Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 123 of 190
Found at i:19449012 original size:16 final size:15
Alignment explanation
Indices: 19448976--19449026 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 15
19448966 TAAAAATATA
*
19448976 TAAAAAATACAAAAT
1 TAAAAAATTCAAAAT
*
19448991 T-CAAAATTCAAAAT
1 TAAAAAATTCAAAAT
19449005 ATAAAAAAATTCAAAAT
1 -T-AAAAAATTCAAAAT
19449022 TAAAA
1 TAAAA
19449027 TATAAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 11 0.37
15 6 0.20
16 1 0.03
17 12 0.40
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAATTCAAAAT
Found at i:19449020 original size:31 final size:31
Alignment explanation
Indices: 19448968--19449027 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
19448958 TAAAAATATA
19448968 AAAATATATAAAAAATACAAAATTCAAAATTC
1 AAAATATATAAAAAATACAAAATT-AAAATTC
*
19449000 AAAATATA-AAAAAATTCAAAATTAAAAT
1 AAAATATATAAAAAATACAAAATTAAAAT
19449028 ATAAAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 14 0.52
32 8 0.30
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (31 bp):
AAAATATATAAAAAATACAAAATTAAAATTC
Found at i:19450184 original size:64 final size:64
Alignment explanation
Indices: 19450073--19450200 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
19450063 ACTCTTATTC
* * * *
19450073 GTTCGATATGATGTTTGAAATTTGTGCTTTTTCCTGTATGGTGTGTGCAAGTCATTTAGCCTTT
1 GTTCCATATGATGTTTGAAACTTGTGCTTTTTCCTATACGGTGTGTGCAAGTCATTTAGCCTTT
* * *
19450137 GTTCCATATGATGTTTGAAACTTGTGCTTTTTCCTATACGGTTTGTGCATGTCATTTGGCCTTT
1 GTTCCATATGATGTTTGAAACTTGTGCTTTTTCCTATACGGTGTGTGCAAGTCATTTAGCCTTT
19450201 TCTTGATCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.47
Consensus pattern (64 bp):
GTTCCATATGATGTTTGAAACTTGTGCTTTTTCCTATACGGTGTGTGCAAGTCATTTAGCCTTT
Found at i:19450716 original size:3 final size:3
Alignment explanation
Indices: 19450710--19450738 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19450700 AATAATAATA
19450710 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
19450739 AATAATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:19450759 original size:3 final size:3
Alignment explanation
Indices: 19450753--19450832 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
19450743 ATGTTTATTA
*
19450753 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19450801 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19450833 AAGTAATTGT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19451267 original size:13 final size:13
Alignment explanation
Indices: 19451208--19451273 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
19451198 GAAAAACCCT
*
19451208 AATTGAAA-CTAA
1 AATTGAAACCTTA
*
19451220 AATTAAAACCTT-
1 AATTGAAACCTTA
* *
19451232 AACTGAAACCCTAA
1 AATTGAAA-CCTTA
*
19451246 AATTAAAACCTTA
1 AATTGAAACCTTA
*
19451259 AATTGAAACCCTA
1 AATTGAAACCTTA
19451272 AA
1 AA
19451274 ATCAAAACCT
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
12 13 0.32
13 22 0.54
14 6 0.15
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.24
Consensus pattern (13 bp):
AATTGAAACCTTA
Found at i:19451273 original size:27 final size:26
Alignment explanation
Indices: 19451200--19451286 Score: 124
Period size: 27 Copynumber: 3.4 Consensus size: 26
19451190 TCAAACTTGA
*
19451200 AAAACCCTAATTGAAA--CTAAAATT
1 AAAACCTTAATTGAAACCCTAAAATT
*
19451224 AAAACCTTAACTGAAACCCTAAAATT
1 AAAACCTTAATTGAAACCCTAAAATT
*
19451250 AAAACCTTAAATTGAAACCCTAAAATC
1 AAAACCTT-AATTGAAACCCTAAAATT
19451277 AAAACCTTAA
1 AAAACCTTAA
19451287 GAGAAATCTG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.25
26 18 0.32
27 24 0.43
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.23
Consensus pattern (26 bp):
AAAACCTTAATTGAAACCCTAAAATT
Found at i:19451531 original size:15 final size:16
Alignment explanation
Indices: 19451513--19451552 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
19451503 ATTCATTTTG
19451513 TAAAAATAAAAAAT-A
1 TAAAAATAAAAAATAA
*
19451528 TAAAAATATAAAATAA
1 TAAAAATAAAAAATAA
*
19451544 TAAACATAA
1 TAAAAATAA
19451553 TAGGACTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAATAAAAAATAA
Found at i:19455765 original size:39 final size:39
Alignment explanation
Indices: 19455694--19455768 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
19455684 CACACGACCA
* * * *
19455694 TTCACTTTTGCTAGACCTTTTGTTAGTCAACCCCAACCT
1 TTCACTTTTGCTAGACCATCTGCTAGTAAACCCCAACCT
* *
19455733 TTCACTTTTGTTGGACCATCTGCTAGTAAACCCCAA
1 TTCACTTTTGCTAGACCATCTGCTAGTAAACCCCAA
19455769 GTACATGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (39 bp):
TTCACTTTTGCTAGACCATCTGCTAGTAAACCCCAACCT
Found at i:19456699 original size:27 final size:28
Alignment explanation
Indices: 19456646--19456699 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
19456636 CTATTATCGA
* *
19456646 ACCACTAATCAAGCTATCCAACTACCAT
1 ACCACTAATCAAGCCATCCAACAACCAT
19456674 ACCACT-ATCAA-CCATCCTAACAACCA
1 ACCACTAATCAAGCCATCC-AACAACCA
19456700 CCATATAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 12 0.52
28 6 0.26
ACGTcount: A:0.41, C:0.39, G:0.02, T:0.19
Consensus pattern (28 bp):
ACCACTAATCAAGCCATCCAACAACCAT
Found at i:19462451 original size:17 final size:17
Alignment explanation
Indices: 19462429--19462469 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
19462419 ATGTTTCATG
19462429 AAGAAGAAATGGTCCTA
1 AAGAAGAAATGGTCCTA
19462446 AAGAAGAAATGGTCCTA
1 AAGAAGAAATGGTCCTA
19462463 AAGAAGA
1 AAGAAGA
19462470 TTTTGCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.51, C:0.10, G:0.24, T:0.15
Consensus pattern (17 bp):
AAGAAGAAATGGTCCTA
Found at i:19462670 original size:24 final size:25
Alignment explanation
Indices: 19462636--19462690 Score: 103
Period size: 24 Copynumber: 2.2 Consensus size: 25
19462626 TTTTGCTTAA
19462636 AAAAAACCTAAAAAAAAAGCATTAT
1 AAAAAACCTAAAAAAAAAGCATTAT
19462661 AAAAAA-CTAAAAAAAAAGCATTAT
1 AAAAAACCTAAAAAAAAAGCATTAT
19462685 AAAAAA
1 AAAAAA
19462691 AAAAGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.73, C:0.09, G:0.04, T:0.15
Consensus pattern (25 bp):
AAAAAACCTAAAAAAAAAGCATTAT
Found at i:19462699 original size:24 final size:24
Alignment explanation
Indices: 19462636--19462702 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
19462626 TTTTGCTTAA
*
19462636 AAAAAACCTAAAAAAAAAGCATTAT
1 AAAAAA-CAAAAAAAAAAGCATTAT
*
19462661 AAAAAACTAAAAAAAAAGCATTAT
1 AAAAAACAAAAAAAAAAGCATTAT
19462685 AAAAAA-AAAAGAAAAAAG
1 AAAAAACAAAA-AAAAAAG
19462703 AAAAAGATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 3 0.08
24 31 0.77
25 6 0.15
ACGTcount: A:0.75, C:0.07, G:0.06, T:0.12
Consensus pattern (24 bp):
AAAAAACAAAAAAAAAAGCATTAT
Found at i:19463621 original size:51 final size:51
Alignment explanation
Indices: 19463566--19463664 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
19463556 TGTTCTTCTG
* *
19463566 GTCATTCGTTATTTCAGACTTACAATGTTATCTTAATCATCCTTTATTGTA
1 GTCATTAGTTATTTCAGACTTACAATGTTATCCTAATCATCCTTTATTGTA
* ** *** *
19463617 GTCATTATTTATTTTTGACTTATGGTGTTGTCCTAATCATCCTTTATT
1 GTCATTAGTTATTTCAGACTTACAATGTTATCCTAATCATCCTTTATT
19463665 TCTAACTTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (51 bp):
GTCATTAGTTATTTCAGACTTACAATGTTATCCTAATCATCCTTTATTGTA
Found at i:19463681 original size:35 final size:35
Alignment explanation
Indices: 19463624--19463895 Score: 128
Period size: 35 Copynumber: 7.7 Consensus size: 35
19463614 GTAGTCATTA
* * * *
19463624 TTTATTTTTGACTTATGGTGTTGTCCTAATCATCC
1 TTTATTTCTAACTTGTGATGTTGTCCTAATCATCC
* *
19463659 TTTATTTCTAACTTGTGATGTTGTTCC-AGTCATTC
1 TTTATTTCTAACTTGTGATGTTG-TCCTAATCATCC
* *
19463694 ATTATTTCTAACTTGTGATATTGT-CTCAGA-CATTCC
1 TTTATTTCTAACTTGTGATGTTGTCCT-A-ATCA-TCC
* * * * *
19463730 -CTATTTTTTACTTGTGATGTTGTCCTAGTCATTC
1 TTTATTTCTAACTTGTGATGTTGTCCTAATCATCC
* * * * * * **
19463764 ATTATTTTTGACTTGTGGTGTTATCTTGGTCATCC
1 TTTATTTCTAACTTGTGATGTTGTCCTAATCATCC
* *
19463799 TTTATTT-TAAACTTGTGGTGTTGT-CTCGATCATCC
1 TTTATTTCT-AACTTGTGATGTTGTCCT-AATCATCC
** * * * *
19463834 TTTAGTTT-TGGCTTTTGGTATTGT-CTCAATCATTC
1 TTTA-TTTCTAACTTGTGATGTTGTCCT-AATCATCC
* *
19463869 ATTATTTTCTAACTTGCGATGTTGTCC
1 TTTA-TTTCTAACTTGTGATGTTGTCC
19463896 CGGTAGTTTG
Statistics
Matches: 182, Mismatches: 42, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
33 1 0.01
34 5 0.03
35 154 0.85
36 21 0.12
37 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (35 bp):
TTTATTTCTAACTTGTGATGTTGTCCTAATCATCC
Found at i:19463805 original size:70 final size:70
Alignment explanation
Indices: 19463615--19463895 Score: 237
Period size: 70 Copynumber: 4.0 Consensus size: 70
19463605 TCCTTTATTG
* * * *
19463615 TAGTCATT-ATTTATTTTTGACTTATGGTGTTGTCCTAATCATCCTTTATTTCTAACTTGTGATG
1 TAGTCATTCA-TTATTTTTGACTTGTGGTGTTGTCTTAGTCATCCTTTATTTTTAACTTGTGATG
19463679 TTGTTCC
65 TTG-TCC
* * * * * * * *
19463686 -AGTCATTCATTATTTCTAACTTGTGATATTGTCTCAGACATTCC-CTATTTTTTACTTGTGATG
1 TAGTCATTCATTATTTTTGACTTGTGGTGTTGTCTTAGTCA-TCCTTTATTTTTAACTTGTGATG
19463749 TTGTCC
65 TTGTCC
* * * *
19463755 TAGTCATTCATTATTTTTGACTTGTGGTGTTATCTTGGTCATCCTTTATTTTAAACTTGTGGTGT
1 TAGTCATTCATTATTTTTGACTTGTGGTGTTGTCTTAGTCATCCTTTATTTTTAACTTGTGATGT
19463820 TGT-C
66 TGTCC
* * * * * * * * * * * *
19463824 TCGATCATCCTTTAGTTTTGGCTTTTGGTATTGTCTCAATCATTCATTATTTTCTAACTTGCGAT
1 TAG-TCATTCATTATTTTTGACTTGTGGTGTTGTCTTAGTCATCCTTTATTTT-TAACTTGTGAT
19463889 GTTGTCC
64 GTTGTCC
19463896 CGGTAGTTTG
Statistics
Matches: 163, Mismatches: 40, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
69 9 0.06
70 136 0.83
71 17 0.10
72 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (70 bp):
TAGTCATTCATTATTTTTGACTTGTGGTGTTGTCTTAGTCATCCTTTATTTTTAACTTGTGATGT
TGTCC
Found at i:19464086 original size:36 final size:36
Alignment explanation
Indices: 19464046--19464126 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
19464036 CCGATCGTCT
** * *
19464046 TTTATTTTTTGATTTGTGATGTTGTCTTGGCCATTC
1 TTTATTTTTTGATTTGCAATATTGTCTTCGCCATTC
* * *
19464082 TTTATTTTTTTATTTGCAATATTGTCTTCGTCGTTC
1 TTTATTTTTTGATTTGCAATATTGTCTTCGCCATTC
19464118 TTTATTTTT
1 TTTATTTTT
19464127 AACAAAAACA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.12, C:0.11, G:0.14, T:0.63
Consensus pattern (36 bp):
TTTATTTTTTGATTTGCAATATTGTCTTCGCCATTC
Found at i:19464141 original size:4 final size:4
Alignment explanation
Indices: 19464132--19464164 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
19464122 TTTTTAACAA
19464132 AAAC AAAC AAAC AAAC AAAC --AC AAAC AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
19464165 AAAGGGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.07
4 25 0.93
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:19464146 original size:14 final size:14
Alignment explanation
Indices: 19464127--19464166 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
19464117 CTTTATTTTT
19464127 AACAAA-AACAAACA
1 AACAAACAA-AAACA
*
19464141 AACAAACAAACACA
1 AACAAACAAAAACA
19464155 AACAAACAAAAA
1 AACAAACAAAAA
19464167 AGGGGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.78, C:0.23, G:0.00, T:0.00
Consensus pattern (14 bp):
AACAAACAAAAACA
Found at i:19464150 original size:18 final size:18
Alignment explanation
Indices: 19464127--19464164 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
19464117 CTTTATTTTT
19464127 AACAAAAACAAACAAACA
1 AACAAAAACAAACAAACA
*
19464145 AACAAACACAAACAAACA
1 AACAAAAACAAACAAACA
19464163 AA
1 AA
19464165 AAAGGGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (18 bp):
AACAAAAACAAACAAACA
Found at i:19464434 original size:3 final size:3
Alignment explanation
Indices: 19464426--19464599 Score: 59
Period size: 3 Copynumber: 58.3 Consensus size: 3
19464416 GTCAATGGTC
* * *
19464426 ATA ATA ATA ATA ATA ATA ATA ATA A-A TTA A-A A-A ATTA AAA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * * * *
19464469 ATA A-A A-A ATTG A-A ATT ATAA ATT ATAA ATT ATA CATT ATA A-A ATA
1 ATA ATA ATA A-TA ATA ATA AT-A ATA AT-A ATA ATA -ATA ATA ATA ATA
*
19464514 ATTA ATA ACTA ATA AT- ATA A-A A-A ATTA AAA ATTA A-A AT- ATA ATA
1 A-TA ATA A-TA ATA ATA ATA ATA ATA A-TA ATA A-TA ATA ATA ATA ATA
*
19464558 A-A ATA ATA ATA ATA ATGC ATA ATA ATA CATA ATAA ATA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA AT-A ATA ATA A
19464600 AAAATATATA
Statistics
Matches: 131, Mismatches: 18, Indels: 44
0.68 0.09 0.23
Matches are distributed among these distances:
2 24 0.18
3 80 0.61
4 27 0.21
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19464556 original size:41 final size:41
Alignment explanation
Indices: 19464426--19464571 Score: 110
Period size: 41 Copynumber: 3.6 Consensus size: 41
19464416 GTCAATGGTC
**
19464426 ATAATAATAATAATAATAATAATAA-ATTAAAAAATTAAAAAAA
1 ATAA-AATAATAA-AATAATAATAATA-TAAAAAATTAAAAATT
* * * * *
19464469 ATAAAA-AATTGAAAT--T-ATAA-ATTATAAATTATACATT
1 ATAAAATAA-TAAAATAATAATAATATAAAAAATTAAAAATT
*
19464506 ATAAAATAAT-TAATAACTAATAATATAAAAAATTAAAAATT
1 ATAAAATAATAAAATAA-TAATAATATAAAAAATTAAAAATT
19464547 A-AAATATAATAAAATAATAATAATA
1 ATAAA-ATAATAAAATAATAATAATA
19464572 ATGCATAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
36 3 0.04
37 17 0.21
38 7 0.09
39 2 0.02
40 7 0.09
41 32 0.40
42 9 0.11
43 4 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (41 bp):
ATAAAATAATAAAATAATAATAATATAAAAAATTAAAAATT
Found at i:19464561 original size:10 final size:11
Alignment explanation
Indices: 19464506--19464610 Score: 58
Period size: 10 Copynumber: 9.1 Consensus size: 11
19464496 ATTATACATT
19464506 ATAAAATAATTA
1 ATAAAATAA-TA
19464518 ATAACTAATAATA
1 ATAA--AATAATA
* *
19464531 TAAAAAATTAAAA
1 -ATAAAA-TAATA
19464544 ATTAAAAT-ATA
1 A-TAAAATAATA
19464555 ATAAAATAATA
1 ATAAAATAATA
*
19464566 AT--AATAATGC
1 ATAAAATAAT-A
19464576 ATAATAATACATA
1 ATAA-AATA-ATA
19464589 AT-AAATAATA
1 ATAAAATAATA
19464599 A-AAAATATATA
1 ATAAAATA-ATA
19464610 A
1 A
19464611 AAGTGGACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 27
0.69 0.06 0.25
Matches are distributed among these distances:
9 6 0.08
10 17 0.23
11 16 0.22
12 9 0.12
13 16 0.22
14 10 0.14
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:19464600 original size:7 final size:7
Alignment explanation
Indices: 19464426--19464610 Score: 68
Period size: 7 Copynumber: 26.6 Consensus size: 7
19464416 GTCAATGGTC
19464426 ATAAT-A
1 ATAATAA
19464432 ATAAT-A
1 ATAATAA
19464438 ATAAT-A
1 ATAATAA
19464444 ATAATAA
1 ATAATAA
*
19464451 ATTAAAAA
1 A-TAATAA
19464459 ATTAA-AA
1 A-TAATAA
*
19464466 AAAATAA
1 ATAATAA
*
19464473 AAAATTGAA
1 ATAA-T-AA
*
19464482 ATTATAA
1 ATAATAA
*
19464489 ATTATAA
1 ATAATAA
* *
19464496 ATTATAC
1 ATAATAA
*
19464503 ATTAT-A
1 ATAATAA
19464509 A-AATAA
1 ATAATAA
*
19464515 TTAATAA
1 ATAATAA
*
19464522 CTAATAA
1 ATAATAA
*
19464529 TATAAAAA
1 -ATAATAA
19464537 ATTAA-AA
1 A-TAATAA
19464544 ATTAA-AA
1 A-TAATAA
19464551 TATAATAAA
1 -ATAAT-AA
19464560 ATAAT-A
1 ATAATAA
19464566 ATAAT-A
1 ATAATAA
*
19464572 ATGCAT-A
1 AT-AATAA
*
19464579 ATAATAC
1 ATAATAA
19464586 ATAATAA
1 ATAATAA
19464593 ATAATAA
1 ATAATAA
* *
19464600 AAAATAT
1 ATAATAA
19464607 ATAA
1 ATAA
19464611 AAGTGGACCA
Statistics
Matches: 147, Mismatches: 18, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
5 2 0.01
6 32 0.22
7 81 0.55
8 26 0.18
9 6 0.04
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (7 bp):
ATAATAA
Found at i:19465484 original size:65 final size:66
Alignment explanation
Indices: 19465356--19465486 Score: 176
Period size: 65 Copynumber: 2.0 Consensus size: 66
19465346 GTGGCGGAGG
* * * * *
19465356 CTTGGAGCTTCATTTTTTTACTTTATGTTATTTTATTTTTCTAGTTCTTATGGCGTGATATTTGG
1 CTTGGAGCTTCATCTTTTTACTTTATGTTATTTTATTTTGCTAGTTCTTATAGCATGAGATTTGG
19465421 T
66 T
* *
19465422 CTTGGAGCTTCA-CTTTTTAGTTTATTTTATTTTATTTTGCTAG-TCATTATAGCATGAGATTTG
1 CTTGGAGCTTCATCTTTTTACTTTATGTTATTTTATTTTGCTAGTTC-TTATAGCATGAGATTTG
19465485 GT
65 GT
19465487 TGCAGAGGCC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
64 2 0.04
65 43 0.75
66 12 0.21
ACGTcount: A:0.18, C:0.11, G:0.17, T:0.55
Consensus pattern (66 bp):
CTTGGAGCTTCATCTTTTTACTTTATGTTATTTTATTTTGCTAGTTCTTATAGCATGAGATTTGG
T
Found at i:19465792 original size:27 final size:29
Alignment explanation
Indices: 19465748--19465803 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
19465738 TGAAAAAAGG
19465748 TTTTTTAAAATAATAATAATA-ATAATAA
1 TTTTTTAAAATAATAATAATATATAATAA
19465776 TTTTTTAAAATAA-AATAATATATAATAA
1 TTTTTTAAAATAATAATAATATATAATAA
19465804 AAGTAATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTTTTAAAATAATAATAATATATAATAA
Found at i:19466237 original size:14 final size:14
Alignment explanation
Indices: 19466214--19466274 Score: 70
Period size: 14 Copynumber: 4.4 Consensus size: 14
19466204 TAAATTGAAA
19466214 CTAAAATTAAAACC
1 CTAAAATTAAAACC
*
19466228 CTAAACTTAAAA-C
1 CTAAAATTAAAACC
* * *
19466241 TTTAAATTGAAACC
1 CTAAAATTAAAACC
*
19466255 ATAAAATTAAAACC
1 CTAAAATTAAAACC
19466269 CTAAAA
1 CTAAAA
19466275 GAAACCTGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
13 9 0.24
14 28 0.76
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.25
Consensus pattern (14 bp):
CTAAAATTAAAACC
Found at i:19466273 original size:27 final size:27
Alignment explanation
Indices: 19466217--19466273 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
19466207 ATTGAAACTA
* * **
19466217 AAATTAAAACCCTAAACTTAAAACTTT
1 AAATTAAAACCATAAAATTAAAACCCT
*
19466244 AAATTGAAACCATAAAATTAAAACCCT
1 AAATTAAAACCATAAAATTAAAACCCT
19466271 AAA
1 AAA
19466274 AGAAACCTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.25
Consensus pattern (27 bp):
AAATTAAAACCATAAAATTAAAACCCT
Found at i:19469994 original size:19 final size:19
Alignment explanation
Indices: 19469976--19470149 Score: 143
Period size: 19 Copynumber: 9.1 Consensus size: 19
19469966 GTTTAGGGTC
*
19469976 TAGGGTTTGGATGGTGGTC
1 TAGGGTTTGGATGGTGGTT
*
19469995 TAGGGTTTGGATGATGGTT
1 TAGGGTTTGGATGGTGGTT
*
19470014 TAAGGTTTGGATGGTGGTT
1 TAGGGTTTGGATGGTGGTT
* * *
19470033 TAAGGTTTGGAATGATAG-T
1 TAGGGTTTGG-ATGGTGGTT
* *** *
19470052 TGGGGTTCAAATAGTGGTT
1 TAGGGTTTGGATGGTGGTT
* *
19470071 TAGGGTTTGGGTGCTGGTT
1 TAGGGTTTGGATGGTGGTT
* * * *
19470090 TAAGGTTAAGAATGGTGCTT
1 TAGGGTT-TGGATGGTGGTT
** *
19470110 TAGGGTTTAAATGGTTGTT
1 TAGGGTTTGGATGGTGGTT
19470129 TAGGGTTTGGATGGTGGTT
1 TAGGGTTTGGATGGTGGTT
19470148 TA
1 TA
19470150 TAGTATGGAA
Statistics
Matches: 117, Mismatches: 35, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
18 4 0.03
19 95 0.81
20 18 0.15
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.40
Consensus pattern (19 bp):
TAGGGTTTGGATGGTGGTT
Found at i:19470041 original size:57 final size:56
Alignment explanation
Indices: 19469979--19470149 Score: 164
Period size: 57 Copynumber: 3.0 Consensus size: 56
19469969 TAGGGTCTAG
** *
19469979 GGTTTGGATGGTGGTCTAGGGTTTGGATGATGGTTTAAGGTTTGGATGGTGGTTTAA
1 GGTTTGGATGGTGGT-TAGGGTTTAAATGATGGTTTAGGGTTTGGATGGTGGTTTAA
* * * * * *
19470036 GGTTTGGAATGATAGTTGGGGTTCAAAT-AGTGGTTTAGGGTTTGGGTGCTGGTTTAA
1 GGTTTGG-ATGGTGGTTAGGGTTTAAATGA-TGGTTTAGGGTTTGGATGGTGGTTTAA
* * * * *
19470093 GGTTAAGAATGGTGCTTTAGGGTTTAAATGGTTGTTTAGGGTTTGGATGGTGGTTTA
1 GGTT-TGGATGGTG-GTTAGGGTTTAAATGATGGTTTAGGGTTTGGATGGTGGTTTA
19470150 TAGTATGGAA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
56 1 0.01
57 47 0.53
58 41 0.46
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.40
Consensus pattern (56 bp):
GGTTTGGATGGTGGTTAGGGTTTAAATGATGGTTTAGGGTTTGGATGGTGGTTTAA
Found at i:19472663 original size:50 final size:47
Alignment explanation
Indices: 19472541--19473002 Score: 375
Period size: 49 Copynumber: 9.5 Consensus size: 47
19472531 GCTAAAAAAT
* * *
19472541 TTTAAAAATCTCATTT-AAAAACGCTCTTCTAAACATAGGTAGAAAAC
1 TTTAAAAATCTCATTTGAAAAAGGCT-TTATAAACATAGGTAGAGAAC
*
19472588 TTTAAAAATCTCGTTTTGAAAAAGGCTTATATAAACATAGGTAGAGAAC
1 TTTAAAAATCTC-ATTTGAAAAAGGCTT-TATAAACATAGGTAGAGAAC
* **
19472637 TTTTAAAAATTTCATGTTGAAAAAGGCTCTTATAAACATAAATAGAGAAC
1 -TTTAAAAATCTCAT-TTGAAAAAGGCT-TTATAAACATAGGTAGAGAAC
*
19472687 TTTAAAAATCTCACTTTGAAAAAGACTTTTATAAACATA-G--GA-AAC
1 TTTAAAAATCTCA-TTTGAAAAAGGC-TTTATAAACATAGGTAGAGAAC
* * * * * *
19472732 TTTAAAAATATCTTTTTAAAAAGGCTCTTGTAAACATAGGTAGGGAAT
1 TTTAAAAATCTCATTTGAAAAAGGCT-TTATAAACATAGGTAGAGAAC
* *
19472780 TTTAAAAATCTCACTTTGAAAAAAGGCTCCTATAAACATAGGCA-AGAAAC
1 TTTAAAAATCTCA-TTTG-AAAAAGGCT-TTATAAACATAGGTAGAG-AAC
* * * *
19472830 TTTAAAAATCTCATTTTAGAAAAGGTTTTTATAAAGATAAGTAGAGAAC
1 TTTAAAAATCTCATTTGA-AAAAGG-CTTTATAAACATAGGTAGAGAAC
* * * * * * * *
19472879 TTTAAAAATCTCACTTTAAAAAAAGATTCTACAAGCATCA-ATAAAAAAC
1 TTTAAAAATCTCA-TTTGAAAAAGGCTT-TATAAACAT-AGGTAGAGAAC
* *
19472928 TTTAAAAATCTCATGTTAAAAAAGGGCTCTTATAAACATAGGCA-AGGAAC
1 TTTAAAAATCTCAT-TTGAAAAA-GGCT-TTATAAACATAGGTAGA-GAAC
19472978 TTTAAAAATCTTGC-TTTGAAAAAGG
1 TTTAAAAATC-T-CATTTGAAAAAGG
19473003 TATTACAAAT
Statistics
Matches: 337, Mismatches: 49, Indels: 56
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.00
44 20 0.06
45 15 0.04
46 2 0.01
47 13 0.04
48 21 0.06
49 142 0.42
50 118 0.35
51 4 0.01
52 1 0.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (47 bp):
TTTAAAAATCTCATTTGAAAAAGGCTTTATAAACATAGGTAGAGAAC
Found at i:19472688 original size:99 final size:96
Alignment explanation
Indices: 19472541--19473002 Score: 459
Period size: 99 Copynumber: 4.8 Consensus size: 96
19472531 GCTAAAAAAT
* * * * **
19472541 TTTAAAAATCTCA-TTTAAAAACGCTCTTCTAAACATAGGTAGAAAACTTTAAAAATCTCGTTTT
1 TTTAAAAATCTCATTTTAAAAAGGCTCTTATAAACATAAGTAGAGAACTTTAAAAATCTCACTTT
*
19472605 GAAAAAGGCTTATATAAACATAGGTAGAGAAC
66 GAAAAAGGCTTCTATAAACATA-GTAGAGAAC
* * *
19472637 TTTTAAAAATTTCATGTTGAAAAAGGCTCTTATAAACATAAATAGAGAACTTTAAAAATCTCACT
1 -TTTAAAAATCTCAT-TTTAAAAAGGCTCTTATAAACATAAGTAGAGAACTTTAAAAATCTCACT
* *
19472702 TTGAAAAAGACTTTTATAAACATAG--GA-AAC
64 TTGAAAAAGGCTTCTATAAACATAGTAGAGAAC
* * * * * *
19472732 TTTAAAAATATCTTTTTAAAAAGGCTCTTGTAAACATAGGTAGGGAATTTTAAAAATCTCACTTT
1 TTTAAAAATCTCATTTTAAAAAGGCTCTTATAAACATAAGTAGAGAACTTTAAAAATCTCACTTT
* *
19472797 GAAAAAAGGCTCCTATAAACATAGGCA-AGAAAC
66 G-AAAAAGGCTTCTATAAACATA-GTAGAG-AAC
* * *
19472830 TTTAAAAATCTCATTTTAGAAAAGGTTTTTATAAAGATAAGTAGAGAACTTTAAAAATCTCACTT
1 TTTAAAAATCTCATTTTA-AAAAGGCTCTTATAAACATAAGTAGAGAACTTTAAAAATCTCACTT
* * * * * * * *
19472895 TAAAAAAAGATTCTACAAGCATCAATAAAAAAC
65 TGAAAAAGGCTTCTATAAACAT-AGTAGAGAAC
* * * **
19472928 TTTAAAAATCTCATGTTAAAAAAGGGCTCTTATAAACATAGGCA-AGGAACTTTAAAAATCTTGC
1 TTTAAAAATCTCAT-TTTAAAAA-GGCTCTTATAAACATAAGTAGA-GAACTTTAAAAATCTCAC
19472992 TTTGAAAAAGG
63 TTTGAAAAAGG
19473003 TATTACAAAT
Statistics
Matches: 301, Mismatches: 50, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
93 46 0.15
94 30 0.10
95 4 0.01
96 3 0.01
97 12 0.04
98 58 0.19
99 148 0.49
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (96 bp):
TTTAAAAATCTCATTTTAAAAAGGCTCTTATAAACATAAGTAGAGAACTTTAAAAATCTCACTTT
GAAAAAGGCTTCTATAAACATAGTAGAGAAC
Found at i:19473170 original size:23 final size:23
Alignment explanation
Indices: 19473144--19473191 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
19473134 TATGGTGTGT
19473144 TTGTTTTTCCAAAATCAAATTCA
1 TTGTTTTTCCAAAATCAAATTCA
19473167 TTGTTTTTCCAAAATCAAATTCA
1 TTGTTTTTCCAAAATCAAATTCA
19473190 TT
1 TT
19473192 CTTCATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (23 bp):
TTGTTTTTCCAAAATCAAATTCA
Found at i:19480272 original size:10 final size:10
Alignment explanation
Indices: 19480257--19480295 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
19480247 GTTTTACTAT
19480257 TTATTATTTA
1 TTATTATTTA
19480267 TTATTATTTA
1 TTATTATTTA
*
19480277 TTTATT-TGTA
1 -TTATTATTTA
19480287 TTATTATTT
1 TTATTATTT
19480296 TAATTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTATTATTTA
Found at i:19480276 original size:17 final size:20
Alignment explanation
Indices: 19480254--19480295 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
19480244 ATTGTTTTAC
*
19480254 TATTTATTATTTATTATTATT
1 TATTTATT-TGTATTATTATT
19480275 TATTTATTTGTATTATTATT
1 TATTTATTTGTATTATTATT
19480295 T
1 T
19480296 TAATTATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TATTTATTTGTATTATTATT
Found at i:19480521 original size:19 final size:19
Alignment explanation
Indices: 19480466--19480508 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
19480456 TTTAATTTGG
*
19480466 GGTTTCACTTAGGGTTTAA
1 GGTTTCACCTAGGGTTTAA
19480485 GGTTTCACCTAGGGTTTAA
1 GGTTTCACCTAGGGTTTAA
19480504 GGTTT
1 GGTTT
19480509 TGCCTTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.42
Consensus pattern (19 bp):
GGTTTCACCTAGGGTTTAA
Found at i:19481182 original size:3 final size:3
Alignment explanation
Indices: 19481174--19481199 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19481164 TTTGTTGAGT
19481174 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
19481200 TAAACGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19481259 original size:2 final size:2
Alignment explanation
Indices: 19481254--19481279 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19481244 GCAAAACCAG
19481254 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
19481280 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19481731 original size:1 final size:1
Alignment explanation
Indices: 19481725--19481755 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
19481715 AACTATCGTT
19481725 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19481756 GGTACCCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19482691 original size:2 final size:2
Alignment explanation
Indices: 19482684--19482747 Score: 76
Period size: 2 Copynumber: 32.5 Consensus size: 2
19482674 GTTTCCTTAT
* * *
19482684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
19482726 TT TA TA TA -A TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
19482748 TTTGGACTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:19482847 original size:7 final size:7
Alignment explanation
Indices: 19482835--19482949 Score: 79
Period size: 7 Copynumber: 15.0 Consensus size: 7
19482825 TTAGGCCAAG
19482835 TTATTTT
1 TTATTTT
19482842 TTATTTT
1 TTATTTT
*
19482849 TTA-TAT
1 TTATTTT
19482855 TTATATTT
1 TTAT-TTT
*
19482863 ATATTTAAT
1 TTATTT--T
19482872 ATTATTGTAT
1 -TTATT-T-T
* *
19482882 TTATATC
1 TTATTTT
*
19482889 TTATATT
1 TTATTTT
19482896 TTATTTTT
1 TTA-TTTT
19482904 TTATTTTT
1 TTA-TTTT
19482912 TTATTTT
1 TTATTTT
19482919 TTATTTT
1 TTATTTT
19482926 TTATTTT
1 TTATTTT
19482933 TATATTATTT
1 T-TA-T-TTT
19482943 TTATTTT
1 TTATTTT
19482950 GTTTAATGGC
Statistics
Matches: 90, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
6 5 0.06
7 43 0.48
8 23 0.26
9 8 0.09
10 10 0.11
11 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:19482907 original size:8 final size:8
Alignment explanation
Indices: 19482894--19482954 Score: 81
Period size: 8 Copynumber: 7.6 Consensus size: 8
19482884 ATATCTTATA
19482894 TTTTATTT
1 TTTTATTT
19482902 TTTTATTT
1 TTTTATTT
19482910 TTTTA-TT
1 TTTTATTT
19482917 TTTTA-TT
1 TTTTATTT
19482924 TTTTATTT
1 TTTTATTT
*
19482932 TTATATTAT
1 TTTTATT-T
19482941 TTTTATTT
1 TTTTATTT
19482949 TGTTTA
1 T-TTTA
19482955 ATGGCCAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
7 14 0.29
8 23 0.48
9 11 0.23
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Found at i:19482910 original size:6 final size:6
Alignment explanation
Indices: 19482839--19482949 Score: 61
Period size: 6 Copynumber: 18.7 Consensus size: 6
19482829 GCCAAGTTAT
* * * * * * *
19482839 TTTTTA TTTTTTA TATTTA TATTTA TATTTA ATATTA -TTGTA TTTATA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
19482887 -TCTTA TATTTTA TTTTT- TTATT- TTTTTA TTTTTTA TTTTTTA TTTTTA
1 TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTTTTA
*
19482935 -TATTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTT
19482950 GTTTAATGGC
Statistics
Matches: 84, Mismatches: 14, Indels: 13
0.76 0.13 0.12
Matches are distributed among these distances:
5 18 0.21
6 42 0.50
7 24 0.29
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:19482928 original size:30 final size:31
Alignment explanation
Indices: 19482835--19482949 Score: 98
Period size: 30 Copynumber: 3.8 Consensus size: 31
19482825 TTAGGCCAAG
*
19482835 TTATTTTT-TA-T-TTTTTA-TATTTATA-T
1 TTATTTTTATATTATTTTTATTTTTTATATT
* * *
19482861 TTATATTTAATATTATTGTATTTATATCTTATATT
1 TTAT-TTTTATATTA-T-T-TTTATTTTTTATATT
* *
19482896 TTATTTTTTTATT-TTTTTATTTTTTATTTT
1 TTATTTTTATATTATTTTTATTTTTTATATT
19482926 TTATTTTTATATTATTTTTATTTT
1 TTATTTTTATATTATTTTTATTTT
19482950 GTTTAATGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
26 4 0.06
27 3 0.04
28 2 0.03
29 1 0.01
30 24 0.35
31 12 0.17
32 2 0.03
33 4 0.06
34 12 0.17
35 5 0.07
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.76
Consensus pattern (31 bp):
TTATTTTTATATTATTTTTATTTTTTATATT
Found at i:19483300 original size:8 final size:8
Alignment explanation
Indices: 19483289--19483336 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
19483279 TTTTTTTTAA
19483289 TTTTTTTG
1 TTTTTTTG
*
19483297 TTTTTTGG
1 TTTTTTTG
19483305 TTTTTTTTG
1 -TTTTTTTG
**
19483314 TTTTTCGG
1 TTTTTTTG
19483322 TTTTTTTG
1 TTTTTTTG
19483330 TTTTTTT
1 TTTTTTT
19483337 TTGTTTGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 26 0.79
9 7 0.21
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (8 bp):
TTTTTTTG
Found at i:19483300 original size:16 final size:16
Alignment explanation
Indices: 19483281--19483335 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
19483271 TCCTTTTATT
*
19483281 TTTTTTAATTTTTTTG
1 TTTTTTGATTTTTTTG
*
19483297 TTTTTTGGTTTTTTTTG
1 TTTTTT-GATTTTTTTG
* *
19483314 TTTTTCGGTTTTTTTG
1 TTTTTTGATTTTTTTG
19483330 TTTTTT
1 TTTTTT
19483336 TTTGTTTGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.04, C:0.02, G:0.13, T:0.82
Consensus pattern (16 bp):
TTTTTTGATTTTTTTG
Found at i:19483300 original size:17 final size:17
Alignment explanation
Indices: 19483280--19483336 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
19483270 CTCCTTTTAT
*
19483280 TTTTTTTAATTTTTTTG
1 TTTTTTTGATTTTTTTG
* *
19483297 TTTTTTGGTTTTTTTTG
1 TTTTTTTGATTTTTTTG
* *
19483314 -TTTTTCGGTTTTTTTG
1 TTTTTTTGATTTTTTTG
19483330 TTTTTTT
1 TTTTTTT
19483337 TTGTTTGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 14 0.42
17 19 0.58
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (17 bp):
TTTTTTTGATTTTTTTG
Found at i:19483308 original size:25 final size:25
Alignment explanation
Indices: 19483280--19483336 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
19483270 CTCCTTTTAT
**
19483280 TTTTTTTAATTTTTTTGTTTTTTGG
1 TTTTTTTAATTTTTCGGTTTTTTGG
** *
19483305 TTTTTTTTGTTTTTCGGTTTTTTTG
1 TTTTTTTAATTTTTCGGTTTTTTGG
19483330 TTTTTTT
1 TTTTTTT
19483337 TTGTTTGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (25 bp):
TTTTTTTAATTTTTCGGTTTTTTGG
Found at i:19483441 original size:36 final size:36
Alignment explanation
Indices: 19483354--19483443 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 36
19483344 CTTTTTTTTT
* ***
19483354 AGAACAATCGGGACAACACCGTAAGTTGGGTAATAA
1 AGAACAATCGGGATAACACCGTAAGTCAAGTAATAA
* * *
19483390 AGAATAATCGAGATAATACCGTAAGTCAAGTAATAA
1 AGAACAATCGGGATAACACCGTAAGTCAAGTAATAA
* *
19483426 TGAACGATCGGGATAACA
1 AGAACAATCGGGATAACA
19483444 TCACAAGGCA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (36 bp):
AGAACAATCGGGATAACACCGTAAGTCAAGTAATAA
Found at i:19483700 original size:35 final size:35
Alignment explanation
Indices: 19483605--19483739 Score: 123
Period size: 35 Copynumber: 3.9 Consensus size: 35
19483595 AATAGTAAAA
* * *
19483605 GACCAAGACACCACCACAAGTCAAAAATAAAAGA-
1 GACCAAGACAACATCACAAGTCAGAAATAAAAGAT
* ** ** *
19483639 GATCGGGACAACATCGTAAGTCAGAAAT-AACGAAT
1 GACCAAGACAACATCACAAGTCAGAAATAAAAG-AT
*
19483674 GACCAAGACAACA-CTACAAGTGAGAAATAAAAGAT
1 GACCAAGACAACATC-ACAAGTCAGAAATAAAAGAT
* *
19483709 TACCAAGACAACATCACAAGTTAGAAATAAA
1 GACCAAGACAACATCACAAGTCAGAAATAAA
19483740 CATCATAAAT
Statistics
Matches: 78, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
33 3 0.04
34 22 0.28
35 49 0.63
36 4 0.05
ACGTcount: A:0.52, C:0.20, G:0.16, T:0.13
Consensus pattern (35 bp):
GACCAAGACAACATCACAAGTCAGAAATAAAAGAT
Found at i:19484112 original size:34 final size:32
Alignment explanation
Indices: 19483937--19484931 Score: 335
Period size: 33 Copynumber: 30.2 Consensus size: 32
19483927 GATTAAGACA
* * *
19483937 AAATTTTCATTGGTG-CTACTTAGACTAGGCTT
1 AAATTTTCATTGGTGCCAAC-TAAACTGGGCTT
* * *
19483969 AAATTTTCTTTGGTGCCAACTACAC-GAGCTT
1 AAATTTTCATTGGTGCCAACTAAACTGGGCTT
* **
19484000 AAATCTTTTCATGAGGTGCCAACTAAGTTGGGCTT
1 AAA--TTTTCAT-TGGTGCCAACTAAACTGGGCTT
* * * * * *
19484035 AAATGTTCATTGGAGCTAGCTAATCTAGGCTT
1 AAATTTTCATTGGTGCCAACTAAACTGGGCTT
* * * *
19484067 AAATTCTCATTGAGTGCTAACTAAAGTGGGTTT
1 AAATTTTCATTG-GTGCCAACTAAACTGGGCTT
19484100 AAATCTTTCATTGGATGCCAACTAAACTGGGCTT
1 AAAT-TTTCATTGG-TGCCAACTAAACTGGGCTT
* **
19484134 AAATTTTTATTGGTGCCAGTTAATACTGGGCTT
1 AAATTTTCATTGGTGCCAACTAA-ACTGGGCTT
*
19484167 AAA---AC-TTGGGTGCCAACTAAA-TAGGGCTT
1 AAATTTTCATT-GGTGCCAACTAAACT-GGGCTT
* * * *
19484196 AAATTTTTTCA-TGATATGCCAGCTAAACTAGGCTA
1 AAA--TTTTCATTG--GTGCCAACTAAACTGGGCTT
* * * * *
19484231 AAATGTTTCTTTGATACC-AGTCAAACTAGGCTT
1 AAAT-TTTCATTGGTGCCAACT-AAACTGGGCTT
** * *
19484264 AAATCTTTCATTAATACC-AGTCAAACT-GGC-T
1 AAAT-TTTCATTGGTGCCAACT-AAACTGGGCTT
*
19484295 AAATCTTTCTATAAT-GTGCCAACTAAACTAGGCTT
1 AAAT-TTTC-AT--TGGTGCCAACTAAACTGGGCTT
* * ** *
19484330 AAATCTTTCATTGATACCAGTTAAACTAGGCTT
1 AAAT-TTTCATTGGTGCCAACTAAACTGGGCTT
* * *
19484363 AAA---AC-TTGGGTGCCAACTAAACTGAGCCT
1 AAATTTTCATT-GGTGCCAACTAAACTGGGCTT
* * *
19484392 AAATTTT-TTATGATGTGCCAACAAAACTAGGCTT
1 AAATTTTCAT-TG--GTGCCAACTAAACTGGGCTT
*
19484426 AAATTCTTTCATGAGGTGCCAACTAAACTGGGCTT
1 AAA-T-TTTCAT-TGGTGCCAACTAAACTGGGCTT
* * *
19484461 ACAA---T-ATGGGTGACAGCTAAACTGGGCTT
1 A-AATTTTCATTGGTGCCAACTAAACTGGGCTT
*
19484490 AAATCTTTCA-TGATGTGCCAA-TAAAACTAGGCTT
1 AAAT-TTTCATTG--GTGCCAACT-AAACTGGGCTT
* * *
19484524 AAATTCTTTCATGGGGTGCCAACTAAATTAGGCTT
1 AAA-T-TTTCAT-TGGTGCCAACTAAACTGGGCTT
* **
19484559 ATATCTTTTCA-TGAGTGCCAACTAAACTAAGCTT
1 A-A-ATTTTCATTG-GTGCCAACTAAACTGGGCTT
** * * * *
19484593 AAATTTTC-TTAATGTCAGCCAAACTAGGCTT
1 AAATTTTCATTGGTGCCAACTAAACTGGGCTT
* **
19484624 AAATCTTTTCA-TGATATGCCAACTAAACTAAGCTT
1 AAA--TTTTCATTG--GTGCCAACTAAACTGGGCTT
* ** * * * **
19484659 AAGTTTTTC-TTAATGTCAGCCAAACAAGGCTT
1 AA-ATTTTCATTGGTGCCAACTAAACTGGGCTT
19484691 AAATCTTTTCA-TGATGTGCCAGA-TAAACTGGGCTT
1 AAA--TTTTCATTG--GTGCCA-ACTAAACTGGGCTT
* *
19484726 AAATTTTCTTTGGTGCCAAAC-AAACTAGGCTT
1 AAATTTTCATTGGTGCC-AACTAAACTGGGCTT
* * * **
19484758 AAATTTTTTCATAAGGTACCAAATAAACTTAGCTT
1 AAA--TTTTCAT-TGGTGCCAACTAAACTGGGCTT
* * *
19484793 AAATTTTCATTAGTGCCAACAAAAATGGGCTT
1 AAATTTTCATTGGTGCCAACTAAACTGGGCTT
* * *
19484825 AAATTCTTTCATAAGATGCCAACTAAACTAGGCTT
1 AAA-T-TTTCAT-TGGTGCCAACTAAACTGGGCTT
* * * * **
19484860 ACATCTTTTCA-TGAGTGCTAGCTAAACTAGATTT
1 A-A-ATTTTCATTG-GTGCCAACTAAACTGGGCTT
* *
19484894 AAACTTTCATTGGGTGCCAACTAAACTAGGCTT
1 AAATTTTCATT-GGTGCCAACTAAACTGGGCTT
19484927 AAATT
1 AAATT
19484932 CTCGAGGATT
Statistics
Matches: 725, Mismatches: 152, Indels: 171
0.69 0.15 0.16
Matches are distributed among these distances:
28 5 0.01
29 50 0.07
30 12 0.02
31 36 0.05
32 126 0.17
33 175 0.24
34 147 0.20
35 160 0.22
36 11 0.02
37 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (32 bp):
AAATTTTCATTGGTGCCAACTAAACTGGGCTT
Found at i:19484169 original size:67 final size:66
Alignment explanation
Indices: 19483937--19484931 Score: 421
Period size: 67 Copynumber: 15.1 Consensus size: 66
19483927 GATTAAGACA
* * * * * *
19483937 AAATTTTCATTGGTGCTA-CTTAGACTAGGCTTAAAT-TTTCTTTGG-TGCCAACTACACGA-GC
1 AAATTTTTATTGGTGCCAGC-TAAACTAGGCTTAAATCTTTCATTGGATGCCAACTAAACTAGGC
19483998 TT
65 TT
* * ** * * * * *
19484000 AAATCTTTTCATGAGGTGCCAACTAAGTTGGGCTTAAAT-GTTCATTGGA-GCTAGCTAATCTAG
1 AAAT-TTTT-AT-TGGTGCCAGCTAAACTAGGCTTAAATCTTTCATTGGATGCCAACTAAACTAG
19484063 GCTT
63 GCTT
* * * * * * * *
19484067 AAATTCTCATTGAGTGCTAACTAAAGTGGGTTTAAATCTTTCATTGGATGCCAACTAAACTGGGC
1 AAATTTTTATTG-GTGCCAGCTAAACTAGGCTTAAATCTTTCATTGGATGCCAACTAAACTAGGC
19484132 TT
65 TT
* * * *
19484134 AAATTTTTATTGGTGCCAGTTAATACTGGGCTTAAA----AC-TTGGGTGCCAACTAAA-TAGGG
1 AAATTTTTATTGGTGCCAGCTAA-ACTAGGCTTAAATCTTTCATTGGATGCCAACTAAACTA-GG
19484193 CTT
64 CTT
* * * * * *
19484196 AAATTTTT-TCATGATATGCCAGCTAAACTAGGCTAAAATGTTTC-TTTGATACC-AGTCAAACT
1 AAATTTTTAT--TG--GTGCCAGCTAAACTAGGCTTAAATCTTTCATTGGATGCCAACT-AAACT
19484258 AGGCTT
61 AGGCTT
* ** *
19484264 AAATCTTTCATTAATACCAG-TCAAACT-GGC-TAAATCTTTCTATAAT-G-TGCCAACTAAACT
1 AAAT-TTTTATTGGTGCCAGCT-AAACTAGGCTTAAATCTTTC-AT--TGGATGCCAACTAAACT
19484324 AGGCTT
61 AGGCTT
* * * * * *
19484330 AAATCTTTCATTGATACCAGTTAAACTAGGCTTAAA----AC-TTGGGTGCCAACTAAACT-GAG
1 AAAT-TTTTATTGGTGCCAGCTAAACTAGGCTTAAATCTTTCATTGGATGCCAACTAAACTAG-G
*
19484389 CCT
64 CTT
* * *
19484392 AAATTTTT-TATGATGTGCCAACAAAACTAGGCTTAAATTCTTTCA-TGAGGTGCCAACTAAACT
1 AAATTTTTAT-TG--GTGCCAGCTAAACTAGGCTTAAA-TCTTTCATTG-GATGCCAACTAAACT
*
19484455 GGGCTT
61 AGGCTT
* * *
19484461 ACAA----TATGGGTGACAGCTAAACTGGGCTTAAATCTTTCA-T-GATGTGCCAA-TAAAACTA
1 A-AATTTTTATTGGTGCCAGCTAAACTAGGCTTAAATCTTTCATTGGA--TGCCAACT-AAACTA
19484519 GGCTT
62 GGCTT
* * * *
19484524 AAATTCTTTCATGGGGTGCCAACTAAATTAGGCTTATATCTTTTCA-T-GAGTGCCAACTAAACT
1 AAATT-TTT-AT-TGGTGCCAGCTAAACTAGGCTTAAATC-TTTCATTGGA-TGCCAACTAAACT
*
19484587 AAGCTT
61 AGGCTT
* ** * * * *
19484593 AAA-TTTTCTTAATGTCAGCCAAACTAGGCTTAAATCTTTTCA-TGATATGCCAACTAAACTAAG
1 AAATTTTTATTGGTGCCAGCTAAACTAGGCTTAAATC-TTTCATTG-GATGCCAACTAAACTAGG
19484656 CTT
64 CTT
* * ** * * * *
19484659 AAGTTTTTCTTAATGTCAGCCAAACAAGGCTTAAATCTTTTCA-T-GATGTGCCAGA-TAAACTG
1 AAATTTTTATTGGTGCCAGCTAAACTAGGCTTAAATC-TTTCATTGGA--TGCCA-ACTAAACTA
19484721 GGCTT
62 GGCTT
* * * * *
19484726 AAATTTTCT-TTGGTGCCAAAC-AAACTAGGCTTAAATTTTTTCATAAGG-TACCAAATAAACTT
1 AAATTTT-TATTGGTGCC-AGCTAAACTAGGCTTAAA-TCTTTCAT-TGGATGCCAACTAAAC-T
19484788 A-GCTT
61 AGGCTT
* * * * * * **
19484793 AAATTTTCATTAGTGCCAACAAAAATGGGCTTAAATTCTTTCATAAGATGCCAACTAAACTAGGC
1 AAATTTTTATTGGTGCCAGCTAAACTAGGCTTAAA-TCTTTCATTGGATGCCAACTAAACTAGGC
19484858 TT
65 TT
* * ** *
19484860 ACATCTTTTCA-TGAGTGCTAGCTAAACTAGATTTAAA-CTTTCATTGGGTGCCAACTAAACTAG
1 AAAT-TTTT-ATTG-GTGCCAGCTAAACTAGGCTTAAATCTTTCATTGGATGCCAACTAAACTAG
19484923 GCTT
63 GCTT
19484927 AAATT
1 AAATT
19484932 CTCGAGGATT
Statistics
Matches: 728, Mismatches: 123, Indels: 159
0.72 0.12 0.16
Matches are distributed among these distances:
60 2 0.00
61 10 0.01
62 52 0.07
63 50 0.07
64 42 0.06
65 64 0.09
66 135 0.19
67 235 0.32
68 41 0.06
69 83 0.11
70 14 0.02
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (66 bp):
AAATTTTTATTGGTGCCAGCTAAACTAGGCTTAAATCTTTCATTGGATGCCAACTAAACTAGGCT
T
Found at i:19484445 original size:35 final size:34
Alignment explanation
Indices: 19483960--19484930 Score: 484
Period size: 35 Copynumber: 29.4 Consensus size: 34
19483950 TGCTACTTAG
** *
19483960 ACTAGGCTTAAAT-TTTC-TTTGGTGCCAACTAC
1 ACTAGGCTTAAATCTTTCATGAGGTGCCAACTAA
*
19483992 ACGA-GCTTAAATCTTTTCATGAGGTGCCAACTAA
1 ACTAGGCTTAAATC-TTTCATGAGGTGCCAACTAA
** * * * * * *
19484026 GTTGGGCTTAAAT-GTTCAT-TGGAGCTAGCTAA
1 ACTAGGCTTAAATCTTTCATGAGGTGCCAACTAA
* * *
19484058 TCTAGGCTTAAAT-TCTCATTGA-GTGCTAACTAA
1 ACTAGGCTTAAATCTTTCA-TGAGGTGCCAACTAA
* * * *
19484091 AGTGGGTTTAAATCTTTCATTG-GATGCCAACTAA
1 ACTAGGCTTAAATCTTTCA-TGAGGTGCCAACTAA
* * * **
19484125 ACTGGGCTTAAAT-TTTTAT-TGGTGCCAGTTAA
1 ACTAGGCTTAAATCTTTCATGAGGTGCCAACTAA
* *
19484157 TACTGGGCTTAAAAC--T--TG-GGTGCCAACTAA
1 -ACTAGGCTTAAATCTTTCATGAGGTGCCAACTAA
* ** *
19484187 A-TAGGGCTTAAATTTTTTCATGATATGCCAGCTAA
1 ACTA-GGCTTAAA-TCTTTCATGAGGTGCCAACTAA
* * * * *
19484222 ACTAGGCTAAAATGTTTCTTTGA--TACC-AGTCAA
1 ACTAGGCTTAAATCTTTC-ATGAGGTGCCAACT-AA
* * * *
19484255 ACTAGGCTTAAATCTTTCATTA-ATACC-AGTCAA
1 ACTAGGCTTAAATCTTTCATGAGGTGCCAACT-AA
* *
19484288 ACT-GGC-TAAATCTTTCTATAATGTGCCAACTAA
1 ACTAGGCTTAAATCTTTC-ATGAGGTGCCAACTAA
* **
19484321 ACTAGGCTTAAATCTTTCATTGA--TACCAGTTAA
1 ACTAGGCTTAAATCTTTCA-TGAGGTGCCAACTAA
*
19484354 ACTAGGCTTAAAAC--T--TG-GGTGCCAACTAA
1 ACTAGGCTTAAATCTTTCATGAGGTGCCAACTAA
* * * * *
19484383 ACT-GAGCCTAAATTTTTTATGATGTGCCAACAAA
1 ACTAG-GCTTAAATCTTTCATGAGGTGCCAACTAA
19484417 ACTAGGCTTAAATTCTTTCATGAGGTGCCAACTAA
1 ACTAGGCTTAAA-TCTTTCATGAGGTGCCAACTAA
* * *
19484452 ACTGGGCTTACAA----T-ATG-GGTGACAGCTAA
1 ACTAGGCTTA-AATCTTTCATGAGGTGCCAACTAA
* *
19484481 ACTGGGCTTAAATCTTTCATGATGTGCCAA-TAAA
1 ACTAGGCTTAAATCTTTCATGAGGTGCCAACT-AA
*
19484515 ACTAGGCTTAAATTCTTTCATGGGGTGCCAACTAA
1 ACTAGGCTTAAA-TCTTTCATGAGGTGCCAACTAA
* *
19484550 ATTAGGCTTATATCTTTTCATGA-GTGCCAACTAA
1 ACTAGGCTTAAATC-TTTCATGAGGTGCCAACTAA
* * * * * *
19484584 ACTAAGCTTAAAT-TTTC-TTA-ATGTCAGCCAA
1 ACTAGGCTTAAATCTTTCATGAGGTGCCAACTAA
**
19484615 ACTAGGCTTAAATCTTTTCATGATATGCCAACTAA
1 ACTAGGCTTAAATC-TTTCATGAGGTGCCAACTAA
* * * * * * * *
19484650 ACTAAGCTTAAGTTTTTC-TTA-ATGTCAGCCAA
1 ACTAGGCTTAAATCTTTCATGAGGTGCCAACTAA
* *
19484682 ACAAGGCTTAAATCTTTTCATGATGTGCCAGA-TAA
1 ACTAGGCTTAAATC-TTTCATGAGGTGCCA-ACTAA
* **
19484717 ACTGGGCTTAAAT-TTTC-TTTGGTGCCAAAC-AA
1 ACTAGGCTTAAATCTTTCATGAGGTGCC-AACTAA
* * * *
19484749 ACTAGGCTTAAATTTTTTCATAAGGTACCAAATAA
1 ACTAGGCTTAAA-TCTTTCATGAGGTGCCAACTAA
* *
19484784 ACTTA-GCTTAAAT-TTTCATTA-GTGCCAACAAA
1 AC-TAGGCTTAAATCTTTCATGAGGTGCCAACTAA
* * * *
19484816 AATGGGCTTAAATTCTTTCATAAGATGCCAACTAA
1 ACTAGGCTTAAA-TCTTTCATGAGGTGCCAACTAA
* * *
19484851 ACTAGGCTTACATCTTTTCATGA-GTGCTAGCTAA
1 ACTAGGCTTAAATC-TTTCATGAGGTGCCAACTAA
**
19484885 ACTAGATTTAAA-CTTTCATTG-GGTGCCAACTAA
1 ACTAGGCTTAAATCTTTCA-TGAGGTGCCAACTAA
19484918 ACTAGGCTTAAAT
1 ACTAGGCTTAAAT
19484931 TCTCGAGGAT
Statistics
Matches: 717, Mismatches: 149, Indels: 144
0.71 0.15 0.14
Matches are distributed among these distances:
28 6 0.01
29 45 0.06
30 14 0.02
31 43 0.06
32 110 0.15
33 158 0.22
34 153 0.21
35 181 0.25
36 7 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (34 bp):
ACTAGGCTTAAATCTTTCATGAGGTGCCAACTAA
Found at i:19484483 original size:98 final size:97
Alignment explanation
Indices: 19484286--19484559 Score: 324
Period size: 98 Copynumber: 2.8 Consensus size: 97
19484276 AATACCAGTC
* * * *
19484286 AAACTGG-CTAAATCTTTCTATAATGTGCCAACTAAACTAGGCTTAAA-TCTTTCATTGA--TAC
1 AAACTGGCCTAAAT-TTTTTATGATGTGCCAACAAAACTAGGCTTAAATTCTTTCA-TGAGGTGC
** *
19484347 CAGTTAAACTAGGCTTAAAACTTGGGTGCCAACT
64 CAACTAAACTAGGCTTAAAACTTGGGTGACAACT
19484381 AAACTGAGCCTAAATTTTTTATGATGTGCCAACAAAACTAGGCTTAAATTCTTTCATGAGGTGCC
1 AAACTG-GCCTAAATTTTTTATGATGTGCCAACAAAACTAGGCTTAAATTCTTTCATGAGGTGCC
* * *
19484446 AACTAAACTGGGCTTACAA-TATGGGTGACAGCT
65 AACTAAACTAGGCTTAAAACT-TGGGTGACAACT
* * * * *
19484479 AAACTGGGCTTAAATCTTTCATGATGTGCCAATAAAACTAGGCTTAAATTCTTTCATGGGGTGCC
1 AAACT-GGCCTAAATTTTTTATGATGTGCCAACAAAACTAGGCTTAAATTCTTTCATGAGGTGCC
*
19484544 AACTAAATTAGGCTTA
65 AACTAAACTAGGCTTA
19484560 TATCTTTTCA
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
95 6 0.04
96 34 0.22
97 14 0.09
98 100 0.65
99 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (97 bp):
AAACTGGCCTAAATTTTTTATGATGTGCCAACAAAACTAGGCTTAAATTCTTTCATGAGGTGCCA
ACTAAACTAGGCTTAAAACTTGGGTGACAACT
Found at i:19484692 original size:32 final size:33
Alignment explanation
Indices: 19484589--19484700 Score: 115
Period size: 32 Copynumber: 3.4 Consensus size: 33
19484579 ACTAAACTAA
*
19484589 GCTTAAA--TTTTCTTAATGTCAGCCAAACTAG
1 GCTTAAATCTTTTCTTAATGTCAGCCAAACAAG
* * * *
19484620 GCTTAAATCTTTTCATGATATGCCAACTAAACTAA-
1 GCTTAAATCTTTTC-TTA-ATGTCAGCCAAAC-AAG
*
19484655 GCTTAAGT-TTTTCTTAATGTCAGCCAAACAAG
1 GCTTAAATCTTTTCTTAATGTCAGCCAAACAAG
19484687 GCTTAAATCTTTTC
1 GCTTAAATCTTTTC
19484701 ATGATGTGCC
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
31 9 0.14
32 17 0.27
33 12 0.19
34 7 0.11
35 17 0.27
36 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (33 bp):
GCTTAAATCTTTTCTTAATGTCAGCCAAACAAG
Found at i:19484751 original size:32 final size:32
Alignment explanation
Indices: 19484706--19484829 Score: 99
Period size: 32 Copynumber: 3.8 Consensus size: 32
19484696 TTTTCATGAT
* *
19484706 GTGCCAGATAAACTGGGCTTAAATTTTCTTTG
1 GTGCCAAACAAACTGGGCTTAAATTTTCTTTG
*
19484738 GTGCCAAACAAACTAGGCTTAAATTTT-TTCATAAG
1 GTGCCAAACAAACTGGGCTTAAATTTTCTT--T--G
* * ** * *
19484773 GTACCAAATAAACTTAGCTTAAATTTTCATTA
1 GTGCCAAACAAACTGGGCTTAAATTTTCTTTG
*
19484805 GTGCC-AACAAAAATGGGCTTAAATT
1 GTGCCAAAC-AAACTGGGCTTAAATT
19484830 CTTTCATAAG
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
31 4 0.06
32 41 0.57
33 1 0.01
34 1 0.01
35 24 0.33
36 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (32 bp):
GTGCCAAACAAACTGGGCTTAAATTTTCTTTG
Found at i:19485816 original size:23 final size:25
Alignment explanation
Indices: 19485777--19485826 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
19485767 CACCCATTCC
*
19485777 TTTCCTTTTTTTTCTTC-TCTTTCA
1 TTTCCTTTATTTTCTTCATCTTTCA
*
19485801 TTTCC-TTATTTTCTTCATTTTTCA
1 TTTCCTTTATTTTCTTCATCTTTCA
19485825 TT
1 TT
19485827 CTTTCACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTCCTTTATTTTCTTCATCTTTCA
Found at i:19492668 original size:13 final size:13
Alignment explanation
Indices: 19492645--19492692 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
19492635 TTAGAATTTT
*
19492645 ACTTT-GGGTTTT
1 ACTTTAGGGTTTC
19492657 ACTTTAGGGTTTC
1 ACTTTAGGGTTTC
* *
19492670 ACATTAGGGTCTC
1 ACTTTAGGGTTTC
19492683 AC-TTAGGGTT
1 ACTTTAGGGTT
19492693 CAATTTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.44
Consensus pattern (13 bp):
ACTTTAGGGTTTC
Found at i:19494870 original size:15 final size:14
Alignment explanation
Indices: 19494840--19494937 Score: 55
Period size: 15 Copynumber: 6.9 Consensus size: 14
19494830 TGTTGGCCAT
*
19494840 TAAACAAAATAATAA
1 TAAATAAAA-AATAA
19494855 TAACATAAAAAATAA
1 TAA-ATAAAAAATAA
*
19494870 T-AAT-AATAAT-A
1 TAAATAAAAAATAA
19494881 TAAAATATAAAAATAA
1 T-AAATA-AAAAATAA
*
19494897 TAATATTAAAAATAA
1 TAA-ATAAAAAATAA
*
19494912 -ATATAAAGATAA-AA
1 TAAATAAA-A-AATAA
19494926 T-AATAAAAAATA
1 TAAATAAAAAATA
19494938 GCTTAACCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 24
0.68 0.07 0.25
Matches are distributed among these distances:
11 2 0.03
12 7 0.11
13 11 0.17
14 10 0.15
15 26 0.40
16 9 0.14
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAA
Found at i:19494873 original size:21 final size:21
Alignment explanation
Indices: 19494847--19494911 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
19494837 CATTAAACAA
*
19494847 AATAATAATAACATAAAAAAT
1 AATAATAATAATATAAAAAAT
*
19494868 AATAATAATAATATAAAATAT
1 AATAATAATAATATAAAAAAT
* *
19494889 AAAAATAATAATATTAAAAAT
1 AATAATAATAATATAAAAAAT
19494910 AA
1 AA
19494912 ATATAAAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAATAATAATATAAAAAAT
Found at i:19494874 original size:6 final size:6
Alignment explanation
Indices: 19494847--19494931 Score: 53
Period size: 6 Copynumber: 15.3 Consensus size: 6
19494837 CATTAAACAA
*
19494847 AATAAT AATAA- CATAA- AA-AAT AATAAT AATAAT -ATAA- AAT-AT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* * *
19494889 AAAAAT AATAAT ATTAAA AATAA- ATATAA- AGATAA- AATAAT AA
1 AATAAT AATAAT AATAAT AATAAT A-ATAAT A-ATAAT AATAAT AA
19494932 AAAATAGCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
4 3 0.05
5 20 0.31
6 41 0.64
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (6 bp):
AATAAT
Found at i:19494934 original size:27 final size:28
Alignment explanation
Indices: 19494853--19494937 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 28
19494843 ACAAAATAAT
*
19494853 AATAACATA-AAAAATAATAATAATAATA
1 AATAA-ATATAAAAATAATAATAATAAAA
* *
19494881 TA-AAATATAAAAATAATAAT-ATTAAA
1 AATAAATATAAAAATAATAATAATAAAA
*
19494907 AATAAATATAAAGATAA-AATAATAAAA
1 AATAAATATAAAAATAATAATAATAAAA
19494934 AATA
1 AATA
19494938 GCTTAACCTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
26 11 0.23
27 36 0.75
28 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (28 bp):
AATAAATATAAAAATAATAATAATAAAA
Found at i:19495850 original size:33 final size:33
Alignment explanation
Indices: 19495813--19495879 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
19495803 TAGGTGTTGT
19495813 AGTAATATAGTTTCTTGTTAATTAAAAGTTCTA
1 AGTAATATAGTTTCTTGTTAATTAAAAGTTCTA
19495846 AGTAATATAGTTTCTTGTTAATTAAAAGTTCTA
1 AGTAATATAGTTTCTTGTTAATTAAAAGTTCTA
19495879 A
1 A
19495880 ACAATTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (33 bp):
AGTAATATAGTTTCTTGTTAATTAAAAGTTCTA
Found at i:19498706 original size:21 final size:22
Alignment explanation
Indices: 19498681--19498745 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 22
19498671 ATTTCATCAT
19498681 TTCATCA-T-CATTTTTATTTCA
1 TTCATCATTACATTTTT-TTTCA
19498702 TTCATCATTACA-TTTTTTTCA
1 TTCATCATTACATTTTTTTTCA
*
19498723 TTTATCATTACA-TTTTTTTCA
1 TTCATCATTACATTTTTTTTCA
19498744 TT
1 TT
19498746 TTTCCCACTT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
21 34 0.83
22 5 0.12
23 2 0.05
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (22 bp):
TTCATCATTACATTTTTTTTCA
Found at i:19498746 original size:21 final size:21
Alignment explanation
Indices: 19498692--19498746 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
19498682 TCATCATCAT
*
19498692 TTTTATTTCATTCATCATTACA
1 TTTT-TTTCATTTATCATTACA
19498714 TTTTTTTCATTTATCATTACA
1 TTTTTTTCATTTATCATTACA
19498735 TTTTTTTCATTT
1 TTTTTTTCATTT
19498747 TTCCCACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTTCATTTATCATTACA
Found at i:19499059 original size:93 final size:92
Alignment explanation
Indices: 19498852--19499059 Score: 204
Period size: 93 Copynumber: 2.2 Consensus size: 92
19498842 ATCTTATCGC
* * *
19498852 TGCCAGCTAGACTGGGCTTAAAATTCTCTAGTGCCAGCTAAACTGAGCTTGATTTTTCCTTAGTG
1 TGCCAGCTAGA-TTGGCTT-AAATTCACTAGTGCCAGCTAAACTGAGCTTGATCTTTCCTTAGTG
*
19498917 CTACTTAAACTAACCTTAATTCTCTTCGA
64 CTACTAAAACTAACCTTAATTCTCTTCGA
* * * * * * *
19498946 TGTCAGCTAAATTAGGCTTAAATCTCACTAGTGCTAGCTAGACTGGGCTTTA-CTTTCCTTGGTG
1 TGCCAGCTAGATT-GGCTTAAAT-TCACTAGTGCCAGCTAAACTGAGCTTGATCTTTCCTTAGTG
* * * *
19499010 CTAGC-AAAATTAAGCTTAATTCTCTTTGG
64 CTA-CTAAAACTAACCTTAATTCTCTTCGA
*
19499039 TGCCAACTAGATTGGTCTTAA
1 TGCCAGCTAGATTGG-CTTAA
19499060 TTTTCTCCCA
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
92 2 0.02
93 52 0.57
94 38 0.41
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (92 bp):
TGCCAGCTAGATTGGCTTAAATTCACTAGTGCCAGCTAAACTGAGCTTGATCTTTCCTTAGTGCT
ACTAAAACTAACCTTAATTCTCTTCGA
Found at i:19499103 original size:61 final size:62
Alignment explanation
Indices: 19499023--19499155 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 62
19499013 GCAAAATTAA
* * *
19499023 GCTTAATTCTCTTTGGTGCCAACTAGA-TTGGTCTTAATTTT-CTCCCATGCCAACTAGACT-G
1 GCTTAATTCTCCTTAGTGCCAACTAGACTAGG-CTTAATTTTCCT-CCATGCCAACTAGACTGG
* ** *
19499084 GCTTAATTCTCCTTAGTGCCAACTATACTAGGCTTAATTTTCCTTGATGCCAGCTAGACTGG
1 GCTTAATTCTCCTTAGTGCCAACTAGACTAGGCTTAATTTTCCTCCATGCCAACTAGACTGG
19499146 GCTTAATTCT
1 GCTTAATTCT
19499156 GCATAGGTAC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
61 46 0.74
62 16 0.26
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (62 bp):
GCTTAATTCTCCTTAGTGCCAACTAGACTAGGCTTAATTTTCCTCCATGCCAACTAGACTGG
Found at i:19499184 original size:62 final size:62
Alignment explanation
Indices: 19499076--19499407 Score: 225
Period size: 62 Copynumber: 5.4 Consensus size: 62
19499066 CCCATGCCAA
* * * * * * * *
19499076 CTAGACT-GGCTTAATTCTCCTTAGTGCCAACTATACTAGGCTTAATTTTCCTTGATGCCAG
1 CTAGACTAGGCTTAATTCTTCTCAGTACTAGCTAAAATAGGCTTAATTTTCCTTGATGCTAG
* * *
19499137 CTAGACTGGGCTTAATTCTGCAT-AGGTACTAGCTAAAAT-GGCTTAATTTTCCTCAGA-GCTAG
1 CTAGACTAGGCTTAATTCTTC-TCA-GTACTAGCTAAAATAGGCTTAATTTTCCT-TGATGCTAG
* * * * *
19499199 CTAGACTAGGTTTAATTTTTCTCAGTACTTA--TAAAATTAGGGTTAATTCTT-CTTGGTGCCAG
1 CTAGACTAGGCTTAATTCTTCTCAGTAC-TAGCTAAAA-TAGGCTTAATT-TTCCTTGATGCTAG
* * * * * * *
19499261 CTAGACTAGGTTTAATTCTTCTCAGTGCTGGCTAGACTAGGCTTAATTCTCCTTGGTGCTAG
1 CTAGACTAGGCTTAATTCTTCTCAGTACTAGCTAAAATAGGCTTAATTTTCCTTGATGCTAG
* * * * * *
19499323 CTAGACTAAGCTTAATTC-TCTATAGGAGCCAGCTAAATTAGGCTTAA-ATTCTCTTGATGCTAG
1 CTAGACTAGGCTTAATTCTTCT-CAGTA-CTAGCTAAAATAGGCTTAATTTTC-CTTGATGCTAG
* *
19499386 CTA-AATTGGACTTAATTCTTCT
1 CTAGACTAGG-CTTAATTCTTCT
19499408 TGGTGCCGAC
Statistics
Matches: 214, Mismatches: 39, Indels: 33
0.75 0.14 0.12
Matches are distributed among these distances:
60 5 0.02
61 19 0.09
62 134 0.63
63 53 0.25
64 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (62 bp):
CTAGACTAGGCTTAATTCTTCTCAGTACTAGCTAAAATAGGCTTAATTTTCCTTGATGCTAG
Found at i:19499340 original size:31 final size:31
Alignment explanation
Indices: 19498958--19499413 Score: 198
Period size: 31 Copynumber: 14.7 Consensus size: 31
19498948 TCAGCTAAAT
* *
19498958 TAGGCTTAAATCTCAC-TAGTGCTAGCTAGAC
1 TAGGCTTAATTCTC-CTTGGTGCTAGCTAGAC
* * * * *
19498989 TGGGCTTTACTT-TCCTTGGTGCTAGCAAAAT
1 TAGGC-TTAATTCTCCTTGGTGCTAGCTAGAC
* * * *
19499020 TAAGCTTAATTCTCTTTGGTGCCAACTAGA-
1 TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
* ** * *
19499050 TTGGTCTTAATTTTCTCC--CATGCCAACTAGAC
1 TAGG-CTTAA--TTCTCCTTGGTGCTAGCTAGAC
* * * *
19499082 T-GGCTTAATTCTCCTTAGTGCCAACTATAC
1 TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
* * *
19499112 TAGGCTTAATTTTCCTTGATGCCAGCTAGAC
1 TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
* * * * * *
19499143 TGGGCTTAATTCTGCATAGGTACTAGCTAAAA
1 TAGGCTTAATTCT-CCTTGGTGCTAGCTAGAC
* ** *
19499175 T-GGCTTAATTTTCCTCAGAGCTAGCTAGAC
1 TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
* * * ** * * *
19499205 TAGGTTTAATTTTTCTCAGTACTTA--TAAAAT
1 TAGGCTTAATTCTCCTTGGTGC-TAGCT-AGAC
* * *
19499236 TAGGGTTAATTCTTCTTGGTGCCAGCTAGAC
1 TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
* * ** *
19499267 TAGGTTTAATTCTTCTCAGTGCTGGCTAGAC
1 TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
19499298 TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
1 TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
* * * * *
19499329 TAAGCTTAATTCT-CTATAGGAGCCAGCTAAAT
1 TAGGCTTAATTCTCCT-T-GGTGCTAGCTAGAC
* *
19499361 TAGGCTTAAATTCT-CTTGATGCTAGCTA-AA
1 TAGGCTT-AATTCTCCTTGGTGCTAGCTAGAC
* *
19499391 TTGGACTTAATTCTTCTTGGTGC
1 TAGG-CTTAATTCTCCTTGGTGC
19499414 CGACTAAACT
Statistics
Matches: 323, Mismatches: 81, Indels: 42
0.72 0.18 0.09
Matches are distributed among these distances:
28 6 0.02
30 51 0.16
31 216 0.67
32 37 0.11
33 13 0.04
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (31 bp):
TAGGCTTAATTCTCCTTGGTGCTAGCTAGAC
Found at i:19499653 original size:28 final size:26
Alignment explanation
Indices: 19499622--19499679 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
19499612 CATGATAAAC
*
19499622 TTCTTTGTCTCTTTTTGCTTTCTTTATT
1 TTCTTTGTCT-TTTTTGCTTTATTT-TT
* *
19499650 TTCTTTTTCTTTTTTTCTTTATTTTT
1 TTCTTTGTCTTTTTTGCTTTATTTTT
19499676 TTCT
1 TTCT
19499680 CCTATTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 6 0.22
27 12 0.44
28 9 0.33
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (26 bp):
TTCTTTGTCTTTTTTGCTTTATTTTT
Found at i:19499665 original size:14 final size:15
Alignment explanation
Indices: 19499640--19499669 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19499630 CTCTTTTTGC
19499640 TTTCTTTATTTTCTT
1 TTTCTTTATTTTCTT
19499655 TTTCTTT-TTTTCTT
1 TTTCTTTATTTTCTT
19499669 T
1 T
19499670 ATTTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCTTTATTTTCTT
Found at i:19499674 original size:12 final size:12
Alignment explanation
Indices: 19499640--19499679 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
19499630 CTCTTTTTGC
19499640 TTTCTTTATTTT
1 TTTCTTTATTTT
* *
19499652 CTT-TTTCTTTT
1 TTTCTTTATTTT
19499663 TTTCTTTATTTT
1 TTTCTTTATTTT
19499675 TTTCT
1 TTTCT
19499680 CCTATTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTTATTTT
Found at i:19499687 original size:23 final size:23
Alignment explanation
Indices: 19499640--19499690 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
19499630 CTCTTTTTGC
* *
19499640 TTTCTTTATTTTCTTTTTCTTTT
1 TTTCTTTATTTTCTTTTCCTATT
19499663 TTTCTTTATTTT-TTTCTCCTATT
1 TTTCTTTATTTTCTTT-TCCTATT
19499686 TTTCT
1 TTTCT
19499691 AACTCTTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCTTTATTTTCTTTTCCTATT
Found at i:19510710 original size:203 final size:202
Alignment explanation
Indices: 19510358--19510753 Score: 480
Period size: 203 Copynumber: 2.0 Consensus size: 202
19510348 TCAAACATCA
* * *
19510358 TCTTATACTTTTTTTTTTGTGACGTTAATTTTTGTCAGTTATTTATGAAAAAAAATGTCATTAAA
1 TCTTATAC-TTTTTTTTTGTGACGTTAATTTTTATCAGCTATTTATGAAAAAAAATGTCACTAAA
* **
19510423 AACTATAATTGTCACAAAATAAATGATAAAATTTGATATATTTATGACAAAAGGTAAATTGTCAC
65 AACTATAATTGTCACAAAATAAATGATAAAATTTAATATATTTATGACAAAAGGTAAATAATCAC
* * * * *
19510488 AGCATTGGTGATATAATTATCGTCACCAATTATTATAAAATAATGTCAAGCATAACAATAAAAGC
130 AACATTAGTGACATAATTATCGTCACCAATGATTATAAAATAATGTCAAACATAACAATAAAAGC
19510553 AAACGCCG
195 AAACGCCG
*
19510561 TCTTATAC-TTTTTTTTGTGATGTT-ATTTTTCATC-GACTATTTATGAAAAAAAAAATGTCACT
1 TCTTATACTTTTTTTTTGTGACGTTAATTTTT-ATCAG-CTATTTATG--AAAAAAAATGTCACT
* *
19510623 AAAAGCTATAATTGTCACAAAATAAATGA-CAAATTCTAATATA-TTAGTGACGAAAA-GTAAAT
62 AAAAACTATAATTGTCACAAAATAAATGATAAAATT-TAATATATTTA-TGAC-AAAAGGTAAAT
** * * * * * *
19510685 AATCACAATTTTAGTGACCTAATTATTGTCATCAGTGATTATAAGATAATGTCAAACATGACAAT
124 AATCACAACATTAGTGACATAATTATCGTCACCAATGATTATAAAATAATGTCAAACATAACAAT
19510750 AAAA
189 AAAA
19510754 TCTAAAATCA
Statistics
Matches: 164, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
200 7 0.04
201 25 0.15
202 8 0.05
203 120 0.73
204 4 0.02
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (202 bp):
TCTTATACTTTTTTTTTGTGACGTTAATTTTTATCAGCTATTTATGAAAAAAAATGTCACTAAAA
ACTATAATTGTCACAAAATAAATGATAAAATTTAATATATTTATGACAAAAGGTAAATAATCACA
ACATTAGTGACATAATTATCGTCACCAATGATTATAAAATAATGTCAAACATAACAATAAAAGCA
AACGCCG
Found at i:19512968 original size:15 final size:15
Alignment explanation
Indices: 19512948--19512980 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
19512938 CCACACAATC
19512948 AAAATATTCCATTGT
1 AAAATATTCCATTGT
19512963 AAAATATTCCATTGT
1 AAAATATTCCATTGT
19512978 AAA
1 AAA
19512981 GCACACAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (15 bp):
AAAATATTCCATTGT
Found at i:19524654 original size:3 final size:3
Alignment explanation
Indices: 19524646--19524683 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19524636 GAAATTTTAT
19524646 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19524684 GTTGCTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19527047 original size:2 final size:2
Alignment explanation
Indices: 19527042--19527072 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19527032 AAAAAAAAGG
19527042 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
19527073 GCAAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19529999 original size:23 final size:23
Alignment explanation
Indices: 19529941--19530000 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
19529931 CTTTGTTTAA
* **
19529941 AAACTCAAATTTACTTTATGCAT
1 AAACTAAAATTTTTTTTATGCAT
19529964 AAACTAAAATTTTTTTTATGCAT
1 AAACTAAAATTTTTTTTATGCAT
*
19529987 AGACTAAAATTTTT
1 AAACTAAAATTTTT
19530001 AAAATTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (23 bp):
AAACTAAAATTTTTTTTATGCAT
Found at i:19532619 original size:20 final size:20
Alignment explanation
Indices: 19532581--19532619 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19532571 TTAATAATTG
* * *
19532581 TTTATAATTTAATATTATTA
1 TTTAAAATTTAAAACTATTA
19532601 TTTAAAATTTAAAACTATT
1 TTTAAAATTTAAAACTATT
19532620 TTATTTCAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAAAATTTAAAACTATTA
Found at i:19534270 original size:5 final size:5
Alignment explanation
Indices: 19534260--19534305 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
19534250 ATTCTTTCTC
*
19534260 CTTTT CTTTT CTTTT CATTT CTTTT CTTGTT CTTGTT CTTGTT CTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTT-TT CTT-TT CTT-TT CTT
19534306 GTTCCCCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 21 0.55
6 17 0.45
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.72
Consensus pattern (5 bp):
CTTTT
Found at i:19534294 original size:6 final size:6
Alignment explanation
Indices: 19534278--19534309 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
19534268 TTCTTTTCAT
19534278 TTCTT- TTCTTG TTCTTG TTCTTG TTCTTG TTC
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTC
19534310 CCCTTGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.19, G:0.12, T:0.69
Consensus pattern (6 bp):
TTCTTG
Found at i:19538244 original size:2 final size:2
Alignment explanation
Indices: 19538239--19538280 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
19538229 TTTTTTTAAA
19538239 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19538281 GCCAATGGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19540058 original size:15 final size:15
Alignment explanation
Indices: 19540038--19540068 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19540028 GGAATCCACC
19540038 ATCTAAAGGCCACTG
1 ATCTAAAGGCCACTG
19540053 ATCTAAAGGCCACTG
1 ATCTAAAGGCCACTG
19540068 A
1 A
19540069 AAAAGGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (15 bp):
ATCTAAAGGCCACTG
Found at i:19541835 original size:13 final size:12
Alignment explanation
Indices: 19541797--19541848 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
19541787 TTTACATGTG
* *
19541797 TATTTTTTTTAT
1 TATTTATTTAAT
* *
19541809 TGTTTATGTAAT
1 TATTTATTTAAT
19541821 TATTTATTTTAAT
1 TATTTA-TTTAAT
*
19541834 TAATTATTTAAT
1 TATTTATTTAAT
19541846 TAT
1 TAT
19541849 GAAGATATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (12 bp):
TATTTATTTAAT
Found at i:19541877 original size:19 final size:19
Alignment explanation
Indices: 19541855--19541893 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19541845 TTATGAAGAT
19541855 ATTTATTTATTATATTAAA
1 ATTTATTTATTATATTAAA
19541874 ATTTATTTATTATATTAAA
1 ATTTATTTATTATATTAAA
19541893 A
1 A
19541894 AGTAAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTATTTATTATATTAAA
Found at i:19543788 original size:17 final size:18
Alignment explanation
Indices: 19543763--19543800 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
19543753 AAATATTAAA
*
19543763 TTTATTTTTAAAAAT-AT
1 TTTAATTTTAAAAATCAT
*
19543780 TTTAATTTTTAAAATCAT
1 TTTAATTTTAAAAATCAT
19543798 TTT
1 TTT
19543801 TTTAATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATTTTAAAAATCAT
Found at i:19543837 original size:23 final size:26
Alignment explanation
Indices: 19543796--19543850 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 26
19543786 TTTTAAAATC
19543796 ATTTTTTTAATATTCCAATGATTTT-A
1 ATTTTTTTAATATTCCAAT-ATTTTGA
19543822 ATTTTTTTAA-A-T-CAATATTTTGA
1 ATTTTTTTAATATTCCAATATTTTGA
19543845 ATTTTT
1 ATTTTT
19543851 AAAAATTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.18
23 11 0.39
24 1 0.04
25 1 0.04
26 10 0.36
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (26 bp):
ATTTTTTTAATATTCCAATATTTTGA
Found at i:19543856 original size:23 final size:23
Alignment explanation
Indices: 19543811--19543856 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19543801 TTTAATATTC
**
19543811 CAATGATTTTAATTTTTTTAAAT
1 CAATGATTTTAATTTTTAAAAAT
19543834 CAAT-ATTTTGAATTTTTAAAAAT
1 CAATGATTTT-AATTTTTAAAAAT
19543857 TTTCTAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (23 bp):
CAATGATTTTAATTTTTAAAAAT
Found at i:19544001 original size:36 final size:36
Alignment explanation
Indices: 19543956--19544039 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
19543946 TTTAAACAAA
19543956 TTTT-AAATTTTAT-TATTTTT-AATCTTTTAAATTT
1 TTTTAAAATTTTATATATTTTTTAAT-TTTTAAATTT
**
19543990 TTTATAAAATTTTATATATTTTTTAATTTTTATGTTT
1 TTT-TAAAATTTTATATATTTTTTAATTTTTAAATTT
*
19544027 TTTTATAATTTTA
1 TTTTAAAATTTTA
19544040 GATGTTTTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
34 3 0.07
35 1 0.02
36 18 0.42
37 18 0.42
38 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (36 bp):
TTTTAAAATTTTATATATTTTTTAATTTTTAAATTT
Found at i:19544019 original size:17 final size:16
Alignment explanation
Indices: 19543956--19544029 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 16
19543946 TTTAAACAAA
*
19543956 TTTTAAATTTTAT-TAT
1 TTTTAATTTTTATAT-T
*
19543972 TTTTAATCTTTTAAATTT
1 TTTTAAT-TTTTATA-TT
19543990 TTTATAAAATTTTATATATT
1 TTT-T--AATTTT-TATATT
*
19544010 TTTTAATTTTTATGTT
1 TTTTAATTTTTATATT
19544026 TTTT
1 TTTT
19544030 TATAATTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
16 15 0.32
17 11 0.23
18 4 0.09
19 3 0.06
20 8 0.17
21 6 0.13
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (16 bp):
TTTTAATTTTTATATT
Found at i:19544275 original size:19 final size:19
Alignment explanation
Indices: 19544253--19544323 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
19544243 ATTTTCATTT
*
19544253 AAATATTAAAAAATATAGA
1 AAATTTTAAAAAATATAGA
19544272 AAATTTCTAAAAAA-ATA-A
1 AAATTT-TAAAAAATATAGA
* *
19544290 AACTTTTAAAATATATAGA
1 AAATTTTAAAAAATATAGA
19544309 AAATTTTATAAAAAT
1 AAATTTTA-AAAAAT
19544324 TCAAAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 6 0.14
18 9 0.21
19 16 0.37
20 12 0.28
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTTTAAAAAATATAGA
Found at i:19544500 original size:14 final size:14
Alignment explanation
Indices: 19544483--19544542 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
19544473 TTTAAAAAAC
19544483 AAATTTTGATTTAA
1 AAATTTTGATTTAA
19544497 AAATTTT--TTTAA
1 AAATTTTGATTTAA
** *
19544509 AAATGATGTTTTAA
1 AAATTTTGATTTAA
*
19544523 AAATTATATTATTTAA
1 AAATT-T-TGATTTAA
19544539 AAAT
1 AAAT
19544543 ATTAAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
12 10 0.28
14 16 0.44
16 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (14 bp):
AAATTTTGATTTAA
Found at i:19544563 original size:22 final size:23
Alignment explanation
Indices: 19544523--19544566 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19544513 GATGTTTTAA
*
19544523 AAATTATATTATTTAAAAATATT
1 AAATTATAATATTTAAAAATATT
*
19544546 AAATT-TAATATTTTAAAATAT
1 AAATTATAATATTTAAAAATAT
19544567 GAAAATGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATTATAATATTTAAAAATATT
Found at i:19544572 original size:23 final size:23
Alignment explanation
Indices: 19544522--19544572 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
19544512 TGATGTTTTA
*
19544522 AAAATTATATTATTTAAAAATAT
1 AAAATTATAATATTTAAAAATAT
* *
19544545 TAAATT-TAATATTTTAAAATAT
1 AAAATTATAATATTTAAAAATAT
19544567 GAAAAT
1 -AAAAT
19544573 GTTTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAAATTATAATATTTAAAAATAT
Found at i:19544769 original size:21 final size:22
Alignment explanation
Indices: 19544723--19544769 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
19544713 TAAATTTTAA
19544723 AATTTGTATGAATACAAAAATT
1 AATTTGTATGAATACAAAAATT
** *
19544745 -ATTTGTAT-AATTTAATAATT
1 AATTTGTATGAATACAAAAATT
19544765 AATTT
1 AATTT
19544770 TATTTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (22 bp):
AATTTGTATGAATACAAAAATT
Found at i:19549025 original size:14 final size:14
Alignment explanation
Indices: 19549006--19549033 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19548996 TGAGCTAAAA
19549006 AGAATGTTAAAATT
1 AGAATGTTAAAATT
19549020 AGAATGTTAAAATT
1 AGAATGTTAAAATT
19549034 GTAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
AGAATGTTAAAATT
Found at i:19549405 original size:160 final size:162
Alignment explanation
Indices: 19549039--19549425 Score: 368
Period size: 162 Copynumber: 2.4 Consensus size: 162
19549029 AAATTGTAAT
* * * ** * * * * *
19549039 TTTTTCACACATATCAATAGTAACAGTCAAGTTTAACAATTCAAACAATTTTATTATCATACAAT
1 TTTTTCACTCATATCAATACTGACAACCAAATTCAACCATTCAGACAAATTTATTATCATACAAT
* * * * *
19549104 TAAGCCATCTAAATCACGAGATTATGTATATACAGTTAAATTTATAATTTTACCCTTTAATGGCA
66 TAAGCCATCTAAATCACGAAATTATATATATACAATCAAATTTATAATTTCACCCTTTAATGGCA
* * **
19549169 CAAAAAATCTAAAAAAAAACTTAAATTATAAC
131 CAAAAAAGCTAAAAAAAAACTAAAACCATAAC
* * * *
19549201 TTTTTCACTCATATCAATACTGATAGCCAAATTCAACCATTCAGACAAATTTAATATCATATAAT
1 TTTTTCACTCATATCAATACTGACAACCAAATTCAACCATTCAGACAAATTTATTATCATACAAT
* * * * * * * * *
19549266 TGAGCTATCTAAATCACTAAATTGTATATCTACAATCAGATTTATTATTTCATCTTTTAAT-G-A
66 TAAGCCATCTAAATCACGAAATTATATATATACAATCAAATTTATAATTTCACCCTTTAATGGCA
*
19549329 CACAAAAGCTAAAAAAAAACTAAAACCATAAC
131 CAAAAAAGCTAAAAAAAAACTAAAACCATAAC
* * * * * * *
19549361 TTTTTCTCAT-ATATCAATAGTGACAACCAAGTTC-ACTTATTCAGATAAACTTATTATCACACA
1 TTTTTCAC-TCATATCAATACTGACAACCAAATTCAAC-CATTCAGACAAATTTATTATCATACA
19549424 AT
64 AT
19549426 CAAGATATCT
Statistics
Matches: 181, Mismatches: 42, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
159 2 0.01
160 77 0.43
161 2 0.01
162 100 0.55
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (162 bp):
TTTTTCACTCATATCAATACTGACAACCAAATTCAACCATTCAGACAAATTTATTATCATACAAT
TAAGCCATCTAAATCACGAAATTATATATATACAATCAAATTTATAATTTCACCCTTTAATGGCA
CAAAAAAGCTAAAAAAAAACTAAAACCATAAC
Found at i:19549507 original size:75 final size:75
Alignment explanation
Indices: 19549384--19549522 Score: 208
Period size: 75 Copynumber: 1.9 Consensus size: 75
19549374 TCAATAGTGA
* *
19549384 CAACCAAGTTCACTTATTCAGATAAACTTATTATCACACAATCAAGATATCTAAGTCATTAAATC
1 CAACCAAGTTCACTAATTCAGACAAACTTATTATCACACAATCAAGATATCTAAGTCATTAAATC
19549449 GTGGTTATAT
66 GTGGTTATAT
* * * *
19549459 CAACCAAGTTCAGC-AATTTAGACAAGCTTATTATCACATAATCAAGATATCTAAGTTATTAAAT
1 CAACCAAGTTCA-CTAATTCAGACAAACTTATTATCACACAATCAAGATATCTAAGTCATTAAAT
19549523 TATGGATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 56 0.98
76 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (75 bp):
CAACCAAGTTCACTAATTCAGACAAACTTATTATCACACAATCAAGATATCTAAGTCATTAAATC
GTGGTTATAT
Found at i:19553189 original size:26 final size:26
Alignment explanation
Indices: 19553160--19553216 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
19553150 ATTAATTAAA
* **
19553160 ATTAATATATTTTTATTTAAAAATAT
1 ATTAATATATATTTATAAAAAAATAT
*
19553186 ATTAATATGTATTTATAAAAAAATAT
1 ATTAATATATATTTATAAAAAAATAT
19553212 ATTAA
1 ATTAA
19553217 AGGTCATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTAATATATATTTATAAAAAAATAT
Found at i:19553453 original size:19 final size:20
Alignment explanation
Indices: 19553417--19553457 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
19553407 TAAGATGTAT
19553417 AAATATATTAATATTTTTTAA
1 AAATATATTAATA-TTTTTAA
*
19553438 AAATA-ATTATTA-TTTTAA
1 AAATATATTAATATTTTTAA
19553456 AA
1 AA
19553458 TGAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATATTAATATTTTTAA
Found at i:19554370 original size:2 final size:2
Alignment explanation
Indices: 19554363--19554388 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19554353 AAATAAAAAG
19554363 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
19554389 CCTTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19555038 original size:69 final size:63
Alignment explanation
Indices: 19554980--19555224 Score: 208
Period size: 59 Copynumber: 3.9 Consensus size: 63
19554970 AAACTCATTC
* * *
19554980 TTTTATACAAGAAAAATTAATACTTTCAACTTTTTCTTAAAAATATATTTTTTT--AGAAATT
1 TTTTTTACAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTGAAAAAATT
* * *
19555041 TATTTTTA-AAG-AAAATTGGTACTTCCAACTTTTTC-TCAAAATATATTTTTTT----AAATT
1 T-TTTTTACAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTGAAAAAATT
* * *
19555098 TTATTTT-CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAGTATATTGTTTTGAAAATTTTT
1 TT-TTTTACAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTGAAAA-----
*
19555162 ATTT
60 AATT
* * *
19555166 TTTATTTTCAAGGAAAATTGATACTTTTAAC-TTTTCTTCAAAAATAT-TTTTTTTGAAAA
1 TTT-TTTACAAGAAAAATTGATACTTTCAACTTTTTCTT-AAAAATATATTTTTTTGAAAA
19555225 TTTTATTTTC
Statistics
Matches: 150, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
56 1 0.01
57 13 0.09
58 22 0.15
59 29 0.19
60 21 0.14
61 4 0.03
62 5 0.03
63 1 0.01
67 1 0.01
68 25 0.17
69 28 0.19
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (63 bp):
TTTTTTACAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTGAAAAAATT
Found at i:19555039 original size:16 final size:17
Alignment explanation
Indices: 19555010--19555047 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
19555000 TACTTTCAAC
19555010 TTTTTCTTAAAAATATA
1 TTTTTCTTAAAAATATA
* *
19555027 TTTTT-TTAGAAATTTA
1 TTTTTCTTAAAAATATA
19555043 TTTTT
1 TTTTT
19555048 AAAGAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTTTCTTAAAAATATA
Found at i:19555043 original size:58 final size:59
Alignment explanation
Indices: 19554981--19555155 Score: 191
Period size: 58 Copynumber: 3.0 Consensus size: 59
19554971 AACTCATTCT
*
19554981 TTTA-TACAAGAAAAATTAATACTTTCAACTTTTTCTTAAAAATATATTTTTTTAGAAA
1 TTTATTACAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTAGAAA
* * * *
19555039 TTTATTTTTA-AAG-AAAATTGGTACTTCCAACTTTTTC-TCAAAATATATTTTTTTA-AAT
1 TTTA---TTACAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTAGAAA
* * * *
19555097 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAGTATATTGTTTT-GAAA
1 TTTA-TTACAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTAGAAA
19555156 ATTTTTATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
56 3 0.03
57 3 0.03
58 32 0.33
59 32 0.33
60 21 0.22
61 3 0.03
62 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (59 bp):
TTTATTACAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTAGAAA
Found at i:19555293 original size:4 final size:4
Alignment explanation
Indices: 19555284--19555339 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
19555274 CAATTTAATC
* *
19555284 AATA AATA AATA AGTAA AATT AATGA TAAT- AAT- AATA AATA AATA AATA
1 AATA AATA AATA AAT-A AATA AAT-A -AATA AATA AATA AATA AATA AATA
19555333 AATA AAT
1 AATA AAT
19555340 GAAAAAATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 6 0.14
4 32 0.73
5 3 0.07
6 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:19556438 original size:42 final size:42
Alignment explanation
Indices: 19556355--19556534 Score: 256
Period size: 43 Copynumber: 4.3 Consensus size: 42
19556345 GCTCAATGAT
*
19556355 AATAAA-TGCTCCTCTAAACAGAGGTACCACAACTTTGAAAAA
1 AATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG-AAAA
* ***
19556397 AATAAATTGCTCCTCTAAACAAAGGCACCGTGACTTT-AAAA
1 AATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAA
* *
19556438 AATAAAATGCTCCTCTAAACAGAGGCACCACGACTTTGAAAA
1 AATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAA
*
19556480 AATAAATTACTCCTCTAAACAGAGGCACCACAACTTTTGAAAA
1 AATAAATTGCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAA
19556523 AATAAATTGCTC
1 AATAAATTGCTC
19556535 ATTGACAATC
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
41 37 0.30
42 41 0.34
43 44 0.36
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (42 bp):
AATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAA
Found at i:19556523 original size:84 final size:85
Alignment explanation
Indices: 19556358--19556534 Score: 250
Period size: 84 Copynumber: 2.1 Consensus size: 85
19556348 CAATGATAAT
* *
19556358 AAATGCTCCTCTAAACAGAGGTACCACAACTTTGAAAAAAATAAATTGCTCCTCTAAACAAAGGC
1 AAATGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAATTACTCCTCTAAACAAAGGC
***
19556423 ACCGTGACTTT-AAAAAATA
66 ACCACAACTTTAAAAAAATA
* *
19556442 AAATGCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAAATAAATTACTCCTCTAAACAGAGGC
1 AAATGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAATTACTCCTCTAAACAAAGGC
*
19556506 ACCACAACTTTTGAAAAAATA
66 ACCACAAC-TTTAAAAAAATA
*
19556527 AATTGCTC
1 AAATGCTC
19556535 ATTGACAATC
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
83 33 0.40
84 35 0.42
85 15 0.18
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.23
Consensus pattern (85 bp):
AAATGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAAATAAATTACTCCTCTAAACAAAGGC
ACCACAACTTTAAAAAAATA
Found at i:19572000 original size:12 final size:12
Alignment explanation
Indices: 19571985--19572032 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
19571975 GGTTTTCACC
19571985 TAGGGTTTCATT
1 TAGGGTTTCATT
**
19571997 TAGGGTCACATT
1 TAGGGTTTCATT
19572009 TAGGGTTTTCATTT
1 TAGGG-TTTCA-TT
*
19572023 TAGGATTTCA
1 TAGGGTTTCA
19572033 GATTTTACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 15 0.52
13 8 0.28
14 6 0.21
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (12 bp):
TAGGGTTTCATT
Found at i:19572149 original size:18 final size:18
Alignment explanation
Indices: 19572126--19572171 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
19572116 CACTTAGGAT
19572126 TTTAGGGTTTACCTAAGG
1 TTTAGGGTTTACCTAAGG
*
19572144 TTTAGGGCTTACCTAAGG
1 TTTAGGGTTTACCTAAGG
*
19572162 CTTAGGGTTT
1 TTTAGGGTTT
19572172 CATGTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (18 bp):
TTTAGGGTTTACCTAAGG
Found at i:19572207 original size:21 final size:21
Alignment explanation
Indices: 19572167--19572207 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19572157 TAAGGCTTAG
*
19572167 GGTTTCATGTTTTAATTTTAA
1 GGTTTCATGTTTTAAATTTAA
19572188 GGTTTCAT-TTTATAAATTTA
1 GGTTTCATGTTT-TAAATTTA
19572208 CAAGTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (21 bp):
GGTTTCATGTTTTAAATTTAA
Found at i:19572477 original size:3 final size:3
Alignment explanation
Indices: 19572469--19572508 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
19572459 ATTTAAAATC
19572469 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19572509 ATTTTAGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19576277 original size:35 final size:35
Alignment explanation
Indices: 19576194--19576300 Score: 110
Period size: 35 Copynumber: 3.1 Consensus size: 35
19576184 AAAATAACGA
* * *
19576194 ACGATT-GGTACAACACCGTAAGTCAAATAATAAAAA
1 ACGATTAGG-ACAACATCGTAAGTCAGA-AATAAAAG
* * *
19576230 ATGACTATGACAACATCGTAAGTCAGAAATAAAAG
1 ACGATTAGGACAACATCGTAAGTCAGAAATAAAAG
* *
19576265 ACGATTAGGACAACATCGTGAGT-TGAAATAAAAG
1 ACGATTAGGACAACATCGTAAGTCAGAAATAAAAG
19576299 AC
1 AC
19576301 AACCTAGACG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
34 12 0.20
35 26 0.44
36 20 0.34
37 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (35 bp):
ACGATTAGGACAACATCGTAAGTCAGAAATAAAAG
Found at i:19576531 original size:65 final size:64
Alignment explanation
Indices: 19576444--19576623 Score: 175
Period size: 65 Copynumber: 2.7 Consensus size: 64
19576434 CTTAGATTAT
* * * * *
19576444 GCTTAAATTTTACTTGGTGCTAGCTAATTGGGCTTAAATTCTTTATTGAATGCCAACTAAA-TTG
1 GCTTAAATCTTATTTGGTGCTAGCTAATTGGGCTTAAATTC-TCATTGAATACCAACTAAACTCG
* * * *
19576508 AGCTTAAATCTTCATTTGG-GCTAGATAATTTAGGCTTAAATTCTCATTGAGTACCAGCTAAACT
1 -GCTTAAATCTT-ATTTGGTGCTAGCTAA-TTGGGCTTAAATTCTCATTGAATACCAACTAAACT
19576572 CG
63 CG
* * *
19576574 GCTTAAATCTTTTATTGGATGCTAGCCAAATTGGGCTTAAATTTTCATTG
1 GCTTAAATCTTAT-TTGG-TGCTAG-CTAATTGGGCTTAAATTCTCATTG
19576624 GTGCAAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
64 1 0.01
65 48 0.51
66 20 0.21
67 23 0.24
68 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (64 bp):
GCTTAAATCTTATTTGGTGCTAGCTAATTGGGCTTAAATTCTCATTGAATACCAACTAAACTCG
Found at i:19576723 original size:33 final size:33
Alignment explanation
Indices: 19576669--19576742 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
19576659 GCTAAACTGA
* * * *
19576669 GTTTAAATGTTTTATTGATGCCAGTCAATTTGG
1 GTTTAAATCTTTCATTAATGCCAGTCAAATTGG
19576702 GTTTAAATCTTTCATTAATGCCAGTCAAATTGG
1 GTTTAAATCTTTCATTAATGCCAGTCAAATTGG
19576735 GTTTAAAT
1 GTTTAAAT
19576743 TTTTTTATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (33 bp):
GTTTAAATCTTTCATTAATGCCAGTCAAATTGG
Found at i:19576873 original size:100 final size:101
Alignment explanation
Indices: 19576744--19576981 Score: 307
Period size: 100 Copynumber: 2.3 Consensus size: 101
19576734 GGTTTAAATT
* *
19576744 TTTTTATGAAGTGCTAGCTAAACTGGGCTTAAATCTTTTCATGGATGCTAGCTAAGCTGGGTTTA
1 TTTTTATGAAGTGCCAGCTAAACTGGGCTTAAATCTTTTCATGGATGCCAGCTAAGCTGGGTTTA
* * **
19576809 ATTCCTATCATGAGTGCTAGTTAAACTAGGCTTAAA
66 ATTCCGATCATGAGTGCCAACTAAACTAGGCTTAAA
* * * *
19576845 TTTTTAT-TAGTGCCAGCTAAATTGGGCTTAAATTTTTTCATGGATGCCAGCTAAGTTGGGTTTA
1 TTTTTATGAAGTGCCAGCTAAACTGGGCTTAAATCTTTTCATGGATGCCAGCTAAGCTGGGTTTA
*
19576909 ATTCCGATCATGAGTGCCAACTAAACTGGGCTTAAA
66 ATTCCGATCATGAGTGCCAACTAAACTAGGCTTAAA
* * * * *
19576945 TCTTTTTATGAAGGGCAAACTAAATTAGGCTTAAATC
1 --TTTTTATGAAGTGCCAGCTAAACTGGGCTTAAATC
19576982 CATTGGTACT
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
100 82 0.70
101 7 0.06
102 7 0.06
103 21 0.18
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (101 bp):
TTTTTATGAAGTGCCAGCTAAACTGGGCTTAAATCTTTTCATGGATGCCAGCTAAGCTGGGTTTA
ATTCCGATCATGAGTGCCAACTAAACTAGGCTTAAA
Found at i:19577106 original size:33 final size:34
Alignment explanation
Indices: 19576699--19577313 Score: 229
Period size: 35 Copynumber: 18.4 Consensus size: 34
19576689 CCAGTCAATT
* * * *
19576699 TGGGTTTAAATC-TTTCATTAATGCCAG-TCAAAT
1 TGGGCTTAAATCTTTTCATGAATGCTAGCT-AAAC
* * *
19576732 TGGGTTTAAATTTTTTTATGAAGTGCTAGCTAAAC
1 TGGGCTTAAATCTTTTCATGAA-TGCTAGCTAAAC
* *
19576767 TGGGCTTAAATCTTTTCATGGATGCTAGCTAAGC
1 TGGGCTTAAATCTTTTCATGAATGCTAGCTAAAC
* * * * * *
19576801 TGGGTTTAATTCCTATCATGAGTGCTAGTTAAAC
1 TGGGCTTAAATCTTTTCATGAATGCTAGCTAAAC
* * * * *
19576835 TAGGCTTAAAT-TTTT-ATTAGTGCCAGCTAAAT
1 TGGGCTTAAATCTTTTCATGAATGCTAGCTAAAC
* * * **
19576867 TGGGCTTAAATTTTTTCATGGATGCCAGCTAAGT
1 TGGGCTTAAATCTTTTCATGAATGCTAGCTAAAC
* * *** * * *
19576901 TGGGTTTAATTCCGATCATGAGTGCCAACTAAAC
1 TGGGCTTAAATCTTTTCATGAATGCTAGCTAAAC
* * * * *
19576935 TGGGCTTAAATCTTTTTATGAAGGGCAAACTAAAT
1 TGGGCTTAAATCTTTTCATGAA-TGCTAGCTAAAC
* * * *
19576970 TAGGCTTAAATC----CATTG-GTACTAGTTAATAC
1 TGGGCTTAAATCTTTTCA-TGAATGCTAGCTAA-AC
* * * * *
19577001 TAGGCTTAAAAC--CT-A-G-GTGCCAGCTAAAC
1 TGGGCTTAAATCTTTTCATGAATGCTAGCTAAAC
* *
19577030 TGGGTTTAAATCTTTTCATGATATGCTAGCTAAAT
1 TGGGCTTAAATCTTTTCATGA-ATGCTAGCTAAAC
* *
19577065 TGGACTTAAATGTTTT-ATTG-ATGCTAG-TCAAAC
1 TGGGCTTAAATCTTTTCA-TGAATGCTAGCT-AAAC
** *
19577098 TGGGCTTAAATCTTTTTGTGAGATGCTAGCTAAAT
1 TGGGCTTAAATCTTTTCATGA-ATGCTAGCTAAAC
* **
19577133 TGGGTTTAAATCTTTTCAT-AGATGCCGGCT--A-
1 TGGGCTTAAATCTTTTCATGA-ATGCTAGCTAAAC
* * * * * *
19577164 TGGGTTTAATTCCTATCATGAGTGCTAGATAAAC
1 TGGGCTTAAATCTTTTCATGAATGCTAGCTAAAC
* * * *
19577198 TAGGCTTGAATCTTTTCATTGGATGCTAGCTACTA-
1 TGGGCTTAAATCTTTTCA-TGAATGCTAGCTA-AAC
* * *
19577233 TGGGATTAAATC--TTCATTAAGTGCTAGAC-AAAT
1 TGGGCTTAAATCTTTTCATGAA-TGCTAG-CTAAAC
* * * **
19577266 TGAGCTTGAATCTTTTCACTTG-GTGCTAGCTAAGT
1 TGGGCTTAAATCTTTTCA--TGAATGCTAGCTAAAC
19577301 TGGGCTTAAATCT
1 TGGGCTTAAATCT
19577314 CAAGAATTGG
Statistics
Matches: 429, Mismatches: 117, Indels: 70
0.70 0.19 0.11
Matches are distributed among these distances:
29 11 0.03
30 14 0.03
31 35 0.08
32 33 0.08
33 65 0.15
34 127 0.30
35 140 0.33
36 3 0.01
37 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (34 bp):
TGGGCTTAAATCTTTTCATGAATGCTAGCTAAAC
Found at i:19577313 original size:35 final size:34
Alignment explanation
Indices: 19576444--19577313 Score: 253
Period size: 34 Copynumber: 26.3 Consensus size: 34
19576434 CTTAGATTAT
*
19576444 GCTTAAAT-TTTAC-TTGGTGCTAGCT-AATTGG
1 GCTTAAATCTTTTCATTGGTGCTAGCTAAATTGG
* * * *
19576475 GCTTAAAT-TCTTT-ATTGAATGCCAACTAAATTGA
1 GCTTAAATCT-TTTCATTG-GTGCTAGCTAAATTGG
* * *
19576509 GCTTAAATC--TTCATTTGG-GCTAGATAATTTAG
1 GCTTAAATCTTTTCA-TTGGTGCTAGCTAAATTGG
* * * * *
19576541 GCTTAAA--TTCTCATTGAGTACCAGCTAAACTCG
1 GCTTAAATCTTTTCATTG-GTGCTAGCTAAATTGG
*
19576574 GCTTAAATCTTTT-ATTGGATGCTAGCCAAATTGG
1 GCTTAAATCTTTTCATTGG-TGCTAGCTAAATTGG
* ** *
19576608 GCTTAAA--TTTTCATTGGTGCAAATTAATACTGG
1 GCTTAAATCTTTTCATTGGTGCTAGCTAA-ATTGG
* * * *
19576641 GCTTAAA-----AC-TTGGTGTTAGCTAAACTGA
1 GCTTAAATCTTTTCATTGGTGCTAGCTAAATTGG
* * * * *
19576669 GTTTAAATGTTTT-ATTGATGCCAG-TCAATTTGG
1 GCTTAAATCTTTTCATTGGTGCTAGCT-AAATTGG
* ** *
19576702 GTTTAAATC-TTTCATTAATGCCAG-TCAAATTGG
1 GCTTAAATCTTTTCATTGGTGCTAGCT-AAATTGG
* * * *
19576735 GTTTAAATTTTTTTA-TGAAGTGCTAGCTAAACTGG
1 GCTTAAATCTTTTCATTG--GTGCTAGCTAAATTGG
**
19576770 GCTTAAATCTTTTCA-TGGATGCTAGCTAAGCTGG
1 GCTTAAATCTTTTCATTGG-TGCTAGCTAAATTGG
* * * * * * *
19576804 GTTTAATTCCTATCA-TGAGTGCTAGTTAAACTAG
1 GCTTAAATCTTTTCATTG-GTGCTAGCTAAATTGG
* *
19576838 GCTTAAAT-TTTT-ATTAGTGCCAGCTAAATTGG
1 GCTTAAATCTTTTCATTGGTGCTAGCTAAATTGG
* * *
19576870 GCTTAAATTTTTTCA-TGGATGCCAGCTAAGTTGG
1 GCTTAAATCTTTTCATTGG-TGCTAGCTAAATTGG
* * *** * * *
19576904 GTTTAATTCCGATCA-TGAGTGCCAACTAAACTGG
1 GCTTAAATCTTTTCATTG-GTGCTAGCTAAATTGG
* * * * *
19576938 GCTTAAATCTTTTTA-TGAAGGGCAAACTAAATTAG
1 GCTTAAATCTTTTCATTG--GTGCTAGCTAAATTGG
* * * *
19576973 GCTTAAATC----CATTGGTACTAGTTAATACTAG
1 GCTTAAATCTTTTCATTGGTGCTAGCTAA-ATTGG
* * * *
19577004 GCTTAAAAC----C-TAGGTGCCAGCTAAACTGG
1 GCTTAAATCTTTTCATTGGTGCTAGCTAAATTGG
* *
19577033 GTTTAAATCTTTTCA-TGATATGCTAGCTAAATTGG
1 GCTTAAATCTTTTCATTG--GTGCTAGCTAAATTGG
* * * *
19577068 ACTTAAATGTTTT-ATTGATGCTAG-TCAAACTGG
1 GCTTAAATCTTTTCATTGGTGCTAGCT-AAATTGG
19577101 GCTTAAATCTTTT--TGTGAGATGCTAGCTAAATTGG
1 GCTTAAATCTTTTCAT-TG-G-TGCTAGCTAAATTGG
* * * **
19577136 GTTTAAATCTTTTCATAGATGCCGGCT--A-TGG
1 GCTTAAATCTTTTCATTGGTGCTAGCTAAATTGG
* * * * * * *
19577167 GTTTAATTCCTATCA-TGAGTGCTAGATAAACTAG
1 GCTTAAATCTTTTCATTG-GTGCTAGCTAAATTGG
* *
19577201 GCTTGAATCTTTTCATTGGATGCTAGCT-ACTATGG
1 GCTTAAATCTTTTCATTGG-TGCTAGCTAAAT-TGG
* * *
19577236 GATTAAATC--TTCATTAAGTGCTAGAC-AAATTGA
1 GCTTAAATCTTTTCATT-GGTGCTAG-CTAAATTGG
* *
19577269 GCTTGAATCTTTTCACTTGGTGCTAGCTAAGTTGG
1 GCTTAAATCTTTTCA-TTGGTGCTAGCTAAATTGG
19577304 GCTTAAATCT
1 GCTTAAATCT
19577314 CAAGAATTGG
Statistics
Matches: 617, Mismatches: 155, Indels: 130
0.68 0.17 0.14
Matches are distributed among these distances:
28 10 0.02
29 21 0.03
30 18 0.03
31 46 0.07
32 66 0.11
33 145 0.24
34 161 0.26
35 144 0.23
36 5 0.01
37 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (34 bp):
GCTTAAATCTTTTCATTGGTGCTAGCTAAATTGG
Found at i:19579654 original size:9 final size:9
Alignment explanation
Indices: 19579641--19579686 Score: 53
Period size: 8 Copynumber: 5.4 Consensus size: 9
19579631 GTTTTCTTTG
19579641 CTTTTTT-A
1 CTTTTTTCA
19579649 CTTTTTTCA
1 CTTTTTTCA
19579658 C-TTTTTCA
1 CTTTTTTCA
**
19579666 CTTTTTTTT
1 CTTTTTTCA
19579675 CTTTTTTC-
1 CTTTTTTCA
19579683 CTTT
1 CTTT
19579687 AAGGCATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 19 0.58
9 14 0.42
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (9 bp):
CTTTTTTCA
Found at i:19579663 original size:17 final size:17
Alignment explanation
Indices: 19579641--19579686 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
19579631 GTTTTCTTTG
19579641 CTTTTTTACTTTTTTCA
1 CTTTTTTACTTTTTTCA
* **
19579658 CTTTTTCACTTTTTTTT
1 CTTTTTTACTTTTTTCA
*
19579675 CTTTTTTCCTTT
1 CTTTTTTACTTT
19579687 AAGGCATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (17 bp):
CTTTTTTACTTTTTTCA
Found at i:19586637 original size:15 final size:15
Alignment explanation
Indices: 19586617--19586645 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19586607 ATTTATAATT
19586617 TTTTAAAATTTAAAA
1 TTTTAAAATTTAAAA
19586632 TTTTAAAATTTAAA
1 TTTTAAAATTTAAA
19586646 TAATAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTAAAATTTAAAA
Done.