Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold432
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: 1706767
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 187295 characters in sequence are not A, C, G, or T
File 8 of 8
Found at i:1580764 original size:9 final size:9
Alignment explanation
Indices: 1580691--1580768 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
1580681 TCCTCCTGTC
1580691 ATCTCTCCT
1 ATCTCTCCT
* **
1580700 CTCTCTATT
1 ATCTCTCCT
1580709 ATCTCTCCT
1 ATCTCTCCT
*
1580718 GTCTCTCCT
1 ATCTCTCCT
* *
1580727 -CCTAT-C-
1 ATCTCTCCT
*
1580733 ATCCCTCCT
1 ATCTCTCCT
*
1580742 ATCTCTACT
1 ATCTCTCCT
1580751 ATCTCTCCT
1 ATCTCTCCT
*
1580760 GTCTCTCCT
1 ATCTCTCCT
1580769 CCTATCATCC
Statistics
Matches: 50, Mismatches: 16, Indels: 6
0.69 0.22 0.08
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 43 0.86
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (9 bp):
ATCTCTCCT
Found at i:1580764 original size:18 final size:18
Alignment explanation
Indices: 1580691--1580765 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 18
1580681 TCCTCCTGTC
* *
1580691 ATCTCTCCTCTCTCTATT
1 ATCTCTCCTGTCTCTACT
*
1580709 ATCTCTCCTGTCTCTCCTCCT
1 ATCTCTCCTG--TCT-CTACT
*
1580730 ATCATCCCTCCTATCTCTACT
1 ATC-T--CTCCTGTCTCTACT
1580751 ATCTCTCCTGTCTCT
1 ATCTCTCCTGTCTCT
1580766 CCTCCTATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
18 19 0.42
20 4 0.09
21 13 0.29
22 4 0.09
24 5 0.11
ACGTcount: A:0.11, C:0.43, G:0.03, T:0.44
Consensus pattern (18 bp):
ATCTCTCCTGTCTCTACT
Found at i:1586205 original size:42 final size:42
Alignment explanation
Indices: 1586150--1586268 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1586140 TTCTTCTCTC
* *
1586150 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1586192 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* * *
1586234 CTCCTCCTATCATCCCTCATCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1586269 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1586234 original size:18 final size:18
Alignment explanation
Indices: 1586165--1586235 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1586155 CCTGTCATCC
* *
1586165 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1586183 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1586205 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1586225 CTCCTGTCTCT
1 CTCCTGTCTCT
1586236 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1590045 original size:20 final size:20
Alignment explanation
Indices: 1590016--1590056 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1590006 TTTAAACAAG
*
1590016 ATTATTTAAAT-ATTAAATTT
1 ATTATATAAATAATT-AATTT
1590036 ATTATATAAATAATTAATTT
1 ATTATATAAATAATTAATTT
1590056 A
1 A
1590057 CCTATATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATATAAATAATTAATTT
Found at i:1590062 original size:21 final size:20
Alignment explanation
Indices: 1590022--1590063 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
1590012 CAAGATTATT
*
1590022 TAAATATTAAATTTATTATA
1 TAAATATTAAATTTACTATA
1590042 TAAATAATT-AATTTACCTATA
1 TAAAT-ATTAAATTTA-CTATA
1590063 T
1 T
1590064 CTGTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATATTAAATTTACTATA
Found at i:1594713 original size:28 final size:28
Alignment explanation
Indices: 1594642--1594723 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
1594632 ATTAATAAAT
* * *
1594642 AAGAAAGATC-AAGGAAGTGAAATCAAT
1 AAGAAATATCAAAGGAAATGAAATCAAC
* *
1594669 AAGAAATATGAAGGGAAATGAAAT-AAGC
1 AAGAAATATCAAAGGAAATGAAATCAA-C
1594697 AAGAAATATCAAAGGAAGA-GAAATCAA
1 AAGAAATATCAAAGGAA-ATGAAATCAA
1594724 TAAAGAAGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
27 10 0.23
28 31 0.70
29 3 0.07
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.13
Consensus pattern (28 bp):
AAGAAATATCAAAGGAAATGAAATCAAC
Found at i:1595752 original size:80 final size:80
Alignment explanation
Indices: 1595616--1595764 Score: 185
Period size: 80 Copynumber: 1.9 Consensus size: 80
1595606 ACAAAGACTC
* * * * *
1595616 TCCTAACCAATAAGGACAAGTCTATTCCTTATCCTAATCTAATTAAGACTTATCTAAAGAACTTA
1 TCCTAACCAATAAGGAAAAGTCTACTCCTTATCATAATCTAATTAAGACTTATCTAAACAAATTA
1595681 AAATCCTAAACACAA
66 AAATCCTAAACACAA
* * * *
1595696 TCCTAATCAATAAGGATAAAGTCTACTCCTTATCATAATTTGATTATA-A-TTGTCTAAACAAAT
1 TCCTAACCAATAAGGA-AAAGTCTACTCCTTATCATAATCTAATTA-AGACTTATCTAAACAAAT
1595759 TAAAAT
64 TAAAAT
1595765 TGAAAAGTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
80 32 0.55
81 25 0.43
82 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (80 bp):
TCCTAACCAATAAGGAAAAGTCTACTCCTTATCATAATCTAATTAAGACTTATCTAAACAAATTA
AAATCCTAAACACAA
Found at i:1596847 original size:30 final size:30
Alignment explanation
Indices: 1596806--1596865 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1596796 TAGCAATGGA
1596806 CTCTTTCGAATGAGTGTAAAGAGGGAAAGC
1 CTCTTTCGAATGAGTGTAAAGAGGGAAAGC
*
1596836 CTCTTTTGAATGAGTGTAAAGAGGGAAAGC
1 CTCTTTCGAATGAGTGTAAAGAGGGAAAGC
1596866 ATCCTTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (30 bp):
CTCTTTCGAATGAGTGTAAAGAGGGAAAGC
Found at i:1598721 original size:29 final size:29
Alignment explanation
Indices: 1598637--1598721 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
1598627 AAAGTTATGA
* *
1598637 TGTTTTAGTTGACTTTTAATTTCTTTCAG
1 TGTTTTAGTTGACTTTTAATTCCTTTTAG
1598666 TGTTTTAGTTGACTTTTAATTCCTTTTAG
1 TGTTTTAGTTGACTTTTAATTCCTTTTAG
*
1598695 TGTTTTAGCTGACTTTTAATTCCTTTT
1 TGTTTTAGTTGACTTTTAATTCCTTTT
1598722 TATTTAGAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.16, C:0.12, G:0.13, T:0.59
Consensus pattern (29 bp):
TGTTTTAGTTGACTTTTAATTCCTTTTAG
Found at i:1600880 original size:18 final size:18
Alignment explanation
Indices: 1600857--1600893 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1600847 CTAACCCTAG
1600857 TGACAATTAGTCATAGGA
1 TGACAATTAGTCATAGGA
1600875 TGACAATTAGTCATAGGA
1 TGACAATTAGTCATAGGA
1600893 T
1 T
1600894 TAGTTACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (18 bp):
TGACAATTAGTCATAGGA
Found at i:1601878 original size:19 final size:20
Alignment explanation
Indices: 1601834--1601880 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
1601824 ACCCACATGT
*
1601834 ATCGATACATATTGCTTAGT
1 ATCGATACATATTGCTTAGC
* *
1601854 ATCGATACATGTT-CTTTGC
1 ATCGATACATATTGCTTAGC
1601873 ATCGATAC
1 ATCGATAC
1601881 CATGAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCGATACATATTGCTTAGC
Found at i:1602499 original size:35 final size:34
Alignment explanation
Indices: 1602453--1602518 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
1602443 GAAGTGATTG
* *
1602453 AGAGGTTCTATCTTGGCCTTTGCAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTCG-AAAAGATAGGGA
1602488 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
1602519 TGTTGTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTCGAAAAGATAGGGA
Found at i:1610990 original size:12 final size:11
Alignment explanation
Indices: 1610968--1611043 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
1610958 AGAGAAAGAA
*
1610968 GAGAGAGGAGG
1 GAGATAGGAGG
1610979 GATGATAGGAGG
1 GA-GATAGGAGG
*
1610991 AGAGACAGGA--
1 -GAGATAGGAGG
*
1611001 GAGATAGTA--
1 GAGATAGGAGG
1611010 GAGATAGGAGG
1 GAGATAGGAGG
1611021 GATGATAGGAGG
1 GA-GATAGGAGG
1611033 AGAGATAGGAG
1 -GAGATAGGAG
1611044 AGATAATAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.07
12 31 0.57
13 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.49, T:0.11
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1611000 original size:24 final size:24
Alignment explanation
Indices: 1610967--1611052 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1610957 AAGAGAAAGA
*
1610967 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
* *
1610991 AGAGACAGGA--GA-GAT---AGT
1 AGAGATAGGAGGGATGATAGGAGG
1611009 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
* *
1611033 AGAGATAGGAGAGATAATAG
1 AGAGATAGGAGGGATGATAG
1611053 AGAGAGGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 29 0.58
ACGTcount: A:0.42, C:0.01, G:0.45, T:0.12
Consensus pattern (24 bp):
AGAGATAGGAGGGATGATAGGAGG
Found at i:1611002 original size:9 final size:9
Alignment explanation
Indices: 1610988--1611048 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
1610978 GGATGATAGG
*
1610988 AGGAGAGAC
1 AGGAGAGAT
1610997 AGGAGAGAT
1 AGGAGAGAT
*
1611006 AGTAGAGAT
1 AGGAGAGAT
*
1611015 AGGAGGGAT
1 AGGAGAGAT
* *
1611024 --GATAG-G
1 AGGAGAGAT
1611030 AGGAGAGAT
1 AGGAGAGAT
1611039 AGGAGAGAT
1 AGGAGAGAT
1611048 A
1 A
1611049 ATAGAGAGAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.43, C:0.02, G:0.44, T:0.11
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1611019 original size:42 final size:42
Alignment explanation
Indices: 1610958--1611076 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1610948 TAGCCCTCAA
* *
1610958 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1611000 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1611042 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1611077 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.43, C:0.02, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1611052 original size:12 final size:12
Alignment explanation
Indices: 1611012--1611057 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
1611002 AGATAGTAGA
*
1611012 GATAGGAGGGAT
1 GATAGGAGAGAT
1611024 GATAGGAGGAGA-
1 GATAGGA-GAGAT
1611036 GATAGGAGAGAT
1 GATAGGAGAGAT
*
1611048 AATA-GAGAGA
1 GATAGGAGAGA
1611058 GGAGGGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 17 0.57
13 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:1619521 original size:29 final size:29
Alignment explanation
Indices: 1619478--1619611 Score: 118
Period size: 29 Copynumber: 4.8 Consensus size: 29
1619468 GTTCTGGTGC
1619478 TTTAGTTGACTTTTAATTCCTTTTAGTGT
1 TTTAGTTGACTTTTAATTCCTTTTAGTGT
*
1619507 TTTAGTTGA-TGTTTAATTCCTTTTTGTGT
1 TTTAGTTGACT-TTTAATTCCTTTTAGTGT
* *
1619536 TTTAGTTGAC---T--TTCCTTTCAATGT
1 TTTAGTTGACTTTTAATTCCTTTTAGTGT
* * * *
1619560 TTTAGTTAACTTTCAATTCTTTTTTTGTGT
1 TTTAGTTGACTTTTAATTC-CTTTTAGTGT
* * *
1619590 TTTAATTAACTTGTAATTCCTT
1 TTTAGTTGACTTTTAATTCCTT
1619612 AGCTTTATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
24 19 0.23
26 1 0.01
28 1 0.01
29 40 0.48
30 22 0.27
ACGTcount: A:0.18, C:0.11, G:0.12, T:0.59
Consensus pattern (29 bp):
TTTAGTTGACTTTTAATTCCTTTTAGTGT
Found at i:1621316 original size:159 final size:156
Alignment explanation
Indices: 1621010--1621468 Score: 397
Period size: 159 Copynumber: 2.9 Consensus size: 156
1621000 TAGTGAGGGG
* * * *
1621010 AATGTGTTTATCG-TGCCTAATCATGAAAAGAATGGTGATTCTAACTACAATCCATGTCTGTCTC
1 AATGTGTTTAT-GAT-CCAAATCATGAAAAGAATGGTAATTCTAACAAGAATCCATGT-T-TCTC
* * * * * * * *
1621074 ATTTGACA-AATGAACTTTAATTCTAAGGAAAATGGTGGAAAGAAAATCTTTTCTTTCAAAAGCA
62 ATTT-A-AGGACGAACTTTGATTCAAAGGAAAATGGTGGAAAGAAAAGCTATTCTTGCAAAACCA
* *
1621138 AAGCATCAATATAGCGTATCATAAT-AAGGAA
125 AAGCATCAATATAGCGTATCACAATAAAGAAA
*
1621169 AATGTGTTTATGATACCCAATCATGAAAAGAATGGTAATTCTAACAAGAATCCATGTTTCTCACC
1 AATGTGTTTATGAT-CCAAATCATGAAAAGAATGGTAATTCTAACAAGAATCCATGTTTCTCA--
* * * *
1621234 TTTAAGGGACAAACTTTGATTCCAAGAAAAATGGTGGAAAAAAAAGCTATTCTTGCAAAACCAAA
63 TTTAA-GGACGAACTTTGATTCAAAGGAAAATGGTGGAAAGAAAAGCTATTCTTGCAAAACCAAA
* * * * *
1621299 GCATTAGTATTGTGTATCCCAATAAAGAAA
127 GCATCAATATAGCGTATCACAATAAAGAAA
* * ** * * ** *
1621329 ACATGTTTTTCT-ATCCAAATCATGTAAAAGAATGAAAAGTCCAATGAGAATCCATGTTTCCCTT
1 A-ATGTGTTTATGATCCAAATCATG-AAAAGAATGGTAATTCTAACAAGAATCCATGTTT--CTC
* * * * *
1621393 ATTTGAAGGACGAACTTTGATTCAAAGGAAAATGCTGGAAAGAAAAGAT-TTCCTTGTAAATCTA
62 ATTT-AAGGACGAACTTTGATTCAAAGGAAAATGGTGGAAAGAAAAGCTATT-CTTGCAAAACCA
1621457 AAGCATCAATAT
125 AAGCATCAATAT
1621469 CATGTATCTT
Statistics
Matches: 244, Mismatches: 44, Indels: 23
0.78 0.14 0.07
Matches are distributed among these distances:
157 6 0.02
158 3 0.01
159 128 0.52
160 94 0.39
161 10 0.04
162 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (156 bp):
AATGTGTTTATGATCCAAATCATGAAAAGAATGGTAATTCTAACAAGAATCCATGTTTCTCATTT
AAGGACGAACTTTGATTCAAAGGAAAATGGTGGAAAGAAAAGCTATTCTTGCAAAACCAAAGCAT
CAATATAGCGTATCACAATAAAGAAA
Found at i:1623020 original size:20 final size:20
Alignment explanation
Indices: 1622989--1623036 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
1622979 TGATGGAAAG
*
1622989 AAAAGC-TTTCTTGCCAAAT
1 AAAAGCTTTTCTTGCCAAAC
1623008 AAAAGCTTTTCTTGCCAAAC
1 AAAAGCTTTTCTTGCCAAAC
1623028 AAAAGCTTT
1 AAAAGCTTT
1623037 AATACTGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
AAAAGCTTTTCTTGCCAAAC
Found at i:1633744 original size:94 final size:94
Alignment explanation
Indices: 1633621--1633795 Score: 280
Period size: 94 Copynumber: 1.9 Consensus size: 94
1633611 TGCCGACAAT
*
1633621 AATAATTTAGGTAAAAGTTAAAATAATCTTGACAAATTCAAAAATGAGGTTGGAATATTCCC-TC
1 AATAATTTAGGTAAAAGTAAAAATAATCTTGACAAATTCAAAAATGAGGTTGGAATA-TCCCTTC
*
1633685 GGAATAATGGGGTTGGATGTCCCCAATAAC
65 AGAATAATGGGGTTGGATGTCCCCAATAAC
* * * *
1633715 AATAATTTAGGTAAAAGTAAAAATGATCTTGACAAGTTCAAAAATGGGGTTGGAGTATCCCTTCA
1 AATAATTTAGGTAAAAGTAAAAATAATCTTGACAAATTCAAAAATGAGGTTGGAATATCCCTTCA
1633780 GAATAATGGGGTTGGA
66 GAATAATGGGGTTGGA
1633796 GTATCCTCGA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 4 0.05
94 70 0.95
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.29
Consensus pattern (94 bp):
AATAATTTAGGTAAAAGTAAAAATAATCTTGACAAATTCAAAAATGAGGTTGGAATATCCCTTCA
GAATAATGGGGTTGGATGTCCCCAATAAC
Found at i:1637582 original size:15 final size:14
Alignment explanation
Indices: 1637539--1637573 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1637529 CGTTCTCAAC
*
1637539 AAAAGTTCTTGACA
1 AAAATTTCTTGACA
1637553 AAAATTTCTTGACA
1 AAAATTTCTTGACA
*
1637567 ACAATTT
1 AAAATTT
1637574 TGTTGACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (14 bp):
AAAATTTCTTGACA
Found at i:1638422 original size:13 final size:13
Alignment explanation
Indices: 1638404--1638429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1638394 ATACACAAGT
1638404 ATGTATCGATACA
1 ATGTATCGATACA
1638417 ATGTATCGATACA
1 ATGTATCGATACA
1638430 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1638447 original size:33 final size:31
Alignment explanation
Indices: 1638387--1638449 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
1638377 TAGCCAAACT
**
1638387 TGTATCGATACACAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATGTATCGATACAA
1638418 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACA-CAAAAA-TGTATCGATACA
1638450 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 12 0.43
32 4 0.14
33 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (31 bp):
TGTATCGATACACAAAAATGTATCGATACAA
Found at i:1640670 original size:21 final size:21
Alignment explanation
Indices: 1640637--1640686 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1640627 TTGCAAGTTG
*
1640637 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1640659 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1640680 AAATAAA
1 AAATAAA
1640687 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1644521 original size:13 final size:13
Alignment explanation
Indices: 1644503--1644528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1644493 ACATTTTACT
1644503 TTGTATCGATACA
1 TTGTATCGATACA
1644516 TTGTATCGATACA
1 TTGTATCGATACA
1644529 GGGTGATTAT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1644692 original size:20 final size:20
Alignment explanation
Indices: 1644649--1644694 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1644639 AAATCTTTTG
1644649 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1644670 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1644690 CAAAA
1 CAAAA
1644695 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1646207 original size:13 final size:13
Alignment explanation
Indices: 1646189--1646214 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1646179 TACACCAAGT
1646189 ATGTATCGATACA
1 ATGTATCGATACA
1646202 ATGTATCGATACA
1 ATGTATCGATACA
1646215 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1646212 original size:32 final size:33
Alignment explanation
Indices: 1646171--1646234 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1646161 TAGCCAAACT
**
1646171 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1646203 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1646235 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1647788 original size:18 final size:17
Alignment explanation
Indices: 1647765--1647802 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
1647755 TTTTCCCCCC
1647765 TTTTTTGTTTGTTGTTATT
1 TTTTTTGTTT-TTGTT-TT
1647784 TTTTTTGTTTTTGTTTT
1 TTTTTTGTTTTTGTTTT
1647801 TT
1 TT
1647803 ATGAAGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.84
Consensus pattern (17 bp):
TTTTTTGTTTTTGTTTT
Found at i:1661666 original size:94 final size:95
Alignment explanation
Indices: 1661515--1661696 Score: 303
Period size: 94 Copynumber: 1.9 Consensus size: 95
1661505 CCCTCGGAGG
* **
1661515 AATGGGGTTGGAATGCCCTCGACAATTATAATTTAGGTAAAAGTAAAAATGATCTTGACAAATTC
1 AATGGGGTTCGAATGCCCTCGACAACAATAATTTAGGTAAAAGTAAAAATGATCTTGACAAATTC
1661580 AAA-AATGGGGTTGGAGTATCCCTCAGAAT
66 AAACAATGGGGTTGGAGTATCCCTCAGAAT
* * *
1661609 AATGGGGTTCGAGTGTCCTCGACAACAATAATTTAGGTAAAAGTAAAAATGATCTTGACAAGTTC
1 AATGGGGTTCGAATGCCCTCGACAACAATAATTTAGGTAAAAGTAAAAATGATCTTGACAAATTC
1661674 AAACAATGGGGTTGGAGTATCCC
66 AAACAATGGGGTTGGAGTATCCC
1661697 CTCGAAATAA
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
94 62 0.77
95 19 0.23
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (95 bp):
AATGGGGTTCGAATGCCCTCGACAACAATAATTTAGGTAAAAGTAAAAATGATCTTGACAAATTC
AAACAATGGGGTTGGAGTATCCCTCAGAAT
Found at i:1661733 original size:94 final size:93
Alignment explanation
Indices: 1661542--1661726 Score: 266
Period size: 94 Copynumber: 2.0 Consensus size: 93
1661532 CTCGACAATT
1661542 ATAATTTAGGTAAAAGTAAAAATGATCTTGACAAATTCAAAAATGGGGTTGGAGTATCCCTCAGA
1 ATAATTTAGGTAAAAGTAAAAATGATCTTGACAAATTCAAAAATGGGGTTGGAGTATCCCTCAGA
* * *
1661607 ATAATGGGGTTCGAGTGTCCTCGACAACA
66 ATAATCGGGTTCGAGTATCCCCGA-AACA
*
1661636 ATAATTTAGGTAAAAGTAAAAATGATCTTGACAAGTTCAAACAATGGGGTTGGAGTATCCCCTC-
1 ATAATTTAGGTAAAAGTAAAAATGATCTTGACAAATTCAAA-AATGGGGTTGGAGTAT-CCCTCA
*
1661700 GAAATAATCTGGTT-GAGGTATCCCCGA
64 G-AATAATCGGGTTCGA-GTATCCCCGA
1661727 TGAATAAAAT
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
94 40 0.49
95 19 0.23
96 23 0.28
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (93 bp):
ATAATTTAGGTAAAAGTAAAAATGATCTTGACAAATTCAAAAATGGGGTTGGAGTATCCCTCAGA
ATAATCGGGTTCGAGTATCCCCGAAACA
Found at i:1663155 original size:769 final size:769
Alignment explanation
Indices: 1661671--1663978 Score: 4537
Period size: 769 Copynumber: 3.0 Consensus size: 769
1661661 TCTTGACAAG
*
1661671 TTCAAACAATGGGGTTGGAGTATCCCCTCGAAATAATCTGGTTGAGGTATCCCCGATGAATAAAA
1 TTCAAAAAATGGGGTTGGAGTATCCCCTCGAAATAATCTGGTTGAGGTATCCCCGATGAATAAAA
1661736 TTTGGTATATTTTTATGAAGAAAATTGACGTGAATGAGGACACTAAAAATGTAAAAGCATTTATG
66 TTTGGTATATTTTTATGAAGAAAATTGACGTGAATGAGGACACTAAAAATGTAAAAGCATTTATG
1661801 CCTTGACATGGTCTATGAGAAGTTTAAAAAGGGTTTT-GAAGCTGACCAGGGTTCTATGGAGACA
131 CCTTGACATGGTCTATGAGAAGTTTAAAAA-GGTTTTCGAAGCTGACCAGGGTTCTATGGAGACA
*
1661865 TCCGAGTGCCACAGGATGAAACCTGGGAAAATGACTCAAATCAGCCCACAACCAAAAACAAGGGA
195 TCCGAGTGCCTCAGGATGAAACCTGGGAAAATGACTCAAATCAGCCCACAACCAAAAACAAGGGA
1661930 CAAAATCGTGTTGTCCCACTTTCTGAATTTATTGCGGGCTGATCTAAAGGTTTTAGAGGGTGGAA
260 CAAAATCGTGTTGTCCCACTTTCTGAATTTATTGCGGGCTGATCTAAAGGTTTTAGAGGGTGGAA
1661995 CTATTAGAAAGATAACTTGATGAAGGTCTATCTAAAAATATTTCAAAAATCCAAAAATATCATTT
325 CTATTAGAAAGATAACTTGATGAAGGTCTATCTAAAAATATTTCAAAAATCCAAAAATATCATTT
1662060 TCTAGGAGAAATAAATTCCCAAAATGAGGTGAATTACGCTATTGGCAGAGCACATAAAGAAAAGG
390 TCTAGGAGAAATAAATTCCCAAAATGAGGTGAATTACGCTATTGGCAGAGCACATAAAGAAAAGG
1662125 GTGTGTCAAACTTTGAAAAATCACCCTGGACTCGTTTGGTATCAAAATATTGCAAATGATACCTT
455 GTGTGTCAAACTTTGAAAAATCACCCTGGACTCGTTTGGTATCAAAATATTGCAAATGATACCTT
1662190 TCCAAAAAGGGAGTTTCATGAGATTGTTATGACAAATGTTGAGAAAATTTGGAAAAACCGTCTGG
520 TCCAAAAAGGGAGTTTCATGAGATTGTTATGACAAATGTTGAGAAAATTTGGAAAAACCGTCTGG
1662255 TGAGCTTGAATGGCCCAAATAGAATGCATTTTGCTATTTCTAAGGGTTCTGGATAGCTTGGGTTC
585 TGAGCTTGAATGGCCCAAATAGAATGCATTTTGCTATTTCTAAGGGTTCTGGATAGCTTGGGTTC
1662320 AAAAAATTGTAACTTCCTCATTCGGGCTAGTCTAGGGGTAAGCAAGATGCCGTTGGAAAGATATT
650 AAAAAATTGTAACTTCCTCATTCGGGCTAGTCTAGGGGTAAGCAAGATGCCGTTGGAAAGATATT
1662385 TGACACACTTTATGGGAAAAATACTAAAACAAATTGGAAAAATCGTTTATTATTT
715 TGACACACTTTATGGGAAAAATACTAAAACAAATTGGAAAAATCGTTTATTATTT
*
1662440 TTCAAAAAATGGGGTTAGAGTATCCCCTCGAAATAATCTGGTTGAGGTATCCCCGATGAATAAAA
1 TTCAAAAAATGGGGTTGGAGTATCCCCTCGAAATAATCTGGTTGAGGTATCCCCGATGAATAAAA
1662505 TTTGGTATATTTTTATGAAGAAAATTGACGTGAATGAGGACACTAAAAATGTAAAAGCATTTATG
66 TTTGGTATATTTTTATGAAGAAAATTGACGTGAATGAGGACACTAAAAATGTAAAAGCATTTATG
1662570 CCTTGACATGGTCTATGAGAAGTTTAAAAAGGTTTTCGAAGCTGACCAGGGTTCTATGGAGACAT
131 CCTTGACATGGTCTATGAGAAGTTTAAAAAGGTTTTCGAAGCTGACCAGGGTTCTATGGAGACAT
1662635 CCGAGTGCCTCAGGATGAAACCTGGGAAAATGACTCAAATCAGCCCACAACCAAAAACAAGGGAC
196 CCGAGTGCCTCAGGATGAAACCTGGGAAAATGACTCAAATCAGCCCACAACCAAAAACAAGGGAC
1662700 AAAATCGTGTTGTCCCACTTTCTGAATTTATTGCGGGCTGATCTAAAGGTTTTAGAGGGTGGAAC
261 AAAATCGTGTTGTCCCACTTTCTGAATTTATTGCGGGCTGATCTAAAGGTTTTAGAGGGTGGAAC
1662765 TATTAGAAAGATAACTTGATGAAGGTCTATCTAAAAATATTTCAAAAATCCAAAAATATCATTTT
326 TATTAGAAAGATAACTTGATGAAGGTCTATCTAAAAATATTTCAAAAATCCAAAAATATCATTTT
1662830 CTAGGAGAAATAAATTCCCAAAATGAGGTGAATTACGCTATTGGCAGAGCACATAAAGAAAAGGG
391 CTAGGAGAAATAAATTCCCAAAATGAGGTGAATTACGCTATTGGCAGAGCACATAAAGAAAAGGG
1662895 TGTGTCAAACTTTGAAAAATCACCCTGGACTCGTTTGGTATCAAAATATTGCAAATGATACCTTT
456 TGTGTCAAACTTTGAAAAATCACCCTGGACTCGTTTGGTATCAAAATATTGCAAATGATACCTTT
1662960 CCAAAAAGGGAGTTTCATGAGATTGTTATGACAAATGTTGAGAAAATTTGGAAAAACCGTCTGGT
521 CCAAAAAGGGAGTTTCATGAGATTGTTATGACAAATGTTGAGAAAATTTGGAAAAACCGTCTGGT
1663025 GAGCTTGAATGGCCCAAATAGAATGCATTTTGCTATTTCTAAGGGTTCTGGATAGCTTGGGTTCA
586 GAGCTTGAATGGCCCAAATAGAATGCATTTTGCTATTTCTAAGGGTTCTGGATAGCTTGGGTTCA
*
1663090 AAAAATTGTAACTTCCTCATTCGGGCTAGTCTAGGGTTAAGCAAGATGCCGTTGGAAAGATATTT
651 AAAAATTGTAACTTCCTCATTCGGGCTAGTCTAGGGGTAAGCAAGATGCCGTTGGAAAGATATTT
1663155 GACACACTTTATGGGAAAAATACTAAAACAAATTGGAAAAATCGTTTATTATTT
716 GACACACTTTATGGGAAAAATACTAAAACAAATTGGAAAAATCGTTTATTATTT
1663209 TTCAAAAAATGGGGTTGGAGTATCCCCTCGAAATAATCTGGTTGAGGTATCCCCGATGAATAAAA
1 TTCAAAAAATGGGGTTGGAGTATCCCCTCGAAATAATCTGGTTGAGGTATCCCCGATGAATAAAA
1663274 TTTGGTATATTTTTATGAAGAAAATTGACGTGAATGAGGACACTAAAAATGTAAAAGCATTTATG
66 TTTGGTATATTTTTATGAAGAAAATTGACGTGAATGAGGACACTAAAAATGTAAAAGCATTTATG
1663339 CCTTGACATGGTCTATGAGAAGTTTAAAAAGGTTTTCGAAGCTGACCAGGGTTCTATGGAGACAT
131 CCTTGACATGGTCTATGAGAAGTTTAAAAAGGTTTTCGAAGCTGACCAGGGTTCTATGGAGACAT
1663404 CCGAGTGCCTCAGGATGAAACCTGGGAAAATGACTCAAATCAGCCCACAACCAAAAACAAGGGAC
196 CCGAGTGCCTCAGGATGAAACCTGGGAAAATGACTCAAATCAGCCCACAACCAAAAACAAGGGAC
1663469 AAAATCGTGTTGTCCCACTTTCTGAATTTATTGCGGGCTGATCTAAAGGTTTTAGAGGGTGGAAC
261 AAAATCGTGTTGTCCCACTTTCTGAATTTATTGCGGGCTGATCTAAAGGTTTTAGAGGGTGGAAC
1663534 TATTAGAAAGATAACTTGATGAAGGTCTATCTAAAAATATTTCAAAAATCCAAAAATATCATTTT
326 TATTAGAAAGATAACTTGATGAAGGTCTATCTAAAAATATTTCAAAAATCCAAAAATATCATTTT
*
1663599 CTAGGAGAAATAAATTCCCAAAATGAGGTGAATTACGCTATTGGTAGAGCACATAAAGAAAAGGG
391 CTAGGAGAAATAAATTCCCAAAATGAGGTGAATTACGCTATTGGCAGAGCACATAAAGAAAAGGG
1663664 TGTGTCAAACTTTGAAAAATCACCCTGGACTCGTTTGGTATCAAAATATTGCAAATGATACCTTT
456 TGTGTCAAACTTTGAAAAATCACCCTGGACTCGTTTGGTATCAAAATATTGCAAATGATACCTTT
* *
1663729 CCAAAATGGGAGTTTCATGAGATTGTTATGACAAATGTTGAGAAAATTTGGAAAAACAGTCTGGT
521 CCAAAAAGGGAGTTTCATGAGATTGTTATGACAAATGTTGAGAAAATTTGGAAAAACCGTCTGGT
1663794 GAGCTTGAATGGCCCAAATAGAATGCATTTTGCTATTTCTAAGGGTTCTGGATAGCTTGGGTTCA
586 GAGCTTGAATGGCCCAAATAGAATGCATTTTGCTATTTCTAAGGGTTCTGGATAGCTTGGGTTCA
1663859 AAAAATTGTAACTTCCTCATTCGGGCTAGTCTAGGGGTAAGCAAGATGCCGTTGGAAAGATATTT
651 AAAAATTGTAACTTCCTCATTCGGGCTAGTCTAGGGGTAAGCAAGATGCCGTTGGAAAGATATTT
1663924 GACACACTTTATGGGAAAAATACTAAAACAAATTGGAAAAATCGTTTATTATTT
716 GACACACTTTATGGGAAAAATACTAAAACAAATTGGAAAAATCGTTTATTATTT
1663978 T
1 T
1663979 AAAATGATTT
Statistics
Matches: 1529, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
768 6 0.00
769 1523 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (769 bp):
TTCAAAAAATGGGGTTGGAGTATCCCCTCGAAATAATCTGGTTGAGGTATCCCCGATGAATAAAA
TTTGGTATATTTTTATGAAGAAAATTGACGTGAATGAGGACACTAAAAATGTAAAAGCATTTATG
CCTTGACATGGTCTATGAGAAGTTTAAAAAGGTTTTCGAAGCTGACCAGGGTTCTATGGAGACAT
CCGAGTGCCTCAGGATGAAACCTGGGAAAATGACTCAAATCAGCCCACAACCAAAAACAAGGGAC
AAAATCGTGTTGTCCCACTTTCTGAATTTATTGCGGGCTGATCTAAAGGTTTTAGAGGGTGGAAC
TATTAGAAAGATAACTTGATGAAGGTCTATCTAAAAATATTTCAAAAATCCAAAAATATCATTTT
CTAGGAGAAATAAATTCCCAAAATGAGGTGAATTACGCTATTGGCAGAGCACATAAAGAAAAGGG
TGTGTCAAACTTTGAAAAATCACCCTGGACTCGTTTGGTATCAAAATATTGCAAATGATACCTTT
CCAAAAAGGGAGTTTCATGAGATTGTTATGACAAATGTTGAGAAAATTTGGAAAAACCGTCTGGT
GAGCTTGAATGGCCCAAATAGAATGCATTTTGCTATTTCTAAGGGTTCTGGATAGCTTGGGTTCA
AAAAATTGTAACTTCCTCATTCGGGCTAGTCTAGGGGTAAGCAAGATGCCGTTGGAAAGATATTT
GACACACTTTATGGGAAAAATACTAAAACAAATTGGAAAAATCGTTTATTATTT
Found at i:1670011 original size:21 final size:22
Alignment explanation
Indices: 1669978--1670020 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
1669968 CTTTTCAAGA
*
1669978 ATTTCATTCTCAACAAATTTTG
1 ATTTCATTCTCAACAAACTTTG
* *
1670000 ATTT-ATTTTCAAGAAACTTTG
1 ATTTCATTCTCAACAAACTTTG
1670021 CCTAACTCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.47
Consensus pattern (22 bp):
ATTTCATTCTCAACAAACTTTG
Found at i:1685591 original size:13 final size:13
Alignment explanation
Indices: 1685573--1685597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1685563 ATTCTTCATG
1685573 TATCGATACAATA
1 TATCGATACAATA
1685586 TATCGATACAAT
1 TATCGATACAAT
1685598 GTCCCATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:1685606 original size:33 final size:33
Alignment explanation
Indices: 1685569--1685648 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
1685559 TACAATTCTT
*
1685569 CATGTATCGATACAATATATCGATACAATGTCC
1 CATGTATTGATACAATATATCGATACAATGTCC
* *
1685602 CATGTATTAATACAATGTATCGATACAATGTCC
1 CATGTATTGATACAATATATCGATACAATGTCC
1685635 CATGTATTGATACA
1 CATGTATTGATACA
1685649 TTTCACTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
CATGTATTGATACAATATATCGATACAATGTCC
Found at i:1689473 original size:156 final size:156
Alignment explanation
Indices: 1689215--1689995 Score: 682
Period size: 156 Copynumber: 5.0 Consensus size: 156
1689205 CTAGGACTAA
* * * * * * * ** *
1689215 GTTCTTAAGAAATTACCAAAATGCCCTTAGGGGTATACCTTTGACGTAAAAGAATCCTGGCAACC
1 GTTC-TAAAAAATTACAAAAATGCCCCTAGAGGTATACCTTCGACGTAAAAGTATCCCGATACCC
* * * *
1689280 CTAAAGGACTTAAAAAGACTCATA-AGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAA
65 CTAAAGGACTTAAAAAGACT-AGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGACATAAA
* *
1689344 AGCGGACCCGGTGATGACCTAGGAATTT
129 AGCGGACCCGGTGATGACCTAGGAGTTG
* * * * *
1689372 ATTCTAAAAAATTACAAAAATGCCCTTAGAGG-ATACTTTCGATGTAAAAGTATCTCGATACCCC
1 GTTCTAAAAAATTACAAAAATGCCCCTAGAGGTATACCTTCGACGTAAAAGTATCCCGATACCCC
*
1689436 TAAAGGACTTAAAAAGGACTAGAGATGGGATGAACCTATCCTAAATGCCCACC-TTCAGCATAAA
66 TAAAGGACTTAAAAA-GACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGA-CATAAA
** * *
1689500 AGCAAACTCGGTGATGACTTAGGAGTTG
129 AGCGGACCCGGTGATGACCTAGGAGTTG
* * ** *
1689528 GTTCTAGAAAATTACAAAAATACCCCTATG-GGTATACCTTCGACGTAAAAGTATCCCGGCAACC
1 GTTCTAAAAAATTACAAAAATGCCCCTA-GAGGTATACCTTCGACGTAAAAGTATCCCGATACCC
* **
1689592 CTAAAGGACTTAACAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGGTATAAAA
65 CTAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGACATAAAA
*
1689657 GCGGACCCGGTGATGACCTAGGTGTTG
130 GCGGACCCGGTGATGACCTAGGAGTTG
* ** * * ** * *
1689684 GTTTTAGAAAAATTATGAGAATGCCCCTA-AGGGATACCTTCGACGTGGAAGT-GCCCAATACCC
1 GTTCTA-AAAAATTACAAAAATGCCCCTAGAGGTATACCTTCGACGTAAAAGTATCCCGATACCC
* * * * * *
1689747 TTAAAGGACTTAAAAAGGACTATAAAAGTGATGAACCTATCCTAAATGCCCACCTTTGGCATAAA
65 CTAAAGGACTTAAAAA-GACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGACATAAA
* ** * * * * *
1689812 AGCGGAACCAATGA-CATCGTTGAACTTG
129 AGCGGACCCGGTGATGA-CCTAGGAGTTG
* * * * * * * *
1689840 GTTCTAAAAAATTACGAGAATGCCCTTAG-GGTATACCTTTGA-GTAGAAGT-GCCCGATACGCT
1 GTTCTAAAAAATTACAAAAATGCCCCTAGAGGTATACCTTCGACGTAAAAGTATCCCGATACCCC
* ** * * * * * * * *
1689902 TAAAGAACTTAAAAAGGTTATAAAAGGAATGAACATATCCTAAATACCCACCTTCGATATAAAAG
66 TAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGACATAAAAG
** * * *
1689967 TAGACCCGGTGGTTACCTAGGACTTG
131 CGGACCCGGTGATGACCTAGGAGTTG
1689993 GTT
1 GTT
1689996 TCGTAACAAA
Statistics
Matches: 511, Mismatches: 101, Indels: 28
0.80 0.16 0.04
Matches are distributed among these distances:
153 58 0.11
154 32 0.06
155 95 0.19
156 263 0.51
157 63 0.12
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (156 bp):
GTTCTAAAAAATTACAAAAATGCCCCTAGAGGTATACCTTCGACGTAAAAGTATCCCGATACCCC
TAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGACATAAAAG
CGGACCCGGTGATGACCTAGGAGTTG
Found at i:1689789 original size:312 final size:312
Alignment explanation
Indices: 1689224--1689814 Score: 801
Period size: 312 Copynumber: 1.9 Consensus size: 312
1689214 AGTTCTTAAG
* * * * *
1689224 AAATTACCAAAATGCCCTTAGGGGTATACCTTTGACGTAAAAGAATCCTGGCAACCCTAAAGGAC
1 AAATTACAAAAATACCCCTAGGGGTATACCTTCGACGTAAAAGAATCCCGGCAACCCTAAAGGAC
*
1689289 TTAAAAAGACTCATAAGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAAAGCGGACCCG
66 TTAAAAAGACTCAGAAGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAAAGCGGACCCG
* * * *
1689354 GTGATGACCTAGGAATTTATTCTAAAAAATTACAAAAATGCCCTTAGAGGATACTTTCGATGTAA
131 GTGATGACCTAGGAATTGATTCTAAAAAATTACAAAAATGCCCTAAGAGGATACCTTCGACGTAA
* * * * *
1689419 AAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTAGAGATGGGATGAACCTATCCTAAATGC
196 AAGTAGCCCAATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGGATGAACCTATCCTAAATGC
1689484 CCACCTTCAGCATAAAAGCAAACTCGGTGATGACTTAGGAGTTGGTTCTAGA
261 CCACCTTCAGCATAAAAGCAAACTCGGTGATGACTTAGGAGTTGGTTCTAGA
* *
1689536 AAATTACAAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGAC
1 AAATTACAAAAATACCCCTAGGGGTATACCTTCGACGTAAAAGAATCCCGGCAACCCTAAAGGAC
* * * * **
1689601 TTAACAAGACT-AGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGGTATAAAAGCGGACCC
66 TTAAAAAGACTCAGA-AGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAAAGCGGACCC
** * * ** *
1689665 GGTGATGACCTAGGTGTTGGTTTTAGAAAAATTATGAGAATGCCCCTAAG-GGATACCTTCGACG
130 GGTGATGACCTAGGAATTGATTCTA-AAAAATTACAAAAATG-CCCTAAGAGGATACCTTCGACG
** * * *
1689729 TGGAAGT-GCCCAATACCCTTAAAGGACTTAAAAAGGACTATAAAAGTGATGAACCTATCCTAAA
193 TAAAAGTAGCCCAATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGGATGAACCTATCCTAAA
**
1689793 TGCCCACCTTTGGCATAAAAGC
258 TGCCCACCTTCAGCATAAAAGC
1689815 GGAACCAATG
Statistics
Matches: 239, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
311 2 0.01
312 201 0.84
313 30 0.13
314 6 0.03
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (312 bp):
AAATTACAAAAATACCCCTAGGGGTATACCTTCGACGTAAAAGAATCCCGGCAACCCTAAAGGAC
TTAAAAAGACTCAGAAGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAAAGCGGACCCG
GTGATGACCTAGGAATTGATTCTAAAAAATTACAAAAATGCCCTAAGAGGATACCTTCGACGTAA
AAGTAGCCCAATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGGATGAACCTATCCTAAATGC
CCACCTTCAGCATAAAAGCAAACTCGGTGATGACTTAGGAGTTGGTTCTAGA
Found at i:1689843 original size:312 final size:311
Alignment explanation
Indices: 1689215--1689878 Score: 791
Period size: 312 Copynumber: 2.1 Consensus size: 311
1689205 CTAGGACTAA
* * * *
1689215 GTTCTTAAGAAATTACCAAAATGCCCTTAGGGGTATACCTTTGACGTAAAAGAATCCTGGCAACC
1 GTTC-TAAAAAATTACAAAAATGCCCTTA-GGGTATACCTTCGACGTAAAAGAATCCCGGCAACC
*
1689280 CTAAAGGACTTAAAAAGACTCATAAGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAAA
64 CTAAAGGACTTAAAAAGACTCAGAAGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAAA
* * *
1689345 GCGGACCCGGTGATGACCTAGGAATTTATTCTAAAAAATTACAAAAATGCCCTTAGAGGATACTT
129 GCGGACCCGGTGATGACCTAGGAATTGATTCTAAAAAATTACAAAAATGCCCTAAGAGGATACCT
* * * * * *
1689410 TCGATGTAAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTAGAGATGGGATGAACCTAT
194 TCGACGTAAAAGTAGCCCAATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGGATGAACCTAT
** * * *
1689475 CCTAAATGCCCACCTTCAGCATAAAAGCAAACTCGGTGATGACTTAGGAGTTG
259 CCTAAATGCCCACCTTCAGCATAAAAGCAAACTCAATGATCACTTAGAACTTG
* * * *
1689528 GTTCTAGAAAATTACAAAAATACCCCTATGGGTATACCTTCGACGTAAAAGTATCCCGGCAACCC
1 GTTCTAAAAAATTACAAAAATGCCCTTA-GGGTATACCTTCGACGTAAAAGAATCCCGGCAACCC
* * * * **
1689593 TAAAGGACTTAACAAGACT-AGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGGTATAAAA
65 TAAAGGACTTAAAAAGACTCAGA-AGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAAA
** * * ** *
1689657 GCGGACCCGGTGATGACCTAGGTGTTGGTTTTAGAAAAATTATGAGAATGCCCCTAAG-GGATAC
129 GCGGACCCGGTGATGACCTAGGAATTGATTCTA-AAAAATTACAAAAATG-CCCTAAGAGGATAC
** * * *
1689721 CTTCGACGTGGAAGT-GCCCAATACCCTTAAAGGACTTAAAAAGGACTATAAAAGTGATGAACCT
192 CTTCGACGTAAAAGTAGCCCAATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGGATGAACCT
** *
1689785 ATCCTAAATGCCCACCTTTGGCATAAAAGCGGAAC-CAATGA-CATCGTT-GAACTTG
257 ATCCTAAATGCCCACCTTCAGCATAAAAGC-AAACTCAATGATCA-C-TTAGAACTTG
* *
1689840 GTTCTAAAAAATTACGAGAATGCCCTTAGGGTATACCTT
1 GTTCTAAAAAATTACAAAAATGCCCTTAGGGTATACCTT
1689879 TGAGTAGAAG
Statistics
Matches: 295, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
311 14 0.05
312 236 0.80
313 39 0.13
314 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (311 bp):
GTTCTAAAAAATTACAAAAATGCCCTTAGGGTATACCTTCGACGTAAAAGAATCCCGGCAACCCT
AAAGGACTTAAAAAGACTCAGAAGGGGATAAACCTATCCTAAATGCCAACCTTTGACATAAAAGC
GGACCCGGTGATGACCTAGGAATTGATTCTAAAAAATTACAAAAATGCCCTAAGAGGATACCTTC
GACGTAAAAGTAGCCCAATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGGATGAACCTATCC
TAAATGCCCACCTTCAGCATAAAAGCAAACTCAATGATCACTTAGAACTTG
Found at i:1689964 original size:153 final size:156
Alignment explanation
Indices: 1689681--1689966 Score: 393
Period size: 154 Copynumber: 1.9 Consensus size: 156
1689671 GACCTAGGTG
* * *
1689681 TTGGTTTTAGAAAAATTATGAGAATGCCCCTAAGGGATACCTTCGACGTGGAAGTGCCCAATACC
1 TTGGTTCTAGAAAAATTACGAGAATGCCCCTAAGGGATACCTTCGACGTAGAAGTGCCCAATACC
* * * * *
1689746 CTTAAAGGACTTAAAAAGGACTATAAAAGTGATGAACCTATCCTAAATGCCCACCTTTGGCATAA
66 CTTAAAGAACTTAAAAAGGACTATAAAAGTGATGAACATATCCTAAATACCCACCTTCGACATAA
1689811 AAGCGGAACCAATGACATCGTTGAAC
131 AAGCGGAACCAATGACATCGTTGAAC
* * *
1689837 TTGGTTCTA-AAAAATTACGAGAATG-CCCTTAGGGTATACCTTTGA-GTAGAAGTGCCCGATAC
1 TTGGTTCTAGAAAAATTACGAGAATGCCCCTAAGGG-ATACCTTCGACGTAGAAGTGCCCAATAC
* * *
1689899 GCTTAAAGAACTTAAAAAGG-TTATAAAAG-GAATGAACATATCCTAAATACCCACCTTCGATAT
65 CCTTAAAGAACTTAAAAAGGACTATAAAAGTG-ATGAACATATCCTAAATACCCACCTTCGACAT
1689962 AAAAG
129 AAAAG
1689967 TAGACCCGGT
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
152 1 0.01
153 40 0.35
154 41 0.36
155 24 0.21
156 8 0.07
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (156 bp):
TTGGTTCTAGAAAAATTACGAGAATGCCCCTAAGGGATACCTTCGACGTAGAAGTGCCCAATACC
CTTAAAGAACTTAAAAAGGACTATAAAAGTGATGAACATATCCTAAATACCCACCTTCGACATAA
AAGCGGAACCAATGACATCGTTGAAC
Found at i:1690723 original size:129 final size:130
Alignment explanation
