Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 147 of 168
Found at i:43352948 original size:27 final size:27
Alignment explanation
Indices: 43352888--43352986 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
43352878 TAGGGGTGTG
*
43352888 GTGCCTATCTGATAGGCGACACTAGT-
1 GTGCCTATCTGATAGGCGGCACTAGTA
**
43352914 GACCCCTATCTGATAGGCGGCACTAGTA
1 G-TGCCTATCTGATAGGCGGCACTAGTA
* * *
43352942 GTGCCTATCTGAAAGGCCGCACTGGTA
1 GTGCCTATCTGATAGGCGGCACTAGTA
*
43352969 GTGCATATCTGATAGGCG
1 GTGCCTATCTGATAGGCG
43352987 ACATACCTAG
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.02
27 58 0.97
28 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (27 bp):
GTGCCTATCTGATAGGCGGCACTAGTA
Found at i:43354143 original size:30 final size:29
Alignment explanation
Indices: 43354094--43354166 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 29
43354084 TTTTTTTAAG
43354094 TATATTATTAT-TTTATTGTAAATTA-ATT
1 TATATTATTATATTTATTGTAAATTATA-T
43354122 TATATTATTATATTATATTGTAAATTATAT
1 TATATTATTATATT-TATTGTAAATTATAT
43354152 TATATTATTATATTT
1 TATATTATTATATTT
43354167 TAAATAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
28 11 0.26
29 3 0.07
30 27 0.64
31 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
TATATTATTATATTTATTGTAAATTATAT
Found at i:43354397 original size:13 final size:13
Alignment explanation
Indices: 43354366--43354406 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
43354356 GACGAAACAG
*
43354366 AGAAGGAAAG-AA
1 AGAAAGAAAGAAA
*
43354378 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
43354391 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
43354404 AGA
1 AGA
43354407 GAAAATTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:43355689 original size:37 final size:38
Alignment explanation
Indices: 43355643--43355729 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 38
43355633 TACTGTTACC
* *
43355643 GTTATTGTTACAGATTC-AGCAC-TGTGTGTTGAATACT
1 GTTACTGTTACAGATTCGA-CACTTGTGTGTCGAATACT
* *
43355680 GTTACTGTTACTGATTCGATACTTTGTGTGTCGAATACT
1 GTTACTGTTACAGATTCGACAC-TTGTGTGTCGAATACT
43355719 GTTACTGTTAC
1 GTTACTGTTAC
43355730 TGTTACTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 17 0.40
38 1 0.02
39 25 0.58
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (38 bp):
GTTACTGTTACAGATTCGACACTTGTGTGTCGAATACT
Found at i:43355747 original size:57 final size:58
Alignment explanation
Indices: 43355676--43355799 Score: 178
Period size: 57 Copynumber: 2.2 Consensus size: 58
43355666 GTGTGTTGAA
* * * * *
43355676 TACTGTTACTGTTACTGATTCGATACTTTGTGTGTCGAATACTGTTACTGTTACTG-T
1 TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGAT
*
43355733 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAACACTGTTACCGTTACTGAT
1 TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGAT
*
43355791 TAATGTTAC
1 TACTGTTAC
43355800 TGGTGTGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
57 50 0.85
58 9 0.15
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (58 bp):
TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGAT
Found at i:43355749 original size:6 final size:6
Alignment explanation
Indices: 43355715--43355747 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
43355705 GTGTGTCGAA
*
43355715 TACTGT TACTGT TACTGT TACTGT TACCGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
43355748 CGATTCGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:43356666 original size:17 final size:17
Alignment explanation
Indices: 43356619--43356669 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
43356609 ACGTGGCATG
*
43356619 TACCTAAGTAATATATA
1 TACCTAAGTAATGTATA
*
43356636 TACCTAAGTAATGTTTA
1 TACCTAAGTAATGTATA
*
43356653 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
43356670 GGAATTAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:43358651 original size:22 final size:23
Alignment explanation
Indices: 43358626--43358678 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
43358616 ATAATTTATT
**
43358626 AAAAAATATATATTTAAA-AAAG
1 AAAAAATATATATCAAAATAAAG
*
43358648 AAAACATATATATCAAAATAAAG
1 AAAAAATATATATCAAAATAAAG
*
43358671 TAAAAATA
1 AAAAAATA
43358679 AAATCAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (23 bp):
AAAAAATATATATCAAAATAAAG
Found at i:43366573 original size:39 final size:39
Alignment explanation
Indices: 43366494--43366576 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
43366484 GAGATTGACG
* *
43366494 GGTGGACCGATGGTGACTACCTGACTGGTGAACAATGAT
1 GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
* * **
43366533 GGTGGACCGGTGGTGACTGCCTGACTGATGAATGACGAT
1 GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
43366572 GGTGG
1 GGTGG
43366577 TGGCCGGTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.23
Consensus pattern (39 bp):
GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
Found at i:43372440 original size:35 final size:35
Alignment explanation
Indices: 43372396--43372462 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
43372386 TGTAAGTAAT
*
43372396 GAAAGGTAAAATAAAGAAAAAATTGAAAAGATTAA
1 GAAAAGTAAAATAAAGAAAAAATTGAAAAGATTAA
*
43372431 GAAAAGTAAAATAAAGAAGAAATTGAAAAGAT
1 GAAAAGTAAAATAAAGAAAAAATTGAAAAGAT
43372463 CAAACACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (35 bp):
GAAAAGTAAAATAAAGAAAAAATTGAAAAGATTAA
Found at i:43375992 original size:2 final size:2
Alignment explanation
Indices: 43375985--43376013 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43375975 TTCTTCTTCT
43375985 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
43376014 TAAACTCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:43378728 original size:20 final size:21
Alignment explanation
Indices: 43378705--43378763 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
43378695 ATTTTTTCTT
43378705 ATTT-TTAATTTTTTATTAAA
1 ATTTATTAATTTTTTATTAAA
*
43378725 ATTTAATAA-TTTTTA-T-AA
1 ATTTATTAATTTTTTATTAAA
*
43378743 ATTTATTGATTTTTTTATTAA
1 ATTTATT-AATTTTTTATTAA
43378764 TTTTTTTGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 8 0.26
19 2 0.06
20 16 0.52
21 4 0.13
22 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTTATTAATTTTTTATTAAA
Found at i:43379057 original size:88 final size:88
Alignment explanation
Indices: 43378929--43379113 Score: 248
Period size: 88 Copynumber: 2.1 Consensus size: 88
43378919 AGGGGCTTAA
*
43378929 TTTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGTTTAAGTACCCAAATGAGT
1 TTTTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTGAAAGTTTAA-TACCCAAATGAGT
43378994 GCAAAAAAAAAAAG-GCTTAATGGC
65 G-AAAAAAAAAAAGAGCTTAATGGC
* * ** * *
43379018 TTTTTTTTTG-AAAAGTTTGAAGGCTTTTTTGGTGTATTTTGAAAGTTTAATACTCAACTGAGTG
1 TTTTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTGAAAGTTTAATACCCAAATGAGTG
* * *
43379082 TAAAAAAAAAAGAGCTTAATTGT
66 AAAAAAAAAAAGAGCTTAATGGC
43379105 TTTTTTTTT
1 TTTTTTTTT
43379114 AAATTGAGGA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 11 0.13
87 29 0.34
88 35 0.41
89 10 0.12
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.42
Consensus pattern (88 bp):
TTTTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTGAAAGTTTAATACCCAAATGAGTG
AAAAAAAAAAAGAGCTTAATGGC
Found at i:43379087 original size:87 final size:89
Alignment explanation
Indices: 43378929--43379113 Score: 250
Period size: 87 Copynumber: 2.1 Consensus size: 89
43378919 AGGGGCTTAA
*
43378929 TTTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGTTTAAGTACCCAAATGAGT
1 TTTTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTGAAAGTTTAAGTACCCAAATGAGT
43378994 GCAAAAAAAAAA-AGGCTTAATGGC
66 GCAAAAAAAAAAGA-GCTTAATGGC
* * ** * *
43379018 TTTTTTTTTG-AAAAGTTTGAAGGCTTTTTTGGTGTATTTTGAAAGTTTAA-TACTCAACTGAGT
1 TTTTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTGAAAGTTTAAGTACCCAAATGAGT
* * *
43379081 GTAAAAAAAAAAGAGCTTAATTGT
66 GCAAAAAAAAAAGAGCTTAATGGC
43379105 TTTTTTTTT
1 TTTTTTTTT
43379114 AAATTGAGGA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
87 39 0.46
88 36 0.42
89 10 0.12
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.42
Consensus pattern (89 bp):
TTTTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTGAAAGTTTAAGTACCCAAATGAGT
GCAAAAAAAAAAGAGCTTAATGGC
Found at i:43380597 original size:22 final size:22
Alignment explanation
Indices: 43380535--43380606 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
43380525 ATTGTTCAAA
* **
43380535 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
43380557 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
43380579 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
43380601 CATGAG
1 CATGAG
43380607 GGTCTTTCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:43399966 original size:16 final size:16
Alignment explanation
Indices: 43399945--43399975 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43399935 CCCCGAAACA
43399945 ACGTCTACATGATTTT
1 ACGTCTACATGATTTT
*
43399961 ACGTCTACGTGATTT
1 ACGTCTACATGATTT
43399976 GCACTAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (16 bp):
ACGTCTACATGATTTT
Found at i:43409188 original size:4 final size:4
Alignment explanation
Indices: 43409179--43409211 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
43409169 GTCTATGATT
43409179 GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA G
1 GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA G
43409212 CAAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (4 bp):
GGGA
Found at i:43421574 original size:17 final size:18
Alignment explanation
Indices: 43421552--43421585 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43421542 AATCCATACA
43421552 AACTCAATCATT-TCATC
1 AACTCAATCATTATCATC
*
43421569 AACTCATTCATTATCAT
1 AACTCAATCATTATCAT
43421586 TTCTATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (18 bp):
AACTCAATCATTATCATC
Found at i:43426047 original size:43 final size:43
Alignment explanation
Indices: 43426000--43426099 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
43425990 AGAGTAATAC
* *
43426000 CTTTACCGGCGTTTTTGGTATAAGCGCCGCTATAGAAT-AGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAG-ATCAGGGT
*
43426043 CTTTAGCGGCGTTTTTGGTAAAAGTGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
*
43426086 CTTTAGTGGCGTTT
1 CTTTAGCGGCGTTT
43426100 GTGACCAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 2 0.04
43 50 0.96
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
Found at i:43426647 original size:21 final size:21
Alignment explanation
Indices: 43426618--43426729 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 21
43426608 TTTGACGCTG
43426618 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTTGCTGCAGC
* * **
43426639 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTTGCTGCAGC
43426660 CTCTGCTTCCC-T-CTTAGCAGC
1 CTCTGCTTCCCTTGC-T-GCAGC
* * * * *
43426681 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTTGCTGCAGC
* *
43426702 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTTGCTGCAGC
*
43426723 ATCTGCT
1 CTCTGCT
43426730 CTAAGCTGCT
Statistics
Matches: 70, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 66 0.94
22 1 0.01
23 1 0.01
ACGTcount: A:0.06, C:0.42, G:0.16, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTTGCTGCAGC
Found at i:43426665 original size:42 final size:42
Alignment explanation
Indices: 43426618--43426719 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
43426608 TTTGACGCTG
**
43426618 CTCTGCTTCCCTTGCTGCAGCCTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTTGCTGCAGCCTCTACTTCCCTCGCTGCAGC
* * *
43426660 CTCTGCTTCCC-T-CTTAGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTTGC-T-GCAGCCTCTACTTCCCTCGCTGCAGC
*
43426702 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTTGCTGC
43426720 CGCATCTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
40 1 0.02
41 2 0.04
42 44 0.88
43 2 0.04
44 1 0.02
ACGTcount: A:0.06, C:0.42, G:0.16, T:0.36
Consensus pattern (42 bp):
CTCTGCTTCCCTTGCTGCAGCCTCTACTTCCCTCGCTGCAGC
Found at i:43426791 original size:66 final size:66
Alignment explanation
Indices: 43426701--43426847 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
43426691 CTCGCTGCCG
* *
43426701 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTAGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTAGAGTTCTTCATATC-TTCGTT
43426764 GAA
64 GAA
* * * * *
43426767 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTCTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTAGAGTTCTTCATATCTTCGTTGA
43426832 A
66 A
*
43426833 CATCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
43426848 ATGTTGCCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 69 0.97
67 1 0.01
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTAGAGTTCTTCATATCTTCGTTGA
A
Found at i:43426863 original size:66 final size:66
Alignment explanation
Indices: 43426744--43426870 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
43426734 GCTGCTGCTA
* * *
43426744 GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCT
1 GAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCT
43426809 G
66 G
* * *
43426810 GAGTTCTTCATA-TCTTCTTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GAGTTCTTCATACT-TTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
43426871 GTAATTTGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 1 0.02
66 53 0.98
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (66 bp):
GAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCT
G
Found at i:43432355 original size:9 final size:9
Alignment explanation
Indices: 43432319--43432771 Score: 200
Period size: 9 Copynumber: 52.8 Consensus size: 9
43432309 AATTGCACGG
43432319 GTAAGTTAT
1 GTAAGTTAT
*
43432328 GT-A-TTGT
1 GTAAGTTAT
*
43432335 GTAAGCTAT
1 GTAAGTTAT
*
43432344 GTAAGTTGT
1 GTAAGTTAT
43432353 GT-A-TTAT
1 GTAAGTTAT
43432360 GTAAGTTAT
1 GTAAGTTAT
43432369 -T-A-TTAT
1 GTAAGTTAT
43432375 GCTTTAAGTTAT
1 G---TAAGTTAT
*
43432387 GTAAGTAAT
1 GTAAGTTAT
43432396 GT-A-TTAT
1 GTAAGTTAT
*
43432403 GTAAGTTGT
1 GTAAGTTAT
*
43432412 GT-A-TAAT
1 GTAAGTTAT
*
43432419 GTTAGTTAT
1 GTAAGTTAT
43432428 GTAAGTTAT
1 GTAAGTTAT
43432437 GTAAGTTAT
1 GTAAGTTAT
43432446 GT-A---A-
1 GTAAGTTAT
43432450 GTAAGTTAT
1 GTAAGTTAT
43432459 GTAAGTTAT
1 GTAAGTTAT
** *
43432468 CAAAGTAAT
1 GTAAGTTAT
*
43432477 GTATGTTAT
1 GTAAGTTAT
43432486 GTAAG-T-T
1 GTAAGTTAT
43432493 GTAAGTTAT
1 GTAAGTTAT
*
43432502 -TATGTATTAT
1 GTAAG--TTAT
*
43432512 GTAAGTTAA
1 GTAAGTTAT
* *
43432521 G-ATGGATTAC
1 GTA-AG-TTAT
43432531 GTAAGTTAT
1 GTAAGTTAT
43432540 GTAAGTTAAAT
1 GTAAGTT--AT
43432551 GT-A-TTAT
1 GTAAGTTAT
43432558 GTAAG-T-T
1 GTAAGTTAT
43432565 GTAAGTTAAAT
1 GTAAGTT--AT
43432576 GT-A-TTAT
1 GTAAGTTAT
43432583 GTAAG-T-T
1 GTAAGTTAT
43432590 GTAAGTTAGAT
1 GTAAGTT--AT
43432601 GT-A-TTAT
1 GTAAGTTAT
43432608 GTAAG-T-T
1 GTAAGTTAT
43432615 GTAAGTTAGAT
1 GTAAGTT--AT
43432626 GT-A-TTAT
1 GTAAGTTAT
43432633 GTAAG-T-T
1 GTAAGTTAT
43432640 GTAAGTTAATAT
1 GTAAG-T--TAT
43432652 GT-A-TTAT
1 GTAAGTTAT
43432659 GTAAGTTAT
1 GTAAGTTAT
43432668 GTAAGTTAAAT
1 GTAAGTT--AT
43432679 GT-A-TTAT
1 GTAAGTTAT
43432686 G-AAGGTTAT
1 GTAA-GTTAT
*
43432695 GTAAGTTGT
1 GTAAGTTAT
**
43432704 GTAAGAGAT
1 GTAAGTTAT
*
43432713 TTAAGTTAT
1 GTAAGTTAT
* *
43432722 GTGAGTTTT
1 GTAAGTTAT
43432731 GT-A-TTAT
1 GTAAGTTAT
43432738 GTAAGTTAT
1 GTAAGTTAT
*
43432747 GTAGGTTAT
1 GTAAGTTAT
* *
43432756 TTAGGTTAT
1 GTAAGTTAT
43432765 GTAAGTT
1 GTAAGTT
43432772 TTGAGTTGTT
Statistics
Matches: 337, Mismatches: 43, Indels: 128
0.66 0.08 0.25
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 4 0.01
7 80 0.24
8 31 0.09
9 169 0.50
10 17 0.05
11 24 0.07
12 8 0.02
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:43432392 original size:43 final size:42
Alignment explanation
Indices: 43432319--43432492 Score: 148
Period size: 43 Copynumber: 4.2 Consensus size: 42
43432309 AATTGCACGG
* *
43432319 GTAAGTTATGTAT--TGTGTAAGCTATGTAAGTTGTGTATTAT
1 GTAAGTTATGTATAATGT-TAAGTTATGTAAGTTATGTATTAT
* *
43432360 GTAAGTTAT-TATTATGCTTTAAGTTATGTAAGTAATGTATTAT
1 GTAAGTTATGTATAATG--TTAAGTTATGTAAGTTATGTATTAT
*
43432403 GTAAGTTGTGTATAATGTT-AGTTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTATAATGTTAAGTTATGTAAGTTATGT-A-TTAT
* ** *
43432446 GTAAG-TAAGT-T-ATG-TAAGTTATCAAAGTAATGTATGTTAT
1 GTAAGTTATGTATAATGTTAAGTTATGTAAGTTATGTA--TTAT
43432486 GTAAGTT
1 GTAAGTT
43432493 GTAAGTTATT
Statistics
Matches: 112, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
39 2 0.02
40 30 0.27
41 27 0.24
42 8 0.07
43 38 0.34
44 7 0.06
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (42 bp):
GTAAGTTATGTATAATGTTAAGTTATGTAAGTTATGTATTAT
Found at i:43432414 original size:25 final size:26
Alignment explanation
Indices: 43432356--43432771 Score: 301
Period size: 25 Copynumber: 16.1 Consensus size: 26
43432346 AAGTTGTGTA
43432356 TTATGTAAGTT-AT-TATTATGCTTTAAG
1 TTATGTAAGTTAATGTATTATG---TAAG
43432383 TTATGTAAG-TAATGTATTATGTAAG
1 TTATGTAAGTTAATGTATTATGTAAG
*
43432408 TTGTGT-A--TAATGTTAGTTATGTAAG
1 TTATGTAAGTTAATG-TA-TTATGTAAG
43432433 TTATGTAAGTT-ATGTA--A-GTAAG
1 TTATGTAAGTTAATGTATTATGTAAG
* *
43432455 TTATGTAAGTTATCAAAGTA--ATGTATG
1 TTATGTAAG-T-T-AATGTATTATGTAAG
43432482 TTATGTAAGTTGTAA-GTTATTATGT-A-
1 TTATGTAAG-T-TAATG-TATTATGTAAG
* *
43432508 TTATGTAAGTTAAGATGGATTACGTAAG
1 TTATGTAAGTT-A-ATGTATTATGTAAG
43432536 TTATGTAAGTTAAATGTATTATGTAAG
1 TTATGTAAGTT-AATGTATTATGTAAG
43432563 -T-TGTAAGTTAAATGTATTATGTAAG
1 TTATGTAAGTT-AATGTATTATGTAAG
43432588 -T-TGTAAGTTAGATGTATTATGTAAG
1 TTATGTAAGTTA-ATGTATTATGTAAG
43432613 -T-TGTAAGTTAGATGTATTATGTAAG
1 TTATGTAAGTTA-ATGTATTATGTAAG
43432638 -T-TGTAAGTTAATATGTATTATGTAAG
1 TTATGTAAGTT-A-ATGTATTATGTAAG
43432664 TTATGTAAGTTAAATGTATTATG-AAGG
1 TTATGTAAGTT-AATGTATTATGTAA-G
* ** *
43432691 TTATGTAAGTT-GTGTAAGAGATTTAAG
1 TTATGTAAGTTAATGT-A-TTATGTAAG
* *
43432718 TTATGTGAGTT-TTGTATTATGTAAG
1 TTATGTAAGTTAATGTATTATGTAAG
* *
43432743 TTATGTAGGTT-ATTTAGGTTATGTAAG
1 TTATGTAAGTTAATGTA--TTATGTAAG
43432770 TT
1 TT
43432772 TTGAGTTGTT
Statistics
Matches: 335, Mismatches: 24, Indels: 60
0.80 0.06 0.14
Matches are distributed among these distances:
22 14 0.04
23 7 0.02
24 6 0.02
25 128 0.38
26 49 0.15
27 94 0.28
28 37 0.11
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.45
Consensus pattern (26 bp):
TTATGTAAGTTAATGTATTATGTAAG
Found at i:43432453 original size:13 final size:13
Alignment explanation
Indices: 43432437--43432464 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43432427 TGTAAGTTAT
43432437 GTAAGTTATGTAA
1 GTAAGTTATGTAA
43432450 GTAAGTTATGTAA
1 GTAAGTTATGTAA
43432463 GT
1 GT
43432465 TATCAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (13 bp):
GTAAGTTATGTAA
Found at i:43432453 original size:22 final size:22
Alignment explanation
Indices: 43432428--43432517 Score: 82
Period size: 22 Copynumber: 4.1 Consensus size: 22
43432418 TGTTAGTTAT
43432428 GTAAGTTATGTAAGTTATGTAA
1 GTAAGTTATGTAAGTTATGTAA
43432450 GTAAGTTATGTAAGTTATCAAAGTAA
1 GTAAGTTATGTAAGTTAT----GTAA
*
43432476 TGTATGTTATGTAAG-T-TGTAA
1 -GTAAGTTATGTAAGTTATGTAA
*
43432497 GTTA-TTATGT-A-TTATGTAA
1 GTAAGTTATGTAAGTTATGTAA
43432516 GT
1 GT
43432518 TAAGATGGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
18 2 0.03
19 13 0.22
20 2 0.03
21 4 0.07
22 18 0.31
25 1 0.02
26 5 0.09
27 13 0.22
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.43
Consensus pattern (22 bp):
GTAAGTTATGTAAGTTATGTAA
Found at i:43432514 original size:19 final size:19
Alignment explanation
Indices: 43432492--43432540 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
43432482 TTATGTAAGT
* *
43432492 TGTAAGTTATTATGTATTA
1 TGTAAGTTATGATGGATTA
*
43432511 TGTAAGTTAAGATGGATTA
1 TGTAAGTTATGATGGATTA
*
43432530 CGTAAGTTATG
1 TGTAAGTTATG
43432541 TAAGTTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (19 bp):
TGTAAGTTATGATGGATTA
Found at i:43432738 original size:43 final size:43
Alignment explanation
Indices: 43432691--43432774 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
43432681 ATTATGAAGG
* *
43432691 TTATGTAAGTTGTGTAAGAGATTTAAGTTATGTGAGTTTTGTA
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
* ** *
43432734 TTATGTAAGTTATGTAGGTTATTTAGGTTATGTAAGTTTTG
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTG
43432775 AGTTGTTCAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
Found at i:43432921 original size:12 final size:11
Alignment explanation
Indices: 43432894--43432974 Score: 50
Period size: 12 Copynumber: 7.5 Consensus size: 11
43432884 TGTTAAGTAC
43432894 AATTTAATAA-
1 AATTTAATAAT
43432904 AA--TAATATAT
1 AATTTAATA-AT
43432914 AATTTAATAA-
1 AATTTAATAAT
*
43432924 CATTACTAAT-AT
1 AATT--TAATAAT
43432936 AATTATTAATAAT
1 AA-T-TTAATAAT
43432949 -ATTTAATAAT
1 AATTTAATAAT
43432959 AATTTTAAT-AT
1 AA-TTTAATAAT
43432970 AATTT
1 AATTT
43432975 TATTATTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 18 0.32
11 8 0.14
12 21 0.37
13 3 0.05
14 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:43434746 original size:50 final size:50
Alignment explanation
Indices: 43434671--43434770 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
43434661 TCAGCAACTA
43434671 AGAAAGAGATTGACAGTTTTGAAGCAGGTTGAGGCAAGTATTAAGAAGTT
1 AGAAAGAGATTGACAGTTTTGAAGCAGGTTGAGGCAAGTATTAAGAAGTT
43434721 AGAAAGAGATTGACAGTTTTGAAGCAGGTTGAGGCAAGTATTAAGAAGTT
1 AGAAAGAGATTGACAGTTTTGAAGCAGGTTGAGGCAAGTATTAAGAAGTT
43434771 GAGAGAAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (50 bp):
AGAAAGAGATTGACAGTTTTGAAGCAGGTTGAGGCAAGTATTAAGAAGTT
Found at i:43435364 original size:40 final size:42
Alignment explanation
Indices: 43435315--43435396 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
43435305 TTGTTGATTC
*
43435315 CAACTTTTACGGCG-CTT-AGAATCAAACGCCACTAAT-TTTA
1 CAACATTTACGGCGTCTTGAGAAT-AAACGCCACTAATATTTA
*
43435355 CAACATTTACGGCGTTTTGAGAATAAACGCCACTAATATTTA
1 CAACATTTACGGCGTCTTGAGAATAAACGCCACTAATATTTA
43435397 ATTCGTCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 13 0.35
41 15 0.41
42 9 0.24
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (42 bp):
CAACATTTACGGCGTCTTGAGAATAAACGCCACTAATATTTA
Found at i:43438132 original size:114 final size:112
Alignment explanation
Indices: 43437861--43438421 Score: 564
Period size: 114 Copynumber: 4.9 Consensus size: 112
43437851 ATTTTAAATC
* * * * * * *
43437861 CTTGATCATTAGCGGCGCTTTTCTAAAAACGCTGCTAAAATCCCTCAAAAGCACAGAAAACGACG
1 CTTGAGCATTAGCGGCGCTTTTATAAAAACGCCGCT-AAATCCCT-GAAAGCTCGGGAAACGACG
* *
43437926 ACGTTGCGCTTAG-TTTTTTGCGGCGCTTTCCAAAAAACGCCTCTAAAGA
64 TCGTTGCGCTTAGTTTTTTTGCGGCGCTTTCC-AAAAACGCCGCTAAAGA
* * * * * *
43437975 C-TGAACATTAGCGGCGCTTTAACAAAAACGCCGCTAAAATCCCTGAAAGC-CAGAAAACGGCGT
1 CTTGAGCATTAGCGGCGCTTTTATAAAAACGCCGCT-AAATCCCTGAAAGCTCGGGAAACGACGT
* *
43438038 CGTTGGGCTTAGGTTTTTTTGCGGCGCTTTAACAAAAACGCCGCTAAAGA
65 CGTTGCGCTTA-GTTTTTTTGCGGCGCTTT-CCAAAAACGCCGCTAAAGA
* * * *
43438088 CTTCAGCATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACGT
1 CTTGAGCATTAGCGGCGCTTT-TATAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGT
* * *
43438153 CGTTGCGC-TAGTTTTACGTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGA
65 CGTTGCGCTTAGTTTT--TTTGCGGCGC-TTTCCAAAAACGCCGCTAAAGA
* * * * *
43438203 CCTAACCATTAGCGGCGC-TTTATAGAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACAT
1 CTTGAGCATTAGCGGCGCTTTTATA-AAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGT
* * *
43438267 CGTTGAGCTTAGTTATTTTTGCGGCGCTTTCCTAGAAACGCCGCTAAAGC
65 CGTTGCGCTTAGTT-TTTTTGCGGCGCTTTCC-AAAAACGCCGCTAAAGA
* * * * *
43438317 CTTGAGCATTAGCGGTGC--TTACTGAAAAACGCCGCTAAATCACC-GAATGTTGGGGAAACGGC
1 CTTGAGCATTAGCGGCGCTTTTA-T-AAAAACGCCGCTAAATC-CCTGAAAGCTCGGGAAACGAC
*
43438379 GTCGTTGCGC-TAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCG
63 GTCGTTGCGCTTAGTTTTTTTGCGGCGCTTTC-CAAAAACGCCG
43438422 GGAATGATTA
Statistics
Matches: 379, Mismatches: 51, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
111 21 0.06
112 31 0.08
113 92 0.24
114 155 0.41
115 75 0.20
116 5 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (112 bp):
CTTGAGCATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTC
GTTGCGCTTAGTTTTTTTGCGGCGCTTTCCAAAAACGCCGCTAAAGA
Found at i:43438288 original size:229 final size:223
Alignment explanation
Indices: 43437867--43438419 Score: 636
Period size: 229 Copynumber: 2.4 Consensus size: 223
43437857 AATCCTTGAT
* * * * * * *
43437867 CATTAGCGGCGCTTT-TCTAAAAACGCTGCTAAAATCCCTCAAAAGCACAGAAAACGACGACGTT
1 CATTAGCGGCGCTTTCTGTAAAAACGCCGCT-AAATCCCT-GAAAGCTCGGGAAACGACGTCGTT
43437931 GCGCTTAGTTTTTTGCGGCGCTTTCCAAAAAACGCCTCTAAAGACTGAACATTAGCGGCGCTTTA
64 GCGC-TAGTTTTTTGCGGCGCTTTCC-AAAAACG-CTCTAAAGACTGAACATTAGCGGCGCTTTA
* * *
43437996 ACAAAAACGCCGCTAAAATCCCTGAAAGCCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCG
126 ACAAAAACGCCGCTAAAATCCCTGAAAGCCAGAAAACGACATCGTTGAGCTTAGGTTTTTTTGCG
43438061 GCGCTTTAAC-AAAAACGCCGCTAAAGACTTCAG
191 GCGCTTT-ACTAAAAACGCCGCTAAAGACTTCAG
* *
43438094 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACGTCGTTGC
1 CATTAGCGGCGCTTTCTGTAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGC
*
43438159 GCTAGTTTTACGTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGACCT-AACCATTAGCGGCGCTT
66 GCTAGTTTT---TTGCGGCGC-TTTCCAAAAACGCT-CTAAAGA-CTGAA-CATTAGCGGCGCTT
* * * *
43438223 TATA-GAAAGCGCCGCT-AAATCCCTGAAAGCTCGGGAAACGACATCGTTGAGCTTA-GTTATTT
124 TA-ACAAAAACGCCGCTAAAATCCCTGAAAGC-CAGAAAACGACATCGTTGAGCTTAGGTT-TTT
* * * *
43438285 TTGCGGCGCTTTCCTAGAAACGCCGCTAAAGCCTTGAG
186 TTGCGGCGCTTTACTAAAAACGCCGCTAAAGACTTCAG
* * * * * *
43438323 CATTAGCGGTGCTTACTG-AAAAACGCCGCTAAATCACC-GAATGTTGGGGAAACGGCGTCGTTG
1 CATTAGCGGCGCTTTCTGTAAAAACGCCGCTAAATC-CCTGAAAGCTCGGGAAACGACGTCGTTG
43438386 CGCTAGGTTTTTTGCGGCGCTTTCTCAAAAACGC
65 CGCTA-GTTTTTTGCGGCGCTTTC-CAAAAACGC
43438420 CGGGAATGAT
Statistics
Matches: 281, Mismatches: 30, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
225 11 0.04
226 39 0.14
227 25 0.09
228 95 0.34
229 110 0.39
230 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (223 bp):
CATTAGCGGCGCTTTCTGTAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGC
GCTAGTTTTTTGCGGCGCTTTCCAAAAACGCTCTAAAGACTGAACATTAGCGGCGCTTTAACAAA
AACGCCGCTAAAATCCCTGAAAGCCAGAAAACGACATCGTTGAGCTTAGGTTTTTTTGCGGCGCT
TTACTAAAAACGCCGCTAAAGACTTCAG
Found at i:43439203 original size:40 final size:41
Alignment explanation
Indices: 43439159--43439236 Score: 108
Period size: 40 Copynumber: 1.9 Consensus size: 41
43439149 TTTAAAATAA
*
43439159 TTATT-AAATATATTAAA-AATAATTTAAAA-TTGTAAAAGAG
1 TTATTAAAAT-TATAAAATAAT-ATTTAAAATTTGTAAAAGAG
43439199 TTATTAAAATTATAAAATAATATTTAAAATTTGTAAAA
1 TTATTAAAATTATAAAATAATATTTAAAATTTGTAAAA
43439237 ATAGAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
40 19 0.56
41 15 0.44
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (41 bp):
TTATTAAAATTATAAAATAATATTTAAAATTTGTAAAAGAG
Found at i:43439225 original size:20 final size:20
Alignment explanation
Indices: 43439151--43439229 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
43439141 GGTATTTTTT
43439151 TAAAATAATTATT-AAATATA
1 TAAAATAATTATTAAAAT-TA
*
43439171 TTAAAAATAA-T-TTAAAATTG
1 -T-AAAATAATTATTAAAATTA
* *
43439191 TAAAAGAGTTATTAAAATTA
1 TAAAATAATTATTAAAATTA
43439211 TAAAATAA-TATTTAAAATT
1 TAAAATAATTA-TTAAAATT
43439230 TGTAAAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
18 5 0.11
19 4 0.09
20 25 0.53
21 6 0.13
22 7 0.15
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
TAAAATAATTATTAAAATTA
Found at i:43439239 original size:19 final size:19
Alignment explanation
Indices: 43439172--43439239 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 19
43439162 TTAAATATAT
43439172 TAAAAATAATTTAAAA-TTG
1 TAAAAAT-ATTTAAAATTTG
43439191 TAAAAGAGT-TATTAAAATTAT-
1 TAAAA-A-TAT-TTAAAATT-TG
*
43439212 AAAATAATATTTAAAATTTG
1 TAAA-AATATTTAAAATTTG
43439232 TAAAAATA
1 TAAAAATA
43439240 GAAAAATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
19 11 0.28
20 19 0.49
21 7 0.18
22 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (19 bp):
TAAAAATATTTAAAATTTG
Found at i:43439254 original size:19 final size:19
Alignment explanation
Indices: 43439232--43439293 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
43439222 TTAAAATTTG
43439232 TAAAAATAGAAAAATTATT
1 TAAAAATAGAAAAATTATT
43439251 TAAAAAT-GTAAATAATTA-T
1 TAAAAATAG-AAA-AATTATT
*
43439270 TAAAAATATAAAAATTATT
1 TAAAAATAGAAAAATTATT
43439289 TAAAA
1 TAAAA
43439294 TTTTTGAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 6 0.16
19 27 0.71
20 5 0.13
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TAAAAATAGAAAAATTATT
Found at i:43439572 original size:20 final size:19
Alignment explanation
Indices: 43439549--43439589 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
43439539 GTTTTTAAAA
43439549 ATTTTAAATAATATTTTGTT
1 ATTTTAAATAA-ATTTTGTT
* *
43439569 ATTTTTAATAAATTTTTTT
1 ATTTTAAATAAATTTTGTT
43439588 AT
1 AT
43439590 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTAAATAAATTTTGTT
Found at i:43439574 original size:21 final size:21
Alignment explanation
Indices: 43439549--43439598 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
43439539 GTTTTTAAAA
43439549 ATTTTAAATAATATTTTGTTAT
1 ATTTTAAATAA-ATTTTGTTAT
*
43439571 -TTTT-AATAAATTTTTTTAT
1 ATTTTAAATAAATTTTGTTAT
43439590 AATTTTAAA
1 -ATTTTAAA
43439599 ACATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 9 0.38
20 5 0.21
21 8 0.33
22 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTAAATAAATTTTGTTAT
Found at i:43439681 original size:19 final size:18
Alignment explanation
Indices: 43439653--43439690 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43439643 ATTACAATTA
43439653 TATATATTTTAAATATTTT
1 TATATATTTT-AATATTTT
*
43439672 TATATTTTTTAATATTTT
1 TATATATTTTAATATTTT
43439690 T
1 T
43439691 CTACAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATATTTTAATATTTT
Found at i:43452588 original size:14 final size:15
Alignment explanation
Indices: 43452563--43452591 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43452553 TTTCCAATTC
43452563 TTTTTTGCTTTCTCA
1 TTTTTTGCTTTCTCA
43452578 TTTTTTG-TTTCTCA
1 TTTTTTGCTTTCTCA
43452592 ATCCGATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTTGCTTTCTCA
Found at i:43455505 original size:4 final size:4
Alignment explanation
Indices: 43455496--43455525 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
43455486 TTCTTGTGGT
43455496 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
43455526 CTTGGAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:43456520 original size:28 final size:27
Alignment explanation
Indices: 43456447--43456524 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 27
43456437 AAAAGCCATT
*
43456447 AAAATAATTTAG-AAATAAAAAATTCAA
1 AAAAT-ATTTAGAAAATAAAAAATCCAA
*
43456474 AAAGT-TTTAAGAAATATAAAAAATCCAA
1 AAAATATTT-AGAAA-ATAAAAAATCCAA
43456502 AAAATATGTTAGAAAATAAAAAA
1 AAAATAT-TTAGAAAATAAAAAA
43456525 ATTAGAGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
25 3 0.07
26 2 0.05
27 6 0.14
28 24 0.56
29 6 0.14
30 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.24
Consensus pattern (27 bp):
AAAATATTTAGAAAATAAAAAATCCAA
Found at i:43456610 original size:26 final size:26
Alignment explanation
Indices: 43456574--43456623 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
43456564 AAAATTTTAC
*
43456574 TAATTTTTTTAAAATATTAGAAATTT
1 TAATATTTTTAAAATATTAGAAATTT
* *
43456600 TAATATTTTTAAAATTTTATAAAT
1 TAATATTTTTAAAATATTAGAAAT
43456624 CACATTTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
TAATATTTTTAAAATATTAGAAATTT
Found at i:43461596 original size:3 final size:3
Alignment explanation
Indices: 43461588--43461622 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
43461578 GTGAAAATAG
43461588 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
43461623 AATAACTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:43462841 original size:12 final size:13
Alignment explanation
Indices: 43462823--43462873 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
43462813 GCTGAATGAA
43462823 AACGATGAAGACG
1 AACGATGAAGACG
*
43462836 -ACGATGAAGAGG
1 AACGATGAAGACG
43462848 AATCGGATGAAGACG
1 AA-C-GATGAAGACG
*
43462863 TA-GATGAAGAC
1 AACGATGAAGAC
43462874 TTTGTTGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 20 0.62
13 1 0.03
14 1 0.03
15 10 0.31
ACGTcount: A:0.43, C:0.12, G:0.33, T:0.12
Consensus pattern (13 bp):
AACGATGAAGACG
Found at i:43473973 original size:14 final size:14
Alignment explanation
Indices: 43473931--43473997 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
43473921 TTAGTGTTTT
* *
43473931 TTTAGGATTTTAG-
1 TTTAGGGTTTTTGA
**
43473944 TTTAGGGTTTAAGA
1 TTTAGGGTTTTTGA
*
43473958 TTTATGGTTTTTGA
1 TTTAGGGTTTTTGA
43473972 TTTTAGGGATTTTTG-
1 -TTTAGGG-TTTTTGA
43473987 TTTAGGGTTTT
1 TTTAGGGTTTT
43473998 CAATTTGGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
13 15 0.33
14 18 0.40
15 6 0.13
16 6 0.13
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (14 bp):
TTTAGGGTTTTTGA
Found at i:43480232 original size:20 final size:20
Alignment explanation
Indices: 43480204--43480250 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
43480194 TCTTTAGAAT
*
43480204 TTTTTAAATATATATATAA-A
1 TTTTGAAATATATATA-AATA
* *
43480224 TTTTGAAATTTTTATAAATA
1 TTTTGAAATATATATAAATA
43480244 TTTTGAA
1 TTTTGAA
43480251 TTTTTGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTTGAAATATATATAAATA
Found at i:43480241 original size:18 final size:17
Alignment explanation
Indices: 43480218--43480264 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
43480208 TAAATATATA
43480218 TATAAATTTTGAAATTTT
1 TATAAATTTTG-AATTTT
43480236 TATAAATATTTTGAATTTT
1 TAT-AA-ATTTTGAATTTT
43480255 TGA-AAATTTT
1 T-ATAAATTTT
43480265 TGACGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 9 0.35
20 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TATAAATTTTGAATTTT
Found at i:43480254 original size:19 final size:19
Alignment explanation
Indices: 43480223--43480267 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
43480213 ATATATATAA
43480223 ATTTTGAAATTTTT-ATAAAT
1 ATTTTG-AATTTTTGA-AAAT
43480243 ATTTTGAATTTTTGAAAAT
1 ATTTTGAATTTTTGAAAAT
43480262 -TTTTGA
1 ATTTTGA
43480268 CGAGAGAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 11 0.46
20 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTGAAAAT
Found at i:43502160 original size:10 final size:10
Alignment explanation
Indices: 43502131--43502165 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
43502121 CAACATTGTA
43502131 ATATATAATT
1 ATATATAATT
43502141 A-ATATAATT
1 ATATATAATT
*
43502150 ATATTTAATT
1 ATATATAATT
43502160 ATATAT
1 ATATAT
43502166 TTTATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
ATATATAATT
Found at i:43511369 original size:6 final size:6
Alignment explanation
Indices: 43511358--43511388 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
43511348 CTGCTTTGCC
43511358 CCCGCT CCCGCT CCCGCT CCCGCT CCCGCT C
1 CCCGCT CCCGCT CCCGCT CCCGCT CCCGCT C
43511389 ACATCACCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.16, T:0.16
Consensus pattern (6 bp):
CCCGCT
Found at i:43527483 original size:14 final size:14
Alignment explanation
Indices: 43527466--43527494 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43527456 TGCTTCTTCC
43527466 TTTTT-TTTTCTTT
1 TTTTTGTTTTCTTT
43527479 TTTTTGTTTTCTTT
1 TTTTTGTTTTCTTT
43527493 TT
1 TT
43527495 CTCCTGGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTGTTTTCTTT
Found at i:43533286 original size:19 final size:18
Alignment explanation
Indices: 43533240--43533286 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
43533230 TTTTATTGCA
43533240 TTTTATTTTTGTTTTTAG
1 TTTTATTTTTGTTTTTAG
*
43533258 TTTAATTTTTGTTTTCTAG
1 TTTTATTTTTGTTTT-TAG
43533277 TTTTTATTTT
1 -TTTTATTTT
43533287 ATTTGCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 14 0.56
19 3 0.12
20 8 0.32
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTGTTTTTAG
Found at i:43536727 original size:15 final size:14
Alignment explanation
Indices: 43536695--43536745 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
43536685 AGCTACCCAT
43536695 TTTATT-TTA-TTA
1 TTTATTATTATTTA
*
43536707 TTTATTATTATTTG
1 TTTATTATTATTTA
43536721 TTATATTATTTATTTA
1 TT-TATTA-TTATTTA
43536737 TTTATTATT
1 TTTATTATT
43536746 CTTATACTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 6 0.18
13 3 0.09
14 6 0.18
15 10 0.30
16 8 0.24
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:43542932 original size:50 final size:49
Alignment explanation
Indices: 43542867--43543052 Score: 212
Period size: 51 Copynumber: 3.7 Consensus size: 49
43542857 AAAGTGAAAG
*
43542867 TGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-A
* * * *
43542916 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
* * * * * *
43542965 TAGTTTCGATCACGTGTGTAGTACTATGTGCAGGATACTACGTGTATCGGA
1 T-G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
*
43543016 TGATAGTGGTCACATGTGTAGTACTATGTGCAAGCTA
1 TGATA--GGTCACATGTGTAGTACTATGTGCAGGCTA
43543053 ATATGTGAAC
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 7 0.06
50 40 0.36
51 64 0.58
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (49 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
Found at i:43543117 original size:45 final size:45
Alignment explanation
Indices: 43543066--43543153 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
43543056 TGTGAACCGA
* *
43543066 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
43543111 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
43543154 GAGTATCTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
Found at i:43547800 original size:23 final size:23
Alignment explanation
Indices: 43547771--43547892 Score: 163
Period size: 23 Copynumber: 5.3 Consensus size: 23
43547761 ATAAGTGCCA
*
43547771 CACTGATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43547794 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43547817 CACTGAAATGCAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43547840 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43547863 CACTGAAATGTTGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43547886 CATTGAT
1 CACTGAT
43547893 CAATAACACT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 84 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43547838 original size:46 final size:46
Alignment explanation
Indices: 43547771--43547892 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
43547761 ATAAGTGCCA
* *
43547771 CACTGATATGTAGTCGAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
43547817 CACTGAAATGCAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
43547863 CACTGAAATGTTGCCGAAGCTACCATTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
43547893 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:43548144 original size:18 final size:17
Alignment explanation
Indices: 43548118--43548156 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43548108 ATTTTCCTTC
43548118 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
43548135 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
43548153 CACA
1 CACA
43548157 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:43550316 original size:29 final size:30
Alignment explanation
Indices: 43550284--43550342 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
43550274 ATTGGTTTAA
*
43550284 TGTGTAATTATATATAT-AAATTTTAATTT
1 TGTGTAATTATATACATGAAATTTTAATTT
* *
43550313 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGTAATTATATACATGAAATTTTAATTT
43550343 AATTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (30 bp):
TGTGTAATTATATACATGAAATTTTAATTT
Found at i:43550409 original size:23 final size:24
Alignment explanation
Indices: 43550362--43550425 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 24
43550352 TTTATAAATT
43550362 ATTAACATAATTATTCATATAACAT-C
1 ATTAA-ATAATTA-T-ATATAACATAC
*
43550388 ATTAAATAATTATATATTACATAC
1 ATTAAATAATTATATATAACATAC
*
43550412 A-TAGATAATTATAT
1 ATTAAATAATTATAT
43550426 TTATCTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 20 0.57
24 3 0.09
25 7 0.20
26 5 0.14
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (24 bp):
ATTAAATAATTATATATAACATAC
Found at i:43556931 original size:20 final size:21
Alignment explanation
Indices: 43556906--43556950 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
43556896 GTTTTTTATT
43556906 AAAATAATA-CAAAAGAA-ATA
1 AAAAT-ATACCAAAAGAATATA
*
43556926 AAAATATACCAAAATAATATA
1 AAAATATACCAAAAGAATATA
43556947 AAAA
1 AAAA
43556951 AATTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 12 0.55
21 7 0.32
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAATATACCAAAAGAATATA
Found at i:43557804 original size:27 final size:27
Alignment explanation
Indices: 43557766--43557824 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
43557756 TTTTAGTCCT
*
43557766 GTGCCGCCAATGAGAATGGCACCACCG
1 GTGCCACCAATGAGAATGGCACCACCG
*
43557793 GTGCCACCAATGAGAATGGCACCATCG
1 GTGCCACCAATGAGAATGGCACCACCG
43557820 GTGCC
1 GTGCC
43557825 GCCATTCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.32, G:0.29, T:0.14
Consensus pattern (27 bp):
GTGCCACCAATGAGAATGGCACCACCG
Found at i:43557915 original size:18 final size:20
Alignment explanation
Indices: 43557877--43557922 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
43557867 GGTAAATAAT
43557877 TTTTTTATATTATTTTGGTA
1 TTTTTTATATTATTTTGGTA
*
43557897 TTTTTTAT-TTCTTTT-GTA
1 TTTTTTATATTATTTTGGTA
43557915 TTATTTTA
1 TT-TTTTA
43557923 GTAAAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 8 0.33
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (20 bp):
TTTTTTATATTATTTTGGTA
Found at i:43565193 original size:637 final size:637
Alignment explanation
Indices: 43563978--43567304 Score: 4660
Period size: 637 Copynumber: 5.3 Consensus size: 637
43563968 GGGTGTTACA
* * * *
43563978 ACAGGGTTGACTTGATACAGTTGATGCTATTAGTGACACAGACCACGAGATCTTTACTAATCTTA
1 ACAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATCTTA
* * * *
43564043 ATGTTGAG-TTATGGATCACTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATAACTCATAA
66 TTGTCG-GCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCATAA
* * * * *
43564107 TCCTATTAGCACTGAATTAATAAACTTTTAACAATCATTCTAAATGCCTTCAATCAGAGTAAATC
130 TCCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAATC
* * *
43564172 TGAGTGTTTTAAAACCTAACCTCCTAGCCAGAATCTCCCTATAATTTATTCTAACAAAACAATAT
195 TGAGTGTTTTAAAACCTAACCTCCTAGACAGAATCTCCCTATAATTTATTCTAATAACACAATAT
* * * * *
43564237 ATCATTACAATTATGA-CCTACAAAATAACAATATAGAACACAAAAAATTTAACGAGGC-TCAGC
260 ATCATCACAATTAT-ACCCTACAAAATAACAATAAAGAACACGAGAAATTTAACGAGGCTTGA-C
*
43564300 AAATTACGCCTACGTCATCTAACAATACCAAATATATTTCATTACAAAAGATATAAGTGGGATTG
323 AAATTACGCCTACGTCATCAAACAATACCAAATATATTTCATTACAAAAGATATAAGTGGGATTG
* * * *
43564365 TGCTATTTCAACTATACAAGATATTGATACTTTTTTTATTTTTGGAAACTCTGCCATAATCATCT
388 TGCTATTTCAACAATTCAAGATACTGATACTTTTTTTATTTTTGGAAACTTTGCCATAATCATCT
* * * *
43564430 TCCCA-AGTGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGGATGTCTTTTATTTTAG
453 TCCCACA-TGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGTCCTTTGTGTTAG
* * *
43564494 GAGCATAATGAAATTGTCGAGAAGCTATTCAAGGAATGTAATTTTGCTAGGTAGTTTGGTTTTGA
517 GAGCATAACGAAACTGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGGTAGTTTGGTTTTGA
* * * *
43564559 TGCCATCTGTCACTCAGGTTGGATGTGTTACGTCACATGACATTATTTCAAAATCT
582 TGCCATCTGTCACTCAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAATCT
* *
43564615 ACAGGGTTGACTTGATACAGTTGATGCTATTAGTGACACATATCACGAGTTCTTTACTTATCTTA
1 ACAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATCTTA
* * *
43564680 TTGTTGGGTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATTATATCACTCATAAT
66 TTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCATAAT
* * * * *
43564745 CCTATTAGCATTGAATTAATAAGCTTTCAACGACCATTCTAAGTGCATTCAATTAGAGTAAATCT
131 CCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAATCT
*
43564810 GAGTGTTTTAAAACCTAACCTCCTAGACAGAATCTCCCT-TAATTTATTCTAACAACACAATATA
196 GAGTGTTTTAAAACCTAACCTCCTAGACAGAATCTCCCTATAATTTATTCTAATAACACAATATA
*
43564874 TCATCACAATTATACCCTACAAAATAACGAAAAAAGAACACGAGAAATTTAACGAGGCTTGACAA
261 TCATCACAATTATACCCTACAAAATAAC-AATAAAGAACACGAGAAATTTAACGAGGCTTGACAA
* * * *
43564939 ATTACGCCTACGTTACCAAACAATACCAAATATATTTCATTAGAAAAGATATAAGTGGGATTGTA
325 ATTACGCCTACGTCATCAAACAATACCAAATATATTTCATTACAAAAGATATAAGTGGGATTGTG
* * *
43565004 CTATTTCAACAATTCAAGATACTGATACTTTTTTTATTTTTAGAAATTTTACCATAATCATCTTC
390 CTATTTCAACAATTCAAGATACTGATACTTTTTTTATTTTTGGAAACTTTGCCATAATCATCTTC
* * *
43565069 CCACATGAATGGAGCTACAGAAGGGCTCAATTAATGCACTTTCAGAATGTCATTTGTTTTAGGAG
455 CCACATGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAG
* * * *
43565134 CATAAC-AAAATAGCCGAGAAGTTATTCAATGAATGTAGTTTTGCTAGGTAGTTTGGTTTTGATG
520 CATAACGAAACT-GTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGGTAGTTTGGTTTTGATG
43565198 CCATCTGTCACTCAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAATCT
584 CCATCTGTCACTCAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAATCT
* * * *
43565252 ACAAGGTTGACTTGATACAATTGATGTTGTTAGTAACACAGATCACGAGTTCTTTACTTATCTTA
1 ACAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATCTTA
*
43565317 TTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCAATCATAAT
66 TTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCATAAT
* * * *
43565382 CCTATTAGCACTGCATTAAGAAGCTTTCAACGACTATTCTAAATGCCTTCAATCAAACTAAATCT
131 CCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAATCT
* * *
43565447 GAGTGTTTTAGAACCTAACCTCCTAGACAGAATCTCCCTATAATTTATTGTAATAGCACAATATA
196 GAGTGTTTTAAAACCTAACCTCCTAGACAGAATCTCCCTATAATTTATTCTAATAACACAATATA
*
43565512 TCATCAC----A-A---T-----AT-----T---GAACACGAGAAATTTAACGAGGCTCGACAAA
261 TCATCACAATTATACCCTACAAAATAACAATAAAGAACACGAGAAATTTAACGAGGCTTGACAAA
* *
43565556 TTACGCCTACGTCATCAAACAATACCAAATATATCTCATTACAAAAGATA-AAGTGGGATTGTGT
326 TTACGCCTACGTCATCAAACAATACCAAATATATTTCATTACAAAAGATATAAGTGGGATTGTGC
* * * *
43565620 TATTTCAACAATTCAAGATATTGGTACTTTTTTTTTATTTTTAGAAACTTTGTCATAATCATCTT
391 TATTTCAACAATTCAAGATACTGATAC--TTTTTTTATTTTTGGAAACTTTGCCATAATCATCTT
* * * *
43565685 TCCACATTAATAGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGTCCTTTGTGTTAAGA
454 CCCACATGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGA
* * * *
43565750 GCATAACGGAACTGTCGAGAAGTTATTCAAGGAATGTAATTTTGTTAGGTAGTTTAGTTTGGATG
519 GCATAACGAAACTGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGGTAGTTTGGTTTTGATG
*
43565815 CCATCTGTCACTCAGATTGGATGAGTTACGTCACACGACGTTACTTCAAAATCT
584 CCATCTGTCACTCAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAATCT
* * *
43565869 ATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTCTACCTATCTTA
1 ACAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATCTTA
* * *
43565934 TTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAATATATTTAATCATATCAGTCATAAT
66 TTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCATAAT
* * * * *
43565999 CCTATTAGCAGTGAATTAATAATCTTTCAACGACCATTCTCAATGCCTTGAATTAGACTAAATCT
131 CCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAATCT
* * * *
43566064 AAGTGTTTTAAAACCTAACCTCCTA-AGCAGATTCCCCCTATAATTTATTCTAATAACATAATAT
196 GAGTGTTTTAAAACCTAACCTCCTAGA-CAGAATCTCCCTATAATTTATTCTAATAACACAATAT
* * * * *
43566128 ATCATCACAATTGTACCCTACAAAATAACAATAAAGAACACAAGAAATTTATCGAGGCTCGATAA
260 ATCATCACAATTATACCCTACAAAATAACAATAAAGAACACGAGAAATTTAACGAGGCTTGACAA
* *
43566193 ATTACACCTGCGTCATCAAACAATACCAAATATATTTCATTACAAAAGATATAAGT--G---G-G
325 ATTACGCCTACGTCATCAAACAATACCAAATATATTTCATTACAAAAGATATAAGTGGGATTGTG
*
43566252 --A-TT---C---T---G-----G-TAC-TTTTCTATTTTTGGAAACTTTGCCATAATCATCTTC
390 CTATTTCAACAATTCAAGATACTGATACTTTTTTTATTTTTGGAAACTTTGCCATAATCATCTTC
*
43566298 CCACATGAATGGAGCTACAAAAGGGCTCAATTAATGCATTTTCAGAATGTCCTTTGTGTTAGGAG
455 CCACATGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAG
* * *
43566363 CATAACGAAACTGTCGAGAAGTTATTCGAGGAATGTAATTTTGCTAGGTAGTTTGGTTTGGATGT
520 CATAACGAAACTGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGGTAGTTTGGTTTTGATGC
*
43566428 CATCTGTCACTTAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAATCT
585 CATCTGTCACTCAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAATCT
* * * * * * *
43566481 GCAGAGTTGACTTGATACAATTGATGTTGTTAGTGACATAGACCACGAGTTCTTTACTTATTTTA
1 ACAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATCTTA
*
43566546 TTGTCAGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCATAAT
66 TTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCATAAT
* *
43566611 CCTATTAGTACTGAATTAATAAGCTTTCAACAACCATTCTAAATGCCTTCAATCAGACTAAATCT
131 CCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAATCT
* * * * *
43566676 GAGTGTTTTAAAACCTAACCTCCTAGAAAAAATCTCCCTATAATTCATTCTAGTAGCACAATATA
196 GAGTGTTTTAAAACCTAACCTCCTAGACAGAATCTCCCTATAATTTATTCTAATAACACAATATA
* * * * *
43566741 TCATCACAATTGTACCCTACAAAATTACAATAATGAACATGAAAAATTTAACGAGGCTTGACAAA
261 TCATCACAATTATACCCTACAAAATAACAATAAAGAACACGAGAAATTTAACGAGGCTTGACAAA
* * * * *
43566806 TTACGCCTACGTCATTAAAGAATACCAAATATATTTCTTTACAAAAGATAAAAGTGGGATTGTGT
326 TTACGCCTACGTCATCAAACAATACCAAATATATTTCATTACAAAAGATATAAGTGGGATTGTGC
* *
43566871 TATTTCAAAAATTCAAGATACTGATACTTTTTTTATTTTTGGAAACTTTGTCATAATCATCTTCC
391 TATTTCAACAATTCAAGATACTGATACTTTTTTTATTTTTGGAAACTTTGCCATAATCATCTTCC
* * * * *
43566936 CACATGAATGGAGCTACAGAATGGCTCAATTAATGCACTTTCAGAATGTCCTTTGAGTTAAGAGT
456 CACATGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGC
* *
43567001 ATAACGAAACTGTCGAGAAGTTATTCAATGAATGTAATTTTGCTAAGTAGTTTGGTTTTGATGCC
521 ATAACGAAACTGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGGTAGTTTGGTTTTGATGCC
* **
43567066 ATCTGTCA-TCTAGATTGGATGAGTTACGTCACATGATGTTACCGCAAAATCT
586 ATCTGTCACTC-AGATTGGATGAGTTACGTCACATGACGTTACTTCAAAATCT
* * *
43567118 ACAAGGTTGACTTGATACAATTGATGCTATTAGCGACACAGATCACGAGTTCTTTATTTATCTTA
1 ACAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATCTTA
* *
43567183 TTGTCGGCTTATGGATCATTTAGAAAATTAAAAATAGAAAA-ATATTTAATCATATCACTCATAA
66 TTGTCGGCTTATGGATCATTTGGAAAGTTAAAAAT-GAAAAGATATTTAATCATATCACTCATAA
* *
43567247 TCCTATTAGCACTGAATTAATAATCTTTTTTCAACGACCATTTTCAAATGCCTTCAAT
130 TCCTATTAGCACTGAATTAATAAGC---TTTCAACGACCATTCT-AAATGCCTTCAAT
43567305 ATTTTAGAAT
Statistics
Matches: 2396, Mismatches: 229, Indels: 126
0.87 0.08 0.05
Matches are distributed among these distances:
612 538 0.22
613 1 0.00
614 1 0.00
615 40 0.02
616 78 0.03
617 437 0.18
618 4 0.00
620 1 0.00
621 3 0.00
622 1 0.00
624 1 0.00
625 3 0.00
627 2 0.00
630 6 0.00
631 1 0.00
633 2 0.00
634 2 0.00
635 3 0.00
636 58 0.02
637 1071 0.45
638 112 0.05
639 4 0.00
640 14 0.01
641 13 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (637 bp):
ACAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATCTTA
TTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCATAAT
CCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAATCT
GAGTGTTTTAAAACCTAACCTCCTAGACAGAATCTCCCTATAATTTATTCTAATAACACAATATA
TCATCACAATTATACCCTACAAAATAACAATAAAGAACACGAGAAATTTAACGAGGCTTGACAAA
TTACGCCTACGTCATCAAACAATACCAAATATATTTCATTACAAAAGATATAAGTGGGATTGTGC
TATTTCAACAATTCAAGATACTGATACTTTTTTTATTTTTGGAAACTTTGCCATAATCATCTTCC
CACATGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGC
ATAACGAAACTGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGGTAGTTTGGTTTTGATGCC
ATCTGTCACTCAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAATCT
Found at i:43566494 original size:612 final size:622
Alignment explanation
Indices: 43565525--43567304 Score: 2368
Period size: 612 Copynumber: 2.8 Consensus size: 622
43565515 TCACAATATT
*
43565525 GAACACGAGAAATTTAACGAGGCTCGACAAATTACGCCTACGTCATCAAACAATACCAAATATAT
1 GAACACAAGAAATTTAACGAGGCTCGACAAATTACGCCTACGTCATCAAACAATACCAAATATAT
* *
43565590 CTCATTACAAAAGATA-AAGTGGGATTGTGTTATTTCAACAATTCAAGATATTGGTACTTTTTTT
66 TTCATTACAAAAGATATAAGT-GG--TGTG-TATTT---C-A-T--AG--A--GATAC--TTTTT
* * * * *
43565654 TTATTTTTAGAAACTTTGTCATAATCATCTTTCCACATTAATAGAGCTACAAAAGGGCTCAATTA
114 TTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGGCTCAATTA
* *
43565719 ATGCACTTTCAGAATGTCCTTTGTGTTAAGAGCATAACGGAACTGTCGAGAAGTTATTCAAGGAA
179 ATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTGTCGAGAAGTTATTCAAGGAA
* * *
43565784 TGTAATTTTGTTAGGTAGTTTAGTTTGGATGCCATCTGTCACTCAGATTGGATGAGTTACGTCAC
244 TGTAATTTTGCTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGTCAC
* * *
43565849 ACGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCA
309 ATGACGTTACTTCAAAATCTACAGAGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCA
* * * *
43565914 CGAGTTCTCTACCTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAATATAT
374 CGAGTTCTTTACTTATCTTATTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATAT
* * * *
43565979 TTAATCATATCAGTCATAATCCTATTAGCAGTGAATTAATAATCTTTCAACGACCATTCTCAATG
439 TTAATCATATCACTCATAATCCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATG
* * * * *
43566044 CCTTGAATTAGACTAAATCTAAGTGTTTTAAAACCTAACCTCCTA-AGCAGATTCCCCCTATAAT
504 CCTTCAATCAGACTAAATCTGAGTGTTTTAAAACCTAACCTCCTAGA-CAGAATCTCCCTATAAT
*
43566108 TTATTCTAATAACATAATATATCATCACAATTGTACCCTACAAAATAACAATAAA
568 TTATTCTAATAACACAATATATCATCACAATTGTACCCTACAAAATAACAATAAA
* * * *
43566163 GAACACAAGAAATTTATCGAGGCTCGATAAATTACACCTGCGTCATCAAACAATACCAAATATAT
1 GAACACAAGAAATTTAACGAGGCTCGACAAATTACGCCTACGTCATCAAACAATACCAAATATAT
*
43566228 TTCATTACAAAAGATATAAGT-G-G-G-A-TTC-T-G-G-TAC-TTTTCTATTTTTGGAAACTTT
66 TTCATTACAAAAGATATAAGTGGTGTGTATTTCATAGAGATACTTTTTTTATTTTTGGAAACTTT
*
43566283 GCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGGCTCAATTAATGCATTTTCAGAATGT
131 GCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGT
*
43566348 CCTTTGTGTTAGGAGCATAACGAAACTGTCGAGAAGTTATTCGAGGAATGTAATTTTGCTAGGTA
196 CCTTTGTGTTAGGAGCATAACGAAACTGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGGTA
* * *
43566413 GTTTGGTTTGGATGTCATCTGTCACTTAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAA
261 GTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAA
* * * * * *
43566478 TCTGCAGAGTTGACTTGATACAATTGATGTTGTTAGTGACATAGACCACGAGTTCTTTACTTATT
326 TCTACAGAGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATC
*
43566543 TTATTGTCAGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCAT
391 TTATTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCAT
* *
43566608 AATCCTATTAGTACTGAATTAATAAGCTTTCAACAACCATTCTAAATGCCTTCAATCAGACTAAA
456 AATCCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAA
* * * * *
43566673 TCTGAGTGTTTTAAAACCTAACCTCCTAGAAAAAATCTCCCTATAATTCATTCTAGTAGCACAAT
521 TCTGAGTGTTTTAAAACCTAACCTCCTAGACAGAATCTCCCTATAATTTATTCTAATAACACAAT
* *
43566738 ATATCATCACAATTGTACCCTACAAAATTACAATAAT
586 ATATCATCACAATTGTACCCTACAAAATAACAATAAA
* * * *
43566775 GAACATGAA-AAATTTAACGAGGCTTGACAAATTACGCCTACGTCATTAAAGAATACCAAATATA
1 GAACA-CAAGAAATTTAACGAGGCTCGACAAATTACGCCTACGTCATCAAACAATACCAAATATA
* *
43566839 TTTCTTTACAAAAGATAAAAGTGGGATTGTGTTATTTCAAAAATTCAAGATACTGATACTTTTTT
65 TTTCATTACAAAAGATATAAGT-GG--TGTG-TATTTC----A-T--AG--A--GATACTTTTTT
* * *
43566904 TATTTTTGGAAACTTTGTCATAATCATCTTCCCACATGAATGGAGCTACAGAATGGCTCAATTAA
115 TATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGGCTCAATTAA
* * * *
43566969 TGCACTTTCAGAATGTCCTTTGAGTTAAGAGTATAACGAAACTGTCGAGAAGTTATTCAATGAAT
180 TGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTGTCGAGAAGTTATTCAAGGAAT
*
43567034 GTAATTTTGCTAAGTAGTTTGGTTTTGATGCCATCTGTCA-TCTAGATTGGATGAGTTACGTCAC
245 GTAATTTTGCTAGGTAGTTTGGTTTTGATGCCATCTGTCACTC-AGATTGGATGAGTTACGTCAC
* ** *
43567098 ATGATGTTACCGCAAAATCTACA-AGGTTGACTTGATACAATTGATGCTATTAGCGACACAGATC
309 ATGACGTTACTTCAAAATCTACAGA-GTTGACTTGATACAATTGATGCTATTAGTGACACAGATC
* * *
43567162 ACGAGTTCTTTATTTATCTTATTGTCGGCTTATGGATCATTTAGAAAATTAAAAATAGAAAA-AT
373 ACGAGTTCTTTACTTATCTTATTGTCGGCTTATGGATCATTTGGAAAGTTAAAAAT-GAAAAGAT
* *
43567226 ATTTAATCATATCACTCATAATCCTATTAGCACTGAATTAATAATCTTTTTTCAACGACCATTTT
437 ATTTAATCATATCACTCATAATCCTATTAGCACTGAATTAATAAGC---TTTCAACGACCATTCT
43567291 CAAATGCCTTCAAT
499 -AAATGCCTTCAAT
43567305 ATTTTAGAAT
Statistics
Matches: 1012, Mismatches: 95, Indels: 67
0.86 0.08 0.06
Matches are distributed among these distances:
612 537 0.53
613 3 0.00
614 1 0.00
615 3 0.00
616 1 0.00
617 1 0.00
618 1 0.00
620 1 0.00
621 4 0.00
624 1 0.00
627 2 0.00
630 3 0.00
631 1 0.00
633 1 0.00
634 1 0.00
635 1 0.00
636 5 0.00
637 334 0.33
638 80 0.08
639 4 0.00
640 14 0.01
641 13 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (622 bp):
GAACACAAGAAATTTAACGAGGCTCGACAAATTACGCCTACGTCATCAAACAATACCAAATATAT
TTCATTACAAAAGATATAAGTGGTGTGTATTTCATAGAGATACTTTTTTTATTTTTGGAAACTTT
GCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGGCTCAATTAATGCACTTTCAGAATGT
CCTTTGTGTTAGGAGCATAACGAAACTGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGGTA
GTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGTCACATGACGTTACTTCAAAA
TCTACAGAGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTTTACTTATC
TTATTGTCGGCTTATGGATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCAT
AATCCTATTAGCACTGAATTAATAAGCTTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAA
TCTGAGTGTTTTAAAACCTAACCTCCTAGACAGAATCTCCCTATAATTTATTCTAATAACACAAT
ATATCATCACAATTGTACCCTACAAAATAACAATAAA
Found at i:43577820 original size:18 final size:18
Alignment explanation
Indices: 43577779--43577820 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43577769 TTTTTTCATC
*
43577779 ATTTTTATTTAAAAATAA
1 ATTTTTAATTAAAAATAA
*
43577797 AATTTTAATTAAAAA-AA
1 ATTTTTAATTAAAAATAA
43577814 TATTTTT
1 -ATTTTT
43577821 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTTAATTAAAAATAA
Found at i:43577886 original size:2 final size:2
Alignment explanation
Indices: 43577879--43577907 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43577869 AAATTTACAA
43577879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43577908 AAGAGGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43586921 original size:3 final size:3
Alignment explanation
Indices: 43586913--43587017 Score: 74
Period size: 3 Copynumber: 34.7 Consensus size: 3
43586903 GCAAGACATA
* * * * *
43586913 AAT AAT AAT AAT GAT AAC AAT AAT AAT ATT AAT AAT AAT AAT AAC AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
43586961 AAA AAT AAT AAT GCAA- AACT AAT AA- AAT AAT -AT AAT GAT -AT AAT
1 AAT AAT AAT AAT --AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
43587005 AAT GAAT AGAT AA
1 AAT -AAT A-AT AA
43587018 ATATAAAAAG
Statistics
Matches: 83, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
2 8 0.10
3 65 0.78
4 8 0.10
5 2 0.02
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:43588185 original size:14 final size:15
Alignment explanation
Indices: 43588166--43588199 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
43588156 GTTAATTAAT
43588166 TTTGGTTTGGTT-TA
1 TTTGGTTTGGTTGTA
43588180 TTTGGTTTGGTTGTA
1 TTTGGTTTGGTTGTA
43588195 TTTGG
1 TTTGG
43588200 GCTAGTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.06, C:0.00, G:0.32, T:0.62
Consensus pattern (15 bp):
TTTGGTTTGGTTGTA
Found at i:43590631 original size:51 final size:51
Alignment explanation
Indices: 43590514--43590838 Score: 405
Period size: 51 Copynumber: 6.5 Consensus size: 51
43590504 CTTACATATG
* * * *
43590514 ATCACTTATCACTTGTCTCTGATCAAATAAGTGTAGCT-AAGTTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
* ** * * *
43590564 ATCACCTGCCATTTGTCGCTGATCAGATAAGTGTAACTAAAGCTATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
** * *
43590615 ATCACTTGCCACTTGTCGCTGATCAGATAAGTGTAACTAAAGCTATCAC-T
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
* *
43590665 -T-GC----CACTTGTCACTGATCAGATAAGTGTAGCTAAAGATATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
* * *
43590710 ATCACTTTTCACTTGTCACTGATCAGATAAATGTAGCTGAAGCTATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
* *
43590761 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
43590812 ATCACTTATCACTTGTCACTGATCAGA
1 ATCACTTATCACTTGTCACTGATCAGA
43590839 AGTACTAAAA
Statistics
Matches: 245, Mismatches: 22, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
44 37 0.15
45 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 1 0.00
50 32 0.13
51 171 0.70
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (51 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
Found at i:43590691 original size:95 final size:95
Alignment explanation
Indices: 43590563--43590838 Score: 354
Period size: 95 Copynumber: 2.8 Consensus size: 95
43590553 AGTTACCACT
* * * * **
43590563 TATCACCTGCCATTTGTCGCTGATCAGATAAGTGTAACTAAAGCTATCACTTATCACTTGCCACT
1 TATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTATCACT
* *
43590628 TGTCGCTGATCAGATAAGTGTAACTAAAGC
66 TGTCACTGATCAGATAAATGTAACTAAAGC
* *
43590658 TATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGATATCACTTATCACTTTTCACT
1 TATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTATCACT
* *
43590723 TGTCACTGATCAGATAAATGTAGCTGAAGC
66 TGTCACTGATCAGATAAATGTAACTAAAGC
* * *
43590753 TATCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTATCACTTATCACT
1 TATCAC-T-T-GC----CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACT
43590818 TATCACTTGTCACTGATCAGA
59 TATCACTTGTCACTGATCAGA
43590839 AGTACTAAAA
Statistics
Matches: 158, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
95 90 0.57
96 1 0.01
97 1 0.01
98 1 0.01
102 65 0.41
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (95 bp):
TATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTATCACT
TGTCACTGATCAGATAAATGTAACTAAAGC
Found at i:43592877 original size:36 final size:36
Alignment explanation
Indices: 43592811--43592879 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
43592801 ATTATTTATC
**
43592811 AAATAAATATCTTTTACATAATGATAATAAATAAGT
1 AAATAAATATCTTTTACATAACAATAATAAATAAGT
43592847 AAATAAATATCTATTTA-ATAAACAAT-ATAAATA
1 AAATAAATATCT-TTTACAT-AACAATAATAAATA
43592880 TTACACTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 21 0.72
37 8 0.28
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (36 bp):
AAATAAATATCTTTTACATAACAATAATAAATAAGT
Found at i:43592983 original size:3 final size:3
Alignment explanation
Indices: 43592956--43593005 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
43592946 AATTTATTTC
* * * *
43592956 ATA AT- ATA ATA ACA ATA GTA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43593002 ATA A
1 ATA A
43593006 AATGTCATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:43596074 original size:46 final size:44
Alignment explanation
Indices: 43595982--43596089 Score: 146
Period size: 46 Copynumber: 2.4 Consensus size: 44
43595972 ATTATAACAT
43595982 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
43596026 CATTCCATTCAACCAAACA-ATTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TAC-TATTACAGCTCTATTC
* * *
43596072 CATTACAGTGAACCAAAC
1 CATTCCATTCAACCAAAC
43596090 GTACCCTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.39
45 3 0.05
46 31 0.54
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.29
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:43605792 original size:16 final size:16
Alignment explanation
Indices: 43605771--43605813 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
43605761 ACAGATCAGT
* *
43605771 TATATACATATATTTA
1 TATATATATATATTCA
*
43605787 TATATATATAAATTCA
1 TATATATATATATTCA
43605803 TATATATATAT
1 TATATATATAT
43605814 TGCAGATCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATATATATATTCA
Found at i:43609391 original size:24 final size:24
Alignment explanation
Indices: 43609356--43609401 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
43609346 ACTGTTGTGC
*
43609356 CTCTAACTACACGAATGGAGCAAT
1 CTCTAACCACACGAATGGAGCAAT
*
43609380 CTCTAACCACACGAATTGAGCA
1 CTCTAACCACACGAATGGAGCA
43609402 TTCTTACGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (24 bp):
CTCTAACCACACGAATGGAGCAAT
Found at i:43610788 original size:9 final size:9
Alignment explanation
Indices: 43610774--43610813 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
43610764 TTTGGTTAAA
*
43610774 AATTAACTG
1 AATTAACCG
43610783 AATTAACCG
1 AATTAACCG
*
43610792 AATTACCCG
1 AATTAACCG
*
43610801 AATTACCCG
1 AATTAACCG
43610810 AATT
1 AATT
43610814 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:43616558 original size:23 final size:23
Alignment explanation
Indices: 43616527--43616601 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 23
43616517 CCCATATTAT
*
43616527 TTTTAATTTTTTTTAAATATTTTA
1 TTTT-ATTTTTTTTAAATTTTTTA
43616551 TTTTATTTTAATATTTAATATTTTTTA
1 TTTTATTTT--T-TTTAA-ATTTTTTA
*
43616578 TTTT-TATTTATTTAAATTTTTTA
1 TTTTAT-TTTTTTTAAATTTTTTA
43616601 T
1 T
43616602 ATAGTCATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
23 14 0.32
24 9 0.20
25 1 0.02
26 6 0.14
27 14 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTATTTTTTTTAAATTTTTTA
Found at i:43616585 original size:20 final size:20
Alignment explanation
Indices: 43616524--43616587 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
43616514 AAGCCCATAT
*
43616524 TATTTTTAATTTTT-TTTAAA
1 TATTTTTTATTTTTATTT-AA
43616544 TATTTTATTTTATTTTAATATTTAA
1 TA--TT-TTTTATTTT--TATTTAA
43616569 TATTTTTTATTTTTATTTA
1 TATTTTTTATTTTTATTTA
43616588 TTTAAATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
20 8 0.22
22 11 0.30
23 10 0.27
25 5 0.14
26 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTTTTATTTTTATTTAA
Found at i:43623061 original size:18 final size:18
Alignment explanation
Indices: 43623027--43623067 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43623017 ACTCTTTAAT
43623027 ATTT-ATATATTTTGTTA
1 ATTTAATATATTTTGTTA
43623044 ATTTAATAT-TTTTAGTTA
1 ATTTAATATATTTT-GTTA
*
43623062 AATTAA
1 ATTTAA
43623068 AAGGAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTAATATATTTTGTTA
Found at i:43624053 original size:2 final size:2
Alignment explanation
Indices: 43624046--43624075 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43624036 ACGGAGATGA
43624046 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
43624076 GCATTTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43626944 original size:399 final size:396
Alignment explanation
Indices: 43626145--43627548 Score: 1608
Period size: 402 Copynumber: 3.5 Consensus size: 396
43626135 GTATAATAAT
* *
43626145 CAATAACATATTTTTTTATAATAACGAAAG--A-AAT--T-ACATATTTTAACCAAAATAAAAAT
1 CAATAACATA--TTTTTATAATAACGAAAGAAACAATAATAACATGTTTTAACC-AAGTAAAAAT
* * * * *
43626204 AACATTAATAATTGTAGCGAACACAGATT-GATTTAAATGTCATTTGATAAATGATCTATAATTA
63 AACATTAATAATGGTAACGAACACGGATTGGA-TTGAGTGTCATTTGATAAATGATCTATAATTA
** * *
43626268 TTATTTTTT-GCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCAAAAGCTTAATATCA
127 CCATTTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCA
* * * * *
43626332 TATCATTGTATTTCTTCATGTAGATGTCAATTATAGTCAACCTCATGTGAGAATAGTATAATCAA
192 TATCATAGTCTTTCTTCATTTAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAA
* *
43626397 AATGTCAAGTTTGTAATTTTTGATGAAAATACTAATAATTTTACTGATTGGGATGTGATTTTTAA
257 AATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTAA
* * *
43626462 ATTAGAAAAGCAAGAGGGCTAATGTTTTAACCATTTAAGTACAGAGTCTAAATTTTAAATCTTAT
322 ATTAGAAAGGCAA-AGGGCTTATGTTTTAACCATTTAAGTACAGAG-CTAAATTTTAAATCGTA-
*
43626527 TCAAAT-ATAATAAC
384 TC--ATGATAATGAC
* * *
43626541 CAATAACATATTTTT-T-ATAACAAAATAAACGAATAATAACATG-CTTAGACCAAGTAAAAATA
1 CAATAACATATTTTTATAATAACGAAAGAAAC-AATAATAACATGTTTTA-ACCAAGTAAAAATA
* *
43626603 ACATTAATAATGGCAACGAACACGGATTGGATTGAGTGTCATTTGATAAATGATCTGTAATTA-C
64 ACATTAATAATGGTAACGAACACGGATTGGATTGAGTGTCATTTGATAAATGATCTATAATTACC
* * * *
43626667 ATTTTTTAGCCATCTATTAAAAGCTAATAGTCATTACTCTGGACTACCATAAGTTTAATACCATA
129 ATTTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCATA
* * * *
43626732 TCATAGTCTTTCTTCATTTACGATGTTAATTATAGTCAATCTCATGTGAAAAAAGTCTAATCAAC
194 TCATAGTCTTTCTTCATTTA-GATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAAA
* *
43626797 ATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGACGGGGTTGTGATTTTTAAA
258 ATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTAAA
* * * *
43626862 TTAGACAGGCGAAAGGGCTTATGTTTTAAACATTTAAGTACGGAGAATAAATTTTAAATCGTATC
323 TTAGAAAGGC-AAAGGGCTTATGTTTTAACCATTTAAGTACAGAG-CTAAATTTTAAATCGTATC
*
43626927 TATGCATAGTGAC
386 -ATG-ATAATGAC
*
43626940 CAATAACATATTTTTTATAATAACGAAAGAAACAACTAATAACATGTTTTAACTAAGTAAAAATA
1 CAATAACATA-TTTTTATAATAACGAAAGAAACAA-TAATAACATGTTTTAACCAAGTAAAAATA
* * * * * * *
43627005 ACATTAATAATGGTAACCAAGACGAATTGGGTTGGGTGTCATTTGATAAATAATCTGTAATTA-C
64 ACATTAATAATGGTAACGAACACGGATTGGATTGAGTGTCATTTGATAAATGATCTATAATTACC
* ** * *
43627069 AATTTTTAGTGATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATAGCATG
129 ATTTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCATA
** *
43627134 TCATAGTCTTTCTTC-TTGTAAGATGTCAATTATAGTCAACCTCATGTGAGAGTAA-TTTAATCA
194 TCATAGTCTTTCTTCATT-T-AGATGTCAATTATAGTCAACCTCATGTGA-AAAAAGTATAATCA
* * * * * * ** *
43627197 ATATGTCAAGTTTGCAAATTTTGATGAAATTGCAAATAATTTTAATGAT-GAAACTGTGATTTTC
256 AAATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGA-TGTGATTTTT
* * * * *
43627261 AAATTAGAAAAGTCATAA-GCCTTAAGTTTTAACCATTTAAGTACAAATGCTAATTTTTAAAT-G
320 AAATTAG-AAAGGCA-AAGGGCTTATGTTTTAACCATTTAAGTACAGA-GCTAAATTTTAAATCG
*
43627324 TTATGCAAGTATAATGAC
382 -TAT-CATG-ATAATGAC
* * * * *
43627342 CAATACCATGTTTTTTATAATAACGAAAGAAATTACA-AATAGCATGTTTTAACCAAATAAAAAT
1 CAATAACAT-ATTTTTATAATAACGAAAGAAA-CA-ATAATAACATGTTTTAACCAAGTAAAAAT
* * * *
43627406 AACATTAATAATGGTACCGACCACGGATTGGGTTGAGTGTTATTTGATAAATGATCTATAATTAC
63 AACATTAATAATGGTAACGAACACGGATTGGATTGAGTGTCATTTGATAAATGATCTATAATTAC
* * *
43627471 CA-TTTTTAGTCACCTATTAAAATCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
128 CATTTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
*
43627535 ATCATAGTCATTCT
193 ATCATAGTCTTTCT
43627549 CCATGTAAGT
Statistics
Matches: 866, Mismatches: 110, Indels: 58
0.84 0.11 0.06
Matches are distributed among these distances:
392 8 0.01
393 1 0.00
394 6 0.01
396 13 0.02
397 9 0.01
398 138 0.16
399 176 0.20
400 7 0.01
401 7 0.01
402 482 0.56
403 18 0.02
404 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (396 bp):
CAATAACATATTTTTATAATAACGAAAGAAACAATAATAACATGTTTTAACCAAGTAAAAATAAC
ATTAATAATGGTAACGAACACGGATTGGATTGAGTGTCATTTGATAAATGATCTATAATTACCAT
TTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCATATC
ATAGTCTTTCTTCATTTAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAAAATG
TCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTAAATTA
GAAAGGCAAAGGGCTTATGTTTTAACCATTTAAGTACAGAGCTAAATTTTAAATCGTATCATGAT
AATGAC
Found at i:43627169 original size:402 final size:397
Alignment explanation
Indices: 43626145--43631530 Score: 3442
Period size: 404 Copynumber: 13.7 Consensus size: 397
43626135 GTATAATAAT
*
43626145 CAATAACATATTTTTTTATAATAACGAAAG--A-AAT--T-ACATATTTTAACCAAAATAAAAAT
1 CAATAACATA-TTTTTTATAATAACGAAAGAAACAATAATAACATGTTTTAACC-AAATAAAAAT
* * * ** * *
43626204 AACATTAATAATTGTAGCGAACAC-AGATTGATTTAAATGTCATTTGATAAATGATCTATAATTA
64 AACATTAATAATGGTAACCAACACGA-ATTGGGTTGAGTGTCATTTGATAAATGATCTATAATTA
** * * *
43626268 TTATTTTTTGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCAAAAGCTTAATATCAT
128 CAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
* * * *
43626333 ATCATTGTATTTCTTCATGT-AGATGTCAATTATAGTCAACCTCATGTGAGAATAGTATAATCAA
193 ATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAA
* *
43626397 AATGTCAAGTTTGTAATTTTTGATGAAAATACTAATAATTTTACTGATTGGGATGTGATTTTTAA
258 AATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTAA
* * *
43626462 ATTAGAAAAGCAAGAGGGCTAATGTTTTAACCATTTAAGTACAGAGTCTAAATTTTAAATCTTAT
323 ATTAGAAAGGCAA-AGGGCTTATGTTTTAACCATTTAAGTACAGAG-CTAAATTTTAAATCGTA-
*
43626527 TCAAAT-ATAATAAC
385 TC--ATGATAATGAC
* * * *
43626541 CAATAACATA-TTTTT-T-ATAACAAAATAAACGAATAATAACATG-CTTAGACCAAGTAAAAAT
1 CAATAACATATTTTTTATAATAACGAAAGAAAC-AATAATAACATGTTTTA-ACCAAATAAAAAT
* * * * *
43626602 AACATTAATAATGGCAACGAACACGGATTGGATTGAGTGTCATTTGATAAATGATCTGTAATTAC
64 AACATTAATAATGGTAACCAACACGAATTGGGTTGAGTGTCATTTGATAAATGATCTATAATTAC
* * * * *
43626667 ATTTTTTAGCCATCTATTAAAAGCTAATAGTCATTACTCTGGACTACCATAAGTTTAATACCATA
129 AATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCATA
* * * * * *
43626732 TCATAGTCTTTCTTCATTTACGATGTTAATTATAGTCAATCTCATGTGAAAAAAGTCTAATCAAC
194 TCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAAA
* *
43626797 ATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGACGGGGTTGTGATTTTTAAA
259 ATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTAAA
* * * *
43626862 TTAGACAGGCGAAAGGGCTTATGTTTTAAACATTTAAGTACGGAGAATAAATTTTAAATCGTATC
324 TTAGAAAGGC-AAAGGGCTTATGTTTTAACCATTTAAGTACAGAG-CTAAATTTTAAATCGTATC
*
43626927 TATGCATAGTGAC
387 -ATG-ATAATGAC
* *
43626940 CAATAACATATTTTTTATAATAACGAAAGAAACAACTAATAACATGTTTTAACTAAGTAAAAATA
1 CAATAACATATTTTTTATAATAACGAAAGAAACAA-TAATAACATGTTTTAACCAAATAAAAATA
* * * *
43627005 ACATTAATAATGGTAACCAAGACGAATTGGGTTGGGTGTCATTTGATAAATAATCTGTAATTACA
65 ACATTAATAATGGTAACCAACACGAATTGGGTTGAGTGTCATTTGATAAATGATCTATAATTACA
** * *
43627070 ATTTTTAGTGATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATAGCATGT
130 ATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCATAT
* ** * *
43627135 CATAGTCTTTCTTCTTGTAAGATGTCAATTATAGTCAACCTCATGTGAGAGTAA-TTTAATCAAT
195 CATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGA-AAAAAGTATAATCAAA
* * * * * ** *
43627199 ATGTCAAGTTTGCAAATTTTGATGAAATTGCAAATAATTTTAATGAT-GAAACTGTGATTTTCAA
259 ATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGA-TGTGATTTTTAA
* * * * *
43627263 ATTAGAAAAGTCATAA-GCCTTAAGTTTTAACCATTTAAGTACAAATGCTAATTTTTAAAT-GTT
323 ATTAG-AAAGGCA-AAGGGCTTATGTTTTAACCATTTAAGTACAGA-GCTAAATTTTAAATCG-T
*
43627326 ATGCAAGTATAATGAC
384 AT-CATG-ATAATGAC
* * * *
43627342 CAATACCATGTTTTTTATAATAACGAAAGAAATTACA-AATAGCATGTTTTAACCAAATAAAAAT
1 CAATAACATATTTTTTATAATAACGAAAGAAA-CA-ATAATAACATGTTTTAACCAAATAAAAAT
* * *
43627406 AACATTAATAATGGT-ACCGACCACGGATTGGGTTGAGTGTTATTTGATAAATGATCTATAATTA
64 AACATTAATAATGGTAACC-AACACGAATTGGGTTGAGTGTCATTTGATAAATGATCTATAATTA
* * * *
43627470 CCATTTTTAGTCACCTATTAAAATCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
128 CAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
* * * * * * * ** **
43627535 ATCATAGTCATTCTCCATGTAAGTTTGTAAATT-TTGATGAA----A-AT--ACTAAGTATTTTC
193 ATCATAGTCTTTCTTCATGTAAG-ATGTCAATTATAG-TCAACCTCATGTGAAAAAAGTATAATC
*** * ** * * * * *
43627592 CTGATG---GGGCTGT-GATTTT--T-AAATTA-GAA-AA----GC-GA-GAGGGCT-T-ATGTT
256 AAAATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATG-GGGATGTGAT-TT
* * * * * ** * * * * * *
43627640 TTAACCATT--TAA-GTATAGAGACTAAAATTTAAATCTTATCTAATTATA-ATGAC-CAA---T
319 TTAA--ATTAGAAAGGCAAAG-GGCTTATGTTTTAA-C-CATTTAAGTACAGA-G-CTAAATTTT
* ** ** * *
43627697 AATATAGT-TTTTTTTTAT-AA
377 AA-ATCGTATCATGATAATGAC
* * ** * * * * * *
43627717 TAATAA-A-A-----GA-AACGAC-AAA-TAACATGTATTAACAAAG---TAA-AAATA-G----
1 CAATAACATATTTTTTATAATAACGAAAGAAACA-ATAATAAC-ATGTTTTAACCAA-ATAAAAA
* * * * *
43627763 ---CATTAATAATGGTAGA-GAACAC-ATATAGAGTTGAGTGTCATTTGATAAATGATTTGTAAT
63 TAACATTAATAATGGTA-ACCAACACGA-ATTGGGTTGAGTGTCATTTGATAAATGATCTATAAT
* * * * *
43627823 TACAATTTTTAGCAATCTATTAAAAACTAATAGTCATTACTCTAGACTACCACAAGGTGAATATC
126 TACAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATC
* * * *
43627888 ATATCATAGACTTTCTT-A---CAGAT-TCAATTATAGTCAACCTCATGTGAGAGAAGTCTAATT
191 ATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAG--T-A-T
* * * * *
43627948 AATTAACATGTCAAGTATGTAAATCTTGATGAAAATA-TCAATAATTTTACTCATGGGGCA-GTG
252 AATCAAAATGTCAAGTTTGTAAATTTTGATGAAAATACT-AATAATTTTACTGATGGGG-ATGTG
* * * * * * * * *
43628011 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCGTTTAAGTATATAGATTAAAATTTA
315 ATTTTTAAATTAGAAAGGC-AAAGGGCTTATGTTTTAACCATTTAAGTACAGAG-CTAAATTTTA
** * * *
43628076 AATTTTATCTAAGTATAAGGGC
378 AATCGTATC-ATG-ATAATGAC
* * ** * *
43628098 CAATAAGATATTTTTTATAATAGCGAAAGAAACGGCTAAAAACATGTTTTAGCCAAATAAAAATA
1 CAATAACATATTTTTTATAATAACGAAAGAAAC-AATAATAACATGTTTTAACCAAATAAAAATA
* ** * *
43628163 ACATTAATAATGGTATCCAATGCGGATTGGGTTGAGTGTCATTTGATAAATGAAT-TGTAATTAC
65 ACATTAATAATGGTAACCAACACGAATTGGGTTGAGTGTCATTTGATAAATG-ATCTATAATTAC
* * * ** * * * *
43628227 CATTTCTAGTCATCTATTAAAAGCTAATAACCCTTACTCTAGACTACCATAAGGCTAATAGCAAA
129 AATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCATA
* * * * ** * *
43628292 TCATAGTCTTTATTCATGTAAGATGTTAATTATAATCAACCTCATGTGAGAGTAGTCTAATCAAC
194 TCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAAA
* * * * * * *
43628357 ATATTAAGTTT-TCAAATTTTGATGAAAATATTAATAATTTTAGTGAT-GAGACTATGATTTTTT
259 ATGTCAAGTTTGT-AAATTTTGATGAAAATACTAATAATTTTACTGATGGGGA-TGTGATTTTTA
* * * * *
43628420 AATTGGAATAGTG-ATATGGCTTAAG---T-----TTTAA--A-A-A-CTAAATTTTAAATCTTA
322 AATTAGAA-AG-GCAAAGGGCTTATGTTTTAACCATTTAAGTACAGAGCTAAATTTTAAATCGTA
*
43628471 TCTAAGTATAATGAC
385 TC-ATG-ATAATGAC
* * **
43628486 CAATAACA-ATTTTTTTAGAATAACGAAAGAAATTCCA-AATCGCATGTTTTAACCAAATAAAAA
1 CAATAACATA-TTTTTTATAATAACGAAAGAAA--CAATAATAACATGTTTTAACCAAATAAAAA
* * * * *
43628549 TAACATTAATAATGGTATCGAACACGGATTGGTTTGAGTGTCATTTGATAAATGATCTATAACTA
63 TAACATTAATAATGGTAACCAACACGAATTGGGTTGAGTGTCATTTGATAAATGATCTATAATTA
* * * * * *
43628614 CCATTTTTTGTCATCTATTAAAAGCTAATAGTCGTTACTTTAGACTACCATAAGGTTAATACCAC
128 CAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
* * * ** ** ** *
43628679 ATCATCGTCTTTCATCATGTAATATGTCAATTATAGTCAAAGTCATGTGTGAGTAGTCTAAT-AA
193 ATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAA
* * * * * * * *
43628743 CATGTCAAGTTTTTAAAATTTAATGAAAATGCTAATAATTTTACTCATGGGCATATG--TTTTAG
258 AATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTA-
* ** * * * * *
43628806 CCATT--TTA-GTATA-----TA-G-ATTAA--ATTT---TA-A-ATCT-TA-TTT-AA--G---
322 -AATTAGAAAGGCAAAGGGCTTATGTTTTAACCATTTAAGTACAGAGCTAAATTTTAAATCGTAT
**
43628846 --T-ATAAGCAC
386 CATGATAATGAC
* * * * *
43628855 CAATAACACATTTTTTTATAATAACAAAAGAAACGACTAATAATATGTTTTAACCAAGTAAAAAT
1 CAATAACATA-TTTTTTATAATAACGAAAGAAAC-AATAATAACATGTTTTAACCAAATAAAAAT
* * * *
43628920 AACATTAATAATGGTAGCGAACAC-AATTTGGGTTGAGTGTCATTTGATAAATGATATGTAATTA
64 AACATTAATAATGGTAACCAACACGAA-TTGGGTTGAGTGTCATTTGATAAATGATCTATAATTA
* * * * * * *
43628984 CCATTTTTAGCCATCTACTAAAAGCTAATAGTTGTTACTCTAGATTACCATAACGTTAACAACAT
128 CAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
* * * * ** *
43629049 ATCATGGTTTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCACGTGAGAGTAGTCTAAT-AA
193 ATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAA
* * * * * **
43629113 ACATGTCAAGTTTTTATATCTTGATGAAAATACCAATAATTTT--T-A-----A----A-CTAGA
258 A-ATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTA
** * ** ** * * * * *
43629165 AA--AGCGA-G--AA-GCCTTATGTTTTAGCCATTTAAGTA-TATATA-CTAAAATTTAAATCTT
322 AATTAGAAAGGCAAAGGGCTTATGTTTT-AACCATTTA--AGTACAGAGCTAAATTTTAAATCGT
*
43629222 ATCTAAG-TATATGAAC
384 ATC-ATGATA-ATG-AC
* * **
43629238 CAATAACATTTTTTTTTATAATAACGAAAGAAAAAAATAATAGTATGTTTTAACCAAATAAAAAT
1 CAATAACA-TATTTTTTATAATAACGAAAG-AAACAATAATAACATGTTTTAACCAAATAAAAAT
* ** * * *
43629303 AACATCAATAATGGTAACCAACGTGGATTGGGTTGAGTGTCATTTGAGAAATGATCTGTAATTAT
64 AACATTAATAATGGTAACCAACACGAATTGGGTTGAGTGTCATTTGATAAATGATCTATAATTA-
* * * * *
43629368 C-ATTTTAAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACAATAATGTTAATATTAT
128 CAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
* * ** ** *
43629432 ATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAA
193 ATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAA
* * * * *
43629497 CATGTCAAGTTTGAAAATTTTGATGAAAATACCAATAGTTTTACTCAT-GGGATGTGATTTTTAA
258 AATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTAA
** * * * * * **
43629561 ACGAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTTTATAGA-CTAGATTTTAAATATTA
323 ATTAGAAAGGC-AAAGGGCTTATGTTTTAACCATTTAAG--TACAGAGCTAAATTTTAAATCGTA
* *
43629625 TCTAAGTATAAAGAC
385 TC-ATG-ATAATGAC
* *
43629640 CAATAACATATATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAAA
1 CAATAAC--ATAT-TTTTTATAATAACGAAAGAAACAA-TAATAACATGTTTTAACCAAATAAAA
* * * * * * * * *
43629705 ATAACATCACTAACGGTAGCCAACGCGTAA-TGGGTTGAGTGTCATTTGTTAAATGATTTGTAAA
62 ATAACATTAATAATGGTAACCAACACG-AATTGGGTTGAGTGTCATTTGATAAATGATCTATAAT
* * * * *
43629769 TACCATTTTTAGCCATCTATTAAAAGTTAATAGTCGTTACTCTTGACAATCATAAGGTTAATATC
126 TACAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATC
* * * ** *
43629834 ATATCAGAGTCTTTCTTCATGTAAGATGTCAATTATAGTCATA-CTCACGTGAGAGTAGTCTAAT
191 ATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCA-ACCTCATGTGAAAAAAGTATAAT
* * * * * * * *
43629898 TAACATGTCAAGTTTGTAAATCTCGATGAAAATACCAATAATTTTACTCATGGGGCTATGATTTT
255 CAAAATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTT
* * * * * * * * * *
43629963 TAAACTACAAAAGGGAGAGAGATTATGTTTTAGCCATTTAAGTATATAGAATAAATTTTAAATCG
320 TAAATTA-GAAAGGCAAAGGGCTTATGTTTTAACCATTTAAGTACAGAG-CTAAATTTTAAATCG
* *
43630028 TATCTAAGTATAACGAC
383 TATC-ATG-ATAATGAC
*
43630045 CAATAACATAATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAACCAAATAAAAA
1 CAATAACAT-A-TTTTTTATAATAACGAAAGAAACAA-TAATAACATGTTTTAACCAAATAAAAA
* * * * * * *
43630110 GAAAATCAATAATGGTAGCCAACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTA
63 TAACATTAATAATGGTAACCAACACGAATTGGGTTGAGTGTCATTTGATAAATGATCTATAATTA
* * * * * *
43630175 CCATTTTTAGCCATCTATTAAAAGCTACTAGCCATTACTCTTGACTACCATAAGGTTAATATTAT
128 CAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCAT
** *
43630240 ATCATAGTCTTTC-TCTATGTAAGATGTCAATTATAGTCAACCTCATGTGAGAGTAGGCTA-AAT
193 ATCATAGTCTTTCTTC-ATGTAAGATGTCAATTATAGTCAACCTCATGTGA-AAAAAG-TATAAT
* * * * * * *
43630303 -AACATGTCAAGTTAGTAAATATTGATGAAAATACCAATAATTTTACTAATAGGGCTGTGATTTT
255 CAAAATGTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTT
* * * ** **
43630367 TAAGTGAGAAAAGTG-AAAGGGCTTATG-CTTAAGCTGTTTAAGTTTATTGA-CTAAATTTTAAA
320 TAAATTAG-AAAG-GCAAAGGGCTTATGTTTTAA-CCATTTAAG--TACAGAGCTAAATTTTAAA
** * * *
43630429 TATTATCTAAGTACAAAGAC
380 TCGTATC-ATG-ATAATGAC
* * * * *
43630449 GAATGCCATATATTTTTTATAATAACGAAAGAAACAACTAATATCATGGTTTAACCAAATAAAAA
1 CAAT--AACATATTTTTTATAATAACGAAAGAAACAA-TAATAACATGTTTTAACCAAATAAAAA
* ** * * * *
43630514 TAA-AGTGAATAATGGTAGTCAACGCTG-ATTGGGTTGAGTGTCATTTGTTAAATGATTTGTAAT
63 TAACA-TTAATAATGGTAACCAACAC-GAATTGGGTTGAGTGTCATTTGATAAATGATCTATAAT
* * * * * *
43630577 TACCATTTCTAGCCATTTATTAAAAGCTAAAAGCCGTTACTCTAGACTACCAAAAGGTTAATATC
126 TACAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATC
*
43630642 ATATCATAGTCTTTCTTCATGTAAGATG-CAAATTATAGTCAACCTC---------AAGTCTAAT
191 ATATCATAGTCTTTCTTCATGTAAGATGTC-AATTATAGTCAACCTCATGTGAAAAAAGTATAAT
* * * *
43630697 TAACATGTCAAGTTTGTAAATTTTGATAAAAAATACTAATAATTTTACTGAT-GAGACTGTGATT
255 CAAAATGTCAAGTTTGTAAATTTTGAT-GAAAATACTAATAATTTTACTGATGGGGA-TGTGATT
* * *
43630761 TTTAAATTAGAAAAGCGAGAGGGCTTATGTTTTAACCATTTAAGTTTATAGA-CTAAATTTTAAA
318 TTTAAATTAGAAAGGC-AAAGGGCTTATGTTTTAACCATTTAAG--TACAGAGCTAAATTTTAAA
* * *
43630825 TCGTATCTAAGTATAAGGAT
380 TCGTATC-ATG-ATAATGAC
* * * * * *
43630845 CAATTAGATGTTTTTTATAATAACGAAAGGAACAAACTAA-AACATGTTTTAACTAAAAACAAAA
1 CAATAACATATTTTTTATAATAACGAAAGAAAC-AA-TAATAACATGTTTTAAC--CAAATAAAA
* * * * * *
43630909 ATAATATCAATAATGGTATCCAA-A-GCAGATTGGGTTGAGTGTCATTTGTTGAATGATCTGTAA
62 ATAACATTAATAATGGTAACCAACACG-A-ATTGGGTTGAGTGTCATTTGATAAATGATCTATAA
* *
43630972 TTATC-ATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCACAAGGTTAATA
125 TTA-CAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATA
* * * * * * *** *
43631036 TGATATTATAGTCTTTCTTCATGTAAGATGTCTATTATAGTCAACTTCGTGTGAGAGTTGTCTAA
189 TCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAA
* ** * ** * *
43631101 TTAACTTGTCAAGCTTGTAAATCATGATGAAAATA-TCAATAATTTTACTCAT-GGGACTGTG-G
254 TCAAAATGTCAAGTTTGTAAATTTTGATGAAAATACT-AATAATTTTACTGATGGGGA-TGTGAT
* * * * * * * *
43631163 TTTTGAACTAGAAAAGAG-AGAGGGCTTATG-TTTAAGCCATTTATGTATATAGATTAGATTTTA
317 TTTTAAATTAG-AAAG-GCAAAGGGCTTATGTTTTAA-CCATTTAAGTACAGAG-CTAAATTTTA
* *
43631226 AATCTTATC-TAAGTATATGGAC
378 AATCGTATCATGA-TA-AT-GAC
* * * * * **
43631248 TAATAACATTTTTTTTTCTAATAACAAAAGAAACAACTAATAGCATGTTTTAACCCCGA-AAAAA
1 CAATAACA-TATTTTTTATAATAACGAAAGAAACAA-TAATAACATGTTTTAA-CCAAATAAAAA
* * * ** * * * * *
43631312 TAATATCAATAATGGTAGCCAACGTTG-ATTAGGTTAAATGTCATTTGATAAATGATCTGTAATA
63 TAACATTAATAATGGTAACCAAC-ACGAATTGGGTTGAGTGTCATTTGATAAATGATCTATAATT
* * * * *
43631376 ACCATTTTTAGCAATTTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCA
127 ACAATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCA
* * * * * ** * *
43631441 TATCACAGTATTTGTTCATGTAAGATGTCAATTATAGTCAACCTCGTGTGAGAGTAGTCTAATTA
192 TATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCA
* *
43631506 ACATGTCAAGTTTTTAAATTTTGAT
257 AAATGTCAAGTTTGTAAATTTTGAT
43631531 TAAATTAGTA
Statistics
Matches: 4021, Mismatches: 688, Indels: 556
0.76 0.13 0.11
Matches are distributed among these distances:
349 8 0.00
350 3 0.00
351 2 0.00
353 1 0.00
354 2 0.00
355 119 0.03
356 4 0.00
357 1 0.00
358 4 0.00
359 1 0.00
360 9 0.00
361 1 0.00
362 4 0.00
363 9 0.00
364 5 0.00
365 8 0.00
366 6 0.00
367 9 0.00
368 5 0.00
369 20 0.00
370 215 0.05
371 37 0.01
372 3 0.00
373 5 0.00
374 15 0.00
375 19 0.00
376 14 0.00
377 7 0.00
378 11 0.00
379 7 0.00
380 20 0.00
381 22 0.01
382 20 0.00
383 263 0.07
384 8 0.00
385 5 0.00
386 1 0.00
387 52 0.01
388 247 0.06
389 8 0.00
390 9 0.00
391 9 0.00
392 14 0.00
393 9 0.00
394 56 0.01
395 43 0.01
396 269 0.07
397 12 0.00
398 144 0.04
399 177 0.04
400 9 0.00
401 139 0.03
402 808 0.20
403 113 0.03
404 846 0.21
405 125 0.03
406 39 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (397 bp):
CAATAACATATTTTTTATAATAACGAAAGAAACAATAATAACATGTTTTAACCAAATAAAAATAA
CATTAATAATGGTAACCAACACGAATTGGGTTGAGTGTCATTTGATAAATGATCTATAATTACAA
TTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACTCTAGACTACCATAAGGTTAATATCATATC
ATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCATGTGAAAAAAGTATAATCAAAAT
GTCAAGTTTGTAAATTTTGATGAAAATACTAATAATTTTACTGATGGGGATGTGATTTTTAAATT
AGAAAGGCAAAGGGCTTATGTTTTAACCATTTAAGTACAGAGCTAAATTTTAAATCGTATCATGA
TAATGAC
Found at i:43627855 original size:355 final size:351
Alignment explanation
Indices: 43627250--43627896 Score: 854
Period size: 355 Copynumber: 1.8 Consensus size: 351
43627240 AATGATGAAA
* *
43627250 CTGTGATTTTCAAATTAGAAAAGTCATAAGCCTTAAGTTTTAACCATTTAAGTACAAATGCTAAT
1 CTGTGATTTTCAAATTAGAAAAGTCAGAAGCCTTAAGTTTTAACCATTTAAGTACAAATGCTAAA
* * * * **
43627315 TTTTAAATGTTATGCAAGTATAATGACCAATACCATGTTTTTTATAATAACGAAAGAAATTACAA
66 ATTTAAATCTTATGCAAGTATAATGACCAATAACATGTTTTTTATAATAACAAAAGAAACGACAA
* * * * * * *
43627380 ATAGCATGTTTTAACCAAATAAAAATAACATTAATAATGGTACCGACCACGGATTGGGTTGAGTG
131 ATAACATGTATTAACCAAATAAAAATAACATTAATAATGGTACAGAACACAGATAGAGTTGAGTG
* * * *
43627445 TTATTTGATAAATGATCTATAATTACCATTTTTAGTCACCTATTAAAATCTAATAGTCGTTACTC
196 TCATTTGATAAATGATCTATAATTACAATTTTTAGTCACCTATTAAAAACTAATAGTCATTACTC
* *
43627510 TAGACTACCATAAGGTTAATATCATATCATAGTCATTCTCCATGTAAGTTTGTAAATTTTGATGA
261 TAGACTACCACAAGGTGAATATCATATCATAGTCATTCTCCATGTAAGTTTGTAAATTTTGATGA
43627575 AAATACTAAGTATTTTCCTGATGGGG
326 AAATACTAAGTATTTTCCTGATGGGG
* * * * * *
43627601 CTGTGATTTTTAAATTAGAAAAG-CGAGAGGGCTTATGTTTTAACCATTTAAGTATAGA-GACTA
1 CTGTGATTTTCAAATTAGAAAAGTC-AGAAGCCTTAAGTTTTAACCATTTAAGTACAAATG-CTA
* * *
43627664 AAATTTAAATCTTAT-CTAATTATAATGACCAATAATATAGTTTTTTTTTATAATAATAAAAGAA
64 AAATTTAAATCTTATGC-AAGTATAATGACCAATAACAT-G---TTTTTTATAATAACAAAAGAA
* * *
43627728 ACGACAAATAACATGTATTAA-CAAAGTAAAAATAGCATTAATAATGGTAGAGAACACATATAGA
124 ACGACAAATAACATGTATTAACCAAA-TAAAAATAACATTAATAATGGTACAGAACACAGATAGA
* * *
43627792 GTTGAGTGTCATTTGATAAATGATTTGTAATTACAATTTTTAG-CAATCTATTAAAAACTAATAG
188 GTTGAGTGTCATTTGATAAATGATCTATAATTACAATTTTTAGTC-ACCTATTAAAAACTAATAG
43627856 TCATTACTCTAGACTACCACAAGGTGAATATCATATCATAG
252 TCATTACTCTAGACTACCACAAGGTGAATATCATATCATAG
43627897 ACTTTCTTAC
Statistics
Matches: 251, Mismatches: 36, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
350 3 0.01
351 82 0.33
352 1 0.00
354 5 0.02
355 160 0.64
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (351 bp):
CTGTGATTTTCAAATTAGAAAAGTCAGAAGCCTTAAGTTTTAACCATTTAAGTACAAATGCTAAA
ATTTAAATCTTATGCAAGTATAATGACCAATAACATGTTTTTTATAATAACAAAAGAAACGACAA
ATAACATGTATTAACCAAATAAAAATAACATTAATAATGGTACAGAACACAGATAGAGTTGAGTG
TCATTTGATAAATGATCTATAATTACAATTTTTAGTCACCTATTAAAAACTAATAGTCATTACTC
TAGACTACCACAAGGTGAATATCATATCATAGTCATTCTCCATGTAAGTTTGTAAATTTTGATGA
AAATACTAAGTATTTTCCTGATGGGG
Found at i:43631113 original size:800 final size:799
Alignment explanation
Indices: 43628791--43633858 Score: 4318
Period size: 808 Copynumber: 6.3 Consensus size: 799
43628781 TTTTACTCAT
* * * * * *
43628791 GGGCATATGTTTTAGCCATTTTAGTATATAGATTAAATTTTAAATCTTATTTAAGTAT-AAGCAC
1 GGGCTTATGTTTAAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGTATAAAG-AC
* * * ** *
43628855 CAATAACACAT-T-TTTTTATAATAACAAAAGAAACGACTAATAATATGTTTTAACCAAGTAAAA
65 CAATAACATATATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAAA
* * * * * *
43628918 ATAACATTAATAATGGTAGCGAACAC-AATTTGGGTTGAGTGTCATTTGATAAATGATATGTAAT
130 ATAATATCAATAATGGTAGCCAACGCTGA-TTGGGTTGAGTGTCATTTGATAAATGATCTGTAAT
* ** * * * *
43628982 TACCATTTTTAGCCATCTACTAAAAGCTAATAGTTGTTACTCTAGATTACCATAACGTTAACAAC
194 TACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAAGGTTAATATC
* * * * *
43629047 ATATCATGGTTTTTCTTCATGTAAGATGTCAATTATAGTCAACCTCACGTGAGAGTAGTCTAATA
259 ATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAA-C-CACAT--CAG-AGTCTAATT
* * *
43629112 AACATGTCAAGTTTTTATATCTTGATGAAAATAC-----------C-----A-A---TAATTTTT
319 AACATGTCAAGTTTGTAAAT-TTGATGAAAATACTAATAATTTTACTGATGAGACTGTGATTTTT
* * * *
43629157 AAACTAGAAAAGCGAGAAGCCTTATGTTTTAGCCATTTAAGTATATATACTAAAATTTAAATCTT
383 AAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCTT
* * * * **
43629222 ATCTAAGTATATGAACCAATAACATTTTTTTTTATAATAACGAAAGAAAAAAATAATAGTATGTT
448 ATCTAAGTATAAGGACCAATAACA-TTTTTTTTATAATAACGAAAGAAACAACTAATAACATGTT
* * * ** *
43629287 TTAACCAAATAAAAATAACATCAATAATGGTAACCAACGTGGATTGGGTTGAGTGTCATTTGAGA
512 TTAACAAAATAAAAATAACATCAATAATGGTATCCAAAGCAGATTGGGTTGAGTGTCATTTGATA
* *
43629352 AATGATCTGTAATTATCATTTTAAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACAA
577 AATGATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCA
* *
43629417 TAATGTTAATATTATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAA-TCTCATGTG
642 TAAGGTTAATATGATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACT-TCATGTG
* * *
43629481 AGAGTAGGCTAATTAACATGTCAAGTTTGAAAATTTTGATGAAAATACCAATAGTTTTACTCATG
706 AGAGTAGGCTAATTAACATGTCAAGTTTGTAAATATTGATGAAAATACCAATAATTTTACTCATG
* * *
43629546 GGATGTGATTTTTAAACGAGAAAAGCGAGA
771 GGCTGTGATTTTT-AACTAGAAAAGTGAGA
* * *
43629576 GGGCTTATGTTTTAGCCATTTAAGTTTATAGACTAGATTTTAAATATTATCTAAGTATAAAGACC
1 GGGCTTATGTTTAAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGTATAAAGACC
43629641 AATAACATATATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAAAA
66 AATAACATATATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAAAA
* * * * * * *
43629706 TAACATCACTAACGGTAGCCAACGC-GTAATGGGTTGAGTGTCATTTGTTAAATGATTTGTAAAT
131 TAATATCAATAATGGTAGCCAACGCTG-ATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATT
* * * * *
43629770 ACCATTTTTAGCCATCTATTAAAAGTTAATAGTCGTTACTCTTGACAATCATAAGGTTAATATCA
195 ACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAAGGTTAATATCA
* * *
43629835 TATCAGAGTCTTTCTTCATGTAAGATGTCAATTATAGTCATACTCACGTGAGAGTAGTCTAATTA
260 TATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCA-AC-CACAT--CAG-AGTCTAATTA
* * * * * *
43629900 ACATGTCAAGTTTGTAAATCTCGATGAAAATACCAATAATTTTACTCATGGGGCTATGATTTTTA
320 ACATGTCAAGTTTGTAAAT-TTGATGAAAATACTAATAATTTTACTGATGAGACTGTGATTTTTA
* * * * * *
43629965 AACTACAAAAGGGAGAGAGATTATGTTTTAGCCATTTAAGTATATAGAATAAATTTTAAATCGTA
384 AACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCTTA
* *
43630030 TCTAAGTATAACGACCAATAACATAATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTT
449 TCTAAGTATAAGGACCAATAACAT--TTTTTTTATAATAACGAAAGAAACAACTAATAACATGTT
* * * * * *
43630095 TTAACCAAATAAAAAGAAAATCAATAATGGTAGCCAACGCGGATTGGGTTGAGTGTCATTTGATA
512 TTAACAAAATAAAAATAACATCAATAATGGTATCCAAAGCAGATTGGGTTGAGTGTCATTTGATA
* * * *
43630160 AATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTACTAGCCATTACTCTTGACTACCA
577 AATGATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCA
* *
43630225 TAAGGTTAATATTATATCATAGTCTTTC-TCTATGTAAGATGTCAATTATAGTCAACCTCATGTG
642 TAAGGTTAATATGATATCATAGTCTTTCTTC-ATGTAAGATGTCAATTATAGTCAACTTCATGTG
* * *
43630289 AGAGTAGGCTAAATAACATGTCAAGTTAGTAAATATTGATGAAAATACCAATAATTTTACTAATA
706 AGAGTAGGCTAATTAACATGTCAAGTTTGTAAATATTGATGAAAATACCAATAATTTTACTCAT-
* *
43630354 GGGCTGTGATTTTTAAGTGAGAAAAGTGAAA
770 GGGCTGTGATTTTTAACT-AGAAAAGTGAGA
* ** * * * *
43630385 GGGCTTATGCTTAAGCTGTTTAAGTTTATTGACTAAATTTTAAATATTATCTAAGTACAAAGACG
1 GGGCTTATGTTTAAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGTATAAAGACC
** * * *
43630450 AATGCCATATAT-TTTTTATAATAACGAAAGAAACAACTAATATCATGGTTTAACCAAATAAAAA
66 AATAACATATATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAAAA
* * * *
43630514 TAA-AGTGAATAATGGTAGTCAACGCTGATTGGGTTGAGTGTCATTTGTTAAATGATTTGTAATT
131 TAATA-TCAATAATGGTAGCCAACGCTGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATT
* * * *
43630578 ACCATTTCTAGCCATTTATTAAAAGCTAAAAGCCGTTACTCTAGACTACCAAAAGGTTAATATCA
195 ACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAAGGTTAATATCA
43630643 TATCATAGTCTTTCTTCATGTAAGATG-CAAATTATAGTCAA-C-C-TCA-AGTCTAATTAACAT
260 TATCATAGTCTTTCTTCATGTAAGATGTC-AATTATAGTCAACCACATCAGAGTCTAATTAACAT
* *
43630703 GTCAAGTTTGTAAATTTTGATAAAAAATACTAATAATTTTACTGATGAGACTGTGATTTTTAAAT
324 GTCAAGTTTGTAAA-TTTGAT-GAAAATACTAATAATTTTACTGATGAGACTGTGATTTTTAAAC
* * *
43630768 TAGAAAAGCGAGAGGGCTTATGTTTTAACCATTTAAGTTTATAGACTAAATTTTAAATCGTATCT
387 TAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCTTATCT
* * * * *
43630833 AAGTATAAGGATCAATTAGATGTTTTTTATAATAACGAAAGGAACAAACTAA-AACATGTTTTAA
452 AAGTATAAGGACCAATAACATTTTTTTTATAATAACGAAAGAAAC-AACTAATAACATGTTTTAA
* * * *
43630897 CTAAAAACAAAAATAATATCAATAATGGTATCCAAAGCAGATTGGGTTGAGTGTCATTTGTTGAA
516 C--AAAATAAAAATAACATCAATAATGGTATCCAAAGCAGATTGGGTTGAGTGTCATTTGATAAA
*
43630962 TGATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCACA
579 TGATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATA
* * *
43631027 AGGTTAATATGATATTATAGTCTTTCTTCATGTAAGATGTCTATTATAGTCAACTTCGTGTGAGA
644 AGGTTAATATGATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACTTCATGTGAGA
* * * * *
43631092 GTTGTCTAATTAACTTGTCAAGCTTGTAAATCA-TGATGAAAATATCAATAATTTTACTCATGGG
709 GTAGGCTAATTAACATGTCAAGTTTGTAAAT-ATTGATGAAAATACCAATAATTTTACTCATGGG
* * *
43631156 ACTGTGGTTTTGAACTAGAAAAGAGAGA
773 -CTGTGATTTTTAACTAGAAAAGTGAGA
* * * * ** *
43631184 GGGCTTATGTTTAAGCCATTTATGTATATAGATTAGATTTTAAATCTTATCTAAGTATATGGACT
1 GGGCTTATGTTTAAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGTATAAAGACC
* * * **
43631249 AATAACAT-T-TTTTTTTCTAATAACAAAAGAAACAACTAATAGCATGTTTTAACCCCGA-AAAA
66 AATAACATATATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAA-CCAAATAAAA
* * * * *
43631311 ATAATATCAATAATGGTAGCCAACGTTGATTAGGTTAAATGTCATTTGATAAATGATCTGTAATA
130 ATAATATCAATAATGGTAGCCAACGCTGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATT
* * *
43631376 ACCATTTTTAGCAATTTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCA
195 ACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAAGGTTAATATCA
* * * * * *
43631441 TATCACAGTATTTGTTCATGTAAGATGTCAATTATAGTCAACCTCGTGTGAGAGTAGTCTAATTA
260 TATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCAC--AT--CAG-AGTCTAATTA
*
43631506 ACATGTCAAGTTTTTAAATTT--TG-----A-T--TAA----A-T--T---A----G-----T-A
320 ACATGTCAAGTTTGTAAATTTGATGAAAATACTAATAATTTTACTGATGAGACTGTGATTTTTAA
* * * * **
43631541 A--AG--TA---AGAGGCCTTATGTTTTAACCATTTAAATATGGAGACTAAATTTTAAATCTTAT
385 ACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCTTAT
* ** *
43631599 CTAAGTATAATGACCAATGCCATTTTTTTTTATAATAACGAAAGAAACAACTAATAGCATGTTTT
450 CTAAGTATAAGGACCAATAACA-TTTTTTTTATAATAACGAAAGAAACAACTAATAACATGTTTT
* * * * * **
43631664 AACCAAGTAAAAAGAACATTAATAAT-GTCAT-CAAACACAGATTGAATTGAGTGTCATTTGATA
514 AACAAAATAAAAATAACATCAATAATGGT-ATCCAAA-GCAGATTGGGTTGAGTGTCATTTGATA
* * * * * *
43631727 AATGATCTGTAATTATCATTTTTAACCATTTATTAAAAGCTTATAGACGTTGCTCTAGACTATCA
577 AATGATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCA
* * *
43631792 TAAGGATAA-AAGTATATCATAATCTTTCTTCATGTAAGATGTCAATTATAGTCAAAC-TCATGT
642 TAAGGTTAATATG-ATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTC-AACTTCATGT
** * * * *
43631855 GAGAGTATTCTAATTAACAAGTCAAGTTTGTAAATCTTGATGAAAATACTAATAATTTTACTGAC
705 GAGAGTAGGCTAATTAACATGTCAAGTTTGTAAATATTGATGAAAATACCAATAATTTTACTCA-
* *
43631920 GGGGCTGTGATTTTTAAACTACAAAAGTGAGA
769 TGGGCTGTGATTTTT-AACTAGAAAAGTGAGA
*
43631952 GGGCTTATGTTTTAGCCATTTAAGTATATAGAC-ATAATTTTAAATATTATCTAAGTATAAAGAC
1 GGGCTTATGTTTAAGCCATTTAAGTATATAGACTA-AATTTTAAATATTATCTAAGTATAAAGAC
*
43632016 CAATAACATA-ATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAAACAAATAAAA
65 CAATAACATATATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAAA
* * *
43632080 ATAATATCAATAATGTTAGCAAACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATT
130 ATAATATCAATAATGGTAGCCAACGCTGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATT
* * *
43632145 ACCATTTTTAGCCATCTATTAAAAGCTACTAGCCGTTACTCTTGACTACCATAAGGTTAATATTA
195 ACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAAGGTTAATATCA
*
43632210 TATCATAGTCTTTCTTCATGTATA-ATGTCAATTATAGTCAACCACAAGTGAGAGTAGGCTAATT
260 TATCATAGTCTTTCTTCATGTA-AGATGTCAATTATAGTCAACCAC-A-TCAGAGT---CTAATT
* * * * *
43632274 AACATGTCAAGTTTGTAAATATTGATGAAAATACAAATAATTTTATTGTTGGGGCTGTGATTTTT
319 AACATGTCAAGTTTGTAAAT-TTGATGAAAATACTAATAATTTTACTGATGAGACTGTGATTTTT
* * *
43632339 AAACGAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTTTATAGACTAAATTTTAAATATT
383 AAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCTT
* * * ** * *
43632404 ATCTACGTATAAAGACGAATGCCATATATTTTTTATAATAACGAAAGAAACAACTAATATCACGT
448 ATCTAAGTATAAGGACCAATAACAT-T-TTTTTTATAATAACGAAAGAAACAACTAATAACATGT
*** *** ** * * * ** * * ** ***
43632469 TTTAACCATTTTTAGCCAT-TTATTAA-AA-GCTA---AAAGCCG-TTACTGTAGACTACCAAAA
511 TTTAA-CA-AAATAAAAATAACATCAATAATGGTATCCAAAGCAGATT-GGGTTGAGTGTCATTT
* * * * * ** * * *
43632527 GGTTAAT-ATCATATCATAATC-TTTCTTCATGTAAGATGCCAATTATAGTCAACCTCATGTGAG
573 GATAAATGATC-TGTAATTATCATTT-TT-A-G--CCAT--CTATTA-A---AAGCT-A-AT-AG
* * * * * * * * * *
43632590 -AG-TAGTCTA-ATTAACATGTCAAGTTTGTAAATTTTGATA-AAAAATACTAATAAT-TTTACT
623 CCGTTACTCTAGACTACCA--T-AAG---GTTAA-TATGATATCATAGT-CT--T--TCTTCA-T
* * * * * * ** * * * *
43632650 GATGAGACTGTGATTTTTAAATTAA--AAAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTATA
675 G-TAAGA-TGTCAATTAT-AGTCAACTTCATGTGAGA--G--TA-G-----GCTAATT-A--ACA
* * * * ** *
43632713 TAGACTAAATTT-TAAATCTTATCTAAGTATAAGGACCAATAACATATGTTTTTTA-TAATAACG
724 T-GTC-AAGTTTGTAAA---TAT-T--G-AT---GA-AAATACCA-AT-AATTTTACTCAT---G
* * **
43632776 AAAGGAACATTTAATAGCATGTTTTAAATTAGAAAAGCAAGA
771 ---GG--C---T-GT-G-AT-TTTT-AACTAGAAAAGTGAGA
* * * * * *
43632818 GGGCTTATGTTTTAA-ACATTTTAGTATAGAGACTAAATTTTAAATCTTATCTAAGTATGATGAC
1 GGGCTTATG-TTTAAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGTATAAAGAC
* * * * * *
43632882 CAATAACATAT-T-TTTTTAATAATAACGAAAGAAACTACCAATAACATGTTTTAACCCAGTAAA
65 CAATAACATATATATTTTT-ATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAA
* * * * * * *
43632945 AATAACATTAATAATTGTAGCGAACACAGATTGGGTTGAGTGTCGTTTGATAAATGATCTGTAAT
129 AATAATATCAATAATGGTAGCCAACGCTGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAAT
* * * ** * * * *
43633010 TACCATTTTTAGCTACCTACTAAAAGCTAATAGTTGTTACTTTAAACTACCATAAGATTAATAGC
194 TACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAAGGTTAATATC
* ** * * * *
43633075 ATATCATAGTTTTTCTTCATGTAAGATACCAATTGTAGTCAACCTCATTTGAGTGTATTCTAATT
259 ATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCACA--TCA--G-AGTCTAATT
* * * * * *
43633140 AACATGTCAAGTTTGTAAATCTTGAT-AAAAAAATCAATAATTTTAGTCATGGGGCTGTGATTTT
319 AACATGTCAAGTTTGTAAAT-TTGATGAAAATACT-AATAATTTTACTGATGAGACTGTGATTTT
* * * **
43633204 CAGACTAGGAAAGCGAGAGGGCTTATGTTTTAGTAATTTAAGTATATAGACTAAATTTT-AA---
382 TAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCT
* ** * * *
43633265 T-TCT---TATAA-GACCGATAACATATTTTTTTATAATATTGAAAGAAACGACTTATAGCATGT
447 TATCTAAGTATAAGGACCAATAACAT-TTTTTTTATAATAACGAAAGAAACAACTAATAACATGT
* * * * * * *
43633325 TTTAACAAAGTAAAAATAACATCAATAATGGTAGCGAACGCGGATTGGGTTTAGTGTCGTTTGAT
511 TTTAACAAAATAAAAATAACATCAATAATGGTATCCAAAGCAGATTGGGTTGAGTGTCATTTGAT
* * * * * * * *
43633390 AAATGATTTGTAATTACCATTTTTAGCTATATACTAAAAGTTAATAGTCGTTATTCTAGACTACC
576 AAATGATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACC
* * * * * **
43633455 ATAATGTTAATATTATATCATAGTTTTTCTTCATGTAAGA-GTTCAATTATGGTCAACCTCGGGT
641 ATAAGGTTAATATGATATCATAGTCTTTCTTCATGTAAGATG-TCAATTATAGTCAACTTCATGT
*** * * *** *
43633519 GAGAGTAATTTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATGCTTGTAATTTTACTGAT
705 GAGAGTAGGCTAATTAACATGTCAAGTTTGTAAATATTGATGAAAATACCAATAATTTTACTCAT
* **
43633584 GGGGCTGTGATTTTTAAACTAAAAAAGCAAGA
770 -GGGCTGTGATTTTT-AACTAGAAAAGTGAGA
* * * * **
43633616 GGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTATGTATAAGGTTC
1 GGGCTTATGTTTAAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGTATAAAGACC
* * * * *
43633681 AATAACATATATATATGTTTTTATAATAACGAATGAAACAACTAATAACATGCTTTAACTAAATA
66 AATAAC--ATATATA--TTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATA
* * **
43633746 AAAATAACATCAATAATGGTAGCCAACGCGGATTAAGTTGAGTGTCATTTGATAAATGATCTGTA
127 AAAATAATATCAATAATGGTAGCCAACGCTGATTGGGTTGAGTGTCATTTGATAAATGATCTGTA
* * * *
43633811 ATTACCATTTTTAGCCATATATTAAAAGGTAATAACCTTTACTCTAGA
192 ATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGA
43633859 AGCTAATAGC
Statistics
Matches: 3480, Mismatches: 575, Indels: 438
0.77 0.13 0.10
Matches are distributed among these distances:
766 11 0.00
767 216 0.06
768 155 0.04
769 260 0.07
770 3 0.00
771 1 0.00
772 2 0.00
773 2 0.00
775 2 0.00
776 1 0.00
777 1 0.00
780 3 0.00
781 1 0.00
784 1 0.00
785 65 0.02
786 4 0.00
787 244 0.07
788 3 0.00
790 1 0.00
791 1 0.00
794 1 0.00
795 3 0.00
797 6 0.00
798 304 0.09
799 118 0.03
800 353 0.10
801 6 0.00
802 3 0.00
803 140 0.04
804 30 0.01
805 7 0.00
806 5 0.00
807 184 0.05
808 512 0.15
809 97 0.03
810 8 0.00
811 6 0.00
812 4 0.00
813 3 0.00
814 11 0.00
815 5 0.00
816 3 0.00
817 7 0.00
818 1 0.00
820 8 0.00
821 7 0.00
822 1 0.00
823 6 0.00
824 9 0.00
825 6 0.00
826 11 0.00
827 10 0.00
828 6 0.00
830 2 0.00
834 2 0.00
836 9 0.00
837 6 0.00
838 10 0.00
839 5 0.00
840 9 0.00
841 6 0.00
843 8 0.00
844 8 0.00
846 1 0.00
847 6 0.00
848 3 0.00
849 7 0.00
850 10 0.00
851 5 0.00
852 4 0.00
853 6 0.00
854 8 0.00
855 6 0.00
856 40 0.01
857 15 0.00
858 6 0.00
859 2 0.00
860 23 0.01
861 10 0.00
862 2 0.00
863 1 0.00
864 1 0.00
865 16 0.00
866 377 0.11
867 5 0.00
868 1 0.00
869 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (799 bp):
GGGCTTATGTTTAAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGTATAAAGACC
AATAACATATATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAAAA
TAATATCAATAATGGTAGCCAACGCTGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTA
CCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAAGGTTAATATCAT
ATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACCACATCAGAGTCTAATTAACATGT
CAAGTTTGTAAATTTGATGAAAATACTAATAATTTTACTGATGAGACTGTGATTTTTAAACTAGA
AAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGT
ATAAGGACCAATAACATTTTTTTTATAATAACGAAAGAAACAACTAATAACATGTTTTAACAAAA
TAAAAATAACATCAATAATGGTATCCAAAGCAGATTGGGTTGAGTGTCATTTGATAAATGATCTG
TAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAAGGTTAA
TATGATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAACTTCATGTGAGAGTAGGCT
AATTAACATGTCAAGTTTGTAAATATTGATGAAAATACCAATAATTTTACTCATGGGCTGTGATT
TTTAACTAGAAAAGTGAGA
Found at i:43631858 original size:365 final size:365
Alignment explanation
Indices: 43631220--43631895 Score: 928
Period size: 365 Copynumber: 1.9 Consensus size: 365
43631210 TATAGATTAG
* *
43631220 ATTTTAAATCTTATCTAAGTATATGGACTAATAACATTTTTTTTTCTAATAACAAAAGAAACAAC
1 ATTTTAAATCTTATCTAAGTATATGGACCAATAACATTTTTTTTTATAATAACAAAAGAAACAAC
** * * * *** *
43631285 TAATAGCATGTTTTAACCCCGAAAAAATAATATCAATAATGGTAGCCAACGTTGATTAGGTTAAA
66 TAATAGCATGTTTTAACCAAGAAAAAAGAACATCAATAATGGTAGCAAACACAGATTAGATTAAA
* *
43631350 TGTCATTTGATAAATGATCTGTAATAACCATTTTTAGCAATTTATTAAAAGCTAATAGCCGTTAC
131 TGTCATTTGATAAATGATCTGTAATAACCATTTTTAACAATTTATTAAAAGCTAATAGACGTTAC
* * * * *
43631415 TCTAGACTACCATAATGTTAATATCATATCACAGTATTTGTTCATGTAAGATGTCAATTATAGTC
196 TCTAGACTACCATAAGGATAAAATCATATCACAATATTTCTTCATGTAAGATGTCAATTATAGTC
* * * * *
43631480 AACCTCGTGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATTTTGATTAAATTAGTAAAGT
261 AAACTCATGTGAGAGTAGTCTAATTAACAAGTCAAGTTTGTAAATCTTGATTAAATTAGTAAAGT
43631545 AAGAGGCCTTATGTTTTAACCATTTAAATATGGAGACTAA
326 AAGAGGCCTTATGTTTTAACCATTTAAATATGGAGACTAA
** *
43631585 ATTTTAAATCTTATCTAAGTATAAT-GACCAATGCCATTTTTTTTTATAATAACGAAAGAAACAA
1 ATTTTAAATCTTATCTAAGTAT-ATGGACCAATAACATTTTTTTTTATAATAACAAAAGAAACAA
* * *
43631649 CTAATAGCATGTTTTAACCAAGTAAAAAGAACATTAATAAT-GTCATCAAACACAGATT-GAATT
65 CTAATAGCATGTTTTAACCAAGAAAAAAGAACATCAATAATGGT-AGCAAACACAGATTAG-ATT
* * * * * *
43631712 GAGTGTCATTTGATAAATGATCTGTAATTATCATTTTTAACCATTTATTAAAAGCTTATAGACGT
128 AAATGTCATTTGATAAATGATCTGTAATAACCATTTTTAACAATTTATTAAAAGCTAATAGACGT
* * * *
43631777 TGCTCTAGACTATCATAAGGATAAAAGT-ATATCATAATCTTTCTTCATGTAAGATGTCAATTAT
193 TACTCTAGACTACCATAAGGATAAAA-TCATATCACAATATTTCTTCATGTAAGATGTCAATTAT
*
43631841 AGTCAAACTCATGTGAGAGTATTCTAATTAACAAGTCAAGTTTGTAAATCTTGAT
257 AGTCAAACTCATGTGAGAGTAGTCTAATTAACAAGTCAAGTTTGTAAATCTTGAT
43631896 GAAAATACTA
Statistics
Matches: 267, Mismatches: 40, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
364 3 0.01
365 261 0.98
366 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (365 bp):
ATTTTAAATCTTATCTAAGTATATGGACCAATAACATTTTTTTTTATAATAACAAAAGAAACAAC
TAATAGCATGTTTTAACCAAGAAAAAAGAACATCAATAATGGTAGCAAACACAGATTAGATTAAA
TGTCATTTGATAAATGATCTGTAATAACCATTTTTAACAATTTATTAAAAGCTAATAGACGTTAC
TCTAGACTACCATAAGGATAAAATCATATCACAATATTTCTTCATGTAAGATGTCAATTATAGTC
AAACTCATGTGAGAGTAGTCTAATTAACAAGTCAAGTTTGTAAATCTTGATTAAATTAGTAAAGT
AAGAGGCCTTATGTTTTAACCATTTAAATATGGAGACTAA
Found at i:43632301 original size:404 final size:403
Alignment explanation
Indices: 43631540--43632473 Score: 1316
Period size: 404 Copynumber: 2.3 Consensus size: 403
43631530 TTAAATTAGT
* * * * ** *
43631540 AAAGTAAGAGGCCTTATGTTTTAACCATTTAAATATGGAGACTAAATTTTAAATCTTATCTAAGT
1 AAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGT
* * * *
43631605 ATAATGACCAATGCCATTTTTTTTTATAATAACGAAAGAAACAACTAATAGCATGTTTTAACCAA
66 ATAAAGACCAATGCCATATATTTTTATAATAACGAAAGAAACAACTAATAGCATGTTTTAAACAA
* * *
43631670 GTAAAAAGAACATTAATAATGTCATCAAACACAGATTGAATTGAGTGTCATTTGATAAATGATCT
131 ATAAAAAGAACATCAATAATGTCAGCAAACACAGATTGAATTGAGTGTCATTTGATAAATGATCT
* * * *
43631735 GTAATTATCATTTTTAACCATTTATTAAAAGCTTATAGACGTTGCTCTAGACTATCATAAGGATA
196 GTAATTACCATTTTTAACCATCTATTAAAAGCTTATAGACGTTACTCTAGACTACCATAAGGATA
* * **
43631800 AAAGTATATCATAATCTTTCTTCATGTAAGATGTCAATTATAGTCAAACTCATGTGAGAGTATTC
261 AAAGTATATCATAATCTTTCTTCATGTAAGATGTCAATTATAGTCAAACACAAGTGAGAGTAGGC
* *
43631865 TAATTAACAAGTCAAGTTTGTAAATCTTGATGAAAATACTAATAATTTTACTGACGGGGCTGTGA
326 TAATTAACAAGTCAAGTTTGTAAATATTGATGAAAATACAAATAATTTTACTGACGGGGCTGTGA
*
43631930 TTTTTAAACTACA
391 TTTTTAAACGACA
43631943 AAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGAC-ATAATTTTAAATATTATCTAAG
1 AAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTA-AATTTTAAATATTATCTAAG
** *
43632007 TATAAAGACCAATAACATAATATTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAAAC
65 TATAAAGACCAATGCCAT-ATATTTTTATAATAACGAAAGAAACAACTAATAGCATGTTTTAAAC
* * * * * **
43632072 AAATAAAAATAATATCAATAATGTTAGCAAACGCGGATTGGGTTGAGTGTCATTTGATAAATGAT
129 AAATAAAAAGAACATCAATAATGTCAGCAAACACAGATTGAATTGAGTGTCATTTGATAAATGAT
* * *
43632137 CTGTAATTACCATTTTTAGCCATCTATTAAAAGC-TACTAGCCGTTACTCTTGACTACCATAAGG
194 CTGTAATTACCATTTTTAACCATCTATTAAAAGCTTA-TAGACGTTACTCTAGACTACCATAAGG
* * * * *
43632201 TTAATATTATATCATAGTCTTTCTTCATGTATA-ATGTCAATTATAGTCAACCACAAGTGAGAGT
258 ATAAAAGTATATCATAATCTTTCTTCATGTA-AGATGTCAATTATAGTCAAACACAAGTGAGAGT
* * **
43632265 AGGCTAATTAACATGTCAAGTTTGTAAATATTGATGAAAATACAAATAATTTTATTGTTGGGGCT
322 AGGCTAATTAACAAGTCAAGTTTGTAAATATTGATGAAAATACAAATAATTTTACTGACGGGGCT
*
43632330 GTGATTTTTAAACGAGA
387 GTGATTTTTAAACGACA
* * *
43632347 AAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTTTATAGACTAAATTTTAAATATTATCTACGT
1 AAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGT
* * *
43632412 ATAAAGACGAATGCCATATATTTTTTATAATAACGAAAGAAACAACTAATATCACGTTTTAA
66 ATAAAGACCAATGCCATATA-TTTTTATAATAACGAAAGAAACAACTAATAGCATGTTTTAA
43632474 CCATTTTTAG
Statistics
Matches: 468, Mismatches: 57, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
402 1 0.00
403 75 0.16
404 390 0.83
405 2 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (403 bp):
AAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAATATTATCTAAGT
ATAAAGACCAATGCCATATATTTTTATAATAACGAAAGAAACAACTAATAGCATGTTTTAAACAA
ATAAAAAGAACATCAATAATGTCAGCAAACACAGATTGAATTGAGTGTCATTTGATAAATGATCT
GTAATTACCATTTTTAACCATCTATTAAAAGCTTATAGACGTTACTCTAGACTACCATAAGGATA
AAAGTATATCATAATCTTTCTTCATGTAAGATGTCAATTATAGTCAAACACAAGTGAGAGTAGGC
TAATTAACAAGTCAAGTTTGTAAATATTGATGAAAATACAAATAATTTTACTGACGGGGCTGTGA
TTTTTAAACGACA
Found at i:43632904 original size:133 final size:133
Alignment explanation
Indices: 43632664--43632912 Score: 401
Period size: 133 Copynumber: 1.9 Consensus size: 133
43632654 AGACTGTGAT
** ** *
43632664 TTTTAAATTAAAAAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAA
1 TTTTAAATTAAAAAAGCAAGAGGGCTTATGTTTTAAACATTTAAGTATAGAGACTAAATTTTAAA
43632729 TCTTATCTAAGTATAAGGACCAATAACATATGTTTTTTATAATAACGAAAGGAACATTTAATAGC
66 TCTTATCTAAGTATAAGGACCAATAACATATGTTTTTTATAATAACGAAAGGAACATTTAATAGC
43632794 ATG
131 ATG
* *
43632797 TTTTAAATTAGAAAAGCAAGAGGGCTTATGTTTTAAACATTTTAGTATAGAGACTAAATTTTAAA
1 TTTTAAATTAAAAAAGCAAGAGGGCTTATGTTTTAAACATTTAAGTATAGAGACTAAATTTTAAA
* *
43632862 TCTTATCTAAGTATGATGACCAATAACATAT-TTTTTTAATAATAACGAAAG
66 TCTTATCTAAGTATAAGGACCAATAACATATGTTTTTT-ATAATAACGAAAG
43632913 AAACTACCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
132 6 0.06
133 100 0.94
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (133 bp):
TTTTAAATTAAAAAAGCAAGAGGGCTTATGTTTTAAACATTTAAGTATAGAGACTAAATTTTAAA
TCTTATCTAAGTATAAGGACCAATAACATATGTTTTTTATAATAACGAAAGGAACATTTAATAGC
ATG
Found at i:43633639 original size:394 final size:397
Alignment explanation
Indices: 43632797--43633844 Score: 1263
Period size: 394 Copynumber: 2.6 Consensus size: 397
43632787 TAATAGCATG
* * * *
43632797 TTTTAAATTAGAAAAGCAAGAGGGCTTATGTTTTAAACATTTTAGTATAGAGACTAAATTTTAAA
1 TTTTAAACTAGAAAAGCAAGAGGGCTTATGTTTTAGACATTTAAGTATATAGACTAAATTTTAAA
* * *
43632862 TCTTATCTAAGTATGATGACCAATAACATATTTTTTTAATAATAACGAAAGAAACTACCAATAAC
66 --TTATCT-A-TAT-AAGACCAATAACATATTTTTTT-ATAATAACGAAAGAAACAACTAATAAC
** * * * *
43632927 ATGTTTTAACCCAGTAAAAATAACATTAATAATTGTAGCGAACACAGATTGGGTTGAGTGTCGTT
125 ATGTTTTAACAAAGTAAAAATAACATCAATAATGGTAGCGAACGCGGATTGGGTTGAGTGTCGTT
** *
43632992 TGATAAATGATCTGTAATTACCATTTTTAGCTACCTACTAAAAGCTAATAGTTGTTACTTTAAAC
190 TGATAAATGATCTGTAATTACCATTTTTAGCTATATACTAAAAGCTAATAGTCGTTACTTTAAAC
*
43633057 TACCATAAGATTAATAGCATATCATAGTTTTTCTTCATGTAAGATACCAATTGTAGTCAACCTCA
255 TACCATAAGATTAATAGCATATCATAGTTTTTCTTCATGTAAGATACCAATTATAGTCAACCTCA
** * *
43633122 TTTGAGTGTATTCTAATTAACATGTCAAGTTTGTAAATCTTGATAAAAAAATCAATAATTTTAGT
320 GGTGAGAGTATTCTAATTAACATGTCAAGTTTGTAAATCTTGAT-AAAAAATCAATAATTTTACT
43633187 CATGGGGCTGTGAT
384 CATGGGGCTGTGAT
* * * *
43633201 TTTCAGACTAGGAAAGCGAGAGGGCTTATGTTTTAGTA-ATTTAAGTATATAGACTAAATTTT-A
1 TTTTAAACTAGAAAAGCAAGAGGGCTTATGTTTTAG-ACATTTAAGTATATAGACTAAATTTTAA
* ** * * *
43633264 A-T-TCT-TATAAGACCGATAACATATTTTTTTATAATATTGAAAGAAACGACTTATAGCATGTT
65 ATTATCTATATAAGACCAATAACATATTTTTTTATAATAACGAAAGAAACAACTAATAACATGTT
*
43633326 TTAACAAAGTAAAAATAACATCAATAATGGTAGCGAACGCGGATTGGGTTTAGTGTCGTTTGATA
130 TTAACAAAGTAAAAATAACATCAATAATGGTAGCGAACGCGGATTGGGTTGAGTGTCGTTTGATA
* * *
43633391 AATGATTTGTAATTACCATTTTTAGCTATATACTAAAAGTTAATAGTCGTTA-TTCTAGACTACC
195 AATGATCTGTAATTACCATTTTTAGCTATATACTAAAAGCTAATAGTCGTTACTT-TAAACTACC
** * * *
43633455 ATAATG-TTAATATTATATCATAGTTTTTCTTCATGTAAGAGT-TCAATTATGGTCAACCTCGGG
259 ATAA-GATTAATAGCATATCATAGTTTTTCTTCATGTAAGA-TACCAATTATAGTCAACCTCAGG
* * **
43633518 TGAGAGTAATT-TAATTAACATGTCAAGTTTGTAAATTTTGAT-GAAAATGCTTGTAATTTTACT
322 TGAGAGT-ATTCTAATTAACATGTCAAGTTTGTAAATCTTGATAAAAAAT-C-AATAATTTTACT
*
43633581 GATGGGGCTGTGAT
384 CATGGGGCTGTGAT
* *
43633595 TTTTAAACTAAAAAAGCAAGAGGGCTTATGTTTTAGCCATTTAAGTATATAGACTAAATTTTAAA
1 TTTTAAACTAGAAAAGCAAGAGGGCTTATGTTTTAGACATTTAAGTATATAGACTAAATTTTAAA
** *
43633660 TCTTATCTATGTATAAGGTTCAATAACATATATATATGTTTTTATAATAACGAATGAAACAACTA
66 --TTATCTA--TATAA-GACCAATAAC----ATAT-T-TTTTTATAATAACGAAAGAAACAACTA
* * **
43633725 ATAACATGCTTTAACTAAA-TAAAAATAACATCAATAATGGTAGCCAACGCGGATTAAGTTGAGT
120 ATAACATGTTTTAAC-AAAGTAAAAATAACATCAATAATGGTAGCGAACGCGGATTGGGTTGAGT
* * * *
43633789 GTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATATATTAAAAGGTAATA
184 GTCGTTTGATAAATGATCTGTAATTACCATTTTTAGCTATATACTAAAAGCTAATA
43633845 ACCTTTACTC
Statistics
Matches: 551, Mismatches: 69, Indels: 43
0.83 0.10 0.06
Matches are distributed among these distances:
392 5 0.01
393 3 0.01
394 303 0.55
395 27 0.05
396 3 0.01
398 1 0.00
399 6 0.01
400 1 0.00
402 5 0.01
403 9 0.02
404 52 0.09
405 1 0.00
407 4 0.01
408 1 0.00
409 127 0.23
410 3 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (397 bp):
TTTTAAACTAGAAAAGCAAGAGGGCTTATGTTTTAGACATTTAAGTATATAGACTAAATTTTAAA
TTATCTATATAAGACCAATAACATATTTTTTTATAATAACGAAAGAAACAACTAATAACATGTTT
TAACAAAGTAAAAATAACATCAATAATGGTAGCGAACGCGGATTGGGTTGAGTGTCGTTTGATAA
ATGATCTGTAATTACCATTTTTAGCTATATACTAAAAGCTAATAGTCGTTACTTTAAACTACCAT
AAGATTAATAGCATATCATAGTTTTTCTTCATGTAAGATACCAATTATAGTCAACCTCAGGTGAG
AGTATTCTAATTAACATGTCAAGTTTGTAAATCTTGATAAAAAATCAATAATTTTACTCATGGGG
CTGTGAT
Found at i:43641627 original size:29 final size:30
Alignment explanation
Indices: 43641585--43641643 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
43641575 GAATTAGATC
*
43641585 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTGCACA
*
43641615 AAATC-AAAGTTCATGTATACAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTGCACA
43641644 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTGCACA
Found at i:43647950 original size:14 final size:14
Alignment explanation
Indices: 43647931--43647961 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
43647921 TAATTGGTTT
43647931 TAGGTTGGATAATA
1 TAGGTTGGATAATA
43647945 TAGGTTGGATAATA
1 TAGGTTGGATAATA
43647959 TAG
1 TAG
43647962 TCATTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (14 bp):
TAGGTTGGATAATA
Found at i:43654320 original size:19 final size:18
Alignment explanation
Indices: 43654298--43654341 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
43654288 TTTTTGGGAT
*
43654298 AAAAAGTGTTTTTAAAAA
1 AAAAAATGTTTTTAAAAA
* *
43654316 AAAAACATTTTTTTGAAAA
1 AAAAA-ATGTTTTTAAAAA
43654335 AAAAAAT
1 AAAAAAT
43654342 CCTTAAACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (18 bp):
AAAAAATGTTTTTAAAAA
Found at i:43656793 original size:24 final size:23
Alignment explanation
Indices: 43656766--43656835 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
43656756 TTATTAACAT
*
43656766 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* * *
43656790 TGTTCATGAACATATTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
43656813 TGTTTGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
43656836 GTTAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:43656822 original size:23 final size:23
Alignment explanation
Indices: 43656795--43656854 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
43656785 TTATATGTTC
*
43656795 ATGAACATATTCGTTTAATGTT-T
1 ATGAACATATTCGTTTAA-GTTAA
* * *
43656818 GTGAACATGTTCGATTAAGTTAA
1 ATGAACATATTCGTTTAAGTTAA
43656841 ATGAACATATTCGT
1 ATGAACATATTCGT
43656855 GAACATTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 3 0.10
23 26 0.90
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (23 bp):
ATGAACATATTCGTTTAAGTTAA
Found at i:43658117 original size:20 final size:21
Alignment explanation
Indices: 43658092--43658130 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
43658082 CCCCCAACCA
43658092 TGAAT-CTCAAACC-TAAACAC
1 TGAATCCT-AAACCTTAAACAC
43658112 TGAATCCTAAACCTTAAAC
1 TGAATCCTAAACCTTAAAC
43658131 TTGGGATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (21 bp):
TGAATCCTAAACCTTAAACAC
Found at i:43658459 original size:17 final size:17
Alignment explanation
Indices: 43658437--43658469 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43658427 ACTAAAATTT
*
43658437 AAAATCTCGAAATTTTA
1 AAAATCTCAAAATTTTA
43658454 AAAATCTCAAAATTTT
1 AAAATCTCAAAATTTT
43658470 TTATTGTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAATCTCAAAATTTTA
Found at i:43665197 original size:2 final size:2
Alignment explanation
Indices: 43665192--43665252 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
43665182 AAATGAAGAG
43665192 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
43665234 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
43665253 AAGGTAATCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43666654 original size:53 final size:55
Alignment explanation
Indices: 43666566--43666685 Score: 165
Period size: 53 Copynumber: 2.2 Consensus size: 55
43666556 ACATGTTATG
* *
43666566 TAACAATCGATTTAAACACATAAACAATCGGTTCAAAAG-AAGCAATATTTCAACA
1 TAACAATCGATTTAAACACATAAACAATCGATTCAAAAGAAAGC-ATATTCCAACA
*
43666621 TAACAATCGATTT-AA-ACATAAACAATCGATTCAAAAGAAATCATATTCCAACA
1 TAACAATCGATTTAAACACATAAACAATCGATTCAAAAGAAAGCATATTCCAACA
* *
43666674 TGACAATAGATT
1 TAACAATCGATT
43666686 CAAAAGTAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
53 41 0.69
54 5 0.08
55 13 0.22
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.25
Consensus pattern (55 bp):
TAACAATCGATTTAAACACATAAACAATCGATTCAAAAGAAAGCATATTCCAACA
Found at i:43666680 original size:34 final size:31
Alignment explanation
Indices: 43666635--43666716 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 31
43666625 AATCGATTTA
43666635 AACATAAACAATCGATTCAAAAGAAATCA-TATTCC
1 AACAT-AACAATCGATTCAAAAG---T-AGTATTCC
* *
43666670 AACATGACAATAGATTCAAAAGTAGTATTCC
1 AACATAACAATCGATTCAAAAGTAGTATTCC
43666701 AACATAACAATCGATT
1 AACATAACAATCGATT
43666717 TAAACATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 1 0.02
31 21 0.50
34 15 0.36
35 5 0.12
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (31 bp):
AACATAACAATCGATTCAAAAGTAGTATTCC
Found at i:43666793 original size:34 final size:34
Alignment explanation
Indices: 43666746--43666810 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
43666736 TATAAAGAAG
* * *
43666746 AAGAAGCAGTATTCCACCATAACAATCGATTCAA
1 AAGAAACAATATTCCAACATAACAATCGATTCAA
*
43666780 AAGAAACAATATTCCAACATGACAATCGATT
1 AAGAAACAATATTCCAACATAACAATCGATT
43666811 TAAACATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (34 bp):
AAGAAACAATATTCCAACATAACAATCGATTCAA
Found at i:43666891 original size:55 final size:55
Alignment explanation
Indices: 43666766--43666894 Score: 177
Period size: 55 Copynumber: 2.3 Consensus size: 55
43666756 ATTCCACCAT
** *
43666766 AACAATCGATTCAAAAGAAACAATATTCCAACATGACAATCGATTTAAACATATA
1 AACAATCGATTCAAAAGAAACAATATTCCAACAAAACAATCGATTTAAACATAAA
** * *
43666821 AACAATTTATTCAAAAGAACCAGTATTCCAACAAAACAATCGATTTAAACATAAA
1 AACAATCGATTCAAAAGAAACAATATTCCAACAAAACAATCGATTTAAACATAAA
* *
43666876 AATAATCGATCCAAAAGAA
1 AACAATCGATTCAAAAGAA
43666895 GTAATATTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (55 bp):
AACAATCGATTCAAAAGAAACAATATTCCAACAAAACAATCGATTTAAACATAAA
Found at i:43667381 original size:6 final size:7
Alignment explanation
Indices: 43667368--43667409 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
43667358 ATAAATATAT
*
43667368 ATTTTTT
1 ATTTTTA
43667375 ATTTTTA
1 ATTTTTA
43667382 ATTTTTA
1 ATTTTTA
43667389 ATTTTTA
1 ATTTTTA
43667396 ATTTTT-
1 ATTTTTA
43667402 ATTTTTA
1 ATTTTTA
43667409 A
1 A
43667410 AATACTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:43667386 original size:13 final size:13
Alignment explanation
Indices: 43667370--43667409 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
43667360 AAATATATAT
43667370 TTTTTATTTTTAA
1 TTTTTATTTTTAA
43667383 TTTTTAATTTTTAA
1 TTTTT-ATTTTTAA
43667397 TTTTTATTTTTAA
1 TTTTTATTTTTAA
43667410 AATACTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:43669370 original size:19 final size:17
Alignment explanation
Indices: 43669346--43669394 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
43669336 ATTCCAAAAA
43669346 TAATATTATTTTAAAAATT
1 TAATATTATTTT--AAATT
**
43669365 TAATATTAAATTAAATT
1 TAATATTATTTTAAATT
43669382 TAATACTTATTTT
1 TAATA-TTATTTT
43669395 GATAGTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 10 0.40
18 5 0.20
19 10 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATATTATTTTAAATT
Found at i:43673280 original size:40 final size:39
Alignment explanation
Indices: 43673144--43673362 Score: 221
Period size: 38 Copynumber: 5.6 Consensus size: 39
43673134 GACTTTGAGT
* *
43673144 CGATGAGACACTGGGTGCCAATTTATTACTTCGAATTTATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGAA-TTATC
** *
43673185 CGATGAGACACTGGGTGTCAA-TT-TACTTCGGTTTTAAC
1 CGATGAGACACTGGGTGTCAATTTATACTTC-GAATTATC
* * *
43673223 CGATGAGACAATAGGTGTCAATTTAATACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAATTT-ATACTTCGAATTATC
* * *
43673263 CGATGAGGCACTGGGTGTCAA-TT-TACTTCGATTTTAAC
1 CGATGAGACACTGGGTGTCAATTTATACTTCGA-ATTATC
* *
43673301 CGATGAGACACTAGGTGTCAATTTAATACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAATTT-ATACTTCGAATTATC
* *
43673341 CGATGAGGCACTGGGTGCCAAT
1 CGATGAGACACTGGGTGTCAAT
43673363 CTGGTGTGTT
Statistics
Matches: 145, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
37 7 0.05
38 51 0.35
39 7 0.05
40 48 0.33
41 32 0.22
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCGAATTATC
Found at i:43673290 original size:78 final size:78
Alignment explanation
Indices: 43673144--43673362 Score: 348
Period size: 78 Copynumber: 2.8 Consensus size: 78
43673134 GACTTTGAGT
* * * * * *
43673144 CGATGAGACACTGGGTGCCAATTTATTACTTCGAATTTATTCGATGAGACACTGGGTGTCAATTT
1 CGATGAGACACTAGGTGTCAATTTAATACTTTGAA-TTATCCGATGAGGCACTGGGTGTCAATTT
*
43673209 ACTTCGGTTTTAAC
65 ACTTCGATTTTAAC
*
43673223 CGATGAGACAATAGGTGTCAATTTAATACTTTGAATTATCCGATGAGGCACTGGGTGTCAATTTA
1 CGATGAGACACTAGGTGTCAATTTAATACTTTGAATTATCCGATGAGGCACTGGGTGTCAATTTA
43673288 CTTCGATTTTAAC
66 CTTCGATTTTAAC
*
43673301 CGATGAGACACTAGGTGTCAATTTAATACTTTGAATTATCCGATGAGGCACTGGGTGCCAAT
1 CGATGAGACACTAGGTGTCAATTTAATACTTTGAATTATCCGATGAGGCACTGGGTGTCAAT
43673363 CTGGTGTGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 100 0.77
79 30 0.23
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (78 bp):
CGATGAGACACTAGGTGTCAATTTAATACTTTGAATTATCCGATGAGGCACTGGGTGTCAATTTA
CTTCGATTTTAAC
Found at i:43676006 original size:29 final size:29
Alignment explanation
Indices: 43675973--43676034 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
43675963 ATTAATTTTT
*
43675973 AAAATTATAAAAAATATTTTA-AAAAAATA
1 AAAATGATAAAAAATA-TTTAGAAAAAATA
* * *
43676002 AAAATGATTAAGAATATTTAGAAAATATA
1 AAAATGATAAAAAATATTTAGAAAAAATA
43676031 AAAA
1 AAAA
43676035 AATTAAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (29 bp):
AAAATGATAAAAAATATTTAGAAAAAATA
Found at i:43676039 original size:28 final size:29
Alignment explanation
Indices: 43675985--43676040 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
43675975 AATTATAAAA
*
43675985 AATATTTTAAAAAAATAAAAATGATTAAG
1 AATATTTTAAAAAAATAAAAATAATTAAG
*
43676014 AATA-TTTAGAAAATATAAAAA-AATTAA
1 AATATTTTA-AAAAAATAAAAATAATTAA
43676041 AAGTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (29 bp):
AATATTTTAAAAAAATAAAAATAATTAAG
Found at i:43688531 original size:23 final size:23
Alignment explanation
Indices: 43688488--43688532 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
43688478 GTAATTAATG
43688488 TATTTTTTAAAAATTACAAAAAA
1 TATTTTTTAAAAATTACAAAAAA
*
43688511 TATTATTTTAAATATTA-AAAAA
1 TATT-TTTTAAAAATTACAAAAA
43688533 TTAAAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TATTTTTTAAAAATTACAAAAAA
Found at i:43694191 original size:15 final size:15
Alignment explanation
Indices: 43694171--43694202 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43694161 ACTTCTTTGG
*
43694171 TTATCTTGAGTCTAC
1 TTATCTAGAGTCTAC
43694186 TTATCTAGAGTCTAC
1 TTATCTAGAGTCTAC
43694201 TT
1 TT
43694203 TTATTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (15 bp):
TTATCTAGAGTCTAC
Found at i:43702216 original size:44 final size:44
Alignment explanation
Indices: 43702145--43702309 Score: 135
Period size: 41 Copynumber: 3.8 Consensus size: 44
43702135 ATTCCAATAT
* * *
43702145 GATTTATCGTTTAAGACCACGTCTGGGACGTTGGCATCGATTTGA-
1 GATTTA-CGTGTAAGACCATGTCTGGGACGTTGGCATCGATAT-AC
* * *
43702190 GATTTACGTGTAAGACCATGTTTGGGACATCGGCATCG-TATAC
1 GATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATATAC
* **
43702233 GA-TT-CGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTT
1 GATTTACGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATAC
* * ** *
43702275 GA-TTACATGTAAGACTACATCTGGAACGTTGGCAT
1 GATTTACGTGTAAGACCATGTCTGGGACGTTGGCAT
43702310 TGTAAGAGCT
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
41 27 0.28
42 11 0.11
43 26 0.27
44 27 0.28
45 6 0.06
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
GATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATATAC
Found at i:43703718 original size:2 final size:2
Alignment explanation
Indices: 43703711--43703761 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
43703701 ATAACCGATC
43703711 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
43703753 AT AT AT AT A
1 AT AT AT AT A
43703762 CACTAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43703899 original size:32 final size:33
Alignment explanation
Indices: 43703863--43703929 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
43703853 TGCTTAGCAA
* * * *
43703863 ATGCATATACCTATTGCATATATATTTA-ATAT
1 ATGCATATACCGAATGCACATATATATATATAT
43703895 ATGCATATACCGAATGCACATATATATATATAT
1 ATGCATATACCGAATGCACATATATATATATAT
43703928 AT
1 AT
43703930 ATTTAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 24 0.80
33 6 0.20
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.39
Consensus pattern (33 bp):
ATGCATATACCGAATGCACATATATATATATAT
Found at i:43705989 original size:16 final size:17
Alignment explanation
Indices: 43705955--43705995 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
43705945 CCTACTCCCT
43705955 CCCAATTTAAAACCCAG
1 CCCAATTTAAAACCCAG
*
43705972 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAG
43705988 CCCAATTT
1 CCCAATTT
43705996 TCTCTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.34, G:0.05, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAG
Found at i:43706128 original size:6 final size:6
Alignment explanation
Indices: 43706119--43706146 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
43706109 TCACTTTCAT
43706119 TCACTC TCACTC TCACTC TCACTC TCAC
1 TCACTC TCACTC TCACTC TCACTC TCAC
43706147 GACTCACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (6 bp):
TCACTC
Found at i:43706926 original size:16 final size:16
Alignment explanation
Indices: 43706905--43706935 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43706895 AATTATTGAA
*
43706905 TATATTGTAATTAATG
1 TATATTATAATTAATG
43706921 TATATTATAATTAAT
1 TATATTATAATTAAT
43706936 TTAAGAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TATATTATAATTAATG
Done.