Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 6 of 23
Found at i:825256 original size:158 final size:158
Alignment explanation
Indices: 825044--825392 Score: 456
Period size: 158 Copynumber: 2.2 Consensus size: 158
825034 TTTCATTGTC
* * *
825044 GGGGATACTCTAATCCCAGTTTTATTTTCAAAACATCGATTTTCAACCATCGGGGATACTCCAA-
1 GGGGATACTCCAATCCCGGTTTTATTTCCAAAACATCGATTTTCAACCATCGGGGATACTCCAAC
* * * *
825108 CCTCGTTATTTTTGAGCAGATACTCCAACCCCAGTTTTATTTCTAAAGCA-AATATTTTTCACAA
66 CCT-ATTATTTCTGAGCAGATACTCCAACCCCAGTTTTATTTCCAAAACATAA-ATTTTTCACAA
* *
825172 TC-GAGGATACTCCAACCCCGTTATTTTCGA
129 TCTG-GGATACTACAACCCCGTTATTTTCAA
*
825202 GGGGATACTCCGA-CCTCGGTTTTATTTCCAAAACATCGATTTTTC-ACCATCGGGGATACTCCA
1 GGGGATACTCCAATCC-CGGTTTTATTTCCAAAACATCGA-TTTTCAACCATCGGGGATACTCCA
** * * *
825265 ACCCTATTATTTCTGAGGGGATACTCCAACCCTAGTTTTATTTCCAAAACATCAATTTTTCACTA
64 ACCCTATTATTTCTGAGCAGATACTCCAACCCCAGTTTTATTTCCAAAACATAAATTTTTCACAA
825330 TCTGGGATACTACAACCCCGTTATTTTCAA
129 TCTGGGATACTACAACCCCGTTATTTTCAA
* * *
825360 GGGGATGCTCCAATCCCGTTTTTATCTCCAAAA
1 GGGGATACTCCAATCCCGGTTTTATTTCCAAAA
825393 TATTAAATTT
Statistics
Matches: 166, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
157 2 0.01
158 152 0.92
159 12 0.07
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (158 bp):
GGGGATACTCCAATCCCGGTTTTATTTCCAAAACATCGATTTTCAACCATCGGGGATACTCCAAC
CCTATTATTTCTGAGCAGATACTCCAACCCCAGTTTTATTTCCAAAACATAAATTTTTCACAATC
TGGGATACTACAACCCCGTTATTTTCAA
Found at i:829626 original size:13 final size:13
Alignment explanation
Indices: 829608--829633 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
829598 TACGTACAAG
829608 ATGTATCGATACA
1 ATGTATCGATACA
829621 ATGTATCGATACA
1 ATGTATCGATACA
829634 TGACCAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:831132 original size:79 final size:79
Alignment explanation
Indices: 831014--831185 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 79
831004 AATGGGGCCA
* * *
831014 GAGTATCCTCGATTATGGAAAATTGGTATTCCAGAAATAAAACCGGGGTTGGAGTATCCCTTCGA
1 GAGTATCCTCGATTATAGAAAATTAGTATTCCAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA
831079 AAATAAC-AGGGTTG
66 AAATAACGA-GGTTG
** * *
831093 GAGTATCC-CTGATTATAGAAAATTAGTATT-TTGAAAATAAAATCGGGGTTTGAGTATCCCCTC
1 GAGTATCCTC-GATTATAGAAAATTAGTATTCCAG-AAATAAAACCGGGGTTGGAGTATCCCCTC
831156 GAAAATAACGAGGTTG
64 GAAAATAACGAGGTTG
* *
831172 GAATATTCTCGATT
1 GAGTATCCTCGATT
831186 GTGAAAAATC
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 76 0.95
80 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (79 bp):
GAGTATCCTCGATTATAGAAAATTAGTATTCCAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA
AAATAACGAGGTTG
Found at i:831210 original size:79 final size:78
Alignment explanation
Indices: 831046--831232 Score: 200
Period size: 79 Copynumber: 2.4 Consensus size: 78
831036 TTGGTATTCC
* *
831046 AGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTGGAGTATCCCTGATTATAG
1 AGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATATCCCTGATTATAG
*
831111 AAAATTAGTATTT
66 AAAAATAGTATTT
* * * * *
831124 TGAAAATAAAATCGGGGTTTGAGTATCCCCTCGAAAATAAC-GAGGTTGGAATAT-TCTCGATTG
1 AG-AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAG-GGTTGGAATATCCCT-GATTA
*
831187 T-GAAAAATCGATGATTT
63 TAGAAAAATAG-T-ATTT
** *
831204 AGAAATAAGGCCGGGGTTGAAGTATCCCC
1 AGAAATAAAACCGGGGTTGGAGTATCCCC
831233 CGATTATAAG
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
78 11 0.12
79 73 0.82
80 5 0.06
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (78 bp):
AGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATATCCCTGATTATAG
AAAAATAGTATTT
Found at i:831280 original size:52 final size:52
Alignment explanation
Indices: 831219--831335 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 52
831209 TAAGGCCGGG
* *
831219 GTTGAAGTATCCCCCGATTATA-AGAAATTAATATTTTGAAAATAAAATCGAA
1 GTTGGAGTATCCCCCGATTATAGA-AAATTAATATTTTAAAAATAAAATCGAA
* * * **
831271 GTTGGAGTAT-CCCCGATTGTGGAAAATTGATATTTTAAAAATAAAATCGGG
1 GTTGGAGTATCCCCCGATTATAGAAAATTAATATTTTAAAAATAAAATCGAA
*
831322 GTTGGAATATCCCC
1 GTTGGAGTATCCCC
831336 TAAGAAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 42 0.76
52 13 0.24
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCCGATTATAGAAAATTAATATTTTAAAAATAAAATCGAA
Found at i:831575 original size:51 final size:51
Alignment explanation
Indices: 831456--831576 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
831446 CAGAAATAAT
* ** * *
831456 GGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACC
* **
831507 GGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAACC
1 GGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACC
831558 GGGGTTGGAGTATCCCCGA
1 GGGGTTGGAGTATCCCCGA
831577 GATGAAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACC
Found at i:833901 original size:20 final size:20
Alignment explanation
Indices: 833876--833915 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
833866 AAAAAAGCCT
*
833876 AAATGTATCGATACATTGTA
1 AAATGTATCGATACAATGTA
833896 AAATGTATCGATACAATGTA
1 AAATGTATCGATACAATGTA
833916 TCGAAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
AAATGTATCGATACAATGTA
Found at i:833914 original size:33 final size:33
Alignment explanation
Indices: 833877--833944 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
833867 AAAAAGCCTA
* *
833877 AATGTATCGATACATTGTAA-AATGTATCGATAC
1 AATGTATCGAAACAATG-AACAATGTATCGATAC
833910 AATGTATCGAAACAATGAACAATGTATCGATAC
1 AATGTATCGAAACAATGAACAATGTATCGATAC
833943 AA
1 AA
833945 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (33 bp):
AATGTATCGAAACAATGAACAATGTATCGATAC
Found at i:833944 original size:13 final size:13
Alignment explanation
Indices: 833897--833926 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
833887 TACATTGTAA
*
833897 AATGTATCGATAC
1 AATGTATCGAAAC
833910 AATGTATCGAAAC
1 AATGTATCGAAAC
833923 AATG
1 AATG
833927 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (13 bp):
AATGTATCGAAAC
Found at i:835810 original size:33 final size:33
Alignment explanation
Indices: 835768--835831 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
835758 ACACATCCAG
835768 ATGTTTTGTATCAATACATTGTATCGATACATT
1 ATGTTTTGTATCAATACATTGTATCGATACATT
835801 ATGTTTTGTATCAATACATTGTATCGATACA
1 ATGTTTTGTATCAATACATTGTATCGATACA
835832 CACTCAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (33 bp):
ATGTTTTGTATCAATACATTGTATCGATACATT
Found at i:835843 original size:33 final size:33
Alignment explanation
Indices: 835773--835852 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
835763 TCCAGATGTT
* ***
835773 TTGTATCAATACATTGTATCGATACATTATGTT
1 TTGTATCAATACATTGTATCGATACATCATCAA
835806 TTGTATCAATACATTGTATCGATACA-CACTCAA
1 TTGTATCAATACATTGTATCGATACATCA-TCAA
*
835839 TTGTATCGATACAT
1 TTGTATCAATACAT
835853 GAACTGGCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (33 bp):
TTGTATCAATACATTGTATCGATACATCATCAA
Found at i:842167 original size:7 final size:7
Alignment explanation
Indices: 842151--842191 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
842141 CATCTTTAAC
*
842151 TTCTTTT
1 TTCTTCT
842158 TTCTTCT
1 TTCTTCT
842165 TTCTTCT
1 TTCTTCT
842172 TTCTTCT
1 TTCTTCT
842179 TTCTTCT
1 TTCTTCT
842186 TTCTTC
1 TTCTTC
842192 ACGTTTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCTTCT
Found at i:843382 original size:21 final size:21
Alignment explanation
Indices: 843332--843382 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
843322 ACTTTTTTAA
*
843332 TTTATATATTTTTGAATTAATT
1 TTTAT-TATTTTTGAATAAATT
*
843354 TTAAATTATTTTT-AATGAAATT
1 TT-TATTATTTTTGAAT-AAATT
843376 TTTATTA
1 TTTATTA
843383 AATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 7 0.29
22 15 0.62
23 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTATTATTTTTGAATAAATT
Found at i:844563 original size:11 final size:11
Alignment explanation
Indices: 844549--844610 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
844539 ATAATATTTT
844549 TAAAATATATA
1 TAAAATATATA
844560 TAAAATA-AT-
1 TAAAATATATA
*
844569 TTAAATAT-TA
1 TAAAATATATA
844579 TTAAAATATATA
1 -TAAAATATATA
* *
844591 AAAAATA-ATT
1 TAAAATATATA
844601 TAACAATATA
1 TAA-AATATA
844611 CTCTTATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
9 7 0.17
10 6 0.15
11 24 0.60
12 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAATATATA
Found at i:844576 original size:31 final size:31
Alignment explanation
Indices: 844541--844603 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
844531 TAATAAAAAT
* *
844541 AATATTTTTAAAATATATATAAAATAATTTA
1 AATATTATTAAAATATATAAAAAATAATTTA
844572 AATATTATTAAAATATATAAAAAATAATTTA
1 AATATTATTAAAATATATAAAAAATAATTTA
844603 A
1 A
844604 CAATATACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
AATATTATTAAAATATATAAAAAATAATTTA
Found at i:844863 original size:19 final size:20
Alignment explanation
Indices: 844836--844876 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
844826 AATTGATAAT
844836 TAAAAATATT-ATATTAAAA
1 TAAAAATATTAATATTAAAA
*
844855 TAAATATATTACATATTAAAA
1 TAAAAATATTA-ATATTAAAA
844876 T
1 T
844877 TTATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAATATTAATATTAAAA
Found at i:844951 original size:18 final size:16
Alignment explanation
Indices: 844894--844955 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 16
844884 AATTATACAT
*
844894 ATTAAATAATAAA-TA
1 ATTAAAAAATAAATTA
* *
844909 ATTAAAAATTATATTA
1 ATTAAAAAATAAATTA
844925 ATGTTAAAAAATAAATTA
1 A--TTAAAAAATAAATTA
844943 A-TATAAAAATAAA
1 ATTA-AAAAATAAA
844956 AAAATAAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 12 0.32
16 12 0.32
18 14 0.37
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
ATTAAAAAATAAATTA
Found at i:844952 original size:16 final size:15
Alignment explanation
Indices: 844894--844955 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 15
844884 AATTATACAT
844894 ATTAAATAATAAA-TA
1 ATTAAA-AATAAATTA
*
844909 ATTAAAAATTATATTA
1 ATTAAAAA-TAAATTA
844925 ATGTTAAAAAATAAATTA
1 A--TT-AAAAATAAATTA
844943 ATATAAAAATAAA
1 AT-TAAAAATAAA
844956 AAAATAAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 2 0.05
15 9 0.23
16 13 0.33
17 1 0.03
18 9 0.23
19 5 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
ATTAAAAATAAATTA
Found at i:848370 original size:21 final size:22
Alignment explanation
Indices: 848333--848378 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
848323 AAAGCATCTT
848333 TGCTAAAAGTACATGTATGATG
1 TGCTAAAAGTACATGTATGATG
*
848355 TGCTAAAA-TGCATGTATGATG
1 TGCTAAAAGTACATGTATGATG
848376 TGC
1 TGC
848379 CAAAGTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (22 bp):
TGCTAAAAGTACATGTATGATG
Found at i:848964 original size:4 final size:4
Alignment explanation
Indices: 848955--848981 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
848945 AATTTATATA
848955 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
848982 AATGAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:849774 original size:25 final size:27
Alignment explanation
Indices: 849729--849787 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
849719 TTTTGTTCTT
849729 TTTTTTAAAAAAAAATGATAAAAATG-A
1 TTTTTTAAAAAAAAA-GATAAAAATGTA
* *
849756 TTTTTTAAAAAATAA-ATAAATATGTA
1 TTTTTTAAAAAAAAAGATAAAAATGTA
849782 TTTTTT
1 TTTTTT
849788 TAATTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 14 0.48
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (27 bp):
TTTTTTAAAAAAAAAGATAAAAATGTA
Found at i:851838 original size:33 final size:33
Alignment explanation
Indices: 851781--851845 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
851771 TACCACTGTT
* *
851781 TGTATCGATACATGGTACATTGTATTGATACAA
1 TGTATCGATACATGATACATTGTATCGATACAA
*
851814 TGTATCGATACATGATGGCA-TGTATCGATACA
1 TGTATCGATACATGAT-ACATTGTATCGATACA
851846 TTGCTTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATACATTGTATCGATACAA
Found at i:861831 original size:15 final size:15
Alignment explanation
Indices: 861811--861841 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
861801 TAAAAATGTC
*
861811 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
861826 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
861841 C
1 C
861842 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:863882 original size:20 final size:20
Alignment explanation
Indices: 863856--863933 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
863846 AATGTCCAAA
863856 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
863876 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
863901 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
863921 TTGTATCGATACA
1 ATGTATCGATACA
863934 GGGTGATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:865727 original size:23 final size:23
Alignment explanation
Indices: 865697--865743 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
865687 GTGCAAATAA
865697 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
865720 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
865743 A
1 A
865744 AGGGAGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
ATTTTGATATGAATTACTTGATT
Found at i:866490 original size:13 final size:13
Alignment explanation
Indices: 866472--866496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
866462 ACAGCAAGTT
866472 TGTATCGATACAA
1 TGTATCGATACAA
866485 TGTATCGATACA
1 TGTATCGATACA
866497 CAAAATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:866509 original size:31 final size:32
Alignment explanation
Indices: 866453--866514 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
866443 TAGCCAAACT
**
866453 TGTATCGATACAGCAAGTTTGTATCGATACAA
1 TGTATCGATACAGCAAAATTGTATCGATACAA
866485 TGTATCGATACA-CAAAATTGTATCGATACA
1 TGTATCGATACAGCAAAATTGTATCGATACA
866515 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAGCAAAATTGTATCGATACAA
Found at i:868011 original size:22 final size:21
Alignment explanation
Indices: 867973--868013 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
867963 ATCAAATCTT
* *
867973 CTTCAAATTTCTTATTTTTCA
1 CTTCAAAATACTTATTTTTCA
867994 CTTCAAAATACTTCATTTTT
1 CTTCAAAATACTT-ATTTTT
868014 TATCAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTCAAAATACTTATTTTTCA
Found at i:873597 original size:25 final size:25
Alignment explanation
Indices: 873542--873597 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
873532 TTTATGATAA
*
873542 TTAATTTT--AATTTTAATTTTCTC
1 TTAATTTTAAAATTTTAATTTTATC
* *
873565 TTAATTTTAAAATTTTTATTTTATT
1 TTAATTTTAAAATTTTAATTTTATC
*
873590 TTATTTTT
1 TTAATTTT
873598 GAACTAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 8 0.30
25 19 0.70
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (25 bp):
TTAATTTTAAAATTTTAATTTTATC
Found at i:879116 original size:30 final size:31
Alignment explanation
Indices: 879063--879126 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
879053 TAGAATTGTT
*
879063 TTTCATGCATTTGGATTTTATTTAAAGACCA
1 TTTCATGCATTTGGATATTATTTAAAGACCA
* *
879094 TTTCATGCATTT-TATATTATTTAGAGACCA
1 TTTCATGCATTTGGATATTATTTAAAGACCA
879124 TTT
1 TTT
879127 TGCACACTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 18 0.60
31 12 0.40
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (31 bp):
TTTCATGCATTTGGATATTATTTAAAGACCA
Found at i:883228 original size:52 final size:52
Alignment explanation
Indices: 883150--883278 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
883140 CGAAATATGA
* * *
883150 AAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
*
883202 AAATTTACCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
*
883254 AAATTTGCCTGCATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACA
883279 AAGATCGGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
Found at i:883291 original size:52 final size:52
Alignment explanation
Indices: 883150--883299 Score: 187
Period size: 52 Copynumber: 2.9 Consensus size: 52
883140 CGAAATATGA
* * *
883150 AAATTTATCTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTAGGC
*** *
883202 AAATTTACCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTACCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAGGC
* *
883254 AAATTTGCCTGCATGTATCGATACA-AAGATCGGTGTATCGATACAT
1 AAATTTACCTGCATGTATCGATACATAAGAT-AGTGTATCGATACAT
883300 TTGAGTAATG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 82 0.95
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAGGC
Found at i:883376 original size:33 final size:33
Alignment explanation
Indices: 883339--883405 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
883329 AGTAGCTTAA
883339 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
883372 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
883405 A
1 A
883406 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:883379 original size:13 final size:13
Alignment explanation
Indices: 883361--883385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
883351 CAAAAAAATA
883361 TGTATCGATACAT
1 TGTATCGATACAT
883374 TGTATCGATACA
1 TGTATCGATACA
883386 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:884165 original size:29 final size:29
Alignment explanation
Indices: 884089--884167 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 29
884079 AAGCTTAAGA
*
884089 AATT-AAAGTCAACTAAAAAACGAAAAAG
1 AATTAAAAGTCAACTAAAACACGAAAAAG
* ** *
884117 AATTAAAAGCCAACTAAAACACTTAAAGG
1 AATTAAAAGTCAACTAAAACACGAAAAAG
*
884146 AATTAAAAGTTAACTAAAACAC
1 AATTAAAAGTCAACTAAAACAC
884168 CATAACTTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 4 0.09
29 39 0.91
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (29 bp):
AATTAAAAGTCAACTAAAACACGAAAAAG
Found at i:886138 original size:16 final size:15
Alignment explanation
Indices: 886112--886142 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
886102 ATGAAAAAGA
886112 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
886127 ATTTTGTTATTATTTT
1 ATTTT-TTATTATTTT
886143 TTATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:887741 original size:138 final size:138
Alignment explanation
Indices: 887582--887870 Score: 526
Period size: 138 Copynumber: 2.1 Consensus size: 138
887572 CAGCCCCCCA
*
887582 CATG-TTGTATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTACCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTACCATATGTTTC
*
887646 TGCATGATTTGCATCTCCCATCACTTTTTCATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTT
66 TGCATGATTTGCATCTCCCATCACTTTTTCATTTGCACATTGCTTTGCTTTCTTTCCATTTGCTT
*
887711 GTGTTCCT
131 ATGTTCCT
*
887719 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTC
1 CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTACCATATGTTTC
*
887784 TTCATGATTTGCATCTCCCATCACTTTTTCATTTGCACATTGCTTTGCTTTCTTTCCATTTGCTT
66 TGCATGATTTGCATCTCCCATCACTTTTTCATTTGCACATTGCTTTGCTTTCTTTCCATTTGCTT
887849 ATGTTCCT
131 ATGTTCCT
887857 CATGATTGCATGCT
1 CATGATTGCATGCT
887871 ACATTGCATT
Statistics
Matches: 146, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
137 4 0.03
138 142 0.97
ACGTcount: A:0.15, C:0.24, G:0.13, T:0.47
Consensus pattern (138 bp):
CATGATTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTACCATATGTTTC
TGCATGATTTGCATCTCCCATCACTTTTTCATTTGCACATTGCTTTGCTTTCTTTCCATTTGCTT
ATGTTCCT
Found at i:888835 original size:334 final size:330
Alignment explanation
Indices: 888180--888835 Score: 1035
Period size: 334 Copynumber: 2.0 Consensus size: 330
888170 AAATGACCCG
* * *
888180 GATGAAATTAAGTGTCTACAGTTGCCCCTCTTTGTCCATTGCTGAGAATTAGGAACAGGACAAAG
1 GATGAAATTAAGTGTCTACAGCTGCCCCTCTTTGTCCATTGCTAAGAATTAGGAACAAGACAAAG
* * ***
888245 ATAAAATAGACACAATTTCGTTCGGGTCGTAAAATGAAAGTCGTAAAGTCTTGGAAGATGAAACA
66 ATAAAATAGACACAATTTCGTTCGGATCATAAAATGAAAGTCGTAAAGTCCAAGAAGATGAAACA
* * *
888310 AGAGATGCAGAAAAAACCAAAAGCAGGACCAAACAGTTGGGTCGACAAAAGATTAAAGTAGCTCG
131 AGAGATGCAAAAAAAAACAAAAGCAGGACCAAACAGTTAGGTCGACAAAAGATTAAAGTAGCTCG
*
888375 ACAAGCAAACAAAAAAGGAAAAAATTCTCCCGGGTCAAAACTGACAGGCAAACTTTAAATGAGGC
196 ACAAGCAAACAAAAAAGGAAAAAATTCTCCCGAGTCAAAACTGACAGGCAAACTTTAAATGAGGC
* * *
888440 AGTCTTTAGGGTCAAAGCCGACAAGCAGGCTGAAGGATAGAAAAGTCTCTAGGGTCAAAGCCGAT
261 AGTCTTCAGGGTCAAAGCCGACAAGCAGACTGAAGGATAGAAAAGTCTCAAGGGTCAAAGCCGAT
888505 AGGCA
326 AGGCA
* *
888510 GATGAAATTAGGTGTCTACAGCTGCCCCTCTTTGTCCATTGCTAAGAATTAGGAATAAGACAAAG
1 GATGAAATTAAGTGTCTACAGCTGCCCCTCTTTGTCCATTGCTAAGAATTAGGAACAAGACAAAG
888575 ATAAAATAGACACAATTTCGTTCGGATCATAAAATGAAAGTCGTAAAGTCCAAGAAGATGAAACA
66 ATAAAATAGACACAATTTCGTTCGGATCATAAAATGAAAGTCGTAAAGTCCAAGAAGATGAAACA
* *
888640 AGAGATGCAAAAAAAAAAAAACAAAGGCGGGACCAAACAGTTAGGTCGACAAAAGATTAAAGTAG
131 AGAGATGC----AAAAAAAAACAAAAGCAGGACCAAACAGTTAGGTCGACAAAAGATTAAAGTAG
*
888705 CTCGACAAGCAAACAAAAAAGGAAAAAATTCTCCCGAGTTAAAACTGACAGGCAAACTTTAAATG
192 CTCGACAAGCAAACAAAAAAGGAAAAAATTCTCCCGAGTCAAAACTGACAGGCAAACTTTAAATG
* * * * *
888770 AGGTAGTCTTCAGGGTTAAAGCTGACAAGCAGATTGAGGGATAGAAAAGTCTCCAAGGG-CAAAG
257 AGGCAGTCTTCAGGGTCAAAGCCGACAAGCAGACTGAAGGATAGAAAAGTCT-CAAGGGTCAAAG
888834 CC
321 CC
888836 AACAGGTAGA
Statistics
Matches: 296, Mismatches: 25, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
330 128 0.43
334 163 0.55
335 5 0.02
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (330 bp):
GATGAAATTAAGTGTCTACAGCTGCCCCTCTTTGTCCATTGCTAAGAATTAGGAACAAGACAAAG
ATAAAATAGACACAATTTCGTTCGGATCATAAAATGAAAGTCGTAAAGTCCAAGAAGATGAAACA
AGAGATGCAAAAAAAAACAAAAGCAGGACCAAACAGTTAGGTCGACAAAAGATTAAAGTAGCTCG
ACAAGCAAACAAAAAAGGAAAAAATTCTCCCGAGTCAAAACTGACAGGCAAACTTTAAATGAGGC
AGTCTTCAGGGTCAAAGCCGACAAGCAGACTGAAGGATAGAAAAGTCTCAAGGGTCAAAGCCGAT
AGGCA
Found at i:891081 original size:42 final size:42
Alignment explanation
Indices: 888774--891078 Score: 1746
Period size: 42 Copynumber: 54.7 Consensus size: 42
888764 TAAATGAGGT
* * * * * * **
888774 AGTCTTCAGGGTTAAAGCTGACAAGCAGATTGAGGGATAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-TAGGGA
* * * * *
888817 AGTCTCCAAGGG-CAAAGCCAACAGGTAGACTTTAGATGATAGGAA
1 AGTCTCC-AGGGTCAAAGCCGACAGGCAGAC--TA-AGGGTAGGGA
* * **
888862 AGTCTCCAGGGTTAAAGCCGACAGGCAGACTAAGGGCAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-TAGGGA
* * * * *
888905 AGTCTCCAGGGTCAAAGTCAAAAGGCAGACTAAGAGATAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAG-GGTAGGGA
* * * *
888948 AGTCTTCAAGGTCAAAGCTGACAGGCAGACTAAGGGATAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-TAGGGA
* * * * *
888991 ATTCTCCAAGGTAAAAGCCAACAGGCAGACTAAGGGATCA--AA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-T-AGGGA
* * * * * *
889033 AGTCTCTAGGGTCCCAA-CCGACAAGCAGACTAAGGGAATGAA
1 AGTCTCCAGGGT-CAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * *
889075 AGTCTCCAAGGTTAAAGCCAACAGGCAGACTAAGGGAATGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * * *
889117 AATCTTCAAGGTCAAAACCGACAGGCAGACTAA-AGTAATGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGT-AGGGA
* * ** * *
889159 AGTCTCCAAGATCAAAGCCGACAGGCAGACTAAGGAAATGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * ***
889201 AGTTTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * *
889243 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * *
889285 AGTCTCTAGGGTCAAAACCGAAAGGCAGACTAAGGGAAAGCA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * **
889327 AGTCTCTAGGGTCAAAACCGACAGGCAGACTAAGGGAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * *
889369 AGTCTCTAGGGTTAAACCCGATAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* *
889411 AGCCTCCAGGGTCAAAGCCGACAGGCAGACTGAA-GGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGTAGGGA
* * * * * * *
889453 AGTCTTCAAGGTCAAAGCTGACAGGTAGACTGAGGGTAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
** * * *
889495 AGTCTCCAATGTCAAAGCCGACAAGCAGACTGAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* ** * * *
889537 AGTCTCTAAAGTCAAAGCCGACAGGAGGTAGACTGAGGGTAGAGA
1 AGTCTCCAGGGTCAAAGCCGAC---AGGCAGACTAAGGGTAGGGA
* * * * *
889582 AGTCTTCAGGGTCAAAGCTGACAGGAGGTAGACTGAGGGTAGAGA
1 AGTCTCCAGGGTCAAAGCCGAC---AGGCAGACTAAGGGTAGGGA
* *
889627 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTTAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * *
889669 AGTCTCTAGGGTCAAAGCAGATAGGCAGACTTAGGG-AAGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * *
889710 AGTCTCTAGGGTCAAGGCCGACATGCAAACTAAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
** * * *
889752 AGTCTTTAAGGTCAAAGCCGATAGGCAAACTAAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * *
889794 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTTAGGGAACGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * * * *
889836 AGTCTCTAGGGTCAAAACTGATAAGCATACTAGGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * * *
889878 AGTCTCCAGGGTCAAAGTCGATAAGCAGACTTAGGGAACGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* *** * *
889920 AGTCTCCCGAGGTCAAAATTGACAGGCAAACTAAAGGTAGGGA
1 AGTCTCCAG-GGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * *
889963 ACTCTCCTGGGTCAAAACCGACAGGCAAACTTAGGG-AAGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
*
890004 AGTCTCCAGGGTCAAAGCCGATAGGCAGACTAAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * ** * * *
890046 AGTTTCCAAGGTCAAAGCCGATAAACAGACTTAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * *
890088 AGTCTCGAGGGTCAAAACTGACAAGG-AGACT-AGGGTAGAGA
1 AGTCTCCAGGGTCAAAGCCGAC-AGGCAGACTAAGGGTAGGGA
* * * * * *
890129 AGTCTCCAGGGTCAAAGCTGATAGGCAGATTTAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * ** * *
890171 AGTCTCCTGAGGTCAAAACTAATAGGCAAACTAAGGGTAGGGA
1 AGTCTCCAG-GGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* ** * * *
890214 ACTCTCTTGGGTCAAAGCCGACAGGCAAACTTAGGG-AAGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * *
890255 AGTCTCTAGGGTCAAAGTCGATAGGCAGACTAAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * *
890297 AGTTTTCAAGGTCAAAGCCGATAGGCAGACTTAA-GGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TAAGGGTAGGGA
* *** * * *
890339 AGTCTCGAGGGTCAAAATTGACAAGCAGACT-GGGGTAGAGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * **
890380 AGTTTGCAGGGTCAAAGCCGACAGGCAGACTAAGGGTA-AAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
890421 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * *
890463 AGTCTCTAGGGTCAAAGTCGACAGGAAGACTTAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * *
890505 AGTCTCCAAGGTCAAAGCTGACAGGAAAACTTAGGG-AAGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * *
890546 AGTGTCCAGGGTTAAAGCCAACAAGCAAACTAAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* ***
890588 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAAAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * * **
890630 AGTCTCTAGGTTCAAAGCTGATAAGCAGACTAAGGG-AGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * *
890671 AGTCTCCAGGATCAAAGCCGACAGGCAGACTGAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * ***
890713 AGTCTCTAAGGTCAAAGTCGACAGGCAGACTGAGGGTAAAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * *
890755 AGTCTCCAAGGTCAAAGCCGACTGGCAGACTAAGGGAAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* ** * * * * * *
890797 AGTTTCCATAGTCAAAG-CGATAGGTAGACTGAGGGAAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * * *
890838 AGTCTCCAAGGTCAAAGCTGACAAGCAGACTGAGTGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * ** * *
890880 AGTCTCTAGGGTTAAAGCCGATAAACAGACTGAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * *
890922 AGTCTCCAGGGTCAAAGCCAACAAGTAGACTAAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
** * * *
890964 AGTCTATAGTGTCAAAGGCGACAGGCAGACTTAGGGTAGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * * *
891006 AGTCTCTAGGGTCAAAGCCGATAGGCAGACTTAGGGTGGGGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
* * *
891048 AGTCTCAAAGGTCAAAGCCGACAAGCAGACT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT
891079 TAGAGAAGGA
Statistics
Matches: 1839, Mismatches: 388, Indels: 71
0.80 0.17 0.03
Matches are distributed among these distances:
40 4 0.00
41 302 0.16
42 1220 0.66
43 196 0.11
44 10 0.01
45 105 0.06
46 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (42 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGGGA
Found at i:893328 original size:13 final size:13
Alignment explanation
Indices: 893310--893335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
893300 CAATTTTTTG
893310 TGTATCGATACAT
1 TGTATCGATACAT
893323 TGTATCGATACAT
1 TGTATCGATACAT
893336 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:893347 original size:32 final size:33
Alignment explanation
Indices: 893290--893353 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
893280 TACAAGCCAA
**
893290 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
893323 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
893354 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:895435 original size:21 final size:20
Alignment explanation
Indices: 895406--895448 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
895396 GACTAGTGTG
* *
895406 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
895427 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
895447 GG
1 GG
895449 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:897992 original size:15 final size:15
Alignment explanation
Indices: 897972--898002 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
897962 ATTTCGTTTG
*
897972 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
897987 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
898002 G
1 G
898003 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:902090 original size:13 final size:13
Alignment explanation
Indices: 902072--902097 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
902062 CAATTTTTTG
902072 TGTATCGATACAT
1 TGTATCGATACAT
902085 TGTATCGATACAT
1 TGTATCGATACAT
902098 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:902109 original size:32 final size:33
Alignment explanation
Indices: 902052--902115 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
902042 TACAAGCCAA
**
902052 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
902085 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
902116 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:913677 original size:8 final size:8
Alignment explanation
Indices: 913664--913707 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
913654 TGAAAAAGAA
913664 TTTTTTAT
1 TTTTTTAT
913672 TTTTTTAT
1 TTTTTTAT
*
913680 ATTTATTA-
1 -TTTTTTAT
913688 TTTTTTAT
1 TTTTTTAT
913696 TTTTTTAAT
1 TTTTTT-AT
913705 TTT
1 TTT
913708 AATTTCATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 6 0.19
8 14 0.45
9 11 0.35
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTAT
Found at i:914830 original size:71 final size:69
Alignment explanation
Indices: 914752--915106 Score: 186
Period size: 71 Copynumber: 5.1 Consensus size: 69
914742 ATATGTTTCT
914752 TCATGATTTGCATCTCCTATCACTTTTTCATTTGAACGTTGCTTTGCTTTCTTTCCATTTGCTTG
1 TCATGATTTGCATCTCC-ATCACTTTTTCATTTG-ACGTTGCTTTGCTTTCTTTCCATTTGCTTG
914817 TGTTCC
64 TGTTCC
* * * * * * * *
914823 TCATGA-TTGCATGCTTCATGA-TTTTCTCCATGTGGC-CTCCAATT-CATTTTGTTTGCCA--T
1 TCATGATTTGCAT-CTCCATCACTTTT-T-CATTTGACGTTGC-TTTGC--TTTCTTT-CCATTT
* *
914882 --ATGT-TTCT
59 GCTTGTGTTCC
* * * *
914890 TCATGATTTGCATCTTCCATCACTTTTTAAATTGCACGTTGCTTTGTTTTCTTTCCATTTGCTTA
1 TCATGATTTGCATC-TCCATCACTTTTTCATTTG-ACGTTGCTTTGCTTTCTTTCCATTTGCTTG
914955 TGTTCC
64 TGTTCC
* * * * * * * * *
914961 TCATGA-TTGCATGCTTCATGA-TTTTCTCCATATGGC-CTCCAATT-C-AT-TTT--GTTTGCT
1 TCATGATTTGCAT-CTCCATCACTTTT-T-CATTTGACGTTGC-TTTGCTTTCTTTCCATTTGC-
* *
915018 TTATGTTTCT
61 TTGTG-TTCC
*
915028 TCATGATTTGCATCTCCTATCACTTTTTTATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTG
1 TCATGATTTGCATCTCC-ATCACTTTTTCATTTG-ACGTTGCTTTGCTTTCTTTCCATTTGCTTG
915093 TGTTCC
64 TGTTCC
915099 TCATGATT
1 TCATGATT
915107 ACATGCTACA
Statistics
Matches: 201, Mismatches: 49, Indels: 68
0.63 0.15 0.21
Matches are distributed among these distances:
65 5 0.02
66 8 0.04
67 38 0.19
68 33 0.16
69 26 0.13
70 32 0.16
71 47 0.23
72 7 0.03
73 5 0.02
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.50
Consensus pattern (69 bp):
TCATGATTTGCATCTCCATCACTTTTTCATTTGACGTTGCTTTGCTTTCTTTCCATTTGCTTGTG
TTCC
Found at i:914941 original size:138 final size:138
Alignment explanation
Indices: 914691--915113 Score: 740
Period size: 138 Copynumber: 3.1 Consensus size: 138
914681 CCCCCATATG
914691 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
1 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
* *
914756 GATTTGCATCTCCTATCACTTTTTCATTTGAACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
66 GATTTGCATCTCCTATCACTTTTTAATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
914821 CCTCATGA
131 CCTCATGA
914829 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
1 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
* * *
914894 GATTTGCATCTTCC-ATCACTTTTTAAATTGCACGTTGCTTTGTTTTCTTTCCATTTGCTTATGT
66 GATTTGCATC-TCCTATCACTTTTTAATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGT
914958 TCCTCATGA
130 TCCTCATGA
* **
914967 TTGCATGCTTCATGATTTTCTCCATATGGCCTCCAATTCATTTTGTTTGCTTTATGTTTCTTCAT
1 TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
*
915032 GATTTGCATCTCCTATCACTTTTTTATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
66 GATTTGCATCTCCTATCACTTTTTAATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
915097 CCTCATGA
131 CCTCATGA
*
915105 TTACATGCT
1 TTGCATGCT
915114 ACATTGCATT
Statistics
Matches: 270, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
137 3 0.01
138 264 0.98
139 3 0.01
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.49
Consensus pattern (138 bp):
TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCAT
GATTTGCATCTCCTATCACTTTTTAATTTGCACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTT
CCTCATGA
Found at i:923033 original size:7 final size:7
Alignment explanation
Indices: 923021--923059 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
923011 CAAAACTCAA
923021 TTTATTT
1 TTTATTT
923028 TTTATTT
1 TTTATTT
923035 TTTATTT
1 TTTATTT
923042 TTTATTT
1 TTTATTT
923049 TTTGATTT
1 TTT-ATTT
923057 TTT
1 TTT
923060 TACGTATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:923593 original size:20 final size:20
Alignment explanation
Indices: 923556--923593 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
923546 AAAAAATGAG
*
923556 AAAAGAAAAGAAAGAAAAAA
1 AAAAGAAAAGAAACAAAAAA
923576 AAAAGAAAA-AACACAAAA
1 AAAAGAAAAGAA-ACAAAA
923594 TTGTAGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAGAAACAAAAAA
Found at i:925450 original size:154 final size:153
Alignment explanation
Indices: 925220--925648 Score: 434
Period size: 155 Copynumber: 2.8 Consensus size: 153
925210 CTGTAGGGGT
* * * **
925220 ATTTTCGTAATTTTTTAGAAACGAGTCCTAGTTTