGCCCCCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGATGCC-TTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGA
*
1654439 GCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCT
65 GCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCT
* * *
1654504 TTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGTAGGACGCTCTCT
130 TTCT-CTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCT
1654569 CCTTTCGCCCTTTAG
194 CCTTTCGCCCTTTAG
* *
1654584 -CGCTCAAAGGGCAGGATGCCTTTAAAGCCCACACAAGTTGGTGGCACCCTT-CAGTCCTGAAAG
1 TC-CTCAAAGAGCAGGATGCCTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCCAGTCCTCAAAG
* *
1654647 AGCAGGACGCCTTTCAAAGCACACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGATG
64 AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATG
* *
1654712 CTTTCTCCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCCGGACGTTCT
128 CTTTCT-CTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCT
*
1654777 CTCCTTTTGCCCTTTAG
192 CTCCTTTCGCCCTTTAG
* *
1654794 TCCTCAAAGAGCAGGATGCCTTTAAAGCCCACCCAAGTTAGTGGCACCCTT-CAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGATGCCTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCCAGTCCTCAAAGA
** * *
1654858 GCAGGACGTTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGTAGGATGC
65 GCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGC
* * * * * *
1654923 ---CT-TTC-GAAGCCCACACAAGTTGGTGGTACTTCCCAGTCCTCAAAAAACAGGATGCTCTCT
129 TTTCTCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCT
1654983 CCTTTCGCCCTTTAG
194 CCTTTCGCCCTTTAG
* *
1654998 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTGTCCTCAAAGA
1 TCCTCAAAGAGCAGGATGCC-TTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGA
* **
1655062 GCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
65 GCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAG
* * * ** *
1655127 GACGCCTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGAT
124 GATG-CTTTCTCTTCT-AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAC
* *
1655191 GC-CTTTTCCTTTTC-TCCTTT-G
187 GCTC-TCTCC-TTTCGCCCTTTAG
1655212 TCCTCAAAGAGCAGGA
1 TCCTCAAAGAGCAGGA
1655228 CACACTTCAT
Statistics
Matches: 566, Mismatches: 57, Indels: 38
0.86 0.09 0.06
Matches are distributed among these distances:
203 3 0.01
204 98 0.17
205 27 0.05
206 1 0.00
207 2 0.00
209 98 0.17
210 260 0.46
211 1 0.00
212 1 0.00
213 2 0.00
214 18 0.03
215 51 0.09
216 4 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (208 bp):
TCCTCAAAGAGCAGGATGCCTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAG
CAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTT
TCTCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCC
TTTCGCCCTTTAG
Found at i:1654782 original size:61 final size:61
Alignment explanation
Indices: 1654602--1654782 Score: 193
Period size: 61 Copynumber: 3.1 Consensus size: 61
1654592 GGGCAGGATG
*
1654602 CCTT-TAAAGCCCACACAAGTTGGTGGCAC--CCTTCAGTCCTGAAAGAGCAGGACG--C-CT
1 CCTTCTAAAGCCCACACAAGTTGGTGGCACTTCC-T-AGTCCTCAAAGAGCAGGACGTTCTCT
* * ** *
1654659 --TTC-AAAGCACACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGATGCTT-TCT
1 CCTTCTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG-TTCTCT
*
1654718 CCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCCGGACGTTCTCT
1 CCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGTTCTCT
1654779 CCTT
1 CCTT
1654783 TTGCCCTTTA
Statistics
Matches: 100, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
55 24 0.24
56 18 0.18
57 1 0.01
59 2 0.02
60 2 0.02
61 31 0.31
62 22 0.22
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (61 bp):
CCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGTTCTCT
Found at i:1654855 original size:93 final size:95
Alignment explanation
Indices: 1654689--1654867 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 95
1654679 GTGGCATTTT
*
1654689 TTTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 TTTAGTCCTCAAAGAGCAGGATG-----TCCTTCTAAAGCCCACACAAGTTAGTGGCACTTCCTA
*
1654754 GTCCTCAAAGAGCCGGACGTTCTCTCCTTTTGCCC
61 GTCCTCAAAGAGCAGGACGTTCTCTCCTTTTGCCC
*
1654789 TTTAGTCCTCAAAGAGCAGGATG-CCTT-TAAAGCCCACCCAAGTTAGTGGCAC--CCTTCAGTC
1 TTTAGTCCTCAAAGAGCAGGATGTCCTTCTAAAGCCCACACAAGTTAGTGGCACTTCC-T-AGTC
1654850 CTCAAAGAGCAGGACGTT
64 CTCAAAGAGCAGGACGTT
1654868 TTTCAAAGCC
Statistics
Matches: 74, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
91 2 0.03
92 1 0.01
93 44 0.59
94 4 0.05
100 23 0.31
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (95 bp):
TTTAGTCCTCAAAGAGCAGGATGTCCTTCTAAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCT
CAAAGAGCAGGACGTTCTCTCCTTTTGCCC
Found at i:1654933 original size:56 final size:55
Alignment explanation
Indices: 1654786--1654948 Score: 211
Period size: 56 Copynumber: 3.0 Consensus size: 55
1654776 TCTCCTTTTG
* *
1654786 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTT-AAAGCCCACCCAAGTTAGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * **
1654840 CCCTTCAGTCCTCAAAGAGCAGGACGTTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*** * *
1654895 TTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTCGAAGCCCACACAAGTTGGTGG
1 -CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGG
1654949 TACTTCCCAG
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 27 0.29
55 21 0.23
56 44 0.48
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (55 bp):
CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1655013 original size:150 final size:151
Alignment explanation
Indices: 1654840--1655120 Score: 383
Period size: 150 Copynumber: 1.8 Consensus size: 151
1654830 GTTAGTGGCA
* * **
1654840 CCCTTCAGTCCTCAAAGAGCAGGACG-TTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTAG
1 CCCTTCAGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCT-G
* * *
1654904 TCCTCAAAGAGTAGGATG-C-CTTT-CGAAGCCCACACAAGTTGGTGGTA-CTTCCCAGTCCTCA
63 TCCTCAAAGAGCAGGATGTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCA
1654965 AAAAACAGGATGCTCTCTCCTTTCG
127 AAAAACAGGATGCTCTCTCCTTTCG
*
1654990 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTGTCC
1 CCCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTGTCC
*
1655055 TCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAA
66 TCAAAGAGCAGGATG---TCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAA
1655120 A
128 A
1655121 GAGCAGGACG
Statistics
Matches: 114, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
148 18 0.16
149 3 0.03
150 48 0.42
151 4 0.04
152 1 0.01
153 4 0.04
154 33 0.29
155 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (151 bp):
CCCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTGTCC
TCAAAGAGCAGGATGTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAAA
ACAGGATGCTCTCTCCTTTCG
Found at i:1655146 original size:61 final size:60
Alignment explanation
Indices: 1654991--1655204 Score: 273
Period size: 61 Copynumber: 3.6 Consensus size: 60
1654981 CTCCTTTCGC
1654991 CCTT-TAGTCCTCAAAGAGCAGGACGC----CTTTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1655045 -CTTCCT-GTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTT-CTAGTCCTCAAAGAGCAGGACGCTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
1655105 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACG-CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1655166 CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTC
1 CCTTCTAGTCCTCAAAGAGCAGGACG-CTTTT-CTTTTC
1655205 TCCTTTGTCC
Statistics
Matches: 140, Mismatches: 8, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
53 3 0.02
54 19 0.14
55 1 0.01
59 4 0.03
60 25 0.18
61 78 0.56
62 10 0.07
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (60 bp):
CCTTCTAGTCCTCAAAGAGCAGGACGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1655161 original size:419 final size:412
Alignment explanation
Indices: 1654374--1655228 Score: 1084
Period size: 419 Copynumber: 2.0 Consensus size: 412
1654364 CATCTTCCAA
* * * **
1654374 TCCTAAAAGAGCAAGACGCCTTTTAAAGCCCCCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCCCACAAGTTAGTGGCACCTTCCAGTCCTCAAAGA
1654439 GCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCT
66 GCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG--
* ** * **
1654504 TTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGTAGGACGCTCTCT
129 ---TCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAACAGGACGCTCTCT
* *
1654569 CCTTTCGCCCTTTAGCGCTCAAAGGGCAGGATGCCTTTAAAGCCCACACAAGTTGGTGGCACCCT
191 CCTTTCGCCCTTTAGCGCTCAAAGAGCAGGACGCCTTTAAAGCCCACACAAGTTGGTGGCA-CCT
* ** *
1654634 TCAGTCCTGAAAGAGCAGGACGCCTTTCAAAGCACACACAAGTTGGTGGCATTTTTTTAGTCCTC
255 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCACACACAAGTTGGTGGCATCCTTCTAGTCCTC
*
1654699 AAAGAGCAGGATGCTTTCTCCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAG
320 AAAGAGCAGGACGCTTTCTCCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAG
* *
1654764 AGCCGGA-CGTTCTCTCCTTTTGC-CCTTTAG
385 AGCAGGAGCCTT-T-TCCTTTT-CTCCTTT-G
*
1654794 TCCTCAAAGAGCAGGATGCC-TTTAAAGCCCACC-CAAGTTAGTGGCACCCTT-CAGTCCTCAAA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCC-CCACAAGTTAGTGGCA-CCTTCCAGTCCTCAAA
** ** *
1654856 GAGCAGGACGTTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGTAGGAT
64 GAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGAT
* * *
1654921 G-CCTTTCGAAGCCCACACAAGTTGGTGGTACTTCCCAGTCCTCAAAAAACAGGATGCTCTCTCC
128 GTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAACAGGACGCTCTCTCC
1654985 TTTCGCCCTTTAGTC-CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
193 TTTCGCCCTTTAG-CGCTCAAAGAGCAGGACGCC-TTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
1655048 CCTGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA-CCTTCTA
256 -CAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCACACACAAGTTGGTGGCATCCTTCTA
* * **
1655112 GTCCTCAAAGAGCAGGACGCCTTT-T-CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGT
314 GTCCTCAAAGAGCAGGACG-CTTTCTCCTTCT-AAAGCCCACACAAGTTGGTGGCACTTCCTAGT
1655175 CCTCAAAGAGCAGGATGCCTTTTCCTTTTCTCCTTTG
377 CCTCAAAGAGCAGGA-GCCTTTTCCTTTTCTCCTTTG
1655212 TCCTCAAAGAGCAGGAC
1 TCCTCAAAGAGCAGGAC
1655229 ACACTTCATT
Statistics
Matches: 381, Mismatches: 37, Indels: 36
0.84 0.08 0.08
Matches are distributed among these distances:
413 3 0.01
414 100 0.26
415 27 0.07
416 1 0.00
418 23 0.06
419 152 0.40
420 72 0.19
421 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (412 bp):
TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCCCACAAGTTAGTGGCACCTTCCAGTCCTCAAAGA
GCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGTC
CTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAACAGGACGCTCTCTCCTTT
CGCCCTTTAGCGCTCAAAGAGCAGGACGCCTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
CTCAAAGAGCAGGACGCCTTTCAAAGCACACACAAGTTGGTGGCATCCTTCTAGTCCTCAAAGAG
CAGGACGCTTTCTCCTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGG
AGCCTTTTCCTTTTCTCCTTTG
Found at i:1655315 original size:42 final size:41
Alignment explanation
Indices: 1655168--1655407 Score: 181
Period size: 42 Copynumber: 5.7 Consensus size: 41
1655158 TGGTGGCACT
*
1655168 TTTTAGTCCTCAAAGAGCAGGATGC-C--T-TTTCCT-TTTC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTTCTTTCCTCTTTC
* * *
1655205 TCCTTTGTCCTCAAAGAGCAGGACACAC-TTCATTCCCTTTTTTTCCC
1 T--TTTGTCCTCAAAGAGCAGGACGCACTTTC-TTTCC--TCTTT--C
*
1655252 TTTTGTCCTCAATGAGCAGGACGCACTTTGCTTTCCTCTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTT-CTTTCCTCTTTC
* * *
1655294 TTTTGTCTTCAAAGAGTAGGACGCA-TTTCATTTTCCTTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTC--TTTCC-TCTTTC
* * ** *
1655337 CTTTATCCTCAAAGAGCAGGGTGCACTTTATTTTCCTCTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTT-CTTTCCTCTTTC
*
1655379 TTTTGTCCTCAAAGAGTAGGACGCA-TTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTC
1655408 GTTTTCTTTT
Statistics
Matches: 160, Mismatches: 25, Indels: 33
0.73 0.11 0.15
Matches are distributed among these distances:
37 1 0.01
38 18 0.11
39 4 0.03
40 2 0.01
41 6 0.04
42 57 0.36
43 29 0.18
44 8 0.05
45 26 0.16
46 6 0.04
47 3 0.02
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (41 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTTCTTTCCTCTTTC
Found at i:1655379 original size:85 final size:87
Alignment explanation
Indices: 1655194--1655420 Score: 282
Period size: 85 Copynumber: 2.6 Consensus size: 87
