Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 116 of 318
Found at i:35573974 original size:190 final size:190
Alignment explanation
Indices: 35573644--35574238 Score: 1059
Period size: 190 Copynumber: 3.1 Consensus size: 190
35573634 TATTTGAATA
35573644 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35573709 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAAT
*
35573774 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35573834 AATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35573899 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAAT
35573964 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
131 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35574024 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
35574089 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG--TGTATATATGTGATAAGGCCGAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAAT
* * * *
35574152 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
131 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
35574212 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
35574239 TCCCGAAGGG
Statistics
Matches: 391, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
188 103 0.26
190 288 0.74
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAAT
GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:35573975 original size:22 final size:22
Alignment explanation
Indices: 35573947--35574069 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
35573937 GTATATATAT
35573947 ATGTGATAAGGCCTAATGGCCA
1 ATGTGATAAGGCCTAATGGCCA
* *** ***
35573969 ATGTGATGAATGTGAAAGTGTATA
1 ATGTGAT-AAGGCCTAA-TGGCCA
35573993 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCTAATGGCCA
* *** ***
35574016 ATGTGATGAATGTGAAAGTGTATA
1 ATGTGAT-AAGGCCTAA-TGGCCA
35574040 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCTAATGGCCA
35574063 ATGTGAT
1 ATGTGAT
35574070 GAATGTGAAA
Statistics
Matches: 67, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
22 21 0.31
23 16 0.24
24 16 0.24
25 14 0.21
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCA
Found at i:35575966 original size:26 final size:25
Alignment explanation
Indices: 35575937--35575995 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
35575927 ATTTACTAAA
*
35575937 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCT-AG-ATGCAAAATGACCATT
*
35575963 ATACCCCTAGGTGCAAAATGACCATT
1 ATA-CCCTAGATGCAAAATGACCATT
35575989 ATACCCT
1 ATACCCT
35575996 TAGGGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.66
27 4 0.14
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
ATACCCTAGATGCAAAATGACCATT
Found at i:35576142 original size:28 final size:28
Alignment explanation
Indices: 35576102--35576217 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 28
35576092 GGAGGAAGCG
* *
35576102 TTCTGGTGACTCTGCCAAAAATATCTAT
1 TTCTGGTGACTCTGCCACAAATATCTGT
*
35576130 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGACTCTGCCACAAATATCTGT
* * *
35576158 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGACTCTGCCACAAATATCTGT
* **
35576186 ATCTGGTGACTCTATCAC-AATATCTG-
1 TTCTGGTGACTCTGCCACAAATATCTGT
35576212 TTCTGG
1 TTCTGG
35576218 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
26 5 0.07
27 7 0.09
28 64 0.84
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (28 bp):
TTCTGGTGACTCTGCCACAAATATCTGT
Found at i:35581213 original size:40 final size:40
Alignment explanation
Indices: 35581165--35581330 Score: 282
Period size: 40 Copynumber: 4.2 Consensus size: 40
35581155 GGACTAAGAT
35581165 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
35581205 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
35581245 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
35581285 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
35581324 CCGAAGG
1 CCGAAGG
35581331 TACTTGGGTT
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 15 0.12
40 104 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:35587854 original size:13 final size:13
Alignment explanation
Indices: 35587836--35587861 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35587826 ATATTATAAT
35587836 TATTTTATGTTAA
1 TATTTTATGTTAA
35587849 TATTTTATGTTAA
1 TATTTTATGTTAA
35587862 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:35589287 original size:40 final size:40
Alignment explanation
Indices: 35589240--35589444 Score: 351
Period size: 40 Copynumber: 5.2 Consensus size: 40
35589230 GGACTAAGAT
35589240 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
*
35589280 CGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
35589320 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
*
35589360 CGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
* *
35589400 CGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCC
1 CGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCC
35589439 CGAAGG
1 CGAAGG
35589445 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 15 0.09
40 141 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
Found at i:35591641 original size:28 final size:28
Alignment explanation
Indices: 35591601--35591675 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
35591591 ATTGCATGAG
35591601 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
35591629 TATGAATGTGATTGGGGCC-GATGGGCCA
1 TATGAATGTGATT-GGGCCTGATGGGCCA
*
35591657 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
35591676 AAAGGGGCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 5 0.11
28 34 0.77
29 5 0.11
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:35592838 original size:31 final size:31
Alignment explanation
Indices: 35592802--35592864 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
35592792 GGGTGTTACA
*
35592802 TTTAGTGGTATCAGAGTTAGGTTGCAAAACT
1 TTTAGTGGTATCAGAGTCAGGTTGCAAAACT
35592833 TTTAGTGGTATCAGAGTCAGGTTGCAAAACT
1 TTTAGTGGTATCAGAGTCAGGTTGCAAAACT
35592864 T
1 T
35592865 CGGTTGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (31 bp):
TTTAGTGGTATCAGAGTCAGGTTGCAAAACT
Found at i:35595850 original size:27 final size:28
Alignment explanation
Indices: 35595794--35595863 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
35595784 AAACTTGTAC
35595794 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
35595822 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
35595849 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35595864 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:35595874 original size:27 final size:27
Alignment explanation
Indices: 35595794--35595875 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
35595784 AAACTTGTAC
* *
35595794 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
35595822 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
35595849 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
35595876 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:35600738 original size:29 final size:29
Alignment explanation
Indices: 35600694--35600752 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
35600684 ATGGATTAAT
* *
35600694 AAAGGTGTGCTGATGCTTGGTGTTTCCTA
1 AAAGATGTGCTAATGCTTGGTGTTTCCTA
35600723 AAAGATGTGCTAATGCTTGGTGTTTCCTA
1 AAAGATGTGCTAATGCTTGGTGTTTCCTA
35600752 A
1 A
35600753 GTGACTATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (29 bp):
AAAGATGTGCTAATGCTTGGTGTTTCCTA
Found at i:35602936 original size:48 final size:47
Alignment explanation
Indices: 35602801--35602937 Score: 132
Period size: 48 Copynumber: 2.9 Consensus size: 47
35602791 ACGGAACCTC
* * * * *
35602801 ATATCGATGCCATGTCCCAAACATAGTCTTATA-AAAATCACTTATCG
1 ATATCGATGCCATGTCCC-AACATGGTCTTACACAAGATCTCGTATCG
* * * * **
35602848 ATACCGAAGCCATATCCCTAATATGGTCTTACACGGGATCTCGTATCG
1 ATATCGATGCCATGTCCC-AACATGGTCTTACACAAGATCTCGTATCG
*
35602896 ATGTCGATGCCATGTCCCAGACATGGTCTTACACAAGATCTC
1 ATATCGATGCCATGTCCCA-ACATGGTCTTACACAAGATCTC
35602938 ATCAATCATG
Statistics
Matches: 69, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
47 27 0.39
48 42 0.61
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (47 bp):
ATATCGATGCCATGTCCCAACATGGTCTTACACAAGATCTCGTATCG
Found at i:35611694 original size:6 final size:6
Alignment explanation
Indices: 35611685--35611736 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
35611675 AATTAGGTGA
* *
35611685 CAGAAT CAGAAT CAGAAT CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
35611734 CAG
1 CAG
35611737 TATTAGGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 2 0.05
6 33 0.85
7 3 0.08
8 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGAAT
Found at i:35611694 original size:31 final size:31
Alignment explanation
Indices: 35611667--35611752 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
35611657 TATCAGAGCT
* *
35611667 AGAATCAGAATTAGGTGACAGAATCAGAATC
1 AGAATCAGTATTAGGTAACAGAATCAGAATC
* *
35611698 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGTATTAGGTAACAGAATCAGAATC
35611729 AGAATCAGTATTAGGTAACAGAAT
1 AGAATCAGTATTAGGTAACAGAAT
35611753 AAAAAATCAG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.21
Consensus pattern (31 bp):
AGAATCAGTATTAGGTAACAGAATCAGAATC
Found at i:35612926 original size:27 final size:28
Alignment explanation
Indices: 35612896--35612965 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
35612886 GGTATGTTAG
*
35612896 TAATTTTGTAAA-CCAATGGTGTTTCTA
1 TAATTTTGTAAAGCCAATGGTATTTCTA
*
35612923 TAATTTT-TAGAAAGTCAATGGTATTTCTA
1 TAATTTTGT--AAAGCCAATGGTATTTCTA
35612952 TAATTTTGTAAAGC
1 TAATTTTGTAAAGC
35612966 AGGGGTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
26 1 0.03
27 7 0.19
28 7 0.19
29 20 0.56
30 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (28 bp):
TAATTTTGTAAAGCCAATGGTATTTCTA
Found at i:35612982 original size:27 final size:26
Alignment explanation
Indices: 35612965--35613124 Score: 158
Period size: 27 Copynumber: 6.0 Consensus size: 26
35612955 TTTTGTAAAG
35612965 CAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
** * *
35612991 TTGAGGGTATTTCGGTAATTTCACAAA
1 CAG-GGGTATTTTGGTAATTTTACAAA
* **
35613018 CCAGTGGTATTTCAGTAATTTTACAAA
1 -CAGGGGTATTTTGGTAATTTTACAAA
35613045 CAAGGGGTATTTTGGTAATTTTACAAA
1 C-AGGGGTATTTTGGTAATTTTACAAA
* **
35613072 CTAGGGGTATTTTGGTAATTCTATCCTA
1 C-AGGGGTATTTTGGTAATTTTA-CAAA
** *
35613100 CAGGGGTATTTCAGTAATTTCACAA
1 CAGGGGTATTTTGGTAATTTTACAA
35613125 TCGAGGGTAA
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.03
27 101 0.94
28 4 0.04
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (26 bp):
CAGGGGTATTTTGGTAATTTTACAAA
Found at i:35613027 original size:54 final size:54
Alignment explanation
Indices: 35612965--35613124 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 54
35612955 TTTTGTAAAG
**
35612965 CAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACAAG-GGGTATTTCGGTAATTTCACAAAC
* ** * *
35613019 CAGTGGTATTTCAGTAATTTTACAAACAAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTCGGTAATTTCACAAAC
* * ** *
35613073 TAGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 CAGGGGTATTTTGGTAATTTTA-CAAACAAGGGGTATTTCGGTAATTTCACAA
35613125 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
54 83 0.95
55 4 0.05
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTCGGTAATTTCACAAAC
Found at i:35613051 original size:81 final size:81
Alignment explanation
Indices: 35612941--35613091 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
35612931 AGAAAGTCAA
** *
35612941 TGGTATTTCTATAATTTTGTAAAGCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCG
1 TGGTATTTCTATAATTTTACAAAGCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCG
35613005 GTAATTTCACAAACCAG
65 GTAATTTCACAAACCAG
*
35613022 TGGTATTTC-AGTAATTTTACAAA-CAAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 TGGTATTTCTA-TAATTTTACAAAGC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTC
35613085 GGTAATT
64 GGTAATT
35613092 CTATCCTACA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
80 2 0.03
81 59 0.94
82 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
TGGTATTTCTATAATTTTACAAAGCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:35613108 original size:81 final size:81
Alignment explanation
Indices: 35612966--35613124 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 81
35612956 TTTGTAAAGC
* *
35612966 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
*
35613031 AGTAATTTTACAAACA
66 AGTAATTTCACAAACA
* **
35613047 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAA-TTCTATCCTA-CAGGGGTAT
1 AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTC-A-CAAACCAGGGGTAT
35613109 TTCAGTAATTTCACAA
63 TTCAGTAATTTCACAA
35613125 TCGAGGGTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
80 3 0.04
81 62 0.90
82 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
AGTAATTTCACAAACA
Found at i:35613195 original size:27 final size:27
Alignment explanation
Indices: 35613123--35613319 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
35613113 GTAATTTCAC
*
35613123 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
35613150 ACT-GAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
35613176 AATCGAGAGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
35613203 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
35613230 AATCGAGGGTAAAACGATAATTTT-TCA
1 AATCGAGGGTAAAATGGTAATTTTGT-A
* * *
35613257 AATCGAGGGTGAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
35613284 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
35613311 AATCGAGGG
1 AATCGAGGG
35613320 CATTTCAGTA
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
26 25 0.17
27 123 0.83
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:35619809 original size:45 final size:44
Alignment explanation
Indices: 35619759--35620001 Score: 274
Period size: 44 Copynumber: 5.5 Consensus size: 44
35619749 GCCTCTAAAA
* * * *
35619759 TTAGCGGCGTTTGTTTGAAAAAAACGCCGCTAAAGATC-ATGACCT
1 TTAGCGGCGCTT-TTTCAAAAAAACGCCGCTAAAGA-CAAGGACTT
* *
35619804 TTAGCGGCGCTTTTT-AAAAGAACGCTGCTAAAGACAAGGACTT
1 TTAGCGGCGCTTTTTCAAAAAAACGCCGCTAAAGACAAGGACTT
* * * *
35619847 TTCGCGGCGCTTTTTTTAGAAAAACGCCGCTAAAGACCAGGACTT
1 TTAGCGGCGC-TTTTTCAAAAAAACGCCGCTAAAGACAAGGACTT
* * *
35619892 TTAGCGGCGCTTTTTCAAACAAACGCCGCTAGAGACTAGGACTT
1 TTAGCGGCGCTTTTTCAAAAAAACGCCGCTAAAGACAAGGACTT
* * * * *
35619936 TTAGCAGCGCTTTTTCAAACAAACGCCGCTAGAGGCTAGGACTT
1 TTAGCGGCGCTTTTTCAAAAAAACGCCGCTAAAGACAAGGACTT
*
35619980 TTAGCGGCGCTTTTTTAAAAAA
1 TTAGCGGCGCTTTTTCAAAAAA
35620002 TGCTGCTAAT
Statistics
Matches: 174, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
42 1 0.01
43 31 0.18
44 98 0.56
45 44 0.25
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (44 bp):
TTAGCGGCGCTTTTTCAAAAAAACGCCGCTAAAGACAAGGACTT
Found at i:35625878 original size:9 final size:9
Alignment explanation
Indices: 35625864--35626067 Score: 143
Period size: 9 Copynumber: 22.1 Consensus size: 9
35625854 ATGTATTAGT
35625864 TAAGTTATG
1 TAAGTTATG
35625873 TAAGTTGTTATG
1 TAA---GTTATG
*
35625885 TACGTTATG
1 TAAGTTATG
*
35625894 TGAGTTATG
1 TAAGTTATG
*
35625903 TAAATTATG
1 TAAGTTATG
35625912 TAAGTTATG
1 TAAGTTATG
*
35625921 TGAGTTATG
1 TAAGTTATG
35625930 TAAGTTGTTATG
1 TAA---GTTATG
*
35625942 TAAATTATG
1 TAAGTTATG
35625951 TATGTACGTTATG
1 TA---A-GTTATG
*
35625964 TGAGTTATG
1 TAAGTTATG
*
35625973 TAAATTATG
1 TAAGTTATG
35625982 TAAGTTATG
1 TAAGTTATG
35625991 T--GTTATG
1 TAAGTTATG
35625998 TAAG-T-TG
1 TAAGTTATG
*
35626005 TAAATTATG
1 TAAGTTATG
35626014 TAAGTTATAAG
1 TAAGTTAT--G
*
35626025 T-TGTTATG
1 TAAGTTATG
*
35626033 TAAATTA--
1 TAAGTTATG
*
35626040 TAAGTTATA
1 TAAGTTATG
*
35626049 TGAGTTATG
1 TAAGTTATG
35626058 TAAGTTATG
1 TAAGTTATG
35626067 T
1 T
35626068 TTATTTAAGT
Statistics
Matches: 153, Mismatches: 23, Indels: 38
0.71 0.11 0.18
Matches are distributed among these distances:
7 18 0.12
8 4 0.03
9 99 0.65
10 6 0.04
11 2 0.01
12 18 0.12
13 6 0.04
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:35625968 original size:43 final size:39
Alignment explanation
Indices: 35625897--35626005 Score: 123
Period size: 34 Copynumber: 3.1 Consensus size: 39
35625887 CGTTATGTGA
35625897 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
35625936 GTTATGTAAATTA--T--G-TATGT-ACGTTATGT--G-A
1 GTTATGTAAATTATGTAAGTTATGTGA-GTTATGTAAGTT
35625967 GTTATGTAAATTATGTAAGTTATGT--GTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
35626004 GT
1 GT
35626006 AAATTATGTA
Statistics
Matches: 59, Mismatches: 2, Indels: 20
0.73 0.02 0.25
Matches are distributed among these distances:
31 13 0.22
32 1 0.02
33 2 0.03
34 19 0.32
35 2 0.03
36 6 0.10
37 3 0.05
39 13 0.22
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:35625998 original size:16 final size:16
Alignment explanation
Indices: 35625958--35626040 Score: 58
Period size: 16 Copynumber: 4.9 Consensus size: 16
35625948 ATGTATGTAC
*
35625958 GTTATGTGAGTTATGT
1 GTTATGTAAGTTATGT
*
35625974 AAATTATGTAAGTTATGT
1 --GTTATGTAAGTTATGT
* **
35625992 GTTATGTAAGTTGTAA
1 GTTATGTAAGTTATGT
*
35626008 ATTATGTAAGTTATAAGTT
1 GTTATGTAAGTTAT--G-T
*
35626027 GTTATGTAAATTAT
1 GTTATGTAAGTTAT
35626041 AAGTTATATG
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
16 24 0.48
18 14 0.28
19 12 0.24
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (16 bp):
GTTATGTAAGTTATGT
Found at i:35626035 original size:28 final size:27
Alignment explanation
Indices: 35626003--35626067 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 27
35625993 TTATGTAAGT
*
35626003 TGTAAATTATGTAAGTTATAAGTTGTTA
1 TGTAAATTATGTAAGTTATAAG-AGTTA
*
35626031 TGTAAATTA--TAAGTTATATGAGTTA
1 TGTAAATTATGTAAGTTATAAGAGTTA
*
35626056 TGTAAGTTATGT
1 TGTAAATTATGT
35626068 TTATTTAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 12 0.38
26 10 0.31
27 1 0.03
28 9 0.28
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.46
Consensus pattern (27 bp):
TGTAAATTATGTAAGTTATAAGAGTTA
Found at i:35626681 original size:241 final size:241
Alignment explanation
Indices: 35626258--35626973 Score: 1351
Period size: 241 Copynumber: 3.0 Consensus size: 241
35626248 TTAATGTTAT
* * *
35626258 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
35626323 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
35626388 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
35626453 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
35626499 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
* *
35626564 TCATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCAATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
35626629 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
35626694 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
*
35626740 ATAAATATTCAATAGCAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
*
35626805 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAGGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
35626870 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
35626935 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTA
35626974 TTGTTGTAAT
Statistics
Matches: 463, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 463 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:35626975 original size:30 final size:30
Alignment explanation
Indices: 35626939--35627000 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
35626929 AGAGAAGGTC
35626939 AGCTATTGTTGTAATTTTAATGGACAAGCA
1 AGCTATTGTTGTAATTTTAATGGACAAGCA
35626969 AGCTATTGTTGTAATTTTAATGGACAAGCA
1 AGCTATTGTTGTAATTTTAATGGACAAGCA
35626999 AG
1 AG
35627001 GTACATGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (30 bp):
AGCTATTGTTGTAATTTTAATGGACAAGCA
Found at i:35630186 original size:40 final size:40
Alignment explanation
Indices: 35629957--35630179 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
35629947 CGAATGATGT
* * *
35629957 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
35629997 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
35630037 CCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35630074 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
35630115 CCGGGCTATGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35630155 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35630180 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
38 34 0.21
39 1 0.01
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35636641 original size:40 final size:40
Alignment explanation
Indices: 35636411--35636634 Score: 269
Period size: 40 Copynumber: 5.6 Consensus size: 40
35636401 CGAATGATGT
* * *
35636411 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35636451 CCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* * *
35636491 CCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTCACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35636529 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35636570 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35636610 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35636635 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 32 0.20
40 120 0.75
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35636656 original size:119 final size:119
Alignment explanation
Indices: 35636410--35636657 Score: 290
Period size: 119 Copynumber: 2.1 Consensus size: 119
35636400 TCGAATGATG
* *
35636410 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
* * * **
35636475 GTGTGAGTTACTAATTCCGGGCTAAGCCTGAAGGCATTGGTGCGAGTCACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAAA
* * * *
35636529 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
* * *
35636592 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT-AGCTATA
64 TTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTCA-CTAAA
35636649 TCC-GGTTAA
1 TCCGGGTTAA
35636658 ATTTCGAAGG
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.69
120 31 0.28
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAAA
Found at i:35641717 original size:21 final size:21
Alignment explanation
Indices: 35641693--35641738 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
35641683 TGGTTTTGGA
35641693 TTTAAGATTTA-ATATTTAGGG
1 TTTAAGATTTACA-ATTTAGGG
*
35641714 TTTAAGGTTTACAATTTAGGG
1 TTTAAGATTTACAATTTAGGG
35641735 TTTA
1 TTTA
35641739 TAACTAGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (21 bp):
TTTAAGATTTACAATTTAGGG
Found at i:35642029 original size:40 final size:40
Alignment explanation
Indices: 35641985--35642069 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
35641975 TTTAATCTTT
*
35641985 TAGCGACGCTTAC-GTAAAAACGCCGCT-ATAGGTTGATCTA
1 TAGCGACGCTT-CTCTAAAAACGCCGCTAAT-GGTTGATCTA
* *
35642025 TAGCGACGCTTCTCTAAAAACGCCGCTAATGTTTGATCTT
1 TAGCGACGCTTCTCTAAAAACGCCGCTAATGGTTGATCTA
35642065 TAGCG
1 TAGCG
35642070 TCGTTTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 1 0.03
40 37 0.93
41 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGCGACGCTTCTCTAAAAACGCCGCTAATGGTTGATCTA
Found at i:35646508 original size:40 final size:40
Alignment explanation
Indices: 35646346--35646547 Score: 139
Period size: 40 Copynumber: 5.1 Consensus size: 40
35646336 CGAATGATGT
*
35646346 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
35646386 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
35646425 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
35646463 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * * *
35646504 CCGGGCTTCGTCCCAAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
35646544 CCGG
1 CCGG
35646548 TTAAATTCCG
Statistics
Matches: 128, Mismatches: 26, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 76 0.59
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:35646510 original size:78 final size:80
Alignment explanation
Indices: 35646345--35646496 Score: 202
Period size: 78 Copynumber: 1.9 Consensus size: 80
35646335 TCGAATGATG
* * *
35646345 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
35646410 GTGCGAGTTAATAAA
66 GTGCAAGTCAATAAA
* **
35646425 TCCGGGCTAA-TCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
35646487 CGTGCAAGTC
65 CGTGCAAGTC
35646497 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCAAGTCAATAAA
Found at i:35655103 original size:27 final size:27
Alignment explanation
Indices: 35655019--35655172 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
35655009 GACGAGAATG
* * *
35655019 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
35655048 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
35655077 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
35655104 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
35655132 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
35655159 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35655173 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:35655140 original size:55 final size:55
Alignment explanation
Indices: 35655069--35655172 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
35655059 GCGAGCTCAA
35655069 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
35655124 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
35655173 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:35659193 original size:24 final size:24
Alignment explanation
Indices: 35659166--35659325 Score: 85
Period size: 24 Copynumber: 6.6 Consensus size: 24
35659156 CAATCGATTT
35659166 CGCACACATAGTGCTATTCAAATC
1 CGCACACATAGTGCTATTCAAATC
* * *
35659190 CGCACACTTAGTGCCATGT--AACC
1 CGCACACATAGTGCTAT-TCAAATC
* **
35659213 CGTACACATAGTGCCT-TAGAAATC
1 CGCACACATAGTG-CTATTCAAATC
* * ** *
35659237 CACACAC-TCGTATTAACATTCGAATC
1 CGCACACATAGTGCT---ATTCAAATC
* *
35659263 AGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATC
* *
35659287 CGCACACATAGTACCATTCAAAATC
1 CGCACACATAGTGCTATTC-AAATC
* *
35659312 TGCACACTTAGTGC
1 CGCACACATAGTGC
35659326 CAATGTCATT
Statistics
Matches: 96, Mismatches: 30, Indels: 19
0.66 0.21 0.13
Matches are distributed among these distances:
22 1 0.01
23 18 0.19
24 47 0.49
25 16 0.17
26 10 0.10
27 4 0.04
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (24 bp):
CGCACACATAGTGCTATTCAAATC
Found at i:35659788 original size:2 final size:2
Alignment explanation
Indices: 35659776--35659816 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
35659766 TGAACACATC
*
35659776 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35659817 GTCTATACGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:35668046 original size:40 final size:40
Alignment explanation
Indices: 35667960--35668110 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
35667950 AAATTGAATG
* * ** *
35667960 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
35667999 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * * *
35668039 ATGTCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* *
35668079 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35668111 ACGTGATTAC
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 16 0.18
40 71 0.80
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:35669830 original size:24 final size:24
Alignment explanation
Indices: 35669802--35669986 Score: 151
Period size: 24 Copynumber: 7.6 Consensus size: 24
35669792 CAATCGATTT
35669802 CGCACACATAGTGCTATTCAAATC
1 CGCACACATAGTGCTATTCAAATC
* * * * * *
35669826 TGCACACTTAGTGCCATGCTAACC
1 CGCACACATAGTGCTATTCAAATC
**
35669850 CGCACACATAGTGCCT-TAGAAATC
1 CGCACACATAGTG-CTATTCAAATC
* * * *
35669874 CACACACTCGTATTGAC-ATTCAAATT
1 CGCACA--CATAGTG-CTATTCAAATC
* *
35669900 AGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATC
*
35669924 CGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATC
35669948 CGCACACATAGTGGC-ATTCAAAATC
1 CGCACACATAGT-GCTATTC-AAATC
*
35669973 CGCACACTTAGTGC
1 CGCACACATAGTGC
35669987 CAATATCATT
Statistics
Matches: 125, Mismatches: 29, Indels: 14
0.74 0.17 0.08
Matches are distributed among these distances:
23 1 0.01
24 91 0.73
25 18 0.14
26 15 0.12
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (24 bp):
CGCACACATAGTGCTATTCAAATC
Found at i:35669855 original size:48 final size:47
Alignment explanation
Indices: 35669802--35669988 Score: 171
Period size: 48 Copynumber: 3.9 Consensus size: 47
35669792 CAATCGATTT
* * *
35669802 CGCACACATAGTGCTATTCAAATCTGCACACTTAGTGCCATGCTAACC
1 CGCACACATAGTGCTATTCAAATCCGCACACTTAGTGCCATTC-AATC
** * * * *
35669850 CGCACACATAGTGCCT-TAGAAATCCACACACTCGTATTGACATTCAAATT
1 CGCACACATAGTG-CTATTCAAATCCGCACACT--TAGTGCCATTC-AATC
* * * *
35669900 AGCACACATAGTGCTATTCAATTCCGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATCCGCACACTTAGTGCCATTCAA-TC
35669948 CGCACACATAGTGGC-ATTCAAAATCCGCACACTTAGTGCCA
1 CGCACACATAGT-GCTATTC-AAATCCGCACACTTAGTGCCA
35669989 ATATCATTTC
Statistics
Matches: 108, Mismatches: 24, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
47 2 0.02
48 49 0.45
49 24 0.22
50 33 0.31
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (47 bp):
CGCACACATAGTGCTATTCAAATCCGCACACTTAGTGCCATTCAATC
Found at i:35673421 original size:24 final size:24
Alignment explanation
Indices: 35673394--35673576 Score: 285
Period size: 24 Copynumber: 7.6 Consensus size: 24
35673384 CTTATTATGT
* * *
35673394 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
35673418 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35673442 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35673466 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
35673490 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
35673514 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35673538 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
35673562 TCGCACACATAGTGC
1 TCGCACACATAGTGC
35673577 ATTTGAGATA
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 150 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:35673431 original size:48 final size:47
Alignment explanation
Indices: 35673372--35673576 Score: 218
Period size: 48 Copynumber: 4.3 Consensus size: 47
35673362 ACCGAATGTG
* * * *
35673372 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTA-TATGATCGCACACATAGTGCCATAGTAAATC
* * *
35673420 GCACACGTAGTGC-TATAGTAAATCGCACACTTAGTGCCATAGTAAATC
1 GCACACATAGTGCTTATA-T-GATCGCACACATAGTGCCATAGTAAATC
* *
35673468 GCACACATAGTGC-CATAGTGAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTGCTTATA-TG-ATCGCACACATAGTGCCATAGTAAATC
* * *
35673516 GCACACATAGTGC-CATAGTAAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTGCTTATA-T-GATCGCACACATAGTGCCATAGTAAATC
35673564 GCACACATAGTGC
1 GCACACATAGTGC
35673577 ATTTGAGATA
Statistics
Matches: 140, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 135 0.96
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (47 bp):
GCACACATAGTGCTTATATGATCGCACACATAGTGCCATAGTAAATC
Found at i:35674029 original size:2 final size:2
Alignment explanation
Indices: 35674022--35674052 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35674012 ATGAATGGGC
35674022 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35674053 CATACCCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35681145 original size:24 final size:24
Alignment explanation
Indices: 35681118--35681300 Score: 285
Period size: 24 Copynumber: 7.6 Consensus size: 24
35681108 CTTATTATGT
* * *
35681118 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
35681142 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35681166 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35681190 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
35681214 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
35681238 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35681262 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
35681286 TCGCACACATAGTGC
1 TCGCACACATAGTGC
35681301 ATTTGAGATA
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 150 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:35681155 original size:48 final size:47
Alignment explanation
Indices: 35681096--35681300 Score: 218
Period size: 48 Copynumber: 4.3 Consensus size: 47
35681086 ACCGAATGTG
* * * *
35681096 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTA-TATGATCGCACACATAGTGCCATAGTAAATC
* * *
35681144 GCACACGTAGTGC-TATAGTAAATCGCACACTTAGTGCCATAGTAAATC
1 GCACACATAGTGCTTATA-T-GATCGCACACATAGTGCCATAGTAAATC
* *
35681192 GCACACATAGTGC-CATAGTGAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTGCTTATA-TG-ATCGCACACATAGTGCCATAGTAAATC
* * *
35681240 GCACACATAGTGC-CATAGTAAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTGCTTATA-T-GATCGCACACATAGTGCCATAGTAAATC
35681288 GCACACATAGTGC
1 GCACACATAGTGC
35681301 ATTTGAGATA
Statistics
Matches: 140, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 135 0.96
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (47 bp):
GCACACATAGTGCTTATATGATCGCACACATAGTGCCATAGTAAATC
Found at i:35681757 original size:2 final size:2
Alignment explanation
Indices: 35681750--35681777 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35681740 ATGGGCATAC
35681750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35681778 CATACCCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35683257 original size:25 final size:23
Alignment explanation
Indices: 35683209--35683260 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
35683199 TTGGCTTGAA
*
35683209 TATGGATATGTTTATGAATGAGT
1 TATGGATAAGTTTATGAATGAGT
35683232 TATGGTATAAGTTATATG-ATGAAGT
1 TATGG-ATAAGTT-TATGAATG-AGT
35683257 TATG
1 TATG
35683261 TTTATGACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 5 0.20
24 9 0.36
25 11 0.44
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (23 bp):
TATGGATAAGTTTATGAATGAGT
Found at i:35690032 original size:42 final size:41
Alignment explanation
Indices: 35689965--35690080 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 41
35689955 GTTTTACGTA
* *
35689965 TAAGACCATGTCTGGGAC-ATCGGCATCGTATCTGATTTCATG
1 TAAGACCCTGTCTGGGACGAT-GGCATCGTAT-TGATTACATG
* *
35690007 TAAGACCCTGTCTGGGACGGTGGCATCGAAGATTGATTACATG
1 TAAGACCCTGTCTGGGACGATGGCATCG--TATTGATTACATG
* * *
35690050 TAAGACCAC-GTCCGGGACGTTGGCATTGTAT
1 TAAGACC-CTGTCTGGGACGATGGCATCGTAT
35690081 ATGTTCTCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
41 2 0.03
42 24 0.39
43 33 0.53
44 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
TAAGACCCTGTCTGGGACGATGGCATCGTATTGATTACATG
Found at i:35696273 original size:27 final size:26
Alignment explanation
Indices: 35696229--35696280 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35696219 CTCGCTGCAA
*
35696229 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
35696256 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
35696281 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:35698154 original size:17 final size:17
Alignment explanation
Indices: 35698132--35698165 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35698122 GACAATGTCG
35698132 ATGGTTAGAATTGTTAA
1 ATGGTTAGAATTGTTAA
35698149 ATGGTTAGAATTGTTAA
1 ATGGTTAGAATTGTTAA
35698166 GAGACTACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
ATGGTTAGAATTGTTAA
Found at i:35703200 original size:43 final size:43
Alignment explanation
Indices: 35703118--35703269 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 43
35703108 ATACAATGCC
* ** * *
35703118 ATATCCCAGATATGGTCTTACATGTTATCACATATCGATGTCG
1 ATATCCCAGATATGGTCTTACACGAAATCAAATAACGATGTCG
* * *
35703161 ATATCCTAGCTATGGTCTTACACGAAATCAAATAACGATG-CTA
1 ATATCCCAGATATGGTCTTACACGAAATCAAATAACGATGTC-G
* * * * * *
35703204 ATGTCCCAGACATGGTCTTACAC-ATAATCACATAATGATGCCA
1 ATATCCCAGATATGGTCTTACACGA-AATCAAATAACGATGTCG
* *
35703247 ATGTCCCAGACATGGTCTTACAC
1 ATATCCCAGATATGGTCTTACAC
35703270 ATGAAAACAT
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
42 2 0.02
43 89 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGAAATCAAATAACGATGTCG
Found at i:35703270 original size:43 final size:43
Alignment explanation
Indices: 35703172--35703271 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
35703162 TATCCTAGCT
*
35703172 ATGGTCTTACACGA-AATCAAATAACGATGCTAATGTCCCAGAC
1 ATGGTCTTACAC-ATAATCAAATAACGATGCCAATGTCCCAGAC
* *
35703215 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCAAATAACGATGCCAATGTCCCAGAC
35703258 ATGGTCTTACACAT
1 ATGGTCTTACACAT
35703272 GAAAACATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
42 1 0.02
43 52 0.98
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACATAATCAAATAACGATGCCAATGTCCCAGAC
Found at i:35707539 original size:27 final size:27
Alignment explanation
Indices: 35707499--35707610 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
35707489 AGGAAGCGTC
*
35707499 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
35707526 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
35707553 CTGATGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
35707581 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
35707607 CTGG
1 CTGG
35707611 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.66
28 17 0.23
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:35707605 original size:54 final size:54
Alignment explanation
Indices: 35707503--35707609 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
35707493 AGCGTCCTGG
* *
35707503 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTGA
1 TGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTGA
* * *
35707557 TGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 TGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCTG
35707610 GCAGCCATGC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
TGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTGA
Found at i:35715573 original size:46 final size:46
Alignment explanation
Indices: 35715520--35715736 Score: 398
Period size: 46 Copynumber: 4.7 Consensus size: 46
35715510 AGTGTGTTCT
35715520 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
35715566 CTGATATGAAATATGTAAGACCATAGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
35715612 CTGATATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
35715658 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
35715704 CTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAG
35715737 TGTAACGCCC
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 163 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:35717155 original size:93 final size:93
Alignment explanation
Indices: 35717047--35717310 Score: 420
Period size: 93 Copynumber: 2.8 Consensus size: 93
35717037 CCCATAAGCA
* * * *
35717047 AACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
35717112 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* * *
35717140 AACTCAGACTCAACTCAACGAGTTTGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
35717205 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* * * *
35717233 AACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAATGAACTCAGACACAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
35717298 GAGTTCGGATGCC
66 GAGCTCGGATGCC
35717311 CAAATATCCT
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 156 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:35717156 original size:47 final size:47
Alignment explanation
Indices: 35717092--35717260 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
35717082 ATCCATAAGT
35717092 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * * ***
35717139 GAACTCAGACTCAACTCAACGAGTTTGAACATTCGC-A--TCCATAAGT-
1 GAACTCAGACTCAACTCAACGAGCTCG--GATGC-CTAGTTACATCTCTC
*
35717185 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
35717232 GAACTCGGACTCAACTTAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGCTCGGA
35717261 CATTCGCATC
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 29 0.30
47 57 0.59
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35717306 original size:46 final size:46
Alignment explanation
Indices: 35717047--35717306 Score: 199
Period size: 46 Copynumber: 5.6 Consensus size: 46
35717037 CCCATAAGCA
* * * *
35717047 AACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTG
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTG
* * **
35717093 AACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTCG
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCATAACT-G
* * * *
35717140 AACTCAGACTCAACTCAACGAGTTTGAACATTCGCATCCATAAGTG
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTG
* * * **
35717186 AACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTCG
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCATAACT-G
* * * *
35717233 AACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAATG
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTG
* *
35717279 AACTCAGACACAACTCAACGAGTTCGGA
1 AACTCAGACTCAACTCAACGAGCTCGGA
35717307 TGCCCAAATA
Statistics
Matches: 166, Mismatches: 34, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
46 86 0.52
47 61 0.37
49 8 0.05
50 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTG
Found at i:35718286 original size:46 final size:46
Alignment explanation
Indices: 35718219--35718309 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
35718209 GTAAGATTCG
* *
35718219 GACATTCGTATCCATAAGTGAACTTGGACTCAACTCAACGAGTTCA
1 GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCA
35718265 GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
35718310 GGATGCCCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (46 bp):
GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCA
Found at i:35719212 original size:45 final size:46
Alignment explanation
Indices: 35719137--35719233 Score: 108
Period size: 45 Copynumber: 2.1 Consensus size: 46
35719127 GGATATTACA
* ** * *
35719137 GAAAGATACCATGGCAACGTGTTATGAAATGAACAAGACTATGGTT
1 GAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATAGTT
**
35719183 GAAAGATA-CATGGCAACATGACA-GAAAATGAGTAAGACCATAGTT
1 GAAAGATACCATGGCAACATGACATG-AAATGAACAAGACCATAGTT
35719228 GAAAGA
1 GAAAGA
35719234 CATTATGGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 1 0.02
45 34 0.79
46 8 0.19
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (46 bp):
GAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATAGTT
Found at i:35720759 original size:43 final size:43
Alignment explanation
Indices: 35720681--35720787 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
35720671 TAGCCTAGCT
* *
35720681 ATGGTCTTACACGAAAT-AAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGAC
* *
35720723 ATGGTGTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGAC
* *
35720766 ATGGTCTTACACATAAACACAT
1 ATGGTCTTACACGTAATCACAT
35720788 CTCGTTAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 15 0.26
43 42 0.74
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGAC
Found at i:35732840 original size:58 final size:58
Alignment explanation
Indices: 35732750--35732867 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
35732740 ATTCACAAAG
*
35732750 GAAAATTCTTACACTTTTGTGCATCAAAGAATGTTATAGCTTGGTTAAGTGCAAGAGT
1 GAAAATTCTTACACTTTTGTGCATCAAAGAATGCTATAGCTTGGTTAAGTGCAAGAGT
35732808 GAAAATTCTTACACTTTTGTGCATCAAAGAATGCTATAGCTTGGTTAAGTGCAAGAGT
1 GAAAATTCTTACACTTTTGTGCATCAAAGAATGCTATAGCTTGGTTAAGTGCAAGAGT
35732866 GA
1 GA
35732868 GATTCTTGGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (58 bp):
GAAAATTCTTACACTTTTGTGCATCAAAGAATGCTATAGCTTGGTTAAGTGCAAGAGT
Found at i:35733328 original size:12 final size:12
Alignment explanation
Indices: 35733311--35733335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35733301 AACCCAGAGA
35733311 TATGGACAAGCC
1 TATGGACAAGCC
35733323 TATGGACAAGCC
1 TATGGACAAGCC
35733335 T
1 T
35733336 CTGCCGGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (12 bp):
TATGGACAAGCC
Found at i:35734042 original size:2 final size:2
Alignment explanation
Indices: 35734035--35734059 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35734025 TCAAAATCTT
35734035 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35734060 GTGTGTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35734526 original size:20 final size:20
Alignment explanation
Indices: 35734501--35734560 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
35734491 TTATTAAAAA
35734501 TTAGAAAAAAATAAAAAATT
1 TTAGAAAAAAATAAAAAATT
* **
35734521 TTAG-AAAAATTATTAAATT
1 TTAGAAAAAAATAAAAAATT
35734540 TTA-ATAAAAATATAAAAAATT
1 TTAGA-AAAAA-ATAAAAAATT
35734561 AAAATTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 15 0.48
20 9 0.29
21 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TTAGAAAAAAATAAAAAATT
Found at i:35734562 original size:19 final size:18
Alignment explanation
Indices: 35734496--35734564 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
35734486 TGCTCTTATT
35734496 AAAAATTAGAAAAAA-ATA
1 AAAAATTA-AAAAAATATA
* *
35734514 AAAAATTTTAGAAAAATTATT
1 AAAAA--TTA-AAAAAATATA
**
35734535 AAATTTTAATAAAAATATA
1 AAAAATTAA-AAAAATATA
35734554 AAAAATTAAAA
1 AAAAATTAAAA
35734565 TTTATTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
18 8 0.21
19 17 0.44
20 9 0.23
21 5 0.13
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAATTAAAAAAATATA
Found at i:35734867 original size:9 final size:9
Alignment explanation
Indices: 35734853--35734899 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
35734843 CTTTATAGAA
35734853 TTTTATAAT
1 TTTTATAAT
35734862 TTTTAT-AT
1 TTTTATAAT
*
35734870 TTCTAT-AT
1 TTTTATAAT
35734878 ATTTTATAAT
1 -TTTTATAAT
*
35734888 TTTTACAAT
1 TTTTATAAT
35734897 TTT
1 TTT
35734900 AAATAAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 9 0.27
9 22 0.67
10 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:35735000 original size:86 final size:87
Alignment explanation
Indices: 35734899--35735109 Score: 212
Period size: 87 Copynumber: 2.3 Consensus size: 87
35734889 TTTACAATTT
* ** *
35734899 TAAATAAAAACAGGGGCTTAATTACTATTTTTGAAAATG-TTTG-AGGGTCTTTTTGATACATTT
1 TAAA-AAAAA-AGGGGCTTAATTATTATTTTTGAAAA-GATTTGAAGACT-TTTTTAATACATTT
* *
35734962 TAAAAGTTCAAGTACCCAATTGAGTG
62 TAAAAGTTCAACTACCCAAATGAGTG
* * * *
35734988 -AAAAAAAAAGGGGCTTAATTGTTTTTCTTTGAAAAGATTTGAAGACTTTTTTAATATATTTTGA
1 TAAAAAAAAAGGGGCTTAATTATTATT-TTTGAAAAGATTTGAAGACTTTTTTAATACATTTTAA
*
35735052 AAGTTGAACTACCCAAATGAGTG
65 AAGTTCAACTACCCAAATGAGTG
35735075 TAAAGTAAAAAAGTAGGAGCTTAATTATTATTTTT
1 TAAA--AAAAAAG--GG-GCTTAATTATTATTTTT
35735110 TTAAAAGTTT
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
86 16 0.16
87 51 0.51
88 9 0.09
90 7 0.07
92 5 0.05
93 12 0.12
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (87 bp):
TAAAAAAAAAGGGGCTTAATTATTATTTTTGAAAAGATTTGAAGACTTTTTTAATACATTTTAAA
AGTTCAACTACCCAAATGAGTG
Found at i:35735600 original size:19 final size:19
Alignment explanation
Indices: 35735573--35735612 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
35735563 CTTAAAAAGT
* *
35735573 AAAATTTAAATTTTTCTTA
1 AAAAATTAAATTATTCTTA
35735592 AAAAATTAAATTATTCTTA
1 AAAAATTAAATTATTCTTA
35735611 AA
1 AA
35735613 CAAACAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAAATTAAATTATTCTTA
Found at i:35735621 original size:19 final size:19
Alignment explanation
Indices: 35735580--35735622 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
35735570 AGTAAAATTT
* *
35735580 AAATTTTTCTTAAAAAATT
1 AAATTATTCTTAAAAAATC
35735599 AAATTATTCTTAAACAAA-C
1 AAATTATTCTTAAA-AAATC
35735618 AAATT
1 AAATT
35735623 TAAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTATTCTTAAAAAATC
Found at i:35736396 original size:17 final size:18
Alignment explanation
Indices: 35736355--35736396 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
35736345 TACTAAATAT
35736355 TTTATTTTATTTTTAATC
1 TTTATTTTATTTTTAATC
*
35736373 ATT-TTTTATTTTTAA-C
1 TTTATTTTATTTTTAATC
35736389 TTTATTTT
1 TTTATTTT
35736397 TTTAGTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 16 0.76
18 2 0.10
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTATTTTTAATC
Found at i:35738621 original size:48 final size:48
Alignment explanation
Indices: 35738542--35738803 Score: 289
Period size: 48 Copynumber: 5.5 Consensus size: 48
35738532 AGGAGATATA
* * * * *
35738542 TTGATTTGGCTT-TGGCCATGATATTGACACTTCAGCTGCGAGTTACT
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
* *
35738589 TTGATTTGGCTTTGGGCCATGATATCGGCACTTTGGGTGCGAGTTACT
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
*
35738637 TTGATTTGGCTTCGGGCCATGATATCAGCACTTCGGGTGCGAGTTACT
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
* * *
35738685 TTGATTTGGCTTCAGGCCATGATATCGGCACCTCGGGTGCAAGCTTCAC-
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAG-TT-ACT
* * * ** * *
35738734 -TGATTTGGCTACGGGCAATGAAATTAGCACTTTGGGTGCGAGATA-T
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
* *
35738780 ATTGAGTTGGCTTCGGGTCATGAT
1 -TTGATTTGGCTTCGGGCCATGAT
35738804 GTGAGCACTT
Statistics
Matches: 181, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
46 1 0.01
47 13 0.07
48 163 0.90
49 2 0.01
50 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.34
Consensus pattern (48 bp):
TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
Found at i:35741425 original size:26 final size:26
Alignment explanation
Indices: 35741389--35741441 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
35741379 TTAGCTGAGA
35741389 AAGACAAATTCCAAAATGTAAGACCG
1 AAGACAAATTCCAAAATGTAAGACCG
35741415 AAGACAAATTCCAAAATGTAAGACCG
1 AAGACAAATTCCAAAATGTAAGACCG
35741441 A
1 A
35741442 GTAACATAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.19, G:0.15, T:0.15
Consensus pattern (26 bp):
AAGACAAATTCCAAAATGTAAGACCG
Found at i:35745630 original size:48 final size:48
Alignment explanation
Indices: 35745559--35745821 Score: 255
Period size: 48 Copynumber: 5.5 Consensus size: 48
35745549 AGGTGATATA
* * *
35745559 TTGATTTGCCTTCAGGCCATGATATCCGCACTTCGGGTGCGAGTTACT
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
*
35745607 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGTTACT
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
* * * *
35745655 TTGATTTGACTTCCGGCCATGATATCGGTACTTCGGGTGTGAGTTACT
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
* * * * * *
35745703 TTGATTTTGATTCGGGCCATGATATCGGAACCTAGGGTACGAGATTCAC-
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAG-TT-ACT
* * ** * * *
35745752 -TGATTT-GATTATGGGCCATGATATTAGCACTTTGAGTGCGAGATA-T
1 TTGATTTGGCTT-CGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
* *
35745798 ATTGAGTTGGCTTTGGGCCATGAT
1 -TTGATTTGGCTTCGGGCCATGAT
35745822 GTGAGAACTT
Statistics
Matches: 179, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
46 1 0.01
47 5 0.03
48 166 0.93
49 5 0.03
50 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (48 bp):
TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGTTACT
Found at i:35747494 original size:16 final size:16
Alignment explanation
Indices: 35747473--35747505 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35747463 TCTTATTCCT
*
35747473 TTGCTACTATAGAATA
1 TTGCTACTATAAAATA
35747489 TTGCTACTATAAAATA
1 TTGCTACTATAAAATA
35747505 T
1 T
35747506 AGAATACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TTGCTACTATAAAATA
Found at i:35751114 original size:25 final size:25
Alignment explanation
Indices: 35751085--35751133 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
35751075 TTATAATATG
* * *
35751085 AAAATAACCGTTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
35751110 AAAATGACCATTATACCCCTAGGT
1 AAAATAACCATTATACCCCTAGGT
35751134 TTAAATATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:35751215 original size:11 final size:11
Alignment explanation
Indices: 35751179--35751234 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
35751169 CATGGTATGT
35751179 ATGATATGCAC
1 ATGATATGCAC
* *
35751190 ATGACATG--T
1 ATGATATGCAC
35751199 ATGATATGCAC
1 ATGATATGCAC
*
35751210 ATGATATG--T
1 ATGATATGCAC
35751219 ATGATATGCAC
1 ATGATATGCAC
35751230 ATGAT
1 ATGAT
35751235 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:35751234 original size:20 final size:20
Alignment explanation
Indices: 35751168--35751234 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
35751158 ATTTTGATAA
*
35751168 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
35751188 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
35751208 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
35751228 ACATGAT
1 ACATGAT
35751235 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:35762500 original size:46 final size:46
Alignment explanation
Indices: 35762440--35762608 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 46
35762430 GGGTATCCGA
*
35762440 TCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAAC
** * * * * * * * * *
35762486 TCGTTGAGTTGAGTCTAAGTTC-GTGAAATGTA-ACTAGGCATCTGAAT
1 TCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCCGAAC
* *
35762533 TTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAAC
*
35762579 TCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
35762609 GCGGGTTACA
Statistics
Matches: 90, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
45 2 0.02
46 56 0.62
47 31 0.34
48 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAAC
Found at i:35765615 original size:15 final size:15
Alignment explanation
Indices: 35765578--35765616 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
35765568 TATCATATCT
35765578 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
* *
35765593 TAGATTTCTTTATTC
1 TGGGTTTCTTTATTC
35765608 TGGGTTTCT
1 TGGGTTTCT
35765617 CAATCTTGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.18, T:0.59
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:35765630 original size:15 final size:15
Alignment explanation
Indices: 35765612--35765660 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
35765602 TTATTCTGGG
35765612 TTTCTCAATCTTGGA
1 TTTCTCAATCTTGGA
** * *
35765627 TTTCTTTAT-TCGGT
1 TTTCTCAATCTTGGA
35765641 TTTCTCAATCTTGGA
1 TTTCTCAATCTTGGA
35765656 TTTCT
1 TTTCT
35765661 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.14, C:0.18, G:0.12, T:0.55
Consensus pattern (15 bp):
TTTCTCAATCTTGGA
Found at i:35765653 original size:29 final size:29
Alignment explanation
Indices: 35765595--35765675 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
35765585 CTTTATTCTA
*
35765595 GATTTCTTTATTCTGGGTTTCTCAATCTTG
1 GATTTCTTTATTC-GGTTTTCTCAATCTTG
35765625 GATTTCTTTATTCGGTTTTCTCAATCTTG
1 GATTTCTTTATTCGGTTTTCTCAATCTTG
35765654 GATTTCTTTATTCGGTTTTCTC
1 GATTTCTTTATTCGGTTTTCTC
35765676 GTTATCTTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 37 0.74
30 13 0.26
ACGTcount: A:0.12, C:0.17, G:0.15, T:0.56
Consensus pattern (29 bp):
GATTTCTTTATTCGGTTTTCTCAATCTTG
Found at i:35768174 original size:27 final size:27
Alignment explanation
Indices: 35768133--35768186 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
35768123 TGTCATGTGA
* *
35768133 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
35768160 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
35768187 GGTTGTATGA
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:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:35768522 original size:49 final size:50
Alignment explanation
Indices: 35768433--35768677 Score: 208
Period size: 49 Copynumber: 4.9 Consensus size: 50
35768423 TCTATTGTGG
* * * * * * *
35768433 GGTCACGTGTGTAGTGCTAATTGCCGGTTACTACGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTA
* * * * * *
35768482 GGTCGCATATGTAGTAATAAGTGCAAGCTACTATGCGTACCCA-ATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAA-TTA
* * * * **
35768533 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTA
* * ** * *
35768583 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAAATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTA
* *
35768632 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
35768678 GCCTTGTCTA
Statistics
Matches: 154, Mismatches: 38, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
49 70 0.45
50 51 0.33
51 33 0.21
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTA
Found at i:35775531 original size:41 final size:40
Alignment explanation
Indices: 35775470--35775548 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 40
35775460 ATGGTTTTTA
35775470 GACATGGGCTGAGACATAGGC-GTGTCATGGCCGTGTGAGG
1 GACATGGGCTGAGACATAGGCAGTGTCA-GGCCGTGTGAGG
35775510 GACATGGGCCATG-GACATAGGCATGTGTCAGGCCGTGTG
1 GACATGGG-C-TGAGACATAGGCA-GTGTCAGGCCGTGTG
35775549 GAAACCCCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
40 8 0.23
41 10 0.29
42 11 0.31
43 6 0.17
ACGTcount: A:0.20, C:0.19, G:0.41, T:0.20
Consensus pattern (40 bp):
GACATGGGCTGAGACATAGGCAGTGTCAGGCCGTGTGAGG
Found at i:35780954 original size:27 final size:27
Alignment explanation
Indices: 35780904--35780959 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
35780894 CTATGTGCTT
* * *
35780904 ATCATATTTATTGATGACTCCGTGTCG
1 ATCATATTTACTCATGACTCCGTGCCG
* *
35780931 ATCATATTTACTCATGGCTGCGTGCCG
1 ATCATATTTACTCATGACTCCGTGCCG
35780958 AT
1 AT
35780960 TATGTTGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
ATCATATTTACTCATGACTCCGTGCCG
Found at i:35782327 original size:30 final size:30
Alignment explanation
Indices: 35782293--35782350 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
35782283 CCGAGCCTAG
35782293 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * * *
35782323 GGGCAAAATTGTAATTTTTCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
35782351 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:35788583 original size:40 final size:40
Alignment explanation
Indices: 35788539--35788741 Score: 214
Period size: 39 Copynumber: 5.2 Consensus size: 40
35788529 GTTCAAAACA
* * ***
35788539 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
35788579 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * * *
35788619 CCTTCGGG-CTTAGCCCGGATATCATAGCTCACACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
35788658 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
35788697 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
35788736 CCTTCG
1 CCTTCG
35788742 CATCTTTGTT
Statistics
Matches: 147, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 107 0.73
40 40 0.27
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:35788654 original size:39 final size:39
Alignment explanation
Indices: 35788569--35788741 Score: 274
Period size: 39 Copynumber: 4.4 Consensus size: 39
35788559 TATGGTAACC
* *
35788569 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
35788609 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
35788648 CACACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35788687 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
35788726 CGCACAATTGCCTTCG
1 CGCACAATTGCCTTCG
35788742 CATCTTTGTT
Statistics
Matches: 124, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 107 0.86
40 17 0.14
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:35794706 original size:40 final size:40
Alignment explanation
Indices: 35794662--35794864 Score: 196
Period size: 39 Copynumber: 5.2 Consensus size: 40
35794652 GTTCAAAACA
* * ***
35794662 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
35794702 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * * *
35794742 CCTTCGGG-CTTAGCCCGGATATCATAGCTCACACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * ** *
35794781 CCTTCAGG-CTTAGCCTGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
35794820 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
35794859 CCTTCG
1 CCTTCG
35794865 CATCTTTGTT
Statistics
Matches: 143, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 103 0.72
40 40 0.28
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:35794777 original size:39 final size:39
Alignment explanation
Indices: 35794692--35794864 Score: 256
Period size: 39 Copynumber: 4.4 Consensus size: 39
35794682 TATGGTAACC
* *
35794692 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
35794732 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * * *
35794771 CACACAATTGCCTTCAGGCTTAGCCTGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35794810 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
35794849 CGCACAATTGCCTTCG
1 CGCACAATTGCCTTCG
35794865 CATCTTTGTT
Statistics
Matches: 120, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 103 0.86
40 17 0.14
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:35799999 original size:6 final size:6
Alignment explanation
Indices: 35799980--35800048 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
35799970 AAGAAACATT
* * *
35799980 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAGA ATCAGA ATAAGT ATCAGGTA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
35800030 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
35800049 GTGAATGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 3 0.06
6 43 0.86
7 3 0.06
8 1 0.02
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:35800205 original size:27 final size:26
Alignment explanation
Indices: 35800167--35800226 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
35800157 GCGAGGCTGC
*
35800167 CAGATATTGTGA-TGAAGTCACCAGATA
1 CAGATATTGTGACT-AAGCCACCAGA-A
*
35800194 CAGATATTGTGACTAGGCCACCAGAA
1 CAGATATTGTGACTAAGCCACCAGAA
35800220 CAGATAT
1 CAGATAT
35800227 ATATATGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 8 0.27
27 21 0.70
28 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACTAAGCCACCAGAA
Found at i:35800313 original size:27 final size:26
Alignment explanation
Indices: 35800265--35800316 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35800255 ACAAGGCTGC
*
35800265 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
35800291 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
35800317 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35800333 original size:67 final size:68
Alignment explanation
Indices: 35800194--35800335 Score: 178
Period size: 67 Copynumber: 2.1 Consensus size: 68
35800184 TCACCAGATA
* *
35800194 CAGATATTGTGACTAGGCCACCAGAACAGATATATATATGTGGCAAAGCCACCAGATTGCAACAA
1 CAGATATTGTGACGAAGCCACCAGAACAG--A-ATATATGTGGCAAAGCCACCAGATTGCAACAA
*
35800259 GGCTGC
63 GGATGC
* * * * *
35800265 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGA
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCAAAGCCACCAGATTGCAACAAGGA
35800329 TGC
66 TGC
35800332 CAGA
1 CAGA
35800336 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 37 0.59
71 26 0.41
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCAAAGCCACCAGATTGCAACAAGGA
TGC
Found at i:35800624 original size:27 final size:27
Alignment explanation
Indices: 35800561--35800809 Score: 302
Period size: 27 Copynumber: 9.3 Consensus size: 27
35800551 GGGGTAAAAT
* * *
35800561 GGTAATTTTACCCCACAAGGGT-TCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35800587 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
35800614 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35800641 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35800668 GGTAATTCTACCTTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35800695 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35800722 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
35800749 GATATTTCTATCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
35800776 GGTATTTCTACCTTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
35800803 GGTAATT
1 GGTAATT
35800810 TTGTAAATCG
Statistics
Matches: 193, Mismatches: 29, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
26 19 0.10
27 174 0.90
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:35800839 original size:81 final size:82
Alignment explanation
Indices: 35800586--35800840 Score: 232
Period size: 81 Copynumber: 3.1 Consensus size: 82
35800576 CAAGGGTTCT
* * * * * *
35800586 CGGTAATTCTA-CCCTACAGGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCGGTATTTCT
1 CGGTAATTCTATCCTTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCT
** ***
35800650 ACCCTACAAGGGTATTT
66 ACAATACAAGGGTAAAA
*
35800667 CGGTAATTCTA-CCTTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
1 CGGTAATTCTATCCTTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCT
** ***
35800731 ACCCTACAAGGGTATTT
66 ACAATACAAGGGTAAAA
* * * * * *
35800748 CGATATTTCTATCC-TACAAGGGTATTTTGGTATTTCTACCTTACAAGGGTATTTTGGTAATTTT
1 CGGTAATTCTATCCTTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGT-A-TTT
* *
35800812 GTA-AAT-CGAGGGTAAAA
64 CTACAATACAAGGGTAAAA
35800829 CGGTAATTCTAT
1 CGGTAATTCTAT
35800841 AAATTAGGGG
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
81 141 0.94
82 4 0.03
83 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (82 bp):
CGGTAATTCTATCCTTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCT
ACAATACAAGGGTAAAA
Found at i:35801141 original size:27 final size:27
Alignment explanation
Indices: 35800764--35801134 Score: 323
Period size: 27 Copynumber: 13.7 Consensus size: 27
35800754 TTCTATCCTA
**
35800764 CAAGGGTATTTTGGT-ATTTCTACCTTA-
1 CAAGGGTATTTTGGTAATTT-TA-CAAAC
** *
35800791 CAAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **** * * *
35800818 CGAGGGTAAAACGGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * **
35800845 TAGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** ***
35800872 CGAGGGTATTTTAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
35800899 CGAGGGTATTTTAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
35800926 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
35800953 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
35800980 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
35801007 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
35801034 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
35801061 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
35801088 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
35801115 CAAGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
35801135 GGTAAACTAA
Statistics
Matches: 280, Mismatches: 62, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
26 1 0.00
27 275 0.98
28 4 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:35801141 original size:54 final size:54
Alignment explanation
Indices: 35800794--35801134 Score: 360
Period size: 54 Copynumber: 6.3 Consensus size: 54
35800784 TACCTTACAA
* * * ***** * * *
35800794 GGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * ** * * ** *
35800848 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAATAATTTTAC-AGGTCG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * * ** * *
35800901 AGGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
35800956 GGGTATTTTGATAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
35801010 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * *
35801064 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
35801118 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
35801135 GGTAAACTAA
Statistics
Matches: 241, Mismatches: 44, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
53 3 0.01
54 235 0.98
55 3 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
Found at i:35808494 original size:30 final size:30
Alignment explanation
Indices: 35808458--35808736 Score: 244
Period size: 30 Copynumber: 9.2 Consensus size: 30
35808448 GGTTGTCACC
*
35808458 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
* * * * *
35808488 ATCCCTTTTCATTAATTCAATGGTTGTCA-CC
1 ATCCCTTTTCA-TAATTCGATAGTCG-AAGCT
*
35808519 ATCCCTTTTCATTATTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
* * *
35808549 ATCCCTTTTCATAATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTCGATAGTCG-AAGCT
* ** *
35808579 ATCCCTTTTCATAATTAGATAACCTAAGCT
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
* * *
35808609 AACCCTTTTCATATTTTGATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
* * * *
35808639 ATCCCTTTTCATATTTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTCGATAGTCG-AAGCT
* *
35808669 ATCCCTTTTCATAATTCGACA-ACTGAAGCT
1 ATCCCTTTTCATAATTCGATAGTC-GAAGCT
*
35808699 ATACCTTTTTCATAATTCGATAG-CAGAAGCT
1 AT-CCCTTTTCATAATTCGATAGTC-GAAGCT
35808730 ATCCCTT
1 ATCCCTT
35808737 ATCGTCGGAC
Statistics
Matches: 195, Mismatches: 44, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
29 4 0.02
30 140 0.72
31 50 0.26
32 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGTCGAAGCT
Found at i:35808608 original size:60 final size:60
Alignment explanation
Indices: 35808445--35808687 Score: 274
Period size: 60 Copynumber: 4.0 Consensus size: 60
35808435 GTGGAATCAA
*
35808445 GATGGTTGTCACCATCCCTTTTCATAGTTCGATAGTCGAAGCTATCCCTTTTCATTAATTC
1 GATGGTTGTCACCATCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCA-TAATTC
* *
35808506 AATGGTTGTCACCATCCCTTTTCATTATTCGATAGTCGAAGCTATCCCTTTTCATAATTC
1 GATGGTTGTCACCATCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATAATTC
* * ** * * * *
35808566 GATGGTCGTCACCATCCCTTTTCATAATTAGATAACCTAAGCTAACCCTTTTCATATTTT
1 GATGGTTGTCACCATCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATAATTC
* * * * * * * *
35808626 GATAGTCG-AAGCTATCCCTTTTCATATTTCGATGGTCGTCA-CCATCCCTTTTCATAATTC
1 GATGGTTGTCA-CCATCCCTTTTCATAATTCGATAGTCG-AAGCTATCCCTTTTCATAATTC
35808686 GA
1 GA
35808688 CAACTGAAGC
Statistics
Matches: 153, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
59 1 0.01
60 100 0.65
61 52 0.34
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (60 bp):
GATGGTTGTCACCATCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATAATTC
Found at i:35808641 original size:90 final size:91
Alignment explanation
Indices: 35808521--35808736 Score: 323
Period size: 90 Copynumber: 2.4 Consensus size: 91
35808511 TTGTCACCAT
35808521 CCCTTTTCAT-TATTCGATAGTCGAAGCTATCCCTTTTCATAATTCGATGGTCGTCACCATCCCT
1 CCCTTTTCATAT-TTCGATAGTCGAAGCTATCCCTTTTCATAATTCGATGGTCGTCACCATCCCT
*
35808585 TTTCATAATTAGATAACCT-AAGCTA-A
65 TTTCATAATTAGACAA-CTGAAGCTATA
* *
35808611 CCCTTTTCATATTTTGATAGTCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCACCATCCCTT
1 CCCTTTTCATATTTCGATAGTCGAAGCTATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTT
*
35808676 TTCATAATTCGACAACTGAAGCTATA
66 TTCATAATTAGACAACTGAAGCTATA
* *
35808702 CCTTTTTCATAATTCGATAG-CAGAAGCTATCCCTT
1 CCCTTTTCATATTTCGATAGTC-GAAGCTATCCCTT
35808737 ATCGTCGGAC
Statistics
Matches: 115, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
89 2 0.02
90 81 0.70
91 32 0.28
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (91 bp):
CCCTTTTCATATTTCGATAGTCGAAGCTATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTT
TTCATAATTAGACAACTGAAGCTATA
Found at i:35808712 original size:31 final size:31
Alignment explanation
Indices: 35808674--35808736 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
35808664 TCACCATCCC
*
35808674 TTTTCATAATTCGACAACTGAAGCTATACCT
1 TTTTCATAATTCGACAACAGAAGCTATACCT
* * *
35808705 TTTTCATAATTCGATAGCAGAAGCTATCCCT
1 TTTTCATAATTCGACAACAGAAGCTATACCT
35808736 T
1 T
35808737 ATCGTCGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (31 bp):
TTTTCATAATTCGACAACAGAAGCTATACCT
Found at i:35811592 original size:46 final size:46
Alignment explanation
Indices: 35811534--35811656 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
35811524 GATATTTGGG
* *
35811534 CATCCAAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
35811580 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
35811626 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
35811657 GTGAAATGTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:35818512 original size:18 final size:18
Alignment explanation
Indices: 35818489--35818526 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
35818479 AAAAATCATT
35818489 TAACAAC-ATACTTATAAA
1 TAACAACAATACTTA-AAA
35818507 TAACAACTAATACTTAAAA
1 TAACAAC-AATACTTAAAA
35818526 T
1 T
35818527 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAACAATACTTAAAA
Found at i:35822015 original size:27 final size:26
Alignment explanation
Indices: 35821974--35822088 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
35821964 AGCATGGCTG
* ** *
35821974 CCAGAACAGTTATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
35822000 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
35822027 CTAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
35822054 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
35822082 CCAGAAC
1 CCAGAAC
35822089 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.15
27 40 0.51
28 27 0.34
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:35822071 original size:28 final size:28
Alignment explanation
Indices: 35821998--35822087 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
35821988 GTGATAGAGT
* *
35821998 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
35822025 CACTAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
35822052 CACCAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
35822080 CACCAGAA
1 CACCAGAA
35822088 CGCTTCCTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 7 0.12
27 21 0.37
28 29 0.51
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:35824472 original size:41 final size:42
Alignment explanation
Indices: 35824373--35824487 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
35824363 AGCTCGTACA
* * * *
35824373 ATGCCAACGTCCCAGATGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAATGTCCCAGATGTGGTCTTACACGAAATCAAATA-CG
* *
35824416 ATGCCACTATCCCAGATAG-GGTCTTACACGAAATCAAATA-G
1 ATGCCAATGTCCCAGAT-GTGGTCTTACACGAAATCAAATACG
*
35824457 ATGCCAATGTCCCAGACGTGGTCTTACACGA
1 ATGCCAATGTCCCAGATGTGGTCTTACACGA
35824488 TAACTCATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
40 1 0.02
41 27 0.44
43 32 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGATGTGGTCTTACACGAAATCAAATACG
Found at i:35826593 original size:29 final size:28
Alignment explanation
Indices: 35826536--35826591 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
35826526 TTTTAATTAA
* * *
35826536 ATGTGAATTATATATGCTGAATTGAAAT
1 ATGTAAATTATATATGCCGAAGTGAAAT
35826564 ATGTAAATGTATATATGCCGAACGTGAA
1 ATGTAAAT-TATATATGCCGAA-GTGAA
35826592 TAAGCTTGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.30
29 12 0.52
30 4 0.17
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (28 bp):
ATGTAAATTATATATGCCGAAGTGAAAT
Found at i:35830329 original size:27 final size:27
Alignment explanation
Indices: 35830293--35830585 Score: 294
Period size: 27 Copynumber: 10.9 Consensus size: 27
35830283 TTAGTTTACC
* *
35830293 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
*
35830320 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
35830347 AAATTATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
35830374 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
35830401 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
35830428 AAATTAGCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
35830455 AAATTACCGAAATACCCCTCGATTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
* * *
35830483 AAATTATCGAAATA-CCTCCGATTTGCA
1 AAATTACCAAAATACCCT-CGATTTGTA
** *
35830510 AAATTACTGAAATATCCT-GATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
35830536 AAATTACTAAAATACCTTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
35830563 AAATTACCAAAGTACCC-CGATTT
1 AAATTACCAAAATACCCTCGATTT
35830586 ACAGAATTAC
Statistics
Matches: 231, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
26 34 0.15
27 168 0.73
28 28 0.12
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:35830428 original size:81 final size:80
Alignment explanation
Indices: 35830293--35830578 Score: 358
Period size: 81 Copynumber: 3.5 Consensus size: 80
35830283 TTAGTTTACC
* * *
35830293 AAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCTCTGGTTTGTAAAATTA-CAAA
*
35830358 ATACCCCTGGTTTGTA
65 ATACCCCTGATTTGTA
* *
35830374 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTCTGGTTTGTAAAATTAGCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCTCTGGTTTGTAAAATTA-CAAA
*
35830439 ATACCCCTAATTTGTA
65 ATACCCCTGATTTGTA
* * * * * * *
35830455 AAATTACCGAAATACCCCTCGATTTGTAAAATTATCGAAATACCTCCGATTTGCAAAATTACTGA
1 AAATTACCAAAATA-CCCTCGATTTGTAAAATTACCAAAATACCTCTGGTTTGTAAAATTAC-AA
*
35830520 AATA-TCCTGATTTGTA
64 AATACCCCTGATTTGTA
* * * *
35830536 AAATTACTAAAATACCTTCGACTTGTAAAATTACCAAAGTACC
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACC
35830579 CCGATTTACA
Statistics
Matches: 177, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
80 24 0.14
81 109 0.62
82 44 0.25
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (80 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCTCTGGTTTGTAAAATTACAAAA
TACCCCTGATTTGTA
Found at i:35830647 original size:27 final size:27
Alignment explanation
Indices: 35830617--35830812 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
35830607 TGATTTACAA
* ** *
35830617 AATTACCGAAACACCTTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35830644 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
35830671 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
35830698 AATTATTGAAATACCCCCGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35830725 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * **
35830752 AAATACTGAAATACCCCTACAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
35830779 AATTACCGAGATA-CCCTCGTGGGGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
35830806 AATTACC
1 AATTACC
35830813 ATTTTGCCCC
Statistics
Matches: 141, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 4 0.03
27 137 0.97
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:35831482 original size:27 final size:26
Alignment explanation
Indices: 35831438--35831489 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35831428 CTCGCTGCAA
*
35831438 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
35831465 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
35831490 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:35833676 original size:27 final size:27
Alignment explanation
Indices: 35833646--35833919 Score: 313
Period size: 27 Copynumber: 10.2 Consensus size: 27
35833636 GTTTACCAAG
*
35833646 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTAAAA
* * *
35833673 TTACCAAAATACCCTTGGTTTTTAAAA
1 TTACCAAAATACCCCTGATTTGTAAAA
*
35833700 TTACCAAAATACCCTTG-TTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTAAAA
*
35833726 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTAAAA
*
35833753 TTACCAAAATACCCTTGATTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTAAAA
* * *
35833780 TTATCGAAATACCCCTGATTTGCAAAA
1 TTACCAAAATACCCCTGATTTGTAAAA
*
35833807 TTACCAAAATACCTCC-GATTTGCAAAA
1 TTACCAAAATACC-CCTGATTTGTAAAA
**
35833834 TTACTGAAATA-CCCTGATTTGTAAAA
1 TTACCAAAATACCCCTGATTTGTAAAA
* * * *
35833860 TTTCTAAAATA-CCTTCGACTTGTAAAA
1 TTACCAAAATACCCCT-GATTTGTAAAA
* * * *
35833887 TTACCAAAGTACCCCCGATTTGCAGAA
1 TTACCAAAATACCCCTGATTTGTAAAA
35833914 TTACCA
1 TTACCA
35833920 TTTTGCCCTT
Statistics
Matches: 215, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
25 2 0.01
26 47 0.22
27 162 0.75
28 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
TTACCAAAATACCCCTGATTTGTAAAA
Found at i:35833729 original size:53 final size:54
Alignment explanation
Indices: 35833646--35833919 Score: 322
Period size: 53 Copynumber: 5.1 Consensus size: 54
35833636 GTTTACCAAG
* * * * *
35833646 TTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTTTAAAA
1 TTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA
*
35833700 TTACCAAAATACCCTTG-TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA
* * *
35833753 TTACCAAAATACCCTTGATTTGTAAAATTATCGAAATACCCCTGATTTGCAAAA
1 TTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA
* * **
35833807 TTACCAAAATA-CCTCCGATTTGCAAAATTACTGAAATA-CCCTGATTTGTAAAA
1 TTACCAAAATACCCT-TGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA
* * * * * * *
35833860 TTTCTAAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTTGCAGAA
1 TTACCAAAATACCCTT-GATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA
35833914 TTACCA
1 TTACCA
35833920 TTTTGCCCTT
Statistics
Matches: 191, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 97 0.51
54 94 0.49
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
TTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA
Found at i:35833779 original size:80 final size:81
Alignment explanation
Indices: 35833646--35833919 Score: 340
Period size: 80 Copynumber: 3.4 Consensus size: 81
35833636 GTTTACCAAG
* * * *
35833646 TTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTTTAAAATTACCAAAATA
1 TTACCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATA
35833711 CCCTTG-TTTGTAAAA
66 CCCTTGATTTGTAAAA
* * * *
35833726 TTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTATCGAAATA
1 TTACCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATA
* *
35833791 CCCCTGATTTGCAAAA
66 CCCTTGATTTGTAAAA
** * *
35833807 TTACCAAAATACCTCC-GATTTGCAAAATTACTGAAATACCC-TGATTTGTAAAATTTCTAAAAT
1 TTACCAAAATACC-CCTGATTTGCAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAAT
*
35833870 A-CCTTCGACTTGTAAAA
65 ACCCTT-GATTTGTAAAA
* * *
35833887 TTACCAAAGTACCCCCGATTTGCAGAATTACCA
1 TTACCAAAATACCCCTGATTTGCAAAATTACCA
35833920 TTTTGCCCTT
Statistics
Matches: 169, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
79 5 0.03
80 120 0.71
81 42 0.25
82 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (81 bp):
TTACCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATA
CCCTTGATTTGTAAAA
Found at i:35833849 original size:107 final size:106
Alignment explanation
Indices: 35833646--35833919 Score: 311
Period size: 107 Copynumber: 2.6 Consensus size: 106
35833636 GTTTACCAAG
* * * * **
35833646 TTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTTTAAAATTACCAAAATA
1 TTACCAAAATACCCTTGATTTGTAAAATTA-CAAAATACCCCTGATTTGCAAAATTACCAAAATA
* * *
35833711 CCCTTGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAA
65 CCCTCGTTTGCAAAATTACCAAAATACCCCTGATTTGTAAAA
*
35833753 TTACCAAAATACCCTTGATTTGTAAAATTATCGAAATACCCCTGATTTGCAAAATTACCAAAATA
1 TTACCAAAATACCCTTGATTTGTAAAATTA-CAAAATACCCCTGATTTGCAAAATTACCAAAATA
**
35833818 -CCTCCGATTTGCAAAATTACTGAAATA-CCCTGATTTGTAAAA
65 CCCT-CG-TTTGCAAAATTACCAAAATACCCCTGATTTGTAAAA
* * * * * *
35833860 TTTCTAAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTTGCAGAATTACCA
1 TTACCAAAATACCCTT-GATTTGTAAAATTA-CAAAATACCCCTGATTTGCAAAATTACCA
35833920 TTTTGCCCTT
Statistics
Matches: 143, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
106 7 0.05
107 119 0.83
108 17 0.12
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (106 bp):
TTACCAAAATACCCTTGATTTGTAAAATTACAAAATACCCCTGATTTGCAAAATTACCAAAATAC
CCTCGTTTGCAAAATTACCAAAATACCCCTGATTTGTAAAA
Found at i:35833940 original size:107 final size:107
Alignment explanation
Indices: 35833646--35833954 Score: 268
Period size: 107 Copynumber: 2.9 Consensus size: 107
35833636 GTTTACCAAG
* ** ** * **
35833646 TTACCAAAATACCCCTGGTTTGTAAAATTA-CCAAAATACCCTTGGTTTTTAAAATTACCAAAAT
1 TTACCAAAATACCCTTGACTTGTAAAATTATCC-AAATACCCCCGATTTGCAAAATTACCAAAAT
*** ** ** *
35833710 ACC-CTTGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAA
65 ACCTCCAATTTACAAAATTACTGAAATA-CCCTGATTTGTAAAA
* * *
35833753 TTACCAAAATACCCTTGATTTGTAAAATTATCGAAATACCCCTGATTTGCAAAATTACCAAAATA
1 TTACCAAAATACCCTTGACTTGTAAAATTATCCAAATACCCCCGATTTGCAAAATTACCAAAATA
* *
35833818 CCTCCGATTTGCAAAATTACTGAAATACCCTGATTTGTAAAA
66 CCTCCAATTTACAAAATTACTGAAATACCCTGATTTGTAAAA
* * * ***
35833860 TTTCTAAAATA-CCTTCGACTTGTAAAATTA-CCAAAGTACCCCCGATTTGCAGAATTACCATTT
1 TTACCAAAATACCCTT-GACTTGTAAAATTATCCAAA-TACCCCCGATTTGCAAAATTACCAAAA
* * *
35833923 TGCC-CTTAATTTACAAAATTACTGAAACACCC
64 TACCTC-CAATTTACAAAATTACTGAAATACCC
35833955 CTATAGGGTA
Statistics
Matches: 169, Mismatches: 28, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
106 9 0.05
107 141 0.83
108 19 0.11
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (107 bp):
TTACCAAAATACCCTTGACTTGTAAAATTATCCAAATACCCCCGATTTGCAAAATTACCAAAATA
CCTCCAATTTACAAAATTACTGAAATACCCTGATTTGTAAAA
Done.