Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 273 of 325
Found at i:87808904 original size:72 final size:72
Alignment explanation
Indices: 87808787--87809075 Score: 452
Period size: 72 Copynumber: 4.0 Consensus size: 72
87808777 GTTTGCCTGA
* *
87808787 TGTCTCAAGGTCGTGGGAACGGTGCTCCAGTCGGAGGGAATGAAGGGAGCTTCGTCGCTGACGGC
1 TGTCTCAAGGTCGTGGGAACGGTGCTCCCGTCGGAGGGAATGAAGGGAGCTTCGTCGCTGGCGGC
87808852 CCTAGAG
66 CCTAGAG
* * *
87808859 TGTCTCAAGGTTGTGGGAATGGTGCTCCCGTCGGAGGGAATGAAGGGAGCTTCGTCGCTGGTGGC
1 TGTCTCAAGGTCGTGGGAACGGTGCTCCCGTCGGAGGGAATGAAGGGAGCTTCGTCGCTGGCGGC
87808924 CCTAGAG
66 CCTAGAG
* * * * * *
87808931 TGTCTCAAGGTTGTGGGAACGGTACTCCCTTAGGAGGGAATGAAGGGAGCTTAGTCACTGGCGGC
1 TGTCTCAAGGTCGTGGGAACGGTGCTCCCGTCGGAGGGAATGAAGGGAGCTTCGTCGCTGGCGGC
87808996 CCTAGAG
66 CCTAGAG
* * *
87809003 TGTCTCAAGGTCGTGGGAACGGTGCTCCCGTCGGAGGGAATAAAGGGAGCTTCGTTGCTGGTGGC
1 TGTCTCAAGGTCGTGGGAACGGTGCTCCCGTCGGAGGGAATGAAGGGAGCTTCGTCGCTGGCGGC
87809068 CCTAGAG
66 CCTAGAG
87809075 T
1 T
87809076 ATATGTTATT
Statistics
Matches: 196, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 196 1.00
ACGTcount: A:0.19, C:0.20, G:0.38, T:0.22
Consensus pattern (72 bp):
TGTCTCAAGGTCGTGGGAACGGTGCTCCCGTCGGAGGGAATGAAGGGAGCTTCGTCGCTGGCGGC
CCTAGAG
Found at i:87809975 original size:25 final size:23
Alignment explanation
Indices: 87809923--87809977 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
87809913 TATAAATAGT
87809923 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
87809946 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
87809971 AATAGTG
1 AATAGTG
87809978 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:87810059 original size:22 final size:22
Alignment explanation
Indices: 87810033--87810107 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
87810023 TATAAAATAG
*
87810033 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
87810055 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
87810080 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
87810102 AGATAA
1 ATATAA
87810108 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:87810077 original size:25 final size:25
Alignment explanation
Indices: 87810039--87810185 Score: 88
Period size: 25 Copynumber: 5.9 Consensus size: 25
87810029 ATAGATATAA
*
87810039 AAAAAATATGTACATAATATAGTGT
1 AAAAAATATATACATAATATAGTGT
* *
87810064 AAAAAATACATACATAATATAAT-T
1 AAAAAATATATACATAATATAGTGT
* *
87810088 --AAAATATATACATAAGATAACATGTAGA
1 AAAAAATATATACAT-A-AT-ATA-GT-GT
* * *
87810116 AAAAAAAATATAAATAATATAGTAT
1 AAAAAATATATACATAATATAGTGT
* * *
87810141 TAAAGATATATACATAAAATA--GT
1 AAAAAATATATACATAATATAGTGT
* * *
87810164 ATAATATATATACGTAATATAG
1 AAAAAATATATACATAATATAG
87810186 AATTTAGAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 19
0.68 0.17 0.14
Matches are distributed among these distances:
22 12 0.13
23 18 0.20
24 3 0.03
25 38 0.42
26 3 0.03
27 2 0.02
28 2 0.02
29 1 0.01
30 11 0.12
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (25 bp):
AAAAAATATATACATAATATAGTGT
Found at i:87810137 original size:77 final size:82
Alignment explanation
Indices: 87810003--87810184 Score: 196
Period size: 77 Copynumber: 2.3 Consensus size: 82
87809993 ATGTTAAGAT
* * * * * *
87810003 ATATATAATATATACATATGTATAAAATAGATATAAAAAAAATATGTACATAATATAGTGTAAAA
1 ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAATATATAAATAATATAGTATAAAA
*
87810068 AATACATACATAATATA
66 AATACATACATAAAATA
* *
87810085 AT-TAAAATATATACATAAG-ATAACAT-G-TAGAAAAAAAA-ATATAAATAATATAGTATTAAA
1 ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAATATATAAATAATATAGTATAAAA
* *
87810145 GATATATACATAAAATA
66 AATACATACATAAAATA
* * *
87810162 GTATAATATATATACGTAA-TATA
1 ATATAAAATATATACATAAGTATA
87810185 GAATTTAGAA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
77 33 0.39
78 27 0.32
79 1 0.01
80 6 0.07
81 15 0.18
82 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (82 bp):
ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAATATATAAATAATATAGTATAAAA
AATACATACATAAAATA
Found at i:87810149 original size:23 final size:23
Alignment explanation
Indices: 87810123--87810250 Score: 59
Period size: 23 Copynumber: 5.5 Consensus size: 23
87810113 AGAAAAAAAA
87810123 ATATAAATAATATAGTATTAAAG
1 ATATAAATAATATAGTATTAAAG
* *
87810146 ATATATACATAAAATAGTA-TAATAT
1 ATATA-A-ATAATATAGTATTAA-AG
** * *
87810171 ATATACGTAATATAGAATT-TAG
1 ATATAAATAATATAGTATTAAAG
** *
87810193 AATATACCTAATATA-T-TAAAAG
1 -ATATAAATAATATAGTATTAAAG
* * *
87810215 AATATATATATATATAATATTAAAA
1 -ATATAAATA-ATATAGTATTAAAG
87810240 ATAT-AATAATA
1 ATATAAATAATA
87810251 ACAAAAGAGA
Statistics
Matches: 79, Mismatches: 17, Indels: 19
0.69 0.15 0.17
Matches are distributed among these distances:
21 1 0.01
22 14 0.18
23 34 0.43
24 10 0.13
25 20 0.25
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAATAATATAGTATTAAAG
Found at i:87810571 original size:16 final size:16
Alignment explanation
Indices: 87810533--87810571 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
87810523 TCTCCAAAAA
*
87810533 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
87810549 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
87810565 AATAACT
1 AAAAACT
87810572 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:87810768 original size:30 final size:30
Alignment explanation
Indices: 87810729--87810827 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
87810719 TAGGTACAAG
87810729 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
87810759 AGTTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
87810789 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
87810819 TGGTGGTGG
1 TGGTGGTGG
87810828 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.16, C:0.06, G:0.51, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:87811638 original size:87 final size:89
Alignment explanation
Indices: 87811438--87811936 Score: 355
Period size: 90 Copynumber: 5.6 Consensus size: 89
87811428 TTATTCTTTA
* * * * *
87811438 CTCGGCATGTGATCCTGA-GCTTAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAC-TAG
1 CTCGGCATGTGA-CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTCAAAACATA-
* * *
87811500 ACATT-AAAAACAGA-AATTGAAAATAG
63 A-ATTGAAAAAAAAATAATTGAAAATAC
* * * * *
87811526 CTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTTATTTTT-AAAACA-AAAT
1 CTCGGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTCAAAACATAAA-
* * *
87811589 TTGTAAAAAAAAT-TTTGAAAATGC
65 TTGAAAAAAAAATAATTGAAAATAC
* * *
87811613 CTCGGTATGTGACCCGAGGCTCAACTCACCTT-TCGTAATATGAGTTGATTTTTGCAAAGCATAA
1 CTCGGCATGTGACCCGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTT-CAAAACATAA
87811677 ATTGAAAAAAAAATCAATTGAAAATAC
64 ATTGAAAAAAAAAT-AATTGAAAATAC
* * * * * *
87811704 CTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACATACATA
1 CTCGGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTCA-AAACATA
* *
87811769 AATTG-AAAAAAAATAAATTGAGAATAT
63 AATTGAAAAAAAAAT-AATTGAAAATAC
* * * * * *
87811796 CTCAGC--GTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACA-A
1 CTCGGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT--CAAAACATA
* *
87811858 AATTTGAAAACAGAAT--TTGAAAATAC
63 AA-TTGAAAAAAAAATAATTGAAAATAC
* * ** * * *
87811884 CTCAGCGTGTGAGTCAAGGCTCAACTCA-TCACTCGCAATATGAGCTGATTTTT
1 CTCGGCATGTGACCCGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTTT
87811937 TTGAAACACA
Statistics
Matches: 331, Mismatches: 58, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 68 0.21
88 53 0.16
89 31 0.09
90 79 0.24
91 56 0.17
92 25 0.08
93 15 0.05
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (89 bp):
CTCGGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTCAAAACATAAAT
TGAAAAAAAAATAATTGAAAATAC
Found at i:87811827 original size:90 final size:91
Alignment explanation
Indices: 87811513--87812044 Score: 445
Period size: 90 Copynumber: 5.9 Consensus size: 91
87811503 TTAAAAACAG
* * * * *
87811513 AAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTT--TAT
1 AAATTGAAAATACCTCAG--CGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
87811575 TTTT--AAAACA-AAATTTGTAAAAAAAAT
64 TTTTGAAAAACATAAA-TTG-AAAAAAAAT
* * * ** * * *
87811602 --TTTGAAAATGCCTCGGTATGTGACCCGAGGCTCAACTCACCTTTCGTAATATGAGTTGA--TT
1 AAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
87811663 TTTGCAAAGCATAAATTGAAAAAAAAAT
65 TTTGAAAAACATAAATTG-AAAAAAAAT
* * *
87811691 CAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
87811756 TTTGACATACATAAATTGAAAAAAAAT
65 TTTGAAAAACATAAATTGAAAAAAAAT
* * *
87811783 AAATTGAGAATATCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
87811847 TGGAAAAACA-AAATTTGAAAACAGAAT
66 TTGAAAAACATAAA-TTGAAAA-AAAAT
** * * * *
87811874 ---TTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCATCACTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * * *
87811936 TTTGAAACACAGAAATTG-AAGAACAG
65 TTTGAAAAACATAAATTGAAAAAAAAT
* * * * *
87811962 AAATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* **
87812024 TTGAAAGACCGAAATTGAAAA
66 TTGAAAAACATAAATTGAAAA
87812045 TACCTCAACG
Statistics
Matches: 362, Mismatches: 61, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 93 0.26
88 23 0.06
89 25 0.07
90 100 0.28
91 72 0.20
92 28 0.08
93 16 0.04
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (91 bp):
AAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGAAAAACATAAATTGAAAAAAAAT
Found at i:87811869 original size:13 final size:13
Alignment explanation
Indices: 87811851--87811880 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87811841 ATTTTTTGGA
87811851 AAAACAAAATTTG
1 AAAACAAAATTTG
*
87811864 AAAACAGAATTTG
1 AAAACAAAATTTG
87811877 AAAA
1 AAAA
87811881 TACCTCAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (13 bp):
AAAACAAAATTTG
Found at i:87812077 original size:75 final size:74
Alignment explanation
Indices: 87811951--87812561 Score: 808
Period size: 73 Copynumber: 8.3 Consensus size: 74
87811941 AACACAGAAA
* * * *
87811951 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
87812014 GCTGATTTTT
65 GTTGATTTTT
*
87812024 TTGAAAGACCGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87812089 GTTGA--TTT
65 GTTGATTTTT
* * * *
87812097 TTGACAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87812162 GTTGATTTTT
65 GTTGATTTTT
* *
87812172 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGTAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
87812237 GCTGATTTTT
65 GTTGATTTTT
*
87812247 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87812312 GTTGA--TTT
65 GTTGATTTTT
* * * * *
87812320 TTGACAAACAAAAATTGAAACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87812385 GTTGATTTTT
65 GTTGATTTTT
* *
87812395 TTGAAAAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
87812460 TTGA--GTT
66 TTGATTTTT
* * * * * **
87812467 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGATGCTCAACTCATTTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
87812532 GTTGATTTTT
65 GTTGATTTTT
* *
87812542 TT-AGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
87812562 AACGAAAATT
Statistics
Matches: 476, Mismatches: 48, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
72 7 0.01
73 207 0.43
74 80 0.17
75 181 0.38
76 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:87812369 original size:223 final size:223
Alignment explanation
Indices: 87811951--87812628 Score: 936
Period size: 223 Copynumber: 3.0 Consensus size: 223
87811941 AACACAGAAA
* * * *
87811951 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