1655184 GCAGGATGCC
* * * * *
1655194 TTTTCCT-TTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCA-TTCCCTTTTTTTCCCTTTTG
1 TTTTCCTCTTTCT--TTTGTCCTCAAAGAGTAGGACGCATTTCATTTTCC-TTTTTTCCCTTTTA
* *
1655257 TCCTCAATGAGCAGGACGCACTTTG
63 TCCTCAAAGAGCAGGACGCACTTTA
* *
1655282 CTTTCCTCTTTCTTTTGTCTTCAAAGAGTAGGACGCATTTCATTTTCCTTTTTT-CC-TTTATCC
1 TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTCATTTTCCTTTTTTCCCTTTTATCC
**
1655345 TCAAAGAGCAGGGTGCACTTTA
66 TCAAAGAGCAGGACGCACTTTA
* *
1655367 TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTCGTTTTCTTTTTTT
1 TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTCATTTTCCTTTTTT
1655421 TCACTTTGCC
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
85 74 0.61
86 2 0.02
87 31 0.25
88 10 0.08
89 5 0.04
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (87 bp):
TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTCATTTTCCTTTTTTCCCTTTTATCC
TCAAAGAGCAGGACGCACTTTA
Found at i:1655413 original size:42 final size:42
Alignment explanation
Indices: 1655194--1655403 Score: 192
Period size: 42 Copynumber: 4.9 Consensus size: 42
1655184 GCAGGATGCC
* *
1655194 TTTTCCT-TTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCA
1 TTTTCCTCTTTCT--TTTGTCCTCAAAGAGCAGGACGCACTTTA
* * * *
1655237 -TTCCCTTTTTTTCCCTTTTGTCCTCAATGAGCAGGACGCACTTTG
1 TTTTCC--TCTTT--CTTTTGTCCTCAAAGAGCAGGACGCACTTTA
* * *
1655282 CTTTCCTCTTTCTTTTGTCTTCAAAGAGTAGGACGCA-TTTCA
1 TTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTT-A
* * * **
1655324 TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGGTGCACTTTA
1 TTTTCC-TCTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTTA
*
1655367 TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCA
1 TTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGCA
1655404 TTTCGTTTTC
Statistics
Matches: 133, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
41 3 0.02
42 57 0.43
43 31 0.23
44 8 0.06
45 28 0.21
46 4 0.03
47 2 0.02
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.41
Consensus pattern (42 bp):
TTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTTA
Found at i:1655449 original size:85 final size:82
Alignment explanation
Indices: 1655194--1655449 Score: 253
Period size: 85 Copynumber: 3.0 Consensus size: 82
1655184 GCAGGATGCC
* * * **
1655194 TTTTCCT-TTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTTTTTTCCCTTTTGT
1 TTTTCCTCTTTCT--TTTGTCCTCAAAGAGTAGGACGCATTTC-TTTTCTTTTTTT-CC-TTTGT
* *
1655258 CCTCAATGAGCAGGACGCACTTTG
61 CCTCAAAGAGCAGGA--CACTTTA
* * * *
1655282 CTTTCCTCTTTCTTTTGTCTTCAAAGAGTAGGACGCATTTCATTTTCCTTTTTTCCTTTATCCTC
1 TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTC-TTTTCTTTTTTTCCTTTGTCCTC
*
1655347 AAAGAGCAGGGTGCACTTTA
65 AAAGAGCA-GG-ACACTTTA
*
1655367 TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTCGTTTTCTTTTTTTTCACTTTGCCC
1 TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTC-TTTTC-TTTTTTTC-CTTTGTCC
* *
1655432 TCAAGGAGCAAGACACTT
63 TCAAAGAGCAGGACACTT
1655450 CCCTTTTCTT
Statistics
Matches: 142, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
85 70 0.49
86 12 0.08
87 49 0.35
88 6 0.04
89 5 0.04
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (82 bp):
TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTCTTTTCTTTTTTTCCTTTGTCCTCA
AAGAGCAGGACACTTTA
Found at i:1656187 original size:20 final size:20
Alignment explanation
Indices: 1656162--1656235 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
1656152 TTTACCCAGA
1656162 TGTATCGATACATTTTGTAT
1 TGTATCGATACATTTTGTAT
1656182 TGTATCGATACA--TTGCTCAT
1 TGTATCGATACATTTTG-T-AT
** *
1656202 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTTGTAT
1656222 TGTATCGATACATT
1 TGTATCGATACATT
1656236 CTGGCATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 41 0.87
22 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTTGTAT
Found at i:1658676 original size:28 final size:29
Alignment explanation
Indices: 1658633--1658704 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
1658623 TTTTCACAAC
** *
1658633 TGGGGATACTTTAACCCTGTCA-TTTC-A
1 TGGGGATACTCCAACCCCGTCATTTTCGA
*
1658660 TTGGGGATACTCCAACCCCGTTATTTTCGA
1 -TGGGGATACTCCAACCCCGTCATTTTCGA
1658690 -GGGGATACTCCAACC
1 TGGGGATACTCCAACC
1658705 ATGGTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 33 0.87
29 4 0.11
30 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (29 bp):
TGGGGATACTCCAACCCCGTCATTTTCGA
Found at i:1658782 original size:110 final size:107
Alignment explanation
Indices: 1658619--1659001 Score: 341
Period size: 105 Copynumber: 3.6 Consensus size: 107
1658609 TTCCAAACAC
* * ** * * *
1658619 CGATTTTTCACAA-CTGGGGATACTTTAACCCTGTCATTTCATTGGGGATACTCCAACCCCGTTA
1 CGATTTTTCATAATC-GGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTA
* **
1658683 TTTTCGAGGGGATACTCCAACCATGGTTTTATATCTAAAAATAT
65 TTTTCGAGGGGATACTCCAACCACGACTTTATATCT-AAAATAT
* * *
1658727 CGTTTTTTTTATAATCGGGGGGTACTCCAACCCCGTTATTTCATCGGGGACACTCCAACCCCGTT
1 CG-ATTTTTCATAATC-GGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTT
* *
1658792 A-TTTC-AGTGGAGATAGTCCAACCCCGACTTTATATCTAAAATAT
64 ATTTTCGAG-GG-GATACTCCAACCACGACTTTATATCTAAAATAT
* * * *
1658836 TGATTTTTCATAATCGGGGGTACTCCAACCCCG-T-TGTCATCGGGGATACTCCAATCTCGTTAT
1 CGATTTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTAT
* * * *
1658899 TTCCGAGGGGATACTCCAACCTCGATTTTAT-TCTCAAAACA-
66 TTTCGAGGGGATACTCCAACCACGACTTTATATCT-AAAATAT
* * * * * * * * *
1658940 CCAGTTTTTTATAATAGAGGATACTCAAATCCCGTTA-TTCCTGAGGGGATACTCCAACCCCG
1 CGA-TTTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCAT-CGGGGATACTCCAACCCCG
1659002 ATTTTATTTC
Statistics
Matches: 223, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
104 4 0.02
105 72 0.32
106 10 0.04
107 36 0.16
108 15 0.07
109 22 0.10
110 64 0.29
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (107 bp):
CGATTTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTAT
TTTCGAGGGGATACTCCAACCACGACTTTATATCTAAAATAT
Found at i:1658811 original size:28 final size:28
Alignment explanation
Indices: 1658750--1658817 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
1658740 ATCGGGGGGT
*
1658750 ACTCCAACCCCGTTATTTCATCGGGGAC
1 ACTCCAACCCCGTTATTTCATCGGAGAC
*
1658778 ACTCCAACCCCGTTATTTCAGT-GGAGAT
1 ACTCCAACCCCGTTATTTCA-TCGGAGAC
*
1658806 AGTCCAACCCCG
1 ACTCCAACCCCG
1658818 ACTTTATATC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (28 bp):
ACTCCAACCCCGTTATTTCATCGGAGAC
Found at i:1659027 original size:79 final size:79
Alignment explanation
Indices: 1658879--1659027 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 79
1658869 TTGTCATCGG
* * * *
1658879 GGATACTCCAATCTCGTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTCTCAAAACACCAG
1 GGATACTCAAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCTCAAAACACCAA
1658944 TTTTTTATAATAGA
66 TTTTTTATAATAGA
*
1658958 GGATACTCAAATCCCGTTA-TTCCTGAGGGGATACTCCAACCCCGATTTTATT-TCTAAAATACC
1 GGATACTCAAATCCCGTTATTTCC-GAGGGGATACTCCAACCCCGATTTTATTCTC-AAAACACC
1659021 AATTTTT
64 AATTTTT
1659028 CACTATCGGG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
78 6 0.10
79 57 0.90
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (79 bp):
GGATACTCAAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCTCAAAACACCAA
TTTTTTATAATAGA
Found at i:1659041 original size:79 final size:79
Alignment explanation
Indices: 1658874--1659041 Score: 216
Period size: 79 Copynumber: 2.1 Consensus size: 79
1658864 CCCCGTTGTC
* * *
1658874 ATCGGGGATACTCCAATCTCGTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTCTCAAAAC
1 ATCGGGGATACTCAAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCTCAAAAC
* *
1658939 ACCAGTTTTTTATA
66 ACCAATTTTTCATA
* *
1658953 ATAGAGGATACTCAAATCCCGTTA-TTCCTGAGGGGATACTCCAACCCCGATTTTATT-TCTAAA
1 ATCGGGGATACTCAAATCCCGTTATTTCC-GAGGGGATACTCCAACCCCGATTTTATTCTC-AAA
*
1659016 ATACCAATTTTTCACT-
64 ACACCAATTTTTCA-TA
1659032 ATCGGGGATA
1 ATCGGGGATA
1659042 TTCCAATTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
78 6 0.08
79 69 0.91
80 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCAAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCTCAAAAC
ACCAATTTTTCATA
Found at i:1659222 original size:122 final size:123
Alignment explanation
Indices: 1658907--1659261 Score: 348
Period size: 122 Copynumber: 2.8 Consensus size: 123
1658897 ATTTCCGAGG
* * * *
1658907 GGATACTCCAAC-CTCGATTTTATTCTCAAAACACCAGTTTTTTATAAT-AGAGGATACTCAAAT
1 GGATACTCCAACTC-CGATTTTATTTTCAAAACACCAATTTTCTATAATCA-AGGATACTC-AAC
* * * *
1658970 CCCGTTATTCCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACTATC
63 CCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTA--T-T---ATACCAATTTTCCACAATC
*
1659035 GG
122 GA
* * * * * * **
1659037 GGATATTCCAATTCTGGTTTTATTTCCAAAACACCAA-TTTCTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCT-ATAATCAAGGATACT-CAACC
*
1659101 CCGTTATTTCTAAGGGGATACTCCAACCCCGACTTTA-T-TACCAATTTTCCACAATCGA
64 CCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTATACCAATTTTCCACAATCGA
* *
1659159 GGATACTCCAACTCCGATTTTGTTTTCAAAATACCAATTTTCTATAATCAAGGATACTACAACCC
1 GGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAAGGATACT-CAACCC
*
1659224 TGTTATTT-TCGAGGGGATACTCCAACCCCGA-TTT-TTAT
65 CGTTATTTCT-GAGGGGATACTCCAACCCCGACTTTATTAT
1659262 TTCTAGAACA
Statistics
Matches: 186, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
121 5 0.03
122 93 0.50
123 5 0.03
126 1 0.01
129 4 0.02
130 76 0.41
131 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (123 bp):
GGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAAGGATACTCAACCCC
GTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTATACCAATTTTCCACAATCGA
Found at i:1664594 original size:52 final size:49
Alignment explanation
Indices: 1664533--1664685 Score: 173
Period size: 48 Copynumber: 3.1 Consensus size: 49
1664523 AGGAATGTTA
* *
1664533 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGACG
1 AAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---G
* * ***
1664585 AAGGCGCCAATATGCTGATTCAAGG-CAGTGATACCAGACTTAAAGATG
1 AAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
1664633 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTG
1 AAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1664682 AAGA
1 AAGA
1664686 TACCAATGTT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
48 23 0.27
49 21 0.25
51 17 0.20
52 23 0.27
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (49 bp):
AAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1664790 original size:122 final size:121
Alignment explanation
Indices: 1664573--1664800 Score: 348
Period size: 122 Copynumber: 1.9 Consensus size: 121
1664563 GATATTGGAC
** * *
1664573 TTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGCAGTGATACCAGACTTAAAGATGAAGAT
1 TTAAAGATGACGAAGGAACCAATATGCTGATTCAAGGCAGCGATACCAGACTTAAAGATAAAGAT
* *
1664638 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGAAGATACCAATG
66 GCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGATACCAATG
* *** *
1664694 TTAAAGATGCCGAAGGAACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGG
1 TTAAAGATGACGAAGGAACCAATATGCTGATTCAAGG-CAGCGATACCAGACTTAAAGATAAAGA
1664759 TGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAG
65 TGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAG
1664801 ATGATAAAGG
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
121 34 0.36
122 61 0.64
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (121 bp):
TTAAAGATGACGAAGGAACCAATATGCTGATTCAAGGCAGCGATACCAGACTTAAAGATAAAGAT
GCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGATACCAATG
Found at i:1664869 original size:101 final size:101
Alignment explanation
Indices: 1664712--1664901 Score: 326
Period size: 101 Copynumber: 1.9 Consensus size: 101
1664702 GCCGAAGGAA
* * *
1664712 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTAATTCA
1 CCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGATGCCAATGTGCTAATTCA
1664777 AGGCCAGCAACATTGGACTTAAAGATGATAAAGGCG
66 AGGCCAGCAACATTGGACTTAAAGATGATAAAGGCG
* *
1664813 CCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
1 CCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGATGCCAATGTGCTAATTCA
*
1664878 AGGCCAGCGACATTGGACTTAAAG
66 AGGCCAGCAACATTGGACTTAAAG
1664902 GTGAAAATGC
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 83 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (101 bp):
CCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGATGCCAATGTGCTAATTCA
AGGCCAGCAACATTGGACTTAAAGATGATAAAGGCG
Found at i:1664912 original size:49 final size:49
Alignment explanation
Indices: 1664712--1664917 Score: 261
Period size: 49 Copynumber: 4.1 Consensus size: 49
1664702 GCCGAAGGAA
* * *
1664712 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA-ATG
* * *
1664761 CCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGGCG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AAA--TG
** * * *
1664813 CCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAATG
*
1664862 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGAAAATG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAATG
1664911 CCAATGT
1 CCAATGT
1664918 TAAAGATGCC
Statistics
Matches: 133, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
49 89 0.67
50 1 0.01
51 4 0.03
52 39 0.29
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (49 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAATG
Found at i:1664924 original size:223 final size:223
Alignment explanation
Indices: 1664531--1665124 Score: 929
Period size: 223 Copynumber: 2.7 Consensus size: 223
1664521 TCAGGAATGT
* * *
1664531 TAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGACGAAGGCGCCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAAT
* ***
1664596 ATGCTGATTCAAGG-CAGTGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
66 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
*
1664660 AGCGACATTGGACTTAAAGGTGAAGATACCAATGTTAAAGATGCCGAAGGAACCAATATGCTGAT
131 AGCGACATTGGACTTAAAGGTGAAAATACCAATGTTAAAGATGCCGAAGGAACCAATATGCTGAT
*
1664725 TCAAGGCCAGCGATATTGGACTTAAAGA
196 TCAAGGCCAGCGATATTGGACTTAAAAA
* * * **
1664753 TAAAGGTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGGCGCCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAAT
* *
1664818 ACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
66 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
* * **
1664883 AGCGACATTGGACTTAAAGGTGAAAATGCCAATGTTAAAGATGCCGACGGCGCCAATATGCTGAT
131 AGCGACATTGGACTTAAAGGTGAAAATACCAATGTTAAAGATGCCGAAGGAACCAATATGCTGAT
*
1664948 TCAAGGCTAGCGATATTGGACTTAAAAA
196 TCAAGGCCAGCGATATTGGACTTAAAAA
* *
1664976 TGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGTGCCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAAT
* * *
1665041 ATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCGATGTGCTGATTCAAGGCC
66 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
* *
1665106 AACGGCATTGGACTTAAAG
131 AGCGACATTGGACTTAAAG
1665125 ATGATGTGCC
Statistics
Matches: 336, Mismatches: 35, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
222 70 0.21
223 266 0.79
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (223 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAAT
ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
AGCGACATTGGACTTAAAGGTGAAAATACCAATGTTAAAGATGCCGAAGGAACCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAAA
Found at i:1664994 original size:49 final size:49
Alignment explanation
Indices: 1664934--1665260 Score: 379
Period size: 49 Copynumber: 6.6 Consensus size: 49
1664924 TGCCGACGGC
* *
1664934 GCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAAATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
* * *
1664983 GCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGGT
*
1665035 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
* * * ** *
1665084 GCCGATGTGCTGATTCAAGGCCAACGGCATTGGACTTAAAGATG-ATGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
* *
1665132 GCCAATATGCTGATTCAA-GCCAGCGATATTGGGCTTAAAGATGGTTGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGT
* * * * ** * *
1665183 GCCGATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
*
1665232 GCCAATATGCTAATTCAAGGCCAGCGATA
1 GCCAATATGCTGATTCAAGGCCAGCGATA
1665261 CTAGGCTTGT
Statistics
Matches: 233, Mismatches: 37, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
47 20 0.09
48 20 0.09
49 110 0.47
51 19 0.08
52 64 0.27
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
Found at i:1665092 original size:101 final size:99
Alignment explanation
Indices: 1664934--1665260 Score: 473
Period size: 101 Copynumber: 3.3 Consensus size: 99
1664924 TGCCGACGGC
* * *
1664934 GCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAAATGAAGGTGCCAATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCGATGTGCTGATTC
1664999 AAGGCCAACGACATTGGACTTAAAGATGACGAAGGT
66 AAGGCCAACGACATTGGACTTAAAGAT-A-GAAGGT
*
1665035 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCGATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCGATGTGCTGATTC
* *
1665100 AAGGCCAACGGCATTGGACTTAAAGAT-G-ATGT
66 AAGGCCAACGACATTGGACTTAAAGATAGAAGGT
* *
1665132 GCCAATATGCTGATTCAA-GCCAGCGATATTGGGCTTAAAGATGGTTGAGGTGCCGATGTGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGCCGATGTGCTGA
** *
1665196 TTCAAGGCCAACGACATCAGTCTTAAAGATA-AAGGT
63 TTCAAGGCCAACGACATTGGACTTAAAGATAGAAGGT
*
1665232 GCCAATATGCTAATTCAAGGCCAGCGATA
1 GCCAATATGCTGATTCAAGGCCAGCGATA
1665261 CTAGGCTTGT
Statistics
Matches: 205, Mismatches: 15, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
96 23 0.11
97 21 0.10
98 1 0.00
99 43 0.21
100 20 0.10
101 97 0.47
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (99 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCGATGTGCTGATTC
AAGGCCAACGACATTGGACTTAAAGATAGAAGGT
Found at i:1665196 original size:148 final size:150
Alignment explanation
Indices: 1664934--1665254 Score: 396
Period size: 148 Copynumber: 2.2 Consensus size: 150
1664924 TGCCGACGGC
* * * *
1664934 GCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAAATGAAGGTGCCAATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTC
* *
1664999 AAGGCCAACGACATTGGACTTAAAGATGACGAAGGTGCCAATATACTGATTCAAGGCCAGCGATA
66 AAGGCCAACGACATTGGACTTAAAGATGACGAAGGTGCCAATATACTGATTCAAGGCCAACGACA
** *
1665064 TTGGACTTAAAGATGAAGGT
131 TCAGACTTAAAGATAAAGGT
* * * * *
1665084 GCCGATGTGCTGATTCAAGGCCAACGGCATTGGACTTAAAGATG-ATGTGCCAATATGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTC
* * * ** * * *
1665148 AA-GCCAGCGATATTGGGCTTAAAGATGGTTG-AGGTGCCGATGTGCTGATTCAAGGCCAACGAC
66 AAGGCCAACGACATTGGACTTAAAGAT-GACGAAGGTGCCAATATACTGATTCAAGGCCAACGAC
*
1665211 ATCAGTCTTAAAGATAAAGGT
130 ATCAGACTTAAAGATAAAGGT
*
1665232 GCCAATATGCTAATTCAAGGCCA
1 GCCAATATGCTGATTCAAGGCCA
1665255 GCGATACTAG
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
148 85 0.59
149 22 0.15
150 37 0.26
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (150 bp):
GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTC
AAGGCCAACGACATTGGACTTAAAGATGACGAAGGTGCCAATATACTGATTCAAGGCCAACGACA
TCAGACTTAAAGATAAAGGT
Found at i:1665357 original size:34 final size:34
Alignment explanation
Indices: 1665308--1665541 Score: 283
Period size: 34 Copynumber: 7.1 Consensus size: 34
1665298 TATTGGACTT
* *
1665308 AAAG-GTGCCATGGAGTTGTGGAATTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1665341 AAAGAGTGCCACGGAGTTGAGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1665375 AAAGAGTGCCACGGAGTTGTGGGCTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1665406 ---G-GTGTCACGGAGTTGTGGGATTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGT-GGA-CTTAAAAGGAA
* *
1665438 AAAGA-TGCCACGAAGTGGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
1665471 AAAGA-TGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
1665504 AAAGAGTGCCACGGAGTCT-TGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGT-TGTGGACTTAAAAGGAA
1665538 AAAG
1 AAAG
1665542 TGCTATGGAG
Statistics
Matches: 174, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
27 14 0.08
28 3 0.02
29 6 0.03
30 1 0.01
33 50 0.29
34 87 0.50
35 13 0.07
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.19
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:1665491 original size:95 final size:95
Alignment explanation
Indices: 1665301--1665501 Score: 284
Period size: 95 Copynumber: 2.1 Consensus size: 95
1665291 CCAACGATAT
* * * * *
1665301 TGGACTT-AAA-GGTGCCATGGAGTTGTGGAATTAAAAGGAAAAAGAGTGCCACGGAGTTGAGGA
1 TGGACTTAAAAGGGTGTCACGGAGTTGTGGAATTAAAAAGAAAAAGAGTGCCACGAAGTGGAGGA
1665364 CTTAAAAGGAAAAAGAGTGCCACGGAGTTG
66 CTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * *
1665394 TGGGCTTAAAAGGGTGTCACGGAGTTGTGGGATTTTAAAAAGAAAAAGA-TGCCACGAAGTGGTG
1 TGGACTTAAAAGGGTGTCACGGAGTTGT-GGA-ATTAAAAAGAAAAAGAGTGCCACGAAGTGGAG
1665458 GACTTAAAAGGAAAAAGA-TGCCACGGAGTTG
64 GACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
1665489 TGGACTTAAAAGG
1 TGGACTTAAAAGG
1665502 AAAAAGAGTG
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
93 6 0.06
94 3 0.03
95 39 0.41
96 33 0.35
97 14 0.15
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.20
Consensus pattern (95 bp):
TGGACTTAAAAGGGTGTCACGGAGTTGTGGAATTAAAAAGAAAAAGAGTGCCACGAAGTGGAGGA
CTTAAAAGGAAAAAGAGTGCCACGGAGTTG
Found at i:1665570 original size:129 final size:129
Alignment explanation
Indices: 1665320--1665748 Score: 347
Period size: 129 Copynumber: 3.4 Consensus size: 129
1665310 AGGTGCCATG
* * * *
1665320 GAGTTGTGGAATTAAAAGGAAAAAGAGTGCCACGGAGTTGAGGACTTAAAAGGAAAAAGAGTGCC
1 GAGTCGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTGCC
* * * *
1665385 ACGGAGT-TGTGGGCTTAAAAGG-----GTG-TCACGGAGTTGTGGGA-TTTTAAAAAGAAAAAG
65 ACGGAGTCT-TGGACTTAAAAGGAAAAAGTGCT-ATGGAGTCGT-GGACTTTT-----GGAAAAG
1665442 ATGCCAC-
122 ATGCCACT
* *
1665449 GAAGTGGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCC
1 G-AGTCGTGGACTTAAAAGGAAAAAGATGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTGCC
*
1665514 ACGGAGTCTTGGACTTAAAAGGAAAAAGTGCTATGGAGTCGTGGACTTTTGGAAAAGATGCTACT
65 ACGGAGTCTTGGACTTAAAAGGAAAAAGTGCTATGGAGTCGTGGACTTTTGGAAAAGATGCCACT
* ** * * **
1665579 GAGTCGTGGATTTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAA-G-AAAAGA-TGCC
1 GAGTCGTGGA-CTTAAAAGGAAAAAGATGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTGCC
** * * * *
1665641 ACTAAGTCATGGACTT---A-GAAAAGAGATGCCACT-AAGTCGTGGACTTTAGGAAAGAGATGC
65 ACGGAGTCTTGGACTTAAAAGGAAAA-AG-TGCTA-TGGAGTCGTGGACTTTTGGAAA-AGATGC
1665701 CACT
126 CACT
** *
1665705 GAGTCGTGGACTTTGAA-G-AAAAGATGCCACTGAGTCGTGGACTT
1 GAGTCGTGGACTTAAAAGGAAAAAGATGCCACGGAGTCGTGGACTT
1665749 GGAGAAAAGA
Statistics
Matches: 259, Mismatches: 26, Indels: 36
0.81 0.08 0.11
Matches are distributed among these distances:
123 31 0.12
124 3 0.01
125 28 0.11
126 20 0.08
127 17 0.07
128 6 0.02
129 78 0.30
130 57 0.22
133 3 0.01
134 15 0.06
135 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (129 bp):
GAGTCGTGGACTTAAAAGGAAAAAGATGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCA
CGGAGTCTTGGACTTAAAAGGAAAAAGTGCTATGGAGTCGTGGACTTTTGGAAAAGATGCCACT
Found at i:1665592 original size:163 final size:161
Alignment explanation
Indices: 1665308--1665642 Score: 380
Period size: 163 Copynumber: 2.1 Consensus size: 161
1665298 TATTGGACTT
* *
1665308 AAAGGTGCCATGGAGTTGTGGAATTAAAAGGAAAAAGAGTGCCACGGAGTTGAGGACTTAAAAGG
1 AAAGATGCCACGGAGTTGTGGAATTAAAAGGAAAAAGAGTGCCACGGAGTTGAGGACTTAAAAGG
* * * *
1665373 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGTCACGGAGTTGTGGGATTTTAAAA-AGA
66 AAAAAGAGTGCCACGGAGTCGTGGACTTAAAAGGATGTCACGGAGTCGTGGGATTTTAAAAGA-A
*
1665437 AAAAGATGCCAC-GAAGTGGTGGACTTAAAAGGAA
130 AAAAGATGCCACTG-AGTCGTGGACTTAAAA-G-A
* *
1665471 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTCT-TGGACTTAAAAG
1 AAAGATGCCACGGAGTTGTGGAATTAAAAGGAAAAAGAGTGCCACGGAGT-TGAGGACTTAAAAG
* * * **
1665535 G-AAAA-AGTGCTATGGAGTCGTGGACTTTTGGAAAA-GATG-CTACTGAGTCGT-GGATTTTTG
65 GAAAAAGAGTGCCACGGAGTCGTGGAC--TT--AAAAGGATGTC-ACGGAGTCGTGGGATTTTAA
**
1665595 AAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
125 AAGAAAAAAGATGCCACTGAGTCGTGGACTTAAAAGA
1665632 AAAGATGCCAC
1 AAAGATGCCAC
1665643 TAAGTCATGG
Statistics
Matches: 148, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
161 28 0.19
162 5 0.03
163 97 0.66
164 14 0.09
165 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (161 bp):
AAAGATGCCACGGAGTTGTGGAATTAAAAGGAAAAAGAGTGCCACGGAGTTGAGGACTTAAAAGG
AAAAAGAGTGCCACGGAGTCGTGGACTTAAAAGGATGTCACGGAGTCGTGGGATTTTAAAAGAAA
AAAGATGCCACTGAGTCGTGGACTTAAAAGA
Found at i:1665638 original size:31 final size:31
Alignment explanation
Indices: 1665437--1665758 Score: 273
Period size: 31 Copynumber: 10.2 Consensus size: 31
1665427 TTTAAAAAGA
* **
1665437 AAAAGATGCCAC-GAAGTGGTGGACTTAAAAGG
1 AAAAGATGCCACTG-AGTCGTGGACTTTGAA-G
* * **
1665469 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 -AAAAGATGCCACTGAGTCGTGGACTTTGAA-G
* * **
1665502 AAAAAGAGTGCCACGGAGTCTTGGACTTAAAAGG
1 -AAAAGA-TGCCACTGAGTCGTGGACTTTGAA-G
*
1665536 AAAA-AGTGCTA-TGGAGTCGTGGACTTTTG--G
1 AAAAGA-TGCCACT-GAGTCGTGGAC-TTTGAAG
* *
1665566 AAAAGATGCTACTGAGTCGTGGATTTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGA-CTTTGAAG
1665598 AAAAAAGATGCCACTGAGTCGTGGACTTTGAAG
1 --AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
1665631 AAAAGATGCCACTAAGTCATGGACTTAGAA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
1665661 AAGAGATGCCACTAAGTCGTGGACTTT-AGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
1665691 AAAGAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTGAAG
*
1665723 AAAAGATGCCACTGAGTCGTGGAC-TTGGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
1665753 AAAAGA
1 AAAAGA
1665759 GATTTGAAGA
Statistics
Matches: 253, Mismatches: 22, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.00
30 61 0.24
31 73 0.29
32 22 0.09
33 49 0.19
34 47 0.19
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:1665671 original size:61 final size:61
Alignment explanation
Indices: 1665437--1665758 Score: 233
Period size: 61 Copynumber: 5.1 Consensus size: 61
1665427 TTTAAAAAGA
* ** * * * **
1665437 AAAAGATGCCACGAAGTGGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGATGCCACTAAGTCATGGACTT---AGAAAAAAGATGCCACTGAGTCGTGGACTTTGAA-G
** * * *
1665502 AAAAAGAGTGCCACGGAGTCTTGGACTTA-AAAGGAAAAAGTGCTA-TGGAGTCGTGGACTTTTG
1 -AAAAGA-TGCCACTAAGTCATGGACTTAGAAA--AAAGA-TGCCACT-GAGTCGTGGAC-TTTG
1665565 --G
59 AAG
* * * *
1665566 AAAAGATGCTACTGAGTCGTGGATTTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTAAGTCATGGA--CTT--AGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
1665631 AAAAGATGCCACTAAGTCATGGACTTAGAAAAGAGATGCCACTAAGTCGTGGACTTT-AGG
1 AAAAGATGCCACTAAGTCATGGACTTAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
1665691 AAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGAC-TTGGAG
1 AAA-AGATGCCACTAAGTCATGGACTTAGAA-AAAAGATGCCACTGAGTCGTGGACTTTGAAG
1665753 AAAAGA
1 AAAAGA
1665759 GATTTGAAGA
Statistics
Matches: 209, Mismatches: 30, Indels: 39
0.75 0.11 0.14
Matches are distributed among these distances:
60 5 0.02
61 58 0.28
62 40 0.19
63 14 0.07
64 19 0.09
65 30 0.14
66 21 0.10
67 22 0.11
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (61 bp):
AAAAGATGCCACTAAGTCATGGACTTAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:1666947 original size:8 final size:8
Alignment explanation
Indices: 1666934--1666983 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
1666924 TTTTTTTGTG
1666934 TTGTTTTT
1 TTGTTTTT
1666942 TTGTTTTT
1 TTGTTTTT
*
1666950 TTATTTTT
1 TTGTTTTT
*
1666958 TTGTGTTT
1 TTGTTTTT
*
1666966 TT-CTTTT
1 TTGTTTTT
1666973 TTGCTTTTT
1 TTG-TTTTT
1666982 TT
1 TT
1666984 TTGTGTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
7 5 0.15
8 23 0.68
9 6 0.18
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.84
Consensus pattern (8 bp):
TTGTTTTT
Found at i:1666980 original size:24 final size:25
Alignment explanation
Indices: 1666934--1666993 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
1666924 TTTTTTTGTG
* * *
1666934 TTGTTTTTTTGTTTTTTTA-TTTTT
1 TTGTGTTTTTCTTTTTTGATTTTTT
*
1666958 TTGTGTTTTTCTTTTTTGCTTTTTTT
1 TTGTGTTTTTCTTTTTTG-ATTTTTT
1666984 TTGTGTTTTT
1 TTGTGTTTTT
1666994 ACTTGTGACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 15 0.50
26 15 0.50
ACGTcount: A:0.02, C:0.03, G:0.12, T:0.83
Consensus pattern (25 bp):
TTGTGTTTTTCTTTTTTGATTTTTT
Found at i:1666982 original size:26 final size:28
Alignment explanation
Indices: 1666924--1666993 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 28
1666914 CTTTGCACTC
* **
1666924 TTTTTTTGTGTTGTTTTTTTGTTTTTTTA
1 TTTTTTTGTGTT-TTTCTTTGTTTGCTTA
1666953 TTTTTTTGTGTTTTTCTTT-TTTGCTT-
1 TTTTTTTGTGTTTTTCTTTGTTTGCTTA
1666979 TTTTTTTGTGTTTTT
1 TTTTTTTGTGTTTTT
1666994 ACTTGTGACT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.39
27 5 0.13
28 6 0.16
29 12 0.32
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (28 bp):
TTTTTTTGTGTTTTTCTTTGTTTGCTTA
Found at i:1667005 original size:26 final size:25
Alignment explanation
Indices: 1666953--1667008 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
1666943 TGTTTTTTTA
*
1666953 TTTTTTTGTGTTTTTCTTTTTTGCTT
1 TTTTTTTGTGTTTTTC-TTTGTGCTT
1666979 TTTTTTTGTGTTTTTAC-TTGTGACTT
1 TTTTTTTGTGTTTTT-CTTTGTG-CTT
1667005 TTTT
1 TTTT
1667009 ATCATTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 4 0.15
26 22 0.81
27 1 0.04
ACGTcount: A:0.04, C:0.07, G:0.12, T:0.77
Consensus pattern (25 bp):
TTTTTTTGTGTTTTTCTTTGTGCTT
Found at i:1681422 original size:80 final size:79
Alignment explanation
Indices: 1681243--1681409 Score: 187
Period size: 80 Copynumber: 2.1 Consensus size: 79
1681233 ATAAAAAGGG
* * * * * *
1681243 TACTCCAACCCCGTCTTTCCTTCCAAAACATCATATTTTTCATCTTCGAGAGTACTCCAACCCCA
1 TACTTCAACCCCATTTTTACTTCAAAAACATCATATTTTTCATCTTAGAGAGTACTCCAACCCCA
*
1681308 CCATCTTCGAGGGGA
66 CCATCTTC-AGGGAA
*
1681323 TACTTCAACCCCATTTTTACTTCAAAAACA-CTATATTTTTCATCTCTAGGGA-TACTCCAACCC
1 TACTTCAACCCCATTTTTACTTCAAAAACATC-ATATTTTTCATCT-TAGAGAGTACTCCAACCC
* *
1681386 TATCATTCTT-AGGGAA
64 CACCA-TCTTCAGGGAA
1681402 TACTTCAA
1 TACTTCAA
1681410 TCTTGATTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 14 0.19
80 52 0.70
81 8 0.11
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (79 bp):
TACTTCAACCCCATTTTTACTTCAAAAACATCATATTTTTCATCTTAGAGAGTACTCCAACCCCA
CCATCTTCAGGGAA
Found at i:1684681 original size:13 final size:13
Alignment explanation
Indices: 1684663--1684688 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1684653 ACACCAAAGT
1684663 ATGTATCGATACA
1 ATGTATCGATACA
1684676 ATGTATCGATACA
1 ATGTATCGATACA
1684689 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1684686 original size:33 final size:33
Alignment explanation
Indices: 1684644--1684708 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1684634 TAGCCAAACT
* *
1684644 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1684677 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1684709 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1687042 original size:10 final size:9
Alignment explanation
Indices: 1687030--1687080 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
1687020 TTTCTTTCAT
1687030 TTTTTTCTC
1 TTTTTTCTC
1687039 TTTTTTCT-
1 TTTTTTCTC
1687047 TCTTTTT-TC
1 T-TTTTTCTC
1687056 -TTTTTCTC
1 TTTTTTCTC
1687064 TTTTTTCTC
1 TTTTTTCTC
1687073 TTTCTTTC
1 TTT-TTTC
1687081 AGCTGAAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 5 0.14
8 4 0.11
9 24 0.65
10 4 0.11
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:1687059 original size:15 final size:15
Alignment explanation
Indices: 1687041--1687078 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1687031 TTTTTCTCTT
1687041 TTTTCTTCTTTTTTC
1 TTTTCTTCTTTTTTC
1687056 TTTT-TCTCTTTTTTC
1 TTTTCT-TCTTTTTTC
1687071 TCTTTCTT
1 T-TTTCTT
1687079 TCAGCTGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.05
15 14 0.70
16 4 0.20
17 1 0.05
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTCTTTTTTC
Found at i:1687059 original size:25 final size:25
Alignment explanation
Indices: 1687018--1687080 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
1687008 AAACTAGTTA
*
1687018 TTTT-TCTTTCATT-TTTTTCTCTT
1 TTTTCTCTTTCTTTCTTTTTCTCTT
1687041 TTTTCTTCTTT-TTTCTTTTTCTCTT
1 TTTTC-TCTTTCTTTCTTTTTCTCTT
1687066 TTTTCTCTTTCTTTC
1 TTTTCTCTTTCTTTC
1687081 AGCTGAAGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 4 0.11
24 7 0.20
25 24 0.69
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTCTCTTTCTTTCTTTTTCTCTT
Found at i:1689112 original size:86 final size:84
Alignment explanation
Indices: 1688965--1689148 Score: 221
Period size: 86 Copynumber: 2.2 Consensus size: 84
1688955 AATGGTTGAC
* *
1688965 AAGTCAACAAAGGATAAAGAAATTTACTCGGGACGAAGCCGACAGGTAAATAAGGGATAAAAGGT
1 AAGTCAACAAAGGATAAAGAAATTTACTCGGGACGAAGCCGACAGGCAAACAAGGGATAAAAGGT
*
1689030 TAACCAAGGCTGAGAACCGAT
66 TAACCAAGGCT-A-AACCAAT
* * *
1689051 AAGTCAACAAAGGGTAAAGAAGTTTAC-CAGGGACTG-AGCCGACAGGCAAACGA-GGAGTAAAA
1 AAGTCAACAAAGGATAAAGAAATTTACTC-GGGAC-GAAGCCGACAGGCAAACAAGGGA-TAAAA
* * *
1689113 GGTTGACTAGGGCTAAACCAAT
63 GGTTAACCAAGGCTAAACCAAT
1689135 AAGTCAACAAAGGA
1 AAGTCAACAAAGGA
1689149 GTTCACCAGG
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
84 19 0.22
85 5 0.06
86 60 0.71
87 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.14
Consensus pattern (84 bp):
AAGTCAACAAAGGATAAAGAAATTTACTCGGGACGAAGCCGACAGGCAAACAAGGGATAAAAGGT
TAACCAAGGCTAAACCAAT
Found at i:1689351 original size:85 final size:85
Alignment explanation
Indices: 1689232--1690002 Score: 572
Period size: 85 Copynumber: 9.0 Consensus size: 85
1689222 AGGGGATAAA
* * * * *
1689232 GGTTT-CCGAGGACTGAGCCGATAGGTAAATAATGAGATAAAGGTT-AATGGAAGACTAAGCTGA
1 GGTTTACCGAGGACTGAGCTGACAGGTAAACAATGAGATAAAGGTTGACTGG-AGACTGAGCTGA
* *
1689295 TAAGTTACCATAGGTGTAAGG
65 CAAGTCACCATAGGTGTAAGG
* * * *
1689316 GGTTTACCGAGGACTAAGCTGACTGGTAAACAATGAGATAAAGGTTGACCGGAGACTAAGCTGAC
1 GGTTTACCGAGGACTGAGCTGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGAC
* * * *
1689381 ATGTCAGCATAAGTGTTAGG
66 AAGTCACCATAGGTGTAAGG
* * * * * **
1689401 GGTTTATCGAGGACTGAGCCGACAAGTAAACAAGGAGATAAAGGTTAACTAAAGACTGAGCTGAC
1 GGTTTACCGAGGACTGAGCTGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGAC
* *
1689466 AAGTCACCATAAGG-ATAATG
66 AAGTCACCAT-AGGTGTAAGG
* * * * *
1689486 GGTTTACCGGGGACTAAGTTGACAGGTAAACAATAAGATAAAGGTTGACTGGAGACTGAGCTAAC
1 GGTTTACCGAGGACTGAGCTGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGAC
* *
1689551 ATGTCACCATAGAG-GTAATG
66 AAGTCACCATAG-GTGTAAGG
* * * * * *
1689571 GGTTTATCGGGGACTGAG-TCGACAAGTAAACAATGAGATGAAGGTTGACCGGAGACTGAGCTAA
1 GGTTTACCGAGGACTGAGCT-GACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGA
1689635 CAAGTCACCATAGGTGTAAGG
65 CAAGTCACCATAGGTGTAAGG
* * * * * ** * * *
1689656 GGTTTA-CTAGTGACTGAGCTAATAGGTAAACAAAGAGATGAAGGTTGACCAGAGATTGAACTAA
1 GGTTTACCGAG-GACTGAGCTGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGA
* * *
1689720 CAGGTCACTATAGAG-GTAATG
65 CAAGTCACCATAG-GTGTAAGG
* * * * ** * * * *
1689741 GGTTTACCGGGGACTAAGCCGATAGGTAAACAATGAGAGGAAGGTTGACTAGAGAGTCAGTTGAC
1 GGTTTACCGAGGACTGAGCTGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGAC
* * * *
1689806 AGGTCACTAGT-GGGGTAATG
66 AAGTCACCA-TAGGTGTAAGG
* * * * * * *
1689826 GGTTTACTAGGGACTGAGGGAACTGAGCTAATAAGTAAATAATGAGATGAAGGTTGACCGGAGAT
1 GGTTTAC------C-GA-GG-ACTGAGCTGACAGGTAAACAATGAGATAAAGGTTGACTGGAGAC
* **
1689891 TGAGCTGACAAGTCACCATAGGGGTAATA
57 TGAGCTGACAAGTCACCATAGGTGTAAGG
* * * * * *
1689920 GGTTTACC-AGGGACTGAG-TCGATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTAAACTG
1 GGTTTACCGA-GGACTGAGCT-GACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTG
* *
1689983 ACAGGTCACCATAGGAGTAA
64 ACAAGTCACCATAGGTGTAA
1690003 AGGTGTCTCC
Statistics
Matches: 563, Mismatches: 101, Indels: 45
0.79 0.14 0.06
Matches are distributed among these distances:
84 13 0.02
85 466 0.83
86 14 0.02
88 1 0.00
91 1 0.00
92 1 0.00
93 3 0.01
94 64 0.11
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (85 bp):
GGTTTACCGAGGACTGAGCTGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGAC
AAGTCACCATAGGTGTAAGG
Found at i:1689742 original size:255 final size:254
Alignment explanation
Indices: 1689232--1689996 Score: 777
Period size: 255 Copynumber: 3.0 Consensus size: 254
1689222 AGGGGATAAA
* * * * *
1689232 GGTTT-CCGAGGACTGAGCCGATAGGTAAATAATGAGATAAAGGTT-AATGGAAGACTAAGCTGA
1 GGTTTACCGGGGACTAAGCCGACAGGTAAACAATGAGATAAAGGTTGACTGG-AGACTAAGCTGA
* * * * * * ** *
1689295 TAAGTTACCATAGGTGTAAGGGGTTTACCGAGGACTAAGCTGACTGGTAAACAATGAGATAAAGG
65 CAAGTCACCATAGG-GTAATGGGTTTATCGGGGACTGAGCTGACAAGTAAACAATGAGATGAAGG
* * * * * * * *
1689360 TTGACCGGAGACTAAGCTGACATGTCAGCATAAGTGTTAGGGGTTTATCGAGGACTGAGCCGACA
129 TTGACCGGAGACTGAGCTGACAAGTCACCATAGGTGTAAGGGGTTTA-CCAGGACTGAGCTGATA
* * * * * *
1689425 AGTAAACAAGGAGATAAAGGTTAACTAAAGACTGAGCTGACAAGTCACCATA-AGGATAATG
193 AGTAAACAAAGAGATGAAGGTTGACTAGAGACTGAACTGACAGGTCACCATAGAGGATAATG
** * * *
1689486 GGTTTACCGGGGACTAAGTTGACAGGTAAACAATAAGATAAAGGTTGACTGGAGACTGAGCTAAC
1 GGTTTACCGGGGACTAAGCCGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTAAGCTGAC
*
1689551 ATGTCACCATAGAGGTAATGGGTTTATCGGGGACTGAG-TCGACAAGTAAACAATGAGATGAAGG
66 AAGTCACCATAG-GGTAATGGGTTTATCGGGGACTGAGCT-GACAAGTAAACAATGAGATGAAGG
* * *
1689615 TTGACCGGAGACTGAGCTAACAAGTCACCATAGGTGTAAGGGGTTTACTAGTGACTGAGCTAATA
129 TTGACCGGAGACTGAGCTGACAAGTCACCATAGGTGTAAGGGGTTTACCAG-GACTGAGCTGATA
* * * * *
1689680 GGTAAACAAAGAGATGAAGGTTGACCAGAGATTGAACTAACAGGTCACTATAGAGG-TAATG
193 AGTAAACAAAGAGATGAAGGTTGACTAGAGACTGAACTGACAGGTCACCATAGAGGATAATG
* ** * * * *
1689741 GGTTTACCGGGGACTAAGCCGATAGGTAAACAATGAGAGGAAGGTTGACTAGAGAGTCAGTTGAC
1 GGTTTACCGGGGACTAAGCCGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTAAGCTGAC
* * * * * *
1689806 AGGTCACTAGTGGGGTAATGGGTTTACTAGGGACTGAGGGAACTGAGCTAATAAGTAAATAATGA
66 AAGTCACCA-TAGGGTAATGGGTTTA-T-----C-G-GGG-ACTGAGCTGACAAGTAAACAATGA
* * **
1689871 GATGAAGGTTGACCGGAGATTGAGCTGACAAGTCACCATAGGGGTAATAGGTTTACCAGGGACTG
121 GATGAAGGTTGACCGGAGACTGAGCTGACAAGTCACCATAGGTGTAAGGGGTTTACCA-GGACTG
* *
1689936 AG-TCGATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTAAACTGACAGGTCACCATAG
185 AGCT-GATAAGTAAACAAAGAGATGAAGGTTGACTAGAGACTGAACTGACAGGTCACCATAG
1689997 GAGTAAAGGT
Statistics
Matches: 420, Mismatches: 72, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
254 9 0.02
255 265 0.63
256 11 0.03
261 1 0.00
262 1 0.00
263 4 0.01
264 127 0.30
265 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (254 bp):
GGTTTACCGGGGACTAAGCCGACAGGTAAACAATGAGATAAAGGTTGACTGGAGACTAAGCTGAC
AAGTCACCATAGGGTAATGGGTTTATCGGGGACTGAGCTGACAAGTAAACAATGAGATGAAGGTT
GACCGGAGACTGAGCTGACAAGTCACCATAGGTGTAAGGGGTTTACCAGGACTGAGCTGATAAGT
AAACAAAGAGATGAAGGTTGACTAGAGACTGAACTGACAGGTCACCATAGAGGATAATG
Found at i:1689926 original size:179 final size:170
Alignment explanation
Indices: 1689232--1690002 Score: 636
Period size: 170 Copynumber: 4.5 Consensus size: 170
1689222 AGGGGATAAA
* * * * * * * * *
1689232 GGTTT-CCGAGGACTGAGCCGATAGGTAAATAATGAGATAAAGGTT-AATGGAAGACTAAGCTGA
1 GGTTTACCGGGGACTGAGTCGATAAGTAAACAATGAGATGAAGGTTGACTAG-AGACTCAGCTAA
* * * * * * * *
1689295 TAAGTTACCATAGGTGTAAGGGGTTTACCGAG-GACTAAGCTGACT-GGTAAACAATGAGATAAA
65 CAAGTCACCATAGGGGTAAGGGGTTTA-CTAGTGACTGAGCT-AATAAGTAAACAATGAGATGAA
* * * * * * *
1689358 GGTTGACCGGAGACTAAGCTGACATGTCAGCATA-AGTGTTAGG
128 GGTTGACCGGAGATTGAGCTAACAAGTCACCATAGAG-GTAATG
* * * * * * * * * *
1689401 GGTTTATCGAGGACTGAGCCGACAAGTAAACAAGGAGATAAAGGTTAACTAAAGACTGAGCTGAC
1 GGTTTACCGGGGACTGAGTCGATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTCAGCTAAC
* * * ** * * * * * * * *
1689466 AAGTCACCATAAGGATAATGGGTTTACCGGGGACTAAGTTGACAGGTAAACAATAAGATAAAGGT
66 AAGTCACCATAGGGGTAAGGGGTTTACTAGTGACTGAGCTAATAAGTAAACAATGAGATGAAGGT
* * *
1689531 TGACTGGAGACTGAGCTAACATGTCACCATAGAGGTAATG
131 TGACCGGAGATTGAGCTAACAAGTCACCATAGAGGTAATG
* * ** *
1689571 GGTTTATCGGGGACTGAGTCGACAAGTAAACAATGAGATGAAGGTTGACCGGAGACTGAGCTAAC
1 GGTTTACCGGGGACTGAGTCGATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTCAGCTAAC
* * *
1689636 AAGTCACCATAGGTGTAAGGGGTTTACTAGTGACTGAGCTAATAGGTAAACAAAGAGATGAAGGT
66 AAGTCACCATAGGGGTAAGGGGTTTACTAGTGACTGAGCTAATAAGTAAACAATGAGATGAAGGT
* * * *
1689701 TGACCAGAGATTGAACTAACAGGTCACTATAGAGGTAATG
131 TGACCGGAGATTGAGCTAACAAGTCACCATAGAGGTAATG
* * * * * * *
1689741 GGTTTACCGGGGACTAAGCCGATAGGTAAACAATGAGAGGAAGGTTGACTAGAGAGTCAGTTGAC
1 GGTTTACCGGGGACTGAGTCGATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTCAGCTAAC
* * * *
1689806 AGGTCACTAGT-GGGGTAATGGGTTTACTAGGGACTGAGGGAACTGAGCTAATAAGTAAATAATG
66 AAGTCACCA-TAGGGGTAAGGGGTTTACTA--G--T----G-ACTGAGCTAATAAGTAAACAATG
* * *
1689870 AGATGAAGGTTGACCGGAGATTGAGCTGACAAGTCACCATAGGGGTAATA
121 AGATGAAGGTTGACCGGAGATTGAGCTAACAAGTCACCATAGAGGTAATG
* * * *
1689920 GGTTTACCAGGGACTGAGTCGATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTAAACTGAC
1 GGTTTACCGGGGACTGAGTCGATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTCAGCTAAC
* *
1689985 AGGTCACCATAGGAGTAA
66 AAGTCACCATAGGGGTAA
1690003 AGGTGTCTCC
Statistics
Matches: 492, Mismatches: 94, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
169 7 0.01
170 343 0.70
171 5 0.01
172 1 0.00
174 1 0.00
178 2 0.00
179 133 0.27
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (170 bp):
GGTTTACCGGGGACTGAGTCGATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTCAGCTAAC
AAGTCACCATAGGGGTAAGGGGTTTACTAGTGACTGAGCTAATAAGTAAACAATGAGATGAAGGT
TGACCGGAGATTGAGCTAACAAGTCACCATAGAGGTAATG
Found at i:1689932 original size:94 final size:94
Alignment explanation
Indices: 1689766--1689937 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
1689756 AAGCCGATAG
* * * * *
1689766 GTAAACAATGAGAGGAAGGTTGACTAGAGAGTCAGTTGACAGGTCACTAGTGGGGTAATGGGTTT
1 GTAAACAATGAGAGGAAGGTTGACCAGAGAGTCAGCTGACAAGTCACCAGTGGGGTAATAGGTTT
*
1689831 ACTAGGGACTGAGGGAACTGAGCTAATAA
66 ACCAGGGACTGAGGGAACTGAGCTAATAA
* * * * *
1689860 GTAAATAATGAGATGAAGGTTGACCGGAGATTGAGCTGACAAGTCACCA-TAGGGGTAATAGGTT
1 GTAAACAATGAGAGGAAGGTTGACCAGAGAGTCAGCTGACAAGTCACCAGT-GGGGTAATAGGTT
1689924 TACCAGGGACTGAG
65 TACCAGGGACTGAG
1689938 TCGATAAGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
93 1 0.02
94 65 0.98
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (94 bp):
GTAAACAATGAGAGGAAGGTTGACCAGAGAGTCAGCTGACAAGTCACCAGTGGGGTAATAGGTTT
ACCAGGGACTGAGGGAACTGAGCTAATAA
Found at i:1690028 original size:85 final size:85
Alignment explanation
Indices: 1689856--1690037 Score: 215
Period size: 85 Copynumber: 2.1 Consensus size: 85
1689846 AACTGAGCTA
* * * * * *
1689856 ATAAGTAAATAATGAGATGAAGGTTGACCGGAGATTGAGCTGACAAGTCACCATAGGGGTAATAG
1 ATAAGTAAACAATGAGATGAAGGTTGACCAGAGACTAAACTGACAAGTCACCATAGGAGTAATAG
* * *
1689921 GTTTACCAGGGACTGAGTCG
66 GTTTACCAGAGACTAAGCCG
* *
1689941 ATAAGTAAACAATGAGATGAAGGTTGACTAGAGACTAAACTGACAGGTCACCATAGGAGTAA-AG
1 ATAAGTAAACAATGAGATGAAGGTTGACCAGAGACTAAACTGACAAGTCACCATAGGAGTAATAG
*
1690005 GTGTCTCCCA-AGACTAAGCCG
66 GT-T-TACCAGAGACTAAGCCG
*
1690026 ATAGGTAAACAA
1 ATAAGTAAACAA
1690038 AAGATAAAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
84 4 0.05
85 74 0.90
86 4 0.05
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (85 bp):
ATAAGTAAACAATGAGATGAAGGTTGACCAGAGACTAAACTGACAAGTCACCATAGGAGTAATAG
GTTTACCAGAGACTAAGCCG
Found at i:1695930 original size:33 final size:33
Alignment explanation
Indices: 1695885--1695950 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1695875 AAATTCCCAG
*
1695885 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCCATACAAAGAAT-AATGTATCGATACA
**
1695918 ATGTATCCATACATTGAATAATGTATCGATACA
1 ATGTATCCATACAAAGAATAATGTATCGATACA
1695951 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCCATACAAAGAATAATGTATCGATACA
Found at i:1695994 original size:13 final size:13
Alignment explanation
Indices: 1695976--1696001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1695966 GCAGGCAACT
1695976 TTGTATCGATACA
1 TTGTATCGATACA
1695989 TTGTATCGATACA
1 TTGTATCGATACA
1696002 ACATTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1702005 original size:24 final size:24
Alignment explanation
Indices: 1701978--1702032 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
1701968 GCAACTAGGT
1701978 CTCCAACTAGTGCCTCCCGAGATC
1 CTCCAACTAGTGCCTCCCGAGATC
*
1702002 CTCCAGCTAGTGCCTCCCGAGATC
1 CTCCAACTAGTGCCTCCCGAGATC
1702026 CTCCAAC
1 CTCCAAC
1702033 GAGAGCATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.44, G:0.16, T:0.20
Consensus pattern (24 bp):
CTCCAACTAGTGCCTCCCGAGATC
Found at i:1707219 original size:165 final size:166
Alignment explanation
Indices: 1706929--1707229 Score: 471
Period size: 165 Copynumber: 1.8 Consensus size: 166
1706919 GTTATGTTTA
* * * *
1706929 ATTTTATTTCTTTCTCGAAAATATTATTTTGTACCTTAATGGAATCCCAAAAAGAAATGAAAAGT
1 ATTTTATTTATTTCTCAAAAATATTATTTTGTACCTTAATGGAAGCCCAAAAAGAAACGAAAAGT
* *
1706994 TTTTGAAATCTTTTATACCCTTACAGATACCAATAGAAATATAAAAGATTAGAAAAAATGATTAA
66 TTTTGAAATCTTTTATACCCCTACAGATACCAATAGAAATATAAAAGATTAAAAAAAATGATTAA
1707059 AATTTATCTCGATTATAAAAGTGTTAATTTAATTTT
131 AATTTATCTCGATTATAAAAGTGTTAATTTAATTTT
* *
1707095 ATTTTATTTATTT-TCAAAAATATTATTTTGTACCTTAATGGAAGCTCAAAAAGATACGAAAAGT
1 ATTTTATTTATTTCTCAAAAATATTATTTTGTACCTTAATGGAAGCCCAAAAAGAAACGAAAAGT
* * * *
1707159 TTTTGAAATTTTTTATACCCCTACGGATATCAATAGGAATATAAAAGA-TAAAACAAAATGATTA
66 TTTTGAAATCTTTTATACCCCTACAGATACCAATAGAAATATAAAAGATTAAAA-AAAATGATTA
1707223 AAATTTA
130 AAATTTA
1707230 ATTTTTACCA
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
164 4 0.03
165 106 0.87
166 12 0.10
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (166 bp):
ATTTTATTTATTTCTCAAAAATATTATTTTGTACCTTAATGGAAGCCCAAAAAGAAACGAAAAGT
TTTTGAAATCTTTTATACCCCTACAGATACCAATAGAAATATAAAAGATTAAAAAAAATGATTAA
AATTTATCTCGATTATAAAAGTGTTAATTTAATTTT
Found at i:1708195 original size:19 final size:20
Alignment explanation
Indices: 1708167--1708204 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1708157 TTTTCTCTAA
1708167 TTTTTCTCTTTATTTTCTTC
1 TTTTTCTCTTTATTTTCTTC
*
1708187 TTTTT-TCTTTCTTTTCTT
1 TTTTTCTCTTTATTTTCTT
1708205 TTTCTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCTCTTTATTTTCTTC
Found at i:1708229 original size:22 final size:22
Alignment explanation
Indices: 1708157--1708230 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
1708147 AACTAGTTAG
*
1708157 TTTTCTCTAATTTTTCTCTTTATTT
1 TTTTCTCT--TTTCTCTCTTT-TTT
* * * *
1708182 TCTTCTTTTTTCTTTCTTTTCT
1 TTTTCTCTTTTCTCTCTTTTTT
1708204 TTTTCTCTTTTCTCTCTTTTTT
1 TTTTCTCTTTTCTCTCTTTTTT
1708226 TTTTC
1 TTTTC
1708231 AGCCGAAGCT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 25 0.62
23 9 0.22
25 6 0.15
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCTCTTTTCTCTCTTTTTT
Found at i:1712234 original size:16 final size:17
Alignment explanation
Indices: 1712215--1712247 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1712205 AAGTTGACTT
1712215 TTTATAATTGA-TTTTG
1 TTTATAATTGACTTTTG
*
1712231 TTTATAGTTGACTTTTG
1 TTTATAATTGACTTTTG
1712248 ATTTTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.61
Consensus pattern (17 bp):
TTTATAATTGACTTTTG
Found at i:1713233 original size:16 final size:18
Alignment explanation
Indices: 1713204--1713241 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1713194 ACTCGCTGTG
1713204 AAAAAAGATAATTTTT-T
1 AAAAAAGATAATTTTTAT
*
1713221 AAAAAA-ATTATTTTTAT
1 AAAAAAGATAATTTTTAT
1713238 AAAA
1 AAAA
1713242 GTTAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAAAAGATAATTTTTAT
Found at i:1713349 original size:20 final size:19
Alignment explanation
Indices: 1713320--1713391 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
1713310 AATGAGCAAA
*
1713320 TAATTTTTTAAAATTTGAG
1 TAATTTTTTAAAATATGAG
1713339 TAATGTTTTTAAAATATGAG
1 TAAT-TTTTTAAAATATGAG
* * *
1713359 -AGATTTTTTTAAAAAATAAA
1 TA-A-TTTTTTAAAATATGAG
1713379 TAAATTTTTTAAA
1 T-AATTTTTTAAA
1713392 TTTAAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 5 0.11
20 36 0.82
21 2 0.05
22 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (19 bp):
TAATTTTTTAAAATATGAG
Found at i:1713401 original size:18 final size:18
Alignment explanation
Indices: 1713374--1713416 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1713364 TTTTTAAAAA
* *
1713374 ATAAATAAATTTTTTAAAT
1 ATAAA-AAATTATATAAAT
*
1713393 TTAAAAAATTATATAAAT
1 ATAAAAAATTATATAAAT
1713411 ATAAAA
1 ATAAAA
1713417 GTACTTAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAAAATTATATAAAT
Found at i:1713503 original size:77 final size:77
Alignment explanation
Indices: 1713411--1713637 Score: 384
Period size: 77 Copynumber: 2.9 Consensus size: 77
1713401 TTATATAAAT
* * *
1713411 ATAAAAGTACTTAAATGTCTTTAAATATTGGAATTTAAGAAAGTTTCTTGAGGTGAGCTTCTTCT
1 ATAAAAGTACCTAAATGTCTTTAAATATTGGAATTTAGGGAAGTTTCTTGAGGTGAGCTTCTTCT
1713476 AAGCTTCTCGAA
66 AAGCTTCTCGAA
*
1713488 ATAAAAGTACCTAAATGTCTTTAAATATTGGAATTTAGGGAAGTTTCTTGAGGTGAGCTTCTTAT
1 ATAAAAGTACCTAAATGTCTTTAAATATTGGAATTTAGGGAAGTTTCTTGAGGTGAGCTTCTTCT
1713553 AAGCTTCTCGAA
66 AAGCTTCTCGAA
* *
1713565 ATAAAAGTACCTAAATGTCTTTAAATATTGCAATTTAGGGAAGTTTCTTGAGGTGAACTTC-TCA
1 ATAAAAGTACCTAAATGTCTTTAAATATTGGAATTTAGGGAAGTTTCTTGAGGTGAGCTTCTTC-
1713629 TAAGCTTCT
65 TAAGCTTCT