Indices: 1690550--1690880 Score: 438
Period size: 130 Copynumber: 2.5 Consensus size: 130
1690540 ATACAAAAAA
* *
1690550 TTTGAAATCTTTTAATACCCCTATGGATATCC-ATAGGAATATAAAAGATTAAAAACT-ATTAAT
1 TTTGAAATCTTTT-ATATCCCTATGGATA-CCTATAGGAATATAAAAAATTAAAAA-TAATTAAT
* *
1690613 ATTTATTTATTTTTGAAAAAAAAAT-CATTTCATACCTTAATGGATACCTAAAAAGATACGAAAA
63 ATTTATTTATTTTTGAAAAAAAAATACATTTCATACCTTAATAGATACCCAAAAAGATACGAAAA
1690677 GTT
128 GTT
* * * * *
1690680 TTTTAAATCTTTTATATCCCTACGGATACCTATAAGAATATAAAAAACTT-AAAATGATAAATAT
1 TTTGAAATCTTTTATATCCCTATGGATACCTATAGGAATATAAAAAA-TTAAAAATAATTAATAT
* * * * *
1690744 TTATTTATTTTTTAAAAAAAAATATATTTCGTACCTTAATAGATACCCGAAAAGATATGAAAAGT
65 TTATTTATTTTTGAAAAAAAAATACATTTCATACCTTAATAGATACCCAAAAAGATACGAAAAGT
1690809 T
130 T
*
1690810 TTTGAAATCTTTTATATCCCTATGGATA-CTCATAGGAATATAAAAAATTAAAAATAATTAACAT
1 TTTGAAATCTTTTATATCCCTATGGATACCT-ATAGGAATATAAAAAATTAAAAATAATTAATAT
*
1690874 TTGTTTA
65 TTATTTA
1690881 AATTAACGGG
Statistics
Matches: 175, Mismatches: 20, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
128 3 0.02
129 64 0.37
130 108 0.62
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (130 bp):
TTTGAAATCTTTTATATCCCTATGGATACCTATAGGAATATAAAAAATTAAAAATAATTAATATT
TATTTATTTTTGAAAAAAAAATACATTTCATACCTTAATAGATACCCAAAAAGATACGAAAAGTT
Found at i:1691140 original size:127 final size:130
Alignment explanation
Indices: 1690908--1691171 Score: 410
Period size: 127 Copynumber: 2.1 Consensus size: 130
1690898 TTTAATATTA
* *
1690908 TTTATTTATTTTTGGAAAAAAATCATTTCCTATCTTAATGGATACCCGAAAAGATACGAAAAGTT
1 TTTATTTATGTTTGGAAAAAAATCATTTCCTACCTTAATGGATACCCGAAAAGATACGAAAAGTT
*
1690973 TTTCAGAATCTTATATACCCCTACGAATACCCATAGGAATATAAAAGATTAAAAAA-TATTAGAT
66 TTTCAGAATCTTATATACCCCTACGAATACCCATAAGAATATAAAAGATTAAAAAATTATTA-AT
1691037 G
130 G
* **
1691038 TTTATTTATGTTTGG-AAAAAATCATTTCGTACCTTAATGGATACTTG-AAAGATACGAAAAGTT
1 TTTATTTATGTTTGGAAAAAAATCATTTCCTACCTTAATGGATACCCGAAAAGATACGAAAAGTT
* * *
1691101 TTTGA-AATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATTATTAATG
66 TTTCAGAATCTTATATACCCCTACGAATACCCATAAGAATATAAAAGATTAAAAAATTATTAATG
1691165 TTTATTT
1 TTTATTT
1691172 TAATTATCGA
Statistics
Matches: 124, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
127 57 0.46
128 25 0.20
129 28 0.23
130 14 0.11
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (130 bp):
TTTATTTATGTTTGGAAAAAAATCATTTCCTACCTTAATGGATACCCGAAAAGATACGAAAAGTT
TTTCAGAATCTTATATACCCCTACGAATACCCATAAGAATATAAAAGATTAAAAAATTATTAATG
Found at i:1691143 original size:291 final size:294
Alignment explanation
Indices: 1690612--1691335 Score: 987
Period size: 292 Copynumber: 2.5 Consensus size: 294
1690602 AAACTATTAA
* **
1690612 TATTTATTTATTTTTGAAAAAAAAATCATTTCATACCTTAATGGATACCTAAAAAGATACGAAAA
1 TATTTATTTATTTTTG-GAAAAAAATCATTTCATACCTTAATGGATACCCGAAAAGATACGAAAA
* * * * *
1690677 GTTTTTTAAATCTTTTATATCCCTACGGATACCTATAAGAATATAAAAAACTT--AAAATGATAA
65 GTTTTTCAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGA-TTAAAAAAT-ATTA
* * * *
1690740 ATATTTATTTATTTTTTAAAAAAAAATATATTTCGTACCTTAATAGATACCCGAAAAGATATGAA
128 ATGTTTATTTATTGTTTAAAAAAAAATACATTTCGTACCTTAATAGATACCCGAAAAGATACGAA
* * * *
1690805 AAGTTTTTGAAATCTTTTATATCCCTATGGATACTCATAGGAATATAAAAAATT-AAAAATAATT
193 AAGTTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAAATTAAAAAATAATT
*
1690869 AACATTTGTTTAAATTAACG-GGGAGTGAATTTAATAT
258 AACATTTATTTAAATTAACGAGGG-GTGAATTTAATAT
* *
1690906 TATTTATTTATTTTTGGAAAAAAATCATTTCCTATCTTAATGGATACCCGAAAAGATACGAAAAG
1 TATTTATTTATTTTTGGAAAAAAATCATTTCATACCTTAATGGATACCCGAAAAGATACGAAAAG
* * *
1690971 TTTTTCAGAATCTTATATACCCCTACGAATACCCATAGGAATATAAAAGATTAAAAAATATTAGA
66 TTTTTCA-AATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATATTA-A
** * **
1691036 TGTTTATTTA-TGTTT-GGAAAAAAT-CATTTCGTACCTTAATGGATACTTG-AAAGATACGAAA
129 TGTTTATTTATTGTTTAAAAAAAAATACATTTCGTACCTTAATAGATACCCGAAAAGATACGAAA
* *
1691097 AGTTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATTATTA
194 AGTTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAAATTAAAAAATAATTA
** * *
1691162 ATGTTTATTTTAATTATCGAGGGGTGAATTTAATAT
259 ACATTTATTTAAATTAACGAGGGGTGAATTTAATAT
* * *
1691198 TATTTGTTTATTTTTGGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAG
1 TATTTATTTATTTTTGGAAAAAAATCATTTCATACCTTAATGGATACCCGAAAAGATACGAAAAG
* *
1691263 TTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGACTAAAAAATTATTAAT
66 TTTTTCAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAA-TATTAAT
1691328 GTTTATTT
130 GTTTATTT
1691336 TAATTATCGA
Statistics
Matches: 381, Mismatches: 42, Indels: 17
0.87 0.10 0.04
Matches are distributed among these distances:
291 115 0.30
292 130 0.34
293 62 0.16
294 59 0.15
295 15 0.04
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (294 bp):
TATTTATTTATTTTTGGAAAAAAATCATTTCATACCTTAATGGATACCCGAAAAGATACGAAAAG
TTTTTCAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATATTAATG
TTTATTTATTGTTTAAAAAAAAATACATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAG
TTTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAAATTAAAAAATAATTAAC
ATTTATTTAAATTAACGAGGGGTGAATTTAATAT
Found at i:1691278 original size:164 final size:164
Alignment explanation
Indices: 1691042--1691491 Score: 814
Period size: 164 Copynumber: 2.8 Consensus size: 164
1691032 TAGATGTTTA
* *
1691042 TTTATGTTTGG-AAAAAATCATTTCGTACCTTAATGGATACTTG-AAAGATACGAAAAGTTTTTG
1 TTTATTTTTGGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAGTTTTTG
1691105 AAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATTATTAATGTTTAT
66 AAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATTATTAATGTTTAT
1691170 TTTAATTATCGAGGGGTGAATTTAATATTATTTG
131 TTTAATTATCGAGGGGTGAATTTAATATTATTTG
1691204 TTTATTTTTGGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAGTTTTTG
1 TTTATTTTTGGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAGTTTTTG
*
1691269 AAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGACTAAAAAATTATTAATGTTTAT
66 AAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATTATTAATGTTTAT
1691334 TTTAATTATCGAGGGGTGAATTTAATATTATTTG
131 TTTAATTATCGAGGGGTGAATTTAATATTATTTG
1691368 TTTATTTTTGGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAGTTTTTG
1 TTTATTTTTGGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAGTTTTTG
* * * * *
1691433 AAATCTTTTATACTCCTACGGATACTCATAGGAATATAAAAGATTTAAAAATGATTAAT
66 AAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATTATTAAT
1691492 ATTAAAATAT
Statistics
Matches: 277, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
162 10 0.04
163 31 0.11
164 236 0.85
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (164 bp):
TTTATTTTTGGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAGTTTTTG
AAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAAATTATTAATGTTTAT
TTTAATTATCGAGGGGTGAATTTAATATTATTTG
Found at i:1692489 original size:15 final size:15
Alignment explanation
Indices: 1692451--1692489 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1692441 TTTGTCTTTC
*
1692451 TTCATTTATTTGATT
1 TTCATTAATTTGATT
*
1692466 TTCTTTTAATTTGATT
1 TTC-ATTAATTTGATT
1692482 TTCATTAA
1 TTCATTAA
1692490 ATTTTGTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (15 bp):
TTCATTAATTTGATT
Found at i:1692492 original size:16 final size:16
Alignment explanation
Indices: 1692458--1692493 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1692448 TTCTTCATTT
* *
1692458 ATTTGATTTTCTTTTA
1 ATTTGATTTTCATTAA
1692474 ATTTGATTTTCATTAA
1 ATTTGATTTTCATTAA
1692490 ATTT
1 ATTT
1692494 TGTTAGACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (16 bp):
ATTTGATTTTCATTAA
Found at i:1693785 original size:155 final size:156
Alignment explanation
Indices: 1693584--1693903 Score: 389
Period size: 155 Copynumber: 2.1 Consensus size: 156
1693574 CTAAGTTCTA
* *
1693584 AAAAAATTACTAAAATACCCCTAGAGGTATACCTTTGACATAAAAGTATCCCGACAACCCTAAAG
1 AAAAAATTACTAAAATACCCCTAGAGGGATACCTTCGACATAAAAGTATCCCGACAACCCTAAAG
* * * *
1693649 GACAT-AAAAAGACTCATA-AGGGGATGAACCTATTCTAAATGCCAACCTAT-GGCATAAAAGTG
66 GACATAAAAAAGACT-AGAGAGGGGATGAACCTATCCTAAAT-CCAACCT-TCGACATAAAAGCG
*
1693711 GACCCGGTGATGACCTAAGAGTTGGTTTT
128 AACCCGGTGATGACCTAAGAGTTGGTTTT
* * * * ** *
1693740 AAAAAATTA-TAAAAATGCCCCTAG-GGGATACCTTCGACGTGAAAGTATCTCGGTACCCCTAAA
1 AAAAAATTACT-AAAATACCCCTAGAGGGATACCTTCGACATAAAAGTATCCCGACAACCCTAAA
* * *
1693803 GGACTTAAAAAAGACTAGAGATGGGATGAACCTATCCTAAATCCCACCTTCGACATAAAAGCGAA
65 GGACATAAAAAAGACTAGAGAGGGGATGAACCTATCCTAAATCCAACCTTCGACATAAAAGCGAA
* *
1693868 CTCGGTGATGACCTAGGAGTTGGTTTT
130 CCCGGTGATGACCTAAGAGTTGGTTTT
*
1693895 AGAAAATTA
1 AAAAAATTA
1693904 AACTTGTGAA
Statistics
Matches: 140, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
154 1 0.01
155 89 0.64
156 50 0.36
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (156 bp):
AAAAAATTACTAAAATACCCCTAGAGGGATACCTTCGACATAAAAGTATCCCGACAACCCTAAAG
GACATAAAAAAGACTAGAGAGGGGATGAACCTATCCTAAATCCAACCTTCGACATAAAAGCGAAC
CCGGTGATGACCTAAGAGTTGGTTTT
Found at i:1695067 original size:312 final size:309
Alignment explanation
Indices: 1694414--1695112 Score: 705
Period size: 312 Copynumber: 2.3 Consensus size: 309
1694404 GGTAACTACT
* * * * * *
1694414 AGGTCCGTTTTTATGCCAAAGGTGGGTATTTAGGATATGTTCATTCCTTTTATA-ACCTTTTT-A
1 AGGTCTGTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAA
* * * * *
1694477 TGTTCTTTAGGGGTATCGGTACTTCTACGTCAAATGTATCCCCTAGGGGCATTCTCATAATTTTT
66 T-TCCTTTAGGGGTATCGGTACTTCAACGTCAAAGGTATCCCATAAGGGCATTCTCATAATTTTT
* * * ** * *
1694542 TAGAACCAAGTCTTAGATTGTCACCAGGTTCGCTTTTATGCTGAAGGTGGGCATTTAGGAGAGGT
130 TAAAACCAACTCCTAGATCATCACCAGGTCCGCTTTTATGCTGAAGGTGGCCATTTAGGAGAGGT
* * * *
1694607 TCATCCCTTTTATAGTCCTTTTTAAGTCTTTTAGGGGTATCAGGTACTTCAACGTCGAAGGTATC
195 TCATCCCATATATAGTCCTTTTTAAGTCTTTTAGGGGTATCAGGAACTTCAACGTCAAAGGTATC
* * * * ** * * * * *
1694672 CCCTGGGGGCATTCTCGTAATTTTTTTGAACTAAGTCTTAGGTTGTCACT
260 CCATAGGGGCATTCTCATAATTTTCTAAAACCAACTCCTAGGTCGTCACG
* * *
1694722 AGGTCTGCTTTTATGACGAAGGTGCGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAA
1 AGGTCTGTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAA
* * * *
1694787 TTCCTTTAGGGGTATCGGGTACTTCAATGTCGAAGGTATACCTATAAGGGCATTTTCATAATTTT
66 TTCCTTTAGGGGTATC-GGTACTTCAACGTCAAAGGTAT-CCCATAAGGGCATTCTCATAATTTT
* * * *
1694852 TCTAAAACCAACTCCTAGGTCATTACC-GAGTCCGTTTTTATGAC-GAAGGT-GCCATTTAGGAT
129 T-TAAAACCAACTCCTAGATCATCACCAG-GTCCGCTTTTATG-CTGAAGGTGGCCATTTAGGAG
* * * * ***
1694914 AGGTTCATCCCATATCTAGT-CTTTTTAAGTCTTTTAGGGTTTTCGGGAAACTTGTTCGTCAAAG
191 AGGTTCATCCCATATATAGTCCTTTTTAAGTCTTTTAGGGGTATCAGG-AACTTCAACGTCAAAG
** *
1694978 GTATACTTATAGGGGTAGTT-TCATAATTTTCTAAAACCAACTCCTAGGTCGTCACCG
255 GTAT-CCCATAGGGGCA-TTCTCATAATTTTCTAAAACCAACTCCTAGGTCGTCA-CG
* * * *
1695035 A-GT-TAGTTTTTATGCCGAAGGTGGGCATTTAGGATAGATTCATCCCATCTCTAGTCCTTTTTA
1 AGGTCT-GTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTA
*
1695098 AGTCCTTTAGGGGTA
65 ATTCCTTTAGGGGTA
1695113 CCAAGATACT
Statistics
Matches: 317, Mismatches: 62, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
308 46 0.15
309 21 0.07
310 44 0.14
311 66 0.21
312 135 0.43
313 5 0.02
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (309 bp):
AGGTCTGTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAA
TTCCTTTAGGGGTATCGGTACTTCAACGTCAAAGGTATCCCATAAGGGCATTCTCATAATTTTTT
AAAACCAACTCCTAGATCATCACCAGGTCCGCTTTTATGCTGAAGGTGGCCATTTAGGAGAGGTT
CATCCCATATATAGTCCTTTTTAAGTCTTTTAGGGGTATCAGGAACTTCAACGTCAAAGGTATCC
CATAGGGGCATTCTCATAATTTTCTAAAACCAACTCCTAGGTCGTCACG
Found at i:1695160 original size:156 final size:155
Alignment explanation
Indices: 1694420--1695308 Score: 732
Period size: 155 Copynumber: 5.7 Consensus size: 155
1694410 TACTAGGTCC
* * * * * * *
1694420 GTTTTTATGCCAAAGGTGGGTATTTAGGATATGTTCATTCCTTTTATA-ACCTTTTTATGTTCTT
1 GTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* * *
1694484 TAGGGGTATC-GGTACTTCTACGTC-AAATGTAT-CCCCTAGGGGCATTCTCATAATTTTTTAGA
66 TAGGGGTATCAGATACTTCAACGTCGAAA-GTATACCCCTAGGGGCATT-TCATAATTTTCTAGA
* * * * *
1694546 ACCAAGTCTTAGATTGTCACCAGGTTC
129 ACCAACTCCTAGGTCGTCACCAGGTTA
* * * *
1694573 GCTTTTATGCTGAAGGTGGGCATTTAGGAGAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCTTT
1 GTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* * * * * *
1694638 TAGGGGTATCAGGTACTTCAACGTCGAAGGTAT-CCCCTGGGGGCATTCTCGTAATTTTTTTGAA
66 TAGGGGTATCAGATACTTCAACGTCGAAAGTATACCCCTAGGGGCATT-TCATAATTTTCTAGAA
* * * * *
1694702 CTAAGTCTTAGGTTGTCACTAGGTCT-
130 CCAACTCCTAGGTCGTCACCAGGT-TA
* * * *
1694728 GCTTTTATGACGAAGGTGCGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAATTCCTT
1 GTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* * * * ** * *
1694793 TAGGGGTATCGGGTACTTCAATGTCGAAGGTATACCTATAAGGGCATTTTCATAATTTTTCTAAA
66 TAGGGGTATCAGATACTTCAACGTCGAAAGTATACCCCTAGGGGCA-TTTCATAA-TTTTCTAGA
* * **
1694858 ACCAACTCCTAGGTCATTACC-GAGTCC
129 ACCAACTCCTAGGTCGTCACCAG-GTTA
* * * * * *
1694885 GTTTTTATGACGAAGGT-GCCATTTAGGATAGGTTCATCCCATATCTAGT-CTTTTTAAGTCTTT
1 GTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* * * * *** *** * *
1694948 TAGGGTTTTCGGGAAACTTGTTCGTC-AAAGGTATACTTATAGGGGTAGTTTCATAATTTTCTAA
66 TAGGGGTATC-AGATACTTCAACGTCGAAA-GTATACCCCTAGGGGCA-TTTCATAATTTTCTAG
1695012 AACCAACTCCTAGGTCGTCACC-GAGTTA
128 AACCAACTCCTAGGTCGTCACCAG-GTTA
* * * *
1695040 GTTTTTATGCCGAAGGTGGGCATTTAGGATAGATTCATCCCATCTCTAGTCCTTTTTAAGTCCTT
1 GTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* * * *
1695105 TAGGGGTACCAAGATACTTTC-ACCTCGAAAGTAT-CCCCTAGGGGCAATTTTATAATTTT-TGG
66 TAGGGGTATC-AGATAC-TTCAACGTCGAAAGTATACCCCTAGGGGC-ATTTCATAATTTTCTAG
*
1695167 AACCAACTCGTAGGTCGTCACCAGGTCTA
128 AACCAACTCCTAGGTCGTCACCAGGT-TA
* ** * *
1695196 -TTTTTATGCCGAAAGAAGGCATTTAGGATAGGTTCATCCC-TTTATGAGT-TTTTTTAAGTTCT
1 GTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTAT-AGTCCTTTTTAAGTCCT
* ** * ** * *
1695258 TTAGGGTTGCCGTGATACTTTTACGTCAAAAGGATACCCCTAGGGGCATTT
65 TTAGGGGTATC-AGATACTTCAACGTCGAAAGTATACCCCTAGGGGCATTT
1695309 TGGTAATTTT
Statistics
Matches: 609, Mismatches: 106, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
153 43 0.07
154 64 0.11
155 300 0.49
156 125 0.21
157 72 0.12
158 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (155 bp):
GTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
TAGGGGTATCAGATACTTCAACGTCGAAAGTATACCCCTAGGGGCATTTCATAATTTTCTAGAAC
CAACTCCTAGGTCGTCACCAGGTTA
Found at i:1697470 original size:156 final size:154
Alignment explanation
Indices: 1697122--1697812 Score: 601
Period size: 156 Copynumber: 4.5 Consensus size: 154
1697112 CTTTTATAAC
* * ** * * **
1697122 CTTTTAAAGTTCTTTAAGGGTGTCGGG-TACTTCTACGTCAAAGGTATCTCCTAAGGGCATCCTT
1 CTTTTTAAG-TCTTTAGGGGTACCGGGATACTTTTACGTCGAAGGTATCTCCTAAGGGCATTTTT
* * * * ** * *
1697186 GTAATTTTTTAGAGCCAAGTCTTAGATTGTCACC-GAGTTCGCTTTTATGTCGAAGGTGGGCATT
65 GTAATTTTTTAGAACCAACTCCTAGGTCATCACCAG-GCTCGCTTTTATGCCGAAGGTGGGCATT
* * * *
1697250 TATGATAAGTTCATCCCTTTTATAGT
129 TAGGATAGGTTCATCCCATCTATAGT
* * * *
1697276 CTTTTTTAAGTTCTTTAGGGGTATCAGG-TACTTCTACGTCGAAGGTATCTCCTAAGGGTATTTT
1 C-TTTTTAAG-TCTTTAGGGGTACCGGGATACTTTTACGTCGAAGGTATCTCCTAAGGGCATTTT
* *
1697340 TGTAATTTTTCTAGAACCAACTCCTATGTCATCACCAGGCTCGGC-TTTATGCCGGAGGTGGGCA
64 TGTAATTTTT-TAGAACCAACTCCTAGGTCATCACCAGGCTC-GCTTTTATGCCGAAGGTGGGCA
*
1697404 TTTAGGATAGGTTCATCCCATCTCTAGT
127 TTTAGGATAGGTTCATCCCATCTATAGT
* *** * *
1697432 CTTTTTAAGTCATTTAGGGTTGTTGGGAAACTTTTACGTCGAAGGTAT-TCCTATAGGGGTATTT
1 CTTTTTAAGTC-TTTAGGGGTACCGGGATACTTTTACGTCGAAGGTATCTCCTA-A-GGGCATTT
** * * * *
1697496 TCATAATTTTTTAGAACCAACTCCTAGGTCATCACTAGGTTCGCTTTTATGCCAAATGTGGGCAT
63 TTGTAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGCTCGCTTTTATGCCGAAGGTGGGCAT
1697561 TTAGGATAGGTTCAT--C--C--TA--
128 TTAGGATAGGTTCATCCCATCTATAGT
* * * * * *
1697580 -TTTCT-AGTCCTTCAGGGGTACCGAGATACTTTCACATCGAAGGTATCCCCTAAGGGCATTTTT
1 CTTTTTAAGT-CTTTAGGGGTACCGGGATACTTTTACGTCGAAGGTATCTCCTAAGGGCATTTTT
* * *
1697643 GTAATTTTTTAGAATCAACTCCTAGGTCATCACCGAGTC-CAG-TTTTATGCCGAAGGTTGGCAT
65 GTAATTTTTTAGAACCAACTCCTAGGTCATCACC-AGGCTC-GCTTTTATGCCGAAGGTGGGCAT
*
1697706 TTAGGATAGGTTCATCCCCT-TATAAGT
128 TTAGGATAGGTTCATCCCATCTAT-AGT
* * * * * *
1697733 CTTTTTAAGTCTTTTAGGGTTGCCGGGATAC-TTTACATCAAAGGTATACCCCTACGGGCATTTT
1 CTTTTTAAGTC-TTTAGGGGTACCGGGATACTTTTACGTCGAAGGTAT-CTCCTAAGGGCATTTT
*
1697797 AGTAATTTTCTTAGAA
64 TGTAATTTT-TTAGAA
1697813 ATTAGTCTTA
Statistics
Matches: 443, Mismatches: 67, Indels: 52
0.79 0.12 0.09
Matches are distributed among these distances:
145 73 0.16
146 34 0.08
147 10 0.02
150 3 0.01
151 1 0.00
152 1 0.00
154 23 0.05
155 131 0.30
156 147 0.33
157 20 0.05
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (154 bp):
CTTTTTAAGTCTTTAGGGGTACCGGGATACTTTTACGTCGAAGGTATCTCCTAAGGGCATTTTTG
TAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGCTCGCTTTTATGCCGAAGGTGGGCATTTA
GGATAGGTTCATCCCATCTATAGT
Found at i:1697860 original size:301 final size:302
Alignment explanation
Indices: 1697314--1697873 Score: 682
Period size: 301 Copynumber: 1.9 Consensus size: 302
1697304 TACTTCTACG
* * *
1697314 TCGAAGGTATCTCCTAAGGGTATTTTTGTAATTTTTCTAGAACCAACTCCTATGTCATCACCAGG
1 TCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTCTAGAACCAACTCCTAGGTCATCACCAGG
* * *
1697379 CTCGGCTTTATGCCGGAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAAGTCA
66 CTCAGCTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTATAGTCTTTTTAAGTCA
** * * * * * *
1697444 TTTAGGGTTGTTGGGAAACTTTTACGTCGAAGGTATTCCTATAGGGGTATTTTCATAATTTTTTA
131 TTTAGGGTTGCCGGGAAACTTTTACATCAAAGGTATACCCATACGGGCATTTTCATAATTTTTTA
* * * * * * * * * *
1697509 GAACCAACTCCTAGGTCATCACTAGGTTCGCTTTTATGCCAAATGTGGGCATTTAGGATAGGTTC
196 GAAACAACTCCTAGATAACCACGAGGTCCACTTTTACGCCAAAGGTGGGCATTGAGGATAGGTTC
1697574 ATCCTATTTCTAGTCCTTCAGGGGTACCGAGATACTTTCACA
261 ATCCTATTTCTAGTCCTTCAGGGGTACCGAGATACTTTCACA
*
1697616 TCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTT-TAGAATCAACTCCTAGGTCATCACCGAG
1 TCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTCTAGAACCAACTCCTAGGTCATCACC-AG
* * * *
1697680 TC-CAGTTTTATGCCGAAGGTTGGCATTTAGGATAGGTTCATCCCCT-TATAAGTCTTTTTAAGT
65 GCTCAGCTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTAT-AGTCTTTTTAAGT
* * *
1697743 CTTTTAGGGTTGCCGGGATAC-TTTACATCAAAGGTATACCCCTACGGGCATTTT-AGTAATTTT
129 CATTTAGGGTTGCCGGGAAACTTTTACATCAAAGGTATACCCATACGGGCATTTTCA-TAATTTT
** * * * * *
1697806 CTTAGAAATTAGTCTTAGATAACCACCGA-GTCCACTTTTACGTCAAGGGTGGGCATTGAGGGTA
193 -TTAGAAACAACTCCTAGATAACCA-CGAGGTCCACTTTTACGCCAAAGGTGGGCATTGAGGATA
1697870 GGTT
256 GGTT
1697874 TGCCTTTTCA
Statistics
Matches: 214, Mismatches: 39, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
299 1 0.00
300 35 0.16
301 139 0.65
302 39 0.18
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (302 bp):
TCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTCTAGAACCAACTCCTAGGTCATCACCAGG
CTCAGCTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTATAGTCTTTTTAAGTCA
TTTAGGGTTGCCGGGAAACTTTTACATCAAAGGTATACCCATACGGGCATTTTCATAATTTTTTA
GAAACAACTCCTAGATAACCACGAGGTCCACTTTTACGCCAAAGGTGGGCATTGAGGATAGGTTC
ATCCTATTTCTAGTCCTTCAGGGGTACCGAGATACTTTCACA
Found at i:1701227 original size:13 final size:13
Alignment explanation
Indices: 1701209--1701240 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1701199 ATTGGTGAGA
1701209 AAGAAGGAAGAAG
1 AAGAAGGAAGAAG
*
1701222 AAGAAGGAAGAAT
1 AAGAAGGAAGAAG
1701235 AAGAAG
1 AAGAAG
1701241 ATGAAAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (13 bp):
AAGAAGGAAGAAG
Found at i:1705046 original size:33 final size:33
Alignment explanation
Indices: 1704981--1705046 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
1704971 AAATTCCCAG
* *
1704981 ATGTATCGATACAAAGATCAATTTATCGATACA
1 ATGTATCGATACAAAGATCAATGTATCAATACA
**
1705014 ATGTATCGATACATTGAAT-AATGTATCAATACA
1 ATGTATCGATACAAAG-ATCAATGTATCAATACA
1705047 TTTCCTTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCAATACA
Found at i:1706607 original size:43 final size:45
Alignment explanation
Indices: 1706546--1706636 Score: 159
Period size: 43 Copynumber: 2.1 Consensus size: 45
1706536 CTCCAACCCC
1706546 ATTTTTTAATCAAAAATTAAATCA-TTT-TCTCTCCCAAAGTTTG
1 ATTTTTTAATCAAAAATTAAATCATTTTCTCTCTCCCAAAGTTTG
*
1706589 ATTTTTTAATCAAAAATTAAATCATTTTCTCTCTCCCGAAGTTTG
1 ATTTTTTAATCAAAAATTAAATCATTTTCTCTCTCCCAAAGTTTG
1706634 ATT
1 ATT
1706637 CATTCTATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 24 0.53
44 3 0.07
45 18 0.40
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.45
Consensus pattern (45 bp):
ATTTTTTAATCAAAAATTAAATCATTTTCTCTCTCCCAAAGTTTG
Found at i:1706615 original size:23 final size:23
Alignment explanation
Indices: 1706545--1706616 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
1706535 ACTCCAACCC
1706545 CATTTTTTAATCAAAAATTAAAT
1 CATTTTTTAATCAAAAATTAAAT
* * * *
1706568 CATTTTCT-CTCCCAAAGTT---T
1 CATTTTTTAAT-CAAAAATTAAAT
*
1706588 GATTTTTTAATCAAAAATTAAAT
1 CATTTTTTAATCAAAAATTAAAT
1706611 CATTTT
1 CATTTT
1706617 CTCTCTCCCG
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 13 0.38
21 1 0.03
22 1 0.03
23 19 0.56
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.46
Consensus pattern (23 bp):
CATTTTTTAATCAAAAATTAAAT
Done.