87812014 GCTGATTTTTTTGAAAGACCGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* * * *
87812079 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGTTCAAC
131 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
87812144 TCACCTATCGCAATATGAGTTGATTTTT
196 TCACCTATCGCAATATGAGTTGATTTTT
*
87812172 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
87812237 GCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
87812302 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAACTACCTCAGCGTGTCCTGAGGCTCAAC
131 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
87812367 TCACCTATCGCAATATGAGTTGATTTTT
196 TCACCTATCGCAATATGAGTTGATTTTT
* *
87812395 TTGAAAAA-AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * * **
87812459 GTTGA--GTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGATGCTCAACTCATTTC
66 GCTGATTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
87812521 TCGCAATATGAGTTGATTTTTTTAGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGC
130 TCGCAATATGAGTTGA--TTTTT-G--AC-----------AAACAAAAATTGAAAATACCTCAGC
*
87812586 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
179 GTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
87812629 GAAAAGCAGA
Statistics
Matches: 411, Mismatches: 27, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
220 61 0.15
221 26 0.06
222 63 0.15
223 194 0.47
225 2 0.00
236 65 0.16
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (223 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
TCACCTATCGCAATATGAGTTGATTTTT
Found at i:87812766 original size:14 final size:13
Alignment explanation
Indices: 87812731--87812775 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
87812721 TTGATTTTTG
*
87812731 AAAAATAGAAATT
1 AAAAACAGAAATT
*
87812744 AAAAGCAGAAATT
1 AAAAACAGAAATT
87812757 GAAAAACAGAAATT
1 -AAAAACAGAAATT
87812771 AAAAA
1 AAAAA
87812776 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:87812796 original size:100 final size:101
Alignment explanation
Indices: 87812559--87812863 Score: 438
Period size: 100 Copynumber: 3.0 Consensus size: 101
87812549 CATAAATTAA
*
87812559 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
87812623 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
87812658 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
**
87812723 GATTTTTGAAAAATAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * * * *
87812758 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTTGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
87812823 GATTTTTGAAAAGCATAAATTGAAAAAACAGAAATTG
66 GATTTTTGAAAAGCAGAAATTG-AAAAGCAGAAATTG
87812860 AAAA
1 AAAA
87812864 TACCTCAGCG
Statistics
Matches: 185, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
99 64 0.35
100 90 0.49
101 14 0.08
102 17 0.09
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
Found at i:87812940 original size:88 final size:87
Alignment explanation
Indices: 87812744--87812918 Score: 217
Period size: 89 Copynumber: 2.0 Consensus size: 87
87812734 AATAGAAATT
* * * * * *
87812744 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCATAAAATAAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
*
87812809 TTGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * *
87812831 AAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCA-
1 AAAAGCATAAAAT-AAAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCAC
87812895 CTCTCGCAATATGAGTTGATTTTT
63 CTCTCGCAATATGAGTTGATTTTT
87812919 TTGAAAGATA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
87 12 0.16
88 23 0.30
89 24 0.32
90 17 0.22
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (87 bp):
AAAAGCATAAAATAAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:87821860 original size:44 final size:43
Alignment explanation
Indices: 87821718--87822186 Score: 296
Period size: 44 Copynumber: 10.6 Consensus size: 43
87821708 CTGCAACTGT
* * * *
87821718 TCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATC-G-TAGCTTCAATCTGC
* * * *
87821763 TCCACTGTAACTTCAGGGAGATAAGACTTGTTA-CTTCAACCCGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TCG-TAGCTTCAATCTGC
** * ** * *
87821807 TTTATTGCAACTTCAAAGAGATAAGGATCGTGGCTTCAATTTGC
1 TCCACTGCAACTTCAGGGAGATAA-GATCGTAGCTTCAATCTGC
* * *
87821851 TCCACTGCAAATTCGGGGAGATAAGATCTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATC-G-TAGCTTCAATCTGC
* * * *
87821896 TCCACTGTAACTTCAGGGAGATAAGACTTGTTA-CTTCAACCCGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TCG-TAGCTTCAATCTGC
** * * * *
87821940 TCTGCTGCAACTTCAGAGAGATAAGGATCGTGGCTTCGATATGC
1 TCCACTGCAACTTCAGGGAGATAA-GATCGTAGCTTCAATCTGC
* * *
87821984 TCCACTGAAACTTCAAGGAGATAAGATCTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATC-G-TAGCTTCAATCTGC
* * * * * * * *
87822029 TCTACTGCAACTTTAGGGAAATAAGACTTGTTA-CTTTAACCCGT
1 TCCACTGCAACTTCAGGGAGATAAGA-TCG-TAGCTTCAATCTGC
* * * * * * *
87822073 TCTACTGCAACTTTAGAGAGATAAGGATCATGGTTTCAATCTGA
1 TCCACTGCAACTTCAGGGAGATAA-GATCGTAGCTTCAATCTGC
* * *
87822117 TCCACTGCAACTTCAGGGAGATAAGATCTGCCATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATC-G-TAGCTTCAATCTGC
* * *
87822162 TTCACTGCAACTTCAGAGAAATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
87822187 GTTTGCTATG
Statistics
Matches: 320, Mismatches: 89, Indels: 30
0.73 0.20 0.07
Matches are distributed among these distances:
43 15 0.05
44 168 0.52
45 134 0.42
46 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGATCGTAGCTTCAATCTGC
Found at i:87821908 original size:89 final size:89
Alignment explanation
Indices: 87821718--87822187 Score: 330
Period size: 89 Copynumber: 5.3 Consensus size: 89
87821708 CTGCAACTGT
* * ** * * *
87821718 TCCACTACAACTTCAGGGAGATAA-GATCTGCTATCTTTAGTCTGCTCCACTGTAACTTCAGGGA
1 TCCACTGCAACTTCAGAGAGATAAGGATC-G-TGGCTTCAATCTGCTCCACTGCAACTTCAGGGA
* * *
87821782 GATAAGA-CTTGTTA-CTTCAACCCGC
64 GATAAGATC-TGCTATCTTCAATCTGC
** * * * * *
87821807 TTTATTGCAACTTCAAAGAGATAAGGATCGTGGCTTCAATTTGCTCCACTGCAAATTCGGGGAGA
1 TCCACTGCAACTTCAGAGAGATAAGGATCGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
87821872 TAAGATCTGCTATCTTCAATCTGC
66 TAAGATCTGCTATCTTCAATCTGC
* * * ** * * ** *
87821896 TCCACTGTAACTTCAGGGAGATAA-GACTTGTTACTTCAACCCGCTCTGCTGCAACTTCAGAGAG
1 TCCACTGCAACTTCAGAGAGATAAGGA-TCGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
** * *
87821960 ATAAGGATC-G-TGGCTTCGATATGC
65 ATAA-GATCTGCTATCTTCAATCTGC
* ** * *
87821984 TCCACTGAAACTTCA-AGGAGATAA-GATCTGCTATCTTCAATCTGCTCTACTGCAACTTTAGGG
1 TCCACTGCAACTTCAGA-GAGATAAGGATC-G-TGGCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * * *
87822047 AAATAAGA-CTTGTTA-CTTTAACCCGT
63 AGATAAGATC-TGCTATCTTCAATCTGC
* * * * *
87822073 TCTACTGCAACTTTAGAGAGATAAGGATCATGGTTTCAATCTGATCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGAGAGATAAGGATCGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
* *
87822138 TAAGATCTGCCATCTTCAGTCTGC
66 TAAGATCTGCTATCTTCAATCTGC
* *
87822162 TTCACTGCAACTTCAGAGAAATAAGG
1 TCCACTGCAACTTCAGAGAGATAAGG
87822188 TTTGCTATGA
Statistics
Matches: 288, Mismatches: 78, Indels: 30
0.73 0.20 0.08
Matches are distributed among these distances:
87 2 0.01
88 110 0.38
89 162 0.56
90 14 0.05
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (89 bp):
TCCACTGCAACTTCAGAGAGATAAGGATCGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATCTGCTATCTTCAATCTGC
Found at i:87821960 original size:133 final size:133
Alignment explanation
Indices: 87821718--87822186 Score: 652
Period size: 133 Copynumber: 3.5 Consensus size: 133
87821708 CTGCAACTGT
* * * * * *
87821718 TCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTTAGTCTGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAAATTCAGGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAA
* * * *
87821783 ATAAGACTTGTTACTTCAACCCGCTTTATTGCAACTTCAAAGAGATAAGGATCGTGGCTTCAATT
66 ATAAGACTTGTTACTTCAACCCGCTCTACTGCAACTTCAGAGAGATAAGGATCGTGGCTTCAATA
87821848 TGC
131 TGC
* * *
87821851 TCCACTGCAAATTCGGGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAAATTCAGGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAA
* *
87821916 ATAAGACTTGTTACTTCAACCCGCTCTGCTGCAACTTCAGAGAGATAAGGATCGTGGCTTCGATA
66 ATAAGACTTGTTACTTCAACCCGCTCTACTGCAACTTCAGAGAGATAAGGATCGTGGCTTCAATA
87821981 TGC
131 TGC
* * *
87821984 TCCACTG-AAACTTCAAGGAGATAAGATCTGCTATCTTCAATCTGCTCTACTGCAACTTTAGGGA
1 TCCACTGCAAA-TTCAGGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
* * * * *
87822048 AATAAGACTTGTTACTTTAACCCGTTCTACTGCAACTTTAGAGAGATAAGGATCATGGTTTCAAT
65 AATAAGACTTGTTACTTCAACCCGCTCTACTGCAACTTCAGAGAGATAAGGATCGTGGCTTCAAT
* *
87822113 CTGA
130 ATGC
* * * * *
87822117 TCCACTGCAACTTCAGGGAGATAAGATCTGCCATCTTCAGTCTGCTTCACTGCAACTTCAGAGAA
1 TCCACTGCAAATTCAGGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAA
87822182 ATAAG
66 ATAAG
87822187 GTTTGCTATG
Statistics
Matches: 300, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
132 3 0.01
133 295 0.98
134 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (133 bp):
TCCACTGCAAATTCAGGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAA
ATAAGACTTGTTACTTCAACCCGCTCTACTGCAACTTCAGAGAGATAAGGATCGTGGCTTCAATA
TGC
Found at i:87839677 original size:48 final size:48
Alignment explanation
Indices: 87839604--87839795 Score: 226
Period size: 48 Copynumber: 4.0 Consensus size: 48
87839594 ATGTCATTAG
* *
87839604 GAGTTACATTGATTTGGCTTTGGGCCATGATATTAGCACTTCGGGTGT
1 GAGTTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGC
* *
87839652 GAGTTACATTGATTTGGCTTCGGGCCATGATATTACCACTTCGGGTAC
1 GAGTTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGC
* * *
87839700 GAGTTACATTGATTTGGC-TCTGGGCCATTATATTAGCACTTTGAGTGC
1 GAGTTACATTGATTTGGCTTC-GGGCCATGATATTAGCACTTCGGGTGC
* * ** ** *
87839748 GAGACT-CATTAAAATGGCTTCGGGCCATGATATGGGCACTTAGGGTGC
1 GAG-TTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGC
87839796 AAGACTTTTG
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.02
48 118 0.96
49 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (48 bp):
GAGTTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGC
Found at i:87839768 original size:96 final size:96
Alignment explanation
Indices: 87839604--87839780 Score: 257
Period size: 96 Copynumber: 1.8 Consensus size: 96
87839594 ATGTCATTAG
* * * * * **
87839604 GAGTTACATTGATTTGGCTTTGGGCCATGATATTAGCACTTCGGGTGTGAGTTACATTGATTTGG
1 GAGTTACATTGATTTGGCTCTGGGCCATGATATTAGCACTTCGAGTGCGAGCTACATTAAAATGG
87839669 CTTCGGGCCATGATATTACCACTTCGGGTAC
66 CTTCGGGCCATGATATTACCACTTCGGGTAC
* *
87839700 GAGTTACATTGATTTGGCTCTGGGCCATTATATTAGCACTTTGAGTGCGAGACT-CATTAAAATG
1 GAGTTACATTGATTTGGCTCTGGGCCATGATATTAGCACTTCGAGTGCGAG-CTACATTAAAATG
87839764 GCTTCGGGCCATGATAT
65 GCTTCGGGCCATGATAT
87839781 GGGCACTTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 70 0.99
97 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (96 bp):
GAGTTACATTGATTTGGCTCTGGGCCATGATATTAGCACTTCGAGTGCGAGCTACATTAAAATGG
CTTCGGGCCATGATATTACCACTTCGGGTAC
Found at i:87842196 original size:46 final size:45
Alignment explanation
Indices: 87842146--87842265 Score: 147
Period size: 45 Copynumber: 2.6 Consensus size: 45
87842136 ACAAGAGCTA
*
87842146 TGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGTAAGCCAG
1 TGTAAGACATGTTTGGGACATGCATCGGCCTACAAGATGT--GCCAG
* * *
87842192 TGTAAGACATG-CTGGGACATGCATCGG-CTACAAGATGTGTCTG
1 TGTAAGACATGTTTGGGACATGCATCGGCCTACAAGATGTGCCAG
87842235 TGTAAGACCATGTTTGGGACATGGCATCGGC
1 TGTAAGA-CATGTTTGGGACAT-GCATCGGC
87842266 ACGTATAGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
43 10 0.16
44 6 0.09
45 30 0.47
46 18 0.28
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (45 bp):
TGTAAGACATGTTTGGGACATGCATCGGCCTACAAGATGTGCCAG
Found at i:87842286 original size:48 final size:46
Alignment explanation
Indices: 87842146--87842361 Score: 158
Period size: 48 Copynumber: 4.6 Consensus size: 46
87842136 ACAAGAGCTA
* ** * *
87842146 TGTAAGACATGTTTGGGACAT-GCATCGGC-CTCGAGATGTAAGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGGCACTATAGAGGT--GTCAG
* *
87842192 TGTAAGACATG-CTGGGACAT-GCATCGGCTAC-A-AGATGTGTCTG
1 TGTAAGACATGTCTGGGACATGGCATCGGC-ACTATAGAGGTGTCAG
*
87842235 TGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAGAGGTGTCAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGCAC-TATAGAGGTGTCAG
** * * * *
87842283 TGTAAGACCATGTCTACGACATGGCATCGACACGGATATGTGAGAG-CTAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGCAC-TATA-GAG-GTGTC-AG
87842333 TGTAAGATCATGTCTGGGACATGGCATCG
1 TGTAAGA-CATGTCTGGGACATGGCATCG
87842362 ACTTGATGGA
Statistics
Matches: 142, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
43 10 0.07
44 4 0.03
45 32 0.23
46 19 0.13
47 2 0.01
48 42 0.30
49 3 0.02
50 30 0.21
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGGCATCGGCACTATAGAGGTGTCAG
Found at i:87845150 original size:22 final size:23
Alignment explanation
Indices: 87845108--87845155 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
87845098 ATCAATATTA
87845108 TTATTACTATTACTAACATTT-T
1 TTATTACTATTACTAACATTTAT
* *
87845130 TTATTA-TTTTACGTAATATTTAT
1 TTATTACTATTAC-TAACATTTAT
87845153 TTA
1 TTA
87845156 CAACTAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTACTATTACTAACATTTAT
Found at i:87847234 original size:19 final size:19
Alignment explanation
Indices: 87847212--87847257 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
87847202 ATTCCTTTCT
*
87847212 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
87847231 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
87847250 TTTGCATT
1 TTTGCATT
87847258 AGACTTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:87851887 original size:64 final size:64
Alignment explanation
Indices: 87851781--87851908 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
87851771 CATATAATAA
*
87851781 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
87851845 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATCGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
87851909 AGATACATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAAGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:87852195 original size:86 final size:85
Alignment explanation
Indices: 87851958--87852467 Score: 483
Period size: 87 Copynumber: 5.9 Consensus size: 85
87851948 GGTTGATGGG
87851958 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
1 CCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
* *
87852023 GAAACAGATCG--GGCTTGATGAG
65 G-AACAGATCGAAGAC-TG-TGAA
* * * * * * *
87852045 CTTTAAGCCTCTAAGCAGTAGGGTAACAAGCTGAATTTACAAATCTTATCTCCCTAAGTAGTAGT
1 CCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-
**
87852110 GGAGTAGATCGAAGACTGTGAA
64 GGAACAGATCGAAGACTGTGAA
* * *
87852132 CCTTAACCTCCTAAGCAGTAGGGTAACAGGCCG-ATTTACAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAACC-CCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-
** * *
87852196 GGAGTAGATCGAAGACGGTGAG
64 GGAACAGATCGAAGACTGTGAA
* * *
87852218 CCTTAACCCTCTAAACAGTAGGGTAACAGGCTGAATTTCCAGAT-TTAACCCCCTAAGTAGTAAG
1 CCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGT-AG
* * *
87852282 GAAACAGATCGAAGA-TGAAGGA
64 GGAACAGATCGAAGACTG-TGAA
* * **
87852304 CCTTAACCCCTTAAACAGTAGGGTAACAGGTTGAATTCCCAGATCTTAACCCCCTAAGCAGTAGG
1 CCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
* * **
87852369 GAAACAGATCAAAG-GTGACAA
65 G-AACAGATCGAAGACTGTGAA
* ** * *
87852390 GCCTTAACCCCCTAGGCAGTAGGGTAACAGGCTGAAGATAGACAGTTCTTAACCCCCTAAGTAGT
1 -CCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTAACCCCCTAAGCAGT
87852455 AGGGAAACAGATC
62 AGGG-AACAGATC
87852468 AAAAGTAATG
Statistics
Matches: 359, Mismatches: 47, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
85 3 0.01
86 154 0.43
87 155 0.43
88 9 0.03
89 38 0.11
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (85 bp):
CCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
AACAGATCGAAGACTGTGAA
Found at i:87852312 original size:44 final size:44
Alignment explanation
Indices: 87852262--87852688 Score: 234
Period size: 44 Copynumber: 9.8 Consensus size: 44
87852252 ATTTCCAGAT
* *
87852262 TTAACCCCCTAAGTAGTAAGGAAACAGATCGAAGATGAAGGACC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGACC
* * * * * * ** *
87852306 TTAACCCCTTAAACAGTAGGGTAACAGGTTGAA-TTCCCA-GATC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGAT-GAAGGACC
* * *
87852349 TTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGACAAG-CC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGGACC
* * * **
87852393 TTAACCCCCTAGGCAGTAGGGTAACAG-GCTGAAGATAGACA-GTTC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGAT-GA-AGGACC
* * **
87852438 TTAACCCCCTAAGTAGTAGGGAAACAGATC-AA-AAGTAATGG-TT
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-AA-GGACC
* * * *
87852481 TTAAACCCCTAAGCAGTAAGGAAACAGATCGAAGGTGAAGGGCC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGACC
* * * * * *
87852525 TTAAACCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTACA-GATC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGGACC
* ** * *
87852568 TTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGACC
* * * * * *
87852612 TTAAACCCCTAAGCAGTAGGGTAACA-AGCTGAA-TTTACA-GATC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGA-AGGACC
* * *
87852655 TTATCACCCTAAGTAGTAGGGAAACAGATCGAAG
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAG
87852689 TTATGAATCC
Statistics
Matches: 285, Mismatches: 75, Indels: 46
0.70 0.18 0.11
Matches are distributed among these distances:
42 2 0.01
43 124 0.44
44 127 0.45
45 31 0.11
46 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (44 bp):
TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGACC
Found at i:87852349 original size:173 final size:173
Alignment explanation
Indices: 87851958--87852467 Score: 563
Period size: 173 Copynumber: 2.9 Consensus size: 173
87851948 GGTTGATGGG
87851958 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
1 CCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
* * * * *
87852023 GAAACAGATCG--GGCTTGATGAGCTTTAAGCCTCTAAGCAGTAGGGTAACAAGCTGAATTTACA
65 GAAACAGATCGAAGAC--GGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAATTTACA
* * * * ** *
87852086 AATCTTATCTCCCTAAGTAGT-AGTGGAGTAGATCGAAGACTGTGAA
128 GATCTTAACCCCCTAAGTAGTAAG-GAAACAGATCGAAGACTGAGAA
* * *
87852132 CCTTAACCTCCTAAGCAGTAGGGTAACAGGCCG-ATTTACAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAACC-CCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-
** * *
87852196 GG-AGTAGATCGAAGACGGTGAGCCTTAACCCTCTAAACAGTAGGGTAACAGGCTGAATTTCCAG
64 GGAAACAGATCGAAGACGGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAATTTACAG
*
87852260 AT-TTAACCCCCTAAGTAGTAAGGAAACAGATCGAAGA-TGAAGGA
129 ATCTTAACCCCCTAAGTAGTAAGGAAACAGATCGAAGACTG-AGAA
* * **
87852304 CCTTAACCCCTTAAACAGTAGGGTAACAGGTTGAATTCCCAGATCTTAACCCCCTAAGCAGTAGG
1 CCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
* * **
87852369 GAAACAGATC-AA-A-GGTGACAAGCCTTAACCCCCTAGGCAGTAGGGTAACAGGCTGAAGATAG
65 GAAACAGATCGAAGACGGTG---AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTG-A-ATTT
* *
87852431 ACAGTTCTTAACCCCCTAAGTAGTAGGGAAACAGATC
125 ACAGATCTTAACCCCCTAAGTAGTAAGGAAACAGATC
87852468 AAAAGTAATG
Statistics
Matches: 284, Mismatches: 37, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
170 4 0.01
171 5 0.02
172 60 0.21
173 148 0.52
174 30 0.11
175 8 0.03
176 29 0.10
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (173 bp):
CCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
AAACAGATCGAAGACGGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
CTTAACCCCCTAAGTAGTAAGGAAACAGATCGAAGACTGAGAA
Found at i:87852490 original size:132 final size:131
Alignment explanation
Indices: 87852348--87852637 Score: 377
Period size: 132 Copynumber: 2.2 Consensus size: 131
87852338 ATTCCCAGAT
* * *
87852348 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGACA-AGCCTTAACCCCCTAGGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGGTGA-AGAGCCTTAAACCCCTAAGCAGTAG
* * * *
87852412 GGTAACAGGCTGAAGATAGACAGTTCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAAGTAAT
65 GGTAACAGGCT-AA-ATAGACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAAGCAAT
*
87852477 -GGT
128 GGGC
* * * *
87852480 TTTAAACCCCTAAGCAGTAAGGAAACAGATCGAAGGTGAAGGGCCTTAAACCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGGTGAAGAGCCTTAAACCCCTAAGCAGTAGG
** * * *
87852545 GTAACAGGCTAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGG
66 GTAACAGGCTAAATAGACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAAGCAATGGG
87852610 C
131 C
*
87852611 CTTAAACCCCTAAGCAGTAGGGTAACA
1 CTTAAACCCCTAAGCAGTAGGGAAACA
87852638 AGCTGAATTT
Statistics
Matches: 136, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
130 41 0.30
131 29 0.21
132 66 0.49
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (131 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGGTGAAGAGCCTTAAACCCCTAAGCAGTAGG
GTAACAGGCTAAATAGACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAAGCAATGGG
C
Found at i:87852508 original size:219 final size:217
Alignment explanation
Indices: 87852261--87852684 Score: 607
Period size: 219 Copynumber: 1.9 Consensus size: 217
87852251 AATTTCCAGA
* *
87852261 TTTAACCCCCTAAGTAGTAAGGAAACAGATCGAAGATGAAGGACCTT-AACCCCTTAAACAGTAG
1 TTTAAACCCCTAAGCAGTAAGGAAACAGATCGAAGATGAAGGACCTTAAACCCC-TAAACAGTAG
* * * * *
87852325 GGTAACAGGTTGAATTCCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGACAA
65 GGTAACAGGCTAAATTCACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGGCGACAA
* * * * *
87852390 GCCTTAACCCCCTAGGCAGTAGGGTAACAGGCTGAAGATAGACAGTTCTTAACCCCCTAAGTAGT
130 GCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTG-A-ATAGACAGATCTTAACACCCTAAGTAGT
87852455 AGGGAAACAGATCAAAAGTAATGGT
193 AGGGAAACAGATCAAAAGTAATGGT
* * *
87852480 TTTAAACCCCTAAGCAGTAAGGAAACAGATCGAAGGTGAAGGGCCTTAAACCCCTAAGCAGTAGG
1 TTTAAACCCCTAAGCAGTAAGGAAACAGATCGAAGATGAAGGACCTTAAACCCCTAAACAGTAGG
* * ***
87852545 GTAACAGGCTAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGG
66 GTAACAGGCTAAATTCACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGGCGACAAG
** *
87852610 CCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTATCACCCTAAGTAGTAGG
131 CCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATAGACAGATCTTAACACCCTAAGTAGTAGG
87852675 GAAACAGATC
196 GAAACAGATC
87852685 GAAGTTATGA
Statistics
Matches: 181, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
217 36 0.20
218 1 0.01
219 138 0.76
220 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (217 bp):
TTTAAACCCCTAAGCAGTAAGGAAACAGATCGAAGATGAAGGACCTTAAACCCCTAAACAGTAGG
GTAACAGGCTAAATTCACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGGCGACAAG
CCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATAGACAGATCTTAACACCCTAAGTAGTAGG
GAAACAGATCAAAAGTAATGGT
Found at i:87852551 original size:87 final size:87
Alignment explanation
Indices: 87852487--87852688 Score: 296
Period size: 87 Copynumber: 2.3 Consensus size: 87
87852477 GGTTTTAAAC
*
87852487 CCCTAAGCAGTAAGGAAACAGATCGAAGGTGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAAGGAAACAGATCGAAGGCGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
**
87852552 GCTAAATTTACAGATCTTAACA
66 GCTAAAAGTACAGATCTTAACA
* * *
87852574 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAA
1 CCCTAAGCAGTAAGGAAACAGATCGAAGGCGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
* ** *
87852639 GCTGAATTTACAGATCTTATCA
66 GCTAAAAGTACAGATCTTAACA
* *
87852661 CCCTAAGTAGTAGGGAAACAGATCGAAG
1 CCCTAAGCAGTAAGGAAACAGATCGAAG
87852689 TTATGAATCC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 108 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (87 bp):
CCCTAAGCAGTAAGGAAACAGATCGAAGGCGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
GCTAAAAGTACAGATCTTAACA
Found at i:87852929 original size:89 final size:88
Alignment explanation
Indices: 87852836--87853192 Score: 298
Period size: 89 Copynumber: 4.0 Consensus size: 88
87852826 TTAGCAGAGA
* *
87852836 AGATTGAAGTCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAAATAGCGAATCTT
1 AGATTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAAATAGC-AATCTT
87852901 ATTTCCCTGAAGTTGCAGTGGAAT
65 ATTTCCCTGAAGTTGCAGTGGAAT
* * * * * * *
87852925 AGATTAAAGCTATAAATAAATAGATCTTATCTCTCTGTAGTTACAGTAGAGCAGA-TCAAAATA-
1 AGATTGAAG---T---CACA-AG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAAATAG
* * * * **
87852988 -AACCTTATCTCCTTGAAGTTGCAGTAGAGC
58 CAATCTTATTTCCCTGAAGTTGCAGTGGAAT
* * * *
87853018 AGGTTGAAGTCACTAGTCTTATCTCTCTGAAATTGCAGTGGAGCAGACTGAAGATAGCAAATCTT
1 AGATTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAAATAGC-AATCTT
87853083 ATTTCCCTGAAGTTGCAGTGGAAT
65 ATTTCCCTGAAGTTGCAGTGGAAT
* * * * *
87853107 AGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGTAGTGGAGCAGA-TCAAAACA--AA
1 AGATTGAAG-T-CA-CA-AG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAA
*
87853169 TCTTA-TCCCCTGAAG-TGCAGTGGA
61 TCTTATTTCCCTGAAGTTGCAGTGGA
87853193 GCACATTGAA
Statistics
Matches: 209, Mismatches: 42, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
85 27 0.13
86 8 0.04
87 1 0.00
88 9 0.04
89 49 0.23
90 9 0.04
91 1 0.00
92 1 0.00
93 38 0.18
94 29 0.14
95 2 0.01
96 9 0.04
97 26 0.12
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (88 bp):
AGATTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAATCTTA
TTTCCCTGAAGTTGCAGTGGAAT
Found at i:87855225 original size:22 final size:23
Alignment explanation
Indices: 87855183--87855230 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
87855173 ATCAATATTA
87855183 TTATTACTATTACTAACATTT-T
1 TTATTACTATTACTAACATTTAT
* *
87855205 TTATTA-TTTTACGTAATATTTAT
1 TTATTACTATTAC-TAACATTTAT
87855228 TTA
1 TTA
87855231 CAACTAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTACTATTACTAACATTTAT
Found at i:87860990 original size:26 final size:26
Alignment explanation
Indices: 87860961--87861010 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
87860951 AGAAAATAAA
87860961 ATAAAATAATTTA-AAAATAAAAATAT
1 ATAAAAT-ATTTAGAAAATAAAAATAT
* *
87860987 ATAAAATTTTTAGAAATTAAAAAT
1 ATAAAATATTTAGAAAATAAAAAT
87861011 TGCCATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
ATAAAATATTTAGAAAATAAAAATAT
Found at i:87881910 original size:46 final size:44
Alignment explanation
Indices: 87881767--87881910 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
87881757 CGCATCCATA
* * *
87881767 AGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
87881816 --CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
87881859 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
87881906 AGTGA
1 AGTGA
87881911 CATGTCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.43
47 26 0.35
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:87885796 original size:16 final size:16
Alignment explanation
Indices: 87885775--87885808 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
87885765 CCAATATCCA
* *
87885775 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
87885791 ATTATCACATTTACAC
1 ATTATCACATTTACAC
87885807 AT
1 AT
87885809 ATATATGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:87891104 original size:21 final size:21
Alignment explanation
Indices: 87891078--87891129 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
87891068 TAATAATTCA
* *
87891078 AAATTTTTAAAATTTTTAAAT
1 AAATTTTTAAAATATATAAAT
*
87891099 AAATTTATAAAATATATAAAT
1 AAATTTTTAAAATATATAAAT
*
87891120 ATAAATTTTA
1 A-AATTTTTA
87891130 GAAAATCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTTTTAAAATATATAAAT
Found at i:87891435 original size:29 final size:29
Alignment explanation
Indices: 87891375--87891435 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
87891365 TTTCTTTTTT
*
87891375 TTTTTGTAAATTTTTAAAAATTAAATATA
1 TTTTTGTAAATTTTTAAAAATTAAATAAA
*
87891404 TTTTT-TAATTTTTATAAAAATTTAAA-AAA
1 TTTTTGTAAATTTT-TAAAAA-TTAAATAAA
87891433 TTT
1 TTT
87891436 ATATATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.25
29 16 0.57
30 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTTTGTAAATTTTTAAAAATTAAATAAA
Found at i:87892623 original size:102 final size:101
Alignment explanation
Indices: 87892445--87892741 Score: 468
Period size: 102 Copynumber: 2.9 Consensus size: 101
87892435 CATCCCTAAT
*
87892445 TATATTAACGCGGGAGCAGAGGATGGTGGCCATGGAAACACGAGGAGCCTGAAATAGAGGAAGAT
1 TATATTAACGCAGGAGCAGAGGATGGTGGCCATGGAAACACGAGGAGCCTGAAATAGAGGAAGAT
87892510 GAAGGAGCTCATCTCATCGGAATCGAGCTTTATAAC
66 GAAGGAGCTCATCTCATCGGAATCGAGCTTTATAAC
* * *
87892546 TATATTAACGCAGGTGTAGAGAATGGTGGCCATGGAAACACGAGGGAGCCTGAAATAGAGGAAGA
1 TATATTAACGCAGGAGCAGAGGATGGTGGCCATGGAAACACGA-GGAGCCTGAAATAGAGGAAGA
87892611 TGAAGGAGCTCATCTCATCGGAATCGAGCTTTATAAC
65 TGAAGGAGCTCATCTCATCGGAATCGAGCTTTATAAC
* * * * ** *
87892648 TATATTAACGCTGGAGCAGAGGATGGTGGCCATGGCAACACGACGGATCCTGAAGTAGACAAAGG
1 TATATTAACGCAGGAGCAGAGGATGGTGGCCATGGAAACACGA-GGAGCCTGAAATAGAGGAAGA
*
87892713 TGAAGGAGCTCATGTCATCGGAATCGAGC
65 TGAAGGAGCTCATCTCATCGGAATCGAGC
87892742 CTTTTCACCT
Statistics
Matches: 179, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 39 0.22
102 140 0.78
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (101 bp):
TATATTAACGCAGGAGCAGAGGATGGTGGCCATGGAAACACGAGGAGCCTGAAATAGAGGAAGAT
GAAGGAGCTCATCTCATCGGAATCGAGCTTTATAAC
Found at i:87899158 original size:20 final size:21
Alignment explanation
Indices: 87899133--87899181 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
87899123 TAGCCTAGGT
**
87899133 GTGTGGCTT-CACACATGGTC
1 GTGTGGCTTCCACACATGCCC
*
87899153 GTGTGGCTTCCCCACATGCCC
1 GTGTGGCTTCCACACATGCCC
87899174 GTGTGGCT
1 GTGTGGCT
87899182 AGACTGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.10, C:0.31, G:0.31, T:0.29
Consensus pattern (21 bp):
GTGTGGCTTCCACACATGCCC
Found at i:87906981 original size:17 final size:17
Alignment explanation
Indices: 87906959--87906993 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
87906949 CAAGAAAAGA
87906959 AAGACAAATACATAAGC
1 AAGACAAATACATAAGC
87906976 AAGACAAATACATAAGC
1 AAGACAAATACATAAGC
87906993 A
1 A
87906994 TATAATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.17, G:0.11, T:0.11
Consensus pattern (17 bp):
AAGACAAATACATAAGC
Found at i:87907996 original size:40 final size:40
Alignment explanation
Indices: 87907952--87908030 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
87907942 CAAAACCAAA
*
87907952 CTAGCCAAATTTTCTATGTTTTCAATTAAGCCTAAATTTC
1 CTAGCCAAATTTTCTATGTTTTCAATCAAGCCTAAATTTC
* *
87907992 CTAGCCAATTTTTCTATGTTTTCAATCAAGGCTAAATTT
1 CTAGCCAAATTTTCTATGTTTTCAATCAAGCCTAAATTT
87908031 TCTATCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (40 bp):
CTAGCCAAATTTTCTATGTTTTCAATCAAGCCTAAATTTC
Found at i:87909974 original size:28 final size:28
Alignment explanation
Indices: 87909942--87909995 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
87909932 CCCCAATGAC
**
87909942 TACCCCACAATGATCGAATTCCAACGGT
1 TACCCCACAACAATCGAATTCCAACGGT
*
87909970 TACCCCACAACAATTGAATTCCAACG
1 TACCCCACAACAATCGAATTCCAACG
87909996 ACTACTCACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.33, G:0.11, T:0.20
Consensus pattern (28 bp):
TACCCCACAACAATCGAATTCCAACGGT
Found at i:87915473 original size:40 final size:40
Alignment explanation
Indices: 87915393--87915480 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
87915383 AAATTGTATG
* * * *
87915393 TAATATAATAAAATATTTATTATATTTATTTGTGTTTTTT
1 TAATATAATAAAACATTTATTATATTTATTGGTATGTTTT
87915433 TAATATAATAAAACATTTATTATATTTA-TGGTAATGTTTT
1 TAATATAATAAAACATTTATTATATTTATTGGT-ATGTTTT
87915473 TAATATAA
1 TAATATAA
87915481 ATATTTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (40 bp):
TAATATAATAAAACATTTATTATATTTATTGGTATGTTTT
Found at i:87917599 original size:27 final size:25
Alignment explanation
Indices: 87917555--87917661 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 25
87917545 AACAAATTTA
* *
87917555 AAAAAAATTTAAA-AATAAAAATATT
1 AAAAAAATATAAATTATAAAAA-ATT
87917580 AAAAAAATATAAACTTATAAAAAAGTT
1 AAAAAAATATAAA-TTATAAAAAA-TT
** *
87917607 AAAAACTTATAAA-TATTATAAAATT
1 AAAAAAATATAAATTA-TAAAAAATT
87917632 ATAAAAAATCTAATAAATTATAAAAAATT
1 A-AAAAAA--T-ATAAATTATAAAAAATT
87917661 A
1 A
87917662 TAAGTTTATT
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
25 17 0.26
26 11 0.17
27 20 0.31
28 1 0.02
29 14 0.22
30 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (25 bp):
AAAAAAATATAAATTATAAAAAATT
Found at i:87917601 original size:17 final size:18
Alignment explanation
Indices: 87917579--87917664 Score: 95
Period size: 19 Copynumber: 4.7 Consensus size: 18
87917569 ATAAAAATAT
*
87917579 TAAAAAAATATAAACTTA
1 TAAAAAATTATAAACTTA
*
87917597 TAAAAAAGTTAAAAACTTA
1 TAAAAAA-TTATAAACTTA
* *
87917616 T-AAATATTATAAAATTA
1 TAAAAAATTATAAACTTA
87917633 TAAAAAATCTAATAAA-TTA
1 TAAAAAAT-T-ATAAACTTA
87917652 TAAAAAATTATAA
1 TAAAAAATTATAA
87917665 GTTTATTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
17 14 0.24
18 17 0.29
19 22 0.38
20 5 0.09
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (18 bp):
TAAAAAATTATAAACTTA
Found at i:87917619 original size:10 final size:9
Alignment explanation
Indices: 87917557--87917664 Score: 68
Period size: 9 Copynumber: 12.2 Consensus size: 9
87917547 CAAATTTAAA
87917557 AAAAATT-T
1 AAAAATTAT
87917565 AAAAA-TA-
1 AAAAATTAT
87917572 AAAATATTA-
1 AAAA-ATTAT
*
87917581 AAAAAATAT
1 AAAAATTAT
*
87917590 -AAACTTAT
1 AAAAATTAT
87917598 AAAAAAGTTA-
1 -AAAAA-TTAT
*
87917608 AAAACTTAT
1 AAAAATTAT
*
87917617 AAATATTAT
1 AAAAATTAT
87917626 -AAAATTAT
1 AAAAATTAT
* *
87917634 AAAAAATCT
1 AAAAATTAT
87917643 AATAAATTAT
1 AA-AAATTAT
87917653 AAAAAATTAT
1 -AAAAATTAT
87917663 AA
1 AA
87917665 GTTTATTAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
7 5 0.06
8 25 0.32
9 27 0.35
10 15 0.19
11 5 0.06
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:87917627 original size:36 final size:37
Alignment explanation
Indices: 87917579--87917664 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 37
87917569 ATAAAAATAT
* *
87917579 TAAAAAAATATAAACTTATAAAAAAGT-TAA-AAACTTA
1 TAAAAAATTATAAAATTATAAAAAA-TCTAATAAA-TTA
*
87917616 T-AAATATTATAAAATTATAAAAAATCTAATAAATTA
1 TAAAAAATTATAAAATTATAAAAAATCTAATAAATTA
87917652 TAAAAAATTATAA
1 TAAAAAATTATAA
87917665 GTTTATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
35 1 0.02
36 27 0.64
37 14 0.33
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (37 bp):
TAAAAAATTATAAAATTATAAAAAATCTAATAAATTA
Found at i:87920705 original size:29 final size:29
Alignment explanation
Indices: 87920656--87920726 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
87920646 ATGAGATCTA
* * * *
87920656 TGGAGCTCTGGCGGTATATCCGTAATTAC
1 TGGAGTTCTGGCAGTAAATCCGCAATTAC
87920685 TGGAGTTCTGGCAGTAAATCCGCAATTAC
1 TGGAGTTCTGGCAGTAAATCCGCAATTAC
*
87920714 TGGAATTCTGGCA
1 TGGAGTTCTGGCA
87920727 ATTTGTTCGC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (29 bp):
TGGAGTTCTGGCAGTAAATCCGCAATTAC
Found at i:87920751 original size:24 final size:24
Alignment explanation
Indices: 87920718--87920769 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
87920708 AATTACTGGA
* * *
87920718 ATTCTGGCAATTTGTTCGCATTTT
1 ATTCTAGCAAATTGTTCGCATATT
*
87920742 ATTCTAGCAAATTGTTTGCATATT
1 ATTCTAGCAAATTGTTCGCATATT
87920766 ATTC
1 ATTC
87920770 CGGTGGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.48
Consensus pattern (24 bp):
ATTCTAGCAAATTGTTCGCATATT
Found at i:87921867 original size:20 final size:20
Alignment explanation
Indices: 87921842--87921880 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
87921832 TTTTTTTTTT
*
87921842 AAGTTTTTCAAACAAAAATG
1 AAGTTTTTCAAAAAAAAATG
87921862 AAGTTTTTCAAAAAAAAAT
1 AAGTTTTTCAAAAAAAAAT
87921881 TGGTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (20 bp):
AAGTTTTTCAAAAAAAAATG
Found at i:87926781 original size:12 final size:12
Alignment explanation
Indices: 87926766--87926799 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
87926756 ATGCAGAAGG
87926766 AGATGCAAGAAC
1 AGATGCAAGAAC
*
87926778 AGATGCAAGCAC
1 AGATGCAAGAAC
*
87926790 AAATGCAAGA
1 AGATGCAAGA
87926800 GCAATTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:87930223 original size:21 final size:21
Alignment explanation
Indices: 87930197--87930247 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
87930187 AATTGCACAC
87930197 GGCCGTGTGGGTCAATGGCCA
1 GGCCGTGTGGGTCAATGGCCA
87930218 GGCCGTGTGGGTCAATGGCCA
1 GGCCGTGTGGGTCAATGGCCA
*
87930239 GGCCATGTG
1 GGCCGTGTG
87930248 AATCGTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.14, C:0.24, G:0.43, T:0.20
Consensus pattern (21 bp):
GGCCGTGTGGGTCAATGGCCA
Found at i:87931728 original size:27 final size:27
Alignment explanation
Indices: 87931698--87931750 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
87931688 TTTCATTCTT
*
87931698 TCCATACAAATAATTATTTTAGATTCC
1 TCCATACAAATAATTATTTCAGATTCC
* * *
87931725 TCCATGCGAGTAATTATTTCAGATTC
1 TCCATACAAATAATTATTTCAGATTC
87931751 TTTCGAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (27 bp):
TCCATACAAATAATTATTTCAGATTCC
Found at i:87934114 original size:39 final size:39
Alignment explanation
Indices: 87934055--87934233 Score: 250
Period size: 39 Copynumber: 4.6 Consensus size: 39
87934045 ATCGTGATCT
* * * *
87934055 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
* *
87934094 GAAGCCTGAAGGCTAACTGAAGCACTCAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
*
87934133 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
* * * *
87934172 TAAGCCCGAAAGCTAATTTAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
*
87934211 GAAGCCCGAAGGCTAATTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
87934234 TCATCAGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 123 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
Found at i:87938026 original size:13 final size:14
Alignment explanation
Indices: 87938008--87938052 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
87937998 CCCTATATAT
87938008 AGAAAAAAA-GAAA
1 AGAAAAAAATGAAA
87938021 AGAAAAAAATGAAA
1 AGAAAAAAATGAAA
* * *
87938035 ATAAAAAGATAAAA
1 AGAAAAAAATGAAA
87938049 AGAA
1 AGAA
87938053 GGTGAAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (14 bp):
AGAAAAAAATGAAA
Found at i:87939427 original size:44 final size:45
Alignment explanation
Indices: 87939379--87939470 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 45
87939369 AGACACTAGC
* *
87939379 CTTAT-TTCCATAAGGTAGCAAGGGAGCATGCTAAAGATTGTAG-T
1 CTTATCTTCC-TAAGGAAGCAAGGGAGCAGGCTAAAGATTGTAGAT
* **
87939423 CTTATCTTCCTGAGGAAGCAAGGGAGCAGGCTGGAGATTGTAGAT
1 CTTATCTTCCTAAGGAAGCAAGGGAGCAGGCTAAAGATTGTAGAT
87939468 CTT
1 CTT
87939471 GTCTCCCCGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 33 0.80
45 8 0.20
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (45 bp):
CTTATCTTCCTAAGGAAGCAAGGGAGCAGGCTAAAGATTGTAGAT
Found at i:87939606 original size:44 final size:44
Alignment explanation
Indices: 87939558--87939642 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
87939548 CCGCTAACCT
*
87939558 TATC-TCTCTGAGGTAGCAAAGGAGCAGGCTGAAGATTGTAGTCG
1 TATCTTCT-TGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGTCG
*
87939602 TATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
1 TATCTTCTTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAG
87939643 ATTTTGTCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 35 0.92
45 3 0.08
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (44 bp):
TATCTTCTTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGTCG
Found at i:87939640 original size:177 final size:177
Alignment explanation
Indices: 87939327--87939918 Score: 684
Period size: 177 Copynumber: 3.3 Consensus size: 177
87939317 AGATCGAAAG
* * * * *
87939327 TGGAGAATCTTATCTTCCCGAGGTAGCAGGGGAGTAGATTTTAGACACTAGCCTTATTTC-CATA
1 TGGAAAATCTTAT-TTTCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTC-TA
* * * *
87939391 AGGTAGCAAGGGAGCATGCTAAAGATTGTAGTCTTATCTTCCTGAGGAAGCAAGGGAGCAGGCTG
64 AGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTG
* *
87939456 GAGATTGTAGATCTTGTCTCCCCGAGATAGTAGTGGGGCAAATCAAAAA
129 AAGATTGTAGATCTTGTCTCCCCGAGACAGTAGTGGGGCAAATCAAAAA
* * * *
87939505 TGGAAAATCTTATTTTCCGAGGTAGTAGGGGAGCAGATTTTAGCCGCTAACCTTATCTCTCTGAG
1 TGGAAAATCTTATTTTCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAAG
* * *
87939570 GTAGCAAAGGAGCAGGCTGAAGATTGTAGTCGTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAA
66 GTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAA
* * *
87939635 GATTGTAGATTTTGTCTCCTCGAGACAGTAGTGGGGCAGATCAAAAA
131 GATTGTAGATCTTGTCTCCCCGAGACAGTAGTGGGGCAAATCAAAAA
* * * * * *
87939682 TGGGAATTCTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAA
1 TGGAAAATCTTATTTTCC-GAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAA
* * * *
87939747 GGTAGCAAGGGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAACAAGGGAACAGACTAA
65 GGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGA
* * ** * * * * * *
87939812 ATATTGTAGATCTTATCTCCCTAAG-CAGTAGTCGAGTAGATCGAAGA
130 AGATTGTAGATCTTGTCTCCCCGAGACAGTAGTGGGGCAAATCAAAAA
* ** * * * * **
87939859 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGGAACAGATTGAAGCCACTAGCCTTATCTC
1 TGGAAAATCTTAT-TTTCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTC
87939919 CCTGAAGTTG
Statistics
Matches: 350, Mismatches: 61, Indels: 7
0.84 0.15 0.02
Matches are distributed among these distances:
177 218 0.62
178 132 0.38
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (177 bp):
TGGAAAATCTTATTTTCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAAG
GTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAA
GATTGTAGATCTTGTCTCCCCGAGACAGTAGTGGGGCAAATCAAAAA
Found at i:87939782 original size:44 final size:45
Alignment explanation
Indices: 87939734--87939836 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 45
87939724 AGCCACCAGC
* * ** *
87939734 CTTATCTCTCTAAGGTAGCAAGGGAGCAGGTTGAAGATTGTAG-T
1 CTTATCTCTCTAAGGTAACAAGGGAACAGACTAAAGATTGTAGAT
* *
87939778 CTTATCT-TCCTGAGGTAACAAGGGAACAGACTAAATATTGTAGAT
1 CTTATCTCT-CTAAGGTAACAAGGGAACAGACTAAAGATTGTAGAT
*
87939823 CTTATCTCCCTAAG
1 CTTATCTCTCTAAG
87939837 CAGTAGTCGA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
43 1 0.02
44 34 0.72
45 12 0.26
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTAACAAGGGAACAGACTAAAGATTGTAGAT
Found at i:87941906 original size:16 final size:16
Alignment explanation
Indices: 87941887--87941935 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
87941877 TTTATGTACA
87941887 TATTTTCTTTTAAATC
1 TATTTTCTTTTAAATC
* *
87941903 TATTTAT-GTTT--ATA
1 TATTT-TCTTTTAAATC
87941917 TATTTTCTTTTAAATC
1 TATTTTCTTTTAAATC
87941933 TAT
1 TAT
87941936 ATATATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
13 1 0.04
14 10 0.40
16 13 0.52
17 1 0.04
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (16 bp):
TATTTTCTTTTAAATC
Found at i:87941909 original size:28 final size:29
Alignment explanation
Indices: 87941877--87941935 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
87941867 TTCGTATTAT
87941877 TTTATG-TACATATTTTCTTTTAAATCTA
1 TTTATGTTACATATTTTCTTTTAAATCTA
*
87941905 TTTATGTTTATATATTTTCTTTTAAATCTA
1 TTTATG-TTACATATTTTCTTTTAAATCTA
87941935 T
1 T
87941936 ATATATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 6 0.21
30 22 0.79
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTATGTTACATATTTTCTTTTAAATCTA
Found at i:87944286 original size:25 final size:25
Alignment explanation
Indices: 87944258--87944307 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
87944248 ATCCATTTTC
87944258 ATTTTTTAAT-ATTTAATTATTTTAT
1 ATTTTTTAATAATTT-ATTATTTTAT
* *
87944283 ATTTTTTGATAATTTTTTATTTTAT
1 ATTTTTTAATAATTTATTATTTTAT
87944308 TTTATAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (25 bp):
ATTTTTTAATAATTTATTATTTTAT
Found at i:87944302 original size:20 final size:20
Alignment explanation
Indices: 87944271--87944329 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
87944261 TTTTAATATT
87944271 TAATTATTTTATATTTTTTGA
1 TAATT-TTTTATATTTTTTGA
*
87944292 TAATTTTTTAT-TTTATTTTA
1 TAATTTTTTATATTT-TTTGA
* *
87944312 TAGTTTTTTAAATTTTTT
1 TAATTTTTTATATTTTTT
87944330 ATGGGAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 3 0.09
20 22 0.67
21 8 0.24
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
TAATTTTTTATATTTTTTGA
Found at i:87944308 original size:30 final size:29
Alignment explanation
Indices: 87944274--87944331 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
87944264 TAATATTTAA
87944274 TTATTTTATA-TTTTTTGATAATTTTTTATT
1 TTATTTTATAGTTTTTT-A-AATTTTTTATT
87944304 TTATTTTATAGTTTTTTAAATTTTTTAT
1 TTATTTTATAGTTTTTTAAATTTTTTAT
87944332 GGGAAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (29 bp):
TTATTTTATAGTTTTTTAAATTTTTTATT
Found at i:87944320 original size:10 final size:10
Alignment explanation
Indices: 87944271--87944331 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
87944261 TTTTAATATT
87944271 TAATTATTTTA
1 TAATT-TTTTA
87944282 T-ATTTTTTGA
1 TAATTTTTT-A
87944292 TAATTTTTTA
1 TAATTTTTTA
*
87944302 T-TTTATTTTA
1 TAATT-TTTTA
*
87944312 TAGTTTTTTA
1 TAATTTTTTA
87944322 -AATTTTTTA
1 TAATTTTTTA
87944331 T
1 T
87944332 GGGAAACATA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
9 14 0.33
10 18 0.43
11 10 0.24
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:87945646 original size:125 final size:126
Alignment explanation
Indices: 87945498--87945924 Score: 355
Period size: 132 Copynumber: 3.3 Consensus size: 126
87945488 TCCAACGAGA
* *
87945498 AAATCGAAACCCAGCA-TAGTAGGGCACGATTCCTCGAATTTCTAAACATCGAGCATTGCCTTAT
1 AAATCGCAACCCAGCACGA-TAGGGCACGATTCC-CGAATTTC-AAACATCGAGCATTGCCTTAT
* * * * * *
87945562 TTTATA-A-TTTTGAGAGT-ATGAATGAAATTCTAAAGGAATC-TTCGATTA-TTGAACGAACGG
63 TTTAAAGATTTTTGA-AGTCATGAACGAAATTCCAAAGGAA-CATTCGATTACTTGAACAAAAGA
87945622 G
126 G
* * * *
87945623 AAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAAGATCGAGTATTACCTTCATT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATT-TCAAACATCGAGCATTGCCTT-ATT
* *
87945688 TTAAAGATTTTTTGAAGTCATGAACGAAATTCCAAAGGGACATTCGATTACTTTGAGCAAAAGAG
64 TTAAAGA-TTTTTGAAGTCATGAACGAAATTCCAAAGGAACATTCGATTAC-TTGAACAAAAGAG
* * * * * *
87945753 AAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGTCAAATATCGAACATCGCCTTCTT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCC-CGAATT-TCAAACATCGAGCATTGCCTT-AT
* ** * * * * * * **
87945818 TTTAAAGGATTTTTAGAAGACATGAACGAAATTTTAAAGGGATATTTGATCATTTTGAGCAAGCG
63 TTTAAA-GATTTTT-GAAGTCATGAACGAAATTCCAAAGGAACATTCGATTA-CTTGAACAAAAG
87945883 AG
125 AG
* *
87945885 AAATTGCAACCCAACAC-ATTAGGGCACGATTCCGCGAATT
1 AAATCGCAACCCAGCACGA-TAGGGCACGATTCC-CGAATT
87945925 GCCAAATATC
Statistics
Matches: 253, Mismatches: 34, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
124 22 0.09
125 37 0.15
126 2 0.01
127 4 0.02
128 32 0.13
130 40 0.16
131 35 0.14
132 81 0.32
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (126 bp):
AAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTTCAAACATCGAGCATTGCCTTATTTT
AAAGATTTTTGAAGTCATGAACGAAATTCCAAAGGAACATTCGATTACTTGAACAAAAGAG
Found at i:87945875 original size:132 final size:132
Alignment explanation
Indices: 87945622--87945964 Score: 431
Period size: 132 Copynumber: 2.6 Consensus size: 132
87945612 GAACGAACGG
* * * ** **
87945622 GAAATCGCAACCCAGCACGATAGGGCACGATTCC-CGAATTGCCAAAGATCGAGTATTACCTTCA
1 GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCA
* * *
87945686 TTTTAAA-GATTTTTTGAAGTCATGAACGAAATTCCAAAGGGACATTCGATTACTTTGAGCAAAA
66 TTTTAAAGGATTTTTAGAAGACATGAACGAAATTCCAAAGGGACATTCGATCACTTTGAGCAAAA
87945750 GA
131 GA
* *
87945752 GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGTCAAATATCGAACATCGCCTTCT
1 GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCA
** * * * **
87945817 TTTTAAAGGATTTTTAGAAGACATGAACGAAATTTTAAAGGGATATTTGATCATTTTGAGCAAGC
66 TTTTAAAGGATTTTTAGAAGACATGAACGAAATTCCAAAGGGACATTCGATCACTTTGAGCAAAA
87945882 GA
131 GA
* * * *
87945884 GAAATTGCAACCCAACACATTAGGGCACGATTCCGCGAATTGCCAAATATCAAATC-TCGTCTTC
1 GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAA-CATCGCCTTC
* *
87945948 GTTTTAAAGAATTTTTA
65 ATTTTAAAGGATTTTTA
87945965 AATGAATAAT
Statistics
Matches: 184, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
130 32 0.17
131 30 0.16
132 121 0.66
133 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (132 bp):
GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCA
TTTTAAAGGATTTTTAGAAGACATGAACGAAATTCCAAAGGGACATTCGATCACTTTGAGCAAAA
GA
Found at i:87948156 original size:19 final size:19
Alignment explanation
Indices: 87948134--87948172 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87948124 TAATGGACTG
87948134 TTATAATT-TTATTTAGGTT
1 TTATAATTATTATTT-GGTT
*
87948153 TTATATTTATTATTTGGTT
1 TTATAATTATTATTTGGTT
87948172 T
1 T
87948173 GTTTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
TTATAATTATTATTTGGTT
Found at i:87948197 original size:17 final size:18
Alignment explanation
Indices: 87948170--87948204 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
87948160 TATTATTTGG
*
87948170 TTTGTTTGTTTTTTGTTT
1 TTTGTTTGTTTTGTGTTT
87948188 TTTG-TTGTTTTGTGTTT
1 TTTGTTTGTTTTGTGTTT
87948205 GTATGGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (18 bp):
TTTGTTTGTTTTGTGTTT
Found at i:87948889 original size:131 final size:131
Alignment explanation
Indices: 87948494--87948917 Score: 555
Period size: 133 Copynumber: 3.2 Consensus size: 131
87948484 TCTGTTCTAT
* * ** * *
87948494 TGCAGCTTCAAGGAGATAAGATCTGTAATTTTTAGCCTACTCCACTACAACTTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTA-GGAGCTAGG
* * * **
87948559 ATAGTGGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCCAAGATTCATCGTCTTTGATTTGCTA
65 AT-GTGGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCCAAGATTCGTCATCTTCGATTTGCCC
87948624 CAC
129 CAC
* * * * *
87948627 TGTAACTTCAGGGAGACAAGATCTATAATCTTCAACCTACTCCACTACAACTTTAGGAAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGG-AGCTAGG
* *
87948692 ATGGTGGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCCAAGATTTGTCATTTTCGATTTGCCC
65 AT-GTGGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCCAAGATTCGTCATCTTCGATTTGCCC
87948757 CAC
129 CAC
* *
87948760 TGCAATTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGTGAGGTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAG-GAGCTAGG
* * * *
87948825 ACT-T-GCTTAAATCTGCTTCACTGCAACTTTAGGAAGCCAAGATTCGTCATCTTCGATTTACCC
65 A-TGTGGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCCAAGATTCGTCATCTTCGATTTGCCC
87948888 CAC
129 CAC
*
87948891 TGCAACTTCAGGGAGACAAGATCTACA
1 TGCAACTTCAAGGAGACAAGATCTACA
87948918 TTTTGTTTCA
Statistics
Matches: 257, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
131 81 0.32
132 3 0.01
133 171 0.67
134 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (131 bp):
TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGAGCTAGGA
TGTGGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCCAAGATTCGTCATCTTCGATTTGCCCCA
C
Found at i:87951432 original size:43 final size:43
Alignment explanation
Indices: 87951353--87951434 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
87951343 AATAAATGAT
* * * *
87951353 TCTAAGGATGATTATTTGTATGGTATGATCATGAATGAAAGAA
1 TCTAAGGATAATCATTTGTATAGTATGATAATGAATGAAAGAA
87951396 TCTAAGGATAATCATTTGTATAGTATGA-AATGGAATGAA
1 TCTAAGGATAATCATTTGTATAGTATGATAAT-GAATGAA
87951435 TAAAAGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 32 0.94
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (43 bp):
TCTAAGGATAATCATTTGTATAGTATGATAATGAATGAAAGAA
Found at i:87952704 original size:19 final size:19
Alignment explanation
Indices: 87952680--87952744 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
87952670 GGGGAAATTT
87952680 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
* *
87952699 AATGCAAAGGATGCCATGC
1 AATGCAAATGATGCAATGC
87952718 AATGCAAATGCATG-AGATG-
1 AATGCAAATG-ATGCA-ATGC
87952737 AATGCAAA
1 AATGCAAA
87952745 GGAAAGAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 34 0.85
20 6 0.15
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:87954599 original size:132 final size:132
Alignment explanation
Indices: 87954389--87954732 Score: 440
Period size: 132 Copynumber: 2.6 Consensus size: 132
87954379 GAACGAACGG
* * * * **
87954389 GAAATCGCAACCCAGCACGATAGGGCACGATTCC-CGAATTGCCAAAGATCGAGTATTACCTTCG
1 GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCGCCTTCG
* *
87954453 TTTTAAA-GATTTTTTAGAAGTCATGAACGAAATTCTAAAGGGACATTCGATTACTTTGAACAAA
66 TTTTAAAGGA-TTTTTAGAAGACATGAACGAAATTCTAAAGGGACATTCGATCACTTTGAACAAA
87954517 AGA
130 AGA
* * * * *
87954520 GAAATTGCCACCCAGCGCGTTAGGGCACGATGCCGCGAATTGTCAAATATCGAACATCGCCTTCG
1 GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCGCCTTCG
* * * * * **
87954585 TTTTAAAGGATTTTTAGAAGACATGAACGAAATTTTGAAGGGATATTCGATCATTTTGAGCAAGC
66 TTTTAAAGGATTTTTAGAAGACATGAACGAAATTCTAAAGGGACATTCGATCACTTTGAACAAAA
*
87954650 GG
131 GA
* * *
87954652 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCAAATATCGTCTTCG
1 GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCGCCTTCG
*
87954717 TTTTAAAGAATTTTTA
66 TTTTAAAGGATTTTTA
87954733 AATGAATAAT
Statistics
Matches: 181, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
131 29 0.16
132 150 0.83
133 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (132 bp):
GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCGCCTTCG
TTTTAAAGGATTTTTAGAAGACATGAACGAAATTCTAAAGGGACATTCGATCACTTTGAACAAAA
GA
Found at i:87965168 original size:35 final size:35
Alignment explanation
Indices: 87965128--87965196 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
87965118 ATTTACCAAG
87965128 TATAAATAATTAATAATAAATACCATATAATTTAA
1 TATAAATAATTAATAATAAATACCATATAATTTAA
** * *
87965163 TATAAATAATTTGTAGTAAATACTATATAATTTA
1 TATAAATAATTAATAATAAATACCATATAATTTA
87965197 GTTAACTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (35 bp):
TATAAATAATTAATAATAAATACCATATAATTTAA
Found at i:87965296 original size:24 final size:22
Alignment explanation
Indices: 87965269--87965318 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
87965259 TATTTAAACC
87965269 ATATTAGTAAAATAATATATAAAT
1 ATATT-GTAAAAT-ATATATAAAT
* * *
87965293 ATATTTTAAAATATATGTATAT
1 ATATTGTAAAATATATATAAAT
87965315 ATAT
1 ATAT
87965319 CCTAAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 12 0.52
23 6 0.26
24 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATTGTAAAATATATATAAAT
Found at i:87965324 original size:22 final size:23
Alignment explanation
Indices: 87965276--87965326 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
87965266 ACCATATTAG
**
87965276 TAAAATAATATATAAATATATTT
1 TAAAATAATATATAAATATATCC
* *
87965299 TAAAAT-ATATGTATATATATCC
1 TAAAATAATATATAAATATATCC
87965321 TAAAAT
1 TAAAAT
87965327 TAAAATAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAAATAATATATAAATATATCC
Found at i:87985641 original size:18 final size:18
Alignment explanation
Indices: 87985620--87985680 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
87985610 TATTATTTTA
87985620 CTTTTTATTACTGTGTTT
1 CTTTTTATTACTGTGTTT
* * *
87985638 CTTTTCAAATTATTAT-TTT
1 CTTTT--TATTACTGTGTTT
87985657 ACTTTTTATTACTGTGTTT
1 -CTTTTTATTACTGTGTTT
87985676 CTTTT
1 CTTTT
87985681 CTTTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 16 0.48
19 6 0.18
20 11 0.33
ACGTcount: A:0.16, C:0.11, G:0.07, T:0.66
Consensus pattern (18 bp):
CTTTTTATTACTGTGTTT
Found at i:87985655 original size:38 final size:38
Alignment explanation
Indices: 87985604--87985681 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
87985594 GACTTAGAGG
87985604 TCAAATTATTATTTTACTTTTTATTACTGTGTTTCTTT
1 TCAAATTATTATTTTACTTTTTATTACTGTGTTTCTTT
87985642 TCAAATTATTATTTTACTTTTTATTACTGTGTTTCTTT
1 TCAAATTATTATTTTACTTTTTATTACTGTGTTTCTTT
87985680 TC
1 TC
87985682 TTTTTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.63
Consensus pattern (38 bp):
TCAAATTATTATTTTACTTTTTATTACTGTGTTTCTTT
Found at i:87985661 original size:20 final size:20
Alignment explanation
Indices: 87985604--87985662 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
87985594 GACTTAGAGG
87985604 TCAAATTATTATTTTACTTT
1 TCAAATTATTATTTTACTTT
* * *
87985624 T--TATTACTGTGTTT-CTTT
1 TCAAATTATTAT-TTTACTTT
87985642 TCAAATTATTATTTTACTTT
1 TCAAATTATTATTTTACTTT
87985662 T
1 T
87985663 TATTACTGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
18 11 0.38
19 6 0.21
20 12 0.41
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (20 bp):
TCAAATTATTATTTTACTTT
Found at i:87988720 original size:49 final size:48
Alignment explanation
Indices: 87988662--87988759 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 48
87988652 TAATATGTTA
*
87988662 ACTCTAGTATGCATGTCATCCTTTTATTTTAAATATTTTTATGTTAACT
1 ACTCTAGTATGCATGTCATCCTTTTATTTTAAACA-TTTTATGTTAACT
87988711 ACTCTAGTATGCATGTCATCCTTTTATTTTAAACATTTTATGTTAACT
1 ACTCTAGTATGCATGTCATCCTTTTATTTTAAACATTTTATGTTAACT
87988759 A
1 A
87988760 AATTATGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 14 0.29
49 34 0.71
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (48 bp):
ACTCTAGTATGCATGTCATCCTTTTATTTTAAACATTTTATGTTAACT
Found at i:87989529 original size:16 final size:17
Alignment explanation
Indices: 87989501--87989532 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87989491 TAAAGTAAAT
87989501 AAAAGAAATTAAAAAGA
1 AAAAGAAATTAAAAAGA
87989518 AAAAGAAA-TAAAAAG
1 AAAAGAAATTAAAAAG
87989533 GTGGAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAAGAAATTAAAAAGA
Found at i:87997106 original size:12 final size:12
Alignment explanation
Indices: 87997089--87997133 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
87997079 ACAGAGCAGG
87997089 GAAAGAAAGAA-A
1 GAAAGAAA-AAGA
87997101 GAAAGAAAAAGA
1 GAAAGAAAAAGA
87997113 GAAAGAAAAAGA
1 GAAAGAAAAAGA
*
87997125 -AAGGAAAAA
1 GAAAGAAAAA
87997134 TAGGGTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 10 0.32
12 21 0.68
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
GAAAGAAAAAGA
Found at i:88004876 original size:54 final size:55
Alignment explanation
Indices: 88004794--88004906 Score: 210
Period size: 54 Copynumber: 2.1 Consensus size: 55
88004784 GCTTGATTAG
88004794 ATCCATTAATTGAGTTTGTTGGGATTTATA-CTCAAAGGGTTCAATTGGACGTTT
1 ATCCATTAATTGAGTTTGTTGGGATTTATATCTCAAAGGGTTCAATTGGACGTTT
*
88004848 ATCCATTAATTGAGTTTGTTGGGATTTATATCTCAGAGGGTTCAATTGGACGTTT
1 ATCCATTAATTGAGTTTGTTGGGATTTATATCTCAAAGGGTTCAATTGGACGTTT
88004903 ATCC
1 ATCC
88004907 TTTTATCTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 30 0.53
55 27 0.47
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (55 bp):
ATCCATTAATTGAGTTTGTTGGGATTTATATCTCAAAGGGTTCAATTGGACGTTT
Found at i:88012401 original size:30 final size:29
Alignment explanation
Indices: 88012334--88012403 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
88012324 TTTATATATA
* *
88012334 TATTTATATAATTTATTTATTTTAAATAT
1 TATTTATATAATTTATTTACTTTAAACAT
* *
88012363 T-TTGTATATTATTTATTTTACTTTAAACCT
1 TATT-TATATAATTTA-TTTACTTTAAACAT
88012393 TATTTATATAA
1 TATTTATATAA
88012404 AAAATATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 2 0.06
29 11 0.33
30 18 0.55
31 2 0.06
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (29 bp):
TATTTATATAATTTATTTACTTTAAACAT
Found at i:88012429 original size:33 final size:33
Alignment explanation
Indices: 88012392--88012467 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
88012382 ACTTTAAACC
* *
88012392 TTATTTATATAAAAAATATTTATTTTATT-TGTA
1 TTATTTAT-TAAAAAATATATATTTTATTGTATA
* **
88012425 TTATTTATTATATTATATATATTTTATTGTATA
1 TTATTTATTAAAAAATATATATTTTATTGTATA
88012458 TTATTTATTA
1 TTATTTATTA
88012468 TATTATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 16 0.43
33 21 0.57
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (33 bp):
TTATTTATTAAAAAATATATATTTTATTGTATA
Found at i:88012430 original size:14 final size:14
Alignment explanation
Indices: 88012411--88012473 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 14
88012401 TAAAAAATAT
*
88012411 TTATTTTATTTGTA
1 TTATTTTATTTATA
88012425 TTATTTATTATATTATA
1 TTA-TT-TTAT-TTATA
88012442 TATATTTTATTGTATA
1 T-TATTTTATT-TATA
88012458 TTA-TTTA-TTATA
1 TTATTTTATTTATA
88012470 TTAT
1 TTAT
88012474 GTATAATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
12 7 0.17
13 1 0.02
14 7 0.17
15 5 0.12
16 13 0.31
17 7 0.17
18 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TTATTTTATTTATA
Found at i:88012440 original size:12 final size:12
Alignment explanation
Indices: 88012423--88012473 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
88012413 ATTTTATTTG
88012423 TATTATTTATTA
1 TATTATTTATTA
*
88012435 TATTATATA-TA
1 TATTATTTATTA
* *
88012446 TTTTA-TT-GTA
1 TATTATTTATTA
88012456 TATTATTTATTA
1 TATTATTTATTA
88012468 TATTAT
1 TATTAT
88012474 GTATAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
10 7 0.23
11 8 0.26
12 16 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:88012452 original size:19 final size:19
Alignment explanation
Indices: 88012428--88012484 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 19
88012418 ATTTGTATTA
88012428 TTTATTATATTATATATAT
1 TTTATTATATTATATATAT
*
88012447 TTTA-T-T-GTATAT-TA-
1 TTTATTATATTATATATAT
*
88012461 TTTATTATATTATGTATAAT
1 TTTATTATATTATATAT-AT
88012481 TTTA
1 TTTA
88012485 AAATTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 11
0.67 0.07 0.26
Matches are distributed among these distances:
14 4 0.14
15 3 0.10
16 6 0.21
17 5 0.17
18 2 0.07
19 5 0.17
20 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTATTATATTATATATAT
Found at i:88012468 original size:33 final size:32
Alignment explanation
Indices: 88012407--88012484 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 32
88012397 TATATAAAAA
* *
88012407 ATATTTATTTTATTTGTATTATTTATTATATT
1 ATATATATTTTATTTATATTATTTATTATATT
88012439 ATATATATTTTATTGTATATTATTTATTATATT
1 ATATATATTTTATT-TATATTATTTATTATATT
*
88012472 ATGTATAATTTTA
1 ATATAT-ATTTTA
88012485 AAATTTGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 13 0.32
33 22 0.54
34 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (32 bp):
ATATATATTTTATTTATATTATTTATTATATT
Found at i:88012537 original size:15 final size:15
Alignment explanation
Indices: 88012498--88012538 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
88012488 TTTGTAAATT
88012498 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
88012513 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
88012526 ATTATTAAATATT
1 ATTATTAAATATT
88012539 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:88012913 original size:36 final size:41
Alignment explanation
Indices: 88012873--88012950 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
88012863 ATTTTTTATG
88012873 TTATTTA-TTG-T-TTTTA-TATATTTGCATGAAA-ATTAA
1 TTATTTAGTTGTTATTTTAGTATATTTGCATGAAATATTAA
88012909 TTATTTATGTTGTTATTTTAGTTATATTTGCATGAAATATTA
1 TTATTTA-GTTGTTATTTTAG-TATATTTGCATGAAATATTA
88012951 TTGTATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
36 7 0.20
38 3 0.09
39 1 0.03
40 5 0.14
42 15 0.43
43 4 0.11
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (41 bp):
TTATTTAGTTGTTATTTTAGTATATTTGCATGAAATATTAA
Found at i:88013075 original size:119 final size:112
Alignment explanation
Indices: 88012930--88013143 Score: 266
Period size: 112 Copynumber: 1.8 Consensus size: 112
88012920 GTTATTTTAG
* * * * **
88012930 TTATATTTGCATGAAATATTATTGTATATATATTATGTAATTTATATTGTTATATTCATTGTTTT
1 TTATATCTGCATGAAATATTA----ATGTATATTATGTAATTCATATCGTTAT-TT-ATCATTTT
* * *
88012995 CTATGTTGTATTTTGCATGAAATGTTAATGTATGTATATTTATGTTATTTATGA
60 CTATATTATA-TTTGCATGAAATGTTAAAGTATGTATATTTATGTTATTTATGA
* *
88013049 TTATATCTGCATGAAATGTTAATGTATATTATGTAATTCATGTCGTTATTTATCATTTTCTATAT
1 TTATATCTGCATGAAATATTAATGTATATTATGTAATTCATATCGTTATTTATCATTTTCTATAT
88013114 TATATTTGCATGAAATGTTAAAGTATGTAT
66 TATATTTGCATGAAATGTTAAAGTATGTAT
88013144 CATGTAGTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
112 25 0.30
113 14 0.17
114 2 0.02
115 24 0.29
119 19 0.23
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (112 bp):
TTATATCTGCATGAAATATTAATGTATATTATGTAATTCATATCGTTATTTATCATTTTCTATAT
TATATTTGCATGAAATGTTAAAGTATGTATATTTATGTTATTTATGA
Found at i:88022723 original size:40 final size:40
Alignment explanation
Indices: 88022652--88022762 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
88022642 TATCTAGCAC
* * *
88022652 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACAA
*
88022691 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACAA
88022731 AGCCTGCGGGTCTTTAAGCCCGGATACAATTC
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTC
88022763 GGGTCTTTAA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
39 16 0.24
40 50 0.76
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACAA
Found at i:88022771 original size:25 final size:25
Alignment explanation
Indices: 88022737--88022787 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
88022727 ACGAAGCCTG
88022737 CGGGTCTTTAAGCCCGGATACAATT
1 CGGGTCTTTAAGCCCGGATACAATT
88022762 CGGGTCTTTAAGCCCGGATACAATT
1 CGGGTCTTTAAGCCCGGATACAATT
88022787 C
1 C
88022788 CAGCACGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (25 bp):
CGGGTCTTTAAGCCCGGATACAATT
Found at i:88022807 original size:65 final size:65
Alignment explanation
Indices: 88022697--88022827 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
88022687 ACAAAGCCTG
*
88022697 CGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATACAATT
* *
88022762 CGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGTGGGTCTTTAAGCCCAGATACAATT
1 CGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATACAATT
88022827 C
1 C
88022828 CACATCAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (65 bp):
CGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATACAATT
Found at i:88029692 original size:43 final size:45
Alignment explanation
Indices: 88029637--88029732 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 45
88029627 AGCCACTAGC
*
88029637 CTTATCTCTCTGACGTAGCAA-AAGAGCAGATTGAAGAAT-AAG-T
1 CTTATCTCTCTGACGTAGCAAGAA-AGCAGACTGAAGAATGAAGAT
* * *
88029680 CTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGACGTAGCAAGAAAGCAGACTGAAGAATGAAGAT
88029725 CTTATCTC
1 CTTATCTC
88029733 CCTAAAGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 32 0.71
44 5 0.11
45 8 0.18
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTGACGTAGCAAGAAAGCAGACTGAAGAATGAAGAT
Found at i:88029898 original size:176 final size:177
Alignment explanation
Indices: 88029588--88030416 Score: 1053
Period size: 176 Copynumber: 4.7 Consensus size: 177
88029578 GCAGATTGAA
* * * *
88029588 GAATCTTATCTCCATGTATTGGCAATGGAGCAAGATTTAAGCCACTAGCCTTATCTCTCTGACGT
1 GAATCTTATCTCCATGTATCGGCAATGGAGC-AGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
* * * * *
88029653 AGCAAAAGAGCAGATTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGAT
65 AGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGAT
* * * *
88029718 TGAAGATCTTATCTCCCTAAAGTTACAGCGGAGTAGATCGAAGATGGT
130 TAAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGC
88029766 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA-CCACCAGCCTTATCTCTCTGAGGTA
1 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
* * * *
88029830 GCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAAAAAGCAAACTAAAAATT
66 GCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGATT
* * * *
88029895 GAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGT
131 AAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGC
* *
88029942 GAATTTTATCTCCATGTATCGGCAATGGAGCAGATTTTA-CCATCAGCCTTATCTCTCTGAGGTA
1 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
* * *
88030006 GCAAGAGAGCAGGTTGAAGAATGAGTTTTATCTTTCTAAGGTAGTAAGAAAGCAGACTGAAGATT
66 GCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGATT
* *
88030071 AAAGATCTTATCTCCCTAAAGTTGCAGCGGAGTAGATCGAAAATGGC
131 AAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGC
* * *
88030118 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTATCTGAGATA
1 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
* * *
88030183 GCAAGAGAGCAGGTTGAAGAATTGAGTTTTATCTTCCTAAGGTAGCAAGGAAGCAGACTAAAGAT
66 GCAAGAGAGCAGGTTGAAGAA-TGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGAT
* * ** * * * *
88030248 TAAAGATTTTATCT-CCTTAAGCAGTAGCAGAACAGATTGAA-A-GGC
130 TAAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGC
* * * * * * * *
88030293 GGATCTTATCTCCATATATCGACAATGGAGCAGATTTTAGCCACTAGACTTATCTTTTTGAGGAA
1 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
* * * * *
88030358 GCAAGAAAGCAGATTG--GTAATTGTAGTCTCATCTTCCTGAA-GTAGCAAGGAAGCAGACT
66 GCAAGAGAGCAGGTTGAAG-AA-TG-AGTCTTATCTTTCT-AAGGTAGCAAGAAAGCAGACT
88030417 GATTGCTATC
Statistics
Matches: 584, Mismatches: 62, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
173 1 0.00
174 5 0.01
175 102 0.17
176 325 0.56
177 69 0.12
178 82 0.14
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (177 bp):
GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTA
GCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAAGATT
AAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGC
Found at i:88032894 original size:8 final size:8
Alignment explanation
Indices: 88032881--88032911 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
88032871 AATAGTTTCA
88032881 AATTCATC
1 AATTCATC
88032889 AATTCATC
1 AATTCATC
88032897 AATTCATC
1 AATTCATC
88032905 AATTCAT
1 AATTCAT
88032912 ATATTATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (8 bp):
AATTCATC
Found at i:88038435 original size:28 final size:27
Alignment explanation
Indices: 88038395--88038475 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 27
88038385 TAACGAGCTC
*
88038395 TCTATTTTGATAAGCACTTCGGTGTTGT
1 TCTATTCTGATAAGCACTT-GGTGTTGT
*
88038423 TCTATTCTGATAAGTACATTGGTGTTGT
1 TCTATTCTGATAAGCAC-TTGGTGTTGT
88038451 TCTATTCT-ATTAACGCACTTTGGTG
1 TCTATTCTGA-TAA-GCAC-TTGGTG
88038476 CCCTCTGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 34 0.74
29 11 0.24
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (27 bp):
TCTATTCTGATAAGCACTTGGTGTTGT
Found at i:88041296 original size:30 final size:29
Alignment explanation
Indices: 88041256--88041313 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
88041246 AACCCTATTT
*
88041256 TTTTAAAAAAAATTACCAGATTAGGCCAAC
1 TTTT-AAAAAAATCACCAGATTAGGCCAAC
* **
88041286 TTTTAGAAAAATCACGGGATTAGGCCAA
1 TTTTAAAAAAATCACCAGATTAGGCCAA
88041314 AAACACGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (29 bp):
TTTTAAAAAAATCACCAGATTAGGCCAAC
Found at i:88046271 original size:26 final size:26
Alignment explanation
Indices: 88046242--88046401 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
88046232 TGGTACAAAT
*
88046242 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* **
88046268 TGATAATGGATTAGGTAAACATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88046294 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88046320 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88046346 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88046372 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88046398 TGAT
1 TGAT
88046402 GGGCATTTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 122 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88046304 original size:52 final size:52
Alignment explanation
Indices: 88046242--88046401 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
88046232 TGGTACAAAT
* *
88046242 TGATAATGGGTTAGGTAAATGTTCTATGATAATGGATTAGGTAAACATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
88046294 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
88046346 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
88046398 TGAT
1 TGAT
88046402 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:88052933 original size:17 final size:18
Alignment explanation
Indices: 88052898--88052937 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
88052888 TATATAGAAC
*
88052898 TTTTTATTTTTTTAAATAA
1 TTTTGATTTTTTT-AATAA
88052917 TTTTGATTTTTTT-ATAA
1 TTTTGATTTTTTTAATAA
88052934 TTTT
1 TTTT
88052938 TTATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTGATTTTTTTAATAA
Found at i:88054459 original size:17 final size:17
Alignment explanation
Indices: 88054430--88054462 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
88054420 CTTGAACATA
88054430 AACCAAATATTTTAAGC
1 AACCAAATATTTTAAGC
88054447 AACCGAAAT-TTTTAAG
1 AACC-AAATATTTTAAG
88054463 ACCGAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.30
Consensus pattern (17 bp):
AACCAAATATTTTAAGC
Found at i:88062264 original size:50 final size:49
Alignment explanation
Indices: 88062205--88062303 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 49
88062195 CAGCCACTGC
**
88062205 TAATCAACTACTCATGGAGGGAGTTAGAGATAAAGATAACAAATAGTAAG
1 TAATCAACTACTCATGGAGACAGTTAGAGAT-AAGATAACAAATAGTAAG
*
88062255 TAATCAACTACTCATGGAGACTGTTAGAGATAAGATAACAAATAGTAAG
1 TAATCAACTACTCATGGAGACAGTTAGAGATAAGATAACAAATAGTAAG
88062304 GAAGAGGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 18 0.39
50 28 0.61
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (49 bp):
TAATCAACTACTCATGGAGACAGTTAGAGATAAGATAACAAATAGTAAG
Found at i:88062609 original size:23 final size:23
Alignment explanation
Indices: 88062583--88062639 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
88062573 AATTATTGAT
88062583 TATTTTTATTTAAATATTTTAAA
1 TATTTTTATTTAAATATTTTAAA
* * *
88062606 TATTTTGATCATCAATATTTTAAA
1 TATTTTTAT-TTAAATATTTTAAA
88062630 -ATTTTCTATT
1 TATTTT-TATT
88062640 ATAGTTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTTTTATTTAAATATTTTAAA
Found at i:88062900 original size:20 final size:20
Alignment explanation
Indices: 88062874--88062922 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
88062864 AAAGCTTTTT
*
88062874 TTATAAAAATACATA-AAAT
1 TTATAAAAATACATACAAAA
88062893 TCTATAAAAATACATACAAAA
1 T-TATAAAAATACATACAAAA
88062914 TTATAAAAA
1 TTATAAAAA
88062923 ATACTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
TTATAAAAATACATACAAAA
Found at i:88062923 original size:22 final size:20
Alignment explanation
Indices: 88062878--88062923 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
88062868 CTTTTTTTAT
* *
88062878 AAAAATACATAAAATTCTAT
1 AAAAATACATAAAATTATAA
88062898 AAAAATACATACAAAATTATAA
1 AAAAATACAT--AAAATTATAA
88062920 AAAA
1 AAAA
88062924 TACTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATACATAAAATTATAA
Found at i:88064683 original size:9 final size:9
Alignment explanation
Indices: 88064628--88064821 Score: 63
Period size: 10 Copynumber: 19.7 Consensus size: 9
88064618 AAAACACACC
88064628 ATTATAAAA
1 ATTATAAAA
88064637 ATTATTTAGAAA
1 ATTA--TA-AAA
*
88064649 ATTATAAAT
1 ATTATAAAA
88064658 A-TA-AAAA
1 ATTATAAAA
* *
88064665 ATCACAAAAA
1 ATTA-TAAAA
88064675 ATTATAAAA
1 ATTATAAAA
* *
88064684 ATTATTAGCGAT
1 ATTA-TA--AAA
88064696 ATTACTAAAA
1 ATTA-TAAAA
*
88064706 A--ACAAATA
1 ATTATAAA-A
88064714 ATTATAGAAA
1 ATTATA-AAA
88064724 ATTATAAAA
1 ATTATAAAA
* * *
88064733 ATTTCTGGAGA
1 A-TTAT-AAAA
*
88064744 ATCATAAATA
1 ATTATAAA-A
88064754 ATAATTATAAATA
1 AT--T-ATAAA-A
88064767 ATTATAAAA
1 ATTATAAAA
*
88064776 ATGATAAAAA
1 ATTAT-AAAA
*
88064786 ATTAAAAAA
1 ATTATAAAA
88064795 ATTATAGAAA
1 ATTATA-AAA
88064805 ATTATGAAAA
1 ATTAT-AAAA
88064815 ATATATA
1 AT-TATA
88064822 TTTTTTCATT
Statistics
Matches: 138, Mismatches: 24, Indels: 45
0.67 0.12 0.22
Matches are distributed among these distances:
7 7 0.05
8 6 0.04
9 34 0.25
10 56 0.41
11 12 0.09
12 14 0.10
13 9 0.07
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (9 bp):
ATTATAAAA
Found at i:88064735 original size:19 final size:19
Alignment explanation
Indices: 88064713--88064821 Score: 76
Period size: 19 Copynumber: 5.4 Consensus size: 19
88064703 AAAAACAAAT
88064713 AATTATAGAAAATTATAAA
1 AATTATAGAAAATTATAAA
* * * *
88064732 AATTTCTGGAGAATCATAAATAAT
1 AA-TTAT--AGAA-AAT-TATAAA
88064756 AATTATA-AATAATTATAAA
1 AATTATAGAA-AATTATAAA
* * *
88064775 AATGATAAAAAATTAAAAA
1 AATTATAGAAAATTATAAA
88064794 AATTATAGAAAATTATGAAA
1 AATTATAGAAAATTAT-AAA
88064814 AATATATA
1 AAT-TATA
88064822 TTTTTTCATT
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
19 33 0.48
20 16 0.23
21 5 0.07
22 4 0.06
23 5 0.07
24 6 0.09
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTATAGAAAATTATAAA
Found at i:88065253 original size:20 final size:17
Alignment explanation
Indices: 88065216--88065283 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 17
88065206 CAAAATTTAC
*
88065216 ATTTTAAAAATATATAAA
1 ATTTTAAAAAAAT-TAAA
88065234 TATTTTAAAAAAATTCTAAA
1 -ATTTTAAAAAAA-T-TAAA
*
88065254 ATATATATAAAAAAGTTAAA
1 AT-T-T-TAAAAAAATTAAA
88065274 ATTTTAAAAA
1 ATTTTAAAAA
88065284 TTTTGCAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
17 6 0.14
18 1 0.02
19 14 0.33
20 12 0.29
21 2 0.05
22 7 0.17
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (17 bp):
ATTTTAAAAAAATTAAA
Found at i:88073498 original size:19 final size:19
Alignment explanation
Indices: 88073455--88073500 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
88073445 AAATGAAAAT
* *
88073455 TAAATTAAAGTTAATTAAGC
1 TAAATT-AAGGTAATTAAAC
*
88073475 CAAATTAAGGTAATTAAAC
1 TAAATTAAGGTAATTAAAC
88073494 TAAATTA
1 TAAATTA
88073501 CTTAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (19 bp):
TAAATTAAGGTAATTAAAC
Found at i:88075521 original size:29 final size:30
Alignment explanation
Indices: 88075479--88075537 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
88075469 GTAGATTGTA
* *
88075479 AAAGGTTTTTAGTTGAGCCACAAAA-CTAG
1 AAAGGGTTCTAGTTGAGCCACAAAAGCTAG
* *
88075508 AAAGGGTTCTAGTTTAGCCATAAAAGCTAG
1 AAAGGGTTCTAGTTGAGCCACAAAAGCTAG
88075538 GGTGAAAGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAGGGTTCTAGTTGAGCCACAAAAGCTAG
Found at i:88080135 original size:10 final size:10
Alignment explanation
Indices: 88080120--88080174 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
88080110 TAATTTTTTA
88080120 AAAATATATT
1 AAAATATATT
*
88080130 AAAATAAATT
1 AAAATATATT
*
88080140 AAAAT-TACT
1 AAAATATATT
88080149 AAAA-ATA-T
1 AAAATATATT
*
88080157 AAAATGTATT
1 AAAATATATT
88080167 AAAA-ATAT
1 AAAATATAT
88080175 AAATAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.14
9 13 0.35
10 19 0.51
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATATATT
Found at i:88080161 original size:17 final size:18
Alignment explanation
Indices: 88080135--88080177 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
88080125 ATATTAAAAT
88080135 AAAT-TAAAAT-TACTAA
1 AAATATAAAATGTACTAA
*
88080151 AAATATAAAATGTATTAA
1 AAATATAAAATGTACTAA
88080169 AAATATAAA
1 AAATATAAA
88080178 TAATTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.17
17 6 0.25
18 14 0.58
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATATAAAATGTACTAA
Found at i:88080171 original size:18 final size:17
Alignment explanation
Indices: 88080120--88080197 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 17
88080110 TAATTTTTTA
*
88080120 AAAATATATTAAAATAAATT
1 AAAAT-TATTAAAA-ATA-T
*
88080140 AAAATTACTAAAAATAT
1 AAAATTATTAAAAATAT
88080157 AAAATGTATTAAAAATAT
1 AAAAT-TATTAAAAATAT
*
88080175 AAATAATTATTATAAAAAAT
1 -AA-AATTATTA-AAAATAT
88080195 AAA
1 AAA
88080198 TAAATATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.12
18 14 0.28
19 16 0.32
20 14 0.28
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (17 bp):
AAAATTATTAAAAATAT
Found at i:88080180 original size:22 final size:22
Alignment explanation
Indices: 88080155--88080235 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 22
88080145 TACTAAAAAT
*
88080155 ATAAAATGTATTA-AAAATATAA
1 ATAAAAT-TATTATAAAAAATAA
88080177 AT--AATTATTATAAAAAATAA
1 ATAAAATTATTATAAAAAATAA
* *
88080197 ATAAATATT-TTATATTAATATTAA
1 ATAAA-ATTATTATA--AAAAATAA
88080221 ATAAAAATTATTATA
1 AT-AAAATTATTATA
88080236 TTAATATGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 5 0.10
20 13 0.27
22 8 0.17
23 3 0.06
24 11 0.23
25 8 0.17
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (22 bp):
ATAAAATTATTATAAAAAATAA
Found at i:88080183 original size:37 final size:38
Alignment explanation
Indices: 88080120--88080197 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 38
88080110 TAATTTTTTA
* *
88080120 AAAATATATTAAAATAAATTAAAATTACTA-AAAATAT
1 AAAATATATTAAAATAAATAAAAATTACTATAAAAAAT
* * *
88080157 AAAATGTATTAAAA-ATATAAATAATTATTATAAAAAAT
1 AAAATATATTAAAATAAATAAA-AATTACTATAAAAAAT
88080195 AAA
1 AAA
88080198 TAAATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 5 0.15
37 20 0.59
38 9 0.26
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (38 bp):
AAAATATATTAAAATAAATAAAAATTACTATAAAAAAT
Done.