Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 133 of 195
Found at i:22433622 original size:83 final size:83
Alignment explanation
Indices: 22433489--22433812 Score: 289
Period size: 84 Copynumber: 3.9 Consensus size: 83
22433479 GACCTTGGAC
** * * *
22433489 ATAATCACCAAGTCCTCCAAATAAGATTCATAAG-TCTTCTAAGCTGAATTTGTTTTAGAGTAGA
1 ATAATCACCAAGTCCTCTGAATAAGATTCGTAAGTTTTTC-AAGCTAAATTTGTTTTAGAGTAGA
**
22433553 GATTTGTAAGACTCCCAAA
65 GATTTGTAAGACTCCCAGT
* * *
22433572 ATAATCACCAAGTTCTCTGGATAAGATTCGTAAGTTTTTCGAGCTAAATTTGTTTTAGAGTTA-A
1 ATAATCACCAAGTCCTCTGAATAAGATTCGTAAGTTTTTCAAGCTAAATTTGTTTTAGAG-TAGA
* *
22433636 GATTTGTAAGACCTTCGAGT
65 GATTTGTAAGA-CTCCCAGT
* * * * * * * *
22433656 ATAATCTCCAAGTCCTCT-AAGTAAGATTTGTTAGTCTTTT-GAGTTGAATCTGTTTTAGAGTCG
1 ATAATCACCAAGTCCTCTGAA-TAAGATTCGTAAGT-TTTTCAAGCTAAATTTGTTTTAGAGTAG
*
22433719 AGATTTGTAAAAC-CTCCAGGT
64 AGATTTGTAAGACTC-CCA-GT
* * *** * * *
22433740 ATAATCTCCAAGTCCTTTGGGCAATATTCGTAAGTTTTTCAAGTTAAATTTTTTTTAGAGTAGAG
1 ATAATCACCAAGTCCTCTGAATAAGATTCGTAAGTTTTTCAAGCTAAATTTGTTTTAGAGTAGAG
22433805 ATTTGTAA
66 ATTTGTAA
22433813 AACTTCTGCT
Statistics
Matches: 195, Mismatches: 36, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
83 68 0.35
84 123 0.63
85 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (83 bp):
ATAATCACCAAGTCCTCTGAATAAGATTCGTAAGTTTTTCAAGCTAAATTTGTTTTAGAGTAGAG
ATTTGTAAGACTCCCAGT
Found at i:22433813 original size:84 final size:84
Alignment explanation
Indices: 22433535--22433815 Score: 302
Period size: 84 Copynumber: 3.4 Consensus size: 84
22433525 TTCTAAGCTG
* ** * * *
22433535 AATTTGTTTTAGAGTAGAGATTTGTAAGA-CTCCCA-AAATAATCACCAAGTTCTCTGGATAAGA
1 AATTTGTTTTAGAGTAGAGATTTGTAAAACCT-CCAGGTATAATCTCCAAGTCCTCTGGGTAAGA
*
22433598 TTCGTAAGTTTTTCGAGCTA
65 TTCGTAAGTTTTTCGAGTTA
* * **
22433618 AATTTGTTTTAGAGTTA-AGATTTGTAAGACCTTC-GAGTATAATCTCCAAGTCCTCTAAGTAAG
1 AATTTGTTTTAGAG-TAGAGATTTGTAAAACCTCCAG-GTATAATCTCCAAGTCCTCTGGGTAAG
* * *
22433681 ATTTGTTAGTCTTTT-GAGTTG
64 ATTCGTAAGT-TTTTCGAGTTA
* * * * *
22433702 AATCTGTTTTAGAGTCGAGATTTGTAAAACCTCCAGGTATAATCTCCAAGTCCTTTGGGCAATAT
1 AATTTGTTTTAGAGTAGAGATTTGTAAAACCTCCAGGTATAATCTCCAAGTCCTCTGGGTAAGAT
*
22433767 TCGTAAGTTTTTCAAGTTA
66 TCGTAAGTTTTTCGAGTTA
*
22433786 AATTTTTTTTAGAGTAGAGATTTGTAAAAC
1 AATTTGTTTTAGAGTAGAGATTTGTAAAAC
22433816 TTCTGCTCAT
Statistics
Matches: 162, Mismatches: 28, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
83 32 0.20
84 125 0.77
85 5 0.03
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (84 bp):
AATTTGTTTTAGAGTAGAGATTTGTAAAACCTCCAGGTATAATCTCCAAGTCCTCTGGGTAAGAT
TCGTAAGTTTTTCGAGTTA
Found at i:22434421 original size:17 final size:17
Alignment explanation
Indices: 22434401--22434434 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22434391 AACTTTAATC
*
22434401 TTAATTTTTTTTTTGGT
1 TTAATTTTTTTTCTGGT
22434418 TTAATTTTTTTTCTGGT
1 TTAATTTTTTTTCTGGT
22434435 CAAAGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.74
Consensus pattern (17 bp):
TTAATTTTTTTTCTGGT
Found at i:22434427 original size:16 final size:18
Alignment explanation
Indices: 22434401--22434434 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
22434391 AACTTTAATC
22434401 TTAATTTTTTTTT-TGGT
1 TTAATTTTTTTTTCTGGT
22434418 TTAA-TTTTTTTTCTGGT
1 TTAATTTTTTTTTCTGGT
22434435 CAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.74
Consensus pattern (18 bp):
TTAATTTTTTTTTCTGGT
Found at i:22440430 original size:18 final size:17
Alignment explanation
Indices: 22440410--22440461 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
22440400 TTTTTTTAGT
22440410 TTTTTCTTTTCTTTTTC
1 TTTTTCTTTTCTTTTTC
*
22440427 TTTTACTTTTCGTTTTTC
1 TTTTTCTTTTC-TTTTTC
22440445 GTTTTT-TTTTCTATTTT
1 -TTTTTCTTTTCT-TTTT
22440462 ATTCTCACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 11 0.37
18 15 0.50
19 4 0.13
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTTC
Found at i:22445585 original size:14 final size:14
Alignment explanation
Indices: 22445566--22445595 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22445556 TTGAAAAAAT
22445566 AAATAAGAGAATAG
1 AAATAAGAGAATAG
*
22445580 AAATAATAGAATAG
1 AAATAAGAGAATAG
22445594 AA
1 AA
22445596 TTTTGGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (14 bp):
AAATAAGAGAATAG
Found at i:22449610 original size:16 final size:16
Alignment explanation
Indices: 22449591--22449621 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22449581 GATAAAACCC
22449591 AAAAAATAAATAAATT
1 AAAAAATAAATAAATT
*
22449607 AAAATATAAATAAAT
1 AAAAAATAAATAAAT
22449622 AAGTAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATAAATAAATT
Found at i:22449650 original size:23 final size:24
Alignment explanation
Indices: 22449594--22449639 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
22449584 AAAACCCAAA
*
22449594 AAATAAATAAATTAAAATATAAAT
1 AAATAAGTAAATTAAAATATAAAT
22449618 AAATAAGTAAA-TAAAATATAAA
1 AAATAAGTAAATTAAAATATAAA
22449640 ATAATGAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (24 bp):
AAATAAGTAAATTAAAATATAAAT
Found at i:22449909 original size:41 final size:41
Alignment explanation
Indices: 22449863--22450197 Score: 241
Period size: 43 Copynumber: 7.8 Consensus size: 41
22449853 CCCTAAGCAA
* *
22449863 AGGCTC-ATCTTTCAAAAAATAAATAAAGCTCCTCTAAATAG
1 AGGCTCAATCTTT-GAAAAATAAATAAAGCTCCTCTAAACAG
* * *
22449904 AGGCTCAACAACTTTTTTGGAAAATAAATAAGGCTCCTCTAAACAG
1 AGGCT---CAA--TCTTTGAAAAATAAATAAAGCTCCTCTAAACAG
* * * *
22449950 AGGCTTAACGACTTT--AAAATAAATAAAGCTTCTCTAAACAA
1 AGGCTCAA--TCTTTGAAAAATAAATAAAGCTCCTCTAAACAG
*
22449991 AGGCTCAATAACTTTGAAAAATAAATAAGGCTCCTCTAAACAG
1 AGGCTCAAT--CTTTGAAAAATAAATAAAGCTCCTCTAAACAG
* * * * *
22450034 AGGCTCAAATTACTTTTGGAAAAGAAATAAAACACCTTTAAACAG
1 AGGCTC-AA-T-C-TTTGAAAAATAAATAAAGCTCCTCTAAACAG
* *
22450079 AGGCTTAATGACTTTGAAAAATAAATAAGGCTCCTCTAAACAG
1 AGGCTCAAT--CTTTGAAAAATAAATAAAGCTCCTCTAAACAG
* *
22450122 AGGGTCAATGACTTT--AAAATAAAT-AAGACTTCTCTAAACAG
1 AGGCTCAAT--CTTTGAAAAATAAATAAAG-CTCCTCTAAACAG
* * *
22450163 AGGCTCAACAACTTTGAGAAATAAATAAGGCTCCT
1 AGGCTC-A-ATCTTTGAAAAATAAATAAAGCTCCT
22450198 TTAAGTCAAG
Statistics
Matches: 235, Mismatches: 39, Indels: 38
0.75 0.12 0.12
Matches are distributed among these distances:
40 2 0.01
41 69 0.29
42 1 0.00
43 87 0.37
44 11 0.05
45 32 0.14
46 29 0.12
47 4 0.02
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (41 bp):
AGGCTCAATCTTTGAAAAATAAATAAAGCTCCTCTAAACAG
Found at i:22450216 original size:84 final size:84
Alignment explanation
Indices: 22449878--22450232 Score: 410
Period size: 84 Copynumber: 4.1 Consensus size: 84
22449868 CATCTTTCAA
* *
22449878 AAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTTTGGAAAATAAATAAGGCTCCTC
1 AAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAAC---TTTGAAAAATAAATAAGGCTCCTC
*
22449943 TAAACAGAGGCTTAACGACTTT
63 TAAACAGAGGCTTAATGACTTT
* * *
22449965 AAAATAAATAAAGCTTCTCTAAACAAAGGCTCAATAACTTTGAAAAATAAATAAGGCTCCTCTAA
1 AAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAA
* *
22450030 ACAGAGGCTCAAATTACTTTT
66 ACAGAGGCT-TAATGAC-TTT
* * * * * **
22450051 GGAAAAGAAATAAAACACCTTTAAACAGAGGCTTAATGACTTTGAAAAATAAATAAGGCTCCTCT
1 --AAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCT
* *
22450116 AAACAGAGGGTCAATGACTTT
64 AAACAGAGGCTTAATGACTTT
* * *
22450137 AAAATAAAT-AAGACTTCTCTAAACAGAGGCTCAACAACTTTGAGAAATAAATAAGGCTCCTTTA
1 AAAATAAATAAAG-CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTA
*
22450201 AGTCA-AGGCTTAATGACTTT
65 A-ACAGAGGCTTAATGACTTT
22450221 AAACA-AAATAAA
1 AAA-ATAAATAAA
22450233 TAAGGCTCCT
Statistics
Matches: 228, Mismatches: 32, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
83 2 0.01
84 107 0.47
85 9 0.04
86 6 0.03
87 39 0.17
88 65 0.29
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.25
Consensus pattern (84 bp):
AAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAA
ACAGAGGCTTAATGACTTT
Found at i:22450229 original size:129 final size:128
Alignment explanation
Indices: 22449877--22450243 Score: 442
Period size: 129 Copynumber: 2.8 Consensus size: 128
22449867 TCATCTTTCA
*
22449877 AAAAATAAATAA-AGCTCCTCTAAATAGAGGCTCAACAACTTTTTTGGAAAATAAATAAGGCTCC
1 AAAAATAAATAAGA-CTCCTCTAAACAGAGGCTCAACAAC--TTTTGGAAAATAAATAAGGCTCC
* * * *
22449941 TCTAAACAGAGGCTTAACGACTTT-AAAATAAATAAAGCTTCTCTAAACAAAGGCTCAATAACTT
63 TTTAAACAGAGGCTTAATGACTTTAAAAATAAATAAGGCTCCTCTAAACAAAGGCTCAATAACTT
22450005 T
128 T
* * ** *
22450006 GAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAA-ATTACTTTTGGAAAAGAAATAAAACACC
1 -AAAAATAAATAAGACTCCTCTAAACAGAGGCTCAACA--ACTTTTGGAAAATAAATAAGGCTCC
* * *
22450070 TTTAAACAGAGGCTTAATGACTTTGAAAAATAAATAAGGCTCCTCTAAACAGAGGGTCAATGACT
63 TTTAAACAGAGGCTTAATGACTTT-AAAAATAAATAAGGCTCCTCTAAACAAAGGCTCAATAACT
22450135 TT
127 TT
*
22450137 -AAAATAAATAAGACTTCTCTAAACAGAGGCTCAACAAC-TTT-GAGAAATAAATAAGGCTCCTT
1 AAAAATAAATAAGACTCCTCTAAACAGAGGCTCAACAACTTTTGGA-AAATAAATAAGGCTCCTT
*
22450199 TAAGTCA-AGGCTTAATGACTTTAAACAAAATAAATAAGGCTCCTC
65 TAA-ACAGAGGCTTAATGACTTT--A-AAAATAAATAAGGCTCCTC
22450244 AAAAATCATG
Statistics
Matches: 206, Mismatches: 21, Indels: 21
0.83 0.08 0.08
Matches are distributed among these distances:
126 2 0.01
127 35 0.17
128 5 0.02
129 93 0.45
130 33 0.16
131 38 0.18
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (128 bp):
AAAAATAAATAAGACTCCTCTAAACAGAGGCTCAACAACTTTTGGAAAATAAATAAGGCTCCTTT
AAACAGAGGCTTAATGACTTTAAAAATAAATAAGGCTCCTCTAAACAAAGGCTCAATAACTTT
Found at i:22453217 original size:18 final size:19
Alignment explanation
Indices: 22453194--22453229 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22453184 AAGCTTTTAT
22453194 CTTTTC-ATAGCTTGGTTA
1 CTTTTCTATAGCTTGGTTA
22453212 CTTTTCTATAGCTTGGTT
1 CTTTTCTATAGCTTGGTT
22453230 GCCAAGGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.53
Consensus pattern (19 bp):
CTTTTCTATAGCTTGGTTA
Found at i:22458565 original size:30 final size:30
Alignment explanation
Indices: 22458529--22458586 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22458519 GCATCCTATC
** *
22458529 CATATCAATGGATAGTACATGTATCCCACT
1 CATATCAATAAATAGTACATGCATCCCACT
*
22458559 CATATCAATAAATAGTATATGCATCCCA
1 CATATCAATAAATAGTACATGCATCCCA
22458587 TTTTATGCAC
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:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (30 bp):
CATATCAATAAATAGTACATGCATCCCACT
Found at i:22459946 original size:19 final size:19
Alignment explanation
Indices: 22459922--22459962 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
22459912 ATAAATACCA
*
22459922 TCTTGGCATCTCGAGCCAT
1 TCTTGGCATCGCGAGCCAT
22459941 TCTTGGCATCGCGAGCCAT
1 TCTTGGCATCGCGAGCCAT
22459960 TCT
1 TCT
22459963 CTGAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.32, G:0.22, T:0.32
Consensus pattern (19 bp):
TCTTGGCATCGCGAGCCAT
Found at i:22461763 original size:24 final size:25
Alignment explanation
Indices: 22461717--22461764 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
22461707 CCTCAAATAA
* * *
22461717 GTTCATTTCTATATGACCTTTTCTC
1 GTTCATTTCCATATAACCCTTTCTC
22461742 GTTCA-TTCCATATAACCCTTTCT
1 GTTCATTTCCATATAACCCTTTCT
22461765 TATAATAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.19, C:0.27, G:0.06, T:0.48
Consensus pattern (25 bp):
GTTCATTTCCATATAACCCTTTCTC
Found at i:22461877 original size:18 final size:18
Alignment explanation
Indices: 22461854--22461888 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22461844 GAGCATGTAA
22461854 AAAAATAATAA-AAAAAAC
1 AAAAATAA-AAGAAAAAAC
22461872 AAAAATAAAAGAAAAAA
1 AAAAATAAAAGAAAAAA
22461889 ATGAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.09
Consensus pattern (18 bp):
AAAAATAAAAGAAAAAAC
Found at i:22463415 original size:33 final size:33
Alignment explanation
Indices: 22463362--22463471 Score: 116
Period size: 33 Copynumber: 3.3 Consensus size: 33
22463352 CAAAAATTTT
* * *
22463362 TTTAAACCTAGCTTAACTAGCACTTGAAGAAAA
1 TTTAAGCCTAGTTTATCTAGCACTTGAAGAAAA
* *
22463395 TTTAAG-CTCAGTTTATCTAGCATTTGATGAAAA
1 TTTAAGCCT-AGTTTATCTAGCACTTGAAGAAAA
* *
22463428 TTTAAGCCTAGTTTATCTAGC-CTCTGATGAAGAT
1 TTTAAGCCTAGTTTATCTAGCACT-TGAAGAA-AA
22463462 TTTAAGCCTA
1 TTTAAGCCTA
22463472 ATCTATTTGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
32 3 0.05
33 50 0.76
34 13 0.20
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (33 bp):
TTTAAGCCTAGTTTATCTAGCACTTGAAGAAAA
Found at i:22463673 original size:15 final size:15
Alignment explanation
Indices: 22463653--22463681 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22463643 CGCATTCATA
22463653 CTTGCATTTGCATCT
1 CTTGCATTTGCATCT
22463668 CTTGCATTTGCATC
1 CTTGCATTTGCATC
22463682 ATGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (15 bp):
CTTGCATTTGCATCT
Found at i:22463761 original size:23 final size:25
Alignment explanation
Indices: 22463706--22463772 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 25
22463696 TTGCATTTTC
22463706 ATTTGCATTTGCATCA-AGGAAAAAGG
1 ATTTGCATTTGCATCACA-GAAAAA-G
22463732 CATTTGCATTTGCATCACA-AAAAA-
1 -ATTTGCATTTGCATCACAGAAAAAG
22463756 ATTTGCATTTGCATCAC
1 ATTTGCATTTGCATCAC
22463773 TTGCATCTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
23 17 0.44
26 5 0.13
27 16 0.41
28 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (25 bp):
ATTTGCATTTGCATCACAGAAAAAG
Found at i:22463787 original size:38 final size:40
Alignment explanation
Indices: 22463735--22463866 Score: 117
Period size: 44 Copynumber: 3.2 Consensus size: 40
22463725 AAAAAGGCAT
*
22463735 TTGCATTTGCATCACA-AAAAA-ATTTGCATTTGCATCAC
1 TTGCATTTGAATCACAGAAAAACATTTGCATTTGCATCAC
* * *
22463773 TTGCATCTGTATCACAAGGAACAAGACATTTGCATTTGCATCTC
1 TTGCATTTGAATCAC-A-GAA-AA-ACATTTGCATTTGCATCAC
* *
22463817 TTGTATTTGAATCA-AGAAAGAAGATATTCGCATTTGCATCAC
1 TTGCATTTGAATCACAGAAA-AACAT-TT-GCATTTGCATCAC
*
22463859 TTACATTT
1 TTGCATTT
22463867 ACACTTGTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
38 13 0.17
39 1 0.01
40 4 0.05
41 8 0.11
42 21 0.28
43 1 0.01
44 27 0.36
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (40 bp):
TTGCATTTGAATCACAGAAAAACATTTGCATTTGCATCAC
Found at i:22463804 original size:44 final size:42
Alignment explanation
Indices: 22463756--22463860 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
22463746 TCACAAAAAA
* *
22463756 ATTTGCATTTGCATCACTTGCATCTGTATCACAAGGAACAAGAC
1 ATTTGCATTTGCATCACTTGCATCTGAAT--CAAGAAACAAGAC
* * * * *
22463800 ATTTGCATTTGCATCTCTTGTATTTGAATCAAGAAAGAAGAT
1 ATTTGCATTTGCATCACTTGCATCTGAATCAAGAAACAAGAC
*
22463842 ATTCGCATTTGCATCACTT
1 ATTTGCATTTGCATCACTT
22463861 ACATTTACAC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 27 0.52
44 25 0.48
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (42 bp):
ATTTGCATTTGCATCACTTGCATCTGAATCAAGAAACAAGAC
Found at i:22464049 original size:18 final size:18
Alignment explanation
Indices: 22464023--22464061 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22464013 TCTATATTTG
22464023 CATTAACATTTGCATTCA
1 CATTAACATTTGCATTCA
* *
22464041 CATTGACATTTGTATTCA
1 CATTAACATTTGCATTCA
22464059 CAT
1 CAT
22464062 CATTGATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (18 bp):
CATTAACATTTGCATTCA
Found at i:22464699 original size:33 final size:33
Alignment explanation
Indices: 22464662--22464742 Score: 126
Period size: 33 Copynumber: 2.4 Consensus size: 33
22464652 AGTTTCATAG
22464662 AGCACTCAAAGTTTCATAGCCTCTGATTAGAGA
1 AGCACTCAAAGTTTCATAGCCTCTGATTAGAGA
* *
22464695 AGCACTCAAAGTTTCATGGCCTTTGATTAGAGA
1 AGCACTCAAAGTTTCATAGCCTCTGATTAGAGA
*
22464728 AGCATTCAAAAGTTT
1 AGCACTC-AAAGTTT
22464743 TTGTGATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 37 0.84
34 7 0.16
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (33 bp):
AGCACTCAAAGTTTCATAGCCTCTGATTAGAGA
Found at i:22464869 original size:18 final size:16
Alignment explanation
Indices: 22464840--22464873 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
22464830 CCCACACTCT
22464840 AAAAAAAAGGAAAGAA
1 AAAAAAAAGGAAAGAA
22464856 AAAAAAATAGGGAAAGAA
1 AAAAAAA-A-GGAAAGAA
22464874 TAAGAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGGAAAGAA
Found at i:22466027 original size:25 final size:25
Alignment explanation
Indices: 22465972--22466028 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
22465962 AAAAAATAGG
*
22465972 AGAAGCTGCCAAAGGAAAAAGAAGA
1 AGAAGTTGCCAAAGGAAAAAGAAGA
* *
22465997 AAAAGTTGCCAAAGGAAAAGGAAGA
1 AGAAGTTGCCAAAGGAAAAAGAAGA
22466022 AGAAGTT
1 AGAAGTT
22466029 ACTAGCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.54, C:0.09, G:0.28, T:0.09
Consensus pattern (25 bp):
AGAAGTTGCCAAAGGAAAAAGAAGA
Found at i:22469915 original size:34 final size:34
Alignment explanation
Indices: 22469830--22470062 Score: 158
Period size: 33 Copynumber: 6.9 Consensus size: 34
22469820 AAAGGATATA
* * *
22469830 ATACTTG-AAAAACTCCTCTAACCAAAGTTTATG
1 ATACTTGAAAAAACTCCTCTAACCAGAGGTAATG
* ** * *
22469863 ACA-TT-TTAAAACTTCTCTAACCATAGGTAATG
1 ATACTTGAAAAAACTCCTCTAACCAGAGGTAATG
* * *
22469895 ATACTTGAAAAAACTGCTCTAACTAGAGGTAATA
1 ATACTTGAAAAAACTCCTCTAACCAGAGGTAATG
* * *
22469929 AGACTTTTAAAGAAAAACTCCTCTATCCAGAGGCT-ATG
1 ATAC--TT-GA-AAAAACTCCTCTAACCAGAGG-TAATG
*
22469967 ATACTTG-AAAAACTCTTCTAACCAGAGGCT-ATG
1 ATACTTGAAAAAACTCCTCTAACCAGAGG-TAATG
* * * *
22470000 ACACTTTAAAAAACTCCTCTAACTAAAGGTAATCG
1 ATACTTGAAAAAACTCCTCTAACCAGAGGTAAT-G
* *
22470035 -TACTT-TAAAAATTCCTCTAACCAGAGGT
1 ATACTTGAAAAAACTCCTCTAACCAGAGGT
22470063 GATAATATTT
Statistics
Matches: 156, Mismatches: 33, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
32 25 0.16
33 53 0.34
34 48 0.31
35 1 0.01
36 4 0.03
37 1 0.01
38 23 0.15
39 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (34 bp):
ATACTTGAAAAAACTCCTCTAACCAGAGGTAATG
Found at i:22470117 original size:66 final size:66
Alignment explanation
Indices: 22470014--22470299 Score: 244
Period size: 66 Copynumber: 4.3 Consensus size: 66
22470004 TTTAAAAAAC
* * * *
22470014 TCCTCTAACTAAAGGTAATCG-TACTTTAAAAATTCCTCTAACCAGAGGTGATAATATTTAG-AA
1 TCCTCTAACCAAAGGTGAT-GATA-TTTAAAGATTCCTCTAACCAGAGGTAATAATATTTAGAAA
22470077 GAT
64 GAT
* * ** * * *
22470080 TCCTCAAACCAAAGTTGATGATATTTAAAGGATTCCTCTAACCAGAGCCAACAAGATTTTGAAAG
1 TCCTCTAACCAAAGGTGATGATATTTAAA-GATTCCTCTAACCAGAGGTAATAATATTTAGAAAG
22470145 AT
65 AT
* * * * * * *
22470147 TCCTTTAACTAGAGGTGAT-ATTTTTTAAAGATTCCTCTAACCAAAGGTGAT-GTGATTT-GAAA
1 TCCTCTAACCAAAGGTGATGA-TATTTAAAGATTCCTCTAACCAGAGGTAATAAT-ATTTAGAAA
22470209 GAT
64 GAT
* * * ** *
22470212 TCTTCTTACTAGAA-GTGATGATATTTGAAAGATTCCTCTAACCAGAGGTAATGGTATTT-TAAA
1 TCCTCTAACCA-AAGGTGATGATATTT-AAAGATTCCTCTAACCAGAGGTAATAATATTTAGAAA
22470275 GAT
64 GAT
22470278 TCCTCTAACCAAAGGTGATGAT
1 TCCTCTAACCAAAGGTGATGAT
22470300 TTTTTAAGGG
Statistics
Matches: 175, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
65 33 0.19
66 114 0.65
67 28 0.16
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (66 bp):
TCCTCTAACCAAAGGTGATGATATTTAAAGATTCCTCTAACCAGAGGTAATAATATTTAGAAAGA
T
Found at i:22470211 original size:132 final size:132
Alignment explanation
Indices: 22470038--22470306 Score: 316
Period size: 132 Copynumber: 2.0 Consensus size: 132
22470028 GTAATCGTAC
*
22470038 TTTAAAAATTCCTCTAACCAGAGGTGATAATATTTAGAAGATTCCTCAAACCA-AAGTTGATGAT
1 TTTAAAAATTCCTCTAACCAAAGGTGATAATATTTAGAAGATTCCTCAAACCAGAAG-TGATGAT
* * *
22470102 ATTT-AAAGGATTCCTCTAACCAGAGCCAACAAG-ATTTTGAAAGATTCCTTTAACTAGAGGTGA
65 ATTTGAAA-GATTCCTCTAACCAGAGCCAA-AAGTATTTT-AAAGATTCCTCTAACCAAAGGTGA
22470165 T-ATTT
127 TGATTT
* * * ** *
22470170 TTTAAAGATTCCTCTAACCAAAGGTGAT-GTGATTT-GAAAGATTCTTCTTACTAGAAGTGATGA
1 TTTAAAAATTCCTCTAACCAAAGGTGATAAT-ATTTAG-AAGATTCCTCAAACCAGAAGTGATGA
** **
22470233 TATTTGAAAGATTCCTCTAACCAGAGGTAATGGTATTTTAAAGATTCCTCTAACCAAAGGTGATG
64 TATTTGAAAGATTCCTCTAACCAGAGCCAAAAGTATTTTAAAGATTCCTCTAACCAAAGGTGATG
22470298 ATTT
129 ATTT
22470302 TTTAA
1 TTTAA
22470307 GGGTTCTTTA
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
131 25 0.21
132 86 0.74
133 6 0.05
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (132 bp):
TTTAAAAATTCCTCTAACCAAAGGTGATAATATTTAGAAGATTCCTCAAACCAGAAGTGATGATA
TTTGAAAGATTCCTCTAACCAGAGCCAAAAGTATTTTAAAGATTCCTCTAACCAAAGGTGATGAT
TT
Found at i:22470305 original size:33 final size:33
Alignment explanation
Indices: 22470038--22470306 Score: 199
Period size: 33 Copynumber: 8.2 Consensus size: 33
22470028 GTAATCGTAC
* * * *
22470038 TTTAAAAATTCCTCTAACCAGAGGTGAT-AATA
1 TTTAAAGATTCCTCTAACCAAAGGTGATGATTT
* * *
22470070 TTTAGAAGATTCCTCAAACCAAAGTTGATGA-TA
1 TTTA-AAGATTCCTCTAACCAAAGGTGATGATTT
* *** *
22470103 TTTAAAGGATTCCTCTAACCAGAGCCAACAAGA-TT
1 TTTAAA-GATTCCTCTAACCAAAG--GTGATGATTT
* * * *
22470138 TTGAAAGATTCCTTTAACTAGAGGTGAT-ATTT
1 TTTAAAGATTCCTCTAACCAAAGGTGATGATTT
*
22470170 TTTAAAGATTCCTCTAACCAAAGGTGATG-TGAT
1 TTTAAAGATTCCTCTAACCAAAGGTGATGAT-TT
* * * * *
22470203 TTGAAAGATTCTTCTTACTAGAA-GTGATGATAT
1 TTTAAAGATTCCTCTAACCA-AAGGTGATGATTT
* * * * *
22470236 TTGAAAGATTCCTCTAACCAGAGGTAATGGTAT
1 TTTAAAGATTCCTCTAACCAAAGGTGATGATTT
22470269 TTTAAAGATTCCTCTAACCAAAGGTGATGATTT
1 TTTAAAGATTCCTCTAACCAAAGGTGATGATTT
22470302 TTTAA
1 TTTAA
22470307 GGGTTCTTTA
Statistics
Matches: 188, Mismatches: 38, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.01
32 35 0.19
33 124 0.66
34 19 0.10
35 9 0.05
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (33 bp):
TTTAAAGATTCCTCTAACCAAAGGTGATGATTT
Found at i:22470314 original size:99 final size:97
Alignment explanation
Indices: 22470045--22470323 Score: 289
Period size: 99 Copynumber: 2.8 Consensus size: 97
22470035 TACTTTAAAA
* *
22470045 ATTCCTCTAACCAGAGGTGATA-ATATTTAGAAGATTCCTCAAACCAAAGTTGATGATATTTAAA
1 ATTCCTCTAACCAGAGGTGATATAT-TTTA-AAGATTCCTCTAACCAAAGGTGATGATATTTAAA
*
22470109 GGATTCCTCTAACCAGAGCCAACAAGATTTTGAAAG
64 GGATTCTTCTAACCAGAG-C-ACAAGATTTTGAAAG
* * *
22470145 ATTCCTTTAACTAGAGGTGATATTTTTTAAAGATTCCTCTAACCAAAGGTGATG-TGATTTGAAA
1 ATTCCTCTAACCAGAGGTGATATATTTTAAAGATTCCTCTAACCAAAGGTGATGAT-ATTT-AAA
* * ** *
22470209 -GATTCTTCTTACTAGAAG-TGATGATATTTGAAAG
64 GGATTCTTCTAACCAG-AGCACAAGAT-TTTGAAAG
* * * *
22470243 ATTCCTCTAACCAGAGGTAATGGTATTTTAAAGATTCCTCTAACCAAAGGTGATGATTTTTTAAG
1 ATTCCTCTAACCAGAGGTGAT-ATATTTTAAAGATTCCTCTAACCAAAGGTGATGATATTTAAAG
* *
22470308 GGTTCTT-TAGCCAGAG
65 GATTCTTCTAACCAGAG
22470324 ACTTTATGTT
Statistics
Matches: 149, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
97 6 0.04
98 33 0.22
99 79 0.53
100 30 0.20
101 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (97 bp):
ATTCCTCTAACCAGAGGTGATATATTTTAAAGATTCCTCTAACCAAAGGTGATGATATTTAAAGG
ATTCTTCTAACCAGAGCACAAGATTTTGAAAG
Found at i:22472265 original size:62 final size:62
Alignment explanation
Indices: 22472187--22472304 Score: 161
Period size: 62 Copynumber: 1.9 Consensus size: 62
22472177 TTTATCCACT
** *
22472187 AAAACACTTTGAATAAT-CTATTTAT-AAAAATTTAAGAGGATTATTGAAGGTATTTTTTTCCC
1 AAAACACTTTGAATAATCCT-TTTATAAAAAATGGAAG-GGATTATAGAAGGTATTTTTTTCCC
22472249 AAAACACCTTT-AATAATCCTTTTATAAAAAATGGAAGGGATTATAGAAGGTATTTT
1 AAAACA-CTTTGAATAATCCTTTTATAAAAAATGGAAGGGATTATAGAAGGTATTTT
22472305 CTACCAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
62 35 0.70
63 15 0.30
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (62 bp):
AAAACACTTTGAATAATCCTTTTATAAAAAATGGAAGGGATTATAGAAGGTATTTTTTTCCC
Found at i:22472326 original size:62 final size:63
Alignment explanation
Indices: 22472187--22472329 Score: 157
Period size: 62 Copynumber: 2.3 Consensus size: 63
22472177 TTTATCCACT
* * ** * * * *
22472187 AAAACACTTTGAATAAT-CTATTTATAAAAATTTAAGAGGATTATTGAAGGTATTTTTTTCCC
1 AAAACACCTTCAATAATCCTATTTATAAAAATGGAAGAGGATTATAGAAGGTATTTTCTACCA
*
22472249 AAAACACCTTTAATAATCCT-TTTATAAAAAATGGAAG-GGATTATAGAAGGTATTTTCTACCA
1 AAAACACCTTCAATAATCCTATTTAT-AAAAATGGAAGAGGATTATAGAAGGTATTTTCTACCA
**
22472311 AAAATGCCTTCAATAATCC
1 AAAACACCTTCAATAATCC
22472330 CCAATACTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 57 0.84
63 11 0.16
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (63 bp):
AAAACACCTTCAATAATCCTATTTATAAAAATGGAAGAGGATTATAGAAGGTATTTTCTACCA
Found at i:22472536 original size:62 final size:62
Alignment explanation
Indices: 22472410--22472541 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 62
22472400 AAAATGAAGA
* ** ** *
22472410 GGATTATTGAAGGCATTTTTAGTAAAAAATGCCTTCAATAATCCCTTGTAAAAAAGTATTGG
1 GGATTATTGAAGGCATTTTTAGCAAAAAACACCTTCAATAATCCCTCATAAAAAAGTATAGG
** * **
22472472 GGATTATTGAAGGTGTTTTTAGCAAAAAACACCTTCAATAATCTCCTCATCAAAATTTA-AGG
1 GGATTATTGAAGGCATTTTTAGCAAAAAACACCTTCAATAATC-CCTCATAAAAAAGTATAGG
22472534 GGATTATT
1 GGATTATT
22472542 AAAAAGCGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 48 0.83
63 10 0.17
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (62 bp):
GGATTATTGAAGGCATTTTTAGCAAAAAACACCTTCAATAATCCCTCATAAAAAAGTATAGG
Found at i:22472680 original size:62 final size:61
Alignment explanation
Indices: 22472582--22472722 Score: 194
Period size: 62 Copynumber: 2.3 Consensus size: 61
22472572 TTATGAGGGA
* * *
22472582 ATTATTGAAGGTGTTTTAGGTTAAAACACCTTCAATAATCTCTTTATCAAAATTTA-AGAGG
1 ATTATTGAAGGTATTTTTGGTTAAAACACCTTCAATAATCTCTTTACCAAAATTTATA-AGG
* * *
22472643 ATTATTGAAGGCATTTTTGGTCTGAAACATCTTCAATAATCTCTTTACCAAAATTTATAAGG
1 ATTATTGAAGGTATTTTTGGT-TAAAACACCTTCAATAATCTCTTTACCAAAATTTATAAGG
*
22472705 ATTATTGGAGGTATTTTT
1 ATTATTGAAGGTATTTTT
22472723 TTGCCTAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
61 18 0.26
62 51 0.73
63 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (61 bp):
ATTATTGAAGGTATTTTTGGTTAAAACACCTTCAATAATCTCTTTACCAAAATTTATAAGG
Found at i:22472994 original size:22 final size:23
Alignment explanation
Indices: 22472969--22473012 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
22472959 TTAAAATGCC
*
22472969 ATAAAAT-TAAATTTAAAAATTA
1 ATAAAATATAAATATAAAAATTA
22472991 ATAAAATATAAATATAAAAATT
1 ATAAAATATAAATATAAAAATT
22473013 TTAGTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAAAATATAAATATAAAAATTA
Found at i:22484554 original size:138 final size:141
Alignment explanation
Indices: 22484275--22484544 Score: 384
Period size: 138 Copynumber: 1.9 Consensus size: 141
22484265 TTTACAATGT
* * * *
22484275 TGTTTCCTACTATACAGTAGAGTTTCTCTATAGATATGTTATGAGCAACATAAGCTTTATTAAGC
1 TGTTTCCTACTATACAGTAGAGTTTCTCCACAAATATATTATGAGCAAC--AA-CTTTATTAAGC
*
22484340 ACTTTAAGTAAGGCATTTCCATAAGGCTCCAAGTTCAAAAACATCAAAAGCATTGAGATTTATGT
63 ACTTTAAGTAAGGCATTTCCATAAGGCTCCAAGTTCAAAAACATCAAAAGCATTAAGATTTATGT
22484405 TGACTAGTGATTTA
128 TGACTAGTGATTTA
*
22484419 TGTTTCCTACTATACAGTTGAGTTTCTCCACAAATATATTATGAGCAAC-A-TTTATTAAGCACT
1 TGTTTCCTACTATACAGTAGAGTTTCTCCACAAATATATTATGAGCAACAACTTTATTAAGCACT
* * * * * *
22484482 TTGAG-CAGGCATTTCTATAAGGCTCCAAGTTTAAAAACATTAAAAGCATTAAGATTTGTGTTG
66 TTAAGTAAGGCATTTCCATAAGGCTCCAAGTTCAAAAACATCAAAAGCATTAAGATTTATGTTG
22484545 GTAAGTGATT
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
138 52 0.46
139 17 0.15
141 1 0.01
144 44 0.39
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (141 bp):
TGTTTCCTACTATACAGTAGAGTTTCTCCACAAATATATTATGAGCAACAACTTTATTAAGCACT
TTAAGTAAGGCATTTCCATAAGGCTCCAAGTTCAAAAACATCAAAAGCATTAAGATTTATGTTGA
CTAGTGATTTA
Found at i:22496789 original size:94 final size:94
Alignment explanation
Indices: 22496628--22496800 Score: 283
Period size: 94 Copynumber: 1.8 Consensus size: 94
22496618 AGGCATTACC
* * * * * *
22496628 TTGTAATAGTAAAGGCTTTTCTCAATGATAGAGGCTATTTTTTCCTCATCCTTTTTTAGTATTTT
1 TTGTAACAGTAAAGGCCTTTCTCAATGACAAAGGCTATTTTTTCCTCATCCTCTTTTAGCATTTT
22496693 GATCTAATTGTAACTAGAATAAGCTTCCA
66 GATCTAATTGTAACTAGAATAAGCTTCCA
*
22496722 TTGTAACAGTAAAGGCCTTTCTCAGTGACAAAGGCTATTTTTTCCTCATCCTCTTTTAGCATTTT
1 TTGTAACAGTAAAGGCCTTTCTCAATGACAAAGGCTATTTTTTCCTCATCCTCTTTTAGCATTTT
22496787 GATCTAATTGTAAC
66 GATCTAATTGTAAC
22496801 CAAAATAGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 72 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (94 bp):
TTGTAACAGTAAAGGCCTTTCTCAATGACAAAGGCTATTTTTTCCTCATCCTCTTTTAGCATTTT
GATCTAATTGTAACTAGAATAAGCTTCCA
Found at i:22500461 original size:26 final size:26
Alignment explanation
Indices: 22500432--22500481 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
22500422 TGGTCTAATG
* *
22500432 TGGTACCAATTTGTCTTTTAGTGCCA
1 TGGTACCAATTTGGCATTTAGTGCCA
*
22500458 TGGTCCCAATTTGGCATTTAGTGC
1 TGGTACCAATTTGGCATTTAGTGC
22500482 TAAAGACGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (26 bp):
TGGTACCAATTTGGCATTTAGTGCCA
Found at i:22500757 original size:15 final size:16
Alignment explanation
Indices: 22500737--22500766 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22500727 TTTCTTTATT
22500737 TTTTTAATTT-TTTAA
1 TTTTTAATTTATTTAA
22500752 TTTTTAATTTATTTA
1 TTTTTAATTTATTTA
22500767 TTAATGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTAATTTATTTAA
Found at i:22500920 original size:13 final size:13
Alignment explanation
Indices: 22500904--22500929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22500894 TAAAATTTAT
22500904 ATAAAAATAAAAA
1 ATAAAAATAAAAA
22500917 ATAAAAATAAAAA
1 ATAAAAATAAAAA
22500930 TTTTCAAGGA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:22502595 original size:15 final size:15
Alignment explanation
Indices: 22502565--22502607 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
22502555 AATCTTAATC
22502565 TTAATCTTTATTATTAT
1 TTAAT-TTT-TTATTAT
22502582 TTAATTTTTTATTAT
1 TTAATTTTTTATTAT
*
22502597 TAAAATTTTTT
1 T-TAATTTTTT
22502608 TAAAATAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 11 0.46
17 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTTTTATTAT
Found at i:22504850 original size:371 final size:370
Alignment explanation
Indices: 22504162--22504937 Score: 1322
Period size: 371 Copynumber: 2.1 Consensus size: 370
22504152 TGTCTCAGAT
* * * *
22504162 CCGCACGGGTTCGAAACTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAAACCGT
1 CCGCGCGGGTTCG-AGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGACCTAAACCGT
* * * *
22504227 TCGATCTACGCCGAGCGCCTCGAGGGAGGTAGGCAGGGTGGTCGGCCTCCGTGACGAGGGCGTCA
65 TCGATCCACGCCGAGCGCCTCGAGGGAGGTAGGCAAGGTGGCCGGCCTCCGTGACAAGGGCGTCA
*
22504292 CGAGGTTGGGTGTGGGAGAATGTCACGAACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAA
130 CGAGGTTGGGTGCGGGAGAATGTCACGAACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAA
22504357 TAGGAGGGTCACTGGGGTATAAAAGGGTTCACACCATCTCCGCCTTGTGAGGCACCTTTTGTAGG
195 TAGGAGGGTCACTGGGGTATAAAAGGGTTCACACCATCTCCGCCTTGTGAGGCACCTTTTGTAGG
** * *
22504422 ACAAAACCGTGAGGCCAGGGGGGGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCATGGCGG
260 ACAAAACCGTGAGGCCAGGAAGGGCCAAAGCGGACAATACCTCACAAAGGTGTGAACCATGACGG
* * *
22504487 AAGGCTGATCTGGGTCGTCGAAAGGGTGAATGCCCGGGTCCCGGAG
325 AAGGCTGATCTGGGACGCCGAAAGGGTAAATGCCCGGGTCCCGGAG
22504533 CCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGACCTAAACCGT
1 CCGCGCGGGTTC-GAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGACCTAAACCGT
22504598 TCGATCCACGCCGAGCGCCTCGAGGGAGGTAGGCAAGGTGGCCGGCCTCCGTGACAAGGGCGTCA
65 TCGATCCACGCCGAGCGCCTCGAGGGAGGTAGGCAAGGTGGCCGGCCTCCGTGACAAGGGCGTCA
*
22504663 CGAGGTTGGGTGCGGGAGAATGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAA
130 CGAGGTTGGGTGCGGGAGAATGTCACGAACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAA
* *
22504728 TCGGAGGGTCACTGGGGTATAAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGG
195 TAGGAGGGTCACTGGGGTATAAAAGGGTTCACACCATCTCCGCCTTGTGAGGCACCTTTTGTAGG
* *
22504793 ACAAAACCGTGAGGCCAGGAAGGGCCAGAGCGGACAATACCTCACAAAGGTGTGAACCGTGACGG
260 ACAAAACCGTGAGGCCAGGAAGGGCCAAAGCGGACAATACCTCACAAAGGTGTGAACCATGACGG
*
22504858 AAGGCTGATCTGGGACGCCGGAAGGGTAAATGCCCGGGTCCCGGAG
325 AAGGCTGATCTGGGACGCCGAAAGGGTAAATGCCCGGGTCCCGGAG
22504904 CCGCGCGGGTT--AGCTTGAGTCTCGACCCGTGACA
1 CCGCGCGGGTTCGAGCTTGAGTCTCGACCCGTGACA
22504938 CTAGGATGGT
Statistics
Matches: 382, Mismatches: 22, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
368 23 0.06
371 358 0.94
372 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.34, T:0.17
Consensus pattern (370 bp):
CCGCGCGGGTTCGAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGACCTAAACCGTT
CGATCCACGCCGAGCGCCTCGAGGGAGGTAGGCAAGGTGGCCGGCCTCCGTGACAAGGGCGTCAC
GAGGTTGGGTGCGGGAGAATGTCACGAACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAAT
AGGAGGGTCACTGGGGTATAAAAGGGTTCACACCATCTCCGCCTTGTGAGGCACCTTTTGTAGGA
CAAAACCGTGAGGCCAGGAAGGGCCAAAGCGGACAATACCTCACAAAGGTGTGAACCATGACGGA
AGGCTGATCTGGGACGCCGAAAGGGTAAATGCCCGGGTCCCGGAG
Found at i:22505709 original size:16 final size:15
Alignment explanation
Indices: 22505688--22505717 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
22505678 CGGATGATGC
22505688 TTATGATATTTTTTTT
1 TTATGAT-TTTTTTTT
22505704 TTATGATTTTTTTT
1 TTATGATTTTTTTT
22505718 ACTATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTATGATTTTTTTTT
Found at i:22505934 original size:51 final size:51
Alignment explanation
Indices: 22505842--22506034 Score: 230
Period size: 51 Copynumber: 3.8 Consensus size: 51
22505832 TTAAAAGTTT
* *
22505842 TTGTTTGAAAGTGGCTCTCCCCTAAATAGAGGCTTTGAAACTTTAAAATATC
1 TTGTTTGAAAATGG-TCTCCCCTAAATAGAGGCTTTGAAACTTTAAAAAATC
* * * * * *
22505894 TTGTTTGAAAATGGTTTTCCCTAAAAAGAGACTTTGAAACTTTAAAAGATA
1 TTGTTTGAAAATGGTCTCCCCTAAATAGAGGCTTTGAAACTTTAAAAAATC
*
22505945 TTGTTTGAAAATGG-CTCCCCTTAAATAGAGGTTTTGAAAC-TTAAAAAATC
1 TTGTTTGAAAATGGTCTCCCC-TAAATAGAGGCTTTGAAACTTTAAAAAATC
* *
22505995 ATTGTTTGAAAAT-GACTCCCCTTAAATAGAGGATTTGAAA
1 -TTGTTTGAAAATGGTCTCCCC-TAAATAGAGGCTTTGAAA
22506035 TTTGAAATTT
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 13 0.11
51 97 0.79
52 13 0.11
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (51 bp):
TTGTTTGAAAATGGTCTCCCCTAAATAGAGGCTTTGAAACTTTAAAAAATC
Found at i:22506053 original size:102 final size:103
Alignment explanation
Indices: 22505831--22506034 Score: 263
Period size: 102 Copynumber: 2.0 Consensus size: 103
22505821 GCATTAAAAG
* * * *
22505831 TTTAAAAGTTTTTGTTTGAAAGTGGCTCTCCCCTAAATAGAGGCTTTGAAACTTTAAAATATCTT
1 TTTAAAAGATATTGTTTGAAAATGGCTCTCCCCTAAATAGAGGCTTTGAAACTTTAAAAAATCTT
** *
22505896 GTTTGAAAATGGTTTTCCCTAAAAAGAGACTTTGAAAC
66 GTTTGAAAATGGACTCCCCTAAAAAGAGACTTTGAAAC
* *
22505934 TTTAAAAGATATTGTTTGAAAATGGCTC-CCCTTAAATAGAGGTTTTGAAAC-TTAAAAAATCAT
1 TTTAAAAGATATTGTTTGAAAATGGCTCTCCCCTAAATAGAGGCTTTGAAACTTTAAAAAATC-T
*
22505997 TGTTTGAAAAT-GACTCCCCTTAAATAGAGGA-TTTGAAA
65 TGTTTGAAAATGGACTCCCC-TAAAAAGA-GACTTTGAAA
22506035 TTTGAAATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
101 14 0.16
102 47 0.53
103 27 0.31
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (103 bp):
TTTAAAAGATATTGTTTGAAAATGGCTCTCCCCTAAATAGAGGCTTTGAAACTTTAAAAAATCTT
GTTTGAAAATGGACTCCCCTAAAAAGAGACTTTGAAAC
Found at i:22507017 original size:32 final size:32
Alignment explanation
Indices: 22506981--22507051 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
22506971 TCTTTCTTAT
22506981 GATGCAAATATGAATGCCTTTTTCATGATATA
1 GATGCAAATATGAATGCCTTTTTCATGATATA
* * *
22507013 GATGCAAATGTGAATGTCTTTTTCATGATTTA
1 GATGCAAATATGAATGCCTTTTTCATGATATA
22507045 GATGCAA
1 GATGCAA
22507052 GTGATGCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
GATGCAAATATGAATGCCTTTTTCATGATATA
Found at i:22507089 original size:41 final size:41
Alignment explanation
Indices: 22507013--22507095 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
22507003 TCATGATATA
* * **
22507013 GATGCAAATGTGAATGTCTTTTTCATGATTTAGATGCAAGT
1 GATGCAAATGCGAATATCTTTTTCATGATACAGATGCAAGT
*
22507054 GATGCAAATGCGAATATCTTTTTCATGATACAGATGCTAGT
1 GATGCAAATGCGAATATCTTTTTCATGATACAGATGCAAGT
22507095 G
1 G
22507096 CAAATGCAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (41 bp):
GATGCAAATGCGAATATCTTTTTCATGATACAGATGCAAGT
Found at i:22507688 original size:83 final size:83
Alignment explanation
Indices: 22507544--22507706 Score: 202
Period size: 83 Copynumber: 2.0 Consensus size: 83
22507534 CCCTTGCAAA
* * * * * * *
22507544 TTGATGATTACTATTTGGAATGCTTGTGAATGTGGTAATTGGCAATTCAATTTTTTTACTGGTGG
1 TTGATGATTACTATTTGAAATGCTTATGAATGTAGTAATTGACAATTCAATCTTTTCACTGGTGA
* *
22507609 GCATATTTCAAGGAAGGC
66 GAACATTTCAAGGAAGGC
* **
22507627 TTGATGATTACTATTTGAAATGCTTATGGATAG-AGTGGTTGACAATTCAATCTTTTCACTGGTG
1 TTGATGATTACTATTTGAAATGCTTATGAAT-GTAGTAATTGACAATTCAATCTTTTCACTGGTG
22507691 AGAACATTTCAAGGAA
65 AGAACATTTCAAGGAA
22507707 AGCTCGACCA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 66 0.99
84 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (83 bp):
TTGATGATTACTATTTGAAATGCTTATGAATGTAGTAATTGACAATTCAATCTTTTCACTGGTGA
GAACATTTCAAGGAAGGC
Found at i:22508515 original size:16 final size:15
Alignment explanation
Indices: 22508494--22508537 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
22508484 TTTATTCATC
22508494 TCTTTTTCTTTGTTTT
1 TCTTTTT-TTTGTTTT
*
22508510 TGTTTTGTTTTGTTTT
1 TCTTTT-TTTTGTTTT
22508526 TCTTTTTTTTGT
1 TCTTTTTTTTGT
22508538 GAAAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 18 0.72
17 1 0.04
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (15 bp):
TCTTTTTTTTGTTTT
Found at i:22516130 original size:20 final size:22
Alignment explanation
Indices: 22516103--22516155 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
22516093 AGAAATCTTT
*
22516103 GAGATTCACATTGAAGGTT-TA
1 GAGATTCACATTAAAGGTTCTA
*
22516124 G-GATTCACATTAAAGGTTCTC
1 GAGATTCACATTAAAGGTTCTA
22516145 GAGATTCACAT
1 GAGATTCACAT
22516156 CAAGAGTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.57
21 3 0.11
22 9 0.32
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (22 bp):
GAGATTCACATTAAAGGTTCTA
Found at i:22516297 original size:21 final size:19
Alignment explanation
Indices: 22516273--22516321 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
22516263 TCAAGAGTCG
22516273 CATCAAAATCTTCAAAATTCA
1 CATCAAAA--TTCAAAATTCA
*
22516294 CATCAAAGATTCAAGATTCA
1 CATCAAA-ATTCAAAATTCA
*
22516314 CACCAAAA
1 CATCAAAA
22516322 GTTCTCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 16 0.64
21 7 0.28
22 1 0.04
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.22
Consensus pattern (19 bp):
CATCAAAATTCAAAATTCA
Found at i:22516312 original size:20 final size:20
Alignment explanation
Indices: 22516283--22516320 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22516273 CATCAAAATC
*
22516283 TTCAAAATTCACATCAAAGA
1 TTCAAAATTCACACCAAAGA
*
22516303 TTCAAGATTCACACCAAA
1 TTCAAAATTCACACCAAA
22516321 AGTTCTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (20 bp):
TTCAAAATTCACACCAAAGA
Found at i:22517287 original size:17 final size:17
Alignment explanation
Indices: 22517265--22517297 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22517255 AGTTTTTCCT
22517265 TTTTTTCTTTCATTTTC
1 TTTTTTCTTTCATTTTC
*
22517282 TTTTTTTTTTCATTTT
1 TTTTTTCTTTCATTTT
22517298 TCGTTCTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTTCATTTTC
Found at i:22517298 original size:18 final size:19
Alignment explanation
Indices: 22517257--22517299 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
22517247 TCCTCCTTAG
22517257 TTTTTCCTTTTTTTCTTTCA
1 TTTTT-CTTTTTTTCTTTCA
22517277 -TTTTCTTTTTTT-TTTCA
1 TTTTTCTTTTTTTCTTTCA
22517294 TTTTTC
1 TTTTTC
22517300 GTTCTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTTTTCTTTCA
Found at i:22517717 original size:7 final size:7
Alignment explanation
Indices: 22517685--22517709 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22517675 ATAGGCTTAT
22517685 TTTTGTA
1 TTTTGTA
22517692 TTTTGTA
1 TTTTGTA
22517699 TTTTGTA
1 TTTTGTA
22517706 TTTT
1 TTTT
22517710 TTTGTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTGTA
Found at i:22518245 original size:3 final size:3
Alignment explanation
Indices: 22518237--22518290 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
22518227 AGACAAAAGA
22518237 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22518285 AAT AAT
1 AAT AAT
22518291 GAAAAATAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22518801 original size:3 final size:3
Alignment explanation
Indices: 22518787--22518881 Score: 181
Period size: 3 Copynumber: 31.7 Consensus size: 3
22518777 AACTAGAAAG
*
22518787 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22518835 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22518882 TAAGTTTACA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:22524598 original size:6 final size:7
Alignment explanation
Indices: 22524564--22524597 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
22524554 GATAAAAAAT
22524564 ATTTTTA
1 ATTTTTA
22524571 ATTTTTA
1 ATTTTTA
22524578 ATTTTTA
1 ATTTTTA
22524585 ATTTTT-
1 ATTTTTA
22524591 ATTTTTA
1 ATTTTTA
22524598 TGAAAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:22524778 original size:5 final size:5
Alignment explanation
Indices: 22524768--22524857 Score: 50
Period size: 5 Copynumber: 18.2 Consensus size: 5
22524758 TTGAATTACT
* *
22524768 AAATA AAATA AAAT- -AATA AAATA AGATA AAA-A ATCA-A AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA A-AATA AAATA AAATA
*
22524815 AAACTTA AATATGA AAAT- AAATGA AAAT- CAA-A AAATA AAATA A
1 AAA--TA AA-AT-A AAATA AAAT-A AAATA AAATA AAATA AAATA A
22524858 CAATGAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 24
0.69 0.06 0.25
Matches are distributed among these distances:
3 3 0.04
4 11 0.16
5 38 0.57
6 7 0.10
7 7 0.10
8 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:22524815 original size:42 final size:41
Alignment explanation
Indices: 22524768--22524872 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 41
22524758 TTGAATTACT
22524768 AAATAAAATAAAATAAT-AAAATAAGATAAAAAATC-AAAAATA
1 AAATAAAATAAAAT-ATGAAAATAA-AT-AAAAATCAAAAAATA
* *
22524810 AAATAAAACTTAAATATGAAAATAAATGAAAATCAAAAAATA
1 AAATAAAA-TAAAATATGAAAATAAATAAAAATCAAAAAATA
22524852 AAATAACAATGAAAA-ATGAAA
1 AAATAA-AAT-AAAATATGAAA
22524873 CTTTGTGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
41 6 0.11
42 32 0.58
43 17 0.31
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (41 bp):
AAATAAAATAAAATATGAAAATAAATAAAAATCAAAAAATA
Found at i:22526608 original size:37 final size:38
Alignment explanation
Indices: 22526547--22526651 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 38
22526537 TGTCTTTGAT
* *
22526547 ATAATAAGATAATACATGTTTTCCATCTTACGCACATC
1 ATAATAAGATAATACATGTATTCCATCTCACGCACATC
* * * * *
22526585 TTAAT-AGATAATAAATGCATTCCATCTCATGTACATC
1 ATAATAAGATAATACATGTATTCCATCTCACGCACATC
* *
22526622 ATAATGAGATAATACATGTATTACATCTCA
1 ATAATAAGATAATACATGTATTCCATCTCA
22526652 AACAATGACA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 30 0.55
38 25 0.45
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (38 bp):
ATAATAAGATAATACATGTATTCCATCTCACGCACATC
Found at i:22527124 original size:6 final size:6
Alignment explanation
Indices: 22527110--22527171 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
22527100 GCCCAAGATT
* *
22527110 TTTTAA TTTTGA TTTTAA TTTTAA -TTTAGA -TTTAGA TTTT-A -TTTAG
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTA-A TTTTA-A TTTTAA TTTTAA
22527156 TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTT
22527172 GCTGACTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
4 3 0.06
5 5 0.10
6 37 0.77
7 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.66
Consensus pattern (6 bp):
TTTTAA
Found at i:22527133 original size:18 final size:18
Alignment explanation
Indices: 22527110--22527170 Score: 83
Period size: 17 Copynumber: 3.5 Consensus size: 18
22527100 GCCCAAGATT
*
22527110 TTTTAATTTTGATTTTAA
1 TTTTAATTTAGATTTTAA
22527128 TTTTAATTTAGA-TTTAGA
1 TTTTAATTTAGATTTTA-A
22527146 TTTT-ATTTAG-TTTTAA
1 TTTTAATTTAGATTTTAA
22527162 TTTTAATTT
1 TTTTAATTT
22527171 TGCTGACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 5 0.13
17 18 0.46
18 16 0.41
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTTAATTTAGATTTTAA
Found at i:22528700 original size:105 final size:105
Alignment explanation
Indices: 22528512--22528700 Score: 263
Period size: 105 Copynumber: 1.8 Consensus size: 105
22528502 AAAATAAAAA
* * * * * * *
22528512 TTTTCAATCCTATCAAATTATTGGAAGATTTAAATCTTAAATTAAGTTTTACCAAACTATTCAAG
1 TTTTCAATCCTACCAAACTATTGAAAGATTTAAATCTTAAATAAAATCTTACCAAACTATTCAAA
*
22528577 GATTTAATAAATTTTTTTTGTGCAAAAAATAATAATATAT
66 GATTTAATAAATTATTTTTGTGCAAAAAATAATAATATAT
* *
22528617 TTTTCAATCCTACCAAACTATTGAAAGATTTAAATCTTGAATAAAATCTTACCAAATTATTCAAA
1 TTTTCAATCCTACCAAACTATTGAAAGATTTAAATCTTAAATAAAATCTTACCAAACTATTCAAA
*
22528682 GATTTTACT-AATTATTTTT
66 GA-TTTAATAAATTATTTTT
22528701 TAAATAAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 67 0.93
106 5 0.07
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (105 bp):
TTTTCAATCCTACCAAACTATTGAAAGATTTAAATCTTAAATAAAATCTTACCAAACTATTCAAA
GATTTAATAAATTATTTTTGTGCAAAAAATAATAATATAT
Found at i:22533959 original size:44 final size:44
Alignment explanation
Indices: 22533911--22534013 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 44
22533901 TGGTTGGGAT
* ** *
22533911 ATGCATTTGCATCATGGTATGGCATCTACATTATTGCTTAGGAC
1 ATGCATTTGCATCATCGTATGAAATCTACATTATTACTTAGGAC
* * * *
22533955 ATGCATTTGCATCACCGTATGAAATTTGCATTATTATTTAGGAC
1 ATGCATTTGCATCATCGTATGAAATCTACATTATTACTTAGGAC
22533999 ATGCATTTGCATCAT
1 ATGCATTTGCATCAT
22534014 TTAGTGAGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (44 bp):
ATGCATTTGCATCATCGTATGAAATCTACATTATTACTTAGGAC
Found at i:22534429 original size:46 final size:47
Alignment explanation
Indices: 22534318--22534436 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 47
22534308 TTTTCAACTA
* * * * *
22534318 TGAATCTTTAAAATTTTAGATGTGAAATAATCAAGTTTTTTTAAATG
1 TGAATCTTTGAAATTTTGGATGTGAAACAATCAAGGTTTTCTAAATG
* * *
22534365 AGAA-CATTTGAAACTTTGGATGTGAAACACT-AAGGTTTTCTAAATG
1 TGAATC-TTTGAAATTTTGGATGTGAAACAATCAAGGTTTTCTAAATG
* *
22534411 TGAATCTTTGAAGTTTTGGGTGTGAA
1 TGAATCTTTGAAATTTTGGATGTGAA
22534437 TCCCTAAGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
46 34 0.59
47 24 0.41
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.39
Consensus pattern (47 bp):
TGAATCTTTGAAATTTTGGATGTGAAACAATCAAGGTTTTCTAAATG
Found at i:22534444 original size:46 final size:45
Alignment explanation
Indices: 22534379--22534488 Score: 114
Period size: 45 Copynumber: 2.4 Consensus size: 45
22534369 CATTTGAAAC
* * ** *
22534379 TTTGGATGTGAAACACTAAGGTTTTCTAAATGTGAATCTTTGAA-GT
1 TTTGGGTGTGAATCACTAA-GTTTTCTAAATGAAAATCTTT-AATCT
* * *
22534425 TTTGGGTGTGAATCCCTAAGTTTTTTGAATGAAAATCTTTAATCT
1 TTTGGGTGTGAATCACTAAGTTTTCTAAATGAAAATCTTTAATCT
*
22534470 TTTGGGTGTGAATCTCTAA
1 TTTGGGTGTGAATCACTAA
22534489 AATTTTTGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
44 2 0.04
45 36 0.67
46 16 0.30
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (45 bp):
TTTGGGTGTGAATCACTAAGTTTTCTAAATGAAAATCTTTAATCT
Found at i:22534483 original size:22 final size:22
Alignment explanation
Indices: 22534409--22534484 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 22
22534399 GTTTTCTAAA
*
22534409 TGTGAATCTTTGAA-GTTTTGGG
1 TGTGAATCTTT-AATCTTTTGGG
** * **
22534431 TGTGAATCCCTAAGTTTTTTGAA
1 TGTGAATCTTTAA-TCTTTTGGG
**
22534454 TGAAAATCTTTAATCTTTTGGG
1 TGTGAATCTTTAATCTTTTGGG
22534476 TGTGAATCT
1 TGTGAATCT
22534485 CTAAAATTTT
Statistics
Matches: 38, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
21 2 0.05
22 22 0.58
23 14 0.37
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.45
Consensus pattern (22 bp):
TGTGAATCTTTAATCTTTTGGG
Found at i:22534997 original size:18 final size:18
Alignment explanation
Indices: 22534976--22535035 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
22534966 AGTCTTTGTG
22534976 AATCTTAGACTCTTTGCA
1 AATCTTAGACTCTTTGCA
**
22534994 AATCTGGGAC-CTATTGCA
1 AATCTTAGACTCT-TTGCA
* *
22535012 AATCTAAAACT-TTTGCA
1 AATCTTAGACTCTTTGCA
*
22535029 AAACTTA
1 AATCTTA
22535036 AATCTTTTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (18 bp):
AATCTTAGACTCTTTGCA
Found at i:22535042 original size:18 final size:18
Alignment explanation
Indices: 22535007--22535102 Score: 63
Period size: 18 Copynumber: 5.4 Consensus size: 18
22534997 CTGGGACCTA
* *
22535007 TTGCAAATC-TAAAACTT
1 TTGCAAAACTTAAATCTT
22535024 TTGCAAAACTTAAATCTT
1 TTGCAAAACTTAAATCTT
* *
22535042 TTACAAAACTTGAAA-CCT
1 TTGCAAAACTT-AAATCTT
* ** *
22535060 TTACAAATTTTGAATC-T
1 TTGCAAAACTTAAATCTT
*
22535077 TTGCAAAACTTGAATCATT
1 TTGCAAAACTTAAATC-TT
*
22535096 TGGCAAA
1 TTGCAAA
22535103 TTTTTTAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
17 24 0.38
18 29 0.46
19 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (18 bp):
TTGCAAAACTTAAATCTT
Found at i:22535083 original size:17 final size:17
Alignment explanation
Indices: 22535058--22535106 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
22535048 AACTTGAAAC
*
22535058 CTTTACAAATTTTGAAT
1 CTTTGCAAATTTTGAAT
**
22535075 CTTTGCAAAACTTGAAT
1 CTTTGCAAATTTTGAAT
22535092 CATTTGGCAAATTTT
1 C-TTT-GCAAATTTT
22535107 TTAAATTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 15 0.60
18 3 0.12
19 7 0.28
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (17 bp):
CTTTGCAAATTTTGAAT
Found at i:22535539 original size:6 final size:6
Alignment explanation
Indices: 22535530--22535609 Score: 65
Period size: 6 Copynumber: 13.7 Consensus size: 6
22535520 TCAATTGTAA
* * * *
22535530 TTTGAT TTTGAT TTTGAT TTTAAT TTTAAT TTAGAT TTAGAT TTT-AT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT
* * * * *
22535577 TTAG-T TTTAAT TTTAAT TTTAAT TTTAAT TTTG
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTG
22535610 TGGACTATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
5 7 0.11
6 57 0.89
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (6 bp):
TTTGAT
Found at i:22535547 original size:12 final size:12
Alignment explanation
Indices: 22535511--22535608 Score: 78
Period size: 12 Copynumber: 8.3 Consensus size: 12
22535501 AACCCAAGAC
*
22535511 TTTTAATTTTCAA
1 TTTTAATTTT-GA
*
22535524 TTGTAA-TTTGA
1 TTTTAATTTTGA
*
22535535 TTTTGATTTTGA
1 TTTTAATTTTGA
22535547 TTTTAATTTT-A
1 TTTTAATTTTGA
* *
22535558 ATTTAGATTTAGA
1 TTTTA-ATTTTGA
*
22535571 TTTT-ATTTAG-
1 TTTTAATTTTGA
*
22535581 TTTTAATTTTAA
1 TTTTAATTTTGA
*
22535593 TTTTAATTTTAA
1 TTTTAATTTTGA
22535605 TTTT
1 TTTT
22535609 GTGGACTATT
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
10 4 0.06
11 20 0.29
12 37 0.53
13 9 0.13
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (12 bp):
TTTTAATTTTGA
Found at i:22535555 original size:18 final size:18
Alignment explanation
Indices: 22535511--22535608 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
22535501 AACCCAAGAC
22535511 TTTTAATTTTCAATTGTA-A
1 TTTTAATTTT-AATT-TAGA
* * *
22535530 -TTTGATTTTGATTTTGA
1 TTTTAATTTTAATTTAGA
22535547 TTTTAATTTTAATTTAGA
1 TTTTAATTTTAATTTAGA
22535565 -TTTAGATTTT-ATTTAG-
1 TTTTA-ATTTTAATTTAGA
22535581 TTTTAATTTTAATTTTA-A
1 TTTTAATTTTAA-TTTAGA
22535599 TTTTAATTTT
1 TTTTAATTTT
22535609 GTGGACTATT
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.09
17 19 0.29
18 41 0.62
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTTAATTTTAATTTAGA
Found at i:22536643 original size:25 final size:25
Alignment explanation
Indices: 22536589--22536643 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
22536579 CTTTTCCTGG
*
22536589 TTATTTT--TGTTTCTAATTTTATT
1 TTATTTTCCTGTTTCTAATTTTATA
*
22536612 TTATTTTCCTGTTTCTTATTTT-TA
1 TTATTTTCCTGTTTCTAATTTTATA
22536636 TTACTTTT
1 TTA-TTTT
22536644 TTTTTCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 4 0.15
25 16 0.59
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.73
Consensus pattern (25 bp):
TTATTTTCCTGTTTCTAATTTTATA
Found at i:22539115 original size:17 final size:17
Alignment explanation
Indices: 22539079--22539126 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
22539069 TGCAAAAAAA
22539079 AAAAGAA-AAAAAAA-G
1 AAAAGAAGAAAAAAATG
*
22539094 -CAAGAAGAAAAAAATG
1 AAAAGAAGAAAAAAATG
22539110 AAAAGAAAGAAAAAAAT
1 AAAAG-AAGAAAAAAAT
22539127 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 5 0.19
15 7 0.26
16 1 0.04
17 3 0.11
18 11 0.41
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (17 bp):
AAAAGAAGAAAAAAATG
Found at i:22539119 original size:21 final size:20
Alignment explanation
Indices: 22539075--22539133 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 20
22539065 GGCATGCAAA
*
22539075 AAAAAAAAGAAAAAAA-AAG
1 AAAAGAAAGAAAAAAATAAG
*
22539094 -CAAG-AAGAAAAAAAT--G
1 AAAAGAAAGAAAAAAATAAG
22539110 AAAAGAAAGAAAAAAATAAG
1 AAAAGAAAGAAAAAAATAAG
22539130 AAAA
1 AAAA
22539134 AATTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.03
17 13 0.41
18 13 0.41
20 5 0.16
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (20 bp):
AAAAGAAAGAAAAAAATAAG
Found at i:22539134 original size:21 final size:22
Alignment explanation
Indices: 22539088--22539134 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
22539078 AAAAAGAAAA
*
22539088 AAAAAGCAAGAAGAAAAAAATG
1 AAAAAGAAAGAAGAAAAAAATG
22539110 -AAAAGAAAGAA-AAAAATAA-G
1 AAAAAGAAAGAAGAAAAA-AATG
22539130 AAAAA
1 AAAAA
22539135 ATTTTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAGAAGAAAAAAATG
Found at i:22539678 original size:18 final size:17
Alignment explanation
Indices: 22539657--22539696 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
22539647 ACAAACAGAG
22539657 AAAAAATG-AGAAAAAC
1 AAAAAATGAAGAAAAAC
22539673 AAAAAATGAAAGAAAAAC
1 AAAAAATG-AAGAAAAAC
22539691 AAAAAA
1 AAAAAA
22539697 AAATGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
18 14 0.64
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAATGAAGAAAAAC
Found at i:22539705 original size:16 final size:16
Alignment explanation
Indices: 22539668--22539719 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
22539658 AAAAATGAGA
22539668 AAAACAAAAAATGAAA-G
1 AAAACAAAAAA--AAATG
22539685 AAAAACAAAAAAAAATG
1 -AAAACAAAAAAAAATG
* *
22539702 AAAAGAAAAAGAAATG
1 AAAACAAAAAAAAATG
22539718 AA
1 AA
22539720 TGATTTAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 19 0.61
17 1 0.03
18 11 0.35
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAACAAAAAAAAATG
Found at i:22540089 original size:30 final size:30
Alignment explanation
Indices: 22540051--22540107 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
22540041 CAATAATCAA
*
22540051 AGAAGAAGAAAAAAAA-AACGAAAAAAAAT
1 AGAAGAAGAAAAAAAAGAAAGAAAAAAAAT
22540080 AGAATGAAGAAAAAAAAGAAAGAAAAAA
1 AGAA-GAAGAAAAAAAAGAAAGAAAAAA
22540108 TATGGCTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 4 0.16
30 12 0.48
31 9 0.36
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (30 bp):
AGAAGAAGAAAAAAAAGAAAGAAAAAAAAT
Found at i:22540092 original size:15 final size:14
Alignment explanation
Indices: 22540049--22540107 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
22540039 TGCAATAATC
22540049 AAAGAAGAAGAAAA
1 AAAGAAGAAGAAAA
*
22540063 AAAAAACGAA-AAAA
1 AAAGAA-GAAGAAAA
22540077 AATAGAATGAAG-AAA
1 AA-AGAA-GAAGAAAA
22540092 AAA-AAGAAAGAAAA
1 AAAGAAG-AAGAAAA
22540106 AA
1 AA
22540108 TATGGCTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 1 0.03
13 5 0.14
14 17 0.46
15 14 0.38
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:22540100 original size:27 final size:27
Alignment explanation
Indices: 22540054--22540106 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
22540044 TAATCAAAGA
22540054 AGAAGAAAAAAAAAACGAAA-AAAAAT
1 AGAAGAAAAAAAAAACGAAAGAAAAAT
22540080 AGAATGAAGAAAAAAAA-GAAAGAAAAA
1 AGAA-GAA-AAAAAAAACGAAAGAAAAA
22540107 ATATGGCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.17
27 7 0.29
28 13 0.54
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (27 bp):
AGAAGAAAAAAAAAACGAAAGAAAAAT
Found at i:22540105 original size:29 final size:28
Alignment explanation
Indices: 22540051--22540109 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
22540041 CAATAATCAA
22540051 AGAAGAAGAAAAAAAAAACGAAAAAAAAT
1 AGAAGAAGAAAAAAAAAAC-AAAAAAAAT
*
22540080 AGAATGAAGAAAAAAAAGAA-AGAAAAAAT
1 AGAA-GAAGAAAAAAAA-AACAAAAAAAAT
22540109 A
1 A
22540110 TGGCTCTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 13 0.48
30 12 0.44
31 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (28 bp):
AGAAGAAGAAAAAAAAAACAAAAAAAAT
Found at i:22541802 original size:12 final size:11
Alignment explanation
Indices: 22541775--22541844 Score: 57
Period size: 10 Copynumber: 7.0 Consensus size: 11
22541765 GAGAGTTTAT
22541775 AAAAA-AAAGA
1 AAAAATAAAGA
22541785 AAAAATAAAGA
1 AAAAATAAAGA
22541796 GAAAAAT----A
1 -AAAAATAAAGA
22541804 AAAAATAAAG-
1 AAAAATAAAGA
* *
22541814 AGAAA-AAGGA
1 AAAAATAAAGA
22541824 AAAAATAAAGA
1 AAAAATAAAGA
22541835 AAAAA-AAAGA
1 AAAAATAAAGA
22541845 GATAAAGTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
7 6 0.12
8 1 0.02
9 3 0.06
10 18 0.38
11 14 0.29
12 6 0.12
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (11 bp):
AAAAATAAAGA
Found at i:22541807 original size:20 final size:19
Alignment explanation
Indices: 22541778--22541839 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
22541768 AGTTTATAAA
22541778 AAAAAGAAAAAATAAAGAG
1 AAAAAGAAAAAATAAAGAG
*
22541797 AAAAATAAAAAATAAAGAG
1 AAAAAGAAAAAATAAAGAG
22541816 AAAAAGGAAAAAATAAAGA-
1 AAAAA-GAAAAAATAAAGAG
22541835 AAAAA
1 AAAAA
22541840 AAAGAGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 28 0.70
20 12 0.30
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAAATAAAGAG
Found at i:22542090 original size:33 final size:32
Alignment explanation
Indices: 22542021--22542090 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
22542011 TTAAACCTAG
* *
22542021 TTTAGTAGGCACCTAAAAGAGATTAAGTCCAG
1 TTTAGTAGGCACCTAAAAGAGATTAAGCCCAA
**
22542053 TTTAGTAGGCACCTAGATTGA-ATTTAAGCCCAA
1 TTTAGTAGGCACCTA-AAAGAGA-TTAAGCCCAA
22542086 TTTAG
1 TTTAG
22542091 CTAGCATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 16 0.50
33 16 0.50
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (32 bp):
TTTAGTAGGCACCTAAAAGAGATTAAGCCCAA
Found at i:22542324 original size:23 final size:23
Alignment explanation
Indices: 22542281--22542333 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
22542271 CTAGTTTAGC
*
22542281 TGACACTTTAAGCGCAAATTAAT
1 TGACACTTTAAGCCCAAATTAAT
* *
22542304 TGACACTTTAAGCCCAGATTAGT
1 TGACACTTTAAGCCCAAATTAAT
*
22542327 TGGCACT
1 TGACACT
22542334 GATAAGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (23 bp):
TGACACTTTAAGCCCAAATTAAT
Found at i:22542824 original size:43 final size:43
Alignment explanation
Indices: 22542759--22542897 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
22542749 TCTTTTATGC
* * * *
22542759 TGATATCTGAGTATCCAAGTCTAAATTTGCATTCACTTGGTGG
1 TGATATCTGAGTATTCATGTCTAAACTTGCATTCACTCGGTGG
* * ** *
22542802 TTATATCTAAGTATTCATGTCTAAACTCACATTCACTCGATGG
1 TGATATCTGAGTATTCATGTCTAAACTTGCATTCACTCGGTGG
* * *
22542845 TGATATCCGAGCA-TCAATGTCTAAACTTGCATTCACTCGGTAG
1 TGATATCTGAGTATTC-ATGTCTAAACTTGCATTCACTCGGTGG
22542888 TGATATCTGA
1 TGATATCTGA
22542898 ATTCTCTTCG
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 2 0.03
43 75 0.97
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (43 bp):
TGATATCTGAGTATTCATGTCTAAACTTGCATTCACTCGGTGG
Found at i:22543329 original size:42 final size:42
Alignment explanation
Indices: 22543281--22543376 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
22543271 TCTCCAAACC
* *
22543281 GTGAATCCAAAGCCC-TCTAAACTGTGAATTATTTACTTTATT
1 GTGAATCCAAAGCCCTTC-AAACTGTGAATCATTTAATTTATT
* **
22543323 GTGAATCTAAAATCCTTCAAACTGTGAATCATTTAATTTATT
1 GTGAATCCAAAGCCCTTCAAACTGTGAATCATTTAATTTATT
*
22543365 GTAAATCCAAAG
1 GTGAATCCAAAG
22543377 TTTTTTTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (42 bp):
GTGAATCCAAAGCCCTTCAAACTGTGAATCATTTAATTTATT
Found at i:22543731 original size:45 final size:46
Alignment explanation
Indices: 22543649--22543742 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 46
22543639 TTATTCTTTT
* *
22543649 AAAGTTATTGAGCTTTTACTCAAATGAGCTTTCAAATTT-GTTTCA
1 AAAGTTATTGAGCCTTTACTCAAAGGAGCTTTCAAATTTAGTTTCA
* * * *
22543694 AAAGTTGTTGAGCCTTTAC-CTAAAGGAGTTTTTAAATTTATTTTCA
1 AAAGTTATTGAGCCTTTACTC-AAAGGAGCTTTCAAATTTAGTTTCA
22543740 AAA
1 AAA
22543743 AAGTCAGTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 1 0.02
45 32 0.78
46 8 0.20
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (46 bp):
AAAGTTATTGAGCCTTTACTCAAAGGAGCTTTCAAATTTAGTTTCA
Found at i:22543905 original size:24 final size:25
Alignment explanation
Indices: 22543870--22543927 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
22543860 GAGTTTTTTT
**
22543870 AAAAAAAGAATTTCAAACAAAA-TCC
1 AAAAAAA-AATTGAAAACAAAATTCC
*
22543895 AAAAAAAAATTGAAAAGAAAATTCC
1 AAAAAAAAATTGAAAACAAAATTCC
22543920 AAAAAAAA
1 AAAAAAAA
22543928 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.71, C:0.10, G:0.05, T:0.14
Consensus pattern (25 bp):
AAAAAAAAATTGAAAACAAAATTCC
Found at i:22543932 original size:8 final size:8
Alignment explanation
Indices: 22543921--22543976 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
22543911 GAAAATTCCA
22543921 AAAAAAAT
1 AAAAAAAT
22543929 -AAAAAAT
1 AAAAAAAT
*
22543936 AAAGGAAAT
1 AAA-AAAAT
22543945 ATAAAAAAT
1 A-AAAAAAT
*
22543954 GAAAAAAGT
1 -AAAAAAAT
*
22543963 AAAAAAGT
1 AAAAAAAT
22543971 AAAAAA
1 AAAAAA
22543977 GCAAAAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
7 7 0.17
8 16 0.39
9 15 0.37
10 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:22543934 original size:24 final size:24
Alignment explanation
Indices: 22543888--22543934 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22543878 AATTTCAAAC
**
22543888 AAAATCCAAAAAAAAATTGAAAAG
1 AAAATCCAAAAAAAAATAAAAAAG
22543912 AAAATTCC-AAAAAAAATAAAAAA
1 AAAA-TCCAAAAAAAAATAAAAAA
22543935 TAAAGGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.13
Consensus pattern (24 bp):
AAAATCCAAAAAAAAATAAAAAAG
Found at i:22543973 original size:24 final size:24
Alignment explanation
Indices: 22543946--22544000 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
22543936 AAAGGAAATA
*
22543946 TAAAAAATG-AAAAAAGTAAAAAAG
1 TAAAAAA-GCAAAAAAGCAAAAAAG
22543970 TAAAAAAGCAAAAAAGCAAAAAAG
1 TAAAAAAGCAAAAAAGCAAAAAAG
*
22543994 CAAAAAA
1 TAAAAAA
22544001 AAAAGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.76, C:0.05, G:0.11, T:0.07
Consensus pattern (24 bp):
TAAAAAAGCAAAAAAGCAAAAAAG
Found at i:22543977 original size:8 final size:8
Alignment explanation
Indices: 22543946--22544000 Score: 67
Period size: 8 Copynumber: 6.9 Consensus size: 8
22543936 AAAGGAAATA
22543946 TAAAAAA-
1 TAAAAAAG
22543953 TGAAAAAAG
1 T-AAAAAAG
22543962 TAAAAAAG
1 TAAAAAAG
22543970 TAAAAAAG
1 TAAAAAAG
*
22543978 CAAAAAAG
1 TAAAAAAG
*
22543986 CAAAAAAG
1 TAAAAAAG
*
22543994 CAAAAAA
1 TAAAAAA
22544001 AAAAGAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
7 1 0.02
8 43 0.96
9 1 0.02
ACGTcount: A:0.76, C:0.05, G:0.11, T:0.07
Consensus pattern (8 bp):
TAAAAAAG
Found at i:22543982 original size:7 final size:8
Alignment explanation
Indices: 22543955--22544000 Score: 74
Period size: 8 Copynumber: 5.8 Consensus size: 8
22543945 ATAAAAAATG
*
22543955 AAAAAAGT
1 AAAAAAGC
*
22543963 AAAAAAGT
1 AAAAAAGC
22543971 AAAAAAGC
1 AAAAAAGC
22543979 AAAAAAGC
1 AAAAAAGC
22543987 AAAAAAGC
1 AAAAAAGC
22543995 AAAAAA
1 AAAAAA
22544001 AAAAGAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (8 bp):
AAAAAAGC
Found at i:22544009 original size:8 final size:8
Alignment explanation
Indices: 22543955--22544028 Score: 60
Period size: 8 Copynumber: 8.8 Consensus size: 8
22543945 ATAAAAAATG
*
22543955 AAAAAAGT
1 AAAAAAGA
*
22543963 AAAAAAGT
1 AAAAAAGA
*
22543971 AAAAAAGC
1 AAAAAAGA
*
22543979 AAAAAAGC
1 AAAAAAGA
22543987 AAAAAAGCA
1 AAAAAAG-A
22543996 AAAAAA-A
1 AAAAAAGA
22544003 AAGAAAAGAA
1 AA-AAAAG-A
22544013 AAGAAAAGA
1 AA-AAAAGA
22544022 ACAAAAA
1 A-AAAAA
22544029 AAACACAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
7 3 0.05
8 34 0.58
9 12 0.20
10 10 0.17
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (8 bp):
AAAAAAGA
Found at i:22545380 original size:29 final size:29
Alignment explanation
Indices: 22545298--22545381 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
22545288 TGTTCTTGTA
* *
22545298 TATATTCGTATTACTCGTATATATTCGTG
1 TATATCCGTATTATTCGTATATATTCGTG
* ** * * *
22545327 TAAATCTATGTTAGTT-GTGTCTATTCGTG
1 TATATCCGTATTA-TTCGTATATATTCGTG
*
22545356 TATATCCGTATTATTCGTATTTATTC
1 TATATCCGTATTATTCGTATATATTC
22545382 ATATCGTATT
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
28 2 0.05
29 36 0.92
30 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (29 bp):
TATATCCGTATTATTCGTATATATTCGTG
Found at i:22548075 original size:15 final size:16
Alignment explanation
Indices: 22548055--22548091 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
22548045 ATTTCAAAAT
22548055 TGCATATCA-TCATTA
1 TGCATATCATTCATTA
*
22548070 TGCATAGCATTCATTA
1 TGCATATCATTCATTA
22548086 -GCATAT
1 TGCATAT
22548092 ATGCATCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (16 bp):
TGCATATCATTCATTA
Found at i:22548879 original size:20 final size:19
Alignment explanation
Indices: 22548841--22548880 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22548831 AGTGGTACCA
22548841 TGGTTTATACAAATCAAAG
1 TGGTTTATACAAATCAAAG
* *
22548860 TGGTTGTATCCAAGTCAAAG
1 TGGTT-TATACAAATCAAAG
22548880 T
1 T
22548881 TTGATCTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (19 bp):
TGGTTTATACAAATCAAAG
Found at i:22550073 original size:12 final size:12
Alignment explanation
Indices: 22550058--22550090 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22550048 TAAAATTAAA
22550058 AATAAAACAAAT
1 AATAAAACAAAT
22550070 AATAAAACAAAT
1 AATAAAACAAAT
22550082 -AT-AAACAAA
1 AATAAAACAAA
22550091 CCCTAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 2 0.10
12 12 0.57
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAAACAAAT
Found at i:22565122 original size:187 final size:192
Alignment explanation
Indices: 22564748--22565122 Score: 539
Period size: 191 Copynumber: 2.0 Consensus size: 192
22564738 ATTTTACTAT
22564748 ACACTATAACGAAAACTATACATAGTTACTGTTCATGTTTTTATTTATTTAAGCCAACATTGTAA
1 ACACTATAACGAAAACTATACATAGTTACTGTTCATGTTTTTATTTA--TAAGCCAACATTGTAA
* * *
22564813 TTAGCTCGATGAGGCCTTTCAATCATTCTCATTTACTCTTTCTTTCTCTCTATCCTCTCTCTCTC
64 TTAGCTCGAGGAGGCCTTTCAATCATTCCCATTTACTCTTTCTTTCTCTCTATCCTCGCTCTCTC
* *
22564878 TCTTATCTCCATCTTCTCTTACCTACTTTCTTTCACTTAATGTAAAATAACCTAAATTTTATTGC
129 TC-TATCTCCATCTTCTCTTACCTACTTTCCTCCACTTAATGTAAAATAACCTAAATTTTATTGC
* * * **
22564943 ACACTATAACGAAAATTGTACATAGTTACTGTTCATGTTTTTGTTTA-AA-CCTGTC-TTGTAAT
1 ACACTATAACGAAAACTATACATAGTTACTGTTCATGTTTTTATTTATAAGCC-AACATTGTAAT
* *
22565005 TAGCTTGAGGAGGCCTTTCAGTCATTCCCATTTACTCTTTCTTTCTCT-TCAT-C-CGCTCTCTC
65 TAGCTCGAGGAGGCCTTTCAATCATTCCCATTTACTCTTTCTTTCTCTCT-ATCCTCGCTCTCTC
*
22565067 TC-ATCTCCATCTTCTCTTACCTATTTTCCTCCACTTAATGTAAAATAACCTAAATT
129 TCTATCTCCATCTTCTCTTACCTACTTTCCTCCACTTAATGTAAAATAACCTAAATT
22565123 AGATATTTCA
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
187 51 0.31
189 10 0.06
190 2 0.01
191 55 0.33
192 3 0.02
195 44 0.27
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.43
Consensus pattern (192 bp):
ACACTATAACGAAAACTATACATAGTTACTGTTCATGTTTTTATTTATAAGCCAACATTGTAATT
AGCTCGAGGAGGCCTTTCAATCATTCCCATTTACTCTTTCTTTCTCTCTATCCTCGCTCTCTCTC
TATCTCCATCTTCTCTTACCTACTTTCCTCCACTTAATGTAAAATAACCTAAATTTTATTGC
Found at i:22565858 original size:423 final size:422
Alignment explanation
Indices: 22565047--22565883 Score: 1252
Period size: 423 Copynumber: 2.0 Consensus size: 422
22565037 TACTCTTTCT
* *
22565047 TTCTCTTCATCCGCTCTCTCTCATCTCCATCTTCTCTTACCTATTTTCCTCCACTTAATGTAAAA
1 TTCTCTTCATCCGCTCTCTCTCATCTCCATCTTATCTTACCTACTTTCCTCCACTTAATGTAAAA
22565112 TAACCTAAATTAGATATTTCATTTCTCTTTTTAAACCTTTATACATCAATCTTTTCCACCCCCTT
66 TAACCTAAATTAGATATTTCATTTCTCTTTTTAAACCTTTATACATCAATCTTTTCCACCCCCTT
* * **
22565177 GTAAATGGTATCAATGCTCTAGGTTTGTAAAAAGGTTTGTACTATTTCAGCTAATAGATATATCT
131 GTAAATGGTATCAAGGCTCTAAGTTTGTAAAAAAATTTGTACTATTTCAGCTAATAGATATATCT
**
22565242 TGTAATCTTATTTTTATAAACAAAGTCTTTATATTTACTCTTTTTTTATTGTTATTTCATGTTTT
196 TGTAATCTTATTTTTATAAACAAAGTCTTTATATAAACTCTTTTTTTATTGTTATTTCATGTTTT
* * * *
22565307 AAAGCTCATCTCATGAATATGTGATTATTTGCTAATAAATGTTAGGCTTTGTATGCCTTGTTGTT
261 AAAGCTCATATCATGAATATGTGATTATTTACTAATAAATATTAGGCTTTATATGCCTTGTTGTT
* * *
22565372 GACTGACCTTTGGTAACCCAGACACAATCACACCGATTTTAAGCACAAAAAATATGGAATCAACT
326 GA--GACCTTTGGTAACCCAGACACAATCACACCGATTTTAAACACAAAAAACATGAAATCAACT
22565437 TCAAAAAATAATTGTATTTGTAAACATTAATTTA
389 TCAAAAAATAATTGTATTTGTAAACATTAATTTA
* *
22565471 TTCTC-TCATCCTCTTTCTCTCATCTCCATCTTATCTTACCTACTTTCCTCCACTTAATGTAAAA
1 TTCTCTTCATCCGCTCTCTCTCATCTCCATCTTATCTTACCTACTTTCCTCCACTTAATGTAAAA
* *
22565535 TAATCTAAATTAGATATTTCGTTTCTCTTTTTAAACCTTTATACAT-ATATCCTTTTCGCACCCC
66 TAACCTAAATTAGATATTTCATTTCTCTTTTTAAACCTTTATACATCA-AT-CTTTTC-CACCCC
* *
22565599 TTTGTAAATGGTATC-AGGCTCTAAGTTTGTAAAAAAATTTGTACTATTTCAGCTTATAGATATA
128 CTTGTAAATGGTATCAAGGCTCTAAGTTTGTAAAAAAATTTGTACTATTTCAGCTAATAGATATA
* * *
22565663 TCTTGTAATCTTATTTTTATAAATAAAGTCTTTATATAAACTATTGTTTTTTATTGTTATTTTAT
193 TCTTGTAATCTTATTTTTATAAACAAAGTCTTTATATAAACT-CT-TTTTTTATTGTTATTTCAT
* * ** *
22565728 GTTTTAAAGCTCATATCGTGAATCTGTGATTATTTACTGGTAATTATTAGGCTTTATATGCCTTG
256 GTTTTAAAGCTCATATCATGAATATGTGATTATTTACTAATAAATATTAGGCTTTATATGCCTTG
* * * * * *
22565793 TTGATTG-GA-CTTTGGTAACCCATACAGATTCACATCGGTTTTAAACACCAAAAACATGAAATC
321 TTG-TTGAGACCTTTGGTAACCCAGACACAATCACACCGATTTTAAACACAAAAAACATGAAATC
22565856 AACTTCAAAAAATAATTGTATTTGTAAA
385 AACTTCAAAAAATAATTGTATTTGTAAA
22565884 GATCAAGTTT
Statistics
Matches: 372, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
422 1 0.00
423 174 0.47
424 96 0.26
425 21 0.06
426 77 0.21
427 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (422 bp):
TTCTCTTCATCCGCTCTCTCTCATCTCCATCTTATCTTACCTACTTTCCTCCACTTAATGTAAAA
TAACCTAAATTAGATATTTCATTTCTCTTTTTAAACCTTTATACATCAATCTTTTCCACCCCCTT
GTAAATGGTATCAAGGCTCTAAGTTTGTAAAAAAATTTGTACTATTTCAGCTAATAGATATATCT
TGTAATCTTATTTTTATAAACAAAGTCTTTATATAAACTCTTTTTTTATTGTTATTTCATGTTTT
AAAGCTCATATCATGAATATGTGATTATTTACTAATAAATATTAGGCTTTATATGCCTTGTTGTT
GAGACCTTTGGTAACCCAGACACAATCACACCGATTTTAAACACAAAAAACATGAAATCAACTTC
AAAAAATAATTGTATTTGTAAACATTAATTTA
Found at i:22577887 original size:19 final size:20
Alignment explanation
Indices: 22577859--22577897 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22577849 TAATTTGGTA
22577859 TTATTATT-AAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
*
22577878 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
22577898 AAAAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTATTATTAAAGTTTATTTT
Found at i:22578956 original size:20 final size:20
Alignment explanation
Indices: 22578909--22578997 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 20
22578899 ATTTTTTTTG
22578909 TTTTATTTTTTTATATATTT
1 TTTTATTTTTTTATATATTT
22578929 TTTGTATTTTTGTT-TA-ATTT
1 TTT-TATTTTT-TTATATATTT
*
22578949 TTATTATTGTATTTAATAATATTAT
1 TT-TTATT-T-TTTTAT-ATATT-T
*
22578974 TATTATTTTATTTAT-TATTT
1 TTTTATTTT-TTTATATATTT
22578994 TTTT
1 TTTT
22578998 TGTGACCGGA
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
20 17 0.31
21 16 0.29
22 6 0.11
23 6 0.11
24 8 0.15
25 2 0.04
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTATTTTTTTATATATTT
Found at i:22578993 original size:12 final size:12
Alignment explanation
Indices: 22578948--22578994 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
22578938 TTGTTTAATT
*
22578948 TTTATTATTGTA
1 TTTATTATTTTA
* *
22578960 TTTAATAATATTA
1 TTT-ATTATTTTA
22578973 -TTATTATTTTA
1 TTTATTATTTTA
22578984 TTTATTATTTT
1 TTTATTATTTT
22578995 TTTTGTGACC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 7 0.25
12 15 0.54
13 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:22579356 original size:50 final size:50
Alignment explanation
Indices: 22579172--22579510 Score: 257
Period size: 50 Copynumber: 6.9 Consensus size: 50
22579162 CGTCAAATCG
* * * * *
22579172 AAAATGCTCCTCTCA-CTTGAGGCTCGACAACTTTTAAAAATTTAAAATCTAA
1 AAAAGGCTCCTCTCAGC-AGAGGCTCAACAAC-TTTAAAAATTTCAACT-TAA
* * * *
22579224 AAAAGACTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTCATCTTGA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAACTTAA
* * * ** * * * *
22579274 AAAGGGCTTCTTTTGGTAGAGGTTCAATAACTTTAAAAATCTCAACTTAA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAACTTAA
* * * * *
22579324 AAAAGGTTCCTCTCAGCAGAGTCTCAACAACTTT-AAAATTTAAAATTTGA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTT-CAACTTAA
* * *
22579374 AATAGGCTCCTCTCAGCAGA--CTCAACAACTTT-AAAATTTCATCTCGAA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAACT-TAA
** * *
22579422 AAAA-GCTCCTCTCAATAGAGGCTCAACAAC-TTAAAAA-TTC-TCTTGA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAACTTAA
* * * *
22579468 AAAA-GCTCCTCTCAACAAAGGCTCAATAACTTTAAAAAATTCA
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCA
22579511 TCTTCGAAAA
Statistics
Matches: 227, Mismatches: 51, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
46 28 0.12
47 25 0.11
48 31 0.14
49 19 0.08
50 86 0.38
51 13 0.06
52 24 0.11
53 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (50 bp):
AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAACTTAA
Found at i:22580291 original size:16 final size:18
Alignment explanation
Indices: 22580270--22580309 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
22580260 TGAGTTATTA
22580270 TTTTTCAT-TTTTT-ACT
1 TTTTTCATATTTTTCACT
*
22580286 TTTTTCATATTTTTCTCT
1 TTTTTCATATTTTTCACT
22580304 TTTTTC
1 TTTTTC
22580310 TTTCAAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 5 0.24
18 8 0.38
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTCATATTTTTCACT
Found at i:22590982 original size:17 final size:17
Alignment explanation
Indices: 22590941--22590983 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
22590931 TTTTTTCTTA
22590941 TTTTTTATTAGTTTACT
1 TTTTTTATTAGTTTACT
* *
22590958 ATTATTATTAAGTTTA-T
1 TTTTTTATT-AGTTTACT
22590975 TTTTTTATT
1 TTTTTTATT
22590984 TTTAAAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTTTATTAGTTTACT
Found at i:22590988 original size:20 final size:21
Alignment explanation
Indices: 22590959--22590998 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22590949 TAGTTTACTA
22590959 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTTATTTTT
*
22590979 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
22590999 AAAAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TTATTATTAAAGTTTATTTTT
Found at i:22593314 original size:14 final size:14
Alignment explanation
Indices: 22593295--22593351 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
22593285 TAATCTAACA
22593295 AATATAAATAATTT
1 AATATAAATAATTT
*
22593309 AATATACATAAATATT
1 AATATAAAT-AAT-TT
*
22593325 AATA-AAATAATAT
1 AATATAAATAATTT
*
22593338 ATATATAAAAAATT
1 A-ATATAAATAATT
22593352 CAAAATTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 2 0.06
14 14 0.41
15 12 0.35
16 6 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATAAATAATTT
Found at i:22594321 original size:20 final size:21
Alignment explanation
Indices: 22594276--22594355 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 21
22594266 TTTTTTGTTC
* *
22594276 TATTTTTTTTATAT-ATATTT
1 TATTATTTTTATTTAATATTT
*
22594296 TA-TATTTTTGTTTAAT-TTT
1 TATTATTTTTATTTAATATTT
* *
22594315 TATTA-TTGTATTTAATATAT
1 TATTATTTTTATTTAATATTT
*
22594335 TATTA-TTTTATTTATTATTT
1 TATTATTTTTATTTAATATTT
22594355 T
1 T
22594356 TTCTGTGACT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 22 0.46
20 26 0.54
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (21 bp):
TATTATTTTTATTTAATATTT
Found at i:22594327 original size:32 final size:33
Alignment explanation
Indices: 22594267--22594332 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
22594257 CCTCCCTTTT
* *
22594267 TTTTTGTTCTATTTTTTTTATATATATTTTATA
1 TTTTTGTTCTATTTTTATTATATATATTTAATA
*
22594300 TTTTTGTT-TAATTTTTATTAT-TGTATTTAATA
1 TTTTTGTTCT-ATTTTTATTATATATATTTAATA
22594332 T
1 T
22594333 ATTATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (33 bp):
TTTTTGTTCTATTTTTATTATATATATTTAATA
Found at i:22599829 original size:17 final size:17
Alignment explanation
Indices: 22599797--22599842 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
22599787 TTATTATGAT
* *
22599797 ATAATTTATCAAT-AAA
1 ATAATTTTTTAATAAAA
22599813 ATAATATTTTTAATAAAA
1 ATAAT-TTTTTAATAAAA
22599831 ATAATTTTTTAA
1 ATAATTTTTTAA
22599843 AAATAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTTTTTAATAAAA
Found at i:22602906 original size:2 final size:2
Alignment explanation
Indices: 22602899--22602934 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
22602889 AATTATTATG
22602899 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
22602935 TTTGATGGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22603895 original size:12 final size:12
Alignment explanation
Indices: 22603876--22603925 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
22603866 ATTATAATAA
22603876 AATA-TTTAATT
1 AATATTTTAATT
22603887 AATATTTTAATT
1 AATATTTTAATT
*
22603899 AA-ATTTTTAATAA
1 AATA-TTTTAAT-T
*
22603912 AATATTTAAATT
1 AATATTTTAATT
22603924 AA
1 AA
22603926 AAATTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 5 0.16
12 18 0.56
13 8 0.25
14 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTTAATT
Found at i:22603901 original size:25 final size:25
Alignment explanation
Indices: 22603873--22603937 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
22603863 TAAATTATAA
*
22603873 TAAAATATTTAATTAATATTTTAAT
1 TAAAATATTTAATTAATATTTAAAT
* *
22603898 T-AAATTTTTAATAAAATATTTAAAT
1 TAAAATATTTAAT-TAATATTTAAAT
22603923 TAAAA-ATTT-ATTAAT
1 TAAAATATTTAATTAAT
22603938 TAATATAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
23 3 0.09
24 12 0.36
25 15 0.45
26 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TAAAATATTTAATTAATATTTAAAT
Found at i:22603936 original size:36 final size:34
Alignment explanation
Indices: 22603858--22603936 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 34
22603848 GTTGTGAATG
*
22603858 ATTT-TTAAATTATAATAAAATATTTAATTAATA
1 ATTTATTAAATTATAATAAAATATTTAATTAAAA
* *
22603891 TTTTAATTAAATTTTTAATAAAATATTTAAATTAAAA
1 ATTT-ATTAAA-TTATAATAAAATATTT-AATTAAAA
22603928 ATTTATTAA
1 ATTTATTAA
22603937 TTAATATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 3 0.08
35 5 0.13
36 20 0.53
37 10 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
ATTTATTAAATTATAATAAAATATTTAATTAAAA
Found at i:22618310 original size:111 final size:109
Alignment explanation
Indices: 22618114--22618322 Score: 255
Period size: 111 Copynumber: 1.9 Consensus size: 109
22618104 TTGAAAACAT
*
22618114 GAAAAAATACAATTTCTATTGAAAACATGAAAAAATATATTTTTTTCAAAAATAAAAGACGACAT
1 GAAAAAATACAATTTCTATTGAAAACATGAAAAAATATA-TTTTTTCAAAAATAAAAGACAACAT
22618179 TTCTACAATAAAAATATAATTTTTGTTGAAAAGATAATATTTTTAA
65 TTCTACAATAAAAATATAATTTTT-TTGAAAAGATAATATTTTTAA
* * * *
22618225 GAAAATAATGCAATTTTTGTTGAAAACAT-AAAAAATATA-TTTTTCATATTCAATAAAA-ACAA
1 GAAAA-AATACAATTTCTATTGAAAACATGAAAAAATATATTTTTTCA-A--AAATAAAAGACAA
* * *
22618287 TATTTCTA-AGATAAAAATGTAATTTTTTTTAAAAGA
62 CATTTCTACA-ATAAAAATATAATTTTTTTGAAAAGA
22618323 CAGTTTACTT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
109 7 0.08
110 10 0.12
111 41 0.48
112 27 0.32
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (109 bp):
GAAAAAATACAATTTCTATTGAAAACATGAAAAAATATATTTTTTCAAAAATAAAAGACAACATT
TCTACAATAAAAATATAATTTTTTTGAAAAGATAATATTTTTAA
Done.