1713638 AGACAAGGTC
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 1 0.01
77 141 0.99
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (77 bp):
ATAAAAGTACCTAAATGTCTTTAAATATTGGAATTTAGGGAAGTTTCTTGAGGTGAGCTTCTTCT
AAGCTTCTCGAA
Found at i:1713744 original size:21 final size:20
Alignment explanation
Indices: 1713704--1713746 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
1713694 TCATAGAATT
*
1713704 ATAAGTTTTATTTTATTTAA
1 ATAAGTTTTATTTTAATTAA
*
1713724 ATAATTTTTATTTTTAATTAA
1 ATAAGTTTTA-TTTTAATTAA
1713745 AT
1 AT
1713747 TTTTGTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATAAGTTTTATTTTAATTAA
Found at i:1715619 original size:22 final size:21
Alignment explanation
Indices: 1715576--1715628 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
1715566 TCTTTTGAAT
*
1715576 AAAACAATA-TATATTCAGTA
1 AAAACAATATTATATTCAATA
*
1715596 AAAACAATATGTATATTTAATA
1 AAAACAATAT-TATATTCAATA
*
1715618 AAAATAATATT
1 AAAACAATATT
1715629 TAGATACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.32
21 1 0.04
22 18 0.64
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAACAATATTATATTCAATA
Found at i:1715838 original size:187 final size:187
Alignment explanation
Indices: 1715596--1716064 Score: 532
Period size: 190 Copynumber: 2.5 Consensus size: 187
1715586 ATATTCAGTA
* * * *
1715596 AAAACAATATGTATATTTAATAAAAATAATATTTAGATACAATATAATTATATATACATATAGTA
1 AAAATAATATGTATATTTAATAAAAATAATATATATATATAATATAATTATATATACATATAGTA
* * * * *
1715661 AAAATAATAATTTTGGC-TAAAAAGTAAGTTATTTTCA-TAAAAAAGTCGATTCTCTTTCTTAAT
66 AAAATAATATTTTTAGCTTAAAAAGTAAGTTACTTT-AGTAAAAAAGTCAATTCTCTTTCTTAAG
* *
1715724 TTATGCATTTTGTGGCCTATG-AGTTAATTCCTATAATAAAAAAATGAATTCTT-TCAAAT
130 TTATGCATTTTGTAGCCTA-GAAGTTAATTCCTATAATAAAAAAATG-ATTATTAT-AAAT
* * * *
1715783 AATATAATATGTATATTTAGTAAAAATAATATATATATATAACATGATTATATATACATATAGTA
1 AAAATAATATGTATATTTAATAAAAATAATATATATATATAATATAATTATATATACATATAGTA
* *
1715848 AAAATAATACTTTTTTAGCTTAAAAAGTAAGTTACTTTAGTGAAAGAGTCAATTCTCTTTCTTAA
66 AAAATAATA--TTTTTAGCTTAAAAAGTAAGTTACTTTAGTAAAAAAGTCAATTCTCTTTCTTAA
* * * * * * ***
1715913 GTTATGCATTTTTTAGCCTAGAAGTTTATTTCTTTCATAAGAGGTTGATTATTATAAAT
129 GTTATGCATTTTGTAGCCTAGAAGTTAATTCCTATAATAAAAAAATGATTATTATAAAT
* * * * * *
1715972 AAAATAATATATATATATCTAATAAAAATAATATGTTTATATAGTATAATTATATGTATATATAG
1 AAAATAATATGTATAT-T-TAATAAAAATAATATATATATATAATATAATTATATATACATATAG
**
1716037 TAAAAATAATATTTTTAATTTAAAAAGT
64 TAAAAATAATATTTTTAGCTTAAAAAGT
1716065 CATTTTTTAT
Statistics
Matches: 236, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
187 66 0.28
189 46 0.19
190 75 0.32
191 49 0.21
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.41
Consensus pattern (187 bp):
AAAATAATATGTATATTTAATAAAAATAATATATATATATAATATAATTATATATACATATAGTA
AAAATAATATTTTTAGCTTAAAAAGTAAGTTACTTTAGTAAAAAAGTCAATTCTCTTTCTTAAGT
TATGCATTTTGTAGCCTAGAAGTTAATTCCTATAATAAAAAAATGATTATTATAAAT
Found at i:1716132 original size:27 final size:28
Alignment explanation
Indices: 1716100--1716155 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
1716090 TTCAAATAAG
*
1716100 ATAATA-TATATTTAATAAAAATAATAT
1 ATAATAGTATATATAATAAAAATAATAT
*
1716127 ATAATATGTATATATAATAAAAATGATAT
1 ATAATA-GTATATATAATAAAAATAATAT
1716156 TTTGAGCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.24
29 19 0.76
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (28 bp):
ATAATAGTATATATAATAAAAATAATAT
Found at i:1717071 original size:16 final size:17
Alignment explanation
Indices: 1717052--1717097 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
1717042 TTAAATAATC
*
1717052 CGAAATC-AATATAACT
1 CGAAATCTAAAATAACT
1717068 CG-AATCTAAAATAACT
1 CGAAATCTAAAATAACT
*
1717084 CAAAAT-TAAAATAA
1 CGAAATCTAAAATAA
1717098 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 19 0.73
17 3 0.12
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.24
Consensus pattern (17 bp):
CGAAATCTAAAATAACT
Found at i:1717146 original size:16 final size:15
Alignment explanation
Indices: 1717086--1717170 Score: 54
Period size: 16 Copynumber: 5.8 Consensus size: 15
1717076 AAATAACTCA
*
1717086 AAATTAAAATAATTTT
1 AAATTAAATTAA-TTT
* *
1717102 AATTTAAAATAATTT
1 AAATTAAATTAATTT
1717117 AAA--AAATTAA---
1 AAATTAAATTAATTT
1717127 AAATTTAAATTAATTT
1 AAA-TTAAATTAATTT
* *
1717143 AAATTAATTTAACTTA
1 AAATTAAATTAA-TTT
*
1717159 AAATTAATTTAA
1 AAATTAAATTAA
1717171 CTCATAATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
10 3 0.05
13 13 0.23
15 13 0.23
16 28 0.49
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATTAAATTAATTT
Found at i:1717159 original size:10 final size:10
Alignment explanation
Indices: 1717100--1717159 Score: 65
Period size: 10 Copynumber: 6.4 Consensus size: 10
1717090 TAAAATAATT
1717100 TTAATTTAAA
1 TTAATTTAAA
*
1717110 ATAATTTAAA
1 TTAATTTAAA
*
1717120 --AAATTAAA
1 TTAATTTAAA
1717128 --AATTTAAA
1 TTAATTTAAA
1717136 TTAATTTAAA
1 TTAATTTAAA
*
1717146 TTAATTTAAC
1 TTAATTTAAA
1717156 TTAA
1 TTAA
1717160 AATTAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
8 14 0.32
10 30 0.68
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
TTAATTTAAA
Found at i:1717162 original size:26 final size:25
Alignment explanation
Indices: 1717087--1717170 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 25
1717077 AATAACTCAA
* *
1717087 AATTAAAATAATTTTAATTTAAAA-T
1 AATTTAAATAA-TTTAAATTAAAATT
* * *
1717112 AATTTAAAAAATTAAAAATTTAAATT
1 AATTTAAATAATT-TAAATTAAAATT
*
1717138 AATTTAAATTAATTTAACTTAAAATT
1 AATTTAAA-TAATTTAAATTAAAATT
1717164 AATTTAA
1 AATTTAA
1717171 CTCATAATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 2 0.04
25 16 0.34
26 25 0.53
27 4 0.09
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTTAAATAATTTAAATTAAAATT
Found at i:1717179 original size:16 final size:16
Alignment explanation
Indices: 1717143--1717181 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1717133 AAATTAATTT
*
1717143 AAATTAATTTAACTTA
1 AAATTAATTTAACTCA
1717159 AAATTAATTTAACTCA
1 AAATTAATTTAACTCA
*
1717175 TAATTAA
1 AAATTAA
1717182 CACGTCTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAATTTAACTCA
Found at i:1718156 original size:4 final size:4
Alignment explanation
Indices: 1718147--1718172 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1718137 CATGATATAA
1718147 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
1718173 TATTATAATA
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):
AAAT
Found at i:1718180 original size:16 final size:16
Alignment explanation
Indices: 1718147--1718196 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
1718137 CATGATATAA
*
1718147 AAATAAATAA-ATAAAT
1 AAATAAATAATAT-TAT
1718163 AAATAAATAATATTAT
1 AAATAAATAATATTAT
1718179 -AAT--ATAATATTAT
1 AAATAAATAATATTAT
1718192 AAATA
1 AAATA
1718197 TATTAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.33
14 3 0.10
15 3 0.10
16 12 0.40
17 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAAATAATATTAT
Found at i:1718187 original size:13 final size:12
Alignment explanation
Indices: 1718165--1718201 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
1718155 AAATAAATAA
1718165 ATAAATAATATT
1 ATAAATAATATT
1718177 ATAATATAATATT
1 ATAA-ATAATATT
1718190 ATAAAT-ATATT
1 ATAAATAATATT
1718201 A
1 A
1718202 AATTATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAAATAATATT
Found at i:1718204 original size:34 final size:34
Alignment explanation
Indices: 1718157--1718241 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 34
1718147 AAATAAATAA
* *
1718157 ATAAATA-AATAAATAATATTATA-A-TATAATATT
1 ATAAATATATTAAAT-ATATTATATATTAAAAT-TT
1718190 ATAAATATATTAAAT-TATTATATATTAAAATTT
1 ATAAATATATTAAATATATTATATATTAAAATTT
*
1718223 ATTAAAAATATTAAATATA
1 A-TAAATATATTAAATATA
1718242 AAATTTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
32 7 0.16
33 11 0.25
34 24 0.55
35 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (34 bp):
ATAAATATATTAAATATATTATATATTAAAATTT
Found at i:1718246 original size:25 final size:25
Alignment explanation
Indices: 1718184--1718247 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
1718174 ATTATAATAT
* *
1718184 AATATTATAAATATATTAAATTATTA
1 AATATTA-AAATTTATTAAAATATTA
*
1718210 TATATTAAAATTTATTAAAAATATTA
1 AATATTAAAATTTATT-AAAATATTA
1718236 AATA-TAAAATTT
1 AATATTAAAATTT
1718248 TTTATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 16 0.48
26 17 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AATATTAAAATTTATTAAAATATTA
Found at i:1718284 original size:31 final size:31
Alignment explanation
Indices: 1718249--1718311 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
1718239 ATAAAATTTT
*
1718249 TTATTT-TTAAAAAATTTTATATAAATTTAAA
1 TTATTTCTTAAAAAA-TTTAAATAAATTTAAA
* *
1718280 TTATTTCTTTATAAATTTAAATAAATTTAAA
1 TTATTTCTTAAAAAATTTAAATAAATTTAAA
1718311 T
1 T
1718312 AAATAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
TTATTTCTTAAAAAATTTAAATAAATTTAAA
Found at i:1718323 original size:10 final size:10
Alignment explanation
Indices: 1718254--1718315 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
1718244 ATTTTTTATT
1718254 TTTAAA-AAA
1 TTTAAATAAA
*
1718263 TTTTATATAAA
1 -TTTAAATAAA
* *
1718274 TTTAAATTAT
1 TTTAAATAAA
**
1718284 TTCTTTATAAA
1 TT-TAAATAAA
1718295 TTTAAATAAA
1 TTTAAATAAA
1718305 TTTAAATAAA
1 TTTAAATAAA
1718315 T
1 T
1718316 AAATATAATA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
10 31 0.77
11 9 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTAAATAAA
Found at i:1719662 original size:14 final size:15
Alignment explanation
Indices: 1719643--1719672 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1719633 ACTCAATCAA
1719643 TCAAA-TTTTATTTT
1 TCAAATTTTTATTTT
1719657 TCAAATTTTTATTTT
1 TCAAATTTTTATTTT
1719672 T
1 T
1719673 GATATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TCAAATTTTTATTTT
Found at i:1723131 original size:13 final size:13
Alignment explanation
Indices: 1723113--1723138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1723103 TACAGCAAGT
1723113 ATGTATCGATACA
1 ATGTATCGATACA
1723126 ATGTATCGATACA
1 ATGTATCGATACA
1723139 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1725400 original size:21 final size:22
Alignment explanation
Indices: 1725354--1725398 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1725344 TTGCAAGTTG
1725354 AAATAAAGAAGTTAGCTAATGA
1 AAATAAAGAAGTTAGCTAATGA
*
1725376 AAATAATG-AGTTAGCTAA-GA
1 AAATAAAGAAGTTAGCTAATGA
1725396 AAA
1 AAA
1725399 ATGAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAATGA
Found at i:1727364 original size:13 final size:13
Alignment explanation
Indices: 1727346--1727384 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1727336 ACATTTTTCT
1727346 TTGTATCGATACA
1 TTGTATCGATACA
1727359 TTGTATCGATACA
1 TTGTATCGATACA
*
1727372 CTGTATCGATACA
1 TTGTATCGATACA
1727385 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1727548 original size:20 final size:20
Alignment explanation
Indices: 1727505--1727550 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1727495 AAATCTTTTG
1727505 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1727526 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1727546 CAAAA
1 CAAAA
1727551 CCAGCATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1729886 original size:13 final size:13
Alignment explanation
Indices: 1729868--1729893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1729858 TACAGCAAGT
1729868 ATGTATCGATACA
1 ATGTATCGATACA
1729881 ATGTATCGATACA
1 ATGTATCGATACA
1729894 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1731183 original size:63 final size:62
Alignment explanation
Indices: 1731085--1731206 Score: 226
Period size: 63 Copynumber: 2.0 Consensus size: 62
1731075 CTATATGGAG
*
1731085 TAACTGTTTCAGGACAAAAAAGGAAGGTGTGCAAGCTTGTTAAATCATTATATGGTTTAGAA
1 TAACTGTTTCAGGACAAAAAAGGAAGGTGTGCAAGCTTATTAAATCATTATATGGTTTAGAA
1731147 TAACTGTTTCAGGACCAAAAAAGGAAGGTGTGCAAGCTTATTAAATCATTATATGGTTTA
1 TAACTGTTTCAGGA-CAAAAAAGGAAGGTGTGCAAGCTTATTAAATCATTATATGGTTTA
1731207 AAACAAATAC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 14 0.24
63 44 0.76
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (62 bp):
TAACTGTTTCAGGACAAAAAAGGAAGGTGTGCAAGCTTATTAAATCATTATATGGTTTAGAA
Found at i:1731823 original size:165 final size:165
Alignment explanation
Indices: 1731545--1731877 Score: 576
Period size: 165 Copynumber: 2.0 Consensus size: 165
1731535 ACCAATATGG
* *
1731545 CTAAAACACCCATAAATGTTAATGTACATCTAACAAAGCATACTAGTCATGCGATATTTTAGGTA
1 CTAAAACACCCATAAATGTTAATATACATCTAACAAAGCATACTAGTCATGCAATATTTTAGGTA
* * *
1731610 AAATATTTGTGAATAATTAGTACTCTAATGTATATTGTGAACTGCACAAGACTAGGCATAGCTTA
66 AAATATTTGTGAATAATCAATACTCTAATGTATATTGTGAACTGCACAAGACTAGACATAGCTTA
* *
1731675 CTCAGTAAGTAAACTTAGTAGATTCACGAGCAATC
131 CTCAATAAATAAACTTAGTAGATTCACGAGCAATC
1731710 CTAAAACACCCATAAATGTTAATATACATCTAACAAAGCATACTAGTCATGCAATATTTTAGGTA
1 CTAAAACACCCATAAATGTTAATATACATCTAACAAAGCATACTAGTCATGCAATATTTTAGGTA
* *
1731775 AAATATTTGTGAATAATCAATACTCTAATGTATATTGTGAATTGCACAAGACTAGACATAGTTTA
66 AAATATTTGTGAATAATCAATACTCTAATGTATATTGTGAACTGCACAAGACTAGACATAGCTTA
*
1731840 CTCAATAAATAAACTTAGTAGGTTCACGAGCAATC
131 CTCAATAAATAAACTTAGTAGATTCACGAGCAATC
1731875 CTA
1 CTA
1731878 GAAAGGATCA
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 158 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (165 bp):
CTAAAACACCCATAAATGTTAATATACATCTAACAAAGCATACTAGTCATGCAATATTTTAGGTA
AAATATTTGTGAATAATCAATACTCTAATGTATATTGTGAACTGCACAAGACTAGACATAGCTTA
CTCAATAAATAAACTTAGTAGATTCACGAGCAATC
Found at i:1732950 original size:56 final size:56
Alignment explanation
Indices: 1732864--1733025 Score: 288
Period size: 56 Copynumber: 2.9 Consensus size: 56
1732854 CGAGTAAATT
*
1732864 CGATAGTTATCGCTATGGAAGGTTCAAGGCCAAAAGCTACTTATCCTGATGCAAAC
1 CGATAGTTGTCGCTATGGAAGGTTCAAGGCCAAAAGCTACTTATCCTGATGCAAAC
* *
1732920 CGATAGTTGTCGCTATGGAAGGTTCCAGGCCAAAAGCTACTTATCCTGATGCAATC
1 CGATAGTTGTCGCTATGGAAGGTTCAAGGCCAAAAGCTACTTATCCTGATGCAAAC
*
1732976 CAATAGTTGTCGCTATGGAAGGTTCAAGGCCAAAAGCTACTTATCCTGAT
1 CGATAGTTGTCGCTATGGAAGGTTCAAGGCCAAAAGCTACTTATCCTGAT
1733026 ACAACGACTC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 101 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (56 bp):
CGATAGTTGTCGCTATGGAAGGTTCAAGGCCAAAAGCTACTTATCCTGATGCAAAC
Found at i:1733430 original size:26 final size:27
Alignment explanation
Indices: 1733349--1733423 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
1733339 TGAAACCTTT
*
1733349 TTTGGTTTTTGATTAAAACCAACAT-TT-
1 TTTGGGTTTTGATTAAAA-CAA-ATGTTA
* *
1733376 CTT-GGTTTTGATTAAAGCAAATGTTA
1 TTTGGGTTTTGATTAAAACAAATGTTA
1733402 TTTGGGTTTTG-TTAAAACAAAT
1 TTTGGGTTTTGATTAAAACAAAT
1733424 TTAATTTCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
24 2 0.05
25 5 0.12
26 24 0.60
27 9 0.22
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (27 bp):
TTTGGGTTTTGATTAAAACAAATGTTA
Found at i:1741969 original size:87 final size:86
Alignment explanation
Indices: 1741663--1742097 Score: 371
Period size: 87 Copynumber: 4.9 Consensus size: 86
1741653 TCAAAAAATT
* * * * *
1741663 TTCAAAATTTTCTTTCGTATAATTTTATCATTAGGAAAACTCCATCCCCATTGCTTC-GAGAGGG
1 TTCAAACTTTTC-TTCGTATAATTTTATCCTT-GGGAAACTCCATCCCCATT-ATTCTAAG-GGG
* *
1741727 -TACTTCAACCTTGCTC-TTCAAAAAAAA
62 ATACTCCAACC---C-CATTCTAAAAAAA
* * * * *
1741754 TTCAAA-TTTTCCCTT-GTATAATTTTGTCCTTGGGGAAGCTCTATCCCTATT-TCTCTGAGGGG
1 TTCAAACTTTT--CTTCGTATAATTTTATCCTT-GGGAAACTCCATCCCCATTAT-TCTAAGGGG
* * *
1741816 ATACTCCAATCCCGTTTTAATAAAAAA
62 ATACTCCAACCCCATTCT-A-AAAAAA
* *
1741843 TTCAAAATTTTCTTTCGTATAATTTTATCCTTAGAGAAACTCCATCCCCATTATTCTAAGGGGAT
1 TTCAAACTTTTC-TTCGTATAATTTTATCCTT-GGGAAACTCCATCCCCATTATTCTAAGGGGAT
**
1741908 ACTCCAACCCCATTCTAACCAAA
64 ACTCCAACCCCATTCTAAAAAAA
* * * *
1741931 TTTAAACTTTTCTTCGTATAATTTTATCATTGGTGAAACTTCATCCCCATTATTCCAAGGGGATA
1 TTCAAACTTTTCTTCGTATAATTTTATCCTTGG-GAAACTCCATCCCCATTATTCTAAGGGGATA
* *
1741996 CTCCAACCTCATTCTAATAAAA
65 CTCCAACCCCATTCTAAAAAAA
* * * * *
1742018 TTCAAACTTTTCTTCGTACAATTATATCCTTAGGGAAATTCCATCCCCGTTATTCTGAA-AGGAT
1 TTCAAACTTTTCTTCGTATAATTTTATCCTT-GGGAAACTCCATCCCCATTATTCT-AAGGGGAT
*
1742082 ACTCCAACCCCGTTCT
64 ACTCCAACCCCATTCT
1742098 TCATAAAAAA
Statistics
Matches: 286, Mismatches: 43, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
86 2 0.01
87 132 0.46
88 21 0.07
89 20 0.07
90 101 0.35
91 9 0.03
92 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (86 bp):
TTCAAACTTTTCTTCGTATAATTTTATCCTTGGGAAACTCCATCCCCATTATTCTAAGGGGATAC
TCCAACCCCATTCTAAAAAAA
Found at i:1753303 original size:11 final size:11
Alignment explanation
Indices: 1753279--1753312 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1753269 CTAGTTTATC
1753279 TTATAAATATAA
1 TTATAAA-ATAA
*
1753291 TTATCAAATAA
1 TTATAAAATAA
1753302 TTATAAAATAA
1 TTATAAAATAA
1753313 GATAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TTATAAAATAA
Found at i:1754774 original size:21 final size:21
Alignment explanation
Indices: 1754748--1754802 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1754738 CATAAACAAA
1754748 TGTATCGATACATTTACT-ATT
1 TGTATCGATACATTTACTCA-T
* *
1754769 TGTATCAATACA-TTATTCAT
1 TGTATCGATACATTTACTCAT
1754789 TGTATCGATACATT
1 TGTATCGATACATT
1754803 CTGGGTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATTTACTCAT
Found at i:1758777 original size:18 final size:17
Alignment explanation
Indices: 1758745--1758811 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 17
1758735 TTATAAAATT
*
1758745 AAAATAATAATAAAACGAA
1 AAAATAA-AAAAAAAC-AA
1758764 AAAATAAAAAAAAATCAAA
1 AAAATAAAAAAAAA-C-AA
* * *
1758783 AAAATTAAAATAATCAA
1 AAAATAAAAAAAAACAA
1758800 AAAATAAAAAAA
1 AAAATAAAAAAA
1758812 TAATTAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 12 0.30
18 7 0.17
19 21 0.52
ACGTcount: A:0.79, C:0.04, G:0.01, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAAAAACAA
Found at i:1758784 original size:19 final size:19
Alignment explanation
Indices: 1758762--1758827 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 19
1758752 TAATAAAACG
1758762 AAAAAATAAAAAAAAATCA
1 AAAAAATAAAAAAAAATCA
* *
1758781 AAAAAAT-TAAAATAATC-
1 AAAAAATAAAAAAAAATCA
*
1758798 AAAAAATAAAAAAATAATTA
1 AAAAAATAAAAAAA-AATCA
*
1758818 AAAAATTAAA
1 AAAAAATAAA
1758828 TTAAAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 7 0.18
18 12 0.32
19 10 0.26
20 9 0.24
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAATAAAAAAAAATCA
Found at i:1758792 original size:25 final size:25
Alignment explanation
Indices: 1758764--1758812 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1758754 ATAAAACGAA
1758764 AAAATAA-AAAAAAATCAAAAAAATT
1 AAAATAATAAAAAAAT-AAAAAAATT
*
1758789 AAAATAATCAAAAAATAAAAAAAT
1 AAAATAATAAAAAAATAAAAAAAT
1758813 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (25 bp):
AAAATAATAAAAAAATAAAAAAATT
Found at i:1758810 original size:44 final size:45
Alignment explanation
Indices: 1758739--1758823 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
1758729 CTTTTTTTAT
*
1758739 AAAATTAAAATAATAATAAAACGAAAAAATAA-AAAAAAATCAAA
1 AAAATTAAAATAATAATAAAACAAAAAAATAATAAAAAAATCAAA
* *
1758783 AAAATTAAAATAATCAA-AAAATAAAAAAATAATTAAAAAAT
1 AAAATTAAAATAAT-AATAAAACAAAAAAATAATAAAAAAAT
1758824 TAAATTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 27 0.75
45 9 0.25
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.19
Consensus pattern (45 bp):
AAAATTAAAATAATAATAAAACAAAAAAATAATAAAAAAATCAAA
Found at i:1758838 original size:36 final size:36
Alignment explanation
Indices: 1758745--1758838 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
1758735 TTATAAAATT
1758745 AAAA-TAATAATAAAACGAAAAAATAAAAAAAAATCAAA
1 AAAATTAA-AATAAAA--AAAAAATAAAAAAAAATCAAA
** *
1758783 AAAATTAAAATAATCAAAAAATAAAAAAATAAT-TAA
1 AAAATTAAAATAAAAAAAAAATAAAAAAA-AATCAAA
*
1758819 AAAATTAAATTAAAAAAAAA
1 AAAATTAAAATAAAAAAAAA
1758839 GAGGGGGAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
36 33 0.69
37 3 0.06
38 9 0.19
39 3 0.06
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (36 bp):
AAAATTAAAATAAAAAAAAAATAAAAAAAAATCAAA
Found at i:1759539 original size:28 final size:30
Alignment explanation
Indices: 1759493--1759559 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
1759483 AAACAACAAT
* *
1759493 GTGAACAGCAATGATG-AA-ATGCAGCAAC
1 GTGAACAGCAATAAAGAAATATGCAGCAAC
*
1759521 GTGAACAGTAATAAAGAAATATGCAGCAAC
1 GTGAACAGCAATAAAGAAATATGCAGCAAC
*
1759551 -CGAACAGCA
1 GTGAACAGCA
1759560 TGGGAGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 13 0.41
29 9 0.28
30 10 0.31
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (30 bp):
GTGAACAGCAATAAAGAAATATGCAGCAAC
Found at i:1760410 original size:113 final size:115
Alignment explanation
Indices: 1760242--1760450 Score: 359
Period size: 113 Copynumber: 1.8 Consensus size: 115
1760232 GTTTAAGTGC
* * *
1760242 ATGAAAATCCATAATATTCATAAAAAAACAAAACAAAAATTTAGGATTCTGATGTTCTTGTAATC
1 ATGAAAATCCATAAAATTCAT-AAAAAACAAAACAAAAATTTAGGATTCTAATGTTCATGTAATC
1760307 ATCGTGATAGCCCTTGTTCATGCATTTTTTTAGTTCCATGCATCTTTCATG
65 ATCGTGATAGCCCTTGTTCATGCATTTTTTTAGTTCCATGCATCTTTCATG
*
1760358 ATGAAAATCCATAAAATTCAT-AAAAA-AAAACAAAAATTTAGGATTTTAATGTTCATGTAATCA
1 ATGAAAATCCATAAAATTCATAAAAAACAAAACAAAAATTTAGGATTCTAATGTTCATGTAATCA
1760421 TCGTGATAGCCCTTGTTCATGCATTTTTTT
66 TCGTGATAGCCCTTGTTCATGCATTTTTTT
1760451 TTTCATGTTC
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
113 64 0.72
114 5 0.06
116 20 0.22
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (115 bp):
ATGAAAATCCATAAAATTCATAAAAAACAAAACAAAAATTTAGGATTCTAATGTTCATGTAATCA
TCGTGATAGCCCTTGTTCATGCATTTTTTTAGTTCCATGCATCTTTCATG
Found at i:1764896 original size:539 final size:539
Alignment explanation
Indices: 1763880--1765499 Score: 2724
Period size: 539 Copynumber: 3.0 Consensus size: 539
1763870 ACTTCATTCA
* *
1763880 TTCAATTGTTTGGATCATGCACCCACATCATTAGTCACTCATCATCGTGATCTCATATCCATTGT
1 TTCAATTGTCTGGAGCATGCACCCACATCATTAGTCACTCATCATCGTGATCTCATATCCATTGT
* * * *
1763945 CATTTCATCATGAACTCATATAAAATGAAAGTCTAATACAGGAATGGCTATAAAAAGTGTAAGGG
66 CATTTCATCATGAACTCATATAGAATGAAAGTCTGATACGGGAATGGCCATAAAAAGTGTAAGGG
* * ** *
1764010 ATCTTAAGATCAATTAAGGGAATA-GGAATCAAGCATACTGCATTGCTACAACACACGATGCCAC
131 ATCTTAAGATCAATTAAGGAAACACGGAATCAAGCATACTGCATCACTACAACACACGATGCCGC
*
1764074 AAGCAAATCATGGAGAACGACCATCAGGCAAGGATAGAGCGGCTTGAGTTGATGTACAAGGAATC
196 AAGCAAATCATGGAGAACGACCATCAGGCAAGGATAGAGCGGCTTAAGTTGATGTACAAGGAATC
* *
1764139 ACAAGAGCAGATGAATTGTCGACAAGATGAAATGTAAGCTCAAATAATGAAGCTCATGGAAATTA
261 ACAAGAGCAGATGAATCGTCGACAAGATGAAATGTAGGCTCAAATAATGAAGCTCATGGAAATTA
*
1764204 TGATGGCACCCTTAAAAGAAAAAGGGCAAGCCAACACTATTAAAATGGGGAATGATCCTCCCAAC
326 TGACGGCACCCTTAAAAGAAAAAGGGCAAGCCAACACTATTAAAATGGGGAATGATCCTCCCAAC
*
1764269 ACTAGAAGTCCTTCTTCTAGTAATCCAGAACTTGCCCAAGGGGAGACTAGACAAGAACCACGGCC
391 ACTAGAAGTCCTTCTGCTAGTAATCCAGAACTTGCCCAAGGGGAGACTAGACAAGAACCACGGCC
1764334 TGCTTCTACACCACCAGTCATCTACCTAAACCCCATTACGGTGAGCCAATTCATCCTTGGTACTC
456 TGCTTCTACACCACCAGTCATCTACCTAAACCCCATTACGGTGAGCCAATTCATCCTTGGTACTC
1764399 AAGGGATAAATGTAGGAGT
521 AAGGGATAAATGTAGGAGT
* *
1764418 TTCAATTGTCTAGAGCATGCACCCACATCATTAGTCACTCATCATCATGATCTCATATCCATTGT
1 TTCAATTGTCTGGAGCATGCACCCACATCATTAGTCACTCATCATCGTGATCTCATATCCATTGT
1764483 CATTTCATCATGAACTCATATAGAATGAAAGTCTGATACGGGAATGGCCATAAAAAGTGTAAGGG
66 CATTTCATCATGAACTCATATAGAATGAAAGTCTGATACGGGAATGGCCATAAAAAGTGTAAGGG
* *
1764548 ATCTTAAGATCAATTAAGGAAACACGGAATCAAGCATACTGCATCACTACAACACACGACGCTGC
131 ATCTTAAGATCAATTAAGGAAACACGGAATCAAGCATACTGCATCACTACAACACACGATGCCGC
* * *
1764613 AAGCAAATCATGGAGAATGACCATCAGGCAAGGATAGAACGGCTTAATTTGATGTACAAGGAATC
196 AAGCAAATCATGGAGAACGACCATCAGGCAAGGATAGAGCGGCTTAAGTTGATGTACAAGGAATC
1764678 ACAAGAGCAGATGAATCGTCGACAAGATGAAATGTAGGCTCAAATAATGAAGCTCATGGAAATTA
261 ACAAGAGCAGATGAATCGTCGACAAGATGAAATGTAGGCTCAAATAATGAAGCTCATGGAAATTA
*
1764743 TGACGGCACCCTTAAAAGAAAAAGGGCAAGCCAACACTACTAAAATGGGGAATGATCCTCCCAAC
326 TGACGGCACCCTTAAAAGAAAAAGGGCAAGCCAACACTATTAAAATGGGGAATGATCCTCCCAAC
* *
1764808 ACAAGAAGTCCTTCTGCTAGTAATCCAGAACCTGCCCAAGGGGAGACTAGACAAGAACCACGGCC
391 ACTAGAAGTCCTTCTGCTAGTAATCCAGAACTTGCCCAAGGGGAGACTAGACAAGAACCACGGCC
* *
1764873 TGCTTCTACACCACCTGTCATCTACCTAAACCCCATTACGGTAAGCCAATTCATCCTTGGTACTC
456 TGCTTCTACACCACCAGTCATCTACCTAAACCCCATTACGGTGAGCCAATTCATCCTTGGTACTC
1764938 AAGGGATAAATGTAGGAGT
521 AAGGGATAAATGTAGGAGT
* * * *
1764957 TTCAATTGCCTGGAGCATGCACCAACATCATTAGTCACTCATCACCGTGATCTCATATCCATTAT
1 TTCAATTGTCTGGAGCATGCACCCACATCATTAGTCACTCATCATCGTGATCTCATATCCATTGT
1765022 CATTTCATCATGAACTCATATAGAATGAAAGTCTGATACGGGAATGGCCATAAAAAGTGTAAGGG
66 CATTTCATCATGAACTCATATAGAATGAAAGTCTGATACGGGAATGGCCATAAAAAGTGTAAGGG
* *
1765087 ATCTTAAGATCAATTAAGGAAACACGAAATCAAGCATACTGCATCACTACAACACATGATGCCGC
131 ATCTTAAGATCAATTAAGGAAACACGGAATCAAGCATACTGCATCACTACAACACACGATGCCGC
* *
1765152 AAGCAAATCATGGAGAACGACCATTAGGCAAGGATAGAGCGGTTTAAGTTGATGTACAAGGAATC
196 AAGCAAATCATGGAGAACGACCATCAGGCAAGGATAGAGCGGCTTAAGTTGATGTACAAGGAATC
* * *
1765217 ACAAGAGCAGTTGAATCGTCGACAAGATGAAATGCAGGCTCAAATAATGAAGCTCATGGAAGTTA
261 ACAAGAGCAGATGAATCGTCGACAAGATGAAATGTAGGCTCAAATAATGAAGCTCATGGAAATTA
* *
1765282 TGACGGCACCAC-TAAAAGAAAAAAGGCAAGCCAACACTATTGAAATGGGGAATGATCCTCCCAA
326 TGACGGCACC-CTTAAAAGAAAAAGGGCAAGCCAACACTATTAAAATGGGGAATGATCCTCCCAA
* * * * *
1765346 CACTAGAAGTCTTTTTGCTAGCAATCCAAAACTTGCCCAAGGGGAGACTAGACAAGAACCACGAC
390 CACTAGAAGTCCTTCTGCTAGTAATCCAGAACTTGCCCAAGGGGAGACTAGACAAGAACCACGGC
* * * * * *
1765411 CTAG-TCCTACACCACCAATCATCTACCTAAATCCCATTACGGCGAGCCAATTCATCCTCGATAC
455 CT-GCTTCTACACCACCAGTCATCTACCTAAACCCCATTACGGTGAGCCAATTCATCCTTGGTAC
*
1765475 TCAAGGGATAAATGTACGAGT
519 TCAAGGGATAAATGTAGGAGT
1765496 TTCA
1 TTCA
1765500 CCAGTTGATC
Statistics
Matches: 1014, Mismatches: 65, Indels: 5
0.94 0.06 0.00
Matches are distributed among these distances:
538 144 0.14
539 868 0.86
540 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (539 bp):
TTCAATTGTCTGGAGCATGCACCCACATCATTAGTCACTCATCATCGTGATCTCATATCCATTGT
CATTTCATCATGAACTCATATAGAATGAAAGTCTGATACGGGAATGGCCATAAAAAGTGTAAGGG
ATCTTAAGATCAATTAAGGAAACACGGAATCAAGCATACTGCATCACTACAACACACGATGCCGC
AAGCAAATCATGGAGAACGACCATCAGGCAAGGATAGAGCGGCTTAAGTTGATGTACAAGGAATC
ACAAGAGCAGATGAATCGTCGACAAGATGAAATGTAGGCTCAAATAATGAAGCTCATGGAAATTA
TGACGGCACCCTTAAAAGAAAAAGGGCAAGCCAACACTATTAAAATGGGGAATGATCCTCCCAAC
ACTAGAAGTCCTTCTGCTAGTAATCCAGAACTTGCCCAAGGGGAGACTAGACAAGAACCACGGCC
TGCTTCTACACCACCAGTCATCTACCTAAACCCCATTACGGTGAGCCAATTCATCCTTGGTACTC
AAGGGATAAATGTAGGAGT
Found at i:1769064 original size:30 final size:32
Alignment explanation
Indices: 1769028--1769104 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 32
1769018 TGGCACCCTC
* *
1769028 TTAAAGTCCACGACT-TAGTGGCA-TTTC-TTT
1 TTAAAGTCCACAACTAT-GTGGCACCTTCTTTT
*
1769058 TTAAAGTCCATAACTATGTGGCACCTTCTTTT
1 TTAAAGTCCACAACTATGTGGCACCTTCTTTT
1769090 TTAAAGTCCACAACT
1 TTAAAGTCCACAACT
1769105 CCATAGCACC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 19 0.47
31 4 0.10
32 17 0.43
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (32 bp):
TTAAAGTCCACAACTATGTGGCACCTTCTTTT
Found at i:1769171 original size:31 final size:31
Alignment explanation
Indices: 1769143--1769654 Score: 357
Period size: 31 Copynumber: 16.5 Consensus size: 31
1769133 ACAAGTTGTT
*
1769143 GGCACCCTAGTCAAAGCTCGCACGAGTTGAC
1 GGCACCCTAGTCAAAGCTCGCACGAGTTGGC
* * * * *
1769174 GGCA-CCTAAGTTAAAGCCCACACAAGTTGGT
1 GGCACCCT-AGTCAAAGCTCGCACGAGTTGGC
* *
1769205 GGCACCCTAGTCAAAACTCGCACGAATTGGC
1 GGCACCCTAGTCAAAGCTCGCACGAGTTGGC
* ** * *
1769236 GGCA-CCTAAGTTAAAGC-CATACAAGTTGGT
1 GGCACCCT-AGTCAAAGCTCGCACGAGTTGGC
** *
1769266 GGCACTTTAGTCAAAGC-CTACACGAGTTGGC
1 GGCACCCTAGTCAAAGCTC-GCACGAGTTGGC
* * * *
1769297 GGTA-CTTGAGTCAAAGCCCGCATGAGTTGGC
1 GGCACCCT-AGTCAAAGCTCGCACGAGTTGGC
* * * *
1769328 GGCA-CCTAAGTCGAAGC-CTACACAAGTTGGT
1 GGCACCCT-AGTCAAAGCTC-GCACGAGTTGGC
*
1769359 GGCACCTTAGTCAAAGCTCGCACGAGTTGGC
1 GGCACCCTAGTCAAAGCTCGCACGAGTTGGC
* * * * * *
1769390 GACA-CCTAAGTTAAAGCCCACACAAGTTGGT
1 GGCACCCT-AGTCAAAGCTCGCACGAGTTGGC
1769421 GGCACCCTAGTCAAAGCTCGCACGAGTTGGC
1 GGCACCCTAGTCAAAGCTCGCACGAGTTGGC
* * * *
1769452 AGCA-CCTGAGTTAAAGCCCGCACAAGTTGGC
1 GGCACCCT-AGTCAAAGCTCGCACGAGTTGGC
* *
1769483 GGCACCCTAGTCGAAACCT-GTACGAGTTGGC
1 GGCACCCTAGTC-AAAGCTCGCACGAGTTGGC
* * * * ** *
1769514 AGCA-CTTGAATCAAAGCCCATACGAGTTAGC
1 GGCACCCT-AGTCAAAGCTCGCACGAGTTGGC
** * *
1769545 AACA-CCTGAGTTAAAGCTCGTACGAGTTGGC
1 GGCACCCT-AGTCAAAGCTCGCACGAGTTGGC
* *
1769576 GGCACCCTAGTCAAAGCCCGTACGAGTTGGC
1 GGCACCCTAGTCAAAGCTCGCACGAGTTGGC
* *
1769607 GGCACCTTAGTCAAAG-TCCGCACGAGTTGGT
1 GGCACCCTAGTCAAAGCT-CGCACGAGTTGGC
1769638 GGCACCCTAGTCAAAGC
1 GGCACCCTAGTCAAAGC
1769655 CCACACAAGT
Statistics
Matches: 372, Mismatches: 89, Indels: 39
0.74 0.18 0.08
Matches are distributed among these distances:
30 41 0.11
31 311 0.84
32 20 0.05
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (31 bp):
GGCACCCTAGTCAAAGCTCGCACGAGTTGGC
Found at i:1769252 original size:93 final size:93
Alignment explanation
Indices: 1769143--1769664 Score: 416
Period size: 93 Copynumber: 5.6 Consensus size: 93
1769133 ACAAGTTGTT
* * * * *
1769143 GGCACCCT-AGTCAAAGCTCGCACGAGTTGACGGCACCTAAGTTAAAGCCCACACAAGTTGGTGG
1 GGCA-CCTAAGTCAAAGCTCACACGAGTTGGCGGCACCTGAGTCAAAGCCCACACAAGTTGGCGG
* * *
1769207 CACCCTAGTCAAAACTCGCACGAATTGGC
65 CACCCTAGTCAAAGCCCGCACGAGTTGGC
* * * * * * * * *
1769236 GGCACCTAAGTTAAAGC-CATACAAGTTGGTGGCACTTTAGTCAAAGCCTACACGAGTTGGCGGT
1 GGCACCTAAGTCAAAGCTCACACGAGTTGGCGGCACCTGAGTCAAAGCCCACACAAGTTGGCGGC
* *
1769300 A-CTTGAGTCAAAGCCCGCATGAGTTGGC
66 ACCCT-AGTCAAAGCCCGCACGAGTTGGC
* * * * * * * *
1769328 GGCACCTAAGTCGAAGC-CTACACAAGTTGGTGGCACCTTAGTCAAAGCTCGCACGAGTTGGCGA
1 GGCACCTAAGTCAAAGCTC-ACACGAGTTGGCGGCACCTGAGTCAAAGCCCACACAAGTTGGCGG
* * * *
1769392 CA-CCTAAGTTAAAGCCCACACAAGTTGGT
65 CACCCT-AGTCAAAGCCCGCACGAGTTGGC
* * * *
1769421 GGCACCCT-AGTCAAAGCTCGCACGAGTTGGCAGCACCTGAGTTAAAGCCCGCACAAGTTGGCGG
1 GGCA-CCTAAGTCAAAGCTCACACGAGTTGGCGGCACCTGAGTCAAAGCCCACACAAGTTGGCGG
* *
1769485 CACCCTAGTCGAAA-CCTGTACGAGTTGGC
65 CACCCTAGTC-AAAGCCCGCACGAGTTGGC
* * * * * ** * * ** *
1769514 AGCACTTGAA-TCAAAGCCCATACGAGTTAGCAACACCTGAGTTAAAGCTCGTACGAGTTGGCGG
1 GGCACCT-AAGTCAAAGCTCACACGAGTTGGCGGCACCTGAGTCAAAGCCCACACAAGTTGGCGG
*
1769578 CACCCTAGTCAAAGCCCGTACGAGTTGGC
65 CACCCTAGTCAAAGCCCGCACGAGTTGGC
* * *
1769607 GGCACCTTAGTCAAAG-TCCGCACGAGTTGGTGGCACCCT-AGTCAAAGCCCACACAAGT
1 GGCACCTAAGTCAAAGCT-CACACGAGTTGGCGGCA-CCTGAGTCAAAGCCCACACAAGT
1769665 CGATGGGAAC
Statistics
Matches: 340, Mismatches: 76, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
91 2 0.01
92 80 0.24
93 244 0.72
94 14 0.04
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (93 bp):
GGCACCTAAGTCAAAGCTCACACGAGTTGGCGGCACCTGAGTCAAAGCCCACACAAGTTGGCGGC
ACCCTAGTCAAAGCCCGCACGAGTTGGC
Found at i:1769685 original size:31 final size:31
Alignment explanation
Indices: 1769650--1769709 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1769640 CACCCTAGTC
*
1769650 AAAGCCCACACAAGTCGATGGGAACCCTTCT
1 AAAGCCCACACAAGTCGATGGCAACCCTTCT
1769681 AAAGCCCACACAAGTCGATGGCAACCCTT
1 AAAGCCCACACAAGTCGATGGCAACCCTT
1769710 TTCATCCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (31 bp):
AAAGCCCACACAAGTCGATGGCAACCCTTCT
Found at i:1770293 original size:44 final size:44
Alignment explanation
Indices: 1770155--1770293 Score: 140
Period size: 44 Copynumber: 3.2 Consensus size: 44
1770145 CTGTCAGATT
* * * **
1770155 TGTCCTTGGTCAACCATTCTTACCCTTTGTTTACCTATCGATTA
1 TGTCCCTGATCAACCATTCTTACCCTTTGTTTACCTGTCGGCTA
* * * * * *
1770199 TGTCCCAGGT-AAAC-TTCTTACCC-TTGGTGACCTGTCGGCTT
1 TGTCCCTGATCAACCATTCTTACCCTTTGTTTACCTGTCGGCTA
*
1770240 TGTCCCTGATCAACCATTCTTACCCTTTATTTACCTGTCGGCTA
1 TGTCCCTGATCAACCATTCTTACCCTTTGTTTACCTGTCGGCTA
*
1770284 TGTCGCTGAT
1 TGTCCCTGAT
1770294 GAACTTTTCA
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 20 0.27
42 12 0.16
43 12 0.16
44 31 0.41
ACGTcount: A:0.17, C:0.29, G:0.16, T:0.39
Consensus pattern (44 bp):
TGTCCCTGATCAACCATTCTTACCCTTTGTTTACCTGTCGGCTA
Found at i:1771082 original size:18 final size:17
Alignment explanation
Indices: 1771036--1771100 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
1771026 TTTTTTTTAT
*
1771036 AAAATTAAAATAAT-AA
1 AAAATAAAAATAATCAA
1771052 TAAAATAAAAAAATCAATCAA
1 -AAAAT--AAAAAT-AATCAA
* *
1771073 AAAATTAAAATAATTAA
1 AAAATAAAAATAATCAA
1771090 AAAATAAAAAT
1 AAAATAAAAAT
1771101 TAATTAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 20 0.50
18 5 0.12
19 5 0.12
20 8 0.20
21 2 0.05
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATAAAAATAATCAA
Found at i:1771104 original size:18 final size:18
Alignment explanation
Indices: 1771060--1771129 Score: 72
Period size: 17 Copynumber: 3.9 Consensus size: 18
1771050 AATAAAATAA
* *
1771060 AAAAATCAATCAAAAAAT
1 AAAAATTAATTAAAAAAT
*
1771078 TAAAA-TAATTAAAAAAT
1 AAAAATTAATTAAAAAAT
**
1771095 AAAAATTAATTAATTAA-
1 AAAAATTAATTAAAAAAT
1771112 AAAAATTAAATTAAAAAA
1 AAAAATT-AATTAAAAAA
1771130 AGAGGAGCCG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 21 0.50
18 21 0.50
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTAATTAAAAAAT
Found at i:1771108 original size:22 final size:23
Alignment explanation
Indices: 1771072--1771115 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1771062 AAATCAATCA
1771072 AAAAATTAAAATAATTAAAAAAT
1 AAAAATTAAAATAATTAAAAAAT
*
1771095 AAAAATT-AATTAATTAAAAAA
1 AAAAATTAAAATAATTAAAAAA
1771116 ATTAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAATTAAAATAATTAAAAAAT
Found at i:1771120 original size:13 final size:14
Alignment explanation
Indices: 1771074--1771130 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
1771064 ATCAATCAAA
*
1771074 AAATTAAAATAATT
1 AAATTAAAAAAATT
*
1771088 AAA-AAATAAAAATT
1 AAATTAA-AAAAATT
1771102 AATTAATTAAAAAAATT
1 -A--AATTAAAAAAATT
1771119 AAATTAAAAAAA
1 AAATTAAAAAAA
1771131 GAGGAGCCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
13 2 0.06
14 20 0.57
15 1 0.03
16 1 0.03
17 9 0.26
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATTAAAAAAATT
Found at i:1771122 original size:22 final size:20
Alignment explanation
Indices: 1771071--1771125 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1771061 AAAATCAATC
*
1771071 AAAAAATTAAAATAATTAAA
1 AAAAAATTAAATTAATTAAA
*
1771091 AAATAA--AAATTAATTAATTA
1 AAAAAATTAAATTAATTAA--A
1771111 AAAAAATTAAATTAA
1 AAAAAATTAAATTAA
1771126 AAAAAGAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.36
20 11 0.39
22 7 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATTAAATTAATTAAA
Found at i:1771212 original size:43 final size:43
Alignment explanation
Indices: 1771151--1771258 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
1771141 ATTAGTGAAG
1771151 ATTGACTTAGGTGGCATTGCATTACATTGCATGCTGCCACCTA
1 ATTGACTTAGGTGGCATTGCATTACATTGCATGCTGCCACCTA
*
1771194 ATTGACTTAGGTGGCATTGCGTTACATTGCATGCTGCCACCTA
1 ATTGACTTAGGTGGCATTGCATTACATTGCATGCTGCCACCTA
* * * *
1771237 AATCAATTAGGTGGCAATGCAT
1 ATTGACTTAGGTGGCATTGCAT
1771259 GCATGCATGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
ATTGACTTAGGTGGCATTGCATTACATTGCATGCTGCCACCTA
Found at i:1771278 original size:13 final size:13
Alignment explanation
Indices: 1771260--1771285 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1771250 GCAATGCATG
1771260 CATGCATGAAATT
1 CATGCATGAAATT
1771273 CATGCATGAAATT
1 CATGCATGAAATT
1771286 GGATAAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CATGCATGAAATT
Found at i:1771350 original size:25 final size:24
Alignment explanation
Indices: 1771316--1771362 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1771306 TAGACCATTC
*
1771316 CATGCTTTCATGCCTTCATGCATA
1 CATGCTTTCATACCTTCATGCATA
*
1771340 CATGCATTTCATACTTTCATGCA
1 CATGC-TTTCATACCTTCATGCA
1771363 AAGAAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (24 bp):
CATGCTTTCATACCTTCATGCATA
Found at i:1771799 original size:28 final size:31
Alignment explanation
Indices: 1771729--1771808 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 31
1771719 AAACACGTGA
1771729 AACATGTAGCACAT-GAAGCAAGCATGGGGC
1 AACATGTAGCACATGGAAGCAAGCATGGGGC
* **
1771759 -AGATGTAAAACATGGAAG-AAG-AT-GGGC
1 AACATGTAGCACATGGAAGCAAGCATGGGGC
*
1771786 AACATGTAGCACAT-GAGGCAAGC
1 AACATGTAGCACATGGAAGCAAGC
1771809 GGCAGCAGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
27 7 0.18
28 15 0.38
29 13 0.33
30 4 0.10
ACGTcount: A:0.40, C:0.16, G:0.30, T:0.14
Consensus pattern (31 bp):
AACATGTAGCACATGGAAGCAAGCATGGGGC
Found at i:1772268 original size:23 final size:23
Alignment explanation
Indices: 1772205--1772260 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1772195 GGGGCAGTAA
* *
1772205 AAGAAAAGAACAAGCAGCAAAGG
1 AAGAGAAGAAAAAGCAGCAAAGG
*
1772228 AGGAGAAGAAAAAGCAGCAAAGG
1 AAGAGAAGAAAAAGCAGCAAAGG
1772251 AAGAGAAGAA
1 AAGAGAAGAA
1772261 TGAGCAGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.61, C:0.09, G:0.30, T:0.00
Consensus pattern (23 bp):
AAGAGAAGAAAAAGCAGCAAAGG
Done.