Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1849635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:589792 original size:27 final size:28
Alignment explanation
Indices: 589750--589802 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
589740 AAATTCTAAT
*
589750 ATATTATTTATAATTAATTTAAGATTTTG
1 ATATTATTTATAATTAAATTAA-ATTTTG
589779 ATATT-TTTA-AATTAAATTAAATTT
1 ATATTATTTATAATTAAATTAAATTT
589803 ATTTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 10 0.43
28 4 0.17
29 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
ATATTATTTATAATTAAATTAAATTTTG
Found at i:609710 original size:21 final size:21
Alignment explanation
Indices: 609684--609734 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
609674 TATGTATTAA
*
609684 AGCTAATAACTAATATTAAGG
1 AGCTAAGAACTAATATTAAGG
609705 AGCTAAGAACTAATATTAAGG
1 AGCTAAGAACTAATATTAAGG
609726 AGCTAAGAA
1 AGCTAAGAA
609735 TAGTGATTCA
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:0.49, C:0.10, G:0.18, T:0.24
Consensus pattern (21 bp):
AGCTAAGAACTAATATTAAGG
Found at i:614519 original size:9 final size:8
Alignment explanation
Indices: 614507--614600 Score: 59
Period size: 9 Copynumber: 11.1 Consensus size: 8
614497 TTTTTTACCC
614507 ATTTTATT
1 ATTTTATT
614515 -TATTTATT
1 AT-TTTATT
614523 -TATTTATT
1 AT-TTTATT
614531 ATTATTATT
1 ATT-TTATT
*
614540 ATTATAATT
1 ATT-TTATT
614549 ATTATTATT
1 ATT-TTATT
614558 ATTATTATT
1 ATT-TTATT
*
614567 ATATATATT
1 AT-TTTATT
*
614576 ATTATA-T
1 ATTTTATT
*
614583 ATATTATT
1 ATTTTATT
614591 ATTATTATT
1 ATT-TTATT
614600 A
1 A
614601 AAAAATAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
7 6 0.08
8 22 0.30
9 45 0.61
10 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
ATTTTATT
Found at i:614534 original size:3 final size:3
Alignment explanation
Indices: 614526--614600 Score: 109
Period size: 3 Copynumber: 25.0 Consensus size: 3
614516 ATTTATTTAT
*
614526 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
614574 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
614601 AAAAATAATT
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
2 4 0.06
3 56 0.85
4 6 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:618386 original size:14 final size:14
Alignment explanation
Indices: 618366--618403 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
618356 ATTTTAAATA
*
618366 ATTTACATTTATAT
1 ATTTACATTTACAT
*
618380 TTTTACATTTACAT
1 ATTTACATTTACAT
618394 ATTTACATTT
1 ATTTACATTT
618404 GGCATCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTACATTTACAT
Found at i:621998 original size:11 final size:10
Alignment explanation
Indices: 621977--622029 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
621967 TCATCCAACA
*
621977 AAGAAAGAAG
1 AAGAAAAAAG
621987 AAGGAAAAAAG
1 AA-GAAAAAAG
621998 AA-AAAAAAG
1 AAGAAAAAAG
*
622007 AAAAAAAAAGG
1 AAGAAAAAA-G
622018 AA-AAAAAAG
1 AAGAAAAAAG
622027 AAG
1 AAG
622030 GGGAGAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
9 12 0.32
10 14 0.37
11 12 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:622011 original size:10 final size:10
Alignment explanation
Indices: 621991--622028 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
621981 AAGAAGAAGG
621991 AAAAAAG-AA
1 AAAAAAGAAA
622000 AAAAAAGAAA
1 AAAAAAGAAA
*
622010 AAAAAAGGAA
1 AAAAAAGAAA
622020 AAAAAAGAA
1 AAAAAAGAA
622029 GGGGAGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:622014 original size:20 final size:20
Alignment explanation
Indices: 621991--622028 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
621981 AAGAAGAAGG
621991 AAAAAAGAAAAAAAAGAAAA
1 AAAAAAGAAAAAAAAGAAAA
*
622011 AAAAAGGAAAAAAAAGAA
1 AAAAAAGAAAAAAAAGAA
622029 GGGGAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAGAAAA
Found at i:626731 original size:22 final size:22
Alignment explanation
Indices: 626702--626756 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
626692 ATCTACACTC
626702 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
626724 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
626746 TTCAAAGATGA
1 TTCAAAGATGA
626757 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:627354 original size:113 final size:113
Alignment explanation
Indices: 627156--627834 Score: 966
Period size: 113 Copynumber: 6.0 Consensus size: 113
627146 TAGCAAAGAT
627156 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
627221 AGAAGGAAAAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
627269 TCAAATCCATCATTTGATGGATCAGTTTTTCCAGAAAAAGCTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
627334 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
627382 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
627447 AGAAGGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * * *
627495 TTGAATTCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAAGTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
627560 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * * * ** *
627608 TTGAATTCATCATTTGATGGATCAACATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCT
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCA--GAAAAAGTTCATAATGAGAAGAACTCATCT
* * *
627673 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCCC
64 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
* * * * *
627723 TCAAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAA-AACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * ** * *
627787 AGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCGTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
627835 ATGACTCTAT
Statistics
Matches: 519, Mismatches: 43, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
112 49 0.09
113 371 0.71
114 5 0.01
115 94 0.18
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:627897 original size:123 final size:119
Alignment explanation
Indices: 627750--627977 Score: 311
Period size: 120 Copynumber: 1.9 Consensus size: 119
627740 TGGATCAACT
* *
627750 TTTCCAGAGAGAGTTCATAATGAGAA-AACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAGAGTTCACAATGAGAAGAACTCATCT---G-AAGAAGAAGAAGTTCACAATGAGA
*
627814 AGAGCTTGTTCGACCGTTTGC-ATGACT-CTATCACAGAAGGAGATATATCATCATCAGCA
62 AGAGCTTGTTCAACC-TTTGCTA-GACTAC-ATCACAGAAGGAGATATATCATCATCAGCA
627873 TTTCCAGA-AGAAGTTCACAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGA
1 TTTCCAGAGAG-AGTTCACAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGA
* *
627937 GCTTGTTCAAGCTTTGCTAGATTACATCACAGAAGGAGATA
65 GCTTGTTCAACCTTTGCTAGACTACATCACAGAAGGAGATA
627978 AATTGTCATC
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
119 24 0.25
120 38 0.40
121 1 0.01
122 2 0.02
123 22 0.23
124 9 0.09
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (119 bp):
TTTCCAGAGAGAGTTCACAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAG
CTTGTTCAACCTTTGCTAGACTACATCACAGAAGGAGATATATCATCATCAGCA
Found at i:627900 original size:17 final size:17
Alignment explanation
Indices: 627878--627936 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
627868 CAGCATTTCC
627878 AGAAGAAGTTCACAATG
1 AGAAGAAGTTCACAATG
*
627895 AGAAGAA-CTCATCTGAA-G
1 AGAAGAAGTTCA-C--AATG
627913 AAGAAGAAGTTCACAATG
1 -AGAAGAAGTTCACAATG
627931 AGAAGA
1 AGAAGA
627937 GCTTGTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 3 0.09
17 16 0.47
18 2 0.06
19 10 0.29
20 3 0.09
ACGTcount: A:0.49, C:0.12, G:0.24, T:0.15
Consensus pattern (17 bp):
AGAAGAAGTTCACAATG
Found at i:627915 original size:341 final size:330
Alignment explanation
Indices: 627163--627838 Score: 807
Period size: 341 Copynumber: 2.0 Consensus size: 330
627153 GATTCAAATC
** * * *
627163 CATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATACATCAGCATTTCCAGAGAAAGTTCACAATGAGAAGAACTCATCT--AGAA-G-
627228 AAAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCA
62 --AAG---TTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCA
*** **
627293 GTTTTTCCAGAAAAAGCTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
122 ACATCCCCAGAAAAAGCTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
* * * * *
627358 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGT
187 AGAAGAACTTGTTCAACCTTTTCCTCAAATCCATCACTCGATGGATCAACTTTTCCAGAAAAAGT
*
627423 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAAC
252 TCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAAC
* **
627488 CTTTTGTTTGAATT
317 CGTTTGCATGAATT
* * * *
627502 CATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAAGTCATCTGAAGAAGGA
1 CATCACTTGATACATCAGCATTTCCAGAGAAAGTTCACAATGAGAAGAACTCATCT---------
* * ** *
627567 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCA
57 AGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCA
* * *
627632 ACATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
122 ACATCCCCA--GAAAAAGCTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
* * *
627697 TGAGAAGAACTTGTTCAA-CTTTTCCCTCAAATTCATCACTCGATGGATCAACTTTTCCAGAGAG
185 TGAGAAGAACTTGTTCAACCTTTT-CCTCAAATCCATCACTCGATGGATCAACTTTTCCAGAAAA
* **
627761 AGTTCATAATGAGAA-AACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
249 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAAATTGTTC
*
627825 GACCGTTTGCATGA
314 AACCGTTTGCATGA
627839 CTCTATCACA
Statistics
Matches: 295, Mismatches: 32, Indels: 19
0.85 0.09 0.05
Matches are distributed among these distances:
339 109 0.37
340 60 0.20
341 116 0.39
342 3 0.01
345 1 0.00
346 6 0.02
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (330 bp):
CATCACTTGATACATCAGCATTTCCAGAGAAAGTTCACAATGAGAAGAACTCATCTAGAAGAAGT
TCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACATCCCCA
GAAAAAGCTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACT
TGTTCAACCTTTTCCTCAAATCCATCACTCGATGGATCAACTTTTCCAGAAAAAGTTCATAATGA
GAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAACCGTTTGCAT
GAATT
Found at i:628193 original size:3 final size:3
Alignment explanation
Indices: 628185--628232 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
628175 ATTTATTTAT
* * * *
628185 TTA TTA TTA TTA TTA TAA TAA TAA TTA TAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
628233 AAAAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:632445 original size:20 final size:20
Alignment explanation
Indices: 632397--632448 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
632387 TGACCTTACA
* *
632397 ATATCGATACCATCTCTTAAG
1 ATATCGATACC-CCACTTAAG
*
632418 -TATTGATACCCCACTTAAG
1 ATATCGATACCCCACTTAAG
632437 ATATCGATACCC
1 ATATCGATACCC
632449 TAGTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.31
Consensus pattern (20 bp):
ATATCGATACCCCACTTAAG
Found at i:636501 original size:158 final size:156
Alignment explanation
Indices: 636215--636531 Score: 492
Period size: 158 Copynumber: 2.0 Consensus size: 156
636205 TGGTTAAATG
*
636215 AACCCTTTCTCTAAAAACTCTTAAATTTTAACTTTAACTCTTTTAGTTCCATCAGAGCCATGTGG
1 AACCCTTTCTCTAAAAACTCTTAAATTTTAACTTTAACTCTTTTAGTTCCATCAGAGACATGTGG
* * * * *
636280 TAGGGGCAATGGACACCGAAGCGAACCTTGGTAGTACGTTAATACCGAACTTCAACTCTCAGTCT
66 TAGGGGCAATCGACACCGAACCGAACCCTAGTAGTACGTTAATACCGAACTCCAACTCTCAGTCT
* *
636345 AGAGGTAAGCCCAATAACTCCTCTGA
131 AGAGGTAAGCCCAACAACTCCTCTAA
* *
636371 AACCCTTTCTCTAAAAACTCTTAAAATTTTAACTTTAACTCTTTTAGTTCTATCGGAGACATGTG
1 AACCCTTTCTCTAAAAACTCTT-AAATTTTAACTTTAACTCTTTTAGTTCCATCAGAGACATGTG
*
636436 GTAGGGGGCAATCGACACTGAACCGAACCCTAGTAGTAC-TTCAATACCGAACTCCAACTCTCAG
65 GTA-GGGGCAATCGACACCGAACCGAACCCTAGTAGTACGTT-AATACCGAACTCCAACTCTCAG
*
636500 TCTGGAGGTAAGCCCAACAACTCCTCTAA
128 TCTAGAGGTAAGCCCAACAACTCCTCTAA
636529 AAC
1 AAC
636532 ACTTCTGGAA
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
156 22 0.15
157 44 0.30
158 80 0.55
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (156 bp):
AACCCTTTCTCTAAAAACTCTTAAATTTTAACTTTAACTCTTTTAGTTCCATCAGAGACATGTGG
TAGGGGCAATCGACACCGAACCGAACCCTAGTAGTACGTTAATACCGAACTCCAACTCTCAGTCT
AGAGGTAAGCCCAACAACTCCTCTAA
Found at i:638511 original size:20 final size:20
Alignment explanation
Indices: 638444--638513 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 20
638434 ATGTCTAGAG
*
638444 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATA-GATTTAA
638465 -TAATTCTAAATATTTA-ATTTCAA
1 TTAA-T-TAAATA--TAGATTT-AA
638488 TTAATTAAATATAGATTTAA
1 TTAATTAAATATAGATTTAA
638508 TTAATT
1 TTAATT
638514 TGAAATAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
20 13 0.32
21 5 0.12
22 15 0.37
23 3 0.07
24 5 0.12
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
TTAATTAAATATAGATTTAA
Found at i:645331 original size:89 final size:88
Alignment explanation
Indices: 645171--645345 Score: 280
Period size: 89 Copynumber: 2.0 Consensus size: 88
645161 TAATCCCAAA
* * *
645171 TATTTAATTTCAATTAATTAAATATATATTTATTAATTTGAATAATAAAATCCATAATATGATTA
1 TATTAAATTCCAATTAATTAAATATAGATTTATTAATTTGAATAATAAAATCCATAATATGATTA
645236 GGGTAACTTGGATATAAAAGGAT
66 GGGTAACTTGGATATAAAAGGAT
*
645259 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTT-ATTAATTTG-AATAATAAAATCCATAATATGAT
*
645323 TAGGGTAACTTGGCTATAAAAGG
64 TAGGGTAACTTGGATATAAAAGG
645346 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
88 28 0.35
89 42 0.52
90 10 0.12
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (88 bp):
TATTAAATTCCAATTAATTAAATATAGATTTATTAATTTGAATAATAAAATCCATAATATGATTA
GGGTAACTTGGATATAAAAGGAT
Found at i:646544 original size:17 final size:17
Alignment explanation
Indices: 646524--646557 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
646514 TTAATAAAGT
646524 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
*
646541 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
646558 CAAATCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:651286 original size:21 final size:22
Alignment explanation
Indices: 651246--651296 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
651236 GACGAAATTA
* **
651246 AGTCCAAATTCATCTTC-AAAT
1 AGTCTAAATTCATCCCCAAAAT
651267 AGTCTAAATTCATCCCCAAAAT
1 AGTCTAAATTCATCCCCAAAAT
*
651289 AATCTAAA
1 AGTCTAAA
651297 ATTTTCTGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.29
Consensus pattern (22 bp):
AGTCTAAATTCATCCCCAAAAT
Found at i:652636 original size:16 final size:16
Alignment explanation
Indices: 652615--652650 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
652605 AATACTGAGC
652615 CCTCATTATCGATACT
1 CCTCATTATCGATACT
652631 CCTCATTATCGATACT
1 CCTCATTATCGATACT
652647 CCTC
1 CCTC
652651 CAATGGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
CCTCATTATCGATACT
Found at i:656629 original size:116 final size:122
Alignment explanation
Indices: 656384--656629 Score: 344
Period size: 116 Copynumber: 2.0 Consensus size: 122
656374 GACTAAATGT
* *
656384 AAAATGAGTTTAATATTTTTATTTGTAAGTTAAATTATTTTATAATTATTTTTAAGTAATAATAT
1 AAAATGAGTTTAATATTTTTATTTGTAAATT-AATTATTTTATAATTATTTTTAAATAATAATAT
*
656449 ATAAATTATATTAAAATAAAATTATATTAAATTTATTTAGGGAATTCAAATCACAAAATA
65 ATAAATTATATT--AATAAAATTATATTAAATTTATTTAGAGAATTCAAATCACAAAATA
* * *
656509 AAAATGTGTTTAATATTTTTA-TT-TAAATT-ATT-TTTTATAATTATTTTTAAATAGTAATATG
1 AAAATGAGTTTAATATTTTTATTTGTAAATTAATTATTTTATAATTATTTTTAAATAATAATATA
*
656570 TATATTATATT-A-AAAATTATATTGAAA-TTATTTAGAGAATTCAAATCACAAAATA
66 TAAATTATATTAATAAAATTATATT-AAATTTATTTAGAGAATTCAAATCACAAAATA
656625 AAAAT
1 AAAAT
656630 AATTTAAATT
Statistics
Matches: 113, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
116 43 0.38
117 4 0.04
120 36 0.32
121 3 0.03
123 5 0.04
124 2 0.02
125 20 0.18
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (122 bp):
AAAATGAGTTTAATATTTTTATTTGTAAATTAATTATTTTATAATTATTTTTAAATAATAATATA
TAAATTATATTAATAAAATTATATTAAATTTATTTAGAGAATTCAAATCACAAAATA
Found at i:656633 original size:23 final size:21
Alignment explanation
Indices: 656607--656654 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
656597 TTATTTAGAG
656607 AATTCAAATCACAAAATAAAAA
1 AATTCAAATCA-AAAATAAAAA
* *
656629 TAATTTAAATTAAAAATAAAAA
1 -AATTCAAATCAAAAATAAAAA
656651 AATT
1 AATT
656655 AAACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 9 0.39
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTCAAATCAAAAATAAAAA
Found at i:658917 original size:15 final size:15
Alignment explanation
Indices: 658897--658926 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
658887 TAATATATAC
*
658897 ACGTACATATATGTT
1 ACGTACACATATGTT
658912 ACGTACACATATGTT
1 ACGTACACATATGTT
658927 GCTAAGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (15 bp):
ACGTACACATATGTT
Found at i:659968 original size:31 final size:31
Alignment explanation
Indices: 659933--660037 Score: 75
Period size: 31 Copynumber: 3.2 Consensus size: 31
659923 TAATCGAGTA
659933 ACCAAAACATAAATTAGATAATATATAAGTG
1 ACCAAAACATAAATTAGATAATATATAAGTG
** ** ** *
659964 ACCAAATAGGTAGTTTACCCTAAATAATAATCGAGTG
1 ACCAAA-ACATAAATTA-GAT-AAT-AT-AT-AAGTG
* *
660001 ACCAAATCATAAATTAGATAATATATAAGTT
1 ACCAAAACATAAATTAGATAATATATAAGTG
660032 ACCAAA
1 ACCAAA
660038 TAGGTAGTTT
Statistics
Matches: 52, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
31 15 0.29
32 8 0.15
33 3 0.06
34 6 0.12
35 3 0.06
36 7 0.13
37 10 0.19
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (31 bp):
ACCAAAACATAAATTAGATAATATATAAGTG
Found at i:659996 original size:68 final size:69
Alignment explanation
Indices: 659916--660059 Score: 247
Period size: 68 Copynumber: 2.1 Consensus size: 69
659906 TTTTGGAAAA
659916 AAATAAATAATCGAGTAACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTA
1 AAATAAATAATCGAGTAACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTA
659981 CCCT
66 CCCT
* * *
659985 AAAT-AATAATCGAGTGACCAAATCATAAATTAGATAATATATAAGTTACCAAATAGGTAGTTTA
1 AAATAAATAATCGAGTAACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTA
660049 CCCT
66 CCCT
660053 AAA-AAAT
1 AAATAAAT
660060 CCCTAACCAG
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
68 67 0.94
69 4 0.06
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.27
Consensus pattern (69 bp):
AAATAAATAATCGAGTAACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTA
CCCT
Found at i:660906 original size:7 final size:7
Alignment explanation
Indices: 660894--660920 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
660884 ATATGCTTCT
660894 CCCAACA
1 CCCAACA
660901 CCCAACA
1 CCCAACA
660908 CCCAACA
1 CCCAACA
660915 CCCAAC
1 CCCAAC
660921 TAATACCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCAACA
Found at i:664016 original size:29 final size:29
Alignment explanation
Indices: 663973--664055 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
663963 ACTCACTAAC
*
663973 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
664003 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
664032 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
664056 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:668505 original size:150 final size:150
Alignment explanation
Indices: 668290--668659 Score: 596
Period size: 150 Copynumber: 2.5 Consensus size: 150
668280 CAAAGTTTCT
* * * * * *
668290 TCAAGCTCATGATGCATGTTGCTCTCCTAGAGCAGTTGTACCTGTATCTATGAGGATCCCTGCAA
1 TCAAGCTCATGATGCATGTTGCTCACCTAGAGCTGCTGTACCTGCATCTGTGAGGATTCCTGCAA
* *
668355 AAGCTCTCTCATGTTCAAACATGCTTCATTTGCACAACTCAAAAGCTTGCAATCATATCGGCAAC
66 AAGCTCTCTCATGTTCAAACATGCTTCATTTGCACAACTCAAAAGCTTGCAATCATAGCGACAAC
* * *
668420 GGCATTCGAAGTTTTTAACC
131 GGCACTCAAAGTTTGTAACC
* *
668440 TCAAGCTCATGATGCATGTTGCCCACCTAGAGTTGCTGTACCTGCATCTGTGAGGATTCCTGCAA
1 TCAAGCTCATGATGCATGTTGCTCACCTAGAGCTGCTGTACCTGCATCTGTGAGGATTCCTGCAA
* *
668505 AAGCTCTCTCATGTTCAAACATGCTTCATTTGCGCAAGTCAAAAGCTTGCAATCATAGCGACAAC
66 AAGCTCTCTCATGTTCAAACATGCTTCATTTGCACAACTCAAAAGCTTGCAATCATAGCGACAAC
668570 GGCACTCAAAGTTTGTAACC
131 GGCACTCAAAGTTTGTAACC
*
668590 TCAAGCTCATGATGCATGTTGCTCACCTAGAGCTGCTGTACCTGCATCTGTGAGGATTCCTACAA
1 TCAAGCTCATGATGCATGTTGCTCACCTAGAGCTGCTGTACCTGCATCTGTGAGGATTCCTGCAA
668655 AAGCT
66 AAGCT
668660 TTCCAAACAA
Statistics
Matches: 202, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
150 202 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (150 bp):
TCAAGCTCATGATGCATGTTGCTCACCTAGAGCTGCTGTACCTGCATCTGTGAGGATTCCTGCAA
AAGCTCTCTCATGTTCAAACATGCTTCATTTGCACAACTCAAAAGCTTGCAATCATAGCGACAAC
GGCACTCAAAGTTTGTAACC
Found at i:670874 original size:17 final size:17
Alignment explanation
Indices: 670838--670880 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
670828 CTTTAACCTT
670838 ACAACACTTACCACGACA
1 ACAACA-TTACCACGACA
* *
670856 ACAACATTTCCATGACA
1 ACAACATTACCACGACA
*
670873 ACACCATT
1 ACAACATT
670881 CATACTTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.42, C:0.35, G:0.05, T:0.19
Consensus pattern (17 bp):
ACAACATTACCACGACA
Found at i:690762 original size:18 final size:18
Alignment explanation
Indices: 690739--690780 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
690729 ATTCACGTGT
690739 ACTCTTAACCCACCCAAC
1 ACTCTTAACCCACCCAAC
690757 ACTCTTAACCCACCCAAC
1 ACTCTTAACCCACCCAAC
690775 ACTCTT
1 ACTCTT
690781 CTTTTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (18 bp):
ACTCTTAACCCACCCAAC
Found at i:691842 original size:18 final size:20
Alignment explanation
Indices: 691798--691843 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
691788 ACCTGCCAGC
*
691798 ATTGATACTGGCCTTAAGGT
1 ATTGATACTGACCTTAAGGT
*
691818 ATCGATACTGACCTT-A-GT
1 ATTGATACTGACCTTAAGGT
691836 ATTGATAC
1 ATTGATAC
691844 CAAATTTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 1 0.04
20 13 0.57
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (20 bp):
ATTGATACTGACCTTAAGGT
Found at i:697770 original size:9 final size:10
Alignment explanation
Indices: 697756--697789 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
697746 TTAATATGAG
697756 TATATGTGA-
1 TATATGTGAT
697765 TATATGTGAT
1 TATATGTGAT
697775 TATATGT-AT
1 TATATGTGAT
697784 TATATG
1 TATATG
697790 ATTTGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (10 bp):
TATATGTGAT
Found at i:703600 original size:26 final size:25
Alignment explanation
Indices: 703544--703600 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
703534 ATAAAAAGTG
*
703544 TGTATATATTATTATATGATATCATG
1 TGTA-ATATTATTATATGATATCATA
703570 T-TAATATTATTTATTATGA-ATCATA
1 TGTAATATTA-TTA-TATGATATCATA
703595 TGTAAT
1 TGTAAT
703601 GTGATGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 11 0.41
26 10 0.37
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.51
Consensus pattern (25 bp):
TGTAATATTATTATATGATATCATA
Found at i:710364 original size:22 final size:22
Alignment explanation
Indices: 710336--710377 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
710326 AGTCGAGGGT
* *
710336 TTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCATTCGAGACATA
710358 TTCATAGGTCATTCGAGACA
1 TTCATAGGTCATTCGAGACA
710378 AATTTCACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (22 bp):
TTCATAGGTCATTCGAGACATA
Found at i:719109 original size:94 final size:95
Alignment explanation
Indices: 718991--719169 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 95
718981 GGTGGTATCG
* * * *
718991 ATACCATGATAAGCGGTATCGATACTCA-GTAACATTGAATCTAATTTTGGCATCGATA-CTAGT
1 ATACCATGATAA-CGGTATCGATACT-AGGCAACATCGAACCTAATTTTGGAATCGATACCT-GT
719054 ATGGGGTATCAGTACCATAGTAGGGTAGTATTA
63 ATGGGGTATCAGTACCATAGTAGGGTAGTATTA
* *
719087 ATACCATGGTAA-GGTATCGATACTAGGCAACATCGAACCTATTTTTGGAATCGATACCTGTATG
1 ATACCATGATAACGGTATCGATACTAGGCAACATCGAACCTAATTTTGGAATCGATACCTGTATG
*
719151 GGGTATCGGTACCATAGTA
66 GGGTATCAGTACCATAGTA
719170 TAGAAGTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
93 1 0.01
94 60 0.81
95 2 0.03
96 11 0.15
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (95 bp):
ATACCATGATAACGGTATCGATACTAGGCAACATCGAACCTAATTTTGGAATCGATACCTGTATG
GGGTATCAGTACCATAGTAGGGTAGTATTA
Found at i:719688 original size:58 final size:59
Alignment explanation
Indices: 719550--719690 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 59
719540 TGTTATTAAC
* *
719550 TTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATAAGAGA
1 TTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACAGGATAAGAAA
* * ** * * *
719609 TTCATACTAAATGTTTGAATTTCTGTGTTGGGCACCTT-GTGTGTTAA-AGGATAAGAAA
1 TTCATACTAAGTGTATGAATTTCCATATAGGGCA-CTTCGTGTGCTAACAGGATAAGAAA
*
719667 TTCATACTAAGTGTATAAATTTCC
1 TTCATACTAAGTGTATGAATTTCC
719691 TTATGGGAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 29 0.43
59 36 0.53
60 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (59 bp):
TTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACAGGATAAGAAA
Found at i:720234 original size:68 final size:68
Alignment explanation
Indices: 720064--720523 Score: 559
Period size: 68 Copynumber: 6.8 Consensus size: 68
720054 AAAAGATCAA
* * * * * *
720064 GAGGCCTAATTGTGCATATGACAAAAAGGTTTCATTTATACAAGTTAGATGAAAGACTAAGTGTT
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAATG-T
*
720129 TTTT
65 CTTT
* * * ** *
720133 TAGGCCTAAATCTATATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTC
720198 TTT
66 TTT
* *
720201 AAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGAATAAATGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTC
720266 TTT
66 TTT
** * * * *
720269 GAGGCCTAACAATGCATATGACATAAAGGT-TTATTTATACCAGTTAGATGAAAG-CTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTC
720332 TTT
66 TTT
* * * *
720335 GAGGGCTAATTGTGCATATGCCAGAAAGATGTCATTTATGCCAGTTAGATGAAAGAC-AAAGTGT
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAA-TGT
720399 CTTT
65 CTTT
* *
720403 GAGGCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTC
720468 TTT
66 TTT
* ** * * * *
720471 AAGGCCTAACTGCACA-ATTGGCAGAAAGGTGTCAATAATGTCAGTTAGATGAA
1 GAGGCCTAACTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
720524 TGGTTAAGTA
Statistics
Matches: 335, Mismatches: 51, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
66 33 0.10
67 47 0.14
68 201 0.60
69 54 0.16
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTC
TTT
Found at i:720413 original size:202 final size:205
Alignment explanation
Indices: 720076--720480 Score: 622
Period size: 202 Copynumber: 2.0 Consensus size: 205
720066 GGCCTAATTG
* *
720076 TGCATATGACAAAAAGGTTTCATTTATACAAGTTAGATGAAAGACTAAGTGTTTTTTTAGGCCTA
1 TGCATATGACAAAAAGGTTTCATTTATACAAGTTAGATGAAAGACTAAGTGTTCTTTGAGGCCTA
*
720141 AATCTATATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTCTTTAAGGC
66 AATCTACATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTCTTTAAGGC
*
720206 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGAATAAATGTCTTTGA
131 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGAATAAATGTCTTTAA
720271 GGCCTAACAA
196 GGCCTAACAA
* * *
720281 TGCATATGACATAAAGGTTT-ATTTATACCAGTTAGATGAAAG-CTAAGTG-TCTTTGAGGGCTA
1 TGCATATGACAAAAAGGTTTCATTTATACAAGTTAGATGAAAGACTAAGTGTTCTTTGAGGCCTA
* * * * *
720343 ATTGTGCATATGCCAGAAA-GATGTCATTTATGCCAGTTAGATGAAAGAC-AAAGTGTCTTTGAG
66 AATCTACATATGACAGAAATG-TGTCATTTATGCCAGTTAGATGAAAGACTAAA-TGTCTTTAAG
* * *
720406 GCCTAACTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
129 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGAATAAATGTCTTT
720471 AAGGCCTAAC
194 AAGGCCTAAC
720481 TGCACAATTG
Statistics
Matches: 183, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
201 4 0.02
202 132 0.72
203 7 0.04
204 21 0.11
205 19 0.10
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (205 bp):
TGCATATGACAAAAAGGTTTCATTTATACAAGTTAGATGAAAGACTAAGTGTTCTTTGAGGCCTA
AATCTACATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTCTTTAAGGC
CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGAATAAATGTCTTTAA
GGCCTAACAA
Found at i:720467 original size:32 final size:30
Alignment explanation
Indices: 720364--720471 Score: 83
Period size: 31 Copynumber: 3.3 Consensus size: 30
720354 GCCAGAAAGA
720364 TGTCATTTATGCCAGTTAGATGAAAGACAAAG
1 TGTC-TTTATGCCAGTTAGATGAAAGAC-AAG
* * *
720396 TGTCTTTGAGGCCTAACTGTGTATATGACAGA-AAGG
1 TGTCTTT-ATGCC--A--GT-TAGATGAAAGACAA-G
720432 TGTCATTTATGCCAGTTAGATGAAAGACTAAG
1 TGTC-TTTATGCCAGTTAGATGAAAGAC-AAG
720464 TGTCTTTA
1 TGTCTTTA
720472 AGGCCTAACT
Statistics
Matches: 60, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
31 16 0.27
32 15 0.25
33 2 0.03
34 2 0.03
35 2 0.03
36 11 0.18
37 12 0.20
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (30 bp):
TGTCTTTATGCCAGTTAGATGAAAGACAAG
Found at i:720587 original size:81 final size:81
Alignment explanation
Indices: 720493--720772 Score: 335
Period size: 81 Copynumber: 3.5 Consensus size: 81
720483 CACAATTGGC
* *
720493 AGAAAGGTGTCAATAATGTCAGTTAGATGAATGGTTAAGTATTGTTGAGTAAAAGAATAATAGCA
1 AGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAGTATTGTTGAGTAAAAGAATAATAGCA
*
720558 TAATTGTGCAATTGAA
66 TAACTGTGCAATTGAA
* * * *
720574 AGAAAGGCGTCAATTGTGTCAGTTAGATGAAAAGTTAAGTATTGTTGAGTAAAAGAATAATAGCC
1 AGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAGTATTGTTGAGTAAAAGAATAATAGCA
**
720639 TAACTGTGCAATTGGC
66 TAACTGTGCAATTGAA
* * ** * *
720655 AGAAAGGTGTCAATTATCTCAGTTAGATGAACGGTTAAGTACCGTTGAGAAAAAGAATAATAGTA
1 AGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAGTATTGTTGAGTAAAAGAATAATAGCA
* ** **
720720 TAACTATAAAATTGGT
66 TAACTGTGCAATTGAA
* * * * *
720736 AGAAGGGTATCAATTATGCCAGTTAAATGAACGGTTA
1 AGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTA
720773 GATACCCTTG
Statistics
Matches: 171, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 171 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGTTAAGTATTGTTGAGTAAAAGAATAATAGCA
TAACTGTGCAATTGAA
Found at i:720786 original size:162 final size:162
Alignment explanation
Indices: 720474--720791 Score: 386
Period size: 162 Copynumber: 2.0 Consensus size: 162
720464 TGTCTTTAAG
* * **
720474 GCCTAACTGCACAATTGGCAGAAAGGTGTCAATAATGTCAGTTAGATGAATGGTTAAGTATTGTT
1 GCCTAACTGCACAATTGGCAGAAAGGTGTCAATAATCTCAGTTAGATGAACGGTTAAGTACCGTT
* * * ** * * * *
720539 GAGTAAAAGAATAATAGCATAATTGTGCAATTGAAAGAAAGGCGTCAATTGTGTCAGTTAGATGA
66 GAGAAAAAGAATAATAGCATAACTATAAAATTGAAAGAAAGGCATCAATTATGCCAGTTAAATGA
***
720604 AAAGTTAAGTATTGTTGAGTAAAAGAATAATA
131 AAAGTTAAGTACCCTTGAGTAAAAGAATAATA
** *
720636 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATCTCAGTTAGATGAACGGTTAAGTACCGTT
1 GCCTAACTGCACAATTGGCAGAAAGGTGTCAATAATCTCAGTTAGATGAACGGTTAAGTACCGTT
* ** * *
720701 GAGAAAAAGAATAATAGTATAACTATAAAATTGGTAGAAGGGTATCAATTATGCCAGTTAAATGA
66 GAGAAAAAGAATAATAGCATAACTATAAAATTGAAAGAAAGGCATCAATTATGCCAGTTAAATGA
**
720766 ACGGTT-AGATACCCTTGAGTAAAAGA
131 AAAGTTAAG-TACCCTTGAGTAAAAGA
720792 TGAAAAGTTA
Statistics
Matches: 129, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
161 2 0.02
162 127 0.98
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (162 bp):
GCCTAACTGCACAATTGGCAGAAAGGTGTCAATAATCTCAGTTAGATGAACGGTTAAGTACCGTT
GAGAAAAAGAATAATAGCATAACTATAAAATTGAAAGAAAGGCATCAATTATGCCAGTTAAATGA
AAAGTTAAGTACCCTTGAGTAAAAGAATAATA
Found at i:724870 original size:20 final size:20
Alignment explanation
Indices: 724845--724894 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
724835 TAGCAGGGTA
724845 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
*
724865 GTATCGATAACATGGTAAGG
1 GTATCGATACCATGGTAAGG
724885 GTATCGATAC
1 GTATCGATAC
724895 TAGGAAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (20 bp):
GTATCGATACCATGGTAAGG
Found at i:724944 original size:115 final size:117
Alignment explanation
Indices: 724726--724946 Score: 281
Period size: 115 Copynumber: 1.9 Consensus size: 117
724716 TTGATTTAAT
* *
724726 TAGTATCGATACCTATGAGGAAGTATCGATACCATGATAAGGGGTATCGATACCCAGTAAAATCG
1 TAGTATCGATACCTATGAGGAAGTATCGATAACATGATAAGGGGTATCGATACCCAGGAAAATCG
*
724791 AATCCAATTTTTGGTATCGATACCAGTATGAGCTATCGGTATAATAGCAGGG
66 AAACCAATTTTTGGTATCGATACCAGTATGAGCTATCGGTATAATAGCAGGG
* * *
724843 TAGTATCGATACC-ATG-GTAAGGGTATCGATAACATGGTAA-GGGTATCGATA-CTAGGAAACA
1 TAGTATCGATACCTATGAGGAA--GTATCGATAACATGATAAGGGGTATCGATACCCAGGAAA-A
* ** * *
724904 TC-AAACCTATTTTTGGTATCGATACTGGTATGGGGTATCGGTA
63 TCGAAACCAATTTTTGGTATCGATACCAGTATGAGCTATCGGTA
724947 CCATAGTATA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
115 44 0.49
116 17 0.19
117 29 0.32
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (117 bp):
TAGTATCGATACCTATGAGGAAGTATCGATAACATGATAAGGGGTATCGATACCCAGGAAAATCG
AAACCAATTTTTGGTATCGATACCAGTATGAGCTATCGGTATAATAGCAGGG
Found at i:725469 original size:58 final size:59
Alignment explanation
Indices: 725310--725477 Score: 207
Period size: 59 Copynumber: 2.9 Consensus size: 59
725300 ATTACCAAAT
* * *
725310 GGCACTTTGTGTGAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT-TCGAATAG
1 GGCACCTTGTGTGATAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTCGAATAG
* * * * * *
725368 GGCA-CTTCATGTGTTAACATGATAAGAAATTGATAGTAAGTGTATGAATTTCT-GTATTG
1 GGCACCTT-GTGTGATAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCTCGAATAG
*
725427 GGCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTC
1 GGCACCTTGTGTGATAAATGATAAGAAATTCATACTAAGTGTATGAATTTC
725478 CTTATGGGAA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
57 2 0.02
58 42 0.45
59 45 0.48
60 4 0.04
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (59 bp):
GGCACCTTGTGTGATAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTCGAATAG
Found at i:725503 original size:58 final size:54
Alignment explanation
Indices: 725325--725510 Score: 158
Period size: 58 Copynumber: 3.2 Consensus size: 54
725315 TTTGTGTGAA
* ** *
725325 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGAATAGGGCACTTCATGTGTT
1 AAATGATAAGAAATTCATACTAAGTGTATGAA-TTTCTTAT-GGG-AATT-ATGTGTT
* * * * *
725383 AACATGATAAGAAATTGATAGTAAGTGTATGAATTTCTGTATTGGGCACCTTGTGTGCT
1 AA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCT-TA-TGGG-A-ATTATGTGTT
*
725442 AAATGATAAGAAATTCATACTAAGTGTATGAATTTCCTTATGGGAAATATATGGGTAT
1 AAATGATAAGAAATTCATACTAAGTGTATGAATTT-CTTATGGG-AAT-TATGTGT-T
725500 AAAT-ATAAGAA
1 AAATGATAAGAA
725511 CTACATCATA
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
56 1 0.01
57 16 0.15
58 44 0.41
59 42 0.39
60 4 0.04
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (54 bp):
AAATGATAAGAAATTCATACTAAGTGTATGAATTTCTTATGGGAATTATGTGTT
Found at i:725966 original size:68 final size:68
Alignment explanation
Indices: 725852--726308 Score: 620
Period size: 68 Copynumber: 6.8 Consensus size: 68
725842 AAATGATCAA
* * * * *
725852 GAGGCCTAATTGTGCATATGACAGAAAGATGTCATTTATGCAAGTTAGATGAAAGACTAAGTATT
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
725917 TTT
66 TTT
* ** *
725920 TAGGCCTAACTGTATATATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
725985 TTT
66 TTT
* *
725988 AAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAATGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
726053 TTT
66 TTT
* * *
726056 GAGGCCTAACTGTGCATATGATAGAAAGGTATCATTTATGCCAGTTAGATGAAACACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
726121 TTT
66 TTT
* * * * * *
726124 GAGAG-CAAATTGTGCATATGACAGAAATGTGACATTTATGCCAATTAGATGAAACACTAAGTGT
1 GAG-GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGT
726188 CTTT
65 CTTT
726192 GAGGCCTAACTGT--AT-T-ACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
726253 TTT
66 TTT
* * * * * *
726256 AAGGCCTAACTGTGCA-ATTGGCATAAAGGTGACAATTATGTCAGTTAGATGAA
1 GAGGCCTAACTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
726309 CGGTTAAGTA
Statistics
Matches: 345, Mismatches: 37, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
64 56 0.16
65 1 0.00
66 3 0.01
67 2 0.01
68 282 0.82
69 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:726535 original size:81 final size:81
Alignment explanation
Indices: 726258--726573 Score: 417
Period size: 81 Copynumber: 3.9 Consensus size: 81
726248 GTGTCTTTAA
* *
726258 GGCCTAACTGTGCAATTGGCATAAAGGTGACAATTATGTCAGTTAGATGAACGGTTAAGTACCGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGT
726323 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * ** * * * *
726339 AGG-CTAAATGT-CAATTGGAAGAAAGGCATCAATTTTATCAGTTAGATAAACAGTTAAGTACCG
1 -GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCG
726402 TTGAGTAAAA-AA-AAT
65 TTGAGTAAAAGAATAAT
* *
726417 AGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGT
726482 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * **
726498 GGCCTAATTGTGCAATTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAATGGTT-AGATATTG
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAG-TACCG
726562 TTGAGTAAAAGA
65 TTGAGTAAAAGA
726574 TGAAAGGTTA
Statistics
Matches: 201, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
77 1 0.00
78 10 0.05
79 56 0.28
80 57 0.28
81 75 0.37
82 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGT
TGAGTAAAAGAATAAT
Found at i:728860 original size:20 final size:20
Alignment explanation
Indices: 728832--728870 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
728822 TGACGTCAAT
* *
728832 TAGTGTCGATACCTATGATG
1 TAGTATCGATACCAATGATG
728852 TAGTATCGATACCAATGAT
1 TAGTATCGATACCAATGAT
728871 AAGGGGCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (20 bp):
TAGTATCGATACCAATGATG
Found at i:729009 original size:95 final size:97
Alignment explanation
Indices: 728851--729039 Score: 242
Period size: 95 Copynumber: 2.0 Consensus size: 97
728841 TACCTATGAT
*
728851 GTAGTATCGATACCAATGATAAGGGGCATCGATACCTAGGAACATCGAATCCAATTTTGGTATCA
1 GTAGTATCGATACCAATGATAAGGGGCATCAATACCTAGGAACATCGAATCCAATTTTGGTATCA
*
728916 ATACTAGTATGGGGTATCAGTACAATAGTAGG
66 ATACCAGTATGGGGTATCAGTACAATAGTAGG
* * * *
728948 GTAGTATCGATACC-ATGGTAA-GGGTATCAATA-CTAGGCAACATTGAA-CCTATTTTTGGTAT
1 GTAGTATCGATACCAATGATAAGGGGCATCAATACCTAGG-AACATCGAATCC-AATTTTGGTAT
* * * *
729009 CGATACCGGTATGGTGTATCAGTACCATAGT
64 CAATACCAGTATGGGGTATCAGTACAATAGT
729040 GTAGAAGTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
94 7 0.09
95 53 0.66
96 6 0.08
97 14 0.17
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (97 bp):
GTAGTATCGATACCAATGATAAGGGGCATCAATACCTAGGAACATCGAATCCAATTTTGGTATCA
ATACCAGTATGGGGTATCAGTACAATAGTAGG
Found at i:729068 original size:20 final size:20
Alignment explanation
Indices: 729040--729077 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
729030 GTACCATAGT
*
729040 GTAGAAGTATCGGTACTAGG
1 GTAGAAGTATCGATACTAGG
*
729060 GTAGTAGTATCGATACTA
1 GTAGAAGTATCGATACTA
729078 TGGAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.29
Consensus pattern (20 bp):
GTAGAAGTATCGATACTAGG
Found at i:729070 original size:95 final size:95
Alignment explanation
Indices: 728905--729077 Score: 206
Period size: 95 Copynumber: 1.8 Consensus size: 95
728895 TCGAATCCAA
* * * *
728905 TTTTGGTATCAATACTAGTATGGGGTATCAGTACAATAGTAGGGTAGTATCGATACCATGGTAAG
1 TTTTGGTATCAATACCAGTATGGGGTATCAGTACAATAGTAGAGAAGTATCGATACCAGGGTAAG
*
728970 GGTATCAATACTAGGCAACATTGAACCTAT
66 AGTATCAATACTAGGCAACATTGAACCTAT
* * * * * *
729000 TTTTGGTATCGATACCGGTATGGTGTATCAGTACCATAGT-GTAGAAGTATCGGTACTAGGGT-A
1 TTTTGGTATCAATACCAGTATGGGGTATCAGTACAATAGTAG-AGAAGTATCGATACCAGGGTAA
*
729063 GTAGTATCGATACTA
65 G-AGTATCAATACTA
729078 TGGAAAAATG
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
94 3 0.05
95 61 0.95
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (95 bp):
TTTTGGTATCAATACCAGTATGGGGTATCAGTACAATAGTAGAGAAGTATCGATACCAGGGTAAG
AGTATCAATACTAGGCAACATTGAACCTAT
Found at i:729558 original size:58 final size:59
Alignment explanation
Indices: 729391--729558 Score: 189
Period size: 59 Copynumber: 2.9 Consensus size: 59
729381 ATTACCAAAT
* * * *
729391 GGCACTTTGTGTGCAAAATGTTAAGAAATTCATACTATGTGTATGAATTT-TCGTATAG
1 GGCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTCGTATAG
* * * * *
729449 TGCA-CTTCATGTGCTAGCATGATAAGAAATTTATACTAAGTGTATGAATTTCT-GTATTG
1 GGCACCTT-GTGTGCTA-AATGATAAGAAATTCATACTAAGTGTATGAATTTCTCGTATAG
* * *
729508 GGCACCTTGTGTGCTAAAGGATAACAAATTCATATTAAGTGTATGAATTTC
1 GGCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTC
729559 CATATGGGAA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
57 2 0.02
58 39 0.43
59 45 0.50
60 4 0.04
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (59 bp):
GGCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTCGTATAG
Found at i:730392 original size:68 final size:68
Alignment explanation
Indices: 729955--730352 Score: 645
Period size: 68 Copynumber: 5.9 Consensus size: 68
729945 TACATATAAT
* *
729955 AGAAAGGTGTCATTTATGCGAGTTAGATGAAAGACTTAGTGTCTTTGAGG-CTAACTGTGCATAT
1 AGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATAT
*
730019 GAT
66 GAC
* *
730022 AGAAAGGTGTCATTTATGCCAGTTAGATAAAAGACTAAGTGTCTTTGAGGCCTAACTTTGCATAT
1 AGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATAT
730087 GAC
66 GAC
* *
730090 AGAAAGGTGTGATTTATGCCAGTTAGATGAAAGACTAATTGTCTTTGAGGCCTAACTGTGCATAT
1 AGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATAT
730155 GAC
66 GAC
* * *
730158 AGAAAGTTGTCATTTATGCCAGTTAGATAAAAGACTAAGTGTCTTTGAGGCCTAATTGTGCATAT
1 AGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATAT
730223 GAC
66 GAC
* * *
730226 AAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTGAGTGTCTTTAAGGCCTAACTGTGCATAT
1 AGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATAT
730291 GAC
66 GAC
* * *
730294 AGAAATGTGTCATTTATTCCAGTTAGATGAAAGACTAAGTGTCTTTAAGGCCTAACTGT
1 AGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGGCCTAACTGT
730353 ACAATTGGCA
Statistics
Matches: 306, Mismatches: 24, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
67 47 0.15
68 259 0.85
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (68 bp):
AGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATAT
GAC
Found at i:730401 original size:68 final size:68
Alignment explanation
Indices: 729934--730392 Score: 388
Period size: 68 Copynumber: 6.8 Consensus size: 68
729924 AAAGACCAAG
* * * * * * * * * *
729934 AGGCCTAATTATACATATAATAGAAAGGTGTCATTTATGCGAGTTAGATGAAAGACTTAGTGTCT
1 AGGCCTAACTGTACATATGACAGAAATGTGTCAATTATTCAAATTAGATGAAAGACTAAGTGTCT
*
729999 TTG
66 TTA
* * * * * * * *
730002 AGG-CTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATAAAAGACTAAGTGTCT
1 AGGCCTAACTGTACATATGACAGAAATGTGTCAATTATTCAAATTAGATGAAAGACTAAGTGTCT
*
730066 TTG
66 TTA
* * * * * * * * *
730069 AGGCCTAACTTTGCATATGACAGAAAGGTGTGATTTATGCCAGTTAGATGAAAGACTAATTGTCT
1 AGGCCTAACTGTACATATGACAGAAATGTGTCAATTATTCAAATTAGATGAAAGACTAAGTGTCT
*
730134 TTG
66 TTA
* * * * * *
730137 AGGCCTAACTGTGCATATGACAGAAA-GTTGTCATTTATGCCAGTTAGATAAAAGACTAAGTGTC
1 AGGCCTAACTGTACATATGACAGAAATG-TGTCAATTATTCAAATTAGATGAAAGACTAAGTGTC
*
730201 TTTG
65 TTTA
* * * * * * * * *
730205 AGGCCTAATTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTGAGTGTCT
1 AGGCCTAACTGTACATATGACAGAAATGTGTCAATTATTCAAATTAGATGAAAGACTAAGTGTCT
730270 TTA
66 TTA
* * * *
730273 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATTCCAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTACATATGACAGAAATGTGTCAATTATTCAAATTAGATGAAAGACTAAGTGTCT
730338 TTA
66 TTA
*
730341 AGGCCTAACTGTACA-ATTGGCAG-AATGATGTCAATTATGT-AAATTAGATGAA
1 AGGCCTAACTGTACATA-TGACAGAAATG-TGTCAATTAT-TCAAATTAGATGAA
730393 CGGTTAAGTA
Statistics
Matches: 354, Mismatches: 31, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
67 66 0.19
68 286 0.81
69 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTACATATGACAGAAATGTGTCAATTATTCAAATTAGATGAAAGACTAAGTGTCT
TTA
Found at i:730631 original size:81 final size:80
Alignment explanation
Indices: 730343--730914 Score: 517
Period size: 81 Copynumber: 7.2 Consensus size: 80
730333 TGTCTTTAAG
* * *
730343 GCCTAACTGTACAATTGGCAG-AATGATGTCAATTATGTAAATTAGATGAACGGTTAAGTACTGT
1 GCCTAACTGTGCAATTGGCAGAAACG-TGTCAATTATGTTAATTAGATGAACGGTTAAGTAC-GT
730407 TGAGTAAAAGAATAATA
64 TGAGTAAAAGAATAATA
* * * * *
730424 GCCTAACTGTACAATTGGTAGAAAGGTTTCAATTATGTTAGTTAGATGAACGGTTAAGTAACGTT
1 GCCTAACTGTGCAATTGGCAGAAACGTGTCAATTATGTTAATTAGATGAACGGTTAAGT-ACGTT
730489 GAGTAAAAGAATAATA
65 GAGTAAAAGAATAATA
* * * *
730505 GCCTAATTGTGCAATTGGCAAAAATGTGTCAATTATGTTAGTTAGATGAACGGTTAAGTATCGTT
1 GCCTAACTGTGCAATTGGCAGAAACGTGTCAATTATGTTAATTAGATGAACGGTTAAGTA-CGTT
* *
730570 GTGTAAAAGAATAATC
65 GAGTAAAAGAATAATA
* * ** * **
730586 GCCTAACTGTGC-ATATGACAGAAACGTGTCATTTATGCCAATTAGATGAAAGACTAAGT--GTC
1 GCCTAACTGTGCAAT-TGGCAGAAACGTGTCAATTATGTTAATTAGATGAACGGTTAAGTACGT-
*
730648 T---T-------TAA-G
64 TGAGTAAAAGAATAATA
* * * * * * * *
730654 GCCTAACTGTGCAATTGGCATAAAGGTTTCAATTAGGTCAGTTAGATGAATGGTTAAGTACCTTT
1 GCCTAACTGTGCAATTGGCAGAAACGTGTCAATTATGTTAATTAGATGAACGGTTAAGTA-CGTT
* *
730719 GACTAAAAGAATAATT
65 GAGTAAAAGAATAATA
* * * ** * * * *
730735 GCCTAACTGTGAAATTGGTAGAAATGCATCAAATATGTCAGTTAGATGAACGCTTAAGTATCGTT
1 GCCTAACTGTGCAATTGGCAGAAACGTGTCAATTATGTTAATTAGATGAACGGTTAAGTA-CGTT
*
730800 GAGTAAAATAATAATA
65 GAGTAAAAGAATAATA
* * * * *
730816 GCCTAACTGTGCAATTTGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
1 GCCTAACTGTGCAATTGGCAGAAACGTGTCAATTATGTTAATTAGATGAACGGTTAAGTA-CGTT
*
730881 GAGTAAAAGAATAATG
65 GAGTAAAAGAATAATA
*
730897 GCCTAACTGTGAAATTGG
1 GCCTAACTGTGCAATTGG
730915 TATAAAGGTA
Statistics
Matches: 404, Mismatches: 67, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
68 45 0.11
69 5 0.01
70 1 0.00
71 1 0.00
73 1 0.00
76 1 0.00
78 2 0.00
79 1 0.00
80 6 0.01
81 336 0.83
82 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (80 bp):
GCCTAACTGTGCAATTGGCAGAAACGTGTCAATTATGTTAATTAGATGAACGGTTAAGTACGTTG
AGTAAAAGAATAATA
Found at i:730633 original size:162 final size:162
Alignment explanation
Indices: 730343--730943 Score: 663
Period size: 162 Copynumber: 3.8 Consensus size: 162
730333 TGTCTTTAAG
* * * * * * *
730343 GCCTAACTGTACAATTGGCAGAATGATGTCAATTATGTAAATTAGATGAACGGTTAAGTACTGTT
1 GCCTAACTGTGCAATTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
* * * *
730408 GAGTAAAAGAATAATAGCCTAACTGTACAATTGGTAGAAAGGTTTCAATTATGTTAGTTAGATGA
66 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGTAGAAACGTATCAATTATGTCAGTTAGATGA
* *
730473 ACGGTTAAGTAACGTTGAGTAAAAGAATAATA
131 ACGATTAAGTATCGTTGAGTAAAAGAATAATA
* * * *
730505 GCCTAATTGTGCAATTGGCAAAAATGTGTCAATTATGTTAGTTAGATGAACGGTTAAGTATCGTT
1 GCCTAACTGTGCAATTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
* * ** * * * *
730570 GTGTAAAAGAATAATCGCCTAACTGTGC-ATATGACAGAAACGTGTCATTTATGCCAATTAGATG
66 GAGTAAAAGAATAATAGCCTAACTGTGCAAT-TGGTAGAAACGTATCAATTATGTCAGTTAGATG
* * *
730634 AAAGACTAAGTGTC-TT---T--AAG-------
130 AACGATTAAGTATCGTTGAGTAAAAGAATAATA
* * * * *
730654 GCCTAACTGTGCAATTGGCATAAAGGTTTCAATTAGGTCAGTTAGATGAATGGTTAAGTACCTTT
1 GCCTAACTGTGCAATTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
* * * * * *
730719 GACTAAAAGAATAATTGCCTAACTGTGAAATTGGTAGAAATGCATCAAATATGTCAGTTAGATGA
66 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGTAGAAACGTATCAATTATGTCAGTTAGATGA
* *
730784 ACGCTTAAGTATCGTTGAGTAAAATAATAATA
131 ACGATTAAGTATCGTTGAGTAAAAGAATAATA
