Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 65
Found at i:1551757 original size:40 final size:40
Alignment explanation
Indices: 1551709--1551804 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
1551699 TTGAAGTTCA
*
1551709 CGTTGCGATAGTCGAAGTTCGCGTTGCAATTTTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTTCCAAATT
*
1551749 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTTCCAAATT
*
1551789 CGTTGCGATCGTCCAA
1 CGTTGCGATAGTCCAA
1551805 AATCGCAACG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (40 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTTCCAAATT
Found at i:1551784 original size:21 final size:21
Alignment explanation
Indices: 1551685--1551797 Score: 92
Period size: 21 Copynumber: 5.6 Consensus size: 21
1551675 TTTTGTATTA
*
1551685 TCGCGTTGCGATAGTT-GAAGT
1 TCGCGTTGCGATA-TTCCAAGT
* * *
1551706 TCACGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATATTCCAAGT
* * *
1551727 TCGCGTTGCAATTTTCCAAAT
1 TCGCGTTGCGATATTCCAAGT
*
1551748 T--CGTTGCGATAGTCCAAGT
1 TCGCGTTGCGATATTCCAAGT
* *
1551767 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATATTCCAAGT
1551788 T--CGTTGCGAT
1 TCGCGTTGCGAT
1551798 CGTCCAAAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
19 24 0.32
20 1 0.01
21 49 0.66
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATATTCCAAGT
Found at i:1551803 original size:19 final size:19
Alignment explanation
Indices: 1551709--1551805 Score: 77
Period size: 19 Copynumber: 4.9 Consensus size: 19
1551699 TTGAAGTTCA
* *
1551709 CGTTGCGATAGTCGAAGTT
1 CGTTGCGATAGTCCAAATT
* **
1551728 CGCGTTGCAATTTTCCAAATT
1 --CGTTGCGATAGTCCAAATT
*
1551749 CGTTGCGATAGTCCAAGTT
1 CGTTGCGATAGTCCAAATT
**
1551768 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATAGTCCAAATT
*
1551789 CGTTGCGATCGTCCAAA
1 CGTTGCGATAGTCCAAA
1551806 ATCGCAACGA
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 30 0.50
21 30 0.50
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (19 bp):
CGTTGCGATAGTCCAAATT
Found at i:1552119 original size:21 final size:21
Alignment explanation
Indices: 1552093--1552133 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1552083 TCTTTTTTGC
1552093 GAACTTCGACTATCGCAACGT
1 GAACTTCGACTATCGCAACGT
1552114 GAACTTCGACTATCGCAACG
1 GAACTTCGACTATCGCAACG
1552134 ACCTGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (21 bp):
GAACTTCGACTATCGCAACGT
Found at i:1553059 original size:21 final size:21
Alignment explanation
Indices: 1553016--1553215 Score: 164
Period size: 21 Copynumber: 9.9 Consensus size: 21
1553006 CGTTGCGATT
*
1553016 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
1553035 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
1553056 TTGGACTATCGCAA--TGAAT
1 TTGGACTATCGCAACGCGAAC
* **
1553075 TTGAAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
1553096 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
1553115 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
1553136 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
** *
1553155 TTGGAAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
1553176 TTCGACTATCGCAACGTGAAC
1 TTGGACTATCGCAACGCGAAC
*
1553197 TTCGACTATCGCAACGCGA
1 TTGGACTATCGCAACGCGA
1553216 TAATACAAAA
Statistics
Matches: 138, Mismatches: 35, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
19 56 0.41
21 82 0.59
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:1553075 original size:40 final size:40
Alignment explanation
Indices: 1553019--1553191 Score: 310
Period size: 40 Copynumber: 4.3 Consensus size: 40
1553009 TGCGATTTTG
*
1553019 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
* *
1553059 GACTATCGCAATGAATTTGAAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
1553099 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
*
1553139 GACTATCGCAACGAATTTGGAAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
1553179 GACTATCGCAACG
1 GACTATCGCAACG
1553192 TGAACTTCGA
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (40 bp):
GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
Found at i:1553149 original size:61 final size:62
Alignment explanation
Indices: 1553082--1553215 Score: 157
Period size: 61 Copynumber: 2.2 Consensus size: 62
1553072 AATTTGAAAA
** * *
1553082 ATCGCAACGCGAACTTCGACTATCGCAA-CGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGAAAATCGCAAGCGAACTTCGAAAATCGCAACGCGAACTTCGACT
* * ** *
1553143 ATCGCAA--CGAATTTGGAAAATCGCAATGCGAACTTCGACTATCGCAACGTGAACTTCGACT
1 ATCGCAACGCGAACTTCGAAAATCGCAA-GCGAACTTCGAAAATCGCAACGCGAACTTCGACT
1553204 ATCGCAACGCGA
1 ATCGCAACGCGA
1553216 TAATACAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
59 15 0.25
61 42 0.70
63 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (62 bp):
ATCGCAACGCGAACTTCGAAAATCGCAAGCGAACTTCGAAAATCGCAACGCGAACTTCGACT
Found at i:1559723 original size:14 final size:14
Alignment explanation
Indices: 1559688--1559726 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1559678 AAACCCGAGG
*
1559688 AAAATAAAGTATAT
1 AAAATAAAGTATAA
* *
1559702 GAAGTAAAGTATAA
1 AAAATAAAGTATAA
1559716 AAAATAAAGTA
1 AAAATAAAGTA
1559727 CAAACAATGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (14 bp):
AAAATAAAGTATAA
Found at i:1579556 original size:54 final size:54
Alignment explanation
Indices: 1579474--1579578 Score: 176
Period size: 54 Copynumber: 1.9 Consensus size: 54
1579464 AGGAATTAGC
1579474 TAATTGGTCTTGTTGTAGTAGTGTCTGGTTGTATTGGATTGTTCCCAGGTTGCT
1 TAATTGGTCTTGTTGTAGTAGTGTCTGGTTGTATTGGATTGTTCCCAGGTTGCT
* *
1579528 TAATTGGTCTTGTTGTAGTAGAT-TCTGGTTGTATTTGATTGTTCTCAGGTT
1 TAATTGGTCTTGTTGTAGTAG-TGTCTGGTTGTATTGGATTGTTCCCAGGTT
1579579 CCTTGTTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.14, C:0.10, G:0.28, T:0.49
Consensus pattern (54 bp):
TAATTGGTCTTGTTGTAGTAGTGTCTGGTTGTATTGGATTGTTCCCAGGTTGCT
Found at i:1580537 original size:31 final size:32
Alignment explanation
Indices: 1580481--1580544 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
1580471 GGGGGTTTTT
*
1580481 AATGAGACCTCCAATTTTTATCAAAAAAAAAA
1 AATGAGACCTCCAATTTCTATCAAAAAAAAAA
* * *
1580513 AATGAGGCCTCC-CTTTCTATCAAAAAATAAA
1 AATGAGACCTCCAATTTCTATCAAAAAAAAAA
1580544 A
1 A
1580545 TAAAATGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (32 bp):
AATGAGACCTCCAATTTCTATCAAAAAAAAAA
Found at i:1580891 original size:4 final size:4
Alignment explanation
Indices: 1580882--1580976 Score: 99
Period size: 4 Copynumber: 24.8 Consensus size: 4
1580872 GATAAAACAA
*
1580882 CTCC CTCC CTCC CTCC CTCC CCCC CT-C CTCC CTCC CTCC CTCC C-CC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC
* * * * * *
1580928 C-CC C-CC CCCC CCCC CCCC CCCC CCCC CCCC CTCC CTCC CTCC CTCC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC
1580974 CTC
1 CTC
1580977 AGTGATAGCA
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
3 12 0.14
4 74 0.86
ACGTcount: A:0.00, C:0.84, G:0.00, T:0.16
Consensus pattern (4 bp):
CTCC
Found at i:1580906 original size:1 final size:1
Alignment explanation
Indices: 1580900--1580958 Score: 73
Period size: 1 Copynumber: 59.0 Consensus size: 1
1580890 CTCCCTCCCT
* * * * *
1580900 CCCCCCCTCCTCCCTCCCTCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1580959 TCCCTCCCTC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.92, G:0.00, T:0.08
Consensus pattern (1 bp):
C
Found at i:1582758 original size:15 final size:15
Alignment explanation
Indices: 1582735--1582780 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
1582725 TTAAAGAATG
*
1582735 TGATATCATTCTCTA
1 TGATTTCATTCTCTA
1582750 TGATTTCATTCTCTA
1 TGATTTCATTCTCTA
1582765 TGATTTCATTCTCTA
1 TGATTTCATTCTCTA
1582780 T
1 T
1582781 TATCGGTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.52
Consensus pattern (15 bp):
TGATTTCATTCTCTA
Found at i:1587630 original size:41 final size:41
Alignment explanation
Indices: 1587575--1587671 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
1587565 CGATAGTTGA
1587575 AAATCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTTC
1 AAATCGCGTTGCGATAGTCTACAG-TGTCGTTGCGATTTTTC
*
1587617 AAATC-CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCC
1 AAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTTC
**
1587657 ATTTCGCGTTGCGAT
1 AAATCGCGTTGCGAT
1587672 TTTCCATTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
40 19 0.37
41 27 0.53
42 5 0.10
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (41 bp):
AAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTTC
Found at i:1587668 original size:20 final size:20
Alignment explanation
Indices: 1587643--1587691 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
1587633 TCTACAGTGT
1587643 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
1587663 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
1587683 CGTTGCGAT
1 CGTTGCGAT
1587692 AGTCTACAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:1587727 original size:40 final size:41
Alignment explanation
Indices: 1587663--1587776 Score: 185
Period size: 40 Copynumber: 2.8 Consensus size: 41
1587653 TTCCATTTCG
1587663 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
* * **
1587704 TGTTGCGATTTTTCAAATC-CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
1587744 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTC
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTC
1587777 CCGAGACGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 36 0.56
41 28 0.44
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
Found at i:1587733 original size:101 final size:102
Alignment explanation
Indices: 1587578--1587772 Score: 374
Period size: 101 Copynumber: 1.9 Consensus size: 102
1587568 TAGTTGAAAA
1587578 TCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTTCAAATCCGTTGCGATAGTCTACAGTGT
1 TCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTTCAAATCCGTTGCGATAGTCTACAGTGT
1587643 CGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCATT
66 CGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCATT
*
1587680 TCGCGTTGCGATAGTCTACAG-TGTTGTTGCGATTTTTCAAATCCGTTGCGATAGTCTACAGTGT
1 TCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTTCAAATCCGTTGCGATAGTCTACAGTGT
1587744 CGTTGCGATTTTCCATTTCGCGTTGCGAT
66 CGTTGCGATTTTCCATTTCGCGTTGCGAT
1587773 AGTCCCGAGA
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
101 71 0.77
102 21 0.23
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (102 bp):
TCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTTCAAATCCGTTGCGATAGTCTACAGTGT
CGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCATT
Found at i:1587748 original size:61 final size:60
Alignment explanation
Indices: 1587620--1587752 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 60
1587610 ATTTTTCAAA
** * * *
1587620 TCCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCATT
1 TCCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCAAATCGCGTTGCGATTCTACATG
* *
1587680 TCGCGTTGCGATAGTCTACAGTGTTGTTGCGATTTTTCAAATC-CGTTGCGATAGTCTACAGTG
1 TC-CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCAAATCGCGTTGCGAT--TCTACA-TG
1587743 T-CGTTGCGAT
1 TCCGTTGCGAT
1587753 TTTCCATTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 11 0.18
61 45 0.73
62 4 0.06
63 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (60 bp):
TCCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCAAATCGCGTTGCGATTCTACATG
Found at i:1587749 original size:21 final size:21
Alignment explanation
Indices: 1587683--1587752 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
1587673 TTCCATTTCG
1587683 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * * * *
1587704 TGTTGCGAT--TTTTCAAAT-C
1 CGTTGCGATAGTCTAC-AGTGT
1587723 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
1587744 CGTTGCGAT
1 CGTTGCGAT
1587753 TTTCCATTTC
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
19 11 0.31
20 4 0.11
21 20 0.57
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:1588477 original size:34 final size:36
Alignment explanation
Indices: 1588438--1588582 Score: 177
Period size: 41 Copynumber: 3.8 Consensus size: 36
1588428 CCATTTTTTA
1588438 GACTATCGCAACGCGAAATGGAAAATCGCAACG-AC
1 GACTATCGCAACGCGAAATGGAAAATCGCAACGAAC
*
1588473 -ACTATCACAACGCGAAATGGAAAATCGCAACGACAC
1 GACTATCGCAACGCGAAATGGAAAATCGCAACGA-AC
1588509 TGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACAC
1 ----GACTATCGCAACGCGAAATGGAAAATCGCAACGA-AC
1588550 TGTAGACTATCGCAACGCGAAATGGAAAATCGC
1 ----GACTATCGCAACGCGAAATGGAAAATCGC
1588583 GTATCGCAAC
Statistics
Matches: 101, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
34 31 0.31
36 2 0.02
41 68 0.67
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.14
Consensus pattern (36 bp):
GACTATCGCAACGCGAAATGGAAAATCGCAACGAAC
Found at i:1588521 original size:21 final size:21
Alignment explanation
Indices: 1588496--1588566 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
1588486 GAAATGGAAA
1588496 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
* **
1588517 ATCGCAACG-CGAAATG--GAAA
1 ATCGCAACGAC--ACTGTAGACT
1588537 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
1588558 ATCGCAACG
1 ATCGCAACG
1588567 CGAAATGGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 3 0.08
20 12 0.31
21 21 0.54
22 3 0.08
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (21 bp):
ATCGCAACGACACTGTAGACT
Found at i:1588530 original size:41 final size:41
Alignment explanation
Indices: 1588473--1588582 Score: 211
Period size: 41 Copynumber: 2.7 Consensus size: 41
1588463 TCGCAACGAC
*
1588473 ACTATCACAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1588514 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1588555 ACTATCGCAACGCGAAATGGAAAATCGC
1 ACTATCGCAACGCGAAATGGAAAATCGC
1588583 GTATCGCAAC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
Found at i:1588542 original size:20 final size:20
Alignment explanation
Indices: 1588480--1588616 Score: 75
Period size: 20 Copynumber: 6.4 Consensus size: 20
1588470 GACACTATCA
1588480 CAACGCGAAATGGAAAATCG
1 CAACGCGAAATGGAAAATCG
* **
1588500 CAA--CGACACTGTAGACTATCG
1 CAACGCGA-AATG--GAAAATCG
1588521 CAACGCGAAATGGAAAATCG
1 CAACGCGAAATGGAAAATCG
* **
1588541 CAA--CGACACTGTAGACTATCG
1 CAACGCGA-AATG--GAAAATCG
1588562 CAACGCGAAATGGAAAATCGCGTATCG
1 CAACGCGAAATGG-AAA------ATCG
1588589 CAACGCGAAATGGAAAATCG
1 CAACGCGAAATGGAAAATCG
1588609 CAACGCGA
1 CAACGCGA
1588617 TTTTTAACTA
Statistics
Matches: 88, Mismatches: 12, Indels: 34
0.66 0.09 0.25
Matches are distributed among these distances:
18 6 0.07
19 6 0.07
20 25 0.28
21 19 0.22
22 6 0.07
23 6 0.07
26 3 0.03
27 17 0.19
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.13
Consensus pattern (20 bp):
CAACGCGAAATGGAAAATCG
Found at i:1588595 original size:27 final size:27
Alignment explanation
Indices: 1588557--1588609 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
1588547 CACTGTAGAC
1588557 TATCGCAACGCGAAATGGAAAATCGCG
1 TATCGCAACGCGAAATGGAAAATCGCG
1588584 TATCGCAACGCGAAATGGAAAATCGC
1 TATCGCAACGCGAAATGGAAAATCGC
1588610 AACGCGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (27 bp):
TATCGCAACGCGAAATGGAAAATCGCG
Found at i:1588675 original size:20 final size:20
Alignment explanation
Indices: 1588652--1588697 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1588642 CAACGCGAAT
* *
1588652 TTGCGATACTGGAGATCGCG
1 TTGCGATACTAGAGATCGCA
*
1588672 TTGCGA-ATTAGAGATCGCA
1 TTGCGATACTAGAGATCGCA
1588691 TTGCGAT
1 TTGCGAT
1588698 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TTGCGATACTAGAGATCGCA
Found at i:1590807 original size:25 final size:26
Alignment explanation
Indices: 1590753--1590807 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
1590743 TATGTGTCAT
* *
1590753 TCATTCAAAGTACGGTGTGTATTATG
1 TCATTCAAAGTACAGTGTGTATTATA
*
1590779 TCATTCAAAGTAATAGTGTG-A-TATA
1 TCATTCAAAGT-ACAGTGTGTATTATA
1590804 TCAT
1 TCAT
1590808 GTTATTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 7 0.28
26 12 0.48
27 6 0.24
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (26 bp):
TCATTCAAAGTACAGTGTGTATTATA
Found at i:1591728 original size:13 final size:13
Alignment explanation
Indices: 1591710--1591749 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
1591700 ATATGATCTC
1591710 TTTTATGAAACTG
1 TTTTATGAAACTG
*
1591723 TTTTATG-TA--G
1 TTTTATGAAACTG
1591733 TTTTATGAAACTG
1 TTTTATGAAACTG
1591746 TTTT
1 TTTT
1591750 TAAATTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 8 0.36
11 1 0.05
12 1 0.05
13 12 0.55
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (13 bp):
TTTTATGAAACTG
Found at i:1601870 original size:23 final size:26
Alignment explanation
Indices: 1601841--1601889 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1601831 TGATATTTTT
1601841 AAATTAT-TTT-TTGTTTTTC-ATTA
1 AAATTATATTTCTTGTTTTTCTATTA
*
1601864 AAATTATATTTCTTTTTTTTCTATTA
1 AAATTATATTTCTTGTTTTTCTATTA
1601890 GGGGTGCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 3 0.14
25 8 0.36
26 4 0.18
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (26 bp):
AAATTATATTTCTTGTTTTTCTATTA
Found at i:1602059 original size:43 final size:43
Alignment explanation
Indices: 1602001--1602362 Score: 267
Period size: 43 Copynumber: 8.3 Consensus size: 43
1601991 TAATTTTAGT
1602001 TTTTTATCC-TTATAATTGAGGTCCCTAATTTTTGT-AATCAT-AC
1 TTTTTA-CCTTTATAATTGAGGTCCCTAATTTTT-TCAATC-TCAC
* * * *
1602044 TTTTTATCTTTATAATGGATG-CCCTTAATTTTTTTCAATCTCATT
1 TTTTTACCTTTATAATTGAGGTCCC-TAA-TTTTTTCAATCTCA-C
* * *
1602089 TATTTTACATTTATAATTGATGAT-CCTAAGTTTTTCAATCTCAC
1 T-TTTTACCTTTATAATTGA-GGTCCCTAATTTTTTCAATCTCAC
* * * * **
1602133 CTTCTACCTTTATAATTAAGCT-CCTGCTTTTTTCAATCTCAC
1 TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCTCAC
* *
1602175 TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCCCAT
1 TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCTCAC
* * * * *
1602218 TTTTTA-CTCATATAATTTAAGGCCCCTGATTTTTTTTTAATCTCAC
1 TTTTTACCT-TTATAA-TTGAGGTCCCT-A-ATTTTTTCAATCTCAC
* * * * *
1602264 TTTTTACCTTTAAAATTGATGCCCCT-ATTTTTTTAATATCAC
1 TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCTCAC
* * *
1602306 CTTTTACCTTTATAATTG-GGACCCCTAATTTTTTCAATCAT-AT
1 TTTTTACCTTTATAATTGAGG-TCCCTAATTTTTTCAATC-TCAC
*
1602349 TTTTTACTTTTATA
1 TTTTTACCTTTATA
1602363 GCTTAATCCC
Statistics
Matches: 253, Mismatches: 48, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.00
42 78 0.31
43 86 0.34
44 20 0.08
45 24 0.09
46 40 0.16
47 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (43 bp):
TTTTTACCTTTATAATTGAGGTCCCTAATTTTTTCAATCTCAC
Found at i:1602104 original size:89 final size:84
Alignment explanation
Indices: 1602010--1602321 Score: 209
Period size: 89 Copynumber: 3.6 Consensus size: 84
1602000 TTTTTTATCC
* * * * * *
1602010 TTATAATTGAGGTCCCTAATTTTTGTAATCAT-ACTTTTTATCTTTATAATGGATGC-CCTTAAT
1 TTATAATTGAGGTCCCTAATTTTT-CAATC-TCACCTTCTACCTTTATAAT-GAAGCTCC-T-AC
*
1602073 TTTTTTCAATCTCATTTATTTTACAT
61 TTTTTTCAATCTCA-CT-TTTTACAT
* * *
1602099 TTATAATTGATGAT-CCTAAGTTTTTCAATCTCACCTTCTACCTTTATAATTAAGCTCCTGCTTT
1 TTATAATTGA-GGTCCCTAA-TTTTTCAATCTCACCTTCTACCTTTATAATGAAGCTCCTACTTT
*
1602163 TTTCAATCTCACTTTTTACCT
64 TTTCAATCTCACTTTTTACAT
* ** * * * *
1602184 TTATAATTGAGGTCCCTAATTTTTTCAATCCCATTTTTTA-CTCATATAATTTAAGGCCCCTGAT
1 TTATAATTGAGGTCCCTAA-TTTTTCAATCTCACCTTCTACCT-TTATAA-TGAA-GCTCCT-A-
* * *
1602248 TTTTTTTTAATCTCACTTTTTACCT
60 CTTTTTTCAATCTCACTTTTTACAT
* * * * * * *
1602273 TTAAAATTGATGCCCCTATTTTTTTAATATCACCTTTTACCTTTATAAT
1 TTATAATTGAGGTCCCTAATTTTTCAATCTCACCTTCTACCTTTATAAT
1602322 TGGGACCCCT
Statistics
Matches: 180, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
84 4 0.02
85 43 0.24
86 5 0.03
87 20 0.11
88 25 0.14
89 76 0.42
90 7 0.04
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.49
Consensus pattern (84 bp):
TTATAATTGAGGTCCCTAATTTTTCAATCTCACCTTCTACCTTTATAATGAAGCTCCTACTTTTT
TCAATCTCACTTTTTACAT
Found at i:1602254 original size:131 final size:131
Alignment explanation
Indices: 1602119--1602356 Score: 327
Period size: 131 Copynumber: 1.8 Consensus size: 131
1602109 TGATCCTAAG
* * * * *
1602119 TTTTTCAATCTCACCTTCTACCTTTATAATT-AAGCTCCTGCTTTTTTCAATCTCACTTTTTACC
1 TTTTTCAATCTCACCTTCTACCTTTAAAATTGAAGCCCCT-ATTTTTTCAATATCACCTTTTACC
* *
1602183 TTTATAATTGAGG-TCCCTAATTTTTTCAATCCCATTTTTTACTCATATAATTTAAGGCCCCTGA
65 TTTATAATTG-GGACCCCTAATTTTTTCAATCACATTTTTTACTCATATAATTTAAGGCCCCTGA
1602247 TTT
129 TTT
* * * * *
1602250 TTTTTTAATCTCACTTTTTACCTTTAAAATTGATGCCCCTATTTTTTTAATATCACCTTTTACCT
1 TTTTTCAATCTCACCTTCTACCTTTAAAATTGAAGCCCCTATTTTTTCAATATCACCTTTTACCT
*
1602315 TTATAATTGGGACCCCTAATTTTTTCAATCATATTTTTTACT
66 TTATAATTGGGACCCCTAATTTTTTCAATCACATTTTTTACT
1602357 TTTATAGCTT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
130 2 0.02
131 84 0.91
132 6 0.07
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (131 bp):
TTTTTCAATCTCACCTTCTACCTTTAAAATTGAAGCCCCTATTTTTTCAATATCACCTTTTACCT
TTATAATTGGGACCCCTAATTTTTTCAATCACATTTTTTACTCATATAATTTAAGGCCCCTGATT
T
Found at i:1603427 original size:29 final size:29
Alignment explanation
Indices: 1603364--1603432 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
1603354 TTTTTAGTTT
* **
1603364 TTATTTTT-TTTTACTTTCTTTTGTTATT
1 TTATTTTTCTTTTACTTTCTTTTGTAACA
*
1603392 TTCTTTTTCTTTTACTTT-TCTTTGTAACA
1 TTATTTTTCTTTTACTTTCT-TTTGTAACA
1603421 TTATTTTCTCTT
1 TTATTTT-TCTT
1603433 ATTCTATCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 8 0.24
29 21 0.64
30 4 0.12
ACGTcount: A:0.12, C:0.13, G:0.03, T:0.72
Consensus pattern (29 bp):
TTATTTTTCTTTTACTTTCTTTTGTAACA
Found at i:1608658 original size:17 final size:17
Alignment explanation
Indices: 1608623--1608658 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1608613 TTTAGGGGTT
*
1608623 TTATGCTCGTTAGGAAA
1 TTATGCTCGTAAGGAAA
*
1608640 TTATGCTCGTAAGGTAA
1 TTATGCTCGTAAGGAAA
1608657 TT
1 TT
1608659 TGACTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (17 bp):
TTATGCTCGTAAGGAAA
Found at i:1613749 original size:34 final size:34
Alignment explanation
Indices: 1613711--1613779 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
1613701 CATTTGTATC
1613711 TTTGTATTTATATTTCGTTTATTTATTCATTGAT
1 TTTGTATTTATATTTCGTTTATTTATTCATTGAT
*
1613745 TTTGTATTTATGTTTCGTTTATTTATTCATTGAT
1 TTTGTATTTATATTTCGTTTATTTATTCATTGAT
1613779 T
1 T
1613780 GAGTATTGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (34 bp):
TTTGTATTTATATTTCGTTTATTTATTCATTGAT
Found at i:1615496 original size:27 final size:27
Alignment explanation
Indices: 1615465--1615524 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
1615455 AGAAACAAGT
*
1615465 GGACTTCAGATAGTCCCTATAGATGGA
1 GGACTTCAGATAGACCCTATAGATGGA
1615492 GGACTTCAGATAGACCCTATAGATGGA
1 GGACTTCAGATAGACCCTATAGATGGA
*
1615519 TGACTT
1 GGACTT
1615525 TAATATGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (27 bp):
GGACTTCAGATAGACCCTATAGATGGA
Found at i:1618672 original size:70 final size:68
Alignment explanation
Indices: 1618556--1618841 Score: 274
Period size: 70 Copynumber: 4.1 Consensus size: 68
1618546 CATCAAAAAC
* * * *
1618556 AAATTTCATCTCACTTGAGACAATCTC-CTTAAAACAAAATTACATCTCACTTGAGATATGTATC
1 AAATTTCGTCTCA-TTGAGACAATTTCTCTTAAAACAAAATTTCATCTCACTTGAGATAT-TTTC
1618620 CTTGA
64 CTTGA
* * *
1618625 AAATTTCGTCTCATTAGAGACAGTTTTTCTTAAAACAAAATTTCATCTCACTTGATAT-TTTTCC
1 AAATTTCGTCTCATT-GAGACAATTTCTCTTAAAACAAAATTTCATCTCACTTGAGATATTTTCC
1618689 TTGA
65 TTGA
* * * **
1618693 GAATTTTCATCTCACTCGAGACAATTTCTCTTGAAATGAAAATTTCATCTC-CTTTGAGATATTT
1 -AAATTTCGTCTCA-TTGAGACAATTTCTCTT-AAAACAAAATTTCATCTCAC-TTGAGATATTT
1618757 TCCCTTGA
62 T-CCTTGA
* * * * * *
1618765 AAATTTTTTGTCTCACTTGATACAATTTCTCTTGAAACAAAATTGCATCTCCCTTGAGATATTTC
1 AAA--TTTCGTCTCA-TTGAGACAATTTCTCTTAAAACAAAATTTCATCTCACTTGAGATATTTT
1618830 CCTAT-A
63 CCT-TGA
1618836 AAATTT
1 AAATTT
1618842 TTGACTCACT
Statistics
Matches: 180, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
68 10 0.06
69 49 0.27
70 51 0.28
71 13 0.07
72 32 0.18
73 25 0.14
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (68 bp):
AAATTTCGTCTCATTGAGACAATTTCTCTTAAAACAAAATTTCATCTCACTTGAGATATTTTCCT
TGA
Found at i:1618753 original size:140 final size:139
Alignment explanation
Indices: 1618559--1618830 Score: 327
Period size: 142 Copynumber: 1.9 Consensus size: 139
1618549 CAAAAACAAA
*
1618559 TTTCATCTCACTTGAGACAATCTCCTTAAAACAAAATTACATCTCACTTGAGATATGTAT-CCTT
1 TTTCATCTCACTCGAGACAATCTCCTTAAAACAAAATTACATCTCACTTGAGATAT-TATCCCTT
* * * * *
1618623 GAAAA-TTTCGTCTCA-TTAGAGACAGTTTTTCTTAAAACAAAATTTCATCTCACTTGATATTTT
65 GAAAATTTTCGTCTCACTT-GAGACAATTTCTCTTAAAACAAAATTGCATCTCACTTGAGATATT
1618686 TCCTTGAGAAT
129 TCCTTGAGAAT
* ** * *
1618697 TTTCATCTCACTCGAGACAATTTCTCTTGAAATGAAAATTTCATCTC-CTTTGAGATATTTTCCC
1 TTTCATCTCACTCGAGACAATCTC-CTT-AAAACAAAATTACATCTCAC-TTGAGATATTATCCC
* * * *
1618761 TTGAAAATTTTTTGTCTCACTTGATACAATTTCTCTTGAAACAAAATTGCATCTCCCTTGAGATA
63 TTGAAAA-TTTTCGTCTCACTTGAGACAATTTCTCTTAAAACAAAATTGCATCTCACTTGAGATA
1618826 TTTCC
127 TTTCC
1618831 CTATAAAATT
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
138 22 0.20
139 6 0.05
140 33 0.29
142 49 0.44
143 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.40
Consensus pattern (139 bp):
TTTCATCTCACTCGAGACAATCTCCTTAAAACAAAATTACATCTCACTTGAGATATTATCCCTTG
AAAATTTTCGTCTCACTTGAGACAATTTCTCTTAAAACAAAATTGCATCTCACTTGAGATATTTC
CTTGAGAAT
Found at i:1631910 original size:21 final size:21
Alignment explanation
Indices: 1631884--1631980 Score: 131
Period size: 21 Copynumber: 4.6 Consensus size: 21
1631874 GTTCTATATT
1631884 GTCCTTCGGGACATATATGTG
1 GTCCTTCGGGACATATATGTG
* * * **
1631905 ATCCTTTGGAACATATATAAG
1 GTCCTTCGGGACATATATGTG
*
1631926 GTCCTTCGGGACATATATTTG
1 GTCCTTCGGGACATATATGTG
*
1631947 GTCCTTCAGGACATATATGTG
1 GTCCTTCGGGACATATATGTG
1631968 GTCCTTCGGGACA
1 GTCCTTCGGGACA
1631981 ATTTTATATG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
GTCCTTCGGGACATATATGTG
Found at i:1638975 original size:21 final size:21
Alignment explanation
Indices: 1638949--1639113 Score: 165
Period size: 21 Copynumber: 7.9 Consensus size: 21
1638939 TCGAGGGTTC
1638949 TATGTGGTCCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* * *
1638970 TATGTGATCCTTTGGAACATA
1 TATGTGGTCCTTCGGGACATA
1638991 TA---GGTCCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* * *
1639009 TATTTGGTCCTTTGGAACATA
1 TATGTGGTCCTTCGGGACATA
* *
1639030 TATGTGGTCTTTAGGGACAATTA
1 TATGTGGTCCTTCGGGAC-A-TA
* *
1639053 CATGTGGTTCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* *
1639074 TATGTGGTCCTTTGAGACATA
1 TATGTGGTCCTTCGGGACATA
**
1639095 TATGAAGTCCTTCGGGACA
1 TATGTGGTCCTTCGGGACA
1639114 ATTTTATATA
Statistics
Matches: 115, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
18 15 0.13
21 82 0.71
22 2 0.02
23 16 0.14
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACATA
Found at i:1639008 original size:39 final size:39
Alignment explanation
Indices: 1638954--1639031 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
1638944 GGTTCTATGT
1638954 GGTCCTTCGGGACATATATGTGATCCTTTGGAACATATA
1 GGTCCTTCGGGACATATATGTGATCCTTTGGAACATATA
* *
1638993 GGTCCTTCGGGACATATATTTGGTCCTTTGGAACATATA
1 GGTCCTTCGGGACATATATGTGATCCTTTGGAACATATA
1639032 TGTGGTCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (39 bp):
GGTCCTTCGGGACATATATGTGATCCTTTGGAACATATA
Found at i:1640070 original size:21 final size:21
Alignment explanation
Indices: 1640028--1640068 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1640018 ATTAGACAAA
*
1640028 AAATATTAAATAAAAATATTT
1 AAATATTAAAGAAAAATATTT
*
1640049 AAATATT-AAGAATAATATTT
1 AAATATTAAAGAAAAATATTT
1640069 TATTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATATTAAAGAAAAATATTT
Found at i:1641743 original size:20 final size:18
Alignment explanation
Indices: 1641701--1641743 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
1641691 TAAAATTTTC
*
1641701 ATTCAATTCCAAACATGA
1 ATTCAATTCCAAACATAA
*
1641719 ATTCAACTTCCTAACATCAA
1 ATTCAA-TTCCAAACAT-AA
1641739 ATTCA
1 ATTCA
1641744 TGTTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (18 bp):
ATTCAATTCCAAACATAA
Found at i:1644742 original size:21 final size:21
Alignment explanation
Indices: 1644699--1644742 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1644689 TAATCGAGTT
* *
1644699 TTCCTATAATAATATTTATTA
1 TTCCTATAATAATATATACTA
1644720 TTCCTATAATAATATATACTA
1 TTCCTATAATAATATATACTA
1644741 TT
1 TT
1644743 TGGTTGGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (21 bp):
TTCCTATAATAATATATACTA
Found at i:1647384 original size:18 final size:19
Alignment explanation
Indices: 1647361--1647396 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1647351 TTTATTCGTA
*
1647361 ATTTTTTTTA-TCATTTTC
1 ATTTTTTTCATTCATTTTC
1647379 ATTTTTTTCATTCATTTT
1 ATTTTTTTCATTCATTTT
1647397 TTAACATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTTCATTCATTTTC
Found at i:1651825 original size:23 final size:23
Alignment explanation
Indices: 1651794--1651837 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1651784 TAAGGCATTA
*
1651794 AACATCATAAAAAAAAAACCAAT
1 AACAGCATAAAAAAAAAACCAAT
* *
1651817 AACAGCATACAAAAACAACCA
1 AACAGCATAAAAAAAAAACCA
1651838 TTCATTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.66, C:0.23, G:0.02, T:0.09
Consensus pattern (23 bp):
AACAGCATAAAAAAAAAACCAAT
Found at i:1652697 original size:20 final size:20
Alignment explanation
Indices: 1652668--1652706 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1652658 TTTCCACCAC
*
1652668 ATGCAACTATATGCTCATAA
1 ATGCAACTATATGATCATAA
*
1652688 ATGCATCTATATGATCATA
1 ATGCAACTATATGATCATA
1652707 TATGGGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCATAA
Found at i:1653495 original size:20 final size:20
Alignment explanation
Indices: 1653470--1653521 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1653460 ACTTCGACTA
1653470 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
1653490 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
1653510 TCGCATTGCGAT
1 TCGCATTGCGAT
1653522 AGTCCAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:1653562 original size:42 final size:41
Alignment explanation
Indices: 1653509--1653838 Score: 439
Period size: 42 Copynumber: 7.9 Consensus size: 41
1653499 GATTTACATA
* * *
1653509 TTCGCATTGCGA-TAGTCCAAGTTCGCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATTATTCCAAATT--CGTTGCGATAGTCGAAG
1653551 TTCGCATTGCGATT-TTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCATTGCGATTATTCCAAATTCGTTGCGATAGTCGAAG
* * * *
1653591 TTCGCGTTGCGATTTATTCAAAATTCGTTACGATAGTCAAAG
1 TTCGCATTGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAG
* *
1653633 TTCGCATTGCGATTTATTCCAAGTTCGTTGTGATAGTCGAAG
1 TTCGCATTGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAG
*
1653675 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCATTGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAG
* *
1653717 TTCGCGTTGCAATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCATTGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAG
* *
1653759 TTTGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCATTGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAG
*
1653801 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTCGCATTGCGA-TTATTCCAAATTCGTTGCGATAGTC
1653839 CAAAATCGCA
Statistics
Matches: 261, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
40 27 0.10
41 2 0.01
42 231 0.89
43 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (41 bp):
TTCGCATTGCGATTATTCCAAATTCGTTGCGATAGTCGAAG
Found at i:1653683 original size:84 final size:84
Alignment explanation
Indices: 1653534--1653838 Score: 488
Period size: 84 Copynumber: 3.7 Consensus size: 84
1653524 TCCAAGTTCG
*
1653534 CGTTGCGATAGTCCAAGTTCGCATTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
*
1653597 TTGCGATTTATTCAAAATT
66 TTGCGATTTATTCCAAATT
* * * *
1653616 CGTTACGATAGTCAAAGTTCGCATTGCGATTTATTCCAAGTTCGTTGTGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1653681 TTGCGATTTATTCCAAATT
66 TTGCGATTTATTCCAAATT
* * * *
1653700 CGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGCGATAGTCGAAGTTTGCA
1 CGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
*
1653765 TTGCGATTTATTCCAAGTT
66 TTGCGATTTATTCCAAATT
*
1653784 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 CGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTC
1653839 CAAAATCGCA
Statistics
Matches: 206, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
82 27 0.13
83 2 0.01
84 177 0.86
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (84 bp):
CGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
TTGCGATTTATTCCAAATT
Found at i:1653732 original size:126 final size:126
Alignment explanation
Indices: 1653509--1653838 Score: 533
Period size: 126 Copynumber: 2.6 Consensus size: 126
1653499 GATTTACATA
* * *
1653509 TTCGCATTGCGA--TAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCGCATTGCGA-TT-TTCCA
1 TTCGCATTGCGATTTATTCCAAGTT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCA
*
1653570 AATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAATTCGTTACGATAGTCAAAG
64 AATTCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCAAAATTCGTTACGATAGTCAAAG
*
1653633 TTCGCATTGCGATTTATTCCAAGTTCGTTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA
* * *
1653698 TTCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGCGATAGTCGAAG
66 TTCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCAAAATTCGTTACGATAGTCAAAG
*
1653759 TTTGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA
1653824 TTCGTTGCGATAGTC
66 TTCGTTGCGATAGTC
1653839 CAAAATCGCA
Statistics
Matches: 192, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
124 38 0.20
125 2 0.01
126 152 0.79
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (126 bp):
TTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA
TTCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCAAAATTCGTTACGATAGTCAAAG
Found at i:1653942 original size:6 final size:6
Alignment explanation
Indices: 1653931--1653957 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1653921 GACACGTATT
1653931 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
1653958 CGAGACAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1654448 original size:5 final size:5
Alignment explanation
Indices: 1654434--1654474 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
1654424 GCGCCGCCGC
**
1654434 CGTC- CGTCT CGTCT CGTCT CGTCT CGGGT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
1654475 GGTCATGGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.00, C:0.39, G:0.27, T:0.34
Consensus pattern (5 bp):
CGTCT
Found at i:1654476 original size:15 final size:15
Alignment explanation
Indices: 1654434--1654478 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
1654424 GCGCCGCCGC
**
1654434 CGTC-CGTCTCGTCT
1 CGTCTCGTCTCGGGT
1654448 CGTCTCGTCTCGGGT
1 CGTCTCGTCTCGGGT
1654463 CGTCTCGTCTCGGGT
1 CGTCTCGTCTCGGGT
1654478 C
1 C
1654479 ATGGTCGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.00, C:0.38, G:0.29, T:0.33
Consensus pattern (15 bp):
CGTCTCGTCTCGGGT
Found at i:1654624 original size:21 final size:21
Alignment explanation
Indices: 1654598--1654667 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 21
1654588 AACTTGGACT
1654598 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
1654619 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
1654640 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
1654659 ATCGCAACG
1 ATCGCAACG
1654668 CGAACTTGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 16 0.41
21 14 0.36
23 9 0.23
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:1654676 original size:21 final size:20
Alignment explanation
Indices: 1654585--1654686 Score: 100
Period size: 21 Copynumber: 5.0 Consensus size: 20
1654575 ACCAGTCGTT
1654585 GCGAACTTGGACTATCGCAA
1 GCGAACTTGGACTATCGCAA
* *
1654605 -CGAATTTGGAATAAATCGCAA
1 GCGAACTTGGACT--ATCGCAA
*
1654626 CGCGAACTTCGACTATCGCAA
1 -GCGAACTTGGACTATCGCAA
* **
1654647 -CGAATTTGGAAAATCGCAA
1 GCGAACTTGGACTATCGCAA
1654666 CGCGAACTTGGACTATCGCAA
1 -GCGAACTTGGACTATCGCAA
1654687 TACGAACATG
Statistics
Matches: 64, Mismatches: 12, Indels: 11
0.74 0.14 0.13
Matches are distributed among these distances:
19 25 0.39
21 30 0.47
23 9 0.14
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (20 bp):
GCGAACTTGGACTATCGCAA
Found at i:1654692 original size:42 final size:42
Alignment explanation
Indices: 1654585--1654686 Score: 181
Period size: 40 Copynumber: 2.5 Consensus size: 42
1654575 ACCAGTCGTT
1654585 GCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAAC
1 GCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAAC
*
1654627 GCGAACTTCGACTATCGCAACGAATTTGG-A-AAATCGCAAC
1 GCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAAC
1654667 GCGAACTTGGACTATCGCAA
1 GCGAACTTGGACTATCGCAA
1654687 TACGAACATG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 29 0.50
41 1 0.02
42 28 0.48
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (42 bp):
GCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAAC
Found at i:1655722 original size:50 final size:51
Alignment explanation
Indices: 1655668--1655934 Score: 283
Period size: 50 Copynumber: 5.2 Consensus size: 51
1655658 TTCATAATAC
* * *
1655668 AAAAAAGTATAACACTTAATACATACTTACACCGATAT-AGTGAATCAAAT
1 AAAAAAGTATAACACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
* **
1655718 AAAAAAGTATAGCACTTAACACATACTTATGCCGATGT-AGTGAATAAAAT
1 AAAAAAGTATAACACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
* * * * * * *
1655768 AAAAAATTGTAGCACTTAACACATATTTACATCGGTGTAAATGAATAAAAT
1 AAAAAAGTATAACACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
* * *
1655819 AAAAAAGTATAACACTTAACACATATTTACATCGATGTAAGTAAATAAAAAAAT
1 AAAAAAGTATAACACTTAACACATACTTACACCGATGTAAGTGAAT---AAAAT
* *
1655873 AAAAAA-TATAGA-ACTTAACACATACTTACA-CTAGTGTAACTGAATAAAAT
1 AAAAAAGTATA-ACACTTAACACATACTTACACCGA-TGTAAGTGAATAAAAT
1655923 AAAAAAAGTATA
1 -AAAAAAGTATA
1655935 GCATTTAATG
Statistics
Matches: 185, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
50 80 0.43
51 57 0.31
52 6 0.03
53 30 0.16
54 12 0.06
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (51 bp):
AAAAAAGTATAACACTTAACACATACTTACACCGATGTAAGTGAATAAAAT
Found at i:1668414 original size:35 final size:35
Alignment explanation
Indices: 1668368--1668436 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
1668358 CGCAATAGTT
1668368 CAACCAAGAATCAAACCAAAAATCAAAAGATTGTC
1 CAACCAAGAATCAAACCAAAAATCAAAAGATTGTC
1668403 CAACCAAGAATCAAACCAAAAATCAAAAGATTGT
1 CAACCAAGAATCAAACCAAAAATCAAAAGATTGT
1668437 TCATTCCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.55, C:0.22, G:0.09, T:0.14
Consensus pattern (35 bp):
CAACCAAGAATCAAACCAAAAATCAAAAGATTGTC
Found at i:1669746 original size:3 final size:3
Alignment explanation
Indices: 1669733--1669775 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
1669723 CCGGGTTCAA
1669733 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1669776 TATAAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1671581 original size:2 final size:2
Alignment explanation
Indices: 1671528--1671563 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1671518 ACACACACAA
1671528 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1671564 TCTCAACCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1675321 original size:17 final size:16
Alignment explanation
Indices: 1675287--1675384 Score: 80
Period size: 17 Copynumber: 6.2 Consensus size: 16
1675277 AATCAAAGCA
1675287 AAAAGAAAAAAGCAAAG
1 AAAA-AAAAAAGCAAAG
* *
1675304 AAAAAAAGAGAGCGAAG
1 AAAAAAA-AAAGCAAAG
1675321 AAAAAGAAAAAGCAAAG
1 AAAAA-AAAAAGCAAAG
* *
1675338 -AAAAAATAATCAAAG
1 AAAAAAAAAAGCAAAG
1675353 AAAAAAAACAA--AAAG
1 AAAAAAAA-AAGCAAAG
*
1675368 -AAAAAGAAAG-AAAG
1 AAAAAAAAAAGCAAAG
1675382 AAA
1 AAA
1675385 TGGATTAAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
13 2 0.03
14 10 0.15
15 15 0.22
16 13 0.19
17 25 0.37
18 2 0.03
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAGCAAAG
Found at i:1675360 original size:35 final size:33
Alignment explanation
Indices: 1675276--1675376 Score: 87
Period size: 34 Copynumber: 2.9 Consensus size: 33
1675266 TGGAAAGATC
* *
1675276 AAATCAAAGCAAAAAGAAAAAAGCAAAGAAAAA
1 AAATCAAAGAAAAAAAAAAAAAGCAAAGAAAAA
* ** *
1675309 AAGA-GAGCGAAGAAAAAGAAAAAGCAAAGAAAAA
1 AA-ATCAAAGAA-AAAAAAAAAAAGCAAAGAAAAA
*
1675343 ATAATCAAAGAAAAAAAACAAAAAGAAAAAGAAA
1 A-AATCAAAGAAAAAAAA-AAAAAG-CAAAGAAA
1675377 GAAAGAAATG
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
33 5 0.10
34 28 0.55
35 11 0.22
36 7 0.14
ACGTcount: A:0.75, C:0.07, G:0.15, T:0.03
Consensus pattern (33 bp):
AAATCAAAGAAAAAAAAAAAAAGCAAAGAAAAA
Found at i:1678382 original size:21 final size:21
Alignment explanation
Indices: 1678307--1678371 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
1678297 ACCTTTGAGA
*
