Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 78 of 185
Found at i:23927534 original size:101 final size:101
Alignment explanation
Indices: 23927364--23927549 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
23927354 TGTTCGGTTC
* *
23927364 ACATAGTAGCCTGCACATAGTAATACACATGTGACCATTACCATTCGATACACGCAGTAGCCTGC
1 ACATAGTACCCTGCACATAGTAATACACATGCGACCA-TACCATTCGATACACGCAGTAGCCTGC
23927429 ACATAGTACTACACACGTGATCGAAACTATCCGGTAG
65 ACATAGTACTACACACGTGATCGAAACTATCCGGTAG
* * * * * *
23927466 ACATAGTACCCTGCACATAGTACTATAGATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGC
1 ACATAGTACCCTGCACATAGTAATACACATGCGACCATACCATT-CGATACACGCAGTAGCCTGC
23927530 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
23927550 CCATCATTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
100 6 0.08
101 38 0.51
102 31 0.41
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (101 bp):
ACATAGTACCCTGCACATAGTAATACACATGCGACCATACCATTCGATACACGCAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAACTATCCGGTAG
Found at i:23929693 original size:24 final size:26
Alignment explanation
Indices: 23929651--23929703 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 26
23929641 TTCTCCTAAA
*
23929651 TTTCAAATTTATTGCATTATTTAAT-T
1 TTTCAAATTTATTGAATTA-TTAATAT
23929677 TTTC-AATTTATT-AATTATTAATAT
1 TTTCAAATTTATTGAATTATTAATAT
23929701 TTT
1 TTT
23929704 ATGAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 8 0.32
26 4 0.16
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTCAAATTTATTGAATTATTAATAT
Found at i:23929702 original size:25 final size:26
Alignment explanation
Indices: 23929651--23929703 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
23929641 TTCTCCTAAA
* *
23929651 TTTCAAATTTATTGCATTATTTAATT
1 TTTCAAATTTATTGAATTATTAAATT
23929677 TTTC-AATTTATT-AATTATTAATATT
1 TTTCAAATTTATTGAATTATTAA-ATT
23929702 TT
1 TT
23929704 ATGAAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 13 0.54
26 4 0.17
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTCAAATTTATTGAATTATTAAATT
Found at i:23933135 original size:17 final size:17
Alignment explanation
Indices: 23933100--23933133 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
23933090 CTTCACTTAT
23933100 TCATTTCAACACACCTC
1 TCATTTCAACACACCTC
23933117 TCATTTC--CACACCTC
1 TCATTTCAACACACCTC
23933132 TC
1 TC
23933134 TCTCTCTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
17 7 0.41
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (17 bp):
TCATTTCAACACACCTC
Found at i:23935144 original size:28 final size:27
Alignment explanation
Indices: 23935103--23935167 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
23935093 AATACGAAAG
* *
23935103 AAAAGAAATTATATATTAAA-ATAAATTT
1 AAAATAAATAATATA-TAAATA-AAATTT
23935131 AAAATAAATAATATATAAATGAAAATTT
1 AAAATAAATAATATATAAAT-AAAATTT
*
23935159 GAAATAAAT
1 AAAATAAAT
23935168 TGAAAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.12
28 27 0.84
29 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAATAAATAATATATAAATAAAATTT
Found at i:23935520 original size:3 final size:3
Alignment explanation
Indices: 23935512--23935571 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
23935502 AACTAATATA
* * * * * *
23935512 AAT AAT AAT ACT AAT AGT TAT AAT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23935560 AAT GAA- AAT AAT
1 AAT -AAT AAT AAT
23935572 TGAGTAATTA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23935549 original size:15 final size:15
Alignment explanation
Indices: 23935512--23935562 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
23935502 AACTAATATA
23935512 AATAATAAT-ACTAAT
1 AATAATAATAAC-AAT
* * *
23935527 AGTTATAATAACATT
1 AATAATAATAACAAT
23935542 AATAATAATAACAAT
1 AATAATAATAACAAT
23935557 AATAAT
1 AATAAT
23935563 GAAAATAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 27 0.93
16 2 0.07
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:23939745 original size:23 final size:23
Alignment explanation
Indices: 23939719--23939762 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
23939709 CCTCATCCGC
23939719 TACACACCAACTCCGACCATCTT
1 TACACACCAACTCCGACCATCTT
23939742 TACACACCAACTCCGACCATC
1 TACACACCAACTCCGACCATC
23939763 CCAACACGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.45, G:0.05, T:0.18
Consensus pattern (23 bp):
TACACACCAACTCCGACCATCTT
Found at i:23939769 original size:23 final size:23
Alignment explanation
Indices: 23939720--23939769 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
23939710 CTCATCCGCT
***
23939720 ACACACCAACTCCGACCATCTTT
1 ACACACCAACTCCGACCATCCCA
23939743 ACACACCAACTCCGACCATCCCA
1 ACACACCAACTCCGACCATCCCA
23939766 ACAC
1 ACAC
23939770 GCCATGTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.48, G:0.04, T:0.14
Consensus pattern (23 bp):
ACACACCAACTCCGACCATCCCA
Found at i:23945228 original size:85 final size:94
Alignment explanation
Indices: 23945056--23945237 Score: 231
Period size: 85 Copynumber: 2.0 Consensus size: 94
23945046 TTACGAGGGT
* * *
23945056 AAAGAGCCCTCAAAATTTTTCAATAAAAAAGTAATTGAGCGTTTGCTTTTTTTTTTGCATTCAAT
1 AAAGAGCCCTCAAAATTTTTCAATAAAAAAGCAATTGAGAGTTTGCTTTTTTTTTTGCACTCAAT
* *
23945121 TGGGTACTTGAACTTTCAAAATGCATAAA
66 TAGGTACTTGAACTTCCAAAATGCATAAA
23945150 AAAGA-CCCTCAAAATTTTTC-A-AAAAAAGCAATT-A-AG-TT-C-TTTTTTTTT-CACTCAAT
1 AAAGAGCCCTCAAAATTTTTCAATAAAAAAGCAATTGAGAGTTTGCTTTTTTTTTTGCACTCAAT
*
23945206 TAGGTGCTTGAA-TTGCCAAAATGCATAAA
66 TAGGTACTTGAACTT-CCAAAATGCATAAA
23945235 AAA
1 AAA
23945238 CTTGTAACAC
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
84 2 0.02
85 33 0.41
86 9 0.11
87 1 0.01
88 2 0.02
89 1 0.01
90 1 0.01
91 11 0.14
92 1 0.01
93 15 0.19
94 5 0.06
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (94 bp):
AAAGAGCCCTCAAAATTTTTCAATAAAAAAGCAATTGAGAGTTTGCTTTTTTTTTTGCACTCAAT
TAGGTACTTGAACTTCCAAAATGCATAAA
Found at i:23946697 original size:50 final size:53
Alignment explanation
Indices: 23946602--23946744 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 53
23946592 TTTCTTGTAC
* * * * * *
23946602 TGCCAATGTCATATCTCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GG
1 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGACTTCTCATAACTCAGA
* *
23946652 TGCCCATGACATGTCCTAGACATGGTCTTACATGGGACCTT-TCATAATCTCAATGA
1 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATAA-CTC-A-GA
*
23946708 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGA
23946745 TCTCTTTACC
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
50 35 0.47
51 3 0.04
53 2 0.03
56 35 0.47
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (53 bp):
TGCCAATGACATGTCCCAGACATGGTCTTACATGGGACTTCTCATAACTCAGA
Found at i:23953675 original size:50 final size:47
Alignment explanation
Indices: 23953558--23953732 Score: 140
Period size: 50 Copynumber: 3.6 Consensus size: 47
23953548 ACATGCCAAA
* * * *
23953558 GCCATGTCCCGGACATGGTCTTACATGGGATGTTTCTTGTAC-TGCAAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTTCATAT-CGTGC-CAT
* *
23953607 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGTCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTT-TCATATC-GTG-CCAT
* * *
23953657 GCCATGTCCCAGACATGGTCTT--ATGGGAGACCTATCATCTCGTTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAG---TTTCATATCG-TGCC-AT
*
23953707 GCCATGTCCCAGACATAGTCTTACAT
1 GCCATGTCCCAGACATGGTCTTACAT
23953733 CATCTTGGTG
Statistics
Matches: 103, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
48 11 0.11
49 34 0.33
50 54 0.52
51 2 0.02
52 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTTCATATCGTGCCAT
Found at i:23953735 original size:41 final size:41
Alignment explanation
Indices: 23953690--23953773 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 41
23953680 TGGGAGACCT
* *
23953690 ATCATCTCGTTGCCAACGCCATGTCCCAGACAT-AGTCTTAC
1 ATCATCTCGGTGCCAACACCATGTCCCAGACATGA-TCTTAC
* *
23953731 ATCATCTTGGTGCCAACACCATGTTCCAGACATGATCTTAC
1 ATCATCTCGGTGCCAACACCATGTCCCAGACATGATCTTAC
23953772 AT
1 AT
23953774 GGGACCTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (41 bp):
ATCATCTCGGTGCCAACACCATGTCCCAGACATGATCTTAC
Found at i:23954878 original size:20 final size:20
Alignment explanation
Indices: 23954847--23954897 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
23954837 TAAAACTTGT
23954847 AAAAA-TAT-AAAAAAATTA
1 AAAAATTATAAAAAAAATTA
** **
23954865 AAATTTTATAAAAATCATTA
1 AAAAATTATAAAAAAAATTA
23954885 AAAAATTATAAAA
1 AAAAATTATAAAA
23954898 TGCATCAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 19 0.76
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTATAAAAAAAATTA
Found at i:23954907 original size:20 final size:20
Alignment explanation
Indices: 23954870--23954908 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23954860 AATTAAAATT
*
23954870 TTATAAAAATCATTAAAAAA
1 TTATAAAAATCATCAAAAAA
23954890 TTAT-AAAATGCATCAAAAA
1 TTATAAAAAT-CATCAAAAA
23954909 GGCTCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (20 bp):
TTATAAAAATCATCAAAAAA
Found at i:23955124 original size:12 final size:10
Alignment explanation
Indices: 23955091--23955116 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23955081 TTTTACAAAT
23955091 TTTATATTTC
1 TTTATATTTC
23955101 TTTATATTTC
1 TTTATATTTC
23955111 TTTATA
1 TTTATA
23955117 ATTTTCTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATATTTC
Found at i:23957317 original size:16 final size:16
Alignment explanation