*
730816 GCCTAACTGTGCAATTTGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
1 GCCTAACTGTGCAATTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
* * * * * *
730881 GAGTAAAAGAATAATGGCCTAACTGTGAAATTGGTATAAAGGTACCAATTATGCCAGTTAGAT
66 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGTAGAAACGTATCAATTATGTCAGTTAGAT
730944 ACCGTTGAGT
Statistics
Matches: 357, Mismatches: 67, Indels: 30
0.79 0.15 0.07
Matches are distributed among these distances:
149 114 0.32
150 4 0.01
153 1 0.00
155 2 0.01
156 3 0.01
158 1 0.00
161 4 0.01
162 228 0.64
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (162 bp):
GCCTAACTGTGCAATTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGTAGAAACGTATCAATTATGTCAGTTAGATGA
ACGATTAAGTATCGTTGAGTAAAAGAATAATA
Found at i:730711 original size:230 final size:230
Alignment explanation
Indices: 730424--730865 Score: 616
Period size: 230 Copynumber: 1.9 Consensus size: 230
730414 AAGAATAATA
* * *
730424 GCCTAACTGTACAATTGGTAGAAAGGTTTCAATTATGTTAGTTAGATGAACGGTTAAGTAACGTT
1 GCCTAACTGTACAATTGGCAGAAAGGTTTCAATTAGGTCAGTTAGATGAACGGTTAAGTAACGTT
* * * ** * *
730489 GAGTAAAAGAATAATAGCCTAATTGTGCAATTGGCAAAAATGTGTCAATTATGTTAGTTAGATGA
66 GACTAAAAGAATAATAGCCTAACTGTGAAATTGGCAAAAATGCATCAAATATGTCAGTTAGATGA
* * * * *
730554 ACGGTTAAGTATCGTTGTGTAAAAGAATAATCGCCTAACTGTGC-ATATGACAGAAACGTGTCAT
131 ACGCTTAAGTATCGTTGAGTAAAAGAATAATAGCCTAACTGTGCAATATG-CAAAAACGTGTCAA
730618 TTATGCCAATTAGATGAAAGACTAAGTGTCTTTAAG
195 TTATGCCAATTAGATGAAAGACTAAGTGTCTTTAAG
* * * * *
730654 GCCTAACTGTGCAATTGGCATAAAGGTTTCAATTAGGTCAGTTAGATGAATGGTTAAGTACCTTT
1 GCCTAACTGTACAATTGGCAGAAAGGTTTCAATTAGGTCAGTTAGATGAACGGTTAAGTAACGTT
* * *
730719 GACTAAAAGAATAATTGCCTAACTGTGAAATTGGTAGAAATGCATCAAATATGTCAGTTAGATGA
66 GACTAAAAGAATAATAGCCTAACTGTGAAATTGGCAAAAATGCATCAAATATGTCAGTTAGATGA
* * *
730784 ACGCTTAAGTATCGTTGAGTAAAATAATAATAGCCTAACTGTGCAATTTGCAAAAAGGTGTCAAT
131 ACGCTTAAGTATCGTTGAGTAAAAGAATAATAGCCTAACTGTGCAATATGCAAAAACGTGTCAAT
* *
730849 TATGTCAGTTAGATGAA
196 TATGCCAATTAGATGAA
730866 CGGTTAAGTA
Statistics
Matches: 183, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
230 179 0.98
231 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (230 bp):
GCCTAACTGTACAATTGGCAGAAAGGTTTCAATTAGGTCAGTTAGATGAACGGTTAAGTAACGTT
GACTAAAAGAATAATAGCCTAACTGTGAAATTGGCAAAAATGCATCAAATATGTCAGTTAGATGA
ACGCTTAAGTATCGTTGAGTAAAAGAATAATAGCCTAACTGTGCAATATGCAAAAACGTGTCAAT
TATGCCAATTAGATGAAAGACTAAGTGTCTTTAAG
Found at i:730839 original size:311 final size:311
Alignment explanation
Indices: 730275--730907 Score: 973
Period size: 311 Copynumber: 2.0 Consensus size: 311
730265 TGTCTTTAAG
* * *
730275 GCCTAACTGTGCATATGACAGAAATGTGTCATTTATTCCAGTTAGATGAAAGACTAAGTGTCTTT
1 GCCTAACTGTGCATATGACAGAAACGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTCTTT
* *
730340 AAGGCCTAACTGTACAATTGGCAGAATGATGTCAATTATGTAAATTAGATGAACGGTTAAGTACT
66 AAGGCCTAACTGTACAATTGGCAGAAAGATGTCAATTAGGTAAATTAGATGAACGGTTAAGTACT
* ** * *
730405 GTTGAGTAAAAGAATAATAGCCTAACTGTACAATTGGTAGAAAGGTTTCAATTATGTTAGTTAGA
131 GTTGACTAAAAGAATAATAGCCTAACTGTACAATTGGTAGAAAGGCATCAAATATGTCAGTTAGA
* * *
730470 TGAACGGTTAAGTAACGTTGAGTAAAAGAATAATAGCCTAATTGTGCAATTGGCAAAAATGTGTC
196 TGAACGCTTAAGTAACGTTGAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAAAAAGGTGTC
* * *
730535 AATTATGTTAGTTAGATGAACGGTTAAGTATCGTTGTGTAAAAGAATAATC
261 AATTATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAATAATC
730586 GCCTAACTGTGCATATGACAGAAACGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTCTTT
1 GCCTAACTGTGCATATGACAGAAACGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTCTTT
* * * * * * *
730651 AAGGCCTAACTGTGCAATTGGCATAAAGGTTTCAATTAGGTCAGTTAGATGAATGGTTAAGTACC
66 AAGGCCTAACTGTACAATTGGCAGAAAGATGTCAATTAGGTAAATTAGATGAACGGTTAAGTA-C
* *
730716 T-TTGACTAAAAGAATAATTGCCTAACTGTGA-AATTGGTAGAAATGCATCAAATATGTCAGTTA
130 TGTTGACTAAAAGAATAATAGCCTAACTGT-ACAATTGGTAGAAAGGCATCAAATATGTCAGTTA
* * *
730779 GATGAACGCTTAAGTATCGTTGAGTAAAATAATAATAGCCTAACTGTGCAATTTGCAAAAAGGTG
194 GATGAACGCTTAAGTAACGTTGAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAAAAAGGTG
*
730844 TCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAATAATG
259 TCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAATAATC
730897 GCCTAACTGTG
1 GCCTAACTGTG
730908 AAATTGGTAT
Statistics
Matches: 291, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
311 288 0.99
312 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (311 bp):
GCCTAACTGTGCATATGACAGAAACGTGTCATTTATGCCAATTAGATGAAAGACTAAGTGTCTTT
AAGGCCTAACTGTACAATTGGCAGAAAGATGTCAATTAGGTAAATTAGATGAACGGTTAAGTACT
GTTGACTAAAAGAATAATAGCCTAACTGTACAATTGGTAGAAAGGCATCAAATATGTCAGTTAGA
TGAACGCTTAAGTAACGTTGAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAAAAAGGTGTC
AATTATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAATAATC
Found at i:745012 original size:24 final size:24
Alignment explanation
Indices: 744985--745032 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
744975 AGAGAGAAAG
*
744985 AAGAAAAC-AATGGTGAAGGAAAAA
1 AAGAAAACAAAAGGTGAA-GAAAAA
745009 AAGAAAACAAAAGGTGAAGAAAAA
1 AAGAAAACAAAAGGTGAAGAAAAA
745033 TGAGGGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.67, C:0.04, G:0.23, T:0.06
Consensus pattern (24 bp):
AAGAAAACAAAAGGTGAAGAAAAA
Found at i:745032 original size:25 final size:24
Alignment explanation
Indices: 744985--745032 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
744975 AGAGAGAAAG
* *
744985 AAGAAAACAATGGTGAAGGAAAAA
1 AAGAAAACAAAGGTGAAGAAAAAA
745009 AAGAAAACAAAAGGTGAAGAAAAA
1 AAGAAAAC-AAAGGTGAAGAAAAA
745033 TGAGGGAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.67, C:0.04, G:0.23, T:0.06
Consensus pattern (24 bp):
AAGAAAACAAAGGTGAAGAAAAAA
Found at i:754786 original size:20 final size:20
Alignment explanation
Indices: 754761--754811 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
754751 GTGAACAGTG
*
754761 AGGGTATCTGTACCTATAGC
1 AGGGTATCGGTACCTATAGC
754781 AGGGTATCGGTACCTATAGC
1 AGGGTATCGGTACCTATAGC
*
754801 AGGGAATCGGT
1 AGGGTATCGGT
754812 TCCCTCAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (20 bp):
AGGGTATCGGTACCTATAGC
Found at i:755348 original size:46 final size:45
Alignment explanation
Indices: 755245--755461 Score: 348
Period size: 46 Copynumber: 4.8 Consensus size: 45
755235 TTCATATCAA
*
755245 TATTTTATCAATATACTTACCATTTAATCCATAAGCTCGTAAGCT
1 TATTTTATCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
* *
755290 TATTTTACCAATATACTTACCATTTGTTCCATAAGCTTCGTAAGCT
1 TATTTTATCAATATACTTACCATTTATTCCATAAGC-TCGTAAGCT
755336 TATTTTATCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
1 TATTTTATCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
*
755381 TATTTTTACCAATATACTTACC-TTTATTTCCATAAGCTCGTAAGCT
1 TA-TTTTATCAATATACTTACCATTTA-TTCCATAAGCTCGTAAGCT
*
755427 TATTTTATCAATATACTTGCCA-TTATTCCATAAGC
1 TATTTTATCAATATACTTACCATTTATTCCATAAGC
755462 ATATACCATA
Statistics
Matches: 160, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
44 10 0.06
45 68 0.43
46 82 0.51
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (45 bp):
TATTTTATCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
Found at i:755422 original size:91 final size:91
Alignment explanation
Indices: 755245--755461 Score: 368
Period size: 91 Copynumber: 2.4 Consensus size: 91
755235 TTCATATCAA
*
755245 TATTTTATCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
1 TATTTTATCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
755310 CATTTGTTCCATAAGCTTCGTAAGCT
66 CATTTGTTCCATAAGCTTCGTAAGCT
755336 TATTTTATCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTTACCAATATACTTA
1 TATTTTATCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA-TTTTACCAATATACTTA
*
755401 CC-TTTATTTCCATAAGC-TCGTAAGCT
65 CCATTT-GTTCCATAAGCTTCGTAAGCT
*
755427 TATTTTATCAATATACTTGCCA-TTATTCCATAAGC
1 TATTTTATCAATATACTTACCATTTATTCCATAAGC
755462 ATATACCATA
Statistics
Matches: 121, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
90 13 0.11
91 79 0.65
92 29 0.24
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (91 bp):
TATTTTATCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
CATTTGTTCCATAAGCTTCGTAAGCT
Found at i:766397 original size:22 final size:21
Alignment explanation
Indices: 766361--766407 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
766351 CACAATCATA
*
766361 AAAATGCCTTAGCACTAATAC
1 AAAATGCCTCAGCACTAATAC
* *
766382 TAAAATGCCTCGGCACTGATAC
1 -AAAATGCCTCAGCACTAATAC
766404 AAAA
1 AAAA
766408 GTGCAATCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (21 bp):
AAAATGCCTCAGCACTAATAC
Found at i:766744 original size:20 final size:20
Alignment explanation
Indices: 766719--766756 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
766709 CAACCTATCA
*
766719 GTATCAATATTGGCCTTACG
1 GTATCAATATTGACCTTACG
766739 GTATCAATATTGACCTTA
1 GTATCAATATTGACCTTA
766757 GTATCGATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (20 bp):
GTATCAATATTGACCTTACG
Found at i:770076 original size:17 final size:18
Alignment explanation
Indices: 770050--770086 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
770040 AAAATTAAAA
770050 AAAAAGTCTCAAATCCCT
1 AAAAAGTCTCAAATCCCT
*
770068 AAAAA-TCTCAAATCTCT
1 AAAAAGTCTCAAATCCCT
770085 AA
1 AA
770087 CTACAACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAAGTCTCAAATCCCT
Found at i:773313 original size:19 final size:15
Alignment explanation
Indices: 773274--773303 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
773264 CAAAAAATTA
773274 AAGATCAACTTCAGC
1 AAGATCAACTTCAGC
773289 AAGATCAACTTCAGC
1 AAGATCAACTTCAGC
773304 TAGTAAGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (15 bp):
AAGATCAACTTCAGC
Found at i:786511 original size:15 final size:15
Alignment explanation
Indices: 786474--786502 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
786464 TCGTTTAGAA
786474 TAAGGATTTAAAATG
1 TAAGGATTTAAAATG
786489 TAAGGATTTAAAAT
1 TAAGGATTTAAAAT
786503 TTAGTGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (15 bp):
TAAGGATTTAAAATG
Found at i:787811 original size:15 final size:15
Alignment explanation
Indices: 787764--787811 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
787754 AGTATATATA
*
787764 TGCTATATGTGAATG
1 TGCTTTATGTGAATG
**
787779 TG-TTTATGTGAAAA
1 TGCTTTATGTGAATG
787793 TGCTTTATGTGAATG
1 TGCTTTATGTGAATG
787808 TGCT
1 TGCT
787812 CTACGCAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (15 bp):
TGCTTTATGTGAATG
Found at i:787957 original size:25 final size:24
Alignment explanation
Indices: 787923--787972 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
787913 AAGTTGAGGG
787923 TTCTACGCGGTCCATCGGGACAAAT
1 TTCTACGCGGTCCATCGGGA-AAAT
*
787948 TTCTACGCGGTCCTTCGGGAAAAT
1 TTCTACGCGGTCCATCGGGAAAAT
787972 T
1 T
787973 CTATGTGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (24 bp):
TTCTACGCGGTCCATCGGGAAAAT
Found at i:789092 original size:14 final size:14
Alignment explanation
Indices: 789075--789107 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
789065 ATCACATTCG
789075 CATAATCA-TGAACA
1 CATAATCATTGAA-A
789089 CATAATCATTGAAA
1 CATAATCATTGAAA
789103 CATAA
1 CATAA
789108 CTTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (14 bp):
CATAATCATTGAAA
Found at i:793842 original size:43 final size:42
Alignment explanation
Indices: 793794--793881 Score: 167
Period size: 43 Copynumber: 2.1 Consensus size: 42
793784 ATGATGTTTT
793794 CTACAGTGTTGACATTGATTTGGCTTATCCACTCCTGATTCCA
1 CTACAGTGTTGACATTGATTTGGCTTAT-CACTCCTGATTCCA
793837 CTACAGTGTTGACATTGATTTGGCTTATCACTCCTGATTCCA
1 CTACAGTGTTGACATTGATTTGGCTTATCACTCCTGATTCCA
793879 CTA
1 CTA
793882 ATTGAGTCGT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 17 0.38
43 28 0.62
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (42 bp):
CTACAGTGTTGACATTGATTTGGCTTATCACTCCTGATTCCA
Found at i:802986 original size:21 final size:21
Alignment explanation
Indices: 802962--803013 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
802952 AGATGAACAT
802962 TATCGATACTGATTGAAGTAG
1 TATCGATACTGATTGAAGTAG
802983 TATCGATACTGATTGAAGTAG
1 TATCGATACTGATTGAAGTAG
803004 TATCGATACT
1 TATCGATACT
803014 AATGTAGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (21 bp):
TATCGATACTGATTGAAGTAG
Found at i:803131 original size:22 final size:23
Alignment explanation
Indices: 803106--803148 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
803096 ACTGAAGTGG
*
803106 GTATTAGTACCATA-GAAGAGAA
1 GTATCAGTACCATAGGAAGAGAA
*
803128 GTATCAGTACTATAGGAAGAG
1 GTATCAGTACCATAGGAAGAG
803149 TATCGATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (23 bp):
GTATCAGTACCATAGGAAGAGAA
Found at i:803574 original size:30 final size:30
Alignment explanation
Indices: 803512--803575 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
803502 TATTAGTATA
* * **
803512 TGAATATGCTATATGTGAATGTGTTCTACG
1 TGAAAATGCTATATGTGAATATACTCTACG
* *
803542 TGAAAATGCTTTATGTGAATATACTCTGCG
1 TGAAAATGCTATATGTGAATATACTCTACG
803572 TGAA
1 TGAA
803576 TAAAATATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (30 bp):
TGAAAATGCTATATGTGAATATACTCTACG
Found at i:803752 original size:25 final size:25
Alignment explanation
Indices: 803682--803752 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
803672 TCAAGGGTTT
*
803682 TACACGGTTCTTCGAGACAAA-TTC
1 TACATGGTTCTTCGAGACAAATTTC
* *
803706 TACATGGTCCTTC-ATGATAAATTTC
1 TACATGGTTCTTCGA-GACAAATTTC
* *
803731 TACGTGGTTCTTCGGGACAAAT
1 TACATGGTTCTTCGAGACAAAT
803753 CTATGTGGCA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 1 0.03
24 16 0.43
25 20 0.54
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (25 bp):
TACATGGTTCTTCGAGACAAATTTC
Found at i:803760 original size:23 final size:24
Alignment explanation
Indices: 803740--803784 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
803730 CTACGTGGTT
803740 CTTCGG-GACAAA-TCTATGTGGCA
1 CTTCGGTG-CAAATTCTATGTGGCA
803763 CTTCGGTGCAAATTCTATGTGG
1 CTTCGGTGCAAATTCTATGTGG
803785 AAGTGGTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (24 bp):
CTTCGGTGCAAATTCTATGTGGCA
Found at i:807965 original size:20 final size:18
Alignment explanation
Indices: 807915--807966 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
807905 TTTTAAATTA
807915 TTAGTATCGATACTCAAG
1 TTAGTATCGATACTCAAG
*
807933 -TAGGGTATTGATACTCTTAAG
1 TTA--GTATCGATACTC--AAG
807954 TTAGTATCGATAC
1 TTAGTATCGATAC
807967 CAATGTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.07
19 11 0.41
20 9 0.33
21 3 0.11
22 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (18 bp):
TTAGTATCGATACTCAAG
Found at i:810491 original size:17 final size:17
Alignment explanation
Indices: 810469--810509 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
810459 ACTAAAATGG
810469 AATAGTACAGGAAAAGA
1 AATAGTACAGGAAAAGA
*
810486 AATAGTATAGGAAAAGA
1 AATAGTACAGGAAAAGA
*
810503 AACAGTA
1 AATAGTA
810510 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.22, T:0.15
Consensus pattern (17 bp):
AATAGTACAGGAAAAGA
Found at i:811282 original size:15 final size:15
Alignment explanation
Indices: 811259--811292 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
811249 CCTGGTAATT
811259 TTAAAAAAATTTAAAA
1 TTAAAAAAA-TTAAAA
811275 TTAAAAAAATTAAAA
1 TTAAAAAAATTAAAA
811290 TTA
1 TTA
811293 TATATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TTAAAAAAATTAAAA
Found at i:812919 original size:20 final size:21
Alignment explanation
Indices: 812873--812920 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
812863 TTTTTTTAAA
812873 TAAAATTTATGAAGAAATTAT
1 TAAAATTTATGAAGAAATTAT
*
812894 T-TAATTTATGAA-ATAATT-T
1 TAAAATTTATGAAGA-AATTAT
812913 TAAAATTT
1 TAAAATTT
812921 CTAGAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 3 0.13
20 19 0.83
21 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (21 bp):
TAAAATTTATGAAGAAATTAT
Found at i:814090 original size:2 final size:2
Alignment explanation
Indices: 814083--814113 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
814073 TACACGTCAG
814083 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
814114 CAATATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:816928 original size:22 final size:22
Alignment explanation
Indices: 816890--816949 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
816880 ACTTGAGACC
*
816890 TCCTTTTATT-TTC-TTTATTT
1 TCCTTTTTTTCTTCTTTTATTT
816910 TCCTTTTTTTCTTCTTTTATTT
1 TCCTTTTTTTCTTCTTTTATTT
*
816932 TCATTTTCATTTCTTCTT
1 TCCTTTT--TTTCTTCTT
816950 CCATTTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 13 0.38
24 9 0.26
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (22 bp):
TCCTTTTTTTCTTCTTTTATTT
Found at i:816949 original size:24 final size:22
Alignment explanation
Indices: 816903--816964 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
816893 TTTTATTTTC
*
816903 TTTATTTTCCTTTTTTTCTTCT
1 TTTATTTTCATTTTTTTCTTCT
816925 TTTATTTTCATTTTCATTTCTTCT
1 TTTATTTTCATTTT--TTTCTTCT
**
816949 TCCATTTTTCATTTTT
1 TTTA-TTTTCATTTTT
816965 CCCTATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 13 0.38
23 1 0.03
24 10 0.29
25 10 0.29
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATTTTCATTTTTTTCTTCT
Found at i:817014 original size:7 final size:8
Alignment explanation
Indices: 817003--817082 Score: 54
Period size: 8 Copynumber: 9.6 Consensus size: 8
816993 ATTTTTTCAT
817003 TTTTTATC
1 TTTTTATC
817011 TTTTTATC
1 TTTTTATC
*
817019 TTTTTTTC
1 TTTTTATC
*
817027 GTTTT-TC
1 TTTTTATC
**
817034 GTTTTTCCC
1 -TTTTTATC
817043 TTTTTCATC
1 TTTTT-ATC
*
817052 ATTTTTTTC
1 -TTTTTATC
*
817061 TTTTTTATT
1 -TTTTTATC
*
817070 TTTTTTTC
1 TTTTTATC
817078 TTTTT
1 TTTTT
817083 TCATTTCTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
7 2 0.04
8 39 0.70
9 10 0.18
10 5 0.09
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.78
Consensus pattern (8 bp):
TTTTTATC
Found at i:817015 original size:10 final size:9
Alignment explanation
Indices: 816975--817083 Score: 57
Period size: 9 Copynumber: 12.3 Consensus size: 9
816965 CCCTATTTAA
816975 TTTTTCTTTT
1 TTTTTC-TTT
*
816985 TTTTTCATAT
1 TTTTTC-TTT
816995 TTTTTCATTT
1 TTTTTC-TTT
*
817005 TTTATC-TT
1 TTTTTCTTT
*
817013 TTTATC-TT
1 TTTTTCTTT
*
817021 TTTTTC--G
1 TTTTTCTTT
*
817028 TTTTTCGTT
1 TTTTTCTTT
**
817037 TTTCCCTTT
1 TTTTTCTTT
** *
817046 TTCATCATT
1 TTTTTCTTT
817055 TTTTTCTTT
1 TTTTTCTTT
*
817064 TTTAT-TTT
1 TTTTTCTTT
817072 TTTTTCTTT
1 TTTTTCTTT
817081 TTT
1 TTT
817084 CATTTCTTCT
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
7 6 0.08
8 22 0.29
9 27 0.35
10 22 0.29
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:825138 original size:106 final size:107
Alignment explanation
Indices: 825012--825412 Score: 396
Period size: 106 Copynumber: 3.8 Consensus size: 107
825002 TAAGTCCGCT
* * *
825012 TCCTATTCCTTCA-AGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC-GCTTCCTATTCA
1 TCCTATTCCTTCAGA-GAGTATAAGACTCGAATAATCTTCAACAAACGTGTCTGCTCCCTATTCC
*
825075 TTCAG-GAGTATAAGACTCGAAAAATCTTC-ATAAATGGGTCGC
65 TTCAGAGAGTATAAGACTCG-AAAATCTTCAATAAACGGGTCGC
* * *
825117 TCTCTATTCGTTCAGGGAGTAT-AGAACTCGAATAATCTTCATA-AAACGGGTCTGCTCCCTATT
1 TC-CTATTCCTTCAGAGAGTATAAG-ACTCGAATAATCTTCA-ACAAACGTGTCTGCTCCCTATT
* * * *
825180 CGTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTTCGC
63 CCTTCAGAGAGTATAAGACTCGAA-AATCTTCAATAAACG-GGTCGC
* * * * **
825227 TCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTCCAACAAACATGTTTTTTCCCTATTCC
1 T-CCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCTGCTCCCTATTCC
* * *
825288 TTCAGAGAGCATAGGACTCG---ATCTTCAATAAACGTGTCTGC
65 TTCAGAGAGTATAAGACTCGAAAATCTTCAATAAACGGGTC-GC
* * * *
825329 TACCTATTCCTTCAGAGAGTATAGGGCTTGAATAATCTTCAACAAACTTGTCTGCTCCCTATTCC
1 T-CCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCTGCTCCCTATTCC
*
825394 TTCAGAGAGTATATGACTC
65 TTCAGAGAGTATAAGACTC
825413 AATCTTCATA
Statistics
Matches: 244, Mismatches: 35, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
101 2 0.01
102 42 0.17
105 5 0.02
106 121 0.50
107 18 0.07
108 21 0.09
109 5 0.02
110 28 0.11
111 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (107 bp):
TCCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCTGCTCCCTATTCCT
TCAGAGAGTATAAGACTCGAAAATCTTCAATAAACGGGTCGC
Found at i:825391 original size:55 final size:54
Alignment explanation
Indices: 825013--825412 Score: 394
Period size: 55 Copynumber: 7.5 Consensus size: 54
825003 AAGTCCGCTT
* *
825013 CCTATTCCTTCA-AGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC-GCTT
1 CCTATTCCTTCAGA-GAGTATAGGACTCGAA-AATCTTCAACAAACGTGTCTGCTC
* * * * *
825067 CCTATTCATTCAG-GAGTATAAGACTCGAAAAATCTTC-ATAAATGGGTC-GCTC
1 CCTATTCCTTCAGAGAGTATAGGACTCG-AAAATCTTCAACAAACGTGTCTGCTC
* * * * *
825119 TCTATTCGTTCAGGGAGTATAGAACTCGAATAATCTTCATA-AAACGGGTCTGCTC
1 CCTATTCCTTCAGAGAGTATAGGACTCGAA-AATCTTCA-ACAAACGTGTCTGCTC
* * *
825174 CCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGT-TCGCTC
1 CCTATTCCTTCAGAGAGTATAGGACTCGAA-AATCTTCAACAAACGTGTCT-GCTC
* * * **
825229 CCTATTCCTTCAGAGAGTATAGGACTCG---ATCTCCAACAAACATGTTTTTTC
1 CCTATTCCTTCAGAGAGTATAGGACTCGAAAATCTTCAACAAACGTGTCTGCTC
* * *
825280 CCTATTCCTTCAGAGAGCATAGGACTCG---ATCTTCAATAAACGTGTCTGCTA
1 CCTATTCCTTCAGAGAGTATAGGACTCGAAAATCTTCAACAAACGTGTCTGCTC
* * *
825331 CCTATTCCTTCAGAGAGTATAGGGCTTGAATAATCTTCAACAAACTTGTCTGCTC
1 CCTATTCCTTCAGAGAGTATAGGACTCGAA-AATCTTCAACAAACGTGTCTGCTC
*
825386 CCTATTCCTTCAGAGAGTATATGACTC
1 CCTATTCCTTCAGAGAGTATAGGACTC
825413 AATCTTCATA
Statistics
Matches: 293, Mismatches: 39, Indels: 27
0.82 0.11 0.08
Matches are distributed among these distances:
51 85 0.29
52 25 0.09
53 40 0.14
54 23 0.08
55 120 0.41
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (54 bp):
CCTATTCCTTCAGAGAGTATAGGACTCGAAAATCTTCAACAAACGTGTCTGCTC
Found at i:825478 original size:37 final size:35
Alignment explanation
Indices: 825425--825534 Score: 139
Period size: 37 Copynumber: 3.0 Consensus size: 35
825415 TCTTCATAAA
825425 ATGAGTTTCCTTCACTACTCTTCCGTGAAGGCTTATAG
1 ATGA-TTT-CTTCACTACTCTTCCGTGAAGGCTTA-AG
*
825463 ATGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAG
1 ATGATTT-CTTCACTACTCTTCCGTGAAGGCTTAAG
* *
825499 ATTGAATTTCTTCACTGCTCTTTCGTGAAGGCTTAA
1 A-TG-ATTTCTTCACTACTCTTCCGTGAAGGCTTAA
825535 TATTGACTTG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
36 3 0.05
37 54 0.83
38 8 0.12
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (35 bp):
ATGATTTCTTCACTACTCTTCCGTGAAGGCTTAAG
Found at i:827240 original size:19 final size:19
Alignment explanation
Indices: 827216--827266 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
827206 CTGGACAATT
827216 ATATTAATAATTATTTATA
1 ATATTAATAATTATTTATA
* *
827235 ATATTAATATATTAATTATG
1 ATATTAATA-ATTATTTATA
827255 AT-TTAA-AATTAT
1 ATATTAATAATTAT
827267 AATTAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.14
18 1 0.04
19 13 0.46
20 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATATTAATAATTATTTATA
Found at i:827246 original size:27 final size:24
Alignment explanation
Indices: 827215--827274 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 24
827205 GCTGGACAAT
*
827215 TATATTAATAATTATTTATAATATTAA
1 TATATTAATAATGATTTA-AA-ATT-A
*
827242 TATATTAATTATGATTTAAAATTA
1 TATATTAATAATGATTTAAAATTA
827266 TA-ATTAATA
1 TATATTAATA
827275 TAAAACATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 6 0.20
24 3 0.10
25 3 0.10
26 2 0.07
27 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TATATTAATAATGATTTAAAATTA
Found at i:830277 original size:24 final size:24
Alignment explanation
Indices: 830250--830321 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
830240 GTAAACGGAG
830250 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
* * *
830274 ATATCAGATATCATAACAGAATCC
1 ATATCAGAAATCAAAACAGAATTC
* *
830298 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
830321 A
1 A
830322 GGTAACGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 14 0.34
24 27 0.66
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAGAATTC
Found at i:830322 original size:12 final size:12
Alignment explanation
Indices: 830254--830345 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
830244 ACGGAGATAT
* *
830254 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
830266 CAGAATTCATAT
1 CAGAATTCAGAA
*
830278 CAG-ATATCATAA
1 CAGAAT-TCAGAA
* *
830290 CAGAATCCAGAT
1 CAGAATTCAGAA
830302 CAGAA-TCAGAA
1 CAGAATTCAGAA
830313 CAGAATTCAGGTAA
1 CAGAATTCA-G-AA
*
830327 C-GTA-TCAGAA
1 CAGAATTCAGAA
830337 CAGAATTCA
1 CAGAATTCA
830346 ATTCAGAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
10 3 0.05
11 14 0.23
12 37 0.60
13 5 0.08
14 3 0.05
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:830333 original size:47 final size:48
Alignment explanation
Indices: 830252--830357 Score: 121
Period size: 47 Copynumber: 2.2 Consensus size: 48
830242 AAACGGAGAT
* *
830252 ATCAGAAATCAAAACAGAATTCATATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCATAACAGATATCAGAACAGAATCCAG
* *
830300 ATCAG-AATCAGAACAGAATTCAGGTAAC-G-TATCAGAACAGAATTCA-
1 ATCAGAAATCAAAACAGAATTCA--TAACAGATATCAGAACAGAATCCAG
830346 ATTCAGAAATCA
1 A-TCAGAAATCA
830358 TATAAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
46 1 0.02
47 35 0.70
48 11 0.22
49 3 0.06
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCATAACAGATATCAGAACAGAATCCAG
Found at i:830357 original size:24 final size:24
Alignment explanation
Indices: 830253--830357 Score: 83
Period size: 24 Copynumber: 4.4 Consensus size: 24
830243 AACGGAGATA
*
830253 TCAGAAATCAAAACAGAATTC-AT
1 TCAGAAATCAGAACAGAATTCAAT
* * *
830276 ATCAGATATCATAACAGAATCCAGA-
1 -TCAGAAATCAGAACAGAATTCA-AT
**
830301 TCAG-AATCAGAACAGAATTCAGG
1 TCAGAAATCAGAACAGAATTCAAT
* *
830324 TAACG-TATCAGAACAGAATTCAAT
1 TCA-GAAATCAGAACAGAATTCAAT
830348 TCAGAAATCA
1 TCAGAAATCA
830358 TATAAAATAT
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
23 17 0.27
24 45 0.71
26 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAT
Found at i:832812 original size:13 final size:13
Alignment explanation
Indices: 832796--832833 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
832786 GTCAACGGGT
832796 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
832809 CGGGTCGGGTAAA
1 CGGGTCGGGTCAA
832822 CGGGTCGGGTCA
1 CGGGTCGGGTCA
832834 GGTCGGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.21, G:0.47, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:835006 original size:24 final size:24
Alignment explanation
Indices: 834979--835050 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
834969 GTAAACGGAG
834979 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
* * *
835003 ATATCAGATATCATAACAGAATCC
1 ATATCAGAAATCAAAACAGAATTC
* *
835027 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
835050 A
1 A
835051 GGTAACGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 14 0.34
24 27 0.66
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAGAATTC
Found at i:835051 original size:12 final size:12
Alignment explanation
Indices: 834983--835074 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
834973 ACGGAGATAT
* *
834983 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
834995 CAGAATTCATAT
1 CAGAATTCAGAA
*
835007 CAG-ATATCATAA
1 CAGAAT-TCAGAA
* *
835019 CAGAATCCAGAT
1 CAGAATTCAGAA
835031 CAGAA-TCAGAA
1 CAGAATTCAGAA
835042 CAGAATTCAGGTAA
1 CAGAATTCA-G-AA
*
835056 C-GTA-TCAGAA
1 CAGAATTCAGAA
835066 CAGAATTCA
1 CAGAATTCA
835075 ATTCGGAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
10 3 0.05
11 14 0.23
12 37 0.60
13 5 0.08
14 3 0.05
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:835062 original size:47 final size:48
Alignment explanation
Indices: 834981--835071 Score: 116
Period size: 47 Copynumber: 1.9 Consensus size: 48
834971 AAACGGAGAT
* *
834981 ATCAGAAATCAAAACAGAATTCATATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCATAACAGATATCAGAACAGAATCCAG
*
835029 ATCAG-AATCAGAACAGAATTCAGGTAAC-G-TATCAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCA--TAACAGATATCAGAACAGAAT
835072 TCAATTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
47 29 0.76
48 6 0.16
49 3 0.08
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCATAACAGATATCAGAACAGAATCCAG
Found at i:837551 original size:18 final size:18
Alignment explanation
Indices: 837528--837562 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
837518 GTCAACGGTC
837528 AACGGGTCAGGTCAGGTA
1 AACGGGTCAGGTCAGGTA
*
837546 AACGGGTCGGGTCAGGT
1 AACGGGTCAGGTCAGGT
837563 CGGGTTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.43, T:0.17
Consensus pattern (18 bp):
AACGGGTCAGGTCAGGTA
Found at i:839730 original size:24 final size:24
Alignment explanation
Indices: 839703--839812 Score: 93
Period size: 24 Copynumber: 4.6 Consensus size: 24
839693 GTAAACGGAG
* *
839703 ATATCTGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
839727 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTC
*
839751 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
839774 AGGTAAC-G-TATCAGAACAGAATTC
1 A--TATCAGAAATCAGAACAGAATTC
*
839798 A-ATTCGGAAATCAGA
1 ATA-TCAGAAATCAGA
839813 TAAAATATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 16 0.23
24 49 0.71
25 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:839746 original size:12 final size:11
Alignment explanation
Indices: 839711--839795 Score: 64
Period size: 12 Copynumber: 7.3 Consensus size: 11
839701 AGATATCTGA
*
839711 AATCAAAACAG
1 AATCAGAACAG
* *
839722 AATTCATATCAG
1 AA-TCAGAACAG
839734 ATATCAGAACAG
1 A-ATCAGAACAG
*
839746 AATCCAGATCAG
1 AAT-CAGAACAG
839758 AATCAGAACAG
1 AATCAGAACAG
839769 AATTCAGGTAAC-G
1 AA-TCA-G-AACAG
*
839782 TATCAGAACAG
1 AATCAGAACAG
839793 AAT
1 AAT
839796 TCAATTCGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 3 0.05
11 17 0.29
12 32 0.54
13 4 0.07
14 3 0.05
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (11 bp):
AATCAGAACAG
Found at i:842224 original size:15 final size:15
Alignment explanation
Indices: 842194--842237 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
842184 GGTCAACAGT
842194 GGTCAACGACGGTCAAC
1 GGTCAACG--GGTCAAC
842211 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
*
842226 AGTCAACGGGTC
1 GGTCAACGGGTC
842238 GGGTCGGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 18 0.69
17 8 0.31
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.14
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:842253 original size:18 final size:18
Alignment explanation
Indices: 842230--842264 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
842220 GTCAACAGTC
842230 AACGGGTCGGGTCGGGTA
1 AACGGGTCGGGTCGGGTA
842248 AACGGGTCGGGTCGGGT
1 AACGGGTCGGGTCGGGT
842265 TGGGTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.51, T:0.17
Consensus pattern (18 bp):
AACGGGTCGGGTCGGGTA
Found at i:843554 original size:11 final size:12
Alignment explanation
Indices: 843538--843567 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
843528 ATTGATGTGC
843538 TTGTTATA-TTT
1 TTGTTATATTTT
843549 TTGTTATATTTT
1 TTGTTATATTTT
843561 TTGTTAT
1 TTGTTAT
843568 TTGACACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (12 bp):
TTGTTATATTTT
Found at i:844335 original size:23 final size:24
Alignment explanation
Indices: 844286--844340 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
844276 CTATTCTTTC
844286 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
844310 GCTTCAATTGAGCTCAAA-TTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
844333 GCTTCAAT
1 GCTTCAAT
844341 CGAACTTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:844596 original size:30 final size:29
Alignment explanation
Indices: 844560--844623 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
844550 AGTGAACCGG
* *
844560 CGGTTCAAACTGGTTTTGCCAGTTTTCAGC
1 CGGTTCAAACCGGTTTT-CCAGTTTTCAAC
** *
844590 CGGTTCACCCCGGTTTTCCGGTTTTCAAC
1 CGGTTCAAACCGGTTTTCCAGTTTTCAAC
844619 CGGTT
1 CGGTT
844624 TCTTCCGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.12, C:0.28, G:0.23, T:0.36
Consensus pattern (29 bp):
CGGTTCAAACCGGTTTTCCAGTTTTCAAC
Found at i:845340 original size:182 final size:178
Alignment explanation
Indices: 844819--845462 Score: 729
Period size: 182 Copynumber: 3.7 Consensus size: 178
844809 TTGTCAGTAC
* * * * *
844819 GTATCGATACTATTA-AAATATGTATCAATACAT-ACAATAT-A-AGGTAAAAATATGAGAAATC
1 GTATCGATACT-TTATAAACATGTATCTAT-CATAACAATATAACATGTAAAAATATGACAAACC
* *
844880 GGTTCA-ATATGACAAAACTGGTAAAGCGCTACCGG--ATGTTGAAGGTATCGATTCCATTCAAA
64 GGTTCATA-ATGACAAAACCGGTAAA-AGCTACCGGATATGTTGAAGGTATCGATTCCATTCAAA
* * *
844942 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAAACAGTAATAGTGCCTATAAA
127 TAAGTATCGACACTTTT-GAATTTAAAAG-AAAAGCAATAATAGCGCCTATAAA
* *
844996 GTATCGATACTTTATAAACA--TATCGTA-CATAACAATATAACA-GGAGAAATATGACAAACTC
1 GTATCGATACTTTATAAACATGTATC-TATCATAACAATATAACATGTAAAAATATGACAAAC-C
*
845057 GGTTTCATAATGACAAAACC-G----A--TACCGGATATGTTGAATGGTATTGATTCCATTCAAA
64 GG-TTCATAATGACAAAACCGGTAAAAGCTACCGGATATGTTGAA-GGTATCGATTCCATTCAAA
* * * * *
845115 T--GTATTGATACTTTGGCATTTAAAAGAAAAGTAATAATAGCGCCTATAAA
127 TAAGTATCGACACTTTTGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
* * *
845165 ATATCGGTACTTTATAAACATGTATCTATGTATAACAATATAACATGTAAAAATATGACAAACCG
1 GTATCGATACTTTATAAACATGTATCTAT-CATAACAATATAACATGTAAAAATATGACAAACCG
*
845230 GTTTCATAATGACAAAACCGGGTAAAACGCTACCGGATATGTTGAAGGTATCGATTACATTCAAA
65 G-TTCATAATGACAAAACC-GGTAAAA-GCTACCGGATATGTTGAAGGTATCGATTCCATTCAAA
*
845295 TAAGTATCGACACTTTTGAATTTAAAAGAATAGCAATAATAGCGCCTATAAA
127 TAAGTATCGACACTTTTGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
* * *
845347 GTATCGATAATTTATAAA-ATGTATCGATACATAACAATATAACATGT-AAAATATGACAAAACG
1 GTATCGATACTTTATAAACATGTATCTAT-CATAACAATATAACATGTAAAAATATGACAAACCG
* * *
845410 GTTCATAATGACAAAACCGGTAATGAGCTACCAGATATGTTAAAGGTATCGAT
65 GTTCATAATGACAAAACCGGTAA-AAGCTACCGGATATGTTGAAGGTATCGAT
845463 ACTTTAATAA
Statistics
Matches: 399, Mismatches: 40, Indels: 55
0.81 0.08 0.11
Matches are distributed among these distances:
169 38 0.10
170 18 0.05
171 15 0.04
172 43 0.11
173 34 0.09
174 4 0.01
175 11 0.03
176 18 0.05
177 20 0.05
178 45 0.11
179 19 0.05
180 34 0.09
181 42 0.11
182 58 0.15
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (178 bp):
GTATCGATACTTTATAAACATGTATCTATCATAACAATATAACATGTAAAAATATGACAAACCGG
TTCATAATGACAAAACCGGTAAAAGCTACCGGATATGTTGAAGGTATCGATTCCATTCAAATAAG
TATCGACACTTTTGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
Found at i:852822 original size:198 final size:199
Alignment explanation
Indices: 852416--853767 Score: 1978
Period size: 198 Copynumber: 6.8 Consensus size: 199
852406 TGAGGTATCA
*
852416 ATACATTTATTGTAAGTATCGAT-CCTAAAACATCGAAACCGATAATTATAAAG-AATAGGTAAA
1 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
* * * * *
852479 TTTACAATGTAACAGGTAAAAAAATATGTCAGTTTAATGAGAAAATAGGTCCACATAATGTATCG
66 TTTACAATGTAACCGGT--AAAAATATATCGGTTTTATGAGAAAGTAGGTCCACATAATGTATCG
* * *
852544 ATACGTTTTAAAATGTATCGATATTTTTGGTCCATAATGAATGCCCAACGAGGTGCACGCATAAA
129 ATACTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAA
852609 GTGTCG
194 GTGTCG
* * * * *
852615 ATA-ATTTATTGTACGCATCGATCCCAAAAATATCGAAACAGATAATTAT-AAGTAATGGGT-AA
1 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
* *
852677 TTAACAATGTAACCGGT-AAAATATATCGGTTTTATGAGAAAGTAGGTTCACATAATGTATCGAT
66 TTTACAATGTAACCGGTAAAAATATATCGGTTTTATGAGAAAGTAGGTCCACATAATGTATCGAT
852741 ACTTTTTAAAATTGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTTGCACGCATAAA
131 ACTTTTTAAAA-TGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGG-TGCACGCATAAA
852806 GTGTCG
194 GTGTCG
* * *
852812 ATACATTTATTGTAAGTATCGATCCCAAGAACTTCGAAACCGATAATTATAAAGTAATGGGTAAA
1 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
* * *
852877 -TTACAATGTAACAGGTAAAAAGTAAAAATATATTGGTTTTACGAGAAAGTAGGTCCACATAATG
66 TTTACAATGTAAC-CG------GTAAAAATATATCGGTTTTATGAGAAAGTAGGTCCACATAATG
* *
852941 TATCGATACTTTTTAAAATTGTATCGATACTTTTGGTTCAGAATGAATGCTCAACGAGGTGCACG
124 TATCGATACTTTTTAAAA-TGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACG
* *
853006 TATAAAGTGTTG
188 CATAAAGTGTCG
* * * *
853018 ATACATTTATTATAATTATCGATCCCAAAAACATC-AAA---ATCATTATTAAGTAATAGGTAAA
1 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
* *
853079 TTTACAATGTAACCGGTAAAAATGTACCGGTTTTATGAGAAAGTAGGTCCACATAATGTATCGAT
66 TTTACAATGTAACCGGTAAAAATATATCGGTTTTATGAGAAAGTAGGTCCACATAATGTATCGAT
** * *
853144 ACTTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTTTACTCAT--AT
131 AC-TTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAG
853207 TGTCG
195 TGTCG
853212 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
1 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
* *
853277 TTTACAATGTAACCGGTAAAAATATATCGGTTTAATGAG-AAGTAGATCCACATAATGTATCGAT
66 TTTACAATGTAACCGGTAAAAATATATCGGTTTTATGAGAAAGTAGGTCCACATAATGTATCGAT
*
853341 ACTTTTTTAAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAAGTGCACGCATAAA
131 AC-TTTTT-AAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAA
853406 GTGTCG
194 GTGTCG
* *
853412 ATATATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
1 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
* * *
853477 TTTACAATGTAACGGGTAAAAATATACCGGTTTTATGAGAAAGTTGGTCCACATAATGTATCGAT
66 TTTACAATGTAACCGGTAAAAATATATCGGTTTTATGAGAAAGTAGGTCCACATAATGTATCGAT
853542 ACTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGC-TAAAGT
131 ACTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGT
*
853606 GTCA
196 GTCG
853610 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
1 ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
* * ** * **
853675 TTAAAAATGTAACAAGTAAAAATATACCAATTTTATGAGAAAGTAGGTCCACATAATGTATCGAT
66 TTTACAATGTAACCGGTAAAAATATATCGGTTTTATGAGAAAGTAGGTCCACATAATGTATCGAT
853740 ACTTTTTAAAATTGTATCGATACGTTTT
131 ACTTTTTAAAA-TGTATCGATAC-TTTT
853768 TTAAATTAAG
Statistics
Matches: 1044, Mismatches: 82, Indels: 53
0.89 0.07 0.04
Matches are distributed among these distances:
194 38 0.04
195 55 0.05
196 129 0.12
197 62 0.06
198 324 0.31
199 115 0.11
200 117 0.11
201 25 0.02
202 21 0.02
203 12 0.01
205 3 0.00
206 49 0.05
207 94 0.09
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (199 bp):
ATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAA
TTTACAATGTAACCGGTAAAAATATATCGGTTTTATGAGAAAGTAGGTCCACATAATGTATCGAT
ACTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGT
GTCG
Found at i:853623 original size:398 final size:395
Alignment explanation
Indices: 852413--853767 Score: 2005
Period size: 398 Copynumber: 3.4 Consensus size: 395
852403 ACTTGAGGTA
*
852413 TCAATACATTTATTGTAAGTATCGAT-CCTAAAACATCGAAACCGATAATTATAAAG-AATAGGT
1 TCAATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* *
852476 AAATTTACAATGTAACAGGTAAAAAAATATGTCAGTTTAATGAGAAAATAGGTCCACATAATGTA
66 AAATTTACAATGTAACAGGT--AAAAATATATCAGTTTAATGAGAAAGTAGGTCCACATAATGTA
* * *
852541 TCGATACGTTTT-AAAATGTATCGATATTTTTGGTCCATAATGAATGCCCAACGAGGTGCACGCA
129 TCGATACTTTTTAAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCA
* * * *
852605 TAAAGTGTCGATAATTTATTGTACGCATCGATCCCAAAAATATCGAAACAGATAATTATAAGTAA
194 TAAAGTGTCGATAATTTATTATAAGTATCGATCCCAAAAACATCGAAAC-GATAATTATAAGTAA
* * * *
852670 TGGGT-AATTAACAATGTAACCGGT-AAAATATATCGGTTTTATGAGAAAGTAGGTTCACATAAT
258 TAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTTATGAGAAAGTAGGTCCACATAAT
852733 GTATCGATACTTTTTAAAATTGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTTGCA
323 GTATCGATACTTTTTAAAA-TGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGG-TGCA
852798 CGCATAAAGTG
386 CGC-TAAAGTG
* * * *
852809 TCGATACATTTATTGTAAGTATCGATCCCAAGAACTTCGAAACCGATAATTATAAAGTAATGGGT
1 TCAATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* *
852874 AAA-TTACAATGTAACAGGTAAAAAGTAAAAATAT-ATTGGTTTTACGAGAAAGTAGGTCCACAT
66 AAATTTACAATGTAACAGGTAAAAA-T----ATATCA---GTTTAATGAGAAAGTAGGTCCACAT
* * *
852937 AATGTATCGATACTTTTTAAAATTGTATCGATACTTTTGGTTCAGAATGAATGCTCAACGAGGTG
123 AATGTATCGATACTTTTTAAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTG
* * * *
853002 CACGTATAAAGTGTTGATACATTTATTATAATTATCGATCCCAAAAACATC-AAA--ATCATTAT
188 CACGCATAAAGTGTCGATA-ATTTATTATAAGTATCGATCCCAAAAACATCGAAACGATAATTA-
*
853064 TAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATGTACCGGTTTTATGAGAAAGTAGGTCC
251 TAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTTATGAGAAAGTAGGTCC
853129 ACATAATGTATCGATACTTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGA
316 ACATAATGTATCGATAC-TTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGA
** * * *
853194 GGTTTACTC-ATATTG
380 GGTGCACGCTAAAGTG
*
853209 TCGATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
1 TCAATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* * *
853274 AAATTTACAATGTAACCGGTAAAAATATATCGGTTTAATGAG-AAGTAGATCCACATAATGTATC
66 AAATTTACAATGTAACAGGTAAAAATATATCAGTTTAATGAGAAAGTAGGTCCACATAATGTATC
*
853338 GATACTTTTTTAAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAAGTGCACGCAT
131 GATAC-TTTTTAAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCAT
853403 AAAGTGTCGATATATTTATTATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTA
195 AAAGTGTCGATA-ATTTATTATAAGTATCGATCCCAAAAACATCGAAA-CGATAATTAT-AAGTA
* *
853468 ATAGGTAAATTTACAATGTAACGGGTAAAAATATACCGGTTTTATGAGAAAGTTGGTCCACATAA
257 ATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTTATGAGAAAGTAGGTCCACATAA
853533 TGTATCGATACTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCAC
322 TGTATCGATACTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCAC
853598 GCTAAAGTG
387 GCTAAAGTG
853607 TCAATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
1 TCAATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* * * * * *
853672 AAATTAAAAATGTAACAAGTAAAAATATACCAATTTTATGAGAAAGTAGGTCCACATAATGTATC
66 AAATTTACAATGTAACAGGTAAAAATATATCAGTTTAATGAGAAAGTAGGTCCACATAATGTATC
*
853737 GATACTTTTTAAAATTGTATCGATACGTTTT
131 GATACTTTTTAAAAATGTATCGATAC-TTTT
853768 TTAAATTAAG
Statistics
Matches: 863, Mismatches: 69, Indels: 51
0.88 0.07 0.05
Matches are distributed among these distances:
393 26 0.03
394 103 0.12
395 8 0.01
396 30 0.03
397 97 0.11
398 215 0.25
399 31 0.04
400 79 0.09
401 31 0.04
402 61 0.07
403 147 0.17
404 35 0.04
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (395 bp):
TCAATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
AAATTTACAATGTAACAGGTAAAAATATATCAGTTTAATGAGAAAGTAGGTCCACATAATGTATC
GATACTTTTTAAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATA
AAGTGTCGATAATTTATTATAAGTATCGATCCCAAAAACATCGAAACGATAATTATAAGTAATAG
GTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTTATGAGAAAGTAGGTCCACATAATGTA
TCGATACTTTTTAAAATGTATCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCTA
AAGTG
Found at i:853757 original size:21 final size:22
Alignment explanation
Indices: 853731--853774 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
853721 GTCCACATAA
853731 TGTATCGATAC-TTTTTAAAAT
1 TGTATCGATACGTTTTTAAAAT
*
853752 TGTATCGATACGTTTTTTAAAT
1 TGTATCGATACGTTTTTAAAAT
853774 T
1 T
853775 AAGTGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (22 bp):
TGTATCGATACGTTTTTAAAAT
Found at i:854078 original size:15 final size:15
Alignment explanation
Indices: 854052--854111 Score: 66
Period size: 15 Copynumber: 3.7 Consensus size: 15
854042 CGGGTCTTCT
854052 CAACCTTCTTCTCAAC
1 CAACC-TCTTCTCAAC
*
854068 CAAGCTCTTCTCAAC
1 CAACCTCTTCTCAAC
*
854083 GACAACCTTTATCTCAAC
1 --CAACCTCT-TCTCAAC
854101 CAACCTCTTCT
1 CAACCTCTTCT
854112 TCTGAACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 13 0.35
16 11 0.30
17 6 0.16
18 7 0.19
ACGTcount: A:0.27, C:0.40, G:0.03, T:0.30
Consensus pattern (15 bp):
CAACCTCTTCTCAAC
Found at i:855252 original size:18 final size:18
Alignment explanation
Indices: 855229--855268 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
855219 CAAGCGCTCA
855229 ATGAAGATGACAATGAAG
1 ATGAAGATGACAATGAAG
* *
855247 ATGAAGATGATAATGATG
1 ATGAAGATGACAATGAAG
855265 ATGA
1 ATGA
855269 TGATCCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.28, T:0.23
Consensus pattern (18 bp):
ATGAAGATGACAATGAAG
Found at i:856700 original size:18 final size:18
Alignment explanation
Indices: 856679--856715 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
856669 TTAATTGGAG
856679 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
856697 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
856715 T
1 T
856716 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:856722 original size:24 final size:24
Alignment explanation
Indices: 856671--856723 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
856661 TTTCATAATT
* * *
856671 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
856695 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
856719 AATTT
1 AATTT
856724 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:857912 original size:21 final size:22
Alignment explanation
Indices: 857879--857923 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
857869 GCGTGCAAAT
857879 GTATCGAAAACACATTATTAAA
1 GTATCGAAAACACATTATTAAA
857901 GTATCG-AAACACATTATTAAA
1 GTATCGAAAACACATTATTAAA
857922 GT
1 GT
857924 GTCGTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (22 bp):
GTATCGAAAACACATTATTAAA
Found at i:861401 original size:20 final size:20
Alignment explanation
Indices: 861356--861401 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
861346 GTTTACCTAA
*
861356 AGTATCGATACATTTTGTAT
1 AGTATCGATACATTTTGTAC
* *
861376 ATGTATCGATACTTTTTGTCC
1 A-GTATCGATACATTTTGTAC
861397 AGTAT
1 AGTAT
861402 GATTCTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (20 bp):
AGTATCGATACATTTTGTAC
Found at i:873308 original size:45 final size:45
Alignment explanation
Indices: 873244--873332 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
873234 CTCACGGGAA
873244 AAAGTATGTTGGAACCGCCTTTTACTTCATATTTCAATTACTTTG
1 AAAGTATGTTGGAACCGCCTTTTACTTCATATTTCAATTACTTTG
873289 AAAGTATGTTGGAACCGCCTTTTACTTCATATTTCAATTACTTT
1 AAAGTATGTTGGAACCGCCTTTTACTTCATATTTCAATTACTTT
873333 CCAACGAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (45 bp):
AAAGTATGTTGGAACCGCCTTTTACTTCATATTTCAATTACTTTG
Found at i:873379 original size:31 final size:30
Alignment explanation
Indices: 873344--873407 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
873334 CAACGAAGAC
* *
873344 TTAATATTAAAATAAATGTTTAAATTATATT
1 TTAATACTAAAATAAATGTTTAAACTAT-TT
** *
873375 TTAATACTCGAATAAGTGTTTAAACTATTT
1 TTAATACTAAAATAAATGTTTAAACTATTT
873405 TTA
1 TTA
873408 TCCATTCAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (30 bp):
TTAATACTAAAATAAATGTTTAAACTATTT
Done.