1678307 TTGTTTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
*
1678328 TTGTCTCTCTTGGAACAAATT
1 TTGTCTCTCTTGAAACAAATT
1678349 TTGTCTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
1678370 TT
1 TT
1678372 ATCTTGCTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (21 bp):
TTGTCTCTCTTGAAACAAATT
Found at i:1678460 original size:67 final size:66
Alignment explanation
Indices: 1678349--1678533 Score: 264
Period size: 66 Copynumber: 2.8 Consensus size: 66
1678339 GGAACAAATT
* * *
1678349 TTGTCTCTCTTGAAACAAATTTTATCTTGCTTGAGACA-TTTCTCTTGAAACTTAAACCTTTGAG
1 TTGTTTCTCTTGAAACAAATTTTATCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAG
1678413 A
66 A
* * * *
1678414 TTGTTTCTCTCGAAACAAAGTTTTGTCTCACTTGAGAAAGTTTCTCTTGAAACATAAACCTTTGA
1 TTGTTTCTCTTGAAACAAA-TTTTATCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGA
*
1678479 GT
65 GA
* *
1678481 TTGTTTCCCTTGAAACAAATTTTTTCTCGCTTGAGACAGTTTCTCTTGAAACA
1 TTGTTTCTCTTGAAACAAATTTTATCTCGCTTGAGACAGTTTCTCTTGAAACA
1678534 AATTTAATCT
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
65 17 0.16
66 46 0.44
67 42 0.40
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (66 bp):
TTGTTTCTCTTGAAACAAATTTTATCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAG
A
Found at i:1678523 original size:36 final size:36
Alignment explanation
Indices: 1678483--1678552 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
1678473 CTTTGAGTTT
** *
1678483 GTTTCCCTTGAAACAAATTTTTTCTCGCTTGAGACA
1 GTTTCCCTTGAAACAAATTTAATCTCACTTGAGACA
*
1678519 GTTTCTCTTGAAACAAATTTAATCTCACTTGAGA
1 GTTTCCCTTGAAACAAATTTAATCTCACTTGAGA
1678553 TTGTTGTCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTAATCTCACTTGAGACA
Found at i:1678806 original size:139 final size:139
Alignment explanation
Indices: 1678554--1678985 Score: 571
Period size: 139 Copynumber: 3.1 Consensus size: 139
1678544 CACTTGAGAT
* * * * *
1678554 TGTTGTCTCCAATTTATCCCTAAAGACGGCTAGATGTCCTCATCACGTAGAAACAATATCGTCCA
1 TGTTGTCTCCAAATTATCCCTAAATACGGCTAGACGTCCTCATCACGTAGAAAAAATGTCGTCCA
* * * * *
1678619 -TCGACTAGATCTCCTCAACACGTAAGAGCAGTGTCATCCTCAGACAATCAGACTTCCTTATCAA
66 CT-GACCAGATCTCCTCAACGCGTAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCAC
1678683 GTAAGAATCG
130 GTAAGAATCG
* * * *
1678693 TGTTGTCTCCAAAGTATCCCTAAATATGGCTAGACCTACTCATCACGTAGAAAAAATGTCGTCCA
1 TGTTGTCTCCAAATTATCCCTAAATACGGCTAGACGTCCTCATCACGTAGAAAAAATGTCGTCCA
* *
1678758 CTGTCCAGATCTCCTCAATGCGTAGGAGCAGTGTCATCCTCATG-CAATCAGACTTCCTCATCAC
66 CTGACCAGATCTCCTCAACGCGTAGGAGCAGTGTCATCCTCA-GACAATCAGACTTCCTCATCAC
* *
1678822 GTATGAACCG
130 GTAAGAATCG
* * * * *
1678832 TGATATCTCCAAATTATCCCTAAATACGGCTAGACGTCCTCATCACATAGGAAAAATGTCATCCA
1 TGTTGTCTCCAAATTATCCCTAAATACGGCTAGACGTCCTCATCACGTAGAAAAAATGTCGTCCA
* * * *
1678897 CCGACCAGATCTCCTCAACGCATAGGAGCAGTGTTATCCTCAGACAATCAGACTTCCTCGTCACG
66 CTGACCAGATCTCCTCAACGCGTAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACG
*
1678962 TAGGAATCG
131 TAAGAATCG
*
1678971 TGTTGTCACCAAATT
1 TGTTGTCTCCAAATT
1678986 CTCTCCAGAT
Statistics
Matches: 252, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
138 1 0.00
139 249 0.99
140 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (139 bp):
TGTTGTCTCCAAATTATCCCTAAATACGGCTAGACGTCCTCATCACGTAGAAAAAATGTCGTCCA
CTGACCAGATCTCCTCAACGCGTAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACG
TAAGAATCG
Found at i:1694372 original size:105 final size:106
Alignment explanation
Indices: 1694173--1694374 Score: 235
Period size: 105 Copynumber: 1.9 Consensus size: 106
1694163 GACCACATAT
* * *
1694173 AAATTCCTTAAGAACCATATACATATATATACCAAGGATCAAGTAAGTGTCTCAAAAGACCTCAT
1 AAATTCCTTAAGAACCATATAC--A-ATATACCAAGGACCAAATAAGTGTCACAAAAGACCTCAT
*
1694238 ACATGCTCCAAAGAATACATGTACGTCCCGAAAGACCACGTAGA
63 ACATGCTCCAAAGAATACATATACGTCCCGAAAGACCACGTAGA
* * * * * *
1694282 AAATTCCTTAAGAATCATATAC-ATATGCTAAGGACCAAATACGTGTCACAAAGGACCTCATAGA
1 AAATTCCTTAAGAACCATATACAATATACCAAGGACCAAATAAGTGTCACAAAAGACCTCATACA
* * * * *
1694346 TGTTCCATAGGATACCTATATGTCCCGAA
66 TGCTCCAAAGAATACATATACGTCCCGAA
1694375 GTACCGCATA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
105 57 0.73
109 21 0.27
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (106 bp):
AAATTCCTTAAGAACCATATACAATATACCAAGGACCAAATAAGTGTCACAAAAGACCTCATACA
TGCTCCAAAGAATACATATACGTCCCGAAAGACCACGTAGA
Found at i:1700316 original size:50 final size:50
Alignment explanation
Indices: 1700257--1700377 Score: 224
Period size: 50 Copynumber: 2.4 Consensus size: 50
1700247 GTCTCAACTC
*
1700257 TAATTCCTAATAAAATAATAATAACTAAAAATAATGTTTTAACTTAACCT
1 TAATTCCTAATAAAATAATAATAACTAAAAATAATATTTTAACTTAACCT
1700307 TAATTCCTAATAAAATAATAATAACTAAAAATAATATTTTAACTTAACCT
1 TAATTCCTAATAAAATAATAATAACTAAAAATAATATTTTAACTTAACCT
*
1700357 TAATTCCTAATCAAATAATAA
1 TAATTCCTAATAAAATAATAA
1700378 ATCTAATCCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (50 bp):
TAATTCCTAATAAAATAATAATAACTAAAAATAATATTTTAACTTAACCT
Found at i:1702080 original size:2 final size:2
Alignment explanation
Indices: 1702016--1702063 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1702006 AGGAGACATC
1702016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1702058 AT AT AT
1 AT AT AT
1702064 TCTCAACCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1704574 original size:27 final size:27
Alignment explanation
Indices: 1704537--1704592 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
1704527 CATTAACAAT
*
1704537 TTTTTTTAATTACTGAGGTAAATTGAA
1 TTTTTTAAATTACTGAGGTAAATTGAA
*
1704564 TTTTTTAAATTACTGAGGTAAGTTGAA
1 TTTTTTAAATTACTGAGGTAAATTGAA
1704591 TT
1 TT
1704593 GTGCAGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (27 bp):
TTTTTTAAATTACTGAGGTAAATTGAA
Found at i:1705494 original size:18 final size:18
Alignment explanation
Indices: 1705468--1705503 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1705458 TAATAGTTCT
*
1705468 GAGAACAAAGTACAATAG
1 GAGAACAAAGAACAATAG
*
1705486 GAGACCAAAGAACAATAG
1 GAGAACAAAGAACAATAG
1705504 CTGGGGGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.14, G:0.22, T:0.08
Consensus pattern (18 bp):
GAGAACAAAGAACAATAG
Found at i:1708847 original size:2 final size:2
Alignment explanation
Indices: 1708842--1708872 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1708832 AAAAAATAGG
*
1708842 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1708873 TGTTTACAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1711598 original size:34 final size:33
Alignment explanation
Indices: 1711560--1711694 Score: 83
Period size: 35 Copynumber: 3.8 Consensus size: 33
1711550 TTTTTTTTTT
1711560 AAATTTCGGGATCGGGTAGGATTTCTTTTTAAAA
1 AAATTTCGGGATCGGGTAGGATTT-TTTTTAAAA
* * * * *
1711594 AAATTTTGGGTTCCGGTCGGGTCGGGTTTTTTTAAAAA
1 AAA-TTTCGG----GATCGGGTAGGATTTTTTTTAAAA
** *
1711632 AAATTTCGGGATCAAGCAGGATTTTTTTTTAAAAA
1 AAATTTCGGGATCGGGTAGGA-TTTTTTTT-AAAA
* * *
1711667 AAATTTTGGGGTTGGGTTAGG-TTTTTTT
1 AAATTTCGGGATCGGG-TAGGATTTTTTT
1711695 AAGTGTGATA
Statistics
Matches: 74, Mismatches: 19, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
33 6 0.08
34 17 0.23
35 20 0.27
36 3 0.04
37 5 0.07
38 11 0.15
39 12 0.16
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.41
Consensus pattern (33 bp):
AAATTTCGGGATCGGGTAGGATTTTTTTTAAAA
Found at i:1711989 original size:27 final size:22
Alignment explanation
Indices: 1711930--1711979 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
1711920 TTGGGTCGGG
*
1711930 TCTCGGGTGGAGGTTCTCTTGT
1 TCTCGGGTGGAGGTTCCCTTGT
1711952 TCTCGGGTGGAGGTTCCCTTGT
1 TCTCGGGTGGAGGTTCCCTTGT
1711974 TCTCGG
1 TCTCGG
1711980 ATCAGGTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.04, C:0.22, G:0.36, T:0.38
Consensus pattern (22 bp):
TCTCGGGTGGAGGTTCCCTTGT
Found at i:1715389 original size:21 final size:21
Alignment explanation
Indices: 1715350--1715390 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
1715340 AATTGAATTT
1715350 ATTCAAAGTTTTCATCAAAATA
1 ATTCAAAG-TTTCATCAAAATA
1715372 ATTCAAAG-TTCAATCAAAA
1 ATTCAAAGTTTC-ATCAAAA
1715391 CCTTAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 7 0.39
22 8 0.44
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (21 bp):
ATTCAAAGTTTCATCAAAATA
Found at i:1719118 original size:81 final size:82
Alignment explanation
Indices: 1718987--1719265 Score: 290
Period size: 82 Copynumber: 3.4 Consensus size: 82
1718977 TGGGAAATCC
* * * * ** ** * * *
1718987 ACTCCACTACTATTTCAGTGTAGATCGGACTTGACATGTTCCTCTCTTTTGGATAGTCTGATCAA
1 ACTCCACTATTCTTTCAGGGGAGATAAGACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAA
*
1719052 ATATGGAAAACGAGTTT
66 ATTTGGAAAACGAGTTT
* * * * * *
1719069 ACGCCACTTTTCTTTTA-GGGTGTTAAGACTTGATTTGTTCTTCTTTTTTGGGTAGTCAGATCAA
1 ACTCCACTATTCTTTCAGGGGAGATAAGACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAA
* * **
1719133 ATTTGAAAAATGAGTCC
66 ATTTGGAAAACGAGTTT
* *
1719150 ACTTCACTATTCTTTCAGGGGAGATCAGACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAA
1 ACTCCACTATTCTTTCAGGGGAGATAAGACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAA
* *
1719215 ATTTGGAAGACAAGTTT
66 ATTTGGAAAACGAGTTT
* * *
1719232 ACTCCACTATTCTTTCAGAGGATATTAGACTTGA
1 ACTCCACTATTCTTTCAGGGGAGATAAGACTTGA
1719266 AAAATCTTTG
Statistics
Matches: 156, Mismatches: 40, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
81 60 0.38
82 96 0.62
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (82 bp):
ACTCCACTATTCTTTCAGGGGAGATAAGACTTGATTTGTTCCTCTTTTTTGGGTAGTCAGATCAA
ATTTGGAAAACGAGTTT
Found at i:1719352 original size:47 final size:47
Alignment explanation
Indices: 1719275--1720269 Score: 644
Period size: 47 Copynumber: 19.8 Consensus size: 47
1719265 AAAAATCTTT
* * * * *
1719275 GGAAAACGAATCTACTCCACTGTTCTTTCAGGGATATAAGATCTAAC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
*
1719322 GGAAGACAAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
*
1719369 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC---CAA-C
* * * * *
1719421 TTTGGAAAACGGATCTTCTCCACTCTTCCTTCAGGGAGATAAGATCCAAG
1 ---GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
* * *
1719471 GGAAGACAAATCTGCT-CACTCTTCTTTTAGGGAGATAAGATCCAAG
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
* * * *
1719517 GGAAGAAGAATTTACTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC---CAA-C
* * * * * * * * *
1719569 TTTGTAAAATGGATCAGCTCCACTATTCTTTCAAGGAGATAAGGTCCAAT
1 ---GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
* * * ** * *
1719619 GAAAGACGAATCTGCTCCATTTTTCTGCCAGGGAGATAAGATCTAAG
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
* * * *
1719666 GGAAGATGAATCTACTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC---CAA-C
* * * *
1719718 TTTGTAAAAC-AGATATGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
1 ---GGAAGACGA-ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
* * *
1719768 GGAAGATGAATCTGCTCCACTCTTCTATCAGGGAGATAAGACTCGAGAAATC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC---CAA-C
* * * * *
1719820 TTTGTAAAACGGATCTGCTCCACTCTTCTTTTAGGGAGATAAGATCCAAG
1 ---GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
* * * *
1719870 GGAAGACAAATCTGCTCTACTCATCTTTCAGGGAGATAAGACTCAATAAATC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC---CAA-C
* * * * * *
1719922 ATTGGAAAATGGATCTCCTCCACTCTTCTTTTAGGGAGATAAGACTCGAGAAATC
1 ---GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC---CAA-C
* * * * * *
1719977 TTTGTAAAACGAATCTCCTCCACTCTTCTTTGAGGGAGATAATATCCAAG
1 ---GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
* * * *
1720027 GGAAGACGTATCTGTTCCACTCTTCTTTCAGGGAGATATGACTCGAGAAATCTTC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC---CAA----C
* * * * *
1720082 GTAAAATGGATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAT
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
* * *
1720129 GGAAGACGAATCTGCTCCACGCTTCTTTCAGGGAGATAAGACTTGAGACATC
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA--T---CCAAC
* * *
1720181 TTTGGAAAACGAATCTGCTCCACTCTTTTTTCAGGGAGATAAGATCCAAG
1 ---GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
*
1720231 GGAAGACGAATCTGCTCCACTCTTCTTTCAGAGAGATAA
1 GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAA
1720270 AACTCGAGAA
Statistics
Matches: 742, Mismatches: 147, Indels: 118
0.74 0.15 0.12
Matches are distributed among these distances:
46 40 0.05
47 356 0.48
48 13 0.02
49 1 0.00
50 2 0.00
51 24 0.03
52 3 0.00
53 1 0.00
54 13 0.02
55 289 0.39
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (47 bp):
GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAC
Found at i:1719463 original size:149 final size:149
Alignment explanation
Indices: 1719233--1720269 Score: 886
Period size: 149 Copynumber: 6.9 Consensus size: 149
1719223 GACAAGTTTA
* * * * * * *
1719233 CTCCACTATTCTTTCAGAGGATATTAGACTTGAAAAATCTTTGGAAAACGAATCTACTCCACTGT
1 CTCCACTCTTCTTTCAG-GGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCT
* * *
1719298 TCTTTCAGGGATATAAGATCTAACGGAAGACAAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA
65 TCTTTCAGGGAGATAAGATCCAACGGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA
1719363 TCCAACGGAAGACGAATCTG
130 TCCAACGGAAGACGAATCTG
* *
1719383 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGGATCTTCTCCACTCTT
1 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTT
* * * *
1719448 CCTTCAGGGAGATAAGATCCAAGGGAAGACAAATCTGCT-CACTCTTCTTTTAGGGAGATAAGAT
66 CTTTCAGGGAGATAAGATCCAACGGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGAT
* * * *
1719512 CCAAGGGAAGAAGAATTTA
131 CCAACGGAAGACGAATCTG
* * * * *
1719531 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGGATCAGCTCCACTATT
1 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTT
* * * * * * **
1719596 CTTTCAAGGAGATAAGGTCCAATGAAAGACGAATCTGCTCCATTTTTCTGCCAGGGAGATAAGAT
66 CTTTCAGGGAGATAAGATCCAACGGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGAT
* * * *
1719661 CTAAGGGAAGATGAATCTA
131 CCAACGGAAGACGAATCTG
* * *
1719680 CTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTGTAAAAC-AGATATGCTCCACTCT
1 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGA-ATCTGCTCCACTCT
* * *
1719744 TCTTTCAGGGAGATAAGATCCAAGGGAAGATGAATCTGCTCCACTCTTCTATCAGGGAGATAAGA
65 TCTTTCAGGGAGATAAGATCCAACGGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA
* * * *
1719809 CTCGAGAAATCTTTGTAAAACGGATCTG
130 -TC---CAA-C---GGAAGACGAATCTG
* * * * * * *
1719837 CTCCACTCTTCTTTTAGGGAGATAAGA-TC---CAA----GGGAAGACAAATCTGCTCTACTCAT
1 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTT
* * * * * *
1719894 CTTTCAGGGAGATAAGACTCAATAAATCATTGGAAAATGGATCTCCTCCACTCTTCTTTTAGGGA
66 CTTTCAGGGAGATAAGA-TC---CAA-C---GGAAGACGAATCTGCTCCACTCTTCTTTCAGGGA
* * * *
1719959 GATAAGACTCGAGAAATCTTTGTAAAACGAATCTC
123 GATAAGA-TC---CAA-C---GGAAGACGAATCTG
* * * * * * *
1719994 CTCCACTCTTCTTTGAGGGAGATAATA-TC---CAA----GGGAAGACGTATCTGTTCCACTCTT
1 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTT
* * * * * *
1720051 CTTTCAGGGAGATATGACTCGAGAAATCTTCGTAAAATGGATCTGCTCCACTCTTCTTTCAGGGA
66 CTTTCAGGGAGATAAGA-TC---CAA----CGGAAGACGAATCTGCTCCACTCTTCTTTCAGGGA
*
1720116 GATAAGATCCAATGGAAGACGAATCTG
123 GATAAGATCCAACGGAAGACGAATCTG
* * *
1720143 CTCCACGCTTCTTTCAGGGAGATAAGACTTGAGACATCTTTGGAAAACGAATCTGCTCCACTCTT
1 CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTT
* * *
1720208 TTTTCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTCCACTCTTCTTTCAGAGAGATAA
66 CTTTCAGGGAGATAAGATCCAACGGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAA
1720270 AACTCGAGAA
Statistics
Matches: 744, Mismatches: 113, Indels: 61
0.81 0.12 0.07
Matches are distributed among these distances:
148 132 0.18
149 328 0.44
150 22 0.03
153 11 0.01
156 6 0.01
157 243 0.33
160 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (149 bp):
CTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTT
CTTTCAGGGAGATAAGATCCAACGGAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGAT
CCAACGGAAGACGAATCTG
Found at i:1719759 original size:204 final size:200
Alignment explanation
Indices: 1719282--1720269 Score: 723
Period size: 204 Copynumber: 4.9 Consensus size: 200
1719272 TTTGGAAAAC
* * * * * *
1719282 GAATCTACTCCACTGTTCTTTCAGGGATATAAGA-TC-TAA-C--GGAAGACAAATCTGCTCCAC
1 GAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCTTGGAAAAC-GATCTGCTCCAC
* *
1719342 TCTTCTTTCAGGGAGATAAGA-TC---CAA-C---GGAAGACGAATCTGCTCCACTCTTCTTTCA
65 TCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCTTTCA
* * * *
1719399 GGGAGATAAGACTCGAGAAATCTTTGGAAA-ACGGATCTTCTCCACTCTTCCTTCAGGGAGATAA
130 GGGAGATAAGA-TC---CAA-----GGAAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAA
* *
1719463 GATCCAAGGGAAGAC
186 GATCAAAGGGAAGAT
* * * * * *
1719478 AAATCTGCT-CACTCTTCTTTTAGGGAGATAAGA-TC-CAA---GGGAAGAA-GAATTTACTCCA
1 GAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCTTGGAA-AACG-ATCTGCTCCA
* * * * *
1719536 CTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGGATCAGCTCCACTATTCTTTC
64 CTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCTTTC
* * * * * ** *
1719601 AAGGAGATAAGGTCCAATGAAAGACGAATCTGCTCCATTTTTCTGCCAGGGAGATAAGATCTAAG
129 AGGGAGATAAGATCCAAGGAAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCAAAG
1719666 GGAAGAT
194 GGAAGAT
* * * *
1719673 GAATCTACTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTGTAAAACAGATATGCTC
1 GAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTC-A-AAATC-TTGGAAAAC-GATCTGCTC
* * * * *
1719738 CACTCTTCTTTCAGGGAGATAAGA-TC---CAA----GGGAAGATGAATCTGCTCCACTCTTCTA
62 CACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCTT
* * * *
1719795 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAA-ACGGATCTGCTCCACTCTTCTTTTAGGGAGA
127 TCAGGGAGATAAGA-TC---CAA-----GGAAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGA
* *
1719859 TAAGATCCAAGGGAAGAC
183 TAAGATCAAAGGGAAGAT
* * * * *
1719877 AAATCTGCTCTACTCATCTTTCAGGGAGATAAGACTCAATAAATCATTGGAAAATGGATCTCCTC
1 GAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTC-A-AAATC-TTGGAAAA-CGATCTGCTC
* * *
1719942 CACTCTTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTCCTCCACTCTTCTT
62 CACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCTT
* * * * * *
1720007 TGAGGGAGATAATATCCAAGGGAAGACGTATCTGTTCCACTCTTCTTTCAGGGAGATATGACTCG
127 TCAGGGAGATAAGATCCAAGGAAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC-
* * *
1720072 AGAAATCTTCGTAAAAT
190 --AAA----GGGAAGAT
* * *
1720089 GGATCTGCTCCACTCTTCTTTCAGGGAGATAAGA-TC-CAA---TGGAAGACGAATCTGCTCCAC
1 GAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCTTGGAAAACG-ATCTGCTCCAC
* * * *
1720149 GCTTCTTTCAGGGAGATAAGACTTGAGACATCTTTGGAAAACGAATCTGCTCCACTCTTTTTTCA
65 TCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCTTTCA
* *
1720214 GGGAGATAAGATCCAAGGGAAGACGAATCTGCTCCACTCTTCTTTCAGAGAGATAA
130 GGGAGATAAGATCCAAGGAAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAA
1720270 AACTCGAGAA
Statistics
Matches: 626, Mismatches: 115, Indels: 94
0.75 0.14 0.11
Matches are distributed among these distances:
194 4 0.01
195 106 0.17
196 65 0.10
197 4 0.01
199 4 0.01
200 7 0.01
202 2 0.00
203 41 0.07
204 305 0.49
205 8 0.01
208 8 0.01
211 4 0.01
212 68 0.11
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (200 bp):
GAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCTTGGAAAACGATCTGCTCCACT
CTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCTTTCAG
GGAGATAAGATCCAAGGAAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCAAAGGG
AAGAT
Found at i:1719807 original size:102 final size:102
Alignment explanation
Indices: 1719628--1719965 Score: 478
Period size: 102 Copynumber: 3.3 Consensus size: 102
1719618 TGAAAGACGA
* * ** * *
1719628 ATCTGCTCCATTTTTCTGCCAGGGAGATAAGATCTAAGGGAAGATGAATCTACTCCACTCTTCTT
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGATGAATCTGCTCCACTCTTCTT
* *
1719693 TCAGAGAGATAAGACTCGAGAAATCTTTGTAAAACAG
66 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGG
* *
1719730 ATATGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGATGAATCTGCTCCACTCTTCTA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGATGAATCTGCTCCACTCTTCTT
1719795 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGG
66 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGG
* ** * *
1719832 ATCTGCTCCACTCTTCTTTTAGGGAGATAAGATCCAAGGGAAGACAAATCTGCTCTACTCATCTT
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGATGAATCTGCTCCACTCTTCTT
* * * * *
1719897 TCAGGGAGATAAGACTCAATAAATCATTGGAAAATGG
66 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGG
* *
1719934 ATCTCCTCCACTCTTCTTTTAGGGAGATAAGA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGA
1719966 CTCGAGAAAT
Statistics
Matches: 213, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 213 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (102 bp):
ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGATGAATCTGCTCCACTCTTCTT
TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGG
Found at i:1719966 original size:157 final size:155
Alignment explanation
Indices: 1719733--1720353 Score: 602
Period size: 157 Copynumber: 4.1 Consensus size: 155
1719723 AAAACAGATA
** *
1719733 TGCTCCACTCTTCTTTCAGGGAGATAAGA-TC-----CAAGGGAAGATGAATCTGCTCCACTCTT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCATTGGAAAATGAATCTGCTCCACTCTT
* *
1719792 CTATCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTTAGGGA
66 CTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCACTCTTCTTTTAGGGA
*
1719857 GATAAGATCCAAGGGAAGACAAATC
131 GATAAGATCCAAGGGAAGACGAATC
* * * *
1719882 TGCTCTACTCATCTTTCAGGGAGATAAGACTCAATAAATCATTGGAAAATGGATCTCCTCCACTC
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTC-A-AAATCATTGGAAAATGAATCTGCTCCACTC
* * *
1719947 TTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTCCTCCACTCTTCTTTGAGG
64 TTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCACTCTTCTTTTAGG
* *
1720012 GAGATAATATCCAAGGGAAGACGTATC
129 GAGATAAGATCCAAGGGAAGACGAATC
* * * *
1720039 TGTTCCACTCTTCTTTCAGGGAGATATGACTCGAGAAATC-TTCGTAAAATGGATCTGCTCCACT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTC-A-AAATCATT-GGAAAATGAATCTGCTCCACT
* * * * *
1720103 CTTCTTTCAGGGAGATAAGA-TC---CAA----TGGAAGACGAATCTGCTCCACGCTTCTTTCAG
63 CTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCACTCTTCTTTTAG
*** *
1720160 GGAGATAAGACTTGAGACATCTTTGGAAAACGAATC
128 GGAGATAAGA--T----C--CAAGGGAAGACGAATC
* ** * *
1720196 TGCTCCACTCTTTTTTCAGGGAGATAAGA-TC-----CAAGGGAAGACGAATCTGCTCCACTCTT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCATTGGAAAATGAATCTGCTCCACTCTT
* * * * * *
1720255 CTTTCAGAGAGATAAAACTCGAGAAATCTTTGTAAAAAGGATATGCTCCACTTTTCTTTCT-GGG
66 CTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCACTCTTCTTT-TAGGG
*
1720319 AGATAAGATCCAAGGGAAGACGAATA
130 AGATAAGATCCAAGGGAAGACGAATC
1720345 TGCTCCACT
1 TGCTCCACT
1720354 GACTCGAGAT
Statistics
Matches: 384, Mismatches: 61, Indels: 54
0.77 0.12 0.11
Matches are distributed among these distances:
149 119 0.31
150 4 0.01
151 2 0.01
153 4 0.01
155 2 0.01
156 6 0.02
157 247 0.64
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (155 bp):
TGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCATTGGAAAATGAATCTGCTCCACTCTT
CTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCACTCTTCTTTTAGGGA
GATAAGATCCAAGGGAAGACGAATC
Found at i:1719993 original size:55 final size:55
Alignment explanation
Indices: 1719878--1720122 Score: 227
Period size: 55 Copynumber: 4.6 Consensus size: 55
1719868 AGGGAAGACA
* * * * * *
1719878 AATCTGCTCTACTCATCTTTCAGGGAGATAAGACTCAATAAATCATTGGAAAATG
1 AATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACG
* * * *
1719933 GATCTCCTCCACTCTTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAAACG
1 AATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACG
* * * * * *
1719988 AATCTCCTCCACTCTTCTTTGAGGGAGATAATA-TC---CAA----GGGAAGACG
1 AATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACG
* * * * * *
1720035 TATCTGTTCCACTCTTCTTTCAGGGAGATATGACTCGAGAAATCTTCGTAAAATG
1 AATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACG
*
1720090 GATCTGCTCCACTCTTCTTTCAGGGAGATAAGA
1 AATCTGCTCCACTCTTCTTTCAGGGAGATAAGA
1720123 TCCAATGGAA
Statistics
Matches: 151, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
47 33 0.22
48 2 0.01
51 4 0.03
54 2 0.01
55 110 0.73
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (55 bp):
AATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACG
Found at i:1720048 original size:102 final size:102
Alignment explanation
Indices: 1719934--1720353 Score: 615
Period size: 102 Copynumber: 4.1 Consensus size: 102
1719924 TGGAAAATGG
* * *
1719934 ATCTCCTCCACTCTTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTCCTCCA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCA
* * *
1719999 CTCTTCTTTGAGGGAGATAATATCCAAGGGAAGACGT
66 CTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGA
* * * * *
1720036 ATCTGTTCCACTCTTCTTTCAGGGAGATATGACTCGAGAAATCTTCGTAAAATGGATCTGCTCCA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCA
*
1720101 CTCTTCTTTCAGGGAGATAAGATCCAATGGAAGACGA
66 CTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGA
* * * *
1720138 ATCTGCTCCACGCTTCTTTCAGGGAGATAAGACTTGAGACATCTTTGGAAAACGAATCTGCTCCA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCA
*
1720203 CTCTTTTTTCAGGGAGATAAGATCCAAGGGAAGACGA
66 CTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGA
* * * * *
1720240 ATCTGCTCCACTCTTCTTTCAGAGAGATAAAACTCGAGAAATCTTTGTAAAAAGGATATGCTCCA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCA
* *
1720305 CTTTTCTTTCTGGGAGATAAGATCCAAGGGAAGACGA
66 CTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGA
*
1720342 ATATGCTCCACT
1 ATCTGCTCCACT
1720354 GACTCGAGAT
Statistics
Matches: 282, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 282 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (102 bp):
ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCTCCA
CTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGA
Found at i:1720048 original size:259 final size:258
Alignment explanation
Indices: 1719331--1720224 Score: 1147
Period size: 259 Copynumber: 3.5 Consensus size: 258
1719321 CGGAAGACAA
*
1719331 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAACGGAAGACGAATCTGCTCCACTCTTCTT
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAATGGAAGACGAATCTGCTCCACTCTTCTT
* * * *
1719396 TCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGGATCTTCTCCACTCTTCCTTCAGGGAGAT
66 TCAGGGAGATAAGACTCGAGAAATCATTGGAAAACGAATCTACTCCACTCTTCTTTCAGGGAGAT
* * * * *
1719461 AAGA-TC---CAA----GGGAAGACAAATCTGCT-CACTCTTCTTTTAGGGAGATAAGATCCAAG
131 AAGACTCGAGAAATCTTTGTAAAAC-AATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
* *
1719517 GGAAGAAGAATTTACTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGG
195 GGAAGAAGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGG
* * * * * * * *
1719581 ATCAGCTCCACTATTCTTTCAAGGAGATAAGGTCCAATGAAAGACGAATCTGCTCCATTTTTCTG
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAATGGAAGACGAATCTGCTCCACTCTTCTT
* ** * * *
1719646 CCAGGGAGATAAGA-TC------T-AAGGGAAGATGAATCTACTCCACTCTTCTTTCAGAGAGAT
66 TCAGGGAGATAAGACTCGAGAAATCATTGGAAAACGAATCTACTCCACTCTTCTTTCAGGGAGAT
*
1719703 AAGACTCGAGAAATCTTTGTAAAACAGATATGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
131 AAGACTCGAGAAATCTTTGTAAAACA-ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
* * *
1719768 GGAAGATGAATCTGCTCCACTCTTCTATCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGG
195 GGAAGAAGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGG
* * * * *
1719832 ATCTGCTCCACTCTTCTTTTAGGGAGATAAGATCCAAGGGAAGACAAATCTGCTCTACTCATCTT
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAATGGAAGACGAATCTGCTCCACTCTTCTT
* * * * * *
1719897 TCAGGGAGATAAGACTCAATAAATCATTGGAAAATGGATCTCCTCCACTCTTCTTTTAGGGAGAT
66 TCAGGGAGATAAGACTCGAGAAATCATTGGAAAACGAATCTACTCCACTCTTCTTTCAGGGAGAT
* * *
1719962 AAGACTCGAGAAATCTTTGTAAAACGAATCTCCTCCACTCTTCTTTGAGGGAGATAATATCCAAG
131 AAGACTCGAGAAATCTTTGTAAAAC-AATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
* * * * *
1720027 GGAAGACGTATCTGTTCCACTCTTCTTTCAGGGAGATATGACTCGAGAAATCTTCGTAAAATGG
195 GGAAGAAGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGG
*
1720091 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAATGGAAGACGAATCTGCTCCACGCTTCTT
1 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAATGGAAGACGAATCTGCTCCACTCTTCTT
* * * * *
1720156 TCAGGGAGATAAGACTTGAGACATCTTTGGAAAACGAATCTGCTCCACTCTTTTTTCAGGGAGAT
66 TCAGGGAGATAAGACTCGAGAAATCATTGGAAAACGAATCTACTCCACTCTTCTTTCAGGGAGAT
1720221 AAGA
131 AAGA
1720225 TCCAAGGGAA
Statistics
Matches: 547, Mismatches: 78, Indels: 29
0.84 0.12 0.04
Matches are distributed among these distances:
242 35 0.06
243 3 0.01
246 2 0.00
249 3 0.01
250 80 0.15
251 153 0.28
252 2 0.00
258 1 0.00
259 267 0.49
260 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (258 bp):
ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAATGGAAGACGAATCTGCTCCACTCTTCTT
TCAGGGAGATAAGACTCGAGAAATCATTGGAAAACGAATCTACTCCACTCTTCTTTCAGGGAGAT
AAGACTCGAGAAATCTTTGTAAAACAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGG
GAAGAAGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGG
Found at i:1720143 original size:361 final size:354
Alignment explanation
Indices: 1719479--1720353 Score: 1134
Period size: 361 Copynumber: 2.5 Consensus size: 354
1719469 AGGGAAGACA
* *
1719479 AATCTGCT-CACTCTTCTTTTAGGGAGATAAGATCCAAGGGAAGA-AGAATTTACTCCACTCTTC
1 AATCTGCTCCACTCTTCTTTTAGGGAGATAAGATCCAAGGGAAGACA-AATCTGCTCCACTCTTC
* * *
1719542 TTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGGATCAGCTCCACTATTCTTTCAAGGAG
65 TTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGGATCTGCTCCACTATTCTTTTAGGGAG
* * * * * *
1719607 ATAAG-GTCCAATGAAAGACGAATCTGCTCCATTTTTCTGCCAGGGAGATAAGATCTAAGGGAAG
130 ATAAGACTCAAATGAAAGACGAATCTCCTCCACTCTTCTGCCAGGGAGATAAGATCCAAGGGAAG
* *
1719671 ATGAATCTACTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTTGTAAAACAGATATGC
195 ACGAATCTACTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTCGTAAAACAGATATGC
* *
1719736 TCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGATGAATCTGCTCCACTCTTCTATCAGGG
260 TCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTCCACGCTTCTATCAGGG
*
1719801 AGATAAGACTCGAGAAATCTTTGTAAAACG
325 AGATAAGACTCGAGAAATCTTTGGAAAACG
* * *
1719831 GATCTGCTCCACTCTTCTTTTAGGGAGATAAGATCCAAGGGAAGACAAATCTGCTCTACTCATCT
1 AATCTGCTCCACTCTTCTTTTAGGGAGATAAGATCCAAGGGAAGACAAATCTGCTCCACTCTTCT
* * * * * *
1719896 TTCAGGGAGATAAGACTCAATAAATCATTGGAAAATGGATCTCCTCCACTCTTCTTTTAGGGAGA
66 TTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGGATCTGCTCCACTATTCTTTTAGGGAGA
*** *
1719961 TAAGACTCGAGAAATCTTTGTAAA-ACGAATCTCCTCCACTCTTCTTTGAGGGAGATAATATCCA
131 TAAGACTC---AAA----TG-AAAGACGAATCTCCTCCACTCTTCTGCCAGGGAGATAAGATCCA
* ** * * **
1720025 AGGGAAGACGTATCTGTTCCACTCTTCTTTCAGGGAGATATGACTCGAGAAATCTTCGTAAAATG
188 AGGGAAGACGAATCTACTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTCGTAAAACA
* *
1720090 GATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAATGGAAGACGAATCTGCTCCACGCTTCT
253 GATATGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTCCACGCTTCT
* * *
1720155 TTCAGGGAGATAAGACTTGAGACATCTTTGGAAAACG
318 ATCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACG
*
1720192 AATCTGCTCCACTCTT-TTTTCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTCCACTCTTC
1 AATCTGCTCCACTCTTCTTTT-AGGGAGATAAGATCCAAGGGAAGACAAATCTGCTCCACTCTTC
* * * * *
1720256 TTTCAGAGAGATAAAACTCGAGAAATCTTTGTAAAAAGGATATGCTCCACTTTTCTTTCT-GGGA
65 TTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGGATCTGCTCCACTATTCTTT-TAGGGA
* * * * *
1720320 GATAAGA-TCCAAGGGAAGACGAATATGCTCCACT
129 GATAAGACTCAAATGAAAGACGAATCTCCTCCACT
1720354 GACTCGAGAT
Statistics
Matches: 449, Mismatches: 60, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
352 9 0.02
353 125 0.28
354 3 0.01
357 4 0.01
360 6 0.01
361 298 0.66
362 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (354 bp):
AATCTGCTCCACTCTTCTTTTAGGGAGATAAGATCCAAGGGAAGACAAATCTGCTCCACTCTTCT
TTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGGATCTGCTCCACTATTCTTTTAGGGAGA
TAAGACTCAAATGAAAGACGAATCTCCTCCACTCTTCTGCCAGGGAGATAAGATCCAAGGGAAGA
CGAATCTACTCCACTCTTCTTTCAGAGAGATAAGACTCGAGAAATCTTCGTAAAACAGATATGCT
CCACTCTTCTTTCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTCCACGCTTCTATCAGGGA
GATAAGACTCGAGAAATCTTTGGAAAACG
Found at i:1720614 original size:38 final size:39
Alignment explanation
Indices: 1720563--1720938 Score: 299
Period size: 38 Copynumber: 10.1 Consensus size: 39
1720553 TTAAGTCAAG
* * * *
1720563 GATTGGCTACTCTTCGCGAGGGAGTC-AGGAATAACAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
* *
1720601 GATTGACTTCTCTTCCCTAGGAAGTCAAGG-ATAACAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
* *
1720639 TATTGACTTCTCTTCACGAGGAAGTCAAGG-ATAACAAT
1 GATTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
* * *
1720677 TATTGAATTCTC-TCACGAGGAAGTCAAGG-ATAAAAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
* * * *
1720714 TATTGACTTCTCTTCATGAGGATGTCAAGG-ATAACTAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
* * * *
1720752 TATTGACTTCTCTTCA--A-G-AG--AA--AGT--TAAG
1 GATTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
* ** * *
1720781 GATTGTC-TCTTCTTCGTGAGGGAGTC-AGGAATAAAAAA
1 GATTGACTTC-TCTTCACGAGGAAGTCAAGGAATAACAAA
* * *
1720819 AAGTTGACTTCTCTTCACGAGAAAGTTAA-GAATAACAAA
1 GA-TTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
* * * *
1720858 GATTGACTTCTCTTTACGAGGAAGTCAAAGATTGAAAAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGGAAT-AACAAA
1720898 G-TTGACTTCTCTTCACGAGGAAGTCAA-GAATAACAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
1720935 GATT
1 GATT
1720939 AACTATTCTT
Statistics
Matches: 273, Mismatches: 45, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
28 2 0.01
29 11 0.04
31 2 0.01
32 3 0.01
33 2 0.01
34 2 0.01
35 1 0.00
36 3 0.01
37 40 0.15
38 142 0.52
39 56 0.21
40 9 0.03
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (39 bp):
GATTGACTTCTCTTCACGAGGAAGTCAAGGAATAACAAA
Found at i:1720728 original size:75 final size:75
Alignment explanation
Indices: 1720572--1720930 Score: 278
Period size: 75 Copynumber: 4.8 Consensus size: 75
1720562 GGATTGGCTA
* * * * * *
1720572 CTCTTCGCGAGGGAGTC-AGGAATAACAAAGATTGACTTCTCTTCCCTAGGAAGTCAAGGATAAC
1 CTCTTCACGAGGAAGTCAAGG-ATAAC-AATATTGACTTCTCTTCACGAGGAAGTCAAGGATAAA
1720636 AAATATTGACTT
64 AAATATTGACTT
*
1720648 CTCTTCACGAGGAAGTCAAGGATAACAATTATTGAATTCTC-TCACGAGGAAGTCAAGGATAAAA
1 CTCTTCACGAGGAAGTCAAGGATAACAA-TATTGACTTCTCTTCACGAGGAAGTCAAGGATAAAA
1720712 AATATTGACTT
65 AATATTGACTT
* * * * *
1720723 CTCTTCATGAGGATGTCAAGGATAACTAATATTGACTTCTCTTCAAGAGAAAGTTAAGG------
1 CTCTTCACGAGGAAGTCAAGGATAAC-AATATTGACTTCTCTTCACGAGGAAGTCAAGGATAAAA
*
1720782 ---ATTGTC-T
65 AATATTGACTT
** * * * * * *
1720789 CTTCTTCGTGAGGGAGTC-AGGAATAAAAAAAAGTTGACTTCTCTTCACGAGAAAGTTAAGAATA
1 C-TCTTCACGAGGAAGTCAAGG-AT-AACAATA-TTGACTTCTCTTCACGAGGAAGTCAAGGATA
* *
1720853 ACAAAGATTGACTT
62 AAAAATATTGACTT
* * * *
1720867 CTCTTTACGAGGAAGTCAAAGATTGAA-AAAAGTTGACTTCTCTTCACGAGGAAGTCAAGAATAA
1 CTCTTCACGAGGAAGTCAAGGA-T-AACAATA-TTGACTTCTCTTCACGAGGAAGTCAAGGATAA
1720931 CAAAGATTAA
Statistics
Matches: 233, Mismatches: 30, Indels: 39
0.77 0.10 0.13
Matches are distributed among these distances:
66 5 0.02
67 23 0.10
68 28 0.12
75 68 0.29
76 46 0.20
77 56 0.24
78 7 0.03
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (75 bp):
CTCTTCACGAGGAAGTCAAGGATAACAATATTGACTTCTCTTCACGAGGAAGTCAAGGATAAAAA
ATATTGACTT
Found at i:1720782 original size:113 final size:113
Alignment explanation
Indices: 1720579--1720783 Score: 297
Period size: 113 Copynumber: 1.8 Consensus size: 113
1720569 CTACTCTTCG
* * *
1720579 CGAGGGAGTCAGGAATAACAAAGATTGACTTCTCTTCCCTAGGAAGTCAAGGATAACAAATATTG
1 CGAGGAAGTCAGGAATAAAAAAGATTGACTTCTCTTCCATAGGAAGTCAAGGATAACAAATATTG
* *
1720644 ACTTCTCTTCACGAGGAAGTCAAGGATAACAATTATTGAATTCTCTCA
66 ACTTCTCTTCAAGAGAAAGTCAAGGATAACAATTATTGAATTCTCTCA
* * *
1720692 CGAGGAAGTCAAGG-ATAAAAAATATTGACTTCTCTT-CATGAGGATGTCAAGGATAACTAATAT
1 CGAGGAAGTC-AGGAATAAAAAAGATTGACTTCTCTTCCAT-AGGAAGTCAAGGATAACAAATAT
*
1720755 TGACTTCTCTTCAAGAGAAAGTTAAGGAT
64 TGACTTCTCTTCAAGAGAAAGTCAAGGAT
1720784 TGTCTCTTCT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 2 0.02
113 76 0.94
114 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (113 bp):
CGAGGAAGTCAGGAATAAAAAAGATTGACTTCTCTTCCATAGGAAGTCAAGGATAACAAATATTG
ACTTCTCTTCAAGAGAAAGTCAAGGATAACAATTATTGAATTCTCTCA
Found at i:1720852 original size:39 final size:39
Alignment explanation
Indices: 1720798--1720930 Score: 162
Period size: 39 Copynumber: 3.4 Consensus size: 39
1720788 TCTTCTTCGT
* *
1720798 GAGGGAGTCAGGAATAAAAAAAAGTTGACTTCTCTTCAC
1 GAGGAAGTCAAGAATAAAAAAAAGTTGACTTCTCTTCAC
* * * * *
1720837 GAGAAAGTTAAGAATAACAAAGA-TTGACTTCTCTTTAC
1 GAGGAAGTCAAGAATAAAAAAAAGTTGACTTCTCTTCAC
**
1720875 GAGGAAGTCAA-AGATTGAAAAAAGTTGACTTCTCTTCAC
1 GAGGAAGTCAAGA-ATAAAAAAAAGTTGACTTCTCTTCAC
1720914 GAGGAAGTCAAGAATAA
1 GAGGAAGTCAAGAATAA
1720931 CAAAGATTAA
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
37 1 0.01
38 29 0.39
39 44 0.59
40 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (39 bp):
GAGGAAGTCAAGAATAAAAAAAAGTTGACTTCTCTTCAC
Found at i:1721034 original size:62 final size:61
Alignment explanation
Indices: 1720925--1721147 Score: 188
Period size: 62 Copynumber: 3.6 Consensus size: 61
1720915 AGGAAGTCAA
* * * *
1720925 GAATAACAAAGATTAACTAT-TCTTTACGATGG-AGT-AAGTATTGACTCTGCTGGGGAGTTAG
1 GAATAATAAAGATTGACT-TCTCTTCACGA-GGAAGTCAAGTATTGACTCT-CTGGGGAGTAAG
* * *
1720986 GAATAATAAAGATTGACTTCTCTTCACGAGGAAGTCAAGTATTGACTCTACTAGGAAGTCAG
1 GAATAATAAAGATTGACTTCTCTTCACGAGGAAGTCAAGTATTGACTCT-CTGGGGAGTAAG
* * ** ** *
1721048 GGATAATAAAGATTGATTTCTCTTCAATATAAAGTCAAAG-ATTGACTCCTTTGGGGAGTCAAG
1 GAATAATAAAGATTGACTTCTCTTCACGAGGAAGTC-AAGTATTGACT-CTCTGGGGAGT-AAG
* * *
1721111 G-ATAA-CAATATTGACTTCTCTTCACTAGGAAGTCAAG
1 GAATAATAAAGATTGACTTCTCTTCACGAGGAAGTCAAG
1721148 GATAACAAAA
Statistics
Matches: 133, Mismatches: 23, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
60 6 0.05
61 50 0.38
62 69 0.52
63 8 0.06
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (61 bp):
GAATAATAAAGATTGACTTCTCTTCACGAGGAAGTCAAGTATTGACTCTCTGGGGAGTAAG
Found at i:1721171 original size:38 final size:38
Alignment explanation
Indices: 1721104--1721407 Score: 326
Period size: 38 Copynumber: 8.3 Consensus size: 38
1721094 TCCTTTGGGG
*
1721104 AGTCAAGGATAAC-AATATTGACTTCTCTTCACTAGGA
1 AGTCAAGGATAACAAATATTGACTTCTCTTCACGAGGA
*
1721141 AGTCAAGGATAACAAAAATTGACTTCTCTTCACGAGGA
1 AGTCAAGGATAACAAATATTGACTTCTCTTCACGAGGA
* *
1721179 AGTCAAGGATAACAAATATTGAATTCTCTTCACGAGAA
1 AGTCAAGGATAACAAATATTGACTTCTCTTCACGAGGA
* *
1721217 AGTCAAGGATAACAAATATTAACTTCTCTTCACAAGGA
1 AGTCAAGGATAACAAATATTGACTTCTCTTCACGAGGA
* * * * * *
1721255 AGTCAAGAATAACAAAGATTGAATTCTTTTAACGAGAA
1 AGTCAAGGATAACAAATATTGACTTCTCTTCACGAGGA
* * *
1721293 AGTCAAGG---------ATTGACTCCTCTTCGCGAGGG
1 AGTCAAGGATAACAAATATTGACTTCTCTTCACGAGGA
*
1721322 AGTC-AGGAATAACAAA-AGTTGACTTATCTTCACGAGGA
1 AGTCAAGG-ATAACAAATA-TTGACTTCTCTTCACGAGGA
* ** *
1721360 AGTCAAGAATAACAAAGGTTAACTTCTCTTCACGAGGA
1 AGTCAAGGATAACAAATATTGACTTCTCTTCACGAGGA
1721398 AGTCAAGGAT
1 AGTCAAGGAT
1721408 TGACTCTAGG
Statistics
Matches: 220, Mismatches: 34, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
28 3 0.01
29 18 0.08
37 14 0.06
38 183 0.83
39 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (38 bp):
AGTCAAGGATAACAAATATTGACTTCTCTTCACGAGGA
Found at i:1721395 original size:105 final size:105
Alignment explanation
Indices: 1721217--1721413 Score: 283
Period size: 105 Copynumber: 1.9 Consensus size: 105
1721207 TTCACGAGAA
*
1721217 AGTCAAGGATAACAAATATTAACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGAATTCT
1 AGTCAAGGATAACAAATATTAACTTATCTTCACAAGGAAGTCAAGAATAACAAAGATTGAATTCT
*
1721282 TTTAACGAGAAAGTCAAGGATTGACTCCTCTTCGCGAGGG
66 CTTAACGAGAAAGTCAAGGATTGACTCCTCTTCGCGAGGG
* * *
1721322 AGTC-AGGAATAACAAA-AGTTGACTTATCTTCACGAGGAAGTCAAGAATAACAAAGGTT-AACT
1 AGTCAAGG-ATAACAAATA-TTAACTTATCTTCACAAGGAAGTCAAGAATAACAAAGATTGAA-T
* *
1721384 TCTCTTCACGAGGAAGTCAAGGATTGACTC
63 TCTCTTAACGAGAAAGTCAAGGATTGACTC
1721414 TAGGAAAAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
104 6 0.07
105 76 0.93
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (105 bp):
AGTCAAGGATAACAAATATTAACTTATCTTCACAAGGAAGTCAAGAATAACAAAGATTGAATTCT
CTTAACGAGAAAGTCAAGGATTGACTCCTCTTCGCGAGGG
Found at i:1725680 original size:46 final size:46
Alignment explanation
Indices: 1725629--1725915 Score: 409
Period size: 46 Copynumber: 6.3 Consensus size: 46
1725619 AAAAAGCCGT
* *
1725629 TAATGCACCTTTATGCATTTTCATTTGTGGCATCCTTTCATGCTGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGA
* *
1725675 TAATGCACCGTTATGCATTTTCA-TTATGGCATCCTTTCAAGTTGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGA
* *
1725720 TAATGCACCGCTATGCATTTTCATTTATGGCATCCTTTCATG-TCAA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCT-GA
* *
1725766 TAATGTACCGTTATGCATTTTCATTTATGGCAT-CTGTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCT-TTCATGCTGA
* * * *
1725812 TAATGCACCGTTATGCATTTTAATTTATGACATTCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGA
* *
1725858 TAATGCACCGTTATGTATTTTCATTTATGGCATCCTTTCATGCAGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGA
1725904 TAATGCACCGTT
1 TAATGCACCGTT
1725916 TTAAAGCATT
Statistics
Matches: 217, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
45 44 0.20
46 171 0.79
47 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (46 bp):
TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGA
Found at i:1728867 original size:55 final size:54
Alignment explanation
Indices: 1728683--1729022 Score: 367
Period size: 55 Copynumber: 6.2 Consensus size: 54
1728673 ATGCACAATT
* ** * ** *
1728683 AGTGCCTATACGGAAATTCATCAACTCATGATGAATTCCATGGGT-TGCATACA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACA
** * * * *
1728736 TAGTTTCTGTACGGTGATTCATCAACTCATGATGAACTCCATGGATTTTGCACACA
1 -AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGT-GAATATGCACACA
*
1728792 AGGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
1 A-GTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACAC-A
** * *
1728848 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTATGTGGATTTGCACACA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACA
*
1728902 AGGTGCCTGTATGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
1 A-GTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACAC-A
* * * ** * * *
1728958 AGTGCCAGTACGGTTATTCTTCAACTCATGATGAATTTTGTGGATTTGCACATA
1 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACA
1729012 AGGTGCCTGTA
1 A-GTGCCTGTA
1729023 GTACACATAG
Statistics
Matches: 243, Mismatches: 36, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
54 39 0.16
55 158 0.65
56 46 0.19
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (54 bp):
AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACA
Found at i:1728896 original size:110 final size:110
Alignment explanation
Indices: 1728684--1729022 Score: 466
Period size: 110 Copynumber: 3.1 Consensus size: 110
1728674 TGCACAATTA
* * * ** * **
1728684 GTGCCTATACGGAAATTCATCAACTCATGATGAATTCCATGGGT-TGCATAC-ATAGTTTCTGTA
1 GTGCCTGTACGGTAATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA-AGTGCCTGTA
* ***
1728747 CGGTGATTCATCAACTCATGATGAACTCCATGGATTTTGCACACAAG
65 CGGTGATTCATCAACTCATGATGAATTATGTGGA-TTTGCACACAAG
*
1728794 GTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTAC
1 GTGCCTGTACGGTAATTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTAC
1728859 GGTGATTCATCAACTCATGATGAATTATGTGGATTTGCACACAAG
66 GGTGATTCATCAACTCATGATGAATTATGTGGATTTGCACACAAG
* * *
1728904 GTGCCTGTATGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCAGTAC
1 GTGCCTGTACGGTAATTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTAC
* * * *
1728969 GGTTATTCTTCAACTCATGATGAATTTTGTGGATTTGCACATAAG
66 GGTGATTCATCAACTCATGATGAATTATGTGGATTTGCACACAAG
1729014 GTGCCTGTA
1 GTGCCTGTA
1729023 GTACACATAG
Statistics
Matches: 207, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
110 162 0.78
111 44 0.21
112 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (110 bp):
GTGCCTGTACGGTAATTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTAC
GGTGATTCATCAACTCATGATGAATTATGTGGATTTGCACACAAG
Found at i:1729022 original size:165 final size:164
Alignment explanation
Indices: 1728683--1728994 Score: 425
Period size: 165 Copynumber: 1.9 Consensus size: 164
1728673 ATGCACAATT
* * **
1728683 AGTGCCTATACGGAAATTCATCAACTCATGATGAATTCCATGGGTTGCATACATAGTTTCTGTAC
1 AGTGCCTGTACGGAAATTCATCAACTCATGATGAATT-CATGGGTTGCACACATAGTGCCTGTAC
* * *
1728748 GGTGATTCATCAACTCATGATGAACTCCATGGATTTTGCACACAAGGTGCCTGTACGGTTATTCA
65 GGTGATTCATCAACTCATGATGAACTCCATGGAATATGCACACAAGGTGCCAGTACGGTTATTCA
1728813 TCAACTCATGATGAATTCCGTGAATATGCACACGA
130 TCAACTCATGATGAATTCCGTGAATATGCACACGA
**
1728848 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATT-ATGTGGATTTGCACACA-AGGTGCCTG
1 AGTGCCTGTACGGAAATTCATCAACTCATGATGAATTCATG-GG--TTGCACACATA-GTGCCTG
* * *
1728911 TATGGTGATTCATCAACTCATGATGAATTCCGT-GAATATGCACACGAA-GTGCCAGTACGGTTA
62 TACGGTGATTCATCAACTCATGATGAACTCCATGGAATATGCACAC-AAGGTGCCAGTACGGTTA
*
1728974 TTCTTCAACTCATGATGAATT
126 TTCATCAACTCATGATGAATT
1728995 TTGTGGATTT
Statistics
Matches: 129, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
163 3 0.02
164 2 0.02
165 79 0.61
166 45 0.35
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (164 bp):
AGTGCCTGTACGGAAATTCATCAACTCATGATGAATTCATGGGTTGCACACATAGTGCCTGTACG
GTGATTCATCAACTCATGATGAACTCCATGGAATATGCACACAAGGTGCCAGTACGGTTATTCAT
CAACTCATGATGAATTCCGTGAATATGCACACGA
Found at i:1729056 original size:2 final size:2
Alignment explanation
Indices: 1729051--1729082 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1729041 TATCGATGTA
1729051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1729083 TAACAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1729490 original size:20 final size:20
Alignment explanation
Indices: 1729465--1729516 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
1729455 GTTGTCTGGC
*
1729465 ATCGATACCCTTACCATGGT
1 ATCGATACCCATACCATGGT
*
1729485 ATCGATACTACCATACTATGGT
1 ATCGATAC--CCATACCATGGT
1729507 ATCGATACCC
1 ATCGATACCC
1729517 CCTTCTGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.36
22 18 0.64
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (20 bp):
ATCGATACCCATACCATGGT
Found at i:1729533 original size:95 final size:96
Alignment explanation
Indices: 1729388--1729592 Score: 256
Period size: 95 Copynumber: 2.1 Consensus size: 96
1729378 TACTACCCTA
*** *
1729388 GTATCGATACTTTTATACTATGGTACTGATACCCCCATTTGGCATCGATACCAAAATTAGGTTCG
1 GTATCGATACTACCATACTATGGTACTGATACCCCCATTTGGCATCGATACCAAAATTAGATTCG
* *
1729453 ATGTTG-TCTGGCATCGATACCC-TTACCATG
66 ATATTGCT-TGGCATCAATACCCATTACCATG
*
1729483 GTATCGATACTACCATACTATGGTA-TCGATACCCCC-TTCTGGTATCGATACCAAAATTAGATT
1 GTATCGATACTACCATACTATGGTACT-GATACCCCCATT-TGGCATCGATACCAAAATTAGATT
* * *
1729546 TGATATTGCTTGGTATCAATACCCATTATCATG
64 CGATATTGCTTGGCATCAATACCCATTACCATG
*
1729579 GTATCGATAGTACC
1 GTATCGATACTACC
1729593 TCCTCGATAT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
94 3 0.03
95 71 0.75
96 21 0.22
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (96 bp):
GTATCGATACTACCATACTATGGTACTGATACCCCCATTTGGCATCGATACCAAAATTAGATTCG
ATATTGCTTGGCATCAATACCCATTACCATG
Found at i:1739529 original size:15 final size:15
Alignment explanation
Indices: 1739506--1739538 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1739496 CGTAGGACTC
1739506 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
1739521 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
1739536 CTA
1 CTA
1739539 TTATACACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.21, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:1739717 original size:12 final size:12
Alignment explanation
Indices: 1739683--1739717 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1739673 TATCATGTTC
**
1739683 TCATATCACAGG
1 TCATATCACATA
1739695 TCATATCACATA
1 TCATATCACATA
1739707 TCATATCACAT
1 TCATATCACAT
1739718 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:1741533 original size:14 final size:15
Alignment explanation
Indices: 1741502--1741537 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1741492 AATATCTTTT
1741502 AAAATAATTTTAAGA
1 AAAATAATTTTAAGA
*
1741517 AAAATAATTTTTA-A
1 AAAATAATTTTAAGA
1741531 AAAATAA
1 AAAATAA
1741538 AAAATTGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAATAATTTTAAGA
Found at i:1742008 original size:14 final size:15
Alignment explanation
Indices: 1741979--1742014 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
1741969 ATTTTATTAT
1741979 TTAAAATTAAAAATA
1 TTAAAATTAAAAATA
*
1741994 TTAAAATT-GAAATA
1 TTAAAATTAAAAATA
1742008 TTAAAAT
1 TTAAAAT
1742015 CCAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
TTAAAATTAAAAATA
Found at i:1743381 original size:3 final size:3
Alignment explanation
Indices: 1743373--1743406 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1743363 AATTATAATT
* *
1743373 TAA TAA TAA TAA TAA TAA TGA TAA TAT TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1743407 GTATGTGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1745401 original size:20 final size:21
Alignment explanation
Indices: 1745356--1745411 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
1745346 AGTTTCCCAA
*
1745356 AAAGTTTTGAAAC--TATCTC
1 AAAGTTTTGAAACTTTACCTC
1745375 AAGAGTTTTGAAACTTTACCT-
1 AA-AGTTTTGAAACTTTACCTC
*
1745396 AAAGTTTTGATACTTT
1 AAAGTTTTGAAACTTT
1745412 GTCTCCAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.06
20 24 0.75
21 2 0.06
22 4 0.12
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
AAAGTTTTGAAACTTTACCTC
Found at i:1747692 original size:761 final size:761
Alignment explanation
Indices: 1746054--1747871 Score: 2933
Period size: 761 Copynumber: 2.4 Consensus size: 761
1746044 GGAGGTCTTC
* * * *
1746054 AAAATCCAAAATCGGGTTTAATTCCCTCAGCATTGGAGCCTTTGACCAATAGCAGCTAATTCCAC
1 AAAATCCAAAGTAGGGTTTGATTCCCTCAGTATTGGAGCCTTTGACCAATAGCAGCTAATTCCAC
* * * *
1746119 ATCCATGGTGATTGTTATCATCAGCAAGCTTGACGTCTTCATCTGCATATAATAAGGTATTACAA
66 ATCCATGGTGATTGCTATCATCAGCAAGCTCGACGTCTTCATCTGCATACAATGAGGTATTACAA
* * * * * *
1746184 CCCGAAA-AAATCAACTGATGAGCATGGACTTACAACATCACCATTTTCCTCATATAACTTCACC
131 CCTGAAACAAATCAACTAATGGGCATGGACTTGCAACATCACCATTTGCCCCATATAACTTCACC
*
1746248 TGCTTCCAAGATTGATATTTATGTTCTAAAGCACAGTGATGAACTCTCTTCACTGATGAGGATCC
196 TGATTCCAAGATTGATATTTATGTTCTAAAGCACAGTGATGAACTCTCTTCACTGATGAGGATCC
* *
1746313 ATTACAAGCATATATAGAATTACAACTCAGAGACATTATTTTCATTCTTTATTTTCTTTCTCTTA
261 ATTACAAGCATCTATAGAATTACAACTCAGAGACATTATTTTCATTCTTTACTTTCTTTCTCTTA
* * *
1746378 TAAATATTTGTGTTTTTGTGAGCTTTAATTTGTAAACACCTTCCTTTTTAGAGGCTTTCTTTTTT
326 TAAATATTTGTGTTTCTGTGAGCTTTAATTTGTAAACACCTTCCATTTTAGAGGCTTTCTTGTTT
* * * *
1746443 ACGTTTCTTTTTTATTGTAAAGGGGTTTTGGTTCTTGCTAATCCTTTGAAAAGCTAGGGAATTTG
391 ACGATTCTTTTCTATTGTAAAGGAGTTTTGGTTCTAGCTAATCCTTTGAAAAGCTAGGGAATTTG
* *
1746508 TAAATGTTATCCCTTTATCCTTGAAAAAGAAAGAACAAATTAGTGGATCTTTTTGGAGAATCCAA
456 TAAATGTTATCCCTTTATCCTTGAAAAAGAAAGAACAAATTAGTGGATCTTGTTGGAAAATCCAA
* *
1746573 AGTGAGGAGCTTAGGTAGTGGATGTGGACTTCATTGAGGAAGTTGAACCACTATAAATTATTCTG
521 AGTGAGGAGCTTAGATAGTGGATGTAGACTTCATTGAGGAAGTTGAACCACTATAAATTATTCTG
1746638 CAAATTTTTCTATCTTTATACTCCTTACTCCCTAAATTTCAAAAAGTCAATTAATCCCCTCTTGG
586 CAAATTTTTCTATCTTTATACTCCTTACTCCCTAAATTTCAAAAAGTCAATTAATCCCCTCTTGG
* * * * *
1746703 CATATTTTGGTTGATCAAACGAGCTTCATTGATCCTAACAAGATGTCTTAGTAATATCCCCAGGC
651 CATATTTCGGTTAATCAAACGAGCTTCATTGAGCCTAACAAGATGTCTTAGTAATATACCCAGAC
*
1746768 AATAATGGGAGGTCTTCAAAATCCAAAGTCGGGATTGGGGGACTTT
716 AATAATGGGAGGTCTTCAAAATCCAAAGTCGGGATTGAGGGACTTT
* * *
1746814 AAAATCCAAAGTAAGGTTTGATTCCCTCAGTATTGGAGTCTTTGACCAATAGCAGCTAATTCCAT
1 AAAATCCAAAGTAGGGTTTGATTCCCTCAGTATTGGAGCCTTTGACCAATAGCAGCTAATTCCAC
* *
1746879 ATCCATGGTGATTGCTATCATCAGCAAGCTCGACGTCTTCATCTGAATACAATGAGGTATTACTA
66 ATCCATGGTGATTGCTATCATCAGCAAGCTCGACGTCTTCATCTGCATACAATGAGGTATTACAA
* *
1746944 CCTGAAACAACGTCAACTAATGGGCATGGACTTGCAACATCACCATTTGCCCCATATAATTTCAC
131 CCTGAAACAA-ATCAACTAATGGGCATGGACTTGCAACATCACCATTTGCCCCATATAACTTCAC
* * *
1747009 TTGATTCCAATATTGATATTTATGTTCTAAAGCACAGTGATGAACTCTCTTCACTAATGAGGATC
195 CTGATTCCAAGATTGATATTTATGTTCTAAAGCACAGTGATGAACTCTCTTCACTGATGAGGATC
1747074 CATTACAAGCATCTATAGAATTACAACTCAGAGACATTATTTTCATTCTTTACTTTCTTTCTCTT
260 CATTACAAGCATCTATAGAATTACAACTCAGAGACATTATTTTCATTCTTTACTTTCTTTCTCTT
* * *
1747139 GTAAATGTTTGTGTTTCTGTGAGCTTTAATTTGTAAACACCTTCCATTTTAGAGGTTTTCTTGTT
325 ATAAATATTTGTGTTTCTGTGAGCTTTAATTTGTAAACACCTTCCATTTTAGAGGCTTTCTTGTT
*
1747204 TACGATTCTTTTCTGTTGTAAAGGAGTTTTGGTTCTAGCTAATCCTTTGAAAAGCTAGGGAATTT
390 TACGATTCTTTTCTATTGTAAAGGAGTTTTGGTTCTAGCTAATCCTTTGAAAAGCTAGGGAATTT
* * *
1747269 GTAAATGTTATCTCTTTATCTTTGAAAAAGAAAGAACAAATTAGTGGAT-TTGTTGGAAAATTCT
455 GTAAATGTTATCCCTTTATCCTTGAAAAAGAAAGAACAAATTAGTGGATCTTGTTGGAAAA-TCC
* * *
1747333 AAA-TGAGGAGCTTAGATAGTGGATGTAGACTTCATTGAGGAAGTTGATCCACTATAAATTTTTG
519 AAAGTGAGGAGCTTAGATAGTGGATGTAGACTTCATTGAGGAAGTTGAACCACTATAAATTATTC
* *
1747397 TGCAAATTTTTCTATCTTTATACTCCTTACTCCTTAAATTTCAAAAAGTCAATTCA-CCTCCTCT
584 TGCAAATTTTTCTATCTTTATACTCCTTACTCCCTAAATTTCAAAAAGTCAATTAATCC-CCTCT
*
1747461 TGGCATATTTCGGTTAATCAAACGAGCTTCATTGAGCCTAACAAGATGTCTTATTAATATACCCA
648 TGGCATATTTCGGTTAATCAAACGAGCTTCATTGAGCCTAACAAGATGTCTTAGTAATATACCCA
*
1747526 GACAATAATGGGAGGTCTTCAAAATCCAAAGTCGGGTTTGAGGGACTTT
713 GACAATAATGGGAGGTCTTCAAAATCCAAAGTCGGGATTGAGGGACTTT
* * * *
1747575 AAAATCCCAAGTAGGGTTTGATTCCCTCATTATTGAAGCCTTTGACCAATAACAGCTAATTCCAC
1 AAAATCCAAAGTAGGGTTTGATTCCCTCAGTATTGGAGCCTTTGACCAATAGCAGCTAATTCCAC
* * * *
1747640 ATCCATGGTGATTGCTATCATCAACAAGCTCGACGTCTTCATCCGCATACAATGAGGTATTGCGA
66 ATCCATGGTGATTGCTATCATCAGCAAGCTCGACGTCTTCATCTGCATACAATGAGGTATTACAA
1747705 CCTGAAACAAAATCAACTAATGGGCATGGACTTGCAACATCACCATTTGCCCCATATAACTTCAC
131 CCTGAAAC-AAATCAACTAATGGGCATGGACTTGCAACATCACCATTTGCCCCATATAACTTCAC
* * *
1747770 CTGATTCCAAGATTGATATTTATGTTCTAAAGCACAATGATGAACTCTCTTTACTGATGTGGATC
195 CTGATTCCAAGATTGATATTTATGTTCTAAAGCACAGTGATGAACTCTCTTCACTGATGAGGATC
* *
1747835 CATTACAAGCATCCATAGAATTACAACTCGGAGACAT
260 CATTACAAGCATCTATAGAATTACAACTCAGAGACAT
1747872 CGATGTCAAG
Statistics
Matches: 973, Mismatches: 80, Indels: 9
0.92 0.08 0.01
Matches are distributed among these distances:
760 125 0.13
761 504 0.52
762 344 0.35
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (761 bp):
AAAATCCAAAGTAGGGTTTGATTCCCTCAGTATTGGAGCCTTTGACCAATAGCAGCTAATTCCAC
ATCCATGGTGATTGCTATCATCAGCAAGCTCGACGTCTTCATCTGCATACAATGAGGTATTACAA
CCTGAAACAAATCAACTAATGGGCATGGACTTGCAACATCACCATTTGCCCCATATAACTTCACC
TGATTCCAAGATTGATATTTATGTTCTAAAGCACAGTGATGAACTCTCTTCACTGATGAGGATCC
ATTACAAGCATCTATAGAATTACAACTCAGAGACATTATTTTCATTCTTTACTTTCTTTCTCTTA
TAAATATTTGTGTTTCTGTGAGCTTTAATTTGTAAACACCTTCCATTTTAGAGGCTTTCTTGTTT
ACGATTCTTTTCTATTGTAAAGGAGTTTTGGTTCTAGCTAATCCTTTGAAAAGCTAGGGAATTTG
TAAATGTTATCCCTTTATCCTTGAAAAAGAAAGAACAAATTAGTGGATCTTGTTGGAAAATCCAA
AGTGAGGAGCTTAGATAGTGGATGTAGACTTCATTGAGGAAGTTGAACCACTATAAATTATTCTG
CAAATTTTTCTATCTTTATACTCCTTACTCCCTAAATTTCAAAAAGTCAATTAATCCCCTCTTGG
CATATTTCGGTTAATCAAACGAGCTTCATTGAGCCTAACAAGATGTCTTAGTAATATACCCAGAC
AATAATGGGAGGTCTTCAAAATCCAAAGTCGGGATTGAGGGACTTT
Found at i:1759703 original size:184 final size:187
Alignment explanation
Indices: 1759394--1759765 Score: 723
Period size: 184 Copynumber: 2.0 Consensus size: 187
1759384 CAAAAACGGA
1759394 TTCGGGACGTCGAAAACTATCAGGATATGTATTATCGGTCGAAAACAAAGGTCGTTTAATAGCCG
1 TTCGGGACGTCGAAAACTATCAGGATATGTATTATCGGTCGAAAACAAAGGTCGTTTAATAGCCG
1759459 GTCAAAGTTCTGGTTAAAGGAGGTCAACAAACTGTCAAACATTTTACAAAATAGCACCATTTTCG
66 GTCAAAGTTCTGGTTAAAGGAGGTCAACAAACTGTCAAACATTTTACAAAATAGCACCATTTTCG
1759524 -ATTAATTCCC-AAATCATTTTTTTCGAAAAATACTAAAATAGCA-CCATTTCGAAT
131 AATTAATTCCCAAAATCATTTTTTTCGAAAAATACTAAAATAGCACCCATTTCGAAT
1759578 TTCGGGACGTCGAAAACTATCAGGATATGTATTATCGGTCGAAAACAAAGGTCGTTTAATAGCCG
1 TTCGGGACGTCGAAAACTATCAGGATATGTATTATCGGTCGAAAACAAAGGTCGTTTAATAGCCG
1759643 GTCAAAGTTCTGGTTAAAGGAGGTCAACAAACTGTCAAACATTTTACAAAATAGCACCATTTTCG
66 GTCAAAGTTCTGGTTAAAGGAGGTCAACAAACTGTCAAACATTTTACAAAATAGCACCATTTTCG
1759708 AATTAATTCCCAAAATCATTTTTTTCGAAAAATACTAAAATAGCACCCATTTCGAAT
131 AATTAATTCCCAAAATCATTTTTTTCGAAAAATACTAAAATAGCACCCATTTCGAAT
1759765 T
1 T
1759766 AATTCCCAGA
Statistics
Matches: 185, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
184 130 0.70
185 10 0.05
186 33 0.18
187 12 0.06
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (187 bp):
TTCGGGACGTCGAAAACTATCAGGATATGTATTATCGGTCGAAAACAAAGGTCGTTTAATAGCCG
GTCAAAGTTCTGGTTAAAGGAGGTCAACAAACTGTCAAACATTTTACAAAATAGCACCATTTTCG
AATTAATTCCCAAAATCATTTTTTTCGAAAAATACTAAAATAGCACCCATTTCGAAT
Found at i:1759845 original size:13 final size:13
Alignment explanation
Indices: 1759827--1759868 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
1759817 AACGGTCAAC
1759827 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1759840 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
* *
1759852 GGTAAACGGGTCT
1 GGTCAACGGGTCG
1759865 GGTC
1 GGTC
1759869 GGGTAAACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.17, C:0.21, G:0.43, T:0.19
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1759852 original size:12 final size:12
Alignment explanation
Indices: 1759813--1759860 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
1759803 AAATAGCACC
*
1759813 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
1759827 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
1759840 GGTCAACGGTCG
1 GGTCAACGGTCG
*
1759852 GGTAAACGG
1 GGTCAACGG
1759861 GTCTGGTCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 13 0.42
13 7 0.23
14 7 0.23
15 4 0.13
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:1759870 original size:18 final size:18
Alignment explanation
Indices: 1759847--1759881 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1759837 TCGGGTCAAC
1759847 GGTCGGGTAAACGGGTCT
1 GGTCGGGTAAACGGGTCT
1759865 GGTCGGGTAAACGGGTC
1 GGTCGGGTAAACGGGTC
1759882 GTGACCGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.46, T:0.20
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCT
Found at i:1759899 original size:9 final size:10
Alignment explanation
Indices: 1759885--1759939 Score: 60
Period size: 9 Copynumber: 5.6 Consensus size: 10
1759875 ACGGGTCGTG
1759885 ACCGGTC-AA
1 ACCGGTCAAA
1759894 ACCGGTCAAA
1 ACCGGTCAAA
*
1759904 ACTGGTTCAAA
1 ACCGG-TCAAA
*
1759915 ACCGGT-TAA
1 ACCGGTCAAA
*
1759924 ACTGGTCAAA
1 ACCGGTCAAA
1759934 ACCGGT
1 ACCGGT
1759940 TTCCAGCGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
9 14 0.38
10 14 0.38
11 9 0.24
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:1759915 original size:11 final size:11
Alignment explanation
Indices: 1759892--1759940 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
1759882 GTGACCGGTC
1759892 AAACCGG-TCA
1 AAACCGGTTCA
*
1759902 AAACTGGTTCA
1 AAACCGGTTCA
1759913 AAACCGGTT--
1 AAACCGGTTCA
*
1759922 AAACTGG-TCA
1 AAACCGGTTCA
1759932 AAACCGGTT
1 AAACCGGTT
1759941 TCCAGCGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
8 1 0.03
9 6 0.19
10 12 0.39
11 12 0.39
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (11 bp):
AAACCGGTTCA
Found at i:1759934 original size:19 final size:19
Alignment explanation
Indices: 1759888--1759940 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
1759878 GGTCGTGACC
*
1759888 GGTC-AAACCGGTCAAAACT
1 GGTCAAAACCGGT-TAAACT
1759907 GGTTCAAAACCGGTTAAACT
1 GG-TCAAAACCGGTTAAACT
1759927 GGTCAAAACCGGTT
1 GGTCAAAACCGGTT
1759941 TCCAGCGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 14 0.45
20 9 0.29
21 8 0.26
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (19 bp):
GGTCAAAACCGGTTAAACT
Found at i:1766902 original size:12 final size:13
Alignment explanation
Indices: 1766878--1766919 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
1766868 AACGGTCAAC
1766878 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1766891 GGTCAA-GGGTCG
1 GGTCAACGGGTCG
* *
1766903 GGTAAACTGGTCG
1 GGTCAACGGGTCG
1766916 GGTC
1 GGTC
1766920 GGGTAAACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.17, C:0.19, G:0.45, T:0.19
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1766920 original size:18 final size:18
Alignment explanation
Indices: 1766897--1766933 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1766887 GTCGGGTCAA
*
1766897 GGGTCGGGTAAACTGGTC
1 GGGTCGGGTAAACGGGTC
1766915 GGGTCGGGTAAACGGGTC
1 GGGTCGGGTAAACGGGTC
1766933 G
1 G
1766934 TGACCGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.49, T:0.19
Consensus pattern (18 bp):
GGGTCGGGTAAACGGGTC
Found at i:1766956 original size:10 final size:10
Alignment explanation
Indices: 1766936--1766971 Score: 56
Period size: 11 Copynumber: 3.6 Consensus size: 10
1766926 ACGGGTCGTG
1766936 ACCGGTC-AA
1 ACCGGTCAAA
1766945 ACCGGTCAAA
1 ACCGGTCAAA
1766955 ACCGGTTCAAA
1 ACCGG-TCAAA
1766966 ACCGGT
1 ACCGGT
1766972 TTCCGGCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.28
10 8 0.32
11 10 0.40
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:1768989 original size:8 final size:8
Alignment explanation
Indices: 1768971--1769008 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1768961 TAATCTTTTA
1768971 TTTAAAA-
1 TTTAAAAT
1768978 TTTAAAAT
1 TTTAAAAT
1768986 TTTAAAAT
1 TTTAAAAT
1768994 ATTTAAAAT
1 -TTTAAAAT
*
1769003 TGTAAA
1 TTTAAA
1769009 TATACATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 7 0.25
8 13 0.46
9 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (8 bp):
TTTAAAAT
Found at i:1778112 original size:21 final size:20
Alignment explanation
Indices: 1778064--1778119 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1778054 TAGTACCAAA
* * *
1778064 GGTTGGTATCTATACTGAAG
1 GGTTAGTATCGATACTAAAG
*
1778084 GGTTAGTATTGATACTAAAG
1 GGTTAGTATCGATACTAAAG
1778104 GGATTAGTATCGATAC
1 GG-TTAGTATCGATAC
1778120 CATCATCCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (20 bp):
GGTTAGTATCGATACTAAAG
Found at i:1784370 original size:54 final size:54
Alignment explanation
Indices: 1784288--1784547 Score: 369
Period size: 54 Copynumber: 4.8 Consensus size: 54
1784278 GCATTTACCA
* * *
1784288 TATTGGCACTATGTGTTCAACTTAAGAAATTCATAACGAGTTTATGAATTTCTT
1 TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCTG
*
1784342 TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAATTTATGAATTTCTG
1 TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCTG
1784396 TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTT-TCG
1 TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCT-G
* * * **
1784450 TGTTGTCACTGTGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCA
1 TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCTG
* ** * *
1784504 TATTGGCACTGTGTGTGCAACCCCATGTAATTCATAATGAGTTT
1 TATTGGCACTATGTGTGCAA-CTTAAGAAATTCATAATGAGTTT
1784548 GTTAATTACC
Statistics
Matches: 187, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 167 0.89
55 19 0.10
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (54 bp):
TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCTG
Found at i:1786849 original size:766 final size:765
Alignment explanation
Indices: 1785378--1786907 Score: 2443
Period size: 766 Copynumber: 2.0 Consensus size: 765
1785368 CCTTTCGACG
*
1785378 ATTTTGAAATTATTTTGGGAATGGATTGGTTGTCTCCACATCATGGATGGGTTGATTGTCGCAAG
1 ATTTTGAAATTATTTTGGGAATGGATTGGTTGTCTCCACATCATGGATGGGTTAATTGTCGCAAG
* * * *
1785443 AAATGATTAATTTTGAAGGATGCAGAAGGCTCAGAAATAATAGTAATTGGTGAAAAAGCGAAATC
66 AAACGATTAATTTTAAAGGATGCAGAAGGCTCAAAAATAATAGTAATTAGTGAAAAAGCGAAATC
1785508 ACCATCCAATGTGATATCAACAATGACTGCAATGAAAATGATATCGAAAGGGTGTATAGATTTTC
131 ACCATCCAATGTGATATCAACAATGACTGCAATGAAAATGATATCGAAAGGGTGTATAGATTTTC
* ** * * *
1785573 TAGCTAACATGGTAGACTCTAGAATATCGGAAGTGAGATTAGATGATATTCCAACAATTCAGGAG
196 TAGATAACATGAAAAACTCTAGAATATCAGAAGCGAGATTAGATGATATTCCAACAATTCAGGAG
*
1785638 TTTCCAGATGTTTTTAGGAAGAATTATTGGAGTTACCTGCAGAGCGTGAGGTGGAATTCTAGATT
261 TTTCCAGATGTTTTTAGGAAGAATTATTGGAGTTACATGCAGAGCGTGAGGTGGAATTCTAGATT
*
1785703 GACGTTTACCCGGGTACTGGACATGTTCCTATGGCTCCATATCAAATGGCTCCAACTGAGTTAAG
326 GACGTTTACCCGGGTACTGAACATGTTCCTATGGCTCCATATCAAATGGCTCCAACTGAGTTAAG
* * * *
1785768 ATAACTAAAGGCCCAATTGTAGGAGCTTCTCGATAAGGGATTTATTAGACCCAATGTTTCACCTT
391 AGAACTAAAGGCCCAATTGCAGGAGCTGCTCGATAAGGGATTTATTAGACCCAATGTGTCACCTT
* * * *
1785833 GGGGAGCACCTGTGTTTTTTGTGAAAAAGAATGATGGGTCTATGCGATTATGCATATACTACCAA
456 GGGGAGCACCTGTGCTTTTTGTGAAAAAGAAGGATGGGTCTAAGAGATTATGCATATACTACCAA
* * * *
1785898 CAATTAAATAAGGTAACAATAAAGAATAATTATCTTTTTCCGAGGATTGATGATCTATTTGATCA
521 CAATTAAATAAGGTAACAATAAAGAATAAGTATCCTCTTCCGAGGATTAATGATCTATTTGATCA
* * * *
1785963 ACTGAAAGGTGCAACAGTGTTATCTAAGATAAATCTTCGGTAAGGATACCACCAATTAAAGATTA
586 AATGAAAGGCGCAACAATGTTATCTAAGATAAATCTTCAGTAAGGATACCACCAATTAAAGATTA
** *
1786028 AAAAGGAGGATATTTCAAAAAATGTTTTTCAGACTCGGTATGGACATTACAAATTTGTGGTGATT
651 AAAAGGAGGATATTTCAAAAAATACTTTTCAGACTCGGTATGGACATTACAAATTTGTGGTGATG
* ***
1786093 CCATTCGGATTGACTAATTCTCCCGTAACATTTATGGAATTGATGAACCA
716 CCATTCGGATTGACTAATGCTCCAACAACATTTATGGAATTGATGAACCA
* *
1786143 ATTTTGAAATTATTTTGGGCATGGATTGGTTGTCTCCACATCATGGATGGGTTAATTTTCGCAAG
1 ATTTTGAAATTATTTTGGGAATGGATTGGTTGTCTCCACATCATGGATGGGTTAATTGTCGCAAG
* * * ** *
1786208 AAACGATTATTTTTAAAGGATGCGGAAGGCTCAAAAATCATTTTAATTAGTGAAAAAGTGAAATC
66 AAACGATTAATTTTAAAGGATGCAGAAGGCTCAAAAATAATAGTAATTAGTGAAAAAGCGAAATC
* *
1786273 ACCATCTAATGTGATATCAACAATGACTGCAATGAAAATGATGTCGAAAGGGTGTATAGATTTTC
131 ACCATCCAATGTGATATCAACAATGACTGCAATGAAAATGATATCGAAAGGGTGTATAGATTTTC
* * * * *
1786338 TAGATAACATTAAAAACTCTAGAATATTAGAAGCGGGATTAGATGATATTCCAACAGTTCATGAG
196 TAGATAACATGAAAAACTCTAGAATATCAGAAGCGAGATTAGATGATATTCCAACAATTCAGGAG
* *
1786403 TTTCCAGATGTTTTTTCGGAAGAATTATTGGAGTTACATGCAGATCGTGAGGTGGAATTCTAGAT
261 TTTCCAGATG-TTTTTAGGAAGAATTATTGGAGTTACATGCAGAGCGTGAGGTGGAATTCTAGAT
* *
1786468 TGATGTTTACCCGGGTACTGAACATGTTTCTATGGCTCCATATCAAATGGCTCCAACTGAGTTAA
325 TGACGTTTACCCGGGTACTGAACATGTTCCTATGGCTCCATATCAAATGGCTCCAACTGAGTTAA
* *
1786533 GAGAATTAAAGGCCCAATTGCAGGAGCTGCTCGATAAGGGATTTATTTGACCCAATGTGTCACCT
390 GAGAACTAAAGGCCCAATTGCAGGAGCTGCTCGATAAGGGATTTATTAGACCCAATGTGTCACCT
* *
1786598 TGGGGAGCACCTGTGCTTTTTGTGAATAAGAAGGATGGGTCTAAGAGATTATGCATATACTACCG
455 TGGGGAGCACCTGTGCTTTTTGTGAAAAAGAAGGATGGGTCTAAGAGATTATGCATATACTACCA
* *
1786663 ACAGTTAAATAAGGTAACAATAAATAATAAGTATCCTCTTCCGAGGATTAATGATCTATTTGATC
520 ACAATTAAATAAGGTAACAATAAAGAATAAGTATCCTCTTCCGAGGATTAATGATCTATTTGATC
* *
1786728 AAATGAAAGGCGCAACAATGTTATCTAAGATAGA-CATTCAGTGAGGATACCACCAATTAAAGAT
585 AAATGAAAGGCGCAACAATGTTATCTAAGATAAATC-TTCAGTAAGGATACCACCAATTAAAGAT
1786792 TAAAAAGGAGGATATTTC-AAAAATAACTTTTCAGACTCGGTATGGACATTACAAATTTGTGGTG
649 TAAAAAGGAGGATATTTCAAAAAAT-ACTTTTCAGACTCGGTATGGACATTACAAATTTGTGGTG
*
1786856 ATGCCATTCGGATTGACTAATGCTCCAACAACATTTATGGATTTGATGAACC
713 ATGCCATTCGGATTGACTAATGCTCCAACAACATTTATGGAATTGATGAACC
1786908 GAGTATTCCA
Statistics
Matches: 698, Mismatches: 64, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
765 251 0.36
766 447 0.64
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (765 bp):
ATTTTGAAATTATTTTGGGAATGGATTGGTTGTCTCCACATCATGGATGGGTTAATTGTCGCAAG
AAACGATTAATTTTAAAGGATGCAGAAGGCTCAAAAATAATAGTAATTAGTGAAAAAGCGAAATC
ACCATCCAATGTGATATCAACAATGACTGCAATGAAAATGATATCGAAAGGGTGTATAGATTTTC
TAGATAACATGAAAAACTCTAGAATATCAGAAGCGAGATTAGATGATATTCCAACAATTCAGGAG
TTTCCAGATGTTTTTAGGAAGAATTATTGGAGTTACATGCAGAGCGTGAGGTGGAATTCTAGATT
GACGTTTACCCGGGTACTGAACATGTTCCTATGGCTCCATATCAAATGGCTCCAACTGAGTTAAG
AGAACTAAAGGCCCAATTGCAGGAGCTGCTCGATAAGGGATTTATTAGACCCAATGTGTCACCTT
GGGGAGCACCTGTGCTTTTTGTGAAAAAGAAGGATGGGTCTAAGAGATTATGCATATACTACCAA
CAATTAAATAAGGTAACAATAAAGAATAAGTATCCTCTTCCGAGGATTAATGATCTATTTGATCA
AATGAAAGGCGCAACAATGTTATCTAAGATAAATCTTCAGTAAGGATACCACCAATTAAAGATTA
AAAAGGAGGATATTTCAAAAAATACTTTTCAGACTCGGTATGGACATTACAAATTTGTGGTGATG
CCATTCGGATTGACTAATGCTCCAACAACATTTATGGAATTGATGAACCA
Done.