Indices: 23957293--23957326 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
23957283 TAAGTGCAAA
23957293 AAAAATTATAAATTAT
1 AAAAATTATAAATTAT
*
23957309 AAAATTTATAAATTAT
1 AAAAATTATAAATTAT
23957325 AA
1 AA
23957327 TATATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATTATAAATTAT
Found at i:23972023 original size:17 final size:17
Alignment explanation
Indices: 23971997--23972030 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23971987 TGACCTAAGG
*
23971997 GGTTCGATACATTAACT
1 GGTTCAATACATTAACT
*
23972014 GGTTCAATACCTTAACT
1 GGTTCAATACATTAACT
23972031 ACAAATTCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (17 bp):
GGTTCAATACATTAACT
Found at i:23977923 original size:32 final size:33
Alignment explanation
Indices: 23977878--23977941 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
23977868 ACTAAAGAAT
* * *
23977878 CTAAACATATAATT-AAAACTTGAGATTTAAAC
1 CTAAAAATATAATTAAAAACTTAAAATTTAAAC
*
23977910 CTAAAAATCTAATTAAAAACTTAAAATTTAAA
1 CTAAAAATATAATTAAAAACTTAAAATTTAAA
23977942 ATAAAACCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (33 bp):
CTAAAAATATAATTAAAAACTTAAAATTTAAAC
Found at i:23979119 original size:14 final size:15
Alignment explanation
Indices: 23979100--23979128 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23979090 TTAAGCTTAT
23979100 ATAAAAATA-TATAC
1 ATAAAAATAGTATAC
23979114 ATAAAAATAGTATAC
1 ATAAAAATAGTATAC
23979129 GATAGATCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (15 bp):
ATAAAAATAGTATAC
Found at i:23979175 original size:24 final size:23
Alignment explanation
Indices: 23979148--23979276 Score: 117
Period size: 24 Copynumber: 5.7 Consensus size: 23
23979138 AAATAATGAT
* *
23979148 ATGATAAGTTTAAAATTATAGTA
1 ATGATAAATTTAAAATAATAGTA
* *
23979171 CATGATAAATTTCAAATTATGATGT-
1 -ATGATAAATTTAAAATAAT-A-GTA
*
23979196 ATGATAAATTT-AAATAATATTA
1 ATGATAAATTTAAAATAATAGTA
23979218 ATGAT-AATTT-AAATAATAGT-
1 ATGATAAATTTAAAATAATAGTA
*
23979238 AT-ATTAAATATTAAAATAATACTA
1 ATGA-TAAAT-TTAAAATAATAGTA
23979262 ATGATAAATTTAAAA
1 ATGATAAATTTAAAA
23979277 CAATGTTAAG
Statistics
Matches: 90, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.01
20 3 0.03
21 18 0.20
22 8 0.09
23 21 0.23
24 35 0.39
25 2 0.02
26 2 0.02
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATAGTA
Found at i:23992319 original size:150 final size:150
Alignment explanation
Indices: 23992048--23992335 Score: 549
Period size: 150 Copynumber: 1.9 Consensus size: 150
23992038 TTGTAAGTTG
*
23992048 TTGTTTTTGCATTTTGAAATGTTTCATTGTGCATGCATTGAAGACAATGCATCCCTTAGGGTTGG
1 TTGTTTTTGCATTTTGAAATGTTTCATTGTGCATGCATCGAAGACAATGCATCCCTTAGGGTTGG
*
23992113 GGGTGTGTTGTGTTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
66 GGGTGTGTTGTGCTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
23992178 TTCATTTTGCCATTAGATAC
131 TTCATTTTGCCATTAGATAC
*
23992198 TTGTTTTTGCATTTTGAAATGTTTCATTGTTCATGCATCGAAGACAATGCATCCCTTAGGGTTGG
1 TTGTTTTTGCATTTTGAAATGTTTCATTGTGCATGCATCGAAGACAATGCATCCCTTAGGGTTGG
23992263 GGGTGTGTTGTGCTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
66 GGGTGTGTTGTGCTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
23992328 TTCATTTT
131 TTCATTTT
23992336 TTCATTACAT
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 135 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (150 bp):
TTGTTTTTGCATTTTGAAATGTTTCATTGTGCATGCATCGAAGACAATGCATCCCTTAGGGTTGG
GGGTGTGTTGTGCTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
TTCATTTTGCCATTAGATAC
Found at i:23995958 original size:41 final size:41
Alignment explanation
Indices: 23995896--23996042 Score: 231
Period size: 41 Copynumber: 3.6 Consensus size: 41
23995886 CATTGAATGT
* * *
23995896 AAGGGCTTGCTAGGTGCAGATTCCTCGAATCATTGATCGAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
* *
23995937 AAGGGGTTACTAAGTGTAGATTCCCCGAATCATTGATCGAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
* *
23995978 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
23996019 AAGGGGTTGCTAAGTGCAGATTCC
1 AAGGGGTTGCTAAGTGCAGATTCC
23996043 TCAAGGGGTT
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
Found at i:23996053 original size:26 final size:25
Alignment explanation
Indices: 23996019--23996111 Score: 143
Period size: 26 Copynumber: 3.6 Consensus size: 25
23996009 ACTGATCAAA
23996019 AAGGGGTTGCTAAGTGCAGATTCCTC
1 AAGGGGTTGCTAAGTGCAGATTCC-C
23996045 AAGGGGTTGCTAAGTGCAGATTCCCC
1 AAGGGGTTGCTAAGTGCAGATT-CCC
*
23996071 GAGGGGTTGCTAAGTGCAGATTCCC
1 AAGGGGTTGCTAAGTGCAGATTCCC
23996096 TAA-GGGTTGCTAAGTG
1 -AAGGGGTTGCTAAGTG
23996112 TTAATGTAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
25 16 0.25
26 45 0.71
27 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (25 bp):
AAGGGGTTGCTAAGTGCAGATTCCC
Found at i:23997482 original size:27 final size:27
Alignment explanation
Indices: 23997452--23997629 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23997442 ATATTGAGTC
* * * *
23997452 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23997479 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23997506 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23997534 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23997561 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23997588 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23997615 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23997630 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23997591 original size:82 final size:81
Alignment explanation
Indices: 23997473--23997628 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23997463 TGCTATATAA
* *
23997473 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23997538 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23997555 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23997619 CACTTAGTGC
65 CACTTAGTGC
23997629 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23999264 original size:14 final size:14
Alignment explanation
Indices: 23999245--23999276 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23999235 ATTTTCACAC
23999245 ATTCATGATTACAT
1 ATTCATGATTACAT
23999259 ATTCATGATTACAT
1 ATTCATGATTACAT
23999273 ATTC
1 ATTC
23999277 TTACATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (14 bp):
ATTCATGATTACAT
Found at i:24004850 original size:30 final size:30
Alignment explanation
Indices: 24004814--24004871 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
24004804 CTTGAGGTTT
24004814 GTCCAAACAAAAATGGATGCATTTAAGTTC
1 GTCCAAACAAAAATGGATGCATTTAAGTTC
24004844 GTCCAAACAAAAATGGATGCATTTAAGT
1 GTCCAAACAAAAATGGATGCATTTAAGT
24004872 GATTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (30 bp):
GTCCAAACAAAAATGGATGCATTTAAGTTC
Found at i:24005921 original size:11 final size:11
Alignment explanation
Indices: 24005905--24005930 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24005895 TATTCAATAA
24005905 CATAAACGAAT
1 CATAAACGAAT
24005916 CATAAACGAAT
1 CATAAACGAAT
24005927 CATA
1 CATA
24005931 TACATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (11 bp):
CATAAACGAAT
Found at i:24016345 original size:10 final size:10
Alignment explanation
Indices: 24016330--24016359 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
24016320 ATTATTAAGT
24016330 TAAAGTAAAA
1 TAAAGTAAAA
24016340 TAAAGTAAAA
1 TAAAGTAAAA
24016350 TAAAGTAAAA
1 TAAAGTAAAA
24016360 AGATGGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (10 bp):
TAAAGTAAAA
Found at i:24020660 original size:29 final size:29
Alignment explanation
Indices: 24020630--24020811 Score: 108
Period size: 29 Copynumber: 6.3 Consensus size: 29
24020620 GTAACCGTCT
24020630 CTTTTCATATTCGATGATCGAAACCA-CC
1 CTTTTCATATTCGATGATCGAAACCATCC
* * * *
24020658 TCTTTTCATAATCGA-CAGTCGAAGCTATCC
1 -CTTTTCATATTCGATGA-TCGAAACCATCC
* **
24020688 CTTTTCATATTCGATGGTCGTCACCATCC
1 CTTTTCATATTCGATGATCGAAACCATCC
* ** *
24020717 CTTTTCATAGTT-GATGGTCGTCACCATAC
1 CTTTTCATA-TTCGATGATCGAAACCATCC
* * *
24020746 CTTTTCATAATCGAT-AGTC-AAAGCTATCA
1 CTTTTCATATTCGATGA-TCGAAA-CCATCC
* * *
24020775 CTTTTCATATTCAAT-AGCTG-AAGCATCC
1 CTTTTCATATTCGATGATC-GAAACCATCC
24020803 CTTTTCATA
1 CTTTTCATA
24020812 ATTGATGCTG
Statistics
Matches: 119, Mismatches: 25, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
28 16 0.13
29 99 0.83
30 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (29 bp):
CTTTTCATATTCGATGATCGAAACCATCC
Found at i:24020833 original size:28 final size:29
Alignment explanation
Indices: 24020742--24020838 Score: 96
Period size: 28 Copynumber: 3.4 Consensus size: 29
24020732 GGTCGTCACC
* *
24020742 ATACCTTTTCATAATCGATAG-TCAAAGCT
1 ATACCTTTTCATAATTGATAGCT-GAAGCT
*
24020771 AT-CACTTTTCAT-ATTCAATAGCTGAAGC-
1 ATAC-CTTTTCATAATT-GATAGCTGAAGCT
*
24020799 ATCCCTTTTCATAATTGAT-GCTGAAGCT
1 ATACCTTTTCATAATTGATAGCTGAAGCT
24020827 ATACCTTTTCAT
1 ATACCTTTTCAT
24020839 TGGTCGATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
27 8 0.14
28 26 0.46
29 22 0.39
30 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (29 bp):
ATACCTTTTCATAATTGATAGCTGAAGCT
Found at i:24024991 original size:21 final size:23
Alignment explanation
Indices: 24024949--24024993 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
24024939 CACTGCTCCA
24024949 TGTCTAAAGTCTACTACCAGTATC
1 TGTCTAAAGTCTACTA-CAGTATC
24024973 TGTCTAAAGTCTAC-A-AGTATC
1 TGTCTAAAGTCTACTACAGTATC
24024994 GGTCCAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
23 1 0.05
24 14 0.67
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (23 bp):
TGTCTAAAGTCTACTACAGTATC
Found at i:24025566 original size:43 final size:43
Alignment explanation
Indices: 24025483--24025607 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
24025473 TAAATCCAAC
* *
24025483 AACCCAAGATTATCTTATCCTC-TTTTAAATTTTTTTTTCAAT
1 AACCCAAGATTATCTTATCCTCTTTTTAAATTCTTTTTTCAAA
* *
24025525 AACCCAAGATTATCTTCTCCTCTTTTTAGATTCTTTTTTCAAA
1 AACCCAAGATTATCTTATCCTCTTTTTAAATTCTTTTTTCAAA
* * ** *
24025568 AATCCAAGATTATCTTTTTTTCTTTTTAAATTCCTTTTTC
1 AACCCAAGATTATCTTATCCTCTTTTTAAATTCTTTTTTC
24025608 TAGGATAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 21 0.29
43 51 0.71
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (43 bp):
AACCCAAGATTATCTTATCCTCTTTTTAAATTCTTTTTTCAAA
Found at i:24026220 original size:18 final size:19
Alignment explanation
Indices: 24026197--24026235 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24026187 AATTTGAAAT
*
24026197 AAAACA-GAAAATTTTGGA
1 AAAACATGAAAATTTGGGA
24026215 AAAACATGAAAATTTGGGA
1 AAAACATGAAAATTTGGGA
24026234 AA
1 AA
24026236 CAAGGGTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (19 bp):
AAAACATGAAAATTTGGGA
Found at i:24026654 original size:10 final size:11
Alignment explanation
Indices: 24026629--24026653 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24026619 AAAACACTTT
24026629 AAAACATACAA
1 AAAACATACAA
24026640 AAAACATACAA
1 AAAACATACAA
24026651 AAA
1 AAA
24026654 CCAACCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAACATACAA
Found at i:24030098 original size:39 final size:39
Alignment explanation
Indices: 24030044--24030297 Score: 235
Period size: 39 Copynumber: 6.5 Consensus size: 39
24030034 TATAATTGTA
** * *
24030044 CCCTGATCGTGCATACGTGCCCCTTTTGTACTTCAATAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * *
24030083 CCTTGATCGCACATACGTGCCCCTGTTGTACTTC-GGAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * * * *
24030121 CCCTAATCGTACATACATTCCCCTATTGTACTTCAATAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * * * *
24030160 TCTTGATCAG-ACTTACATGCCCCTATTGTACTTCGGTAC
1 CCCTGATC-GCACATACGTGCCCCTATTGTACTTCAGTAC
*
24030199 CCCTGATCGCACTTACGTGCCCCTATTGTACTT-AGGTAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCA-GTAC
* * * * *
24030238 CCCTGATTGCACTTATGTGCCCCTATTGTGCTTCGGTAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * *
24030277 CCCTGATAGCACTTTCGTGCC
1 CCCTGATCGCACATACGTGCC
24030298 ATGATTACGT
Statistics
Matches: 178, Mismatches: 32, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
38 31 0.17
39 146 0.82
40 1 0.01
ACGTcount: A:0.19, C:0.33, G:0.16, T:0.33
Consensus pattern (39 bp):
CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
Found at i:24030201 original size:19 final size:19
Alignment explanation
Indices: 24030179--24030280 Score: 89
Period size: 19 Copynumber: 5.3 Consensus size: 19
24030169 GACTTACATG
24030179 CCCCTATTGTACTTCGGTA
1 CCCCTATTGTACTTCGGTA
* * *
24030198 CCCCTGATCGCACTTAC-GTG
1 CCCCT-ATTGTACTT-CGGTA
*
24030218 CCCCTATTGTACTTAGGTA
1 CCCCTATTGTACTTCGGTA
* ** *
24030237 CCCCTGATTGCACTTATGTG
1 CCCCT-ATTGTACTTCGGTA
*
24030257 CCCCTATTGTGCTTCGGTA
1 CCCCTATTGTACTTCGGTA
24030276 CCCCT
1 CCCCT
24030281 GATAGCACTT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
19 33 0.52
20 30 0.47
21 1 0.02
ACGTcount: A:0.15, C:0.34, G:0.18, T:0.33
Consensus pattern (19 bp):
CCCCTATTGTACTTCGGTA
Found at i:24030221 original size:20 final size:20
Alignment explanation
Indices: 24030170--24030297 Score: 86
Period size: 20 Copynumber: 6.5 Consensus size: 20
24030160 TCTTGATCAG
* *
24030170 ACTTACATGCCCCT-ATTGT
1 ACTTACGTGCCCCTGATTGC
* *
24030189 ACTT-CGGTACCCCTGATCGC
1 ACTTAC-GTGCCCCTGATTGC
*
24030209 ACTTACGTGCCCCT-ATTGT
1 ACTTACGTGCCCCTGATTGC
* *
24030228 ACTTAGGTACCCCTGATTGC
1 ACTTACGTGCCCCTGATTGC
* *
24030248 ACTTATGTGCCCCT-ATTGT
1 ACTTACGTGCCCCTGATTGC
* * *
24030267 GCTT-CGGTACCCCTGATAGC
1 ACTTAC-GTGCCCCTGATTGC
*
24030287 ACTTTCGTGCC
1 ACTTACGTGCC
24030298 ATGATTACGT
Statistics
Matches: 82, Mismatches: 20, Indels: 13
0.71 0.17 0.11
Matches are distributed among these distances:
18 1 0.01
19 39 0.48
20 40 0.49
21 2 0.02
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (20 bp):
ACTTACGTGCCCCTGATTGC
Found at i:24030252 original size:78 final size:78
Alignment explanation
Indices: 24030057--24030297 Score: 281
Period size: 78 Copynumber: 3.1 Consensus size: 78
24030047 TGATCGTGCA
* * * *
24030057 TACGTGCCCCTTTTGTACTTCAATACCCTTGATCGCACATACGTGCCCCTGTTGTACTTCGG-AC
1 TACGTGCCCCTATTGTACTTCAATACCCTTGATAGCACTTACGTGCCCCTATTGTACTTCGGTAC
* * *
24030121 CCCTAATCGTACA
66 CCCTGATCGCACT
* * * *
24030134 TACATTCCCCTATTGTACTTCAATACTCTTGATCAG-ACTTACATGCCCCTATTGTACTTCGGTA
1 TACGTGCCCCTATTGTACTTCAATACCCTTGAT-AGCACTTACGTGCCCCTATTGTACTTCGGTA
24030198 CCCCTGATCGCACT
65 CCCCTGATCGCACT
* * * * *
24030212 TACGTGCCCCTATTGTACTT-AGGTACCCCTGATTGCACTTATGTGCCCCTATTGTGCTTCGGTA
1 TACGTGCCCCTATTGTACTTCA-ATACCCTTGATAGCACTTACGTGCCCCTATTGTACTTCGGTA
*
24030276 CCCCTGATAGCACT
65 CCCCTGATCGCACT
*
24030290 TTCGTGCC
1 TACGTGCC
24030298 ATGATTACGT
Statistics
Matches: 138, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
77 54 0.39
78 84 0.61
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (78 bp):
TACGTGCCCCTATTGTACTTCAATACCCTTGATAGCACTTACGTGCCCCTATTGTACTTCGGTAC
CCCTGATCGCACT
Found at i:24034247 original size:23 final size:23
Alignment explanation
Indices: 24034215--24034284 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
24034205 TATAATATAT
*
24034215 GCTTTGATATGCTATATGACATG
1 GCTTTGATATGATATATGACATG
24034238 G-TCTTGATATGATATATGACATG
1 GCT-TTGATATGATATATGACATG
* * *
24034261 GCTTTGATAAGTTATATGATATG
1 GCTTTGATATGATATATGACATG
24034284 G
1 G
24034285 AAAGTTTCGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 39 0.95
24 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTTTGATATGATATATGACATG
Found at i:24042311 original size:3 final size:3
Alignment explanation
Indices: 24042303--24042360 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
24042293 ATTTGTAAAA
* * * * *
24042303 AAT AAT AAT AAT AAT AAT AAT ATTT AAT AAT AGT AAT AGT AGT GAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
*
24042349 GAT AAT AAT AAT
1 AAT AAT AAT AAT
24042361 TTGGGCCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:24055127 original size:23 final size:23
Alignment explanation
Indices: 24055083--24055127 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24055073 TATGCTATTT
*
24055083 GACATGGTTCTGATATGATATAC
1 GACATGGTTCTGATAAGATATAC
*
24055106 GACATGGCTT-TGATAAGTTATA
1 GACATGG-TTCTGATAAGATATA
24055128 GGATATGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (23 bp):
GACATGGTTCTGATAAGATATAC
Found at i:24063026 original size:50 final size:50
Alignment explanation
Indices: 24062953--24063145 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 50
24062943 ACATTAGGGG
* * *
24062953 GATGAG-ACT-CCATGTAAGACCATGTCTGGGATATGGCGTTGGCATCAA
1 GATGAGAACTCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCAA
** * * * * *
24063001 GATGAGAGGTCCCCCGTAAGACCATGTCTGCGACATGGCATGGGCACCGA
1 GATGAGAACTCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCAA
* * * * **
24063051 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTAGTACA
1 GATGAGAACTCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCA-A
* * *
24063102 G--GA-AACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GATGAGAAC-TCCCACGTAAGACCATGTCTGGGATATGGCATTGGCA
24063146 TGTTATTATC
Statistics
Matches: 113, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
48 9 0.08
49 36 0.32
50 67 0.59
51 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAACTCCCACGTAAGACCATGTCTGGGATATGGCATTGGCACCAA
Found at i:24063373 original size:20 final size:20
Alignment explanation
Indices: 24063348--24063396 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
24063338 TGAGTTATTT
24063348 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
24063368 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
24063388 AAG-AAGCAA
1 AAGTAAGCAA
24063397 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:24073129 original size:21 final size:22
Alignment explanation
Indices: 24073103--24073150 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
24073093 AATAATAAAA
24073103 ATAATTTA-ATCATATTTTAAT
1 ATAATTTATATCATATTTTAAT
*
24073124 ATAA-TTATTTCATATTTTAAT
1 ATAATTTATATCATATTTTAAT
24073145 ATAATT
1 ATAATT
24073151 ATTTTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTATATCATATTTTAAT
Found at i:24073151 original size:21 final size:21
Alignment explanation
Indices: 24073112--24073154 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
24073102 AATAATTTAA
24073112 TCATATTTTAATATAATTATT
1 TCATATTTTAATATAATTATT
24073133 TCATATTTTAATATAATTATT
1 TCATATTTTAATATAATTATT
24073154 T
1 T
24073155 TAATATCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TCATATTTTAATATAATTATT
Found at i:24077909 original size:32 final size:32
Alignment explanation
Indices: 24077868--24077942 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
24077858 TGCATGTGTG
*
24077868 TAACTCTTCATCTTCAAGTATCTTCACATTTC
1 TAACTCTTCATCTTCAAGTATCTTAACATTTC
*
24077900 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
1 TAACTCTTCATCTTCAAGTATCTTAACATTTC
*
24077932 TAACTTTTCAT
1 TAACTCTTCAT
24077943 AATTTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.25, C:0.27, G:0.03, T:0.45
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTATCTTAACATTTC
Found at i:24082343 original size:16 final size:16
Alignment explanation
Indices: 24082322--24082374 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
24082312 ATGTGTGTAA
24082322 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
24082338 CTCTTCA-CATTTCTAA--
1 CTCTTCATC--TTC-AAGT
24082354 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
24082370 CTCTT
1 CTCTT
24082375 AACATTTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
14 2 0.06
15 4 0.13
16 19 0.61
17 4 0.13
18 2 0.06
ACGTcount: A:0.19, C:0.32, G:0.04, T:0.45
Consensus pattern (16 bp):
CTCTTCATCTTCAAGT
Found at i:24082360 original size:32 final size:32
Alignment explanation
Indices: 24082319--24082393 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
24082309 TGCATGTGTG
*
24082319 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
24082351 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
24082383 TAACTCTTCAT
1 TAACTCTTCAT
24082394 AATTTATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.24, C:0.29, G:0.03, T:0.44
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTCTCTTAACATTTC
Found at i:24083335 original size:8 final size:8
Alignment explanation
Indices: 24083322--24083346 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24083312 TTATTAATAA
24083322 CCACCGAG
1 CCACCGAG
24083330 CCACCGAG
1 CCACCGAG
24083338 CCACCGAG
1 CCACCGAG
24083346 C
1 C
24083347 TAAGAACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.52, G:0.24, T:0.00
Consensus pattern (8 bp):
CCACCGAG
Found at i:24084716 original size:24 final size:25
Alignment explanation
Indices: 24084663--24084726 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
24084653 CATAAAAATA
* *
24084663 AAAATATATAATTTAGTAAAATTCT
1 AAAATATATATTTTAATAAAATTCT
* *
24084688 -TAATATATATTTTAATATAATT-T
1 AAAATATATATTTTAATAAAATTCT
*
24084711 AAAATAAAATATTTTA
1 AAAAT-ATATATTTTA
24084727 TTTTAAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
23 1 0.03
24 21 0.68
25 9 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATATATATTTTAATAAAATTCT
Found at i:24084721 original size:29 final size:29
Alignment explanation
Indices: 24084689--24084745 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
24084679 TAAAATTCTT
24084689 AATA-TATATTTTAATATAATTTAAAATAA
1 AATATTATATTTTAA-ATAATTTAAAATAA
* * *
24084718 AATATTTTATTTTAAATTATTTCAAATA
1 AATATTATATTTTAAATAATTTAAAATA
24084746 TATTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
AATATTATATTTTAAATAATTTAAAATAA
Found at i:24084757 original size:30 final size:30
Alignment explanation
Indices: 24084695--24084754 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
24084685 TCTTAATATA
24084695 TATTTTAATATAATTTAAAATAAAATATTT
1 TATTTTAATATAATTTAAAATAAAATATTT
* * * *
24084725 TATTTTAA-ATTATTTCAAATATATTATTT
1 TATTTTAATATAATTTAAAATAAAATATTT
24084754 T
1 T
24084755 TATATTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (30 bp):
TATTTTAATATAATTTAAAATAAAATATTT
Found at i:24088247 original size:50 final size:50
Alignment explanation
Indices: 24088193--24088463 Score: 218
Period size: 50 Copynumber: 5.1 Consensus size: 50
24088183 ACATGAAAGT
* * * * * *
24088193 TCTCATATAGGTGCCCATGCTATGTCCTAGACATGGTCTTACGGGGGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
* *
24088243 TCTCATCTTGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
** *
24088293 TCTCATCTCGGTGCCAACGTCGGTGCCAACGCCATGTCTGAGACATGGTCTTACATGGGACC
1 TCTCA--TC--T----A----GGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
* *
24088355 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
* * * * *
24088405 TCTCATAATCTCAATGATGCCAATGCCATGCCCCAGACATGGTCTTACATGGGATC
1 TCTC---ATCT--A-GGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
24088461 TCT
1 TCT
24088464 TTACCCAAAT
Statistics
Matches: 184, Mismatches: 19, Indels: 30
0.79 0.08 0.13
Matches are distributed among these distances:
50 90 0.49
52 2 0.01
53 4 0.02
54 1 0.01
56 40 0.22
58 1 0.01
60 2 0.01
62 44 0.24
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
Found at i:24088327 original size:62 final size:62
Alignment explanation
Indices: 24088252--24088373 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
24088242 CTCTCATCTT
24088252 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGTC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGTC
**
24088314 GGTGCCAACGCCATGTCTGAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
24088374 CCATGTCCCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (62 bp):
GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGTC
Found at i:24090609 original size:24 final size:26
Alignment explanation
Indices: 24090559--24090607 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
24090549 TTGTTAAGAC
*
24090559 TCTTATAAAAGAAACCTAAGAGAAAT
1 TCTTATAAAAGAAACCAAAGAGAAAT
24090585 TCTTA-AAAA-AAACTCAAAGAGAA
1 TCTTATAAAAGAAAC-CAAAGAGAA
24090608 TTTATAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.20
Consensus pattern (26 bp):
TCTTATAAAAGAAACCAAAGAGAAAT
Found at i:24090615 original size:24 final size:24
Alignment explanation
Indices: 24090561--24090615 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
24090551 GTTAAGACTC
* *
24090561 TTATAAAAGAAACCTAAGAGAAAT
1 TTATAAAAAAAACCAAAGAGAAAT
24090585 TCT-TAAAAAAAACTCAAAGAG-AAT
1 T-TATAAAAAAAAC-CAAAGAGAAAT
24090609 TTATAAA
1 TTATAAA
24090616 CTCAAAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 1 0.04
24 18 0.69
25 7 0.27
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (24 bp):
TTATAAAAAAAACCAAAGAGAAAT
Found at i:24094709 original size:20 final size:20
Alignment explanation
Indices: 24094674--24094727 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
24094664 AAAGAAAAGA
24094674 AAACTC-AAAGAGAATTTAT
1 AAACTCAAAAGAGAATTTAT
*
24094693 AAACTCAAAAAAGAATTTAT
1 AAACTCAAAAGAGAATTTAT
24094713 AAACTCAAAAGAGAA
1 AAACTCAAAAGAGAA
24094728 GTTGAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.20
Consensus pattern (20 bp):
AAACTCAAAAGAGAATTTAT
Found at i:24122607 original size:8 final size:8
Alignment explanation
Indices: 24122594--24122623 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24122584 CATAACTGAA
*
24122594 AATAAAAG
1 AATAAAAC
24122602 AATAAAAC
1 AATAAAAC
24122610 AATAAAAC
1 AATAAAAC
24122618 AATAAA
1 AATAAA
24122624 TTCCACATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (8 bp):
AATAAAAC
Found at i:24123146 original size:23 final size:24
Alignment explanation
Indices: 24123110--24123158 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
24123100 CCCGACCCGA
*
24123110 TTTATATATTAAATATA-TATTTT
1 TTTATATATTAAATATACTACTTT
24123133 TTTAT-TATTAAAATATACTACTTT
1 TTTATATATT-AAATATACTACTTT
24123157 TT
1 TT
24123159 GTTTAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 12 0.52
24 7 0.30
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTATATATTAAATATACTACTTT
Found at i:24123157 original size:22 final size:23
Alignment explanation
Indices: 24123110--24123157 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
24123100 CCCGACCCGA
**
24123110 TTTATATATTAAATATATATTTT
1 TTTATATATTAAATATATATACT
24123133 TTTAT-TATTAAA-ATATACTACT
1 TTTATATATTAAATATATA-TACT
24123155 TTT
1 TTT
24123158 TGTTTAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 12 0.55
23 5 0.23
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATATATTAAATATATATACT
Found at i:24127667 original size:19 final size:20
Alignment explanation
Indices: 24127631--24127669 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
24127621 CACCATTTGA
*
24127631 TGTTACTCGAAATTAATGAT
1 TGTTACTCGAAATGAATGAT
24127651 TGTTACTCG-AATGAATGAT
1 TGTTACTCGAAATGAATGAT
24127670 AATGGCTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
TGTTACTCGAAATGAATGAT
Found at i:24131925 original size:50 final size:50
Alignment explanation
Indices: 24131871--24132011 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
24131861 TATTGAAGTT
24131871 ATGAGAGGCCTCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGCCTCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * *
24131921 ATGAGAGGTCC-CCCGTTAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGG-CCTCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * *
24131971 ATGAGA-ACTCTCATGTAAGACCATATCTGGGATATGGCATT
1 ATGAGAGGC-CTCACGTAAGACCATGTCTGGGACATGGCATT
24132012 TGTAGTACAT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 73 0.95
51 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGCCTCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:24133698 original size:24 final size:24
Alignment explanation
Indices: 24133666--24133716 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
24133656 TGATGTAGAA
*
24133666 AGTAATGAAAGGCTCGTTACAGTT
1 AGTAATGAAAGGCTCGTTACAATT
*
24133690 AGTAGTGAAAGGCTCGTTACAATT
1 AGTAATGAAAGGCTCGTTACAATT
24133714 AGT
1 AGT
24133717 TAGGGAGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (24 bp):
AGTAATGAAAGGCTCGTTACAATT
Found at i:24139562 original size:29 final size:29
Alignment explanation
Indices: 24139520--24139577 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
24139510 ACCATGTCTA
*
24139520 GGACACGGCATTTGCCCCGAGATGAGAGG
1 GGACACGGCATTTGCACCGAGATGAGAGG
* *
24139549 GGACATGGCGTTTGCACCGAGATGAGAGG
1 GGACACGGCATTTGCACCGAGATGAGAGG
24139578 TCCCCCTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.24, C:0.21, G:0.40, T:0.16
Consensus pattern (29 bp):
GGACACGGCATTTGCACCGAGATGAGAGG
Found at i:24160696 original size:25 final size:25
Alignment explanation
Indices: 24160668--24160716 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
24160658 TACAGTCTAT
* *
24160668 CTATAGTAGTCTCAGTATATACTAG
1 CTATAGCAGTCTCAGGATATACTAG
* *
24160693 CTATAGCAGTTTTAGGATATACTA
1 CTATAGCAGTCTCAGGATATACTA
24160717 TAAAAAATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTAG
Found at i:24164415 original size:41 final size:41
Alignment explanation
Indices: 24164355--24164496 Score: 169
Period size: 41 Copynumber: 3.5 Consensus size: 41
24164345 TTTAAACAGA
* * * *
24164355 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGATAGGCATATAGTCTGATTCAG
* *
24164396 TTCACCGGCACTTAGCCTGATAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
** * * *
24164437 TTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
24164478 TTCACCGGCACTTAGCCTG
1 TTCACCGGCACTTAGCCTG
24164497 CTAGACGAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 85 0.99
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
Found at i:24164497 original size:41 final size:41
Alignment explanation
Indices: 24164355--24164513 Score: 162
Period size: 41 Copynumber: 3.9 Consensus size: 41
24164345 TTTAAACAGA
* * * ** *
24164355 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGATAGACATATAGTCCGATTCAG
* *
24164396 TTCACCGGCACTTAGCCTGATAGGCCTATAG-CCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGACATATAGTCC-GATTCAG
** *
24164437 TTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCAG
1 TTCACCGGCACTTAGCCTGATAGACATATAGTCCGATTCAG
*
24164478 TTCACCGGCACTTAGCCTGCTAGACGA-ATAGTCCGA
1 TTCACCGGCACTTAGCCTGATAGAC-ATATAGTCCGA
24164514 ATAATTTCAC
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
40 2 0.02
41 97 0.95
42 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGACATATAGTCCGATTCAG
Found at i:24164523 original size:41 final size:41
Alignment explanation
Indices: 24164395--24164528 Score: 137
Period size: 41 Copynumber: 3.3 Consensus size: 41
24164385 GTCTAATTCC
* * * * *
24164395 GTTCACCGGCACTTAGCCTGATAGGCCTATAG-CCTGATTCA
1 GTTCACCGGCACTTAGCCTGCTAGACATATAGTCC-GAATAA
** * *
24164436 GTTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCA
1 GTTCACCGGCACTTAGCCTGCTAGACATATAGTCCGAATAA
24164477 GTTCACCGGCACTTAGCCTGCTAGACGA-ATAGTCCGAATAA
1 GTTCACCGGCACTTAGCCTGCTAGAC-ATATAGTCCGAATAA
* *
24164518 TTTCACTGGCA
1 GTTCACCGGCA
24164529 ATAAATCCGA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 77 0.96
42 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (41 bp):
GTTCACCGGCACTTAGCCTGCTAGACATATAGTCCGAATAA
Found at i:24164523 original size:82 final size:82
Alignment explanation
Indices: 24164355--24164524 Score: 182
Period size: 82 Copynumber: 2.1 Consensus size: 82
24164345 TTTAAACAGA
* * * * * *
24164355 TTCACTGGCACTTCACCTGATAGGCTTATAGTCTAATTCCGTTCACCGGCACTTAGCCTGATAGG
1 TTCACTAGCACTTCACCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAGA
* * *
24164420 CCTATAGCCTGATTCAG
66 CCAATAGCCTGAATAAG
* * *
24164437 TTCACTAGCACTT-AGCCTGCTAGACATATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTAGCACTTCA-CCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAG
* *
24164501 ACGAATAGTCC-GAATAAT
65 ACCAATAG-CCTGAATAAG
24164519 TTCACT
1 TTCACT
24164525 GGCAATAAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 1 0.01
82 69 0.96
83 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (82 bp):
TTCACTAGCACTTCACCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAGA
CCAATAGCCTGAATAAG
Found at i:24169081 original size:122 final size:122
Alignment explanation
Indices: 24168864--24169108 Score: 481
Period size: 122 Copynumber: 2.0 Consensus size: 122
24168854 TTCAGTCTTG
24168864 ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACAGTTTGACAGCGGCTTCTAAT
1 ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACAGTTTGACAGCGGCTTCTAAT
24168929 CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
66 CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
*
24168986 ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACATTTTGACAGCGGCTTCTAAT
1 ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACAGTTTGACAGCGGCTTCTAAT
24169051 CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
66 CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
24169108 A
1 A
24169109 AGGTATTTCT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (122 bp):
ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACAGTTTGACAGCGGCTTCTAAT
CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
Found at i:24174690 original size:47 final size:47
Alignment explanation
Indices: 24174633--24174936 Score: 416
Period size: 47 Copynumber: 6.4 Consensus size: 47
24174623 ATTGATGTAC
* * *
24174633 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
24174680 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24174729 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24174776 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
24174823 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
24174870 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
24174917 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
24174937 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:24174814 original size:22 final size:22
Alignment explanation
Indices: 24174787--24174908 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
24174777 CATGTGTATG
24174787 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
24174809 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
24174834 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
24174856 TGTGATGAATG-AGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
24174881 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
24174903 TGTGAT
1 TGTGAT
24174909 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:24183993 original size:44 final size:44
Alignment explanation
Indices: 24183958--24184271 Score: 452
Period size: 44 Copynumber: 7.1 Consensus size: 44
24183948 ACTACTGCTT
*
24183958 AGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGTTAGGACTT-ACAATCTTCAACCTATTCCACTGCTGGTC
*
24184002 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
24184046 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACAGCTGATC
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
24184090 AAGGAGATAGGACTTACAATCTTCAACCTAGTCCGCTGCTGGTC
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
24184134 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
24184178 AGGTAGATAGGACTTAAAATCTTCAACCTATTCCACTGCTGG-C
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
24184221 TGGGGAGTTATGACTTACAATCTTCAACCTATTCCACTGCTGGTC
1 -AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
24184266 ATGGAG
1 AGGGAG
24184272 CTAGTTTTTG
Statistics
Matches: 240, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
43 1 0.00
44 236 0.98
45 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:24188543 original size:25 final size:25
Alignment explanation
Indices: 24188515--24188586 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 25
24188505 ATTATACATT
24188515 AAATTAGACAGCTTAAATATACTCA
1 AAATTAGACAGCTTAAATATACTCA
* * *
24188540 AAATTGGATAGC---ATTATACATC-
1 AAATTAGACAGCTTAAATATAC-TCA
24188562 AAATTAGACAGCTTAAATATACTCA
1 AAATTAGACAGCTTAAATATACTCA
24188587 TAATCGGACA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
22 16 0.44
23 2 0.06
24 2 0.06
25 16 0.44
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (25 bp):
AAATTAGACAGCTTAAATATACTCA
Found at i:24188568 original size:47 final size:47
Alignment explanation
Indices: 24188449--24188783 Score: 397
Period size: 47 Copynumber: 7.1 Consensus size: 47
24188439 CAACCCTGTT
* ** * *
24188449 TTGGACAGCAATTATTCAACAAATTGGACAGCA-ATAATATGCTCAAAA
1 TTGGACAGC-ATTATACATTAAAATGGACAGCATA-AATATACTCAAAA
* * *
24188497 -TGGACAGCATTATACATTAAATTAGACAGCTTAAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * * * * *
24188543 TTGGATAGCATTATACATCAAATTAGACAGCTTAAATATACTCATAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * *
24188590 TCGGACAGCATTATACATTAAAATGGACAGCATCAATACACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * * *
24188637 TTGGACAGCATCATACATTAAAATGGACAGCATTAGTACACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * *
24188684 TTGGACAGCATTATACATTAAAATGGACAGCATCAATACATTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* *
24188731 TTGGACAGCATTATACATTAAAATGGACAACATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
24188778 -TGGACA
1 TTGGACA
24188784 TCAAATTTGG
Statistics
Matches: 256, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
46 36 0.14
47 220 0.86
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (47 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
Found at i:24188596 original size:25 final size:24
Alignment explanation
Indices: 24188468--24188645 Score: 79
Period size: 25 Copynumber: 7.5 Consensus size: 24
24188458 AATTATTCAA
* *
24188468 CAAATTGGACAGC-AATAATATGCT
1 CAAATTGGACAGCTTA-AATATACT
* *
24188492 CAAAATGGACAGC---ATTATACAT
1 CAAATTGGACAGCTTAAATATAC-T
* *
24188514 TAAATTAGACAGCTTAAATATACT
1 CAAATTGGACAGCTTAAATATACT
* *
24188538 CAAAATTGGATAGC---ATTATACAT
1 C-AAATTGGACAGCTTAAATATAC-T
*
24188561 CAAATTAGACAGCTTAAATATACT
1 CAAATTGGACAGCTTAAATATACT
* *
24188585 CATAATCGGACAGC---ATTATACAT
1 CA-AATTGGACAGCTTAAATATAC-T
* * * * *
24188608 TAAAATGGACAGCATCAATACACT
1 CAAATTGGACAGCTTAAATATACT
24188632 CAAAATTGGACAGC
1 C-AAATTGGACAGC
24188646 ATCATACATT
Statistics
Matches: 115, Mismatches: 24, Indels: 29
0.68 0.14 0.17
Matches are distributed among these distances:
21 5 0.04
22 42 0.37
23 4 0.03
24 17 0.15
25 47 0.41
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (24 bp):
CAAATTGGACAGCTTAAATATACT
Found at i:24189790 original size:28 final size:26
Alignment explanation
Indices: 24189758--24189855 Score: 133
Period size: 28 Copynumber: 3.6 Consensus size: 26
24189748 TTAATAAGTA
*
24189758 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT--TAATTAAACT
*
24189786 CGCACACTTAGTGCTTTACATTATACT
1 CGCACACTTAGTGCTTTA-ATTAAACT
24189813 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTT-AATTAAACT
24189841 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24189856 AATCTCATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.33
28 40 0.62
29 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (26 bp):
CGCACACTTAGTGCTTTAATTAAACT
Found at i:24194395 original size:145 final size:145
Alignment explanation
Indices: 24194197--24194470 Score: 485
Period size: 145 Copynumber: 1.9 Consensus size: 145
24194187 AACTCGAGGT
* * * *
24194197 ACTTACCTTTTCCGCTGTCCAAACTTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
24194262 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
24194327 ATTTCAAGTTTGCAC
131 ATTTCAAGTTTGCAC
*
24194342 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
24194407 GAAAATATATATTGGGTTCGCACACGTAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
24194471 TACTTTAAAC
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 122 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTTGCAC
Found at i:24194516 original size:29 final size:29
Alignment explanation
Indices: 24194453--24194520 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
24194443 TAATCAACCA
*
24194453 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
24194482 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
24194511 CGCACACTTA
1 CGCACACTTA
24194521 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:24194600 original size:174 final size:174
Alignment explanation
Indices: 24194310--24194669 Score: 693
Period size: 174 Copynumber: 2.1 Consensus size: 174
24194300 ATCAACCGCG
*
24194310 CACACTTAGTGCCATGCATTTCAAGTTTGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
*
24194375 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACGTAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
24194440 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
*
24194484 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
24194549 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
24194614 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
24194658 CACACTTAGTGC
1 CACACTTAGTGC
24194670 TGTACAATTT
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 183 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
Found at i:24194663 original size:29 final size:30
Alignment explanation
Indices: 24194629--24194700 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
24194619 ATCAACCACG
*
24194629 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
24194658 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
24194687 CACACTTAGTGCCA
1 CACACTTAGTGCCA
24194701 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:24202690 original size:144 final size:145
Alignment explanation
Indices: 24202487--24202759 Score: 485
Period size: 144 Copynumber: 1.9 Consensus size: 145
24202477 AACTCGAGGT
* * *
24202487 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
24202552 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
24202617 ATTTCAAGTTTGCAC
131 ATTTCAAGTTTGCAC
*
24202632 ACTTACCTTTTCCGCTGTCC-AAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
24202696 GAAAATATATATTGGGTTCGCACACGTAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
24202760 TACTTTAAAC
Statistics
Matches: 122, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
144 102 0.84
145 20 0.16
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTTGCAC
Found at i:24202805 original size:29 final size:29
Alignment explanation
Indices: 24202742--24202809 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
24202732 TAATCAACCA
*
24202742 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
24202771 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
24202800 CGCACACTTA
1 CGCACACTTA
24202810 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:24202889 original size:174 final size:173
Alignment explanation
Indices: 24202600--24202958 Score: 682
Period size: 174 Copynumber: 2.1 Consensus size: 173
24202590 ATCAACCGCG
*
24202600 CACACTTAGTGCCATGCATTTCAAGTTTGCACACTTACCTTTTCCGCTGTCCAAATCGACTCGAT
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAATCGACTCGAT
*
24202665 AAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACGTAGTGCTT
66 AAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCTT
24202730 AATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
131 AATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
*
24202773 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCGAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCC-AAATCGACTCGA
24202838 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
65 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
24202903 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
130 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
24202947 CACACTTAGTGC
1 CACACTTAGTGC
24202959 TGTACAATTT
Statistics
Matches: 182, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
173 51 0.28
174 131 0.72
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (173 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAATCGACTCGAT
AAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCTT
AATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
Found at i:24202962 original size:27 final size:30
Alignment explanation
Indices: 24202918--24202984 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
24202908 ATCAACCACG
*
24202918 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
24202947 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
24202976 CACACTTAG
1 CACACTTAG
24202985 GGTGCGTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 5 0.15
28 1 0.03
29 28 0.82
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:24203022 original size:16 final size:16
Alignment explanation
Indices: 24203001--24203036 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24202991 TTTGGTTCGC
24203001 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24203017 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24203033 TGTA
1 TGTA
24203037 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24203299 original size:18 final size:17
Alignment explanation
Indices: 24203272--24203306 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24203262 TTATTTTTAA
*
24203272 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24203290 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24203307 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24203372 original size:157 final size:157
Alignment explanation
Indices: 24203159--24203475 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
24203149 TAGAATACCC
*
24203159 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
24203224 TTATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTTTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
24203289 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
24203316 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* *
24203381 ATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
24203446 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
24203473 TTA
1 TTA
24203476 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:24203446 original size:16 final size:16
Alignment explanation
Indices: 24203409--24203450 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24203399 TTAATCATAT
*
24203409 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
24203425 TT-AAATATATTATAA
1 TTAAAATATATTATAA
24203440 TTAAAATATAT
1 TTAAAATATAT
24203451 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:24203457 original size:14 final size:15
Alignment explanation
Indices: 24203418--24203459 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24203408 TTTAAACATA
*
24203418 ATTATTATTAAATAT
1 ATTATAATTAAATAT
24203433 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
24203447 A-TATAATTTAATA
1 ATTATAATTAAATA
24203460 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:24218850 original size:44 final size:44
Alignment explanation
Indices: 24218802--24219115 Score: 477
Period size: 44 Copynumber: 7.1 Consensus size: 44
24218792 ACTACTGCTT
* *
24218802 AGGGAGATAGGA-TCCACAATCTTCAACCTATTCCACTGCTAGTC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
* *
24218846 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
24218890 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACAGCTGATC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
24218934 AGGGAGATAGGACTTACAGTCTTCAACCTAGTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
24218978 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
24219022 AGGTAGATAGGACTTACAGTCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
24219066 GGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
24219110 AGGGAG
1 AGGGAG
24219116 CTAGTTTTTG
Statistics
Matches: 245, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 244 1.00
45 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:24223307 original size:39 final size:41
Alignment explanation
Indices: 24223212--24223394 Score: 208
Period size: 39 Copynumber: 4.6 Consensus size: 41
24223202 TTGAATGATG
*
24223212 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
24223251 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
24223291 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
*
24223330 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
24223369 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24223395 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 6, Indels: 17
0.85 0.04 0.11
Matches are distributed among these distances:
38 2 0.02
39 87 0.67
40 30 0.23
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:24247485 original size:26 final size:25
Alignment explanation
Indices: 24247438--24247625 Score: 139
Period size: 26 Copynumber: 7.2 Consensus size: 25
24247428 CCTATCAAGA
* * *
24247438 TTGAGTGGTTCCGAGGACCCTTGAGT
1 TTGAGTGGGTCAGAGG-TCCTTGAGT
*
24247464 TTGAGATGGGTCAGAGGTCCTTTGTGT
1 TTGAG-TGGGTCAGAGGTCC-TTGAGT
*
24247491 TTGAATGGGTC-GAAGGTCCCTTGAGT
1 TTGAGTGGGTCAG-AGGT-CCTTGAGT
* **
24247517 TTGAGTTGGTCAGAGAACCTTTGAGT
1 TTGAGTGGGTCAGAGGTCC-TTGAGT
** *
24247543 TTGAGTTAGTCAGAGGTCCCTTAAGT
1 TTGAGTGGGTCAGAGGT-CCTTGAGT
*
24247569 TTGAGTGGGTCCA-AGGAACCTTGAGT
1 TTGAGTGGGT-CAGAGG-TCCTTGAGT
* *
24247595 TTGAGTTGGTCAGAGGACCCTTGAG-
1 TTGAGTGGGTCAGAGG-TCCTTGAGT
24247620 TTGAGT
1 TTGAGT
24247626 TGTTCGGAGG
Statistics
Matches: 132, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
25 11 0.08
26 96 0.73
27 25 0.19
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (25 bp):
TTGAGTGGGTCAGAGGTCCTTGAGT
Found at i:24247539 original size:52 final size:52
Alignment explanation
Indices: 24247450--24247625 Score: 198
Period size: 52 Copynumber: 3.4 Consensus size: 52
24247440 GAGTGGTTCC
* ** * * *
24247450 GAGGACCCTTGAGTTTGAGATGGGTCAGAGGTCCTTTGTGTTTGAATGGGTC-
1 GAGGTCCCTTGAGTTTGAG-TGGGTCAGAGAACCTTTGAGTTTGAGTTGGTCA
* *
24247502 GAAGGTCCCTTGAGTTTGAGTTGGTCAGAGAACCTTTGAGTTTGAGTTAGTCA
1 G-AGGTCCCTTGAGTTTGAGTGGGTCAGAGAACCTTTGAGTTTGAGTTGGTCA
*
24247555 GAGGTCCCTTAAGTTTGAGTGGGTCCA-AGGAACC-TTGAGTTTGAGTTGGTCA
1 GAGGTCCCTTGAGTTTGAGTGGGT-CAGA-GAACCTTTGAGTTTGAGTTGGTCA
*
24247607 GAGGACCCTTGAG-TTGAGT
1 GAGGTCCCTTGAGTTTGAGT
24247626 TGTTCGGAGG
Statistics
Matches: 107, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 6 0.06
52 76 0.71
53 25 0.23
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (52 bp):
GAGGTCCCTTGAGTTTGAGTGGGTCAGAGAACCTTTGAGTTTGAGTTGGTCA
Found at i:24247578 original size:78 final size:78
Alignment explanation
Indices: 24247454--24247626 Score: 231
Period size: 78 Copynumber: 2.2 Consensus size: 78
24247444 GGTTCCGAGG
** * ** * **
24247454 ACCCTTGAGTTTGAGATGGGTCAGAGGTCCTTTGTGTTTGAATGGGTCGAAGGTCCCTTGAGTTT
1 ACCCTTGAGTTTGAG-TTAGTCAGAGGTCCCTTAAGTTTGAATGGGTCCAAGGAACCTTGAGTTT
24247519 GAGTTGGTCAGAGA
65 GAGTTGGTCAGAGA
* *
24247533 ACCTTTGAGTTTGAGTTAGTCAGAGGTCCCTTAAGTTTGAGTGGGTCCAAGGAACCTTGAGTTTG
1 ACCCTTGAGTTTGAGTTAGTCAGAGGTCCCTTAAGTTTGAATGGGTCCAAGGAACCTTGAGTTTG
*
24247598 AGTTGGTCAGAGG
66 AGTTGGTCAGAGA
24247611 ACCCTTGAG-TTGAGTT
1 ACCCTTGAGTTTGAGTT
24247627 GTTCGGAGGA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
77 7 0.09
78 61 0.74
79 14 0.17
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.33
Consensus pattern (78 bp):
ACCCTTGAGTTTGAGTTAGTCAGAGGTCCCTTAAGTTTGAATGGGTCCAAGGAACCTTGAGTTTG
AGTTGGTCAGAGA
Found at i:24254162 original size:15 final size:16
Alignment explanation
Indices: 24254133--24254162 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24254123 CAAACATGCT
24254133 TTAACACATTATCAAA
1 TTAACACATTATCAAA
24254149 TTAACACA-TATCAA
1 TTAACACATTATCAA
24254163 TAAGGCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:24259444 original size:26 final size:26
Alignment explanation
Indices: 24259388--24259460 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
24259378 TATTTTCTCG
* * *
24259388 AAATTTTACCACGGGCAAAATTGTCA
1 AAATTTTACCAAGGGTAAAATCGTCA
*
24259414 AAATTTTACCAAGGGTAAAATCGTTA
1 AAATTTTACCAAGGGTAAAATCGTCA
* * * *
24259440 GAATTTTGCTAGGGGTAAAAT
1 AAATTTTACCAAGGGTAAAAT
24259461 AGGGATGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCGTCA
Found at i:24262374 original size:20 final size:19
Alignment explanation
Indices: 24262351--24262401 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
24262341 TACTTTTCTC
*
24262351 TCTTCATTCTCTTCCATTGT
1 TCTTCATTCCCTTCCATT-T
24262371 TCTTCATTCCCTTCCATTT
1 TCTTCATTCCCTTCCATTT
24262390 TACTTCATTCCC
1 T-CTTCATTCCC
24262402 ATGCCGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.12, C:0.35, G:0.02, T:0.51
Consensus pattern (19 bp):
TCTTCATTCCCTTCCATTT
Found at i:24271369 original size:18 final size:18
Alignment explanation
Indices: 24271348--24271392 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
24271338 TTTCCTAAAT
24271348 TTTAATTTTAATTAATTA
1 TTTAATTTTAATTAATTA
24271366 TTTAATTTTAATTAATTA
1 TTTAATTTTAATTAATTA
*
24271384 TTAAATTTT
1 TTTAATTTT
24271393 CCATTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAATTTTAATTAATTA
Found at i:24272972 original size:37 final size:37
Alignment explanation
Indices: 24272899--24272973 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
24272889 TTATTACGAA
* * *
24272899 GTCTTACCCGGACATAATCTCCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
24272936 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCT-CCACACGAAGTCATCGG
24272973 G
1 G
24272974 CCTTTAGAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:24273174 original size:47 final size:47
Alignment explanation
Indices: 24273098--24273507 Score: 372
Period size: 47 Copynumber: 8.4 Consensus size: 47
24273088 CTTCGGGACT
* * * * * *
24273098 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
24273145 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
** * *
24273192 TATCACATATATACACTTTCACATTCATCACACTTTCACATTCATCACATCGGCCAT
1 TATCACATATATACACTTTCACATTCATCACA---T--C-GGC--CAC-TAGGCC-C
* * * * * *
24273249 TAGGC-CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 TA-TCACATA-TA-T-----ACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * * *
24273303 TGTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
24273350 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* *
24273397 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
24273444 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
24273491 TATCACATATATACACT
1 TATCACATATATACACT
24273508 GTCTTGGCTG
Statistics
Matches: 312, Mismatches: 32, Indels: 38
0.82 0.08 0.10
Matches are distributed among these distances:
47 257 0.82
50 1 0.00
52 1 0.00
53 4 0.01
54 4 0.01
55 7 0.02
56 6 0.02
57 6 0.02
58 4 0.01
59 1 0.00
61 1 0.00
64 20 0.06
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:24273226 original size:17 final size:17
Alignment explanation
Indices: 24273204--24273240 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
24273194 TCACATATAT
24273204 ACACTTTCACATTCATC
1 ACACTTTCACATTCATC
24273221 ACACTTTCACATTCATC
1 ACACTTTCACATTCATC
24273238 ACA
1 ACA
24273241 TCGGCCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (17 bp):
ACACTTTCACATTCATC
Found at i:24273236 original size:64 final size:64
Alignment explanation
Indices: 24273157--24273287 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
24273147 TCACATATAT
24273157 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
24273221 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
24273285 ACA
1 ACA
24273288 TCGGCTATTA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.33
Consensus pattern (64 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
Found at i:24273309 original size:111 final size:111
Alignment explanation
Indices: 24273111--24273334 Score: 349
Period size: 111 Copynumber: 2.0 Consensus size: 111
24273101 CACATTTATG
* * * *
24273111 CACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
*
24273176 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
* * * *
24273222 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
* *
24273287 ATCGGCTATTAGGCCTTGTCACACATATACACTTTCACATTCATCA
66 ATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
24273333 CA
1 CA
24273335 TCGGCCATTA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 102 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (111 bp):
CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
Found at i:24273382 original size:94 final size:94
Alignment explanation
Indices: 24273221--24273507 Score: 529
Period size: 94 Copynumber: 3.1 Consensus size: 94
24273211 CACATTCATC
* *
24273221 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
* * *
24273286 CATCGGCTATTAGGCCTTGTCACACATAT
66 CATCGGCCATTAGGCCTTATCACATATAT
24273315 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
24273380 CATCGGCCATTAGGCCTTATCACATATAT
66 CATCGGCCATTAGGCCTTATCACATATAT
24273409 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
24273474 CATCGGCCATTAGGCCTTATCACATATAT
66 CATCGGCCATTAGGCCTTATCACATATAT
24273503 ACACT
1 ACACT
24273508 GTCTTGGCTG
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 188 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (94 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATAT
Found at i:24273396 original size:141 final size:141
Alignment explanation
Indices: 24273221--24273507 Score: 538
Period size: 141 Copynumber: 2.0 Consensus size: 141
24273211 CACATTCATC
*
24273221 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
* *
24273286 CATCGGCTATTAGGCCTTGTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
66 CATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
24273351 ATCACACATAT
131 ATCACACATAT
24273362 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
24273427 CATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
66 CATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
24273492 ATCACATATAT
131 ATCACACATAT
24273503 ACACT
1 ACACT
24273508 GTCTTGGCTG
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 142 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (141 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACACATAT
Found at i:24275344 original size:8 final size:8
Alignment explanation
Indices: 24275331--24275361 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
24275321 CCTATCACAT
24275331 TTTTTTTA
1 TTTTTTTA
24275339 TTTTTTTA
1 TTTTTTTA
24275347 -TTTTTTA
1 TTTTTTTA
24275354 TTTTTTTA
1 TTTTTTTA
24275362 AAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:24275352 original size:15 final size:15
Alignment explanation
Indices: 24275332--24275361 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24275322 CTATCACATT
24275332 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
24275347 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
24275362 AAAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:24297877 original size:46 final size:46
Alignment explanation
Indices: 24297712--24297883 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
24297702 GGTTGAGCAT
* * * * *
24297712 CCGAACTGGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* * * * *
24297758 CTGAACTCGTTGAGTTGAGTCCGATTTC-GTGA--AATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
24297803 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
*
24297851 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24297884 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 56 0.55
47 26 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:24304567 original size:194 final size:195
Alignment explanation
Indices: 24304245--24304620 Score: 526
Period size: 194 Copynumber: 1.9 Consensus size: 195
24304235 GCACTTCTAT
* * * *
24304245 AAAATCGCTGCTATAGATCGAGCATTAGTGACGCTTTTTAAAAAATGCCGCTATATGTCGACCAA
1 AAAATCGCCGCTATAGATCGAGCATTAGTGA-GCTTTTTAAAAAACGCCGCTATAGGTCAACCAA
* * * *
24304310 TAGCGGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGTCGTCGTTTTATGTTGAGCT
65 TAGCAGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAGCT
* * *
24304375 TTAGTTGCATTAGCGGCGCTTTTTGGAAAACGCCGCTATAGATCGAGCATTAACAATGCTTGTAG
130 TTAGTTGCATTAGCGACACTTTTTGGAAAACGCCACTATAGATCGAGCATTAACAATGCTTGTAG
24304440 A
195 A
* *
24304441 AAAAT-GCCGCTATATATCGAGCATTAAGTG-G-TTTTTTAAAAACGCCGCTATAGGTCAACCCA
1 AAAATCGCCGCTATAGATCGAGCATT-AGTGAGCTTTTTAAAAAACGCCGCTATAGGTCAA-CCA
* * * *
24304503 TTAGCAGTGCTTTTTCAAAAAACGCCGCAA-AAAATTAAGCACAACGCCATTGTTTTACGTTGAG
64 ATAGCAGCGCTTGTTC-AAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAG
*
24304567 CTTTAGTTGCATTAGCGACACTTTTTGGAAAACGCTACTATAGATCGAGCATTA
128 CTTTAGTTGCATTAGCGACACTTTTTGGAAAACGCCACTATAGATCGAGCATTA
24304621 GCGGCGCTTT
Statistics
Matches: 159, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
193 23 0.14
194 96 0.60
195 31 0.19
196 9 0.06
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (195 bp):
AAAATCGCCGCTATAGATCGAGCATTAGTGAGCTTTTTAAAAAACGCCGCTATAGGTCAACCAAT
AGCAGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAGCTT
TAGTTGCATTAGCGACACTTTTTGGAAAACGCCACTATAGATCGAGCATTAACAATGCTTGTAGA
Found at i:24304936 original size:14 final size:14
Alignment explanation
Indices: 24304914--24305108 Score: 96
Period size: 14 Copynumber: 13.7 Consensus size: 14
24304904 TTAATTATCA
*
24304914 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
24304928 TTATGGTTTAGGG-
1 TTATGGTTTAGGGT
* *
24304941 ATATGATTTAGGGT
1 TTATGGTTTAGGGT
24304955 TTAAT-GTTTAGGGT
1 TT-ATGGTTTAGGGT
* * *
24304969 ATATGGTTTTGGAT
1 TTATGGTTTAGGGT
* *
24304983 TTTTGGATTTTGGGT
1 TTATGG-TTTAGGGT
* * *
24304998 TCAGTGATGATTATGGT
1 TTA-TG--GTTTAGGGT
*
24305015 TTA-GGATTTA--AT
1 TTATGG-TTTAGGGT
*
24305027 TTGTGGGTTTAGGGT
1 TTAT-GGTTTAGGGT
* *
24305042 TTACGATTTAGGGT
1 TTATGGTTTAGGGT
* *
24305056 TTAGGGTTTATGGT
1 TTATGGTTTAGGGT
*
24305070 TTATGGTTTAGGGG
1 TTATGGTTTAGGGT
*
24305084 TTA-GAGGTTAGGGGT
1 TTATG-GTTTA-GGGT
24305099 TTATGGTTTA
1 TTATGGTTTA
24305109 TGATCTGGAT
Statistics
Matches: 133, Mismatches: 33, Indels: 29
0.68 0.17 0.15
Matches are distributed among these distances:
12 3 0.02
13 19 0.14
14 76 0.57
15 24 0.18
16 3 0.02
17 7 0.05
18 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:24304963 original size:27 final size:28
Alignment explanation
Indices: 24304920--24304973 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
24304910 ATCATTATAG
24304920 TTTAGGGTTTATGGTTTAGGG-ATATGA
1 TTTAGGGTTTATGGTTTAGGGTATATGA
24304947 TTTAGGGTTTAAT-GTTTAGGGTATATG
1 TTTAGGGTTT-ATGGTTTAGGGTATATG
24304974 GTTTTGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (28 bp):
TTTAGGGTTTATGGTTTAGGGTATATGA
Found at i:24305041 original size:7 final size:7
Alignment explanation
Indices: 24305031--24305108 Score: 77
Period size: 7 Copynumber: 11.0 Consensus size: 7
24305021 TTTAATTTGT
24305031 GGGTTTA
1 GGGTTTA
24305038 GGGTTTA
1 GGGTTTA
* *
24305045 CGATTTA
1 GGGTTTA
24305052 GGGTTTA
1 GGGTTTA
24305059 GGGTTTA
1 GGGTTTA
*
24305066 TGGTTTA
1 GGGTTTA
*
24305073 TGGTTTA
1 GGGTTTA
*
24305080 GGGGTTA
1 GGGTTTA
24305087 GAGG-TTA
1 G-GGTTTA
24305094 GGGGTTTA
1 -GGGTTTA
*
24305102 TGGTTTA
1 GGGTTTA
24305109 TGATCTGGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
7 54 0.90
8 6 0.10
ACGTcount: A:0.17, C:0.01, G:0.38, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:24305057 original size:21 final size:20
Alignment explanation
Indices: 24305012--24305108 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
24305002 TGATGATTAT
* *
24305012 GGTTTAGGATTTA-ATTTGTG
1 GGTTTAGGGTTTAGATTT-AG
24305032 GGTTTAGGGTTTACGATTTAG
1 GGTTTAGGGTTTA-GATTTAG
* *
24305053 GGTTTAGGGTTTATGGTTTAT
1 GGTTTAGGGTTTA-GATTTAG
* *
24305074 GGTTTAGGGGTTAGAGGTTAGG
1 GGTTTAGGGTTTAGA-TTTA-G
*
24305096 GGTTTATGGTTTA
1 GGTTTAGGGTTTA
24305109 TGATCTGGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 13 0.21
21 34 0.55
22 15 0.24
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (20 bp):
GGTTTAGGGTTTAGATTTAG
Found at i:24305123 original size:35 final size:36
Alignment explanation
Indices: 24305046--24305143 Score: 96
Period size: 35 Copynumber: 2.8 Consensus size: 36
24305036 TAGGGTTTAC
* *
24305046 GATTTAG-GGTTTA-GGGTTTATGGTTTATGGTTTAG
1 GATTTAGAGG-TTAGGGGTTTATGGTTTATGATCTAG
**
24305081 GGGTTAGAGGTTAGGGGTTTATGGTTTATGATCT-G
1 GATTTAGAGGTTAGGGGTTTATGGTTTATGATCTAG
* *
24305116 GATTTAGAGGATAGAGGG-TTAGGGTTTA
1 GATTTAGAGGTTAG-GGGTTTATGGTTTA
24305144 GTGTTTAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
35 29 0.56
36 23 0.44
ACGTcount: A:0.20, C:0.01, G:0.38, T:0.41
Consensus pattern (36 bp):
GATTTAGAGGTTAGGGGTTTATGGTTTATGATCTAG
Found at i:24305135 original size:36 final size:37
Alignment explanation
Indices: 24305058--24305143 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 37
24305048 TTTAGGGTTT
* * * *
24305058 AGGGTTTATGGTTTATGGTTTAGGGGTTAGAGGTTAG
1 AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
*
24305095 -GGGTTTATGGTTTATGATCT-GGATTTAGAGGATAG
1 AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
*
24305130 AGGG-TTAGGGTTTA
1 AGGGTTTATGGTTTA
24305144 GTGTTTAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 21 0.50
36 21 0.50
ACGTcount: A:0.21, C:0.01, G:0.38, T:0.40
Consensus pattern (37 bp):
AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
Found at i:24305150 original size:42 final size:42
Alignment explanation
Indices: 24305049--24305150 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 42
24305039 GGTTTACGAT
* * * *
24305049 TTAGGGTTTAGGGTTTATGGTTTATGGTTTAGGGGTTAGAGG
1 TTAGGGTTTAGTGTTTATGGTATATGGTTTAGAGGATAGAGG
*
24305091 TTAGGGGTTTA-TGGTTTAT-G-ATCTGGATTTAGAGGATAGAGGG
1 TTA-GGGTTTAGT-GTTTATGGTATATGG-TTTAGAGGATAGA-GG
24305134 TTAGGGTTTAGTGTTTA
1 TTAGGGTTTAGTGTTTA
24305151 AAGTAATTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
41 4 0.08
42 27 0.54
43 19 0.38
ACGTcount: A:0.20, C:0.01, G:0.37, T:0.42
Consensus pattern (42 bp):
TTAGGGTTTAGTGTTTATGGTATATGGTTTAGAGGATAGAGG
Found at i:24305193 original size:9 final size:9
Alignment explanation
Indices: 24305179--24305212 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
24305169 AATTTATATA
24305179 TTAAATTAT
1 TTAAATTAT
24305188 TTAAATTAT
1 TTAAATTAT
24305197 TT-AATTAT
1 TTAAATTAT
24305205 ATTAAATT
1 -TTAAATT
24305213 GTGCAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 13 0.57
10 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAAATTAT
Done.