Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 135 of 175
Found at i:41870522 original size:29 final size:30
Alignment explanation
Indices: 41870476--41870539 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
41870466 TGTAAGTTTG
**
41870476 AAATTTAGTTTTCATATTTTT-ACTTTTAA
1 AAATTTAGTTTTCATATTTTTCAAATTTAA
41870505 AAATTTAGTCTTTC-TATTTTTCAAATTTAA
1 AAATTTAGT-TTTCATATTTTTCAAATTTAA
41870535 AAATT
1 AAATT
41870540 CAGATCAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (30 bp):
AAATTTAGTTTTCATATTTTTCAAATTTAA
Found at i:41874207 original size:16 final size:15
Alignment explanation
Indices: 41874175--41874208 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
41874165 AATAAATTAA
*
41874175 ATTTTATATTGAATT
1 ATTTTATATTAAATT
41874190 ATTTTATATTTAAATT
1 ATTTTATA-TTAAATT
41874206 ATT
1 ATT
41874209 ATGTTCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTTATATTAAATT
Found at i:41874633 original size:3 final size:3
Alignment explanation
Indices: 41874627--41874651 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
41874617 ATTTGAAAAT
41874627 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
41874652 ATAAAGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:41883305 original size:6 final size:7
Alignment explanation
Indices: 41883278--41883304 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
41883268 ACAACTTGCC
41883278 ATTTTTT
1 ATTTTTT
41883285 ATTTTTT
1 ATTTTTT
41883292 ATTTTTT
1 ATTTTTT
41883299 ATTTTT
1 ATTTTT
41883305 ACATCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:41888612 original size:38 final size:38
Alignment explanation
Indices: 41888570--41888645 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
41888560 CGTTTTTATA
41888570 ATCATGTTCAATTTAACAATTTTGAGCTTTTTTTCTTT
1 ATCATGTTCAATTTAACAATTTTGAGCTTTTTTTCTTT
41888608 ATCATGTTCAATTTAACAATTTTGAGCTTTTTTTCTTT
1 ATCATGTTCAATTTAACAATTTTGAGCTTTTTTTCTTT
41888646 CTTGGGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.55
Consensus pattern (38 bp):
ATCATGTTCAATTTAACAATTTTGAGCTTTTTTTCTTT
Found at i:41926540 original size:43 final size:43
Alignment explanation
Indices: 41926492--41926581 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 43
41926482 TTTATTTTAA
*
41926492 AATTATCACAACTTTT-TTAACTAATAATTATTTTTAAATGTG
1 AATTATCACAACTTTTATTAAATAATAATTATTTTTAAATGTG
** * *
41926534 TAATTATTTCCACTTTTATTAAATTATAATTATTTTTAAATGTG
1 -AATTATCACAACTTTTATTAAATAATAATTATTTTTAAATGTG
41926578 AATT
1 AATT
41926582 TAGTAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 17 0.41
44 24 0.59
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (43 bp):
AATTATCACAACTTTTATTAAATAATAATTATTTTTAAATGTG
Found at i:41926968 original size:26 final size:26
Alignment explanation
Indices: 41926921--41926970 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
41926911 AAACTATTCA
* *
41926921 AGGTTTGGGTTTGGGTTCAGGGTTCG
1 AGGTTTGGGTTCGAGTTCAGGGTTCG
41926947 AGGTTTGAGGTTCGAGTT-AGGGTT
1 AGGTTTG-GGTTCGAGTTCAGGGTT
41926971 TAATGTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.12, C:0.06, G:0.44, T:0.38
Consensus pattern (26 bp):
AGGTTTGGGTTCGAGTTCAGGGTTCG
Found at i:41929034 original size:18 final size:18
Alignment explanation
Indices: 41928999--41929035 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
41928989 ACTTTTAAAA
* *
41928999 TATGTTATTTGTTTTGTT
1 TATGTTATTTGGTATGTT
41929017 TATGTTATTTGGTATGTT
1 TATGTTATTTGGTATGTT
41929035 T
1 T
41929036 TAACATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.68
Consensus pattern (18 bp):
TATGTTATTTGGTATGTT
Found at i:41931485 original size:25 final size:29
Alignment explanation
Indices: 41931450--41931525 Score: 115
Period size: 25 Copynumber: 2.7 Consensus size: 29
41931440 CATATTTATA
41931450 GAAAGTCAAAGATATGGGTATC-AA-A-T
1 GAAAGTCAAAGATATGGGTATCAAATATT
41931476 -AAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATT
41931504 GGAAAGTCAAAGATATGGGTAT
1 -GAAAGTCAAAGATATGGGTAT
41931526 TGAGATATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
25 21 0.47
26 2 0.04
27 1 0.02
28 1 0.02
30 20 0.44
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATT
Found at i:41936170 original size:30 final size:30
Alignment explanation
Indices: 41936106--41936194 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
41936096 TCCATATTTA
*
41936106 TGGAAAGTTAAAGATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
41936133 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
41936161 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
41936192 TGG
1 TGG
41936195 CATAAGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
25 20 0.37
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.39
31 8 0.15
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:41939838 original size:25 final size:26
Alignment explanation
Indices: 41939798--41939847 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
41939788 TTGTAAATAA
41939798 AAATAATATCTCTAG-AAATTTTCTG
1 AAATAATATCTCTAGAAAATTTTCTG
* *
41939823 AAATAATTTCTTTAGAAAATTTTCT
1 AAATAATATCTCTAGAAAATTTTCT
41939848 TTTTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (26 bp):
AAATAATATCTCTAGAAAATTTTCTG
Found at i:41942677 original size:43 final size:43
Alignment explanation
Indices: 41942616--41942708 Score: 159
Period size: 43 Copynumber: 2.2 Consensus size: 43
41942606 CTAATCACCT
*
41942616 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTCTACCAA
1 AAACGCCGCTAAAGATCATAACCTTTAGCGACGCTTCTACCAA
* *
41942659 AAACGCCGCTAAAGATCATAACCTTTAGTGACGCTTCTACCAC
1 AAACGCCGCTAAAGATCATAACCTTTAGCGACGCTTCTACCAA
41942702 AAACGCC
1 AAACGCC
41942709 ACTATAAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATAACCTTTAGCGACGCTTCTACCAA
Found at i:41943236 original size:20 final size:20
Alignment explanation
Indices: 41943177--41943234 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
41943167 AAATAAACAC
41943177 AAAAAA-ATTTTAGAAAATTAA
1 AAAAAATATTTTA-AAAA-TAA
41943198 AAAAAATATTTTAAAAATAA
1 AAAAAATATTTTAAAAATAA
41943218 AAAAAAGTATTTTAAAA
1 AAAAAA-TATTTTAAAA
41943235 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.26
21 20 0.57
22 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAAATATTTTAAAAATAA
Found at i:41944948 original size:13 final size:13
Alignment explanation
Indices: 41944927--41944960 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
41944917 GACCCTTTCT
*
41944927 GGAATGTCTGTCA
1 GGAAAGTCTGTCA
41944940 GGAAAGTCTGTCA
1 GGAAAGTCTGTCA
41944953 GGAAAGTC
1 GGAAAGTC
41944961 ATGCACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (13 bp):
GGAAAGTCTGTCA
Found at i:41946698 original size:14 final size:14
Alignment explanation
Indices: 41946679--41946708 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
41946669 TACACCGTAT
41946679 ACCTTAAACCCTAA
1 ACCTTAAACCCTAA
41946693 ACCTTAAACCCTAA
1 ACCTTAAACCCTAA
41946707 AC
1 AC
41946709 TATAATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (14 bp):
ACCTTAAACCCTAA
Found at i:41946707 original size:21 final size:21
Alignment explanation
Indices: 41946594--41946708 Score: 63
Period size: 21 Copynumber: 5.4 Consensus size: 21
41946584 AAACCCCAAC
* * *
41946594 CCTTAAACCATAAATCGTAAT
1 CCTTAAACCCTAAACCGTAAA
* * *
41946615 CCCTAAACCCATAATCCATAAA
1 CCTTAAACCC-TAAACCGTAAA
* *
41946637 CCTTAAA--ATAATAACTCATAAA
1 CCTTAAACCCT-A-AAC-CGTAAA
* * *
41946659 CCTTAAACTCTACACCGTATA
1 CCTTAAACCCTAAACCGTAAA
*
41946680 CCTTAAACCCTAAACCTTAAA
1 CCTTAAACCCTAAACCGTAAA
*
41946701 CCCTAAAC
1 CCTTAAAC
41946709 TATAATGATA
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 38 0.54
22 28 0.40
23 1 0.01
24 1 0.01
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.24
Consensus pattern (21 bp):
CCTTAAACCCTAAACCGTAAA
Found at i:41951690 original size:14 final size:14
Alignment explanation
Indices: 41951673--41951730 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
41951663 ATAAATCATA
41951673 AACCCCTAACCCTT
1 AACCCCTAACCCTT
*
41951687 AACCCTTAACCCTT
1 AACCCCTAACCCTT
* *
41951701 AACCACTAAACCTT
1 AACCCCTAACCCTT
*
41951715 AAACTCC-AACCCTT
1 -AACCCCTAACCCTT
41951729 AA
1 AA
41951731 ACCATAAATC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 2 0.06
14 30 0.83
15 4 0.11
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCCCTAACCCTT
Found at i:41951697 original size:21 final size:22
Alignment explanation
Indices: 41951653--41951738 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 22
41951643 TAACCCCTAT
* * * *
41951653 CCCCTAAACCATAAATCATAAA
1 CCCCTAACCCTTAAACCTTAAA
*
41951675 CCCCTAACCCTTAACCCTT-AA
1 CCCCTAACCCTTAAACCTTAAA
*
41951696 CCCTTAACCAC-TAAACCTTAAA
1 CCCCTAACC-CTTAAACCTTAAA
* *
41951718 CTCC-AACCCTTAAACCATAAA
1 CCCCTAACCCTTAAACCTTAAA
41951739 TCATAATCCC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.02
21 31 0.61
22 19 0.37
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (22 bp):
CCCCTAACCCTTAAACCTTAAA
Found at i:41951711 original size:36 final size:37
Alignment explanation
Indices: 41951634--41951712 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 37
41951624 ACTAATTAAT
* *
41951634 CTAAACCCCTAACCCCTATCCCCTAAACCATAAATCA
1 CTAAACCCCTAACCCCTATACCCTAAACCATAAACCA
* * * *
41951671 -TAAACCCCTAACCCTTA-ACCCTTAACCCTTAACCA
1 CTAAACCCCTAACCCCTATACCCTAAACCATAAACCA
41951706 CTAAACC
1 CTAAACC
41951713 TTAAACTCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
35 13 0.37
36 22 0.63
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (37 bp):
CTAAACCCCTAACCCCTATACCCTAAACCATAAACCA
Found at i:41951760 original size:15 final size:14
Alignment explanation
Indices: 41951732--41951773 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
41951722 AACCCTTAAA
*
41951732 CCATAAATCATAAT
1 CCATAAACCATAAT
*
41951746 CCCTAAACCCATAAT
1 CCATAAA-CCATAAT
41951761 CCATAAACCATAA
1 CCATAAACCATAA
41951774 GATAGTAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:41952105 original size:20 final size:20
Alignment explanation
Indices: 41952067--41952105 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41952057 TTTAAATAAT
* *
41952067 ATAAATAAACCGATTAAATA
1 ATAAATAAACAGATAAAATA
*
41952087 ATAAATAGACAGATAAAAT
1 ATAAATAAACAGATAAAAT
41952106 GTTTTTTGCG
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (20 bp):
ATAAATAAACAGATAAAATA
Found at i:41952972 original size:8 final size:7
Alignment explanation
Indices: 41952955--41953004 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
41952945 AAAGATGTGA
41952955 AAAAAT-
1 AAAAATG
41952961 AAAAATAG
1 AAAAAT-G
41952969 AAAAATG
1 AAAAATG
41952976 AAAAATG
1 AAAAATG
41952983 AAAAATGG
1 AAAAAT-G
41952991 AAAAA-G
1 AAAAATG
41952997 TAAAAATG
1 -AAAAATG
41953005 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 19 0.49
8 13 0.33
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:41952972 original size:14 final size:14
Alignment explanation
Indices: 41952955--41953004 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
41952945 AAAGATGTGA
41952955 AAAAAT-AAAAATAG
1 AAAAATGAAAAAT-G
41952969 AAAAATGAAAAATG
1 AAAAATGAAAAATG
41952983 AAAAATGGAAAAA-G
1 AAAAAT-GAAAAATG
41952997 TAAAAATG
1 -AAAAATG
41953005 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:41952977 original size:22 final size:22
Alignment explanation
Indices: 41952955--41953004 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
41952945 AAAGATGTGA
41952955 AAAAAT-AAAAATAGAAAAATG
1 AAAAATGAAAAATAGAAAAATG
*
41952976 AAAAATGAAAAATGGAAAAA-G
1 AAAAATGAAAAATAGAAAAATG
41952997 TAAAAATG
1 -AAAAATG
41953005 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAATGAAAAATAGAAAAATG
Found at i:41953005 original size:15 final size:15
Alignment explanation
Indices: 41952961--41953006 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
41952951 GTGAAAAAAT
41952961 AAAAATAGAAAAAT-G
1 AAAAAT-GAAAAATGG
41952976 AAAAATGAAAAATGG
1 AAAAATGAAAAATGG
41952991 AAAAA-GTAAAAATGG
1 AAAAATG-AAAAATGG
41953006 A
1 A
41953007 GAGGCTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.28
15 21 0.72
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAAATGAAAAATGG
Found at i:41954433 original size:50 final size:50
Alignment explanation
Indices: 41954379--41955370 Score: 352
Period size: 50 Copynumber: 19.7 Consensus size: 50
41954369 CAATGAAAAG
* * *
41954379 GATTGAAACCATAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGAAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * ** * * * * *
41954429 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTGTAATTTAAA-A
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCA-GTGT-AGTGAAACA
* * * * * * * * *
41954480 GATTGAAGCCACAATGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * ** * * * * *
41954530 GATTGAAGCTACGACGGTGGATCTGGTTTCCCAGACATTGTAGTTAAAAA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * * * *
41954580 GATTGAAGCCACAACGATGGATCTTACTTCCCTAGCAGTCTAATTGGAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGT-AGTGAAACA
* * * * * * * * * *
41954631 GATTGAAGCTACGACGGTGGATCTTGTTTCCCAGACATTGCAATTAAAAA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
** * * * ** *
41954681 GATTGAAGCCACAACGACGAATTTTACTTCCCTGGTGGTGTAGTTGGAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAG-TGAAACA
* * * ** * * * * *
41954732 GATTAAAGCCACGACGGCGGATCTGGTTTCCCAGTCATTGCAATGGAAA-A
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGT-GAAACA
* * *
41954782 GGATTGAAACCACAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGGAACA
1 -GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * ** * * * * * *
41954833 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTGCAATTTAAA-A
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCA-GTG-TAGTGAAACA
* * * * * * * *
41954884 GATTGAAGCCACAATGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * * ** * * * * * * *
41954934 TATTGAAGCTACGACGGCGGATCTGGTTTCCCAGTCATTGCAATTAAAAA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * * * * *
41954984 GATTGAAGTCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTTGGAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAG-TGAAACA
* * * * * * * * * *
41955035 GATTGAAGCTACGACGGTTGATCTTATTTCCCAGACATTGCAATTAAAAA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * * ** * *
41955085 GATTGAAGCCACAATGGCGAATCTTACTTCTTTGGCGGTGTAGTTGGAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAG-TGAAACA
* * * ** * * * * * * *
41955136 GATTAAAGCCACGACGGCGGATCTGGTTTCCCAGTCATTGCAATTAAAAA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * * * ** *
41955186 GATTGAAGCCACAACGGCGAATCTTACTTCCTTAGTGGTGTAGTTGGAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAG-TGAAACA
* * ** * * * * * * *
41955237 GATTGAAGCCACGACGGCGGATCTGGTTTCCCAGTCATTGCAATTAAAAA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * *** * *
41955287 GATTGAAGCCACAACGGCGAATCTTACTTCCCTGATGGCGTAGTGGAACA
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
* * * *
41955337 GATTGAAGCTACTACGGTGAATCTTGTTTCCCTG
1 GATTGAAGCCACAACGGTGGATCTTATTTCCCTG
41955371 ACATTACGGT
Statistics
Matches: 629, Mismatches: 299, Indels: 28
0.66 0.31 0.03
Matches are distributed among these distances:
49 8 0.01
50 353 0.56
51 259 0.41
52 9 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (50 bp):
GATTGAAGCCACAACGGTGGATCTTATTTCCCTGGCAGTGTAGTGAAACA
Found at i:41954530 original size:101 final size:100
Alignment explanation
Indices: 41954364--41955375 Score: 1304
Period size: 101 Copynumber: 10.0 Consensus size: 100
41954354 ATCTCTTTGG
* * * * * * * * *
41954364 CATTACAATGAAAAGGATTGAAACCATAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGAAACA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
*
41954429 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
66 GATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
* * * * * *
41954464 CATTTGTAATTTAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAAC
1 CA-TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
*
41954529 AGATTGAAGCTACGACGGTGGATCTGGTTTCCCAGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
* * ** * * * * *
41954565 CATTGTAGTTAAAAAGATTGAAGCCACAACGATGGATCTTACTTCCCTAGCAGTCTAATTGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT-AGTGGAAC
* *
41954630 AGATTGAAGCTACGACGGTGGATCTTGTTTCCCAGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
* * *
41954666 CATTGCAATTAAAAAGATTGAAGCCACAACGACGAATTTTACTTCCCTGGTGGTGTAGTTGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAG-TGGAAC
* * *
41954731 AGATTAAAGCCACGACGGCGGATCTGGTTTCCCAGT
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
* * * * * *
41954767 CATTGCAATGGAAAAGGATTGAAACCACAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGGAAC
1 CATTGCAAT-TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
*
41954832 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
* * * *
41954868 CATTTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAAC
1 CA-TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
* *
41954933 ATATTGAAGCTACGACGGCGGATCTGGTTTCCCAGT
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
* *
41954969 CATTGCAATTAAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTTGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAG-TGGAAC
** **
41955034 AGATTGAAGCTACGACGGTTGATCTTATTTCCCAGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
* **
41955070 CATTGCAATTAAAAAGATTGAAGCCACAATGGCGAATCTTACTTCTTTGGCGGTGTAGTTGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAG-TGGAAC
* * *
41955135 AGATTAAAGCCACGACGGCGGATCTGGTTTCCCAGT
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
* * *
41955171 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGTGGTGTAGTTGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAG-TGGAAC
* *
41955236 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCAGT
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
** *
41955272 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGATGGCGTAGTGGAACA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
* * * * *
41955337 GATTGAAGCTACTACGGTGAATCTTGTTTCCCTGA
66 GATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
41955372 CATT
1 CATT
41955376 ACGGTTAAGC
Statistics
Matches: 798, Mismatches: 108, Indels: 12
0.87 0.12 0.01
Matches are distributed among these distances:
100 136 0.17
101 615 0.77
102 47 0.06
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (100 bp):
CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
GATTGAAGCTACGACGGCGGATCTGGTTTCCCAGA
Found at i:41955127 original size:404 final size:403
Alignment explanation
Indices: 41954364--41955375 Score: 1551
Period size: 404 Copynumber: 2.5 Consensus size: 403
41954354 ATCTCTTTGG
* * *
41954364 CATTACAATGAAAAGGATTGAAACCATAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGAAACA
1 CATTGCAATGAAAAGGATTGAAACCACAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGGAACA
*
41954429 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTGTAATTTAAAAGATTGAAGCCACAA
66 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTGCAATTTAAAAGATTGAAGCCACAA
*
41954494 TGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACAGATTGAAGCTACGACGGTGGATCTGGTTT
131 TGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACGACGGTGGATCTGGTTT
* * * *
41954559 CCCAGACATTGTAGTTAAAAAGATTGAAGCCACAACGATGGATCTTACTTCCCTAGCAGTCTAAT
196 CCCAGACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCAGTCTAAT
*
41954624 TGGAACAGATTGAAGCTACGACGGTGGATCTTGTTTCCCAGACATTGCAATTAAAAAGATTGAAG
261 TGGAACAGATTGAAGCTACGACGGTGGATCTTATTTCCCAGACATTGCAATTAAAAAGATTGAAG
* *
41954689 CCACAACGACGAATTTTACTTCCCTGGTGGTGTAGTTGGAACAGATTAAAGCCACGACGGCGGAT
326 CCACAACGACGAATCTTACTTCCCTGGCGGTGTAGTTGGAACAGATTAAAGCCACGACGGCGGAT
41954754 CTGGTTTCCCAGT
391 CTGGTTTCCCAGT
41954767 CATTGCAATGGAAAAGGATTGAAACCACAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGGAAC
1 CATTGCAAT-GAAAAGGATTGAAACCACAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGGAAC
41954832 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTGCAATTTAAAAGATTGAAGCCACA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTGCAATTTAAAAGATTGAAGCCACA
* *
41954897 ATGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACATATTGAAGCTACGACGGCGGATCTGGTT
130 ATGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACGACGGTGGATCTGGTT
* * * * * * * *
41954962 TCCCAGTCATTGCAATTAAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCTTGGCGGTGTAG
195 TCCCAGACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCAGTCTAA
*
41955027 TTGGAACAGATTGAAGCTACGACGGTTGATCTTATTTCCCAGACATTGCAATTAAAAAGATTGAA
260 TTGGAACAGATTGAAGCTACGACGGTGGATCTTATTTCCCAGACATTGCAATTAAAAAGATTGAA
* * **
41955092 GCCACAATGGCGAATCTTACTTCTTTGGCGGTGTAGTTGGAACAGATTAAAGCCACGACGGCGGA
325 GCCACAACGACGAATCTTACTTCCCTGGCGGTGTAGTTGGAACAGATTAAAGCCACGACGGCGGA
41955157 TCTGGTTTCCCAGT
390 TCTGGTTTCCCAGT
* * * * * * * * *
41955171 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGTGGTGTAGTTGGAAC
1 CATTGCAATGAAAAGGATTGAAACCACAACGGTGGATCTTATTTCCCTGGCGGTGTAG-TGGAAC
* * * *
41955236 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCAGTCA-TTGCAATTAAAAAGATTGAAGCCACA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTGCAATTTAAAAGATTGAAGCCACA
* * * * * * *
41955300 ACGGCGAATCTTACTTCCCT-GATGGCGTAGTGGAACAGATTGAAGCTACTACGGTGAATCTTGT
130 ATGGCGAATCTTACTTCCCTAG-CGGTGCAGTGGAACAGATTGAAGCTACGACGGTGGATCTGGT
*
41955364 TTCCCTGACATT
194 TTCCCAGACATT
41955376 ACGGTTAAGC
Statistics
Matches: 555, Mismatches: 51, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
402 1 0.00
403 136 0.25
404 418 0.75
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (403 bp):
CATTGCAATGAAAAGGATTGAAACCACAACGGTGGATCTTATTTCCCTGGCGGTGTAGTGGAACA
GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTGCAATTTAAAAGATTGAAGCCACAA
TGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACGACGGTGGATCTGGTTT
CCCAGACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCAGTCTAAT
TGGAACAGATTGAAGCTACGACGGTGGATCTTATTTCCCAGACATTGCAATTAAAAAGATTGAAG
CCACAACGACGAATCTTACTTCCCTGGCGGTGTAGTTGGAACAGATTAAAGCCACGACGGCGGAT
CTGGTTTCCCAGT
Found at i:41956838 original size:24 final size:25
Alignment explanation
Indices: 41956802--41956852 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
41956792 TTTTTTTAGT
*
41956802 TTTTTTATATAT-ATTGTTTATATTA
1 TTTTTTATATATAATT-ATTATATTA
*
41956827 TTTTTTA-GTATAATTATTATATTA
1 TTTTTTATATATAATTATTATATTA
41956851 TT
1 TT
41956853 ATTATTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (25 bp):
TTTTTTATATATAATTATTATATTA
Found at i:41956970 original size:11 final size:11
Alignment explanation
Indices: 41956937--41956979 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
41956927 ATATAGTGCG
41956937 TATATATTTTAT
1 TATATATTTT-T
*
41956949 TATCATTTTTTT
1 TAT-ATATTTTT
*
41956961 TATATATTTTA
1 TATATATTTTT
41956972 TATATATT
1 TATATATT
41956980 ATATACATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 14 0.52
12 7 0.26
13 6 0.22
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TATATATTTTT
Found at i:41957091 original size:75 final size:73
Alignment explanation
Indices: 41956988--41957127 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 73
41956978 TTATATACAT
* * *
41956988 TCATATTTTTTATAATTATTTATGTTTTCAT-GTTTTATAATTCATATGTTTATACATTTTTATA
1 TCATATATTTTATAATTATTTATGTTTTCATAGCTTTAT-ATACATATG--TATACATTTTTATA
41957052 ATATGTACAAA
63 ATATGTACAAA
* * *
41957063 TCATATATTTTATTATTATTTTAT-TTTTCTTAGCTTTATATACATATGTATATATTTTTATAAT
1 TCATATATTTTATAATTA-TTTATGTTTTCATAGCTTTATATACATATGTATACATTTTTATAAT
41957127 A
65 A
41957128 GTTTTTATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
73 16 0.28
75 30 0.53
76 11 0.19
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (73 bp):
TCATATATTTTATAATTATTTATGTTTTCATAGCTTTATATACATATGTATACATTTTTATAATA
TGTACAAA
Found at i:41966587 original size:31 final size:30
Alignment explanation
Indices: 41966547--41966606 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
41966537 AAAATTTCAA
41966547 AATTCGAAAA-ACTTCAAGACTAAAATTGAGT
1 AATTCGAAAACAC-T-AAGACTAAAATTGAGT
*
41966578 AATTTGAAAAGCACTAAGACTAAAATTGA
1 AATTCGAAAA-CACTAAGACTAAAATTGA
41966607 TTAAATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 23 0.88
32 1 0.04
33 2 0.08
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (30 bp):
AATTCGAAAACACTAAGACTAAAATTGAGT
Found at i:41969861 original size:6 final size:6
Alignment explanation
Indices: 41969850--41969886 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
41969840 TCAAATGCCC
*
41969850 CAACCG CAACCG CAACCG CAACCG CAACCG CGACCG C
1 CAACCG CAACCG CAACCG CAACCG CAACCG CAACCG C
41969887 TAAACCTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.30, C:0.51, G:0.19, T:0.00
Consensus pattern (6 bp):
CAACCG
Found at i:41970213 original size:3 final size:3
Alignment explanation
Indices: 41970205--41970234 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
41970195 ATAACTTCTT
41970205 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41970235 ACCAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:41973940 original size:33 final size:33
Alignment explanation
Indices: 41973888--41973951 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
41973878 AAGGTCACTT
* * *
41973888 GGGGTTGGATTAGAAGACGAATACATTGGTAAA
1 GGGGTTAGATTAGAAGACGAAGACACTGGTAAA
* *
41973921 GGGGTTAGATTCGATGACGAAGACACTGGTA
1 GGGGTTAGATTAGAAGACGAAGACACTGGTA
41973952 TAGGACATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.34, T:0.23
Consensus pattern (33 bp):
GGGGTTAGATTAGAAGACGAAGACACTGGTAAA
Found at i:41977406 original size:8 final size:9
Alignment explanation
Indices: 41977384--41977469 Score: 93
Period size: 9 Copynumber: 9.0 Consensus size: 9
41977374 TGTAGTATTT
41977384 TAAAAATTA
1 TAAAAATTA
41977393 TAAAAATTA
1 TAAAAATTA
41977402 TAAAAAAATTTA
1 T--AAAAA-TTA
41977414 TAAAAATTA
1 TAAAAATTA
*
41977423 TCAAAACTTA
1 T-AAAAATTA
41977433 TAATATAATT-
1 TAA-A-AATTA
41977443 TAAAAATTA
1 TAAAAATTA
*
41977452 TAAAAATCA
1 TAAAAATTA
41977461 TAAAAATTA
1 TAAAAATTA
41977470 CAACACAAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
8 4 0.06
9 33 0.50
10 17 0.26
11 8 0.12
12 4 0.06
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:41977414 original size:12 final size:11
Alignment explanation
Indices: 41977385--41977457 Score: 52
Period size: 10 Copynumber: 7.3 Consensus size: 11
41977375 GTAGTATTTT
41977385 AAAAATTAT--
1 AAAAATTATAA
41977394 AAAAATTATAA
1 AAAAATTATAA
*
41977405 AAAAATT-TAT
1 AAAAATTATAA
*
41977415 AAAAATTAT-C
1 AAAAATTATAA
*
41977425 AAAACTTATAA
1 AAAAATTATAA
* *
41977436 TATAATT-T--
1 AAAAATTATAA
41977444 AAAAATTATAA
1 AAAAATTATAA
41977455 AAA
1 AAA
41977458 TCATAAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
8 5 0.10
9 10 0.21
10 18 0.38
11 15 0.31
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:41977433 original size:19 final size:18
Alignment explanation
Indices: 41977384--41977469 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 18
41977374 TGTAGTATTT
41977384 TAAAAATTATAAAAATTA
1 TAAAAATTATAAAAATTA
41977402 TAAAAAAATTTATAAAAATTA
1 T--AAAAA-TTATAAAAATTA
*
41977423 TCAAAACTTATAATATAATT-
1 T-AAAAATTATAA-A-AATTA
*
41977443 TAAAAATTATAAAAATCA
1 TAAAAATTATAAAAATTA
41977461 TAAAAATTA
1 TAAAAATTA
41977470 CAACACAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
17 3 0.05
18 11 0.19
19 16 0.28
20 11 0.19
21 17 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAATTATAAAAATTA
Found at i:41981104 original size:20 final size:20
Alignment explanation
Indices: 41981079--41981118 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
41981069 AAACCATGTG
*
41981079 TAAGATAAGAGGAAGATACA
1 TAAGATAAGAGGAAAATACA
41981099 TAAGATAAGAGGAAAATACA
1 TAAGATAAGAGGAAAATACA
41981119 AAGGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
TAAGATAAGAGGAAAATACA
Found at i:41988793 original size:19 final size:18
Alignment explanation
Indices: 41988743--41988789 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
41988733 GTAATACCTA
*
41988743 ATAAAAA-AAGTAAATTT
1 ATAAAAAGAAATAAATTT
* * *
41988760 TTAAAAATATATAAATTT
1 ATAAAAAGAAATAAATTT
41988778 ATAAAAAGAAAT
1 ATAAAAAGAAAT
41988790 TAAAATTATT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
ATAAAAAGAAATAAATTT
Found at i:41993066 original size:12 final size:12
Alignment explanation
Indices: 41993049--41993090 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
41993039 ACTAATCCTA
41993049 TCTCAAATTTCC
1 TCTCAAATTTCC
41993061 TCTCAAA-TTCC
1 TCTCAAATTTCC
41993072 T-TCCAAATTT-C
1 TCT-CAAATTTCC
41993083 TCTCAAAT
1 TCTCAAAT
41993091 CCATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.04
11 16 0.59
12 10 0.37
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:41996249 original size:15 final size:15
Alignment explanation
Indices: 41996226--41996260 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
41996216 TTTTTATGCC
*
41996226 ATTGATGTATTTATT
1 ATTGTTGTATTTATT
41996241 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
41996256 ATTGT
1 ATTGT
41996261 GGCATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:41996267 original size:15 final size:15
Alignment explanation
Indices: 41996234--41996267 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41996224 CCATTGATGT
* *
41996234 ATTTATTATTGTTGT
1 ATTTATTATTGTGGC
41996249 ATTTATTATTGTGGC
1 ATTTATTATTGTGGC
41996264 ATTT
1 ATTT
41996268 GTACATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (15 bp):
ATTTATTATTGTGGC
Found at i:42008583 original size:267 final size:267
Alignment explanation
Indices: 42008095--42008584 Score: 755
Period size: 267 Copynumber: 1.8 Consensus size: 267
42008085 CAACGACGAA
* *
42008095 TCTTATTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGT
1 TCTTACTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGC
* *
42008160 ATTAAGGCTAGGATTATCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTA
66 ATTAAGGCTAGGATTAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTA
** * *
42008225 GCATTACGGTGGAGCAGATTGAAACCACAACAGTGAATCTTACTCCCCTGACGGTGTAGTAGAAC
131 GCATTACAATAGAGCAGATTGAAACCACAACAGTGAATCTTACTCCCCTGACGGTGTAGCAGAAC
* *
42008290 AGATTGAAGCTACGACGGCGAATCTTATTTCCTCAACATATCAATTTAAAAGACTGAAGCTGTGA
196 AGATTGAAGCCACGACGGCAAATCTTATTTCCTCAACATATCAATTTAAAAGACTGAAGCTGTGA
42008355 CGGCGAG
261 CGGCGAG
* * * **
42008362 TCTTACTTCCCTGGCGTTGTAGCGGAGTAGATTGAAGCCACGACGGTGAATCTTATCTTTCTAGC
1 TCTTACTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGC
* * *
42008427 GTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCAAATTCTATCTCTTTA
66 ATTAAGGCTAGGATTAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTA
** * * * * *
42008492 GCATTACAATAGAGCAGATTGAAACCACGGCAGTGAATCTTACTTCCCTGGCGTTGTAGCGGAGC
131 GCATTACAATAGAGCAGATTGAAACCACAACAGTGAATCTTACTCCCCTGACGGTGTAGCAGAAC
42008557 AGATTGAAGCCACGACGGCAAATCTTAT
196 AGATTGAAGCCACGACGGCAAATCTTAT
42008585 CTCCCTGAAG
Statistics
Matches: 198, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
267 198 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (267 bp):
TCTTACTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGC
ATTAAGGCTAGGATTAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTA
GCATTACAATAGAGCAGATTGAAACCACAACAGTGAATCTTACTCCCCTGACGGTGTAGCAGAAC
AGATTGAAGCCACGACGGCAAATCTTATTTCCTCAACATATCAATTTAAAAGACTGAAGCTGTGA
CGGCGAG
Found at i:42008677 original size:40 final size:44
Alignment explanation
Indices: 42008578--42008685 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
42008568 ACGACGGCAA
* *
42008578 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAAACTTAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAACTTAG
* * * * *
42008622 ATGTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAACTTAG
*
42008663 -TCTTATCTCCCTGAAGTTACAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
42008686 GGGGCAGACT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
40 19 0.36
41 3 0.06
42 4 0.08
43 6 0.11
44 21 0.40
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAACTTAG
Found at i:42010668 original size:15 final size:15
Alignment explanation
Indices: 42010645--42010677 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
42010635 TTTTTATGCC
42010645 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
42010660 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
42010675 ATT
1 ATT
42010678 CCGGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:42012521 original size:21 final size:20
Alignment explanation
Indices: 42012504--42013589 Score: 702
Period size: 21 Copynumber: 50.9 Consensus size: 20
42012494 ACAAACCTTA
*
42012504 AACCCTTAACAAAAAACCCT
1 AACCCTTAACTAAAAACCCT
*
42012524 AACCCTTAATTAAAAACCCT
1 AACCCTTAACTAAAAACCCT
* *
42012544 AACCCTTAAATTAAAACCCT
1 AACCCTTAACTAAAAACCCT
* *
42012564 AAACCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
** * *
42012585 GGCCGTTAACTTAAAAACCTT
1 AACCCTTAAC-TAAAAACCCT
* *
42012606 AACCCTTAAATTAAAAACCTT
1 AACCCTT-AACTAAAAACCCT
* * *
42012627 AAACCTTAAATTAATAACCCT
1 AACCCTT-AACTAAAAACCCT
* * *
42012648 AAACCTAAACTTAAAACCCCT
1 AACCCTTAAC-TAAAAACCCT
**
42012669 AAACCCTTAACTTAAAAATACT
1 -AACCCTTAAC-TAAAAACCCT
* *
42012691 AACCCTTAACTTCAAAATCCT
1 AACCCTTAAC-TAAAAACCCT
*
42012712 AACCCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* * * *
42012733 AAACCTTAATTAATAACTCT
1 AACCCTTAACTAAAAACCCT
* * *
42012753 AAACCTTAACTTAAAATCCT
1 AACCCTTAACTAAAAACCCT
*
42012773 AAACCCTTAACTTAAAACCCT
1 -AACCCTTAACTAAAAACCCT
*
42012794 AACCCTTAACTTAAAAACACT
1 AACCCTTAAC-TAAAAACCCT
*
42012815 AACCCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
*
42012836 AACCCTTAAACTAAAAACCTT
1 AACCCTT-AACTAAAAACCCT
* *
42012857 AAACCTTAACTGAAAAACCAT
1 AACCCTTAACT-AAAAACCCT
**
42012878 AACCCTTAACTTAAAAACAAT
1 AACCCTTAAC-TAAAAACCCT
* *
42012899 AACCCTAAAGTAAAAACCCT
1 AACCCTTAACTAAAAACCCT
*
42012919 AACCCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* *
42012940 AAACCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* *
42012961 AACCATTAACTTAAAAACCTT
1 AACCCTTAAC-TAAAAACCCT
* * *
42012982 AACACTTAAATTAAAAACCTT
1 AACCCTT-AACTAAAAACCCT
* * * *
42013003 AAACATTAACTTAATAACTCT
1 AACCCTTAAC-TAAAAACCCT
*
42013024 AAACCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
42013045 AAACCCTTAAC-ATAAAACCCT
1 -AACCCTTAACTA-AAAACCCT
42013066 AACCCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
* *
42013087 AAACCTTAACTTAAAAACCAT
1 AACCCTTAAC-TAAAAACCCT
* *
42013108 AAACACTTAACTTAAAAACACT
1 -AACCCTTAAC-TAAAAACCCT
42013130 AACCCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
* *
42013151 AACCCTTGATTAAAAACCCT
1 AACCCTTAACTAAAAACCCT
* *
42013171 AACCCTTAAATTAAAAAATCCT
1 AACCCTT-AACT-AAAAACCCT
42013193 AAACCCTTAA-TACAATTATACCCT
1 -AACCCTTAACTA-AA--A-ACCCT
*
42013217 AAACCTTAAACTTAAAAACCCT
1 AACCCTT-AAC-TAAAAACCCT
*
42013239 AACCCTAACCATTAAATTAAAAACCCT
1 AA--C---CC-TT-AACTAAAAACCCT
*
42013266 AGA-CCTTAAATTAAAAACCCT
1 A-ACCCTT-AACTAAAAACCCT
42013287 AACCCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
* * * *
42013308 AAGCGTTAAATTAAAAACTCT
1 AACCCTT-AACTAAAAACCCT
*
42013329 AAACCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
* * *
42013350 AAATCATTAAATTAAAAACCCT
1 -AACCCTT-AACTAAAAACCCT
* * *
42013372 CACCCTTAAATTAATAACCCT
1 AACCCTT-AACTAAAAACCCT
**
42013393 AAACCCTTAACTTAAAAACTAT
1 -AACCCTTAAC-TAAAAACCCT
* *
42013415 AAACCTTTACCTTAAAAACCCT
1 -AACCCTTAAC-TAAAAACCCT
*
42013437 AACCCTAACCATTAAATTAAAAACCCT
1 AA--C---CC-TT-AACTAAAAACCCT
* *
42013464 AAACCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* * *
42013485 AACCCTTAAATTAAAAATCAT
1 AACCCTT-AACTAAAAACCCT
* *
42013506 AAACCTTAACTTAATAACCCT
1 AACCCTTAAC-TAAAAACCCT
42013527 AACCCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
** *
42013548 AAAATCATAACTTAAAAACCCT
1 -AACCCTTAAC-TAAAAACCCT
42013570 AAACCCTTAACTTAAAAACC
1 -AACCCTTAAC-TAAAAACC
42013590 TTAAGGTTTT
Statistics
Matches: 872, Mismatches: 140, Indels: 106
0.78 0.13 0.09
Matches are distributed among these distances:
20 140 0.16
21 513 0.59
22 156 0.18
23 18 0.02
24 6 0.01
25 2 0.00
26 3 0.00
27 27 0.03
28 7 0.01
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (20 bp):
AACCCTTAACTAAAAACCCT
Found at i:42012615 original size:42 final size:42
Alignment explanation
Indices: 42012504--42013593 Score: 920
Period size: 42 Copynumber: 25.5 Consensus size: 42
42012494 ACAAACCTTA
* *
42012504 AACCCTTAAC-AAAAAACCCTAACCCTT-AATTAAAAACCCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * *
42012544 AACCCTTAAATT-AAAACCCTAAACCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
** * *
42012585 GGCCGTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCTT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * * * * *
42012627 AAACCTTAAATTAATAACCCTAAACC-TAAACTTAAAACCCCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAA-TTAAAAACCCT
* * * *
42012669 AAACCCTTAACTTAAAAATAC-TAACCCTTAACTTCAAAATCCT
1 -AACCCTTAACTTAAAAA-CCTTAACCCTTAAATTAAAAACCCT
* * * * *
42012712 AACCCTTAAATTAAAAACCCTAAACCTT-AATTAATAACTCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * * *
42012753 AAACCTTAACTTAAAATCCTAAACCCTTAACTT-AAAACCCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
42012794 AACCCTTAACTTAAAAACAC-TAACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAAC-CTTAACCCTTAAATTAAAAACCCT
* * * *
42012836 AACCCTTAAAC-TAAAAACCTTAAACCTTAACTGAAAAACCAT
1 AACCCTT-AACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
** *
42012878 AACCCTTAACTTAAAAACAATAACCC-TAAAGTAAAAACCCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * *
42012919 AACCCTTAAATTAAAAACCCTAAACCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * *
42012961 AACCATTAACTTAAAAACCTTAACACTTAAATTAAAAACCTT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * * * *
42013003 AAACATTAACTTAATAA-CTCTAAACCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCT-TAACCCTTAAATTAAAAACCCT
* * *
42013045 AAACCCTTAACAT-AAAACCCTAACCCTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * * * *
42013087 AAACCTTAACTTAAAAACCATAAACACTTAACTTAAAAACACT
1 AACCCTTAACTTAAAAACC-TTAACCCTTAAATTAAAAACCCT
* *
42013130 AACCCTTAACTTAAAAACCCTAACCCTT-GATTAAAAACCCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* *
42013171 AACCCTTAAATTAAAAAATCCTAAACCCTT-AA-TACAATTATACCCT
1 AACCCTTAACTT-AAAAA-CCTTAACCCTTAAATTA-AA--A-ACCCT
* *
42013217 AAACCTTAAACTTAAAAACCCTAACCCTAACCATTAAATTAAAAACCCT
1 AACCCTT-AACTTAAAAA-CCT-----TAACCCTTAAATTAAAAACCCT
* * *
42013266 AGA-CCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCT
1 A-ACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * * * *
42013308 AAGCGTTAAATTAAAAA-CTCTAAACCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCT-TAACCCTTAAATTAAAAACCCT
* * * * * *
42013350 AAATCATTAAATTAAAAACCCTCACCCTTAAATTAATAACCCT
1 -AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* **
42013393 AAACCCTTAACTTAAAAA-CTATAAACCTTTACCTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCT-T-AACCCTTAAATTAAAAACCCT
* * *
42013437 AACCCTAACCATTAAATTAAAAACCCTAAACCTTAAATTAAAAACCCT
1 AA--C---CC-TTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* * * * * *
42013485 AACCCTTAAATTAAAAATCATAAACCTTAACTTAATAACCCT
1 AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
* ** * *
42013527 AACCCTTAACTTAAAAACCCTAAAATCATAACTTAAAAACCCT
1 AACCCTTAACTTAAAAA-CCTTAACCCTTAAATTAAAAACCCT
42013570 AAACCCTTAACTTAAAAACCTTAA
1 -AACCCTTAACTTAAAAACCTTAA
42013594 GGTTTTTACT
Statistics
Matches: 853, Mismatches: 147, Indels: 97
0.78 0.13 0.09
Matches are distributed among these distances:
40 23 0.03
41 161 0.19
42 370 0.43
43 166 0.19
44 38 0.04
45 2 0.00
46 20 0.02
47 6 0.01
48 30 0.04
49 22 0.03
50 3 0.00
51 6 0.01
52 4 0.00
53 2 0.00
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (42 bp):
AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAACCCT
Found at i:42012646 original size:63 final size:63
Alignment explanation
Indices: 42012496--42013589 Score: 976
Period size: 63 Copynumber: 17.1 Consensus size: 63
42012486 TTTAATTGAC
* * * *
42012496 AAACCTTAAACCCTTAAC-AAAAAACCCTAACCCTTAA-TTAAAAACCCTAACCCTTAAATT-A
1 AAACCCTAAA-CCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCTTAACCCTTAAATTAA
* **
42012557 AAACCCTAAACCTTAAATTAAAAACCCT-GGCCGTTAACTTAAAAACCTTAACCCTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACC-TTAACTTAAAAACCTTAACCCTTAAATTAA
* * * * * * *
42012620 AAACCTTAAACCTTAAATTAATAACCCTAAACCTAAACTTAAAACCCCTAAACCCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAA-ACCTTAACCCTTAAATTAA
** * * * * * * *
42012684 AAATACTAACCCTTAACTTCAAAATCCTAACCCTTAAATTAAAAACCCTAAACCTT-AATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCTTAACCCTTAAATTAA
* * * * *
42012746 TAACTCTAAACCTTAACTT-AAAATCCTAAACCCTTAACTT-AAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAA-CCTTAACTTAAAAACCTTAACCCTTAAATTAA
* * * * * * *
42012808 AAACACTAACCCTTAAATTAAAAACCCTAACCCTTAAAC-TAAAAACCTTAAACCTTAACTGAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTT-AACTTAAAAACCTTAACCCTTAAATTAA
* * ** * ** *
42012871 AAACCATAACCCTTAACTTAAAAACAAT-AACCCTAAAGTAAAAACCCTAACCCTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCTTAACCCTTAAATTAA
* *
42012933 AAACCCTAAACCTTAAATTAAAAACCCT-AACCATTAACTTAAAAACCTTAACACTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACC-TTAACTTAAAAACCTTAACCCTTAAATTAA
* * * * *
42012996 AAACCTTAAACATTAACTTAATAACTCTAAACCTTAACTTAAAAACCCTAAACCCTTAACA-T-A
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAA-CCTTAACCCTTAA-ATTAA
* * * *
42013059 AAACCCTAACCCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCATAAACACTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACC-TTAACCCTTAAATTAA
* * * * *
42013123 AAACACTAACCCTTAACTTAAAAACCCTAACCCTTGA-TTAAAAACCCTAACCCTTAAATTAAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCTTAACCCTTAAATT-AA
*
42013186 AAATCCTAAACCCTTAA--TACAATTATACCCTAAACCTTAAACTTAAAAACCCTAACCCTAACC
1 AAACCCTAAA-CCTTAACTTA-AA--A-ACCCTAAACCTT-AACTTAAAAA-CCT-----TAACC
*
42013249 ATTAAATTAA
54 CTTAAATTAA
* * * * * *
42013259 AAACCCTAGACCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAAGCGTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCTTAACCCTTAAATTAA
* * * * *
42013322 AAACTCTAAACCTTAACTTAAAAACCCTAAATCATTAAATTAAAAACCCTCACCCTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAA-CCTTAACTTAAAAACCTTAACCCTTAAATTAA
* ** * *
42013386 TAACCCTAAACCCTTAACTTAAAAACTATAAACCTTTACCTTAAAAACCCTAACCCTAACCATTA
1 AAACCCTAAA-CCTTAACTTAAAAACCCTAAACC-TTAACTTAAAAA-CCT-----TAACCCTTA
42013451 AATTAA
58 AATTAA
* * * * * * *
42013457 AAACCCTAAACCTTAAATTAAAAACCCTAACCCTTAAATTAAAAATCATAAACCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCTTAACCCTTAAATTAA
* * * * * *
42013520 TAACCCTAACCCTTAACTTAAAAACCCTAAAATCATAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCT-AAACCTTAACTTAAAAA-CCTTAACCCTTAAATTAA
42013585 AAACC
1 AAACC
42013590 TTAAGGTTTT
Statistics
Matches: 841, Mismatches: 146, Indels: 88
0.78 0.14 0.08
Matches are distributed among these distances:
60 8 0.01
61 48 0.06
62 140 0.17
63 308 0.37
64 157 0.19
65 49 0.06
66 13 0.02
67 1 0.00
68 10 0.01
69 22 0.03
70 30 0.04
71 23 0.03
72 6 0.01
73 12 0.01
74 14 0.02
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (63 bp):
AAACCCTAAACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCTTAACCCTTAAATTAA
Found at i:42013244 original size:28 final size:29
Alignment explanation
Indices: 42013212--42013275 Score: 89
Period size: 27 Copynumber: 2.3 Consensus size: 29
42013202 ATACAATTAT
42013212 ACCCTAAACC-TTAAACTTAAAAACCCTA-
1 ACCCTAAACCATTAAA-TTAAAAACCCTAG
42013240 ACCCT-AACCATTAAATTAAAAACCCTAG
1 ACCCTAAACCATTAAATTAAAAACCCTAG
*
42013268 ACCTTAAA
1 ACCCTAAA
42013276 TTAAAAACCC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 16 0.50
28 14 0.44
29 2 0.06
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.22
Consensus pattern (29 bp):
ACCCTAAACCATTAAATTAAAAACCCTAG
Found at i:42013777 original size:104 final size:110
Alignment explanation
Indices: 42013597--42013857 Score: 408
Period size: 104 Copynumber: 2.4 Consensus size: 110
42013587 ACCTTAAGGT
*
42013597 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
42013662 AAATGTTTTGACTGG-T-AC-TAACAA-TT-A-ATAATTTGATAA
66 AAATGTTTTGACTGGCTAACATAACAATTTGATATAATTTGATAA
42013701 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
*
42013766 AAATGTTTTGACTGGCACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATGTTTTGACTGG--CTAAC-A-TAACAATTTGATATAATTTGATAA
*
42013815 TTTTACTAACCATTAATACAATTTATCAATTAATAATTTTACA
1 TTTTACTAACCATTAATACAA-TTATCAGTTAATAATTTTACA
42013858 AATATAATTT
Statistics
Matches: 143, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
104 79 0.55
107 1 0.01
108 2 0.01
111 5 0.03
112 2 0.01
113 1 0.01
114 33 0.23
115 20 0.14
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (110 bp):
TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
AAATGTTTTGACTGGCTAACATAACAATTTGATATAATTTGATAA
Found at i:42014122 original size:21 final size:21
Alignment explanation
Indices: 42014096--42014941 Score: 911
Period size: 21 Copynumber: 39.9 Consensus size: 21
42014086 ACAAACCTTA
**
42014096 AACCCTTAACAAAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014117 AACCCTTAACTTCAAAATCCT
1 AACCCTTAACTTAAAAACCCT
42014138 AACCCTTAA-TTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* * *
42014158 AACCCTTAAATTTAAAACTCT
1 AACCCTTAACTTAAAAACCCT
*
42014179 AAGCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014200 AACCCATAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* **
42014221 AAACCTTAACTTAATTACCCT
1 AACCCTTAACTTAAAAACCCT
* **
42014242 AAACCTTAACTTAATTACCCT
1 AACCCTTAACTTAAAAACCCT
*
42014263 AAACCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
42014284 AAACCCTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
*
42014306 AACCCTTAACTTAAAAATCCT
1 AACCCTTAACTTAAAAACCCT
* * **
42014327 AACCCCTAAATTAAAAGTCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014348 AAACCTTAACTTAATAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014369 AAACCTTCACTT-AAAACCCT
1 AACCCTTAACTTAAAAACCCT
42014389 AACCCTTAA-TTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* * * *
42014409 AACACTTAAATTTAAAACACT
1 AACCCTTAACTTAAAAACCCT
*
42014430 AACCCTTAACTTAAAAACACT
1 AACCCTTAACTTAAAAACCCT
42014451 AACCCTTAA--TAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* * *
42014470 AAACCTTAAATTAAAAACCCA
1 AACCCTTAACTTAAAAACCCT
*
42014491 AACTCTTAACTT-AAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014511 AACCCTTAAATTAAAAATCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014532 AAACCTTAACTTAATAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014553 AAACCTTAACTTAAAAACACT
1 AACCCTTAACTTAAAAACCCT
*
42014574 AAACCCTTAACTTAAAAACCTT
1 -AACCCTTAACTTAAAAACCCT
* *
42014596 AACACTTAACTTAAAAACTCT
1 AACCCTTAACTTAAAAACCCT
*
42014617 AACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014638 AAACATTAACTT-AAAACCACT
1 AACCCTTAACTTAAAAACC-CT
*
42014659 AAACCCTTAACTTTAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
42014681 AACCCTTAA-TTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
*
42014701 AACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
42014722 AAACCCTTAA--TACAATTATACCCT
1 -AACCCTTAACTTA-AA--A-ACCCT
*
42014746 AAACCATTAACTTAAAAACCGTAAACCT
1 -AACCCTTAACTTAAAAA-C-----CCT
* *
42014774 AACCATTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014795 AAACCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
*
42014816 AACCCTTAACATAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014837 AACCCTTAAATTAAAAAACCT
1 AACCCTTAACTTAAAAACCCT
* *
42014858 AAACCTTAACTTAATAACCCT
1 AACCCTTAACTTAAAAACCCT
42014879 AACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42014900 AAAACCTTAACTTAAAAATCCT
1 -AACCCTTAACTTAAAAACCCT
42014922 AAGCCCTTAACTTAAAAACC
1 AA-CCCTTAACTTAAAAACC
42014942 TTAAGGTTTT
Statistics
Matches: 704, Mismatches: 94, Indels: 53
0.83 0.11 0.06
Matches are distributed among these distances:
19 19 0.03
20 92 0.13
21 452 0.64
22 94 0.13
23 9 0.01
24 14 0.02
25 2 0.00
26 3 0.00
27 16 0.02
28 3 0.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCTTAACTTAAAAACCCT
Found at i:42014778 original size:27 final size:27
Alignment explanation
Indices: 42014747--42014800 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
42014737 TTATACCCTA
* *
42014747 AACCATTAACTTAAAAACCGTAAACCT
1 AACCATTAAATTAAAAACCCTAAACCT
42014774 AACCATTAAATTAAAAACCCTAAACCT
1 AACCATTAAATTAAAAACCCTAAACCT
42014801 TAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (27 bp):
AACCATTAAATTAAAAACCCTAAACCT
Found at i:42014819 original size:27 final size:27
Alignment explanation
Indices: 42014741--42014821 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
42014731 ATACAATTAT
*
42014741 ACCCTAAACCATTAACTTAAAAACCGTA
1 ACCCTAAACCATTAAATTAAAAACC-TA
*
42014769 AACCT-AACCATTAAATT--AAA---A
1 ACCCTAAACCATTAAATTAAAAACCTA
42014790 ACCCTAAACC-TTAAATTAAAAACCCTA
1 ACCCTAAACCATTAAATTAAAAA-CCTA
42014817 ACCCT
1 ACCCT
42014822 TAACATAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
21 12 0.28
22 4 0.09
23 3 0.07
25 3 0.07
27 17 0.40
28 4 0.09
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.22
Consensus pattern (27 bp):
ACCCTAAACCATTAAATTAAAAACCTA
Found at i:42015153 original size:114 final size:114
Alignment explanation
Indices: 42014953--42015322 Score: 578
Period size: 114 Copynumber: 3.3 Consensus size: 114
42014943 TAAGGTTTTT
*
42014953 ACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT
1 ACTAACCATTAATACAATTATCAATTAATAATTTTAAATTCACATAATGTTAGATTTGGAAAAAT
* *
42015018 TTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAATTTC
66 GTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAATTTA
* *
42015067 ACTAACCATTCATACAATTATCAGTTAATAATTTTAAATTCACATAATGTTAGATTTGGAAAAAT
1 ACTAACCATTAATACAATTATCAATTAATAATTTTAAATTCACATAATGTTAGATTTGGAAAAAT
* * *
42015132 GTTCTGACTCGTACTAACAATTAATAATTTGATATAATTTGATAATTTT
66 GTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAATTTA
* *
42015181 ACTAACCATTAATACAATTATC-AGT--TAA---T-AA--CACATAATGTTAGTTTTGGAAAAAT
1 ACTAACCATTAATACAATTATCAATTAATAATTTTAAATTCACATAATGTTAGATTTGGAAAAAT
42015237 GTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAATTTA
66 GTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAATTTA
42015286 ACTAACCATTAATACAATTTATCAATTAATAATTTTA
1 ACTAACCATTAATACAA-TTATCAATTAATAATTTTA
42015323 TAAATATAAT
Statistics
Matches: 233, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
105 87 0.37
106 5 0.02
107 4 0.02
108 1 0.00
109 3 0.01
111 3 0.01
112 1 0.00
113 1 0.00
114 128 0.55
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (114 bp):
ACTAACCATTAATACAATTATCAATTAATAATTTTAAATTCACATAATGTTAGATTTGGAAAAAT
GTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAATTTA
Found at i:42015235 original size:105 final size:106
Alignment explanation
Indices: 42015107--42015317 Score: 370
Period size: 105 Copynumber: 2.0 Consensus size: 106
42015097 ATTTTAAATT
42015107 CACATAATGTTAGATTTGGAAAAATGTTCTGACTCGTACTAACAATTAATAATTTGATATAATTT
1 CACATAATGTTAGATTTGGAAAAATGTTCTGACTCGTACTAACAATTAATAATTTGATATAATTT
* *
42015172 GATAATTTTACTAACCATTAATACAA-TTATCAGTTAATAA
66 GATAATTTAACTAACCATTAATACAATTTATCAATTAATAA
* * *
42015212 CACATAATGTTAGTTTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTGATATAATTT
1 CACATAATGTTAGATTTGGAAAAATGTTCTGACTCGTACTAACAATTAATAATTTGATATAATTT
42015277 GATAATTTAACTAACCATTAATACAATTTATCAATTAATAA
66 GATAATTTAACTAACCATTAATACAATTTATCAATTAATAA
42015318 TTTTATAAAT
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
105 87 0.87
106 13 0.13
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (106 bp):
CACATAATGTTAGATTTGGAAAAATGTTCTGACTCGTACTAACAATTAATAATTTGATATAATTT
GATAATTTAACTAACCATTAATACAATTTATCAATTAATAA
Found at i:42015578 original size:21 final size:21
Alignment explanation
Indices: 42015574--42016535 Score: 1010
Period size: 21 Copynumber: 45.9 Consensus size: 21
42015564 AAAAAACCCT
*
42015574 AACCCAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42015595 AACACTAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42015615 AACCATAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
** *
42015636 AACAATAAACCC-TAACTTGAA
1 AACCCT-AACCCTTAACTTAAA
* *
42015657 ATCCCTAAACCCTTACCTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
42015679 AAACCTAACCCTAAATTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42015700 AATCCTAACCCTAAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42015721 AACCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
42015742 AACCCTGAA-CCTTAACTT-AA
1 AACCCT-AACCCTTAACTTAAA
* *
42015762 AACCCTAAAACCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
*
42015784 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42015805 AACCAT-ACACCTTAACTGAAA
1 AACCCTAAC-CCTTAACTTAAA
*
42015826 AACCGTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
**
42015847 AACAATAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42015867 AACCCTAACCCTTAAATTTAA
1 AACCCTAACCCTTAACTTAAA
* *
42015888 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* **
42015909 AACTCTAACGATTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42015930 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42015951 AACCTTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
* *
42015972 AACTCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42015993 AACCCTAAACCCTTACCTT-AA
1 AACCCT-AACCCTTAACTTAAA
* *
42016014 AACCCTAACCCTAAATTTAAA
1 AACCCTAACCCTTAACTTAAA
** *
42016035 AATTCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42016056 AACCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
*
42016077 AACCCTAAACCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
* *
42016097 AACCCTAAAACCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
*
42016119 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42016140 AACCAT-ACACCTTAACTGAAA
1 AACCCTAAC-CCTTAACTTAAA
*
42016161 AACCGTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
** *
42016182 AACAATAACCCTTAA-TAAAA
1 AACCCTAACCCTTAACTTAAA
*
42016202 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
**
42016223 AACCCTAACTATTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42016244 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42016265 AACCTTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
* *
42016286 AACTCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42016307 AA-CCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42016327 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
**
42016348 AACCCTAACTATTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42016369 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
** * *
42016390 AACATTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
* *
42016411 AACTCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42016432 AACCCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42016453 AACCCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42016474 AACCCTAACCCATAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42016495 AACCCTAACCCATAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42016516 AACACTAAACCCTTAACTTA
1 AACCCT-AACCCTTAACTTA
42016536 TTAAAAATTT
Statistics
Matches: 799, Mismatches: 124, Indels: 35
0.83 0.13 0.04
Matches are distributed among these distances:
20 99 0.12
21 641 0.80
22 59 0.07
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:42015585 original size:27 final size:27
Alignment explanation
Indices: 42015552--42015605 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
42015542 GACAAACCTT
*
42015552 AAACCCTTAACAAAAAAACCCTAACCC
1 AAACCCTTAACAAAAAAACACTAACCC
**
42015579 AAACCCTTAACTTAAAAACACTAACCC
1 AAACCCTTAACAAAAAAACACTAACCC
42015606 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (27 bp):
AAACCCTTAACAAAAAAACACTAACCC
Found at i:42016646 original size:27 final size:26
Alignment explanation
Indices: 42016599--42016649 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
42016589 AAGGCTTAAA
*
42016599 CCCTTAACAAAAAACCCTAACCCTAG
1 CCCTTAACAAAAAACCATAACCCTAG
* *
42016625 CCCTTAACTTAAAAATCATAACCCT
1 CCCTTAAC-AAAAAACCATAACCCT
42016650 TAACTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (26 bp):
CCCTTAACAAAAAACCATAACCCTAG
Found at i:42016651 original size:21 final size:21
Alignment explanation
Indices: 42016617--42016787 Score: 184
Period size: 21 Copynumber: 8.2 Consensus size: 21
42016607 AAAAAACCCT
*
42016617 AACCCTAGCCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42016638 AATCATAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42016659 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42016680 AACCCTAACCCTTAAATT--A
1 AACCCTAACCCTTAACTTAAA
* * * *
42016699 AATCATAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
*
42016720 AACCCTAACCCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
** *
42016741 AACCCTAAATCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
*
42016762 AACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
42016784 AACC
1 AACC
42016788 TTAAGGTTTT
Statistics
Matches: 124, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.12
21 94 0.76
22 15 0.12
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:42016714 original size:82 final size:83
Alignment explanation
Indices: 42016626--42016783 Score: 228
Period size: 82 Copynumber: 1.9 Consensus size: 83
42016616 TAACCCTAGC
* *
42016626 CCTTAACTTAAAAATCATAACCCTTAACTTAAAAACCCTAAACCTTAAATTAAAAACCCT-AACC
1 CCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTAAACCTTAAATTAAAAACACTAAACC
42016690 CTTAAATTAAATCATAAA
66 CTTAAATTAAATCATAAA
* * * * * *
42016708 CCTTAACTTAATAACCCTAACCCTTAACTTAATAACCCTAAATCTTAACTTAATAACACTAAACC
1 CCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTAAACCTTAAATTAAAAACACTAAACC
*
42016773 CTTAACTTAAA
66 CTTAAATTAAA
42016784 AACCTTAAGG
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 52 0.79
83 14 0.21
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (83 bp):
CCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTAAACCTTAAATTAAAAACACTAAACC
CTTAAATTAAATCATAAA
Found at i:42016975 original size:104 final size:110
Alignment explanation
Indices: 42016795--42017055 Score: 399
Period size: 104 Copynumber: 2.4 Consensus size: 110
42016785 ACCTTAAGGT
*
42016795 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
42016860 AAATATTTTGACTGG-T-AC-TAACAA-TT-A-ATAATTTGATAA
66 AAATATTTTGACTGGCTAACATAACAATTTGATATAATTTGATAA
42016899 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
* *
42016964 AAATGTTTTGACTGGCACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATATTTTGACTGG--CTAAC-A-TAACAATTTGATATAATTTGATAA
*
42017013 TTTTACTAACCATTAATACAATTTATCAATTAATAATTTTACA
1 TTTTACTAACCATTAATACAA-TTATCAGTTAATAATTTTACA
42017056 AATATAATTT
Statistics
Matches: 142, Mismatches: 4, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
104 78 0.55
107 1 0.01
108 2 0.01
111 5 0.04
112 2 0.01
113 1 0.01
114 33 0.23
115 20 0.14
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (110 bp):
TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAAAGTTAGATTTGGAA
AAATATTTTGACTGGCTAACATAACAATTTGATATAATTTGATAA
Found at i:42017964 original size:26 final size:27
Alignment explanation
Indices: 42017915--42017967 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
42017905 TTATACCCTA
* *
42017915 AACCATTAACTTAAAAACCGTAAACCT
1 AACCATTAAATTAAAAACCCTAAACCT
42017942 AACCATTAAATT-AAAACCCTAAACCT
1 AACCATTAAATTAAAAACCCTAAACCT
42017968 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (27 bp):
AACCATTAAATTAAAAACCCTAAACCT
Found at i:42018033 original size:304 final size:287
Alignment explanation
Indices: 42017298--42018108 Score: 877
Period size: 289 Copynumber: 2.7 Consensus size: 287
42017288 CCCTTAACAA
* * * * * *
42017298 AAAAACCCTAACCCTTAACTTCAAAATC-CTAACCCTTAATTAAAAACCTTAACCCTTAAATTTA
1 AAAAACACTAACCCTTAAC-T-AAAAACACTAACCATTAA-TAAAAACCCTAAACCTTAAATTAA
* * * * * * * *
42017362 AAACTCTAAGC-CTTAACTTAAAAACCCTAACCCATAAATTAAAAACCCTAAATCTTAACTTAAT
63 AAAC-CCAAACTCTTAAATT-AAAACCCTAACCCTTAAATTAAAAATCCTAAACCTTAAATTAAA
* * * *
42017426 TACCCTAAACCTTAACTT-AAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
126 AAACCTAAACCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA-CCTTAACACTTAACTTAAA
* ** *
42017490 AATCTTAACCCATAAATTAAAAGTCCTAAACCTTAACTTAATAACCCTAAACCTTCACTTAAAAC
190 AATC-TAACCCTTAAATTAAAAACCCTAAACCTTAACTTAATAACCCTAAACCTTAACTTAAAAC
42017555 CTAACCCTTAATTAAAAACCCTAACACTTAAATT
254 CTAACCCTTAATTAAAAACCCTAACACTTAAATT
* * *
42017589 TAAAACACTAACCCTTAACTTAAAAACACTAACCCTTAATGAAAACCCTAAACCTTAAATTAAAA
1 AAAAACACTAACCCTTAAC-TAAAAACACTAACCATTAATAAAAACCCTAAACCTTAAATTAAAA
* * * *
42017654 ACCCAAACTCTTAACTTAAAACCCTAACCCTTAAATTAAAAATCCTAAACCTTAACTTAATAACC
65 ACCCAAACTCTTAAATTAAAACCCTAACCCTTAAATTAAAAATCCTAAACCTTAAATTAAAAAAC
*
42017719 CTAAACCTTAACTTAAAAACACTAAACCCTTAACTTAAAAACCTTAACACTTAACTTAAAAACTC
130 CTAAACCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTTAACACTTAACTTAAAAA-TC
42017784 TAACCCTTAAATTAAAAACCCTAAACCTTAACTTAA-AACCCCTAAACCCTTAACTTTAAAACCC
194 TAACCCTTAAATTAAAAACCCTAAACCTTAACTTAATAA-CCCTAAA-CCTTAAC-TTAAAA-CC
* *
42017848 TAACCCTTAATTAAAAACCCTGACCCTTAAATT
255 TAACCCTTAATTAAAAACCCTAACACTTAAATT
* * *
42017881 AAAAACCCTAAACCCTTAA-TACAATTATACCCTAAACCATTAACTTAAAAACCGTAAACC-TAA
1 AAAAACACT-AACCCTTAACTA-AA--A-ACACT-AACCATTAA--TAAAAACCCTAAACCTTAA
42017944 CCATTAAATTAAAACCCTAAAC-CTTAAATTAAAAACCCTAACCCTTAACA-TAAAAA-CTCTAA
58 --ATT--A--AAAACCC-AAACTCTTAAATT-AAAACCCTAACCCTTAA-ATTAAAAATC-CTAA
* * * * *
42018006 CCCTTAAATTAAAAAACCTAAACCTTAACTTAATAACCCT-AACTCTTAACTTAAAAACCCTAAA
113 ACCTTAAATTAAAAAACCTAAACCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTTAAC
*
42018070 ACCTTAACTTAAAAATCCTAAGCCCTTAACTTAAAAACC
178 A-CTTAACTTAAAAAT-CTAA-CCCTTAAATTAAAAACC
42018109 TTAAGGTTTT
Statistics
Matches: 452, Mismatches: 39, Indels: 44
0.84 0.07 0.08
Matches are distributed among these distances:
288 2 0.00
289 121 0.27
290 70 0.15
291 38 0.08
292 42 0.09
293 9 0.02
294 1 0.00
295 4 0.01
296 8 0.02
297 3 0.01
298 13 0.03
299 3 0.01
301 1 0.00
303 38 0.08
304 82 0.18
305 17 0.04
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (287 bp):
AAAAACACTAACCCTTAACTAAAAACACTAACCATTAATAAAAACCCTAAACCTTAAATTAAAAA
CCCAAACTCTTAAATTAAAACCCTAACCCTTAAATTAAAAATCCTAAACCTTAAATTAAAAAACC
TAAACCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTTAACACTTAACTTAAAAATCTA
ACCCTTAAATTAAAAACCCTAAACCTTAACTTAATAACCCTAAACCTTAACTTAAAACCTAACCC
TTAATTAAAAACCCTAACACTTAAATT
Found at i:42018113 original size:22 final size:21
Alignment explanation
Indices: 42017286--42018108 Score: 815
Period size: 21 Copynumber: 38.9 Consensus size: 21
42017276 ACAAACCTTA
**
42017286 AACCCTTAACAAAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017307 AACCCTTAACTTCAAAATCCT
1 AACCCTTAACTTAAAAACCCT
*
42017328 AACCCTTAA-TTAAAAACCTT
1 AACCCTTAACTTAAAAACCCT
* * *
42017348 AACCCTTAAATTTAAAACTCT
1 AACCCTTAACTTAAAAACCCT
*
42017369 AAGCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017390 AACCCATAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
** **
42017411 AAATCTTAACTTAATTACCCT
1 AACCCTTAACTTAAAAACCCT
*
42017432 AAACCTTAACTT-AAAACCCT
1 AACCCTTAACTTAAAAACCCT
42017452 AAACCCTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
* *
42017474 AAACCCTTAACTTAAAAATCTT
1 -AACCCTTAACTTAAAAACCCT
* * **
42017496 AACCCATAAATTAAAAGTCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017517 AAACCTTAACTTAATAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017538 AAACCTTCACTT-AAAA-CCT
1 AACCCTTAACTTAAAAACCCT
42017557 AACCCTTAA-TTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* * * *
42017577 AACACTTAAATTTAAAACACT
1 AACCCTTAACTTAAAAACCCT
*
42017598 AACCCTTAACTTAAAAACACT
1 AACCCTTAACTTAAAAACCCT
*
42017619 AACCCTTAA--TGAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* * *
42017638 AAACCTTAAATTAAAAACCCA
1 AACCCTTAACTTAAAAACCCT
*
42017659 AACTCTTAACTT-AAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017679 AACCCTTAAATTAAAAATCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017700 AAACCTTAACTTAATAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017721 AAACCTTAACTTAAAAACACT
1 AACCCTTAACTTAAAAACCCT
*
42017742 AAACCCTTAACTTAAAAACCTT
1 -AACCCTTAACTTAAAAACCCT
* *
42017764 AACACTTAACTTAAAAACTCT
1 AACCCTTAACTTAAAAACCCT
*
42017785 AACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017806 AAACCTTAACTTAAAACCCCT
1 AACCCTTAACTTAAAAACCCT
*
42017827 AAACCCTTAACTTTAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
42017849 AACCCTTAA-TTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017869 GACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
42017890 AAACCCTTAA--TACAATTATACCCT
1 -AACCCTTAACTTA-AA--A-ACCCT
* *
42017914 AAACCATTAACTTAAAAACCGT
1 -AACCCTTAACTTAAAAACCCT
*
42017936 AAACC-TAACCATTAAATTAAAACCCT
1 AACCCTTAA-C-TT--A--AAAACCCT
* *
42017962 AAACCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42017983 AACCCTTAACATAAAAACTCT
1 AACCCTTAACTTAAAAACCCT
* *
42018004 AACCCTTAAATTAAAAAACCT
1 AACCCTTAACTTAAAAACCCT
* *
42018025 AAACCTTAACTTAATAACCCT
1 AACCCTTAACTTAAAAACCCT
*
42018046 AACTCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
42018067 AAAACCTTAACTTAAAAATCCT
1 -AACCCTTAACTTAAAAACCCT
42018089 AAGCCCTTAACTTAAAAACC
1 AA-CCCTTAACTTAAAAACC
42018109 TTAAGGTTTT
Statistics
Matches: 663, Mismatches: 111, Indels: 55
0.80 0.13 0.07
Matches are distributed among these distances:
18 2 0.00
19 30 0.05
20 77 0.12
21 404 0.61
22 111 0.17
23 3 0.00
24 15 0.02
25 4 0.01
26 14 0.02
27 3 0.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCCTTAACTTAAAAACCCT
Found at i:42018364 original size:114 final size:114
Alignment explanation
Indices: 42018116--42018501 Score: 637
Period size: 114 Copynumber: 3.4 Consensus size: 114
42018106 ACCTTAAGGT
42018116 TTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAATGTTAGATTTGGAA
* *
42018181 AATTTTTTTTGACTAGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AA-ATATTTTGACTAGTACTAACAATTAATAATTTGATATAATTTGATAA
* * *
42018231 TTTTACTAACCATTCATACAATTATCAGTTAATAATTTTAAATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAATGTTAGATTTGGAA
* * *
42018296 AAATGTTCTGACTCGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATATTTTGACTAGTACTAACAATTAATAATTTGATATAATTTGATAA
* * *
42018345 TTTTACTAACCATTAATACAATTATCAGTTAATAATTCTACATTCACATAATGTTAGTTTTGGAA
1 TTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAATGTTAGATTTGGAA
*
42018410 AAATATTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATATTTTGACTAGTACTAACAATTAATAATTTGATATAATTTGATAA
*
42018459 TTTAACTAACCATTAATACAATTTATCAATTAATAATTTTACA
1 TTTTACTAACCATTAATACAA-TTATCAATTAATAATTTTACA
42018502 AATATAATTT
Statistics
Matches: 253, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
114 170 0.67
115 83 0.33
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (114 bp):
TTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAATGTTAGATTTGGAA
AAATATTTTGACTAGTACTAACAATTAATAATTTGATATAATTTGATAA
Found at i:42018763 original size:26 final size:27
Alignment explanation
Indices: 42018733--42018785 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
42018723 ACAAACCTTA
* *
42018733 AACCCTTAGC-AAAAAACCCTAACCCT
1 AACCCTTAACTAAAAAACACTAACCCT
*
42018759 AACCCTTAACTTAAAAACACTAACCCT
1 AACCCTTAACTAAAAAACACTAACCCT
42018786 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.19
Consensus pattern (27 bp):
AACCCTTAACTAAAAAACACTAACCCT
Found at i:42018783 original size:21 final size:21
Alignment explanation
Indices: 42018753--42021329 Score: 2148
Period size: 21 Copynumber: 121.2 Consensus size: 21
42018743 AAAAAACCCT
42018753 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42018774 AACACTAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
*
42018794 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42018815 AACACTAAACCC-TAACATGAA
1 AACCCT-AACCCTTAACTTAAA
* *
42018836 ATCCCTAAACCCTTACCTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
42018858 AACCCTAACCCTAAATTTAAA
1 AACCCTAACCCTTAACTTAAA
** *
42018879 AATACTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42018900 AACTCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
* * *
42018921 AACCTTAAACCATAACTT-AA
1 AACCCTAACCCTTAACTTAAA
* *
42018941 AACCCTAAAACCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
42018963 AACCCTAACCCCTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42018984 AACCAT-ACACCTTAA-TTGAAA
1 AACCCTAAC-CCTTAACTT-AAA
* *
42019005 AAACGTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
**
42019026 AACAATAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019046 AACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019067 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
42019089 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019110 AACCCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42019131 AACCTTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42019152 AACTCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
42019173 AACCCTAAACCCTTAACTT-AA
1 AACCCT-AACCCTTAACTTAAA
*
42019194 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
**
42019215 AACCCTAAATCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019236 ACCCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
42019258 GACCCTAACCCATAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42019279 AACCCTAACCCATAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019300 AACCCTAAACTCTTAACTTATTAA
1 AACCCT-AACCCTTAACTTA--AA
*** *** * * *
42019324 AAGTTTATAAATTTTTAAAATTTAT
1 AA--CCCT-AACCCTT-AACTTAAA
*** * *
42019349 AA--CTAAATATATAATTTAATT
1 AACCCTAACCCT-TAACTTAA-A
* **
42019370 GA--C-AAGGCTTAAACCCTTAACAAAAA
1 AACCCTAACCCTT-AA--CTT-----AAA
42019396 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAA-C-----CCTTAACTTAAA
* * *
42019423 AATCATAACCCTTAA-TTAGA
1 AACCCTAACCCTTAACTTAAA
* * *
42019443 AACTCTAGCCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42019464 AACCCTAAACCTCAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* ** *
42019485 ACCCCTAAATCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
*
42019506 AACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
42019528 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42019549 AATCCTAACCATTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * **
42019570 AACCTTAAACCTTAACTTAGT
1 AACCCTAACCCTTAACTTAAA
*
42019591 AACCCTAACCCATAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019612 AACCCTAACCCTCAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42019632 AACTCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019653 AACACTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42019674 AACCATAGCCCTTAA--TAAA
1 AACCCTAACCCTTAACTTAAA
* *** *
42019693 AACACTAAAATTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019714 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42019735 AACCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
*
42019756 AACCCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42019777 AACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
42019799 AACCTTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42019820 AACTCTAACCATTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* **
42019841 AACCTTAAAACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42019862 AACCCTAAACCATAAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
42019884 AACCCTAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42019904 AACCCTAACCCTTAAATTGAA
1 AACCCTAACCCTTAACTTAAA
* * * *
42019925 AACACTAAACCTTAACATAAT
1 AACCCTAACCCTTAACTTAAA
* * *
42019946 AATCCTAAACCTTAACTTGAA
1 AACCCTAACCCTTAACTTAAA
* ** *
42019967 ATCCCTAAACAATTACCTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
42019989 AACCATAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42020010 AATCATAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42020031 AACCATAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
*
42020052 AACCCTAAACCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
*
42020072 AACCCTAAACCCTTAACATAAA
1 AACCCT-AACCCTTAACTTAAA
* *
42020094 AACCCTAACCTTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42020115 AACCCTAAACCTTAAC-TAAA
1 AACCCTAACCCTTAACTTAAA
* *
42020135 AACCATAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
**
42020156 AACAATAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
*
42020176 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42020197 AATCATAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42020218 AACCCTAACCATTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
*
42020238 AACCCTAACCCTTAA-AT-AA
1 AACCCTAACCCTTAACTTAAA
* * *
42020257 AACCTTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
* *
42020278 AACTCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42020299 AACCCTAAACTCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
42020321 AACCCTAACCCTTAAATT-AA
1 AACCCTAACCCTTAACTTAAA
*
42020341 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42020362 AACCTTAAACCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
* *
42020382 AACCCTAACCCATAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42020403 AACCCCAACCCATAAATTAAA
1 AACCCTAACCCTTAACTTAAA
42020424 AACCCTAAACCCTTAACTTATTAAA
1 AACCCT-AACCCTTAAC---TTAAA
*** *** *
42020449 AATTTATAAATTTATAAATTATAA
1 AA-CCCTAACCCT-TAACTTA-AA
*** ** *
42020473 TTAAATATATA-ATTTAA-TTGACA
1 --AACCCTA-ACCCTTAACTT-AAA
* * **
42020496 AGCCTTAAACCCTTAACAAAAA
1 AACCCT-AACCCTTAACTTAAA
* *
42020518 AACCCTAACCCTTTACATAAA
1 AACCCTAACCCTTAACTTAAA
* * * *
42020539 AATCATAACCCTTAAATTTAA
1 AACCCTAACCCTTAACTTAAA
* *
42020560 AACCCTAAACCTTAACATAAA
1 AACCCTAACCCTTAACTTAAA
* *
42020581 AACCTTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42020602 AACCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
* * *
42020623 AGCCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
*
42020644 AACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
42020666 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42020687 TATCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42020708 AACCTTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
*
42020729 AACCCTAAACCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
42020749 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
42020771 AACCCTAACCCATAACTTAAA
1 AACCCTAACCCTTAACTTAAA
42020792 AACCCTAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
*
42020812 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*** *
42020833 AATAATGACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
42020854 AACCCTAACCCTTAA-TT-AA
1 AACCCTAACCCTTAACTTAAA
* * * *
42020873 AACACTAAACTTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42020894 AACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* *
42020915 AACCCTAACTCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42020936 AACCCTAAACTTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
* *
42020957 AACCCTAAACCATAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42020978 AACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
**
42021000 AACATTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
** * *
42021021 AACTATAGCCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* **
42021042 AACCTTAAAACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
42021063 AACCCTAAACCTTAAACTTAAAA
1 AACCCTAACCCTT-AACTT-AAA
42021086 AACCCTAACCCTTAA-TTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
42021106 AACCTTAATCCTTAATTTAAA
1 AACCCTAACCCTTAACTTAAA
42021127 AACCCTAAACCCTTAA--TACAA
1 AACCCT-AACCCTTAACTTA-AA
*
42021148 TTATACCCTAAACCTTTAACTT-AA
1 --A-ACCCT-AACCCTTAACTTAAA
*
42021172 AACCCTAAACCTAACCATTAAATTAAA
1 AACCCT-AA-C---CC-TTAACTTAAA
* * *
42021199 AATCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
42021220 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
42021241 AACACTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
42021262 AACCCTAAACCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
*
42021282 AACCCTAAAACCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
42021304 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
42021326 AACC
1 AACC
42021330 TTAAGGTTTT
Statistics
Matches: 2082, Mismatches: 378, Indels: 191
0.79 0.14 0.07
Matches are distributed among these distances:
19 44 0.02
20 275 0.13
21 1349 0.65
22 288 0.14
23 22 0.01
24 26 0.01
25 20 0.01
26 25 0.01
27 22 0.01
28 1 0.00
29 2 0.00
32 3 0.00
34 2 0.00
35 3 0.00
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:42019423 original size:27 final size:27
Alignment explanation
Indices: 42019381--42019434 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
42019371 ACAAGGCTTA
*
42019381 AACCCTTAACAAAAAAACCCTAACCCT
1 AACCCTTAACAAAAAAACCATAACCCT
** *
42019408 AACCCTTAACTTAAAAATCATAACCCT
1 AACCCTTAACAAAAAAACCATAACCCT
42019435 TAATTAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (27 bp):
AACCCTTAACAAAAAAACCATAACCCT
Found at i:42021545 original size:114 final size:114
Alignment explanation
Indices: 42021341--42021597 Score: 354
Period size: 114 Copynumber: 2.3 Consensus size: 114
42021331 TAAGGTTTTT
42021341 ACTAACCATTAATACAATTATCAGTTAAGAATTTTACATTCACATAATGTTAGATTTGGAAAAAA
1 ACTAACCATTAATACAATTATCAGTTAAGAATTTTACATTCACATAATGTTAGATTTGGAAAAAA
*
42021406 AATTTGACTAGTACTTACAACTAATAATTTGATATAATTTGATAATTTA
66 AATTTGACTAGTACTAACAACTAATAATTTGATATAATTTGATAATTTA
* * *
42021455 ACTAACCATTAATACAATTATCAGTTAATAATTTTATATTCACATAATGTTAGATTTGGAAAAAT
1 ACTAACCATTAATACAATTATCAGTTAAGAATTTTACATTCACATAATGTTAGATTTGGAAAAAA
* * *
42021520 ATTTTGACT-G--GT----ACTAATAA-TT-A-ATAATTTGATAATTTT
66 AATTTGACTAGTACTAACAACTAATAATTTGATATAATTTGATAATTTA
* *
42021559 ACTAACCATTAATACAATTTATCAATTAATAATTTTACA
1 ACTAACCATTAATACAA-TTATCAGTTAAGAATTTTACA
42021598 AATATAATTT
Statistics
Matches: 134, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
104 32 0.24
105 20 0.15
106 2 0.01
107 8 0.06
111 1 0.01
113 1 0.01
114 70 0.52
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (114 bp):
ACTAACCATTAATACAATTATCAGTTAAGAATTTTACATTCACATAATGTTAGATTTGGAAAAAA
AATTTGACTAGTACTAACAACTAATAATTTGATATAATTTGATAATTTA
Found at i:42021853 original size:21 final size:20
Alignment explanation
Indices: 42021836--42022767 Score: 734
Period size: 21 Copynumber: 43.9 Consensus size: 20
42021826 ACAAACCTTA
*
42021836 AACCCTTAACAAAAAACCCT
1 AACCCTTAACTAAAAACCCT
* *
42021856 AACTCTTAACTTAAAACCCT
1 AACCCTTAACTAAAAACCCT
*
42021876 AACCCTTAATTAAAAACCCT
1 AACCCTTAACTAAAAACCCT
* *
42021896 AACCCTTAAATTAAAAATCCT
1 AACCCTT-AACTAAAAACCCT
*
42021917 AAACCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
*
42021938 AACCCTTAACTTAAAAACCTT
1 AACCCTTAAC-TAAAAACCCT
* * *
42021959 AACTCTTAAATTAAAACCCT
1 AACCCTTAACTAAAAACCCT
* *
42021979 AAACCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* *
42022000 AAACCCTTACCTTAAAAACACT
1 -AACCCTTAAC-TAAAAACCCT
*
42022022 AACCCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* *
42022043 AAACCTTAACTTAAAACCCT
1 AACCCTTAACTAAAAACCCT
*
42022063 AAATCCTTAACTTAAAAACCCT
1 -AACCCTTAAC-TAAAAACCCT
* *
42022085 AAACCTTAATTAAAAACCCT
1 AACCCTTAACTAAAAACCCT
* * *
42022105 AAACCTTAACTAAAAAATCGT
1 AACCCTTAACT-AAAAACCCT
**
42022126 AACCCTTAACTTAAAAACAAT
1 AACCCTTAAC-TAAAAACCCT
* *
42022147 ACCCCTTAATTAAAAACCCT
1 AACCCTTAACTAAAAACCCT
*
42022167 AACCCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
*
42022188 AACCATTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
* * *
42022209 AACCTTTAAATTAAAAACCTT
1 AACCCTT-AACTAAAAACCCT
* * *
42022230 AAACCTTAACTTAATAACTCT
1 AACCCTTAAC-TAAAAACCCT
*
42022251 AAACCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
*
42022272 AAACCATTAACTTAAAAACCCT
1 -AACCCTTAAC-TAAAAACCCT
42022294 AACCCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
*
42022315 AACCCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* *
42022336 AAACCTTAACTTAAAAACCAT
1 AACCCTTAAC-TAAAAACCCT
42022357 AAACCCTTAACTTAAAAACCCT
1 -AACCCTTAAC-TAAAAACCCT
*
42022379 AACCCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* *
42022400 AAAACCTTAA-TACAATTATATCCT
1 -AACCCTTAACTA-AA--A-ACCCT
* *
42022424 AAACCTTAAATTAAAAACCCT
1 AACCCTT-AACTAAAAACCCT
* *
42022445 AACCCTAAACTTAAAAACACT
1 AACCCTTAAC-TAAAAACCCT
* *
42022466 AACCCTTAAATTAAAAACTCT
1 AACCCTT-AACTAAAAACCCT
* *
42022487 AAACCTTAACTTAAAACCCT
1 AACCCTTAACTAAAAACCCT
* *
42022507 AAACCATTAAATTAAAAACCCT
1 -AACCCTT-AACTAAAAACCCT
* * **
42022529 CACCCTTAAATTATTAACCCT
1 AACCCTT-AACTAAAAACCCT
* **
42022550 AAACCCTTAAATTAAAAACTAT
1 -AACCCTT-AACTAAAAACCCT
*
42022572 AAACCTTTAACTTAAAAACCCT
1 -AACCCTTAAC-TAAAAACCCT
42022594 AACCC-TAACCATTAAATTTAAAACCCT
1 AACCCTTAA-C--T--A---AAAACCCT
* * *
42022621 AACTCTTAAATTAAAAACCAT
1 AACCCTT-AACTAAAAACCCT
42022642 AACCCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
* *
42022663 AAACCTTAACTTAATAACCCT
1 AACCCTTAAC-TAAAAACCCT
42022684 AACCCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
*
42022705 AAACCTTAACTTAAAAACCCT
1 AACCCTTAAC-TAAAAACCCT
42022726 AAACCCTTAACTTAAAAACCCT
1 -AACCCTTAAC-TAAAAACCCT
42022748 AAACCCTTAACTTAAAAACC
1 -AACCCTTAAC-TAAAAACC
42022768 TTAAGGTTTT
Statistics
Matches: 756, Mismatches: 113, Indels: 84
0.79 0.12 0.09
Matches are distributed among these distances:
20 126 0.17
21 431 0.57
22 163 0.22
23 8 0.01
24 10 0.01
25 2 0.00
26 1 0.00
27 12 0.02
28 1 0.00
29 2 0.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (20 bp):
AACCCTTAACTAAAAACCCT
Found at i:42021938 original size:42 final size:42
Alignment explanation
Indices: 42021828--42022767 Score: 1013
Period size: 42 Copynumber: 22.1 Consensus size: 42
42021818 TTTAATTGAC
* * *
42021828 AAACCTTAAACCCTTAAC-AAAAAACCCTAACTCTTAACTT-A
1 AAACCCTAAA-CCTTAACTTAAAAACCCTAACCCTTAACTTAA
* *
42021869 AAACCCTAACCCTTAA-TTAAAAACCCTAACCCTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
*
42021910 AAATCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * *
42021952 AAA-CCTTAACTCTTAAATT-AAAACCCTAAACCTTAAATTAA
1 AAACCCTAAAC-CTTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
42021993 AAACCCTAAACCCTTACCTTAAAAACACTAACCCTTAAATTAA
1 AAACCCTAAA-CCTTAACTTAAAAACCCTAACCCTTAACTTAA
*
42022036 AAACCCTAAACCTTAACTT-AAAACCCTAAATCCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* *
42022078 AAACCCTAAACCTTAA-TTAAAAACCCTAAACCTTAACTAAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * ** *
42022119 AAATCGTAACCCTTAACTTAAAAACAATACCCCTTAA-TTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
42022160 AAACCCTAACCCTTAAATTAAAAACCCTAACCATTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
42022202 AAACCCT-AACCTTTAAATTAAAAACCTTAAACCTTAACTTAA
1 AAACCCTAAACC-TTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
42022244 TAACTCTAAACCTTAACTTAAAAACCCTAAACCATTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* *
42022287 AAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
*
42022329 AAACCCTAAACCTTAACTTAAAAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* * *
42022372 AAACCCTAACCCTTAAATTAAAAACCCTAAAACCTTAA--TACA
1 AAACCCTAAACCTTAACTTAAAAACCCT-AACCCTTAACTTA-A
* * *
42022414 ATTATATCCTAAACCTTAAATTAAAAACCCTAACCCTAAACTTAA
1 A--A-ACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * * *
42022459 AAACACTAACCCTTAAATTAAAAACTCTAAACCTTAACTT-A
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * *
42022500 AAACCCTAAACCATTAAATTAAAAACCCTCACCCTTAAATTAT
1 AAACCCTAAACC-TTAACTTAAAAACCCTAACCCTTAACTTAA
* * ** *
42022543 TAACCCTAAACCCTTAAATTAAAAACTATAAACCTTTAACTTAA
1 AAACCCTAAA-CCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* * * *
42022587 AAACCCTAACCCTAACCATTAAATTTAAAACCCTAACTCTTAAATTAA
1 AAACCCT-A----AACC-TTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
42022635 AAACCATAACCCTTAACTTAAAAACCCTAAACCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
42022677 TAACCCTAACCCTTAACTTAAAAACCCTAAACCTTAACTTAA
1 AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
42022719 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAA-CCTTAACTTAAAAACCCT-AACCCTTAACTTAA
42022763 AAACC
1 AAACC
42022768 TTAAGGTTTT
Statistics
Matches: 763, Mismatches: 103, Indels: 63
0.82 0.11 0.07
Matches are distributed among these distances:
40 25 0.03
41 135 0.18
42 331 0.43
43 164 0.21
44 44 0.06
45 27 0.04
46 2 0.00
47 1 0.00
48 19 0.02
49 15 0.02
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (42 bp):
AAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAA
Found at i:42021974 original size:63 final size:62
Alignment explanation
Indices: 42021847--42022767 Score: 932
Period size: 63 Copynumber: 14.5 Consensus size: 62
42021837 ACCCTTAACA
*
42021847 AAAAACCCT-AACTCTTAACTT-AAAACCCTAACCCTTAA-TTAAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAAC-CTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTTAA-CCTTAAATT
*
42021908 AAAAATCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTTAACTCTTAAATT
1 AAAAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTTAAC-CTTAAATT
* *
42021971 -AAAACCCTAAACCTTAAATTAAAAACCCTAAACCCTTACCTTAAAAACAC-TAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAAC-CTTAA-CCTTAAATT
* *
42022034 AAAAACCCTAAACCTTAACTT-AAAACCCTAAATCCTTAACTTAAAAACCCTAAACCTT-AATT
1 AAAAACCCTAAACCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAA-CCTTAACCTTAAATT
* * * ** *
42022096 AAAAACCCTAAACCTTAACTAAAAAATCGTAACCCTTAACTTAAAAACAATACCCCTT-AATT
1 AAAAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTTA-ACCTTAAATT
* * * *
42022158 AAAAACCCTAACCCTTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTTTAAATT
1 AAAAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTTAACC-TTAAATT
* * * * * *
42022221 AAAAACCTTAAACCTTAACTTAATAACTCTAAACCTTAACTTAAAAACCCTAAACCATTAACTT
1 AAAAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCTTAACC-TTAAATT
* * * *
42022285 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCTTAACCTTAAATT
* * *
42022348 AAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAAACCTT-AA-T
1 AAAAACCCTAAA-CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCT-TAACCTTAAATT
* * *
42022411 ACAATTATATCCTAAACCTTAAATTAAAAACCCTAACCCTAAACTTAAAAACAC-TAACCCTTAA
1 A-AA--A-ACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAAC-CTTAA-CCTTAA
42022475 ATT
60 ATT
* * * * *
42022478 AAAAACTCTAAACCTTAACTT-AAAACCCTAAACCATTAAATTAAAAACCCTCACCCTTAAATT
1 AAAAACCCTAAACCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAA-CCTTAACCTTAAATT
** * ** *
42022541 ATTAACCCTAAACCCTTAAATTAAAAACTATAAACCTTTAACTTAAAAACCCTAACCCTAACCAT
1 AAAAACCCTAAA-CCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAA-CCT-----TAACC-T
42022606 TAAATT
57 TAAATT
* * * * *
42022612 TAAAACCCT-AACTCTTAAATTAAAAACCATAACCCTTAACTTAAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAAC-CTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCTTAACCTTAAATT
* * * * *
42022675 AATAACCCTAACCCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCTTAA-CCTTAAATT
42022739 AAAAACCCTAAACCCTTAACTTAAAAACC
1 AAAAACCCTAAA-CCTTAACTTAAAAACC
42022768 TTAAGGTTTT
Statistics
Matches: 735, Mismatches: 85, Indels: 76
0.82 0.09 0.08
Matches are distributed among these distances:
61 20 0.03
62 150 0.20
63 244 0.33
64 166 0.23
65 54 0.07
66 38 0.05
67 8 0.01
69 21 0.03
70 21 0.03
71 13 0.02
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (62 bp):
AAAAACCCTAAACCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTTAACCTTAAATT
Found at i:42026228 original size:125 final size:124
Alignment explanation
Indices: 42025918--42026449 Score: 857
Period size: 125 Copynumber: 4.3 Consensus size: 124
42025908 CCCTAACATG
*
42025918 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
42025983 TAGAAGTGATTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
* * *
42026042 CTATTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
42026107 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCCAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTT-TTCCAGGAC
42026167 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
42026232 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTAGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTT-TTCCAGGAC
* * * * *
42026292 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATGCTTATCAAACAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
42026357 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
* * * *
42026416 ATACTGTAGCAAAAGTGCGTACACGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA
42026450 CTTATTTGTT
Statistics
Matches: 380, Mismatches: 27, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
124 144 0.38
125 236 0.62
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
Found at i:42026423 original size:249 final size:249
Alignment explanation
Indices: 42025919--42026449 Score: 859
Period size: 249 Copynumber: 2.1 Consensus size: 249
42025909 CCTAACATGC
*
42025919 TACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
* *
42025984 AGAAGTGATTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCCAGGACCTATTGT
66 AGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTGT
* * * *
42026049 AGCAAAAGCGCGTCCACGAGGACGCGATTTCATAAATTCTTCTCAAATAGCATCCTGCTAGAAGC
131 AGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATGCTTATCAAACAGCATCCTGCTAGAAGC
* * *
42026114 GATTTTATACTATTTGCTCAGAAATGTCAAGTCCAAATTATTTCTTCCAGGACC
196 GATTTTATACTATTTGCTCAGAAACGTCAACTCCAAATTATTTCTTCCAGGACA
42026168 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
*
42026233 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGT-AGAAATTATTTCTTCCAGGACCTACT
66 AGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCA-AAATTATTT-TTCCAGGACCTACT
** *
42026297 GTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATGCTTATCAAACAGCATCCTGTTAGAA
129 GTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATGCTTATCAAACAGCATCCTGCTAGAA
* *
42026362 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTTCAGGACA
194 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCCAAATTATTTCTTCCAGGACA
* * *
42026417 TACTGTAGCAAAAGTGCGTACACGTGGGCGCGA
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA
42026450 CTTATTTGTT
Statistics
Matches: 261, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
248 1 0.00
249 147 0.56
250 113 0.43
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (249 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
AGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTGT
AGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATGCTTATCAAACAGCATCCTGCTAGAAGC
GATTTTATACTATTTGCTCAGAAACGTCAACTCCAAATTATTTCTTCCAGGACA
Found at i:42033428 original size:46 final size:44
Alignment explanation
Indices: 42033328--42033435 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
42033318 TGTCTTTAAC
** * * * *
42033328 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCGCCAAAGCCATATATAAT
*
42033372 ATGGACTTACATGGCTCAATCCTGTCGCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCGCCAAAGCCATA--TATAAT
42033418 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
42033436 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCGCCAAAGCCATATATAAT
Found at i:42034326 original size:9 final size:9
Alignment explanation
Indices: 42034312--42034346 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
42034302 TTCTATTCTG
42034312 TTTCTTTTC
1 TTTCTTTTC
*
42034321 TTTCTTTTT
1 TTTCTTTTC
*
42034330 TTTCTATTC
1 TTTCTTTTC
42034339 TTTCTTTT
1 TTTCTTTT
42034347 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:42034339 original size:18 final size:19
Alignment explanation
Indices: 42034312--42034351 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
42034302 TTCTATTCTG
*
42034312 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
42034330 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
42034349 TTT
1 TTT
42034352 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:42034368 original size:5 final size:5
Alignment explanation
Indices: 42034355--42034427 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
42034345 TTGTTTTATG
42034355 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
42034403 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
42034428 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:42034380 original size:19 final size:19
Alignment explanation
Indices: 42034356--42034398 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
42034346 TGTTTTATGT
42034356 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
42034375 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
42034394 ATATA
1 ATATA
42034399 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:42034408 original size:24 final size:25
Alignment explanation
Indices: 42034362--42034426 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
42034352 ATGTATATAT
* *
42034362 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
42034386 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
42034411 TTACTATAATATAATA
1 ATAATATAATATAATA
42034427 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:42039578 original size:46 final size:44
Alignment explanation
Indices: 42039478--42039585 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
42039468 TGTCTTTAAC
** * * * *
42039478 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCGCCAAAGCCATATATAAT
*
42039522 ATGGACTTACATGGCTCAATCCTGTCGCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCGCCAAAGCCATA--TATAAT
42039568 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
42039586 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCGCCAAAGCCATATATAAT
Found at i:42040476 original size:9 final size:9
Alignment explanation
Indices: 42040462--42040496 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
42040452 TTCTATTCTG
42040462 TTTCTTTTC
1 TTTCTTTTC
*
42040471 TTTCTTTTT
1 TTTCTTTTC
*
42040480 TTTCTATTC
1 TTTCTTTTC
42040489 TTTCTTTT
1 TTTCTTTT
42040497 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:42040489 original size:18 final size:19
Alignment explanation
Indices: 42040462--42040501 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
42040452 TTCTATTCTG
*
42040462 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
42040480 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
42040499 TTT
1 TTT
42040502 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:42040518 original size:5 final size:5
Alignment explanation
Indices: 42040505--42040577 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
42040495 TTGTTTTATG
42040505 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
42040553 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
42040578 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:42040530 original size:19 final size:19
Alignment explanation
Indices: 42040506--42040548 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
42040496 TGTTTTATGT
42040506 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
42040525 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
42040544 ATATA
1 ATATA
42040549 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:42040558 original size:24 final size:25
Alignment explanation
Indices: 42040512--42040576 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
42040502 ATGTATATAT
* *
42040512 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
42040536 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
42040561 TTACTATAATATAATA
1 ATAATATAATATAATA
42040577 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:42045671 original size:30 final size:30
Alignment explanation
Indices: 42045637--42045697 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
42045627 TATTTAATAT
*
42045637 AAATTTGAAATAAGTTGTCTTTTTTATTAA
1 AAATTTGAAATAAGTTATCTTTTTTATTAA
*
42045667 AAATTTGAAATAAGTTATCTTTTTTTTTAA
1 AAATTTGAAATAAGTTATCTTTTTTATTAA
42045697 A
1 A
42045698 TGAAACATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (30 bp):
AAATTTGAAATAAGTTATCTTTTTTATTAA
Found at i:42045694 original size:34 final size:34
Alignment explanation
Indices: 42045622--42045694 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 34
42045612 ATTATTTTAA
* * *
42045622 TTTTTTATTTAATATAAATTTGAAATAAGTTGTC
1 TTTTTTTTTTAATAAAAATTTGAAATAAGTTATC
*
42045656 ----TTTTTTATTAAAAATTTGAAATAAGTTATC
1 TTTTTTTTTTAATAAAAATTTGAAATAAGTTATC
42045686 TTTTTTTTT
1 TTTTTTTTT
42045695 AAATGAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
30 26 0.84
34 5 0.16
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.58
Consensus pattern (34 bp):
TTTTTTTTTTAATAAAAATTTGAAATAAGTTATC
Found at i:42046375 original size:21 final size:21
Alignment explanation
Indices: 42046324--42046375 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
42046314 AATATTTTAT
* * *
42046324 AAAATT-TTAATTTTTTTAAA
1 AAAATTATTAAATTTGTAAAA
42046344 AAAATTA-TAAATTTGTAAAA
1 AAAATTATTAAATTTGTAAAA
42046364 AAAATTATTAAA
1 AAAATTATTAAA
42046376 ATGTATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AAAATTATTAAATTTGTAAAA
Found at i:42046380 original size:20 final size:20
Alignment explanation
Indices: 42046341--42046380 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
42046331 TAATTTTTTT
*
42046341 AAAAAAATTATAAATTTGTA
1 AAAAAAATTATAAATATGTA
42046361 AAAAAAATTATTAAA-ATGTA
1 AAAAAAATTA-TAAATATGTA
42046381 TGAAAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAAAATTATAAATATGTA
Found at i:42046658 original size:21 final size:22
Alignment explanation
Indices: 42046634--42046676 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
42046624 ACCTTTTAGG
42046634 ATATATA-AAATAAAAATAAAA
1 ATATATATAAATAAAAATAAAA
*
42046655 ATATATATAAATAAAATTAAAA
1 ATATATATAAATAAAAATAAAA
42046677 TGTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
ATATATATAAATAAAAATAAAA
Found at i:42047255 original size:30 final size:30
Alignment explanation
Indices: 42047221--42047322 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
42047211 AAAAAAATAA
*
42047221 AAATTGCATTTTGACCCCTAAA-TTT-TTCCT
1 AAATTTCATTTTGACCCCTAAACTTTCTT--T
*
42047251 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* * *
42047281 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
42047311 AAATTTCATTTT
1 AAATTTCATTTT
42047323 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 57 0.92
31 3 0.05
32 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:42047897 original size:11 final size:11
Alignment explanation
Indices: 42047841--42047906 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
42047831 GCTGATCGGG
42047841 AGAAAGAAAGGA
1 AGAAAGAAA-GA
42047853 AG-AA-AAAGA
1 AGAAAGAAAGA
*
42047862 AGAAGGAAAGA
1 AGAAAGAAAGA
*
42047873 AGAAAAGGGGAAGA
1 AG-AAA--GAAAGA
42047887 AGAAAGAAAGA
1 AGAAAGAAAGA
*
42047898 AAAAAGAAA
1 AGAAAGAAA
42047907 AAAAAACTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 22 0.50
12 4 0.09
13 3 0.07
14 7 0.16
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAGA
Found at i:42048361 original size:20 final size:20
Alignment explanation
Indices: 42048336--42048373 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42048326 AAAAATATTC
42048336 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
42048356 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
42048374 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:42048530 original size:16 final size:16
Alignment explanation
Indices: 42048488--42048531 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
42048478 TTTAAAAAAT
*
42048488 CGTGTTTCAAAAATTTT
1 CGTGTTTC-AAAATTTC
*
42048505 CATGTCTTCAAAATTTC
1 CGTGT-TTCAAAATTTC
42048522 CGTGTTTCAA
1 CGTGTTTCAA
42048532 TTATAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 5 0.22
17 15 0.65
18 3 0.13
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (16 bp):
CGTGTTTCAAAATTTC
Found at i:42048576 original size:21 final size:21
Alignment explanation
Indices: 42048543--42048586 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
42048533 TATAATAAAA
*
42048543 TTTTGTTTCAAAAATTTCGTGT
1 TTTTCTTTCAAAAA-TTCGTGT
42048565 TTTTCTTT-AAAAATTCGTGT
1 TTTTCTTTCAAAAATTCGTGT
42048585 TT
1 TT
42048587 CAAAATTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 5 0.24
22 7 0.33
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTCTTTCAAAAATTCGTGT
Found at i:42048686 original size:15 final size:17
Alignment explanation
Indices: 42048659--42048729 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 17
42048649 CGTGTTTAAA
42048659 AAAATTCTCGTG-TTTC
1 AAAATTCTCGTGTTTTC
42048675 AAAATT-TCGTGTTTTC
1 AAAATTCTCGTGTTTTC
*
42048691 AAATTTATGTTTCGTGTTTTC
1 AAA---AT-TCTCGTGTTTTC
42048712 AAAAAATTCTCGTGTTTT
1 --AAAATTCTCGTGTTTT
42048730 TTAAAAATCA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
15 5 0.11
16 13 0.28
19 12 0.26
20 3 0.07
21 10 0.22
23 3 0.07
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (17 bp):
AAAATTCTCGTGTTTTC
Found at i:42048837 original size:16 final size:17
Alignment explanation
Indices: 42048813--42048870 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
42048803 AAATTTCTTG
*
42048813 TTTCAAAAAATTCGTGT
1 TTTCAAAATATTCGTGT
*
42048830 TTTCAAAATTTTCGTG-
1 TTTCAAAATATTCGTGT
*
42048846 TTTCAAAATCTTCGTGT
1 TTTCAAAATATTCGTGT
42048863 TTTCAAAA
1 TTTCAAAA
42048871 ATTATTGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 15 0.41
17 22 0.59
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (17 bp):
TTTCAAAATATTCGTGT
Found at i:42048850 original size:33 final size:33
Alignment explanation
Indices: 42048763--42048886 Score: 118
Period size: 33 Copynumber: 3.9 Consensus size: 33
42048753 TGTTTCGAAT
*
42048763 TTCGTGTTTTC-AAATTTTCGTG--TCAAAAAT
1 TTCGTGTTTTCAAAATTTTCGTGTTTCAAAAAA
* * * *
42048793 TTC--ATTATCGAAA-TTTCTTGTTTCAAAAAA
1 TTCGTGTTTTCAAAATTTTCGTGTTTCAAAAAA
**
42048823 TTCGTGTTTTCAAAATTTTCGTGTTTCAAAATC
1 TTCGTGTTTTCAAAATTTTCGTGTTTCAAAAAA
42048856 TTCGTGTTTTCAAAAATTATT-GTGTTTCAAA
1 TTCGTGTTTTC-AAAATT-TTCGTGTTTCAAA
42048887 GTTCTCGTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
28 10 0.13
29 3 0.04
30 13 0.17
32 7 0.09
33 25 0.33
34 16 0.21
35 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (33 bp):
TTCGTGTTTTCAAAATTTTCGTGTTTCAAAAAA
Found at i:42048883 original size:17 final size:17
Alignment explanation
Indices: 42048806--42048903 Score: 82
Period size: 16 Copynumber: 5.9 Consensus size: 17
42048796 ATTATCGAAA
*
42048806 TTTCTTGTTTCAAAAA-
1 TTTCGTGTTTCAAAAAT
*
42048822 ATTCGTGTTTTC-AAAAT
1 TTTCGTG-TTTCAAAAAT
42048839 TTTCGTGTTTC-AAAAT
1 TTTCGTGTTTCAAAAAT
*
42048855 CTTCGTGTTTTCAAAAAT
1 TTTCGTG-TTTCAAAAAT
*
42048873 TATT-GTGTTTC-AAAGT
1 T-TTCGTGTTTCAAAAAT
*
42048889 TCTCGTGTTT-AAAAA
1 TTTCGTGTTTCAAAAA
42048904 AAAAAAAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.01
16 38 0.57
17 18 0.27
18 8 0.12
19 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTCGTGTTTCAAAAAT
Found at i:42048905 original size:34 final size:34
Alignment explanation
Indices: 42048806--42048905 Score: 89
Period size: 34 Copynumber: 3.0 Consensus size: 34
42048796 ATTATCGAAA
* ** **
42048806 TTTCTTGTTTCAAAAAATTCGTGTTT-TCAAAAT
1 TTTCGTGTTTCAAAATCTTCGTGTTTAAAAAAAT
**
42048839 TTTCGTGTTTCAAAATCTTCGTGTTTTCAAAAAT
1 TTTCGTGTTTCAAAATCTTCGTGTTTAAAAAAAT
*
42048873 TATT-GTGTTTCAAAGT-TCTCGTGTTTAAAAAAA
1 T-TTCGTGTTTCAAAATCT-TCGTGTTTAAAAAAA
42048906 AAAAAGTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 24 0.43
34 30 0.54
35 2 0.04
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (34 bp):
TTTCGTGTTTCAAAATCTTCGTGTTTAAAAAAAT
Found at i:42052289 original size:15 final size:16
Alignment explanation
Indices: 42052271--42052301 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
42052261 GACATTCATG
42052271 CATTCATTCA-TGCAT
1 CATTCATTCATTGCAT
42052286 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
42052302 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (16 bp):
CATTCATTCATTGCAT
Found at i:42060749 original size:73 final size:70
Alignment explanation
Indices: 42060586--42060760 Score: 210
Period size: 70 Copynumber: 2.5 Consensus size: 70
42060576 CTTTCCAAGG
** ** *
42060586 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTCTATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTCTATCTT
42060651 TCAAA
66 TCAAA
** *
42060656 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTA-TTT----TTCT
42060721 A-CTTTC-AA
61 ATCTTTCAAA
*
42060729 AAAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGA
42060761 ACCTTTTAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
70 46 0.51
71 3 0.03
73 33 0.36
74 4 0.04
75 5 0.05
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTCTATCTT
TCAAA
Found at i:42060952 original size:133 final size:127
Alignment explanation
Indices: 42060657--42060979 Score: 407
Period size: 127 Copynumber: 2.5 Consensus size: 127
42060647 TTTTTCAAAA
* * *
42060657 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAATTTCTA
* * * * *
42060722 CTTTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACGTTTTCT
66 CTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTCAATTACCACGTTTTCT
* * *
42060784 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAATTTCTA
* *
42060849 TTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGC-TTCAGATTACACACTGTGGTA
66 CT-TTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTCA-ATTAC-CAC-GT--T-
*
42060912 TTTT
124 TTCT
*
42060916 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
1 AA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCCGAGGTATTTTCAATT
42060980 AAGCCTTTTG
Statistics
Matches: 169, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
126 3 0.02
127 66 0.39
128 36 0.21
129 2 0.01
131 1 0.01
132 5 0.03
133 36 0.21
135 20 0.12
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (127 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAATTTCTA
CTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTCAATTACCACGTTTTCT
Found at i:42060971 original size:59 final size:60
Alignment explanation
Indices: 42060861--42060979 Score: 170
Period size: 59 Copynumber: 2.0 Consensus size: 60
42060851 GTTAAAAAAA
* * * *
42060861 TCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTT-AATT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTTCAATT
*
42060920 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACACGCCGAGGTATTTTCAATT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACACACCGAGGTATTTTCAATT
42060980 AAGCCTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
59 47 0.89
60 6 0.11
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (60 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTTCAATT
Found at i:42061337 original size:71 final size:71
Alignment explanation
Indices: 42061095--42061771 Score: 1151
Period size: 72 Copynumber: 9.5 Consensus size: 71
42061085 TTTGAAAGAA
42061095 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-TTGAGGTAATTTCAATTTTG-TTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTGTTTT
42061158 CAAAAT
66 CAAAAT
42061164 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA-TTTTGTTT
42061229 TCAAAAT
65 TCAAAAT
42061236 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTGTTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTGTTTT
42061301 CAAAAT
66 CAAAAT
42061307 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTGTTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTGTTTT
42061372 CAAAAT
66 CAAAAT
* * * *
42061378 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGGAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-TGTTT
42061443 TCAAAAT
65 TCAAAAT
* * *
42061450 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTTTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA-TTTTGTTT
42061515 TCAAAAT
65 TCAAAAT
42061522 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-TGTTT
42061587 TCAAAAT
65 TCAAAAT
*
42061594 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-TG-TT
42061659 TTCAAAAT
64 TTCAAAAT
* *
42061667 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-TG-TT
*
42061732 TTCAAAAA
64 TTCAAAAT
**
42061740 TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCT
42061772 TTTAATTTCT
Statistics
Matches: 581, Mismatches: 20, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
69 40 0.07
70 15 0.03
71 149 0.26
72 264 0.45
73 113 0.19
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (71 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTGTTTT
CAAAAT
Found at i:42061791 original size:54 final size:54
Alignment explanation
Indices: 42061717--42062143 Score: 658
Period size: 54 Copynumber: 8.0 Consensus size: 54
42061707 GTTGAGGTAT
*
42061717 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
42061771 TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
42061825 --TT--TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
42061875 TTTTAATTTCTGA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
42061929 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
42061983 TTTTAATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
42062037 --TT--TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTCGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * *
42062087 TTTAGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTT--TAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
42062142 TT
1 TT
42062144 GGCTCACGTG
Statistics
Matches: 346, Mismatches: 15, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
50 91 0.26
52 7 0.02
54 203 0.59
55 41 0.12
56 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:42061960 original size:212 final size:212
Alignment explanation
Indices: 42061717--42062143 Score: 775
Period size: 212 Copynumber: 2.0 Consensus size: 212
42061707 GTTGAGGTAT
42061717 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
42061782 ATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATCA
66 ATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATCA
* * * *
42061847 ACTCATATTGCGAGAGGTGAGTTGAGCCTTT-TAATTTCTGATTTTCAAAAATCAACTCATATTG
131 ACTCATATTGCGAGAGGTAAGTCGAGCCTTTACAAATTCTG-TTTTCAAAAATCAACTCATATTG
*
42061911 CGAGAGGTGAGTTGAGCC
195 CGAGAAGTGAGTTGAGCC
42061929 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
*
42061994 GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATCA
66 ATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATCA
42062059 ACTCATATTGCGAGAGGTAAGTCGAGCCTTTAGCAAATTCTGTTTTCAAAAATCAACTCATATTG
131 ACTCATATTGCGAGAGGTAAGTCGAGCCTTTA-CAAATTCTGTTTTCAAAAATCAACTCATATTG
42062124 CGAGAAGTGAGTTGAGCC
195 CGAGAAGTGAGTTGAGCC
42062142 TT
1 TT
42062144 GGCTCACGTG
Statistics
Matches: 207, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
212 158 0.76
213 42 0.20
214 7 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (212 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
ATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATCA
ACTCATATTGCGAGAGGTAAGTCGAGCCTTTACAAATTCTGTTTTCAAAAATCAACTCATATTGC
GAGAAGTGAGTTGAGCC
Found at i:42062043 original size:158 final size:158
Alignment explanation
Indices: 42061722--42062143 Score: 649
Period size: 158 Copynumber: 2.7 Consensus size: 158
42061712 GGTATTTTTA
* *
42061722 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTT
1 ATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTT
* *
42061787 TCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TTTTTCTATTTTTCAAAAATCAACT
66 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTTTCTATTTTTCAAAAACCAACT
42061850 CATATTGCGAGAGGTGAGTTGAGCCTTTT
131 CATATTGCGAGAGGTGAGTTGAGCC-TTT
42061879 AATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTT
1 -ATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTT
*
42061944 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAACCA
65 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--TTTCTATTTTTCAAAAACCA
42062009 ACTCATATTGCGAGAGGTGAGTTGAGCC-TT
128 ACTCATATTGCGAGAGGTGAGTTGAGCCTTT
* * * *
42062039 -TTTCT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTCGAGCCTTTAGCAAATTCTG-
1 ATTTCTGA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT--TAATTTCTGT
*
42062101 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
63 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
42062144 GGCTCACGTG
Statistics
Matches: 247, Mismatches: 10, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
157 1 0.00
158 147 0.60
159 42 0.17
160 11 0.04
162 46 0.19
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (158 bp):
ATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTT
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTTTCTATTTTTCAAAAACCAACT
CATATTGCGAGAGGTGAGTTGAGCCTTT
Found at i:42062452 original size:30 final size:29
Alignment explanation
Indices: 42062412--42062531 Score: 104
Period size: 30 Copynumber: 4.1 Consensus size: 29
42062402 TTTAAAATAA
*
42062412 AAATTGCATTTTGACCCCTAAATTTTTCCT
1 AAATTTCATTTTGACCCCTAAATTTTT-CT
*
42062442 AAATTTCATTTTGACCCTTAAACTTTCTT-T
1 AAATTTCATTTTGACCCCTAAA-TTT-TTCT
* * *
42062472 AAATTTCACTTAGACCCCTAAA-CTTTCATT
1 AAATTTCATTTTGACCCCTAAATTTTTC--T
**
42062502 AAATTTCATTTT-AATCCTAAA-TTTTCT
1 AAATTTCATTTTGACCCCTAAATTTTTCT
42062529 AAA
1 AAA
42062532 AATTACATTT
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
27 6 0.08
28 1 0.01
29 11 0.15
30 51 0.69
31 3 0.04
32 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCCTAAATTTTTCT
Found at i:42063070 original size:29 final size:29
Alignment explanation
Indices: 42063034--42063098 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
42063024 GATCGAGGAG
*
42063034 AAAG-AAAGGAAGAAAAAG-AAGAAGGAAA
1 AAAGAAAAGG-AGAAAAAGAAAGAAAGAAA
* * *
42063062 GAAGAAAAGGGGAAGAAGAAAGAAAGAAA
1 AAAGAAAAGGAGAAAAAGAAAGAAAGAAA
42063091 AAAGAAAA
1 AAAGAAAA
42063099 AAAACTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (29 bp):
AAAGAAAAGGAGAAAAAGAAAGAAAGAAA
Found at i:42063088 original size:11 final size:11
Alignment explanation
Indices: 42063032--42063097 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
42063022 CTGATCGAGG
42063032 AGAAAGAAAGGA
1 AGAAAGAAA-GA
42063044 AG-AA-AAAGA
1 AGAAAGAAAGA
*
42063053 AGAAGGAAAGA
1 AGAAAGAAAGA
*
42063064 AGAAAAGGGGAAGA
1 AG-AAA--GAAAGA
42063078 AGAAAGAAAGA
1 AGAAAGAAAGA
*
42063089 AAAAAGAAA
1 AGAAAGAAA
42063098 AAAAACTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 22 0.50
12 4 0.09
13 3 0.07
14 7 0.16
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAGA
Found at i:42063552 original size:20 final size:20
Alignment explanation
Indices: 42063527--42063564 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42063517 AAAAATATTC
42063527 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
42063547 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
42063565 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:42063724 original size:17 final size:17
Alignment explanation
Indices: 42063681--42063728 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
42063671 TTAAAAAAAT
42063681 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
42063700 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
42063716 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
42063729 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:42063837 original size:16 final size:16
Alignment explanation
Indices: 42063818--42063899 Score: 76
Period size: 16 Copynumber: 4.9 Consensus size: 16
42063808 TCGTGAATAA
42063818 AAAATTTTCGTGTTTC
1 AAAATTTTCGTGTTTC
** *
42063834 AAAATTCACGTGTTTTAAA
1 AAAATTTTCGTG-TTT--C
*
42063853 AAAATTCTCGTGTTTC
1 AAAATTTTCGTGTTTC
42063869 AAAATTTTCGTGTTTTC
1 AAAATTTTCGTG-TTTC
*
42063886 -AAATTTTCATGTTT
1 AAAATTTTCGTGTTT
42063900 TCGTGTTTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
15 3 0.05
16 31 0.56
17 7 0.13
18 3 0.05
19 11 0.20
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (16 bp):
AAAATTTTCGTGTTTC
Found at i:42063837 original size:18 final size:19
Alignment explanation
Indices: 42063816--42064089 Score: 142
Period size: 17 Copynumber: 15.3 Consensus size: 19
42063806 TCTCGTGAAT
42063816 AAAAAATTTTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
** *
42063834 --AAAATTCACGTGTTTTA
1 AAAAAATTTTCGTGTTTTC
*
42063851 AAAAAATTCTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
42063869 --AAAATTTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
**
42063886 AAATTTTCATGTTTTCGTGTTTTC
1 AAA-----AAATTTTCGTGTTTTC
* *
42063910 AAAAAATTCTCGTGTTTTTT
1 AAAAAATTTTCGTG-TTTTC
*
42063930 AAAAAA--TTCATGTTTT-
1 AAAAAATTTTCGTGTTTTC
* * *
42063946 AAAAAA-ATACATGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
42063964 --GAAATTTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
42063981 -AAAATTTTTCGTG---TC
1 AAAAAATTTTCGTGTTTTC
* * *
42063996 AAAAAATTCTCATG-TATC
1 AAAAAATTTTCGTGTTTTC
* * *
42064014 -GAAAATTTCCTTGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
42064032 AAAAAA-TTCCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
42064050 -AAAAATTTTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
*
42064067 -AAAAATCTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
42064085 AAAAA
1 AAAAA
42064090 TTATTATTGT
Statistics
Matches: 199, Mismatches: 33, Indels: 47
0.71 0.12 0.17
Matches are distributed among these distances:
15 2 0.01
16 40 0.20
17 59 0.30
18 43 0.22
19 28 0.14
20 10 0.05
24 17 0.09
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAAAATTTTCGTGTTTTC
Found at i:42063855 original size:35 final size:35
Alignment explanation
Indices: 42063779--42063884 Score: 119
Period size: 35 Copynumber: 3.1 Consensus size: 35
42063769 TGTTTCTTTC
* *
42063779 TTTAAAAAAAATC-CGTGTTTCAAAAATTCTCGTG-
1 TTTAAAAAAATTCTCGTGTTTC-AAAATTCACGTGT
** *
42063813 AAT-AAAAAATTTTCGTGTTTCAAAATTCACGTGT
1 TTTAAAAAAATTCTCGTGTTTCAAAATTCACGTGT
**
42063847 TTTAAAAAAATTCTCGTGTTTCAAAATTTTCGTGT
1 TTTAAAAAAATTCTCGTGTTTCAAAATTCACGTGT
42063882 TTT
1 TTT
42063885 CAAATTTTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
33 18 0.31
34 10 0.17
35 31 0.53
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (35 bp):
TTTAAAAAAATTCTCGTGTTTCAAAATTCACGTGT
Found at i:42063858 original size:19 final size:19
Alignment explanation
Indices: 42063834--42063872 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
42063824 TTCGTGTTTC
*
42063834 AAAATTCACGTGTTTTAAA
1 AAAATTCACGTGTTTCAAA
*
42063853 AAAATTCTCGTGTTTCAAA
1 AAAATTCACGTGTTTCAAA
42063872 A
1 A
42063873 TTTTCGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (19 bp):
AAAATTCACGTGTTTCAAA
Found at i:42063933 original size:20 final size:19
Alignment explanation
Indices: 42063783--42064089 Score: 130
Period size: 17 Copynumber: 17.3 Consensus size: 19
42063773 TCTTTCTTTA
*
42063783 AAAAAAATC-CGTG-TTTC
1 AAAAAATTCTCGTGTTTTC
**
42063800 -AAAAATTCTCGTG-AAT-
1 AAAAAATTCTCGTGTTTTC
*
42063816 AAAAAATTTTCGTG-TTTC
1 AAAAAATTCTCGTGTTTTC
* *
42063834 --AAAATTCACGTGTTTTA
1 AAAAAATTCTCGTGTTTTC
42063851 AAAAAATTCTCGTG-TTTC
1 AAAAAATTCTCGTGTTTTC
*
42063869 --AAAATTTTCGTGTTTTC
1 AAAAAATTCTCGTGTTTTC
** *
42063886 AAATTTTCATGTTTTCGTGTTTTC
1 AAA-----AAATTCTCGTGTTTTC
*
42063910 AAAAAATTCTCGTGTTTTTT
1 AAAAAATTCTCGTG-TTTTC
*
42063930 AAAAAA-T-TCATGTTTT-
1 AAAAAATTCTCGTGTTTTC
* * *
42063946 AAAAAAAT-ACATGTTTTC
1 AAAAAATTCTCGTGTTTTC
* *
42063964 --GAAATTTTCGTGTTTTC
1 AAAAAATTCTCGTGTTTTC
* *
42063981 -AAAATTTTTCGTG---TC
1 AAAAAATTCTCGTGTTTTC
* *
42063996 AAAAAATTCTCATG-TATC
1 AAAAAATTCTCGTGTTTTC
* * *
42064014 GAAAATTTC-CTTGTTTTC
1 AAAAAATTCTCGTGTTTTC
42064032 AAAAAATTC-CGTGTTTTC
1 AAAAAATTCTCGTGTTTTC
*
42064050 -AAAAATTTTCGTG-TTTC
1 AAAAAATTCTCGTGTTTTC
42064067 -AAAAA-TCTTCGTGTTTTC
1 AAAAAATTC-TCGTGTTTTC
42064085 AAAAA
1 AAAAA
42064090 TTATTATTGT
Statistics
Matches: 225, Mismatches: 38, Indels: 52
0.71 0.12 0.17
Matches are distributed among these distances:
15 2 0.01
16 49 0.22
17 70 0.31
18 52 0.23
19 25 0.11
20 10 0.04
24 17 0.08
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (19 bp):
AAAAAATTCTCGTGTTTTC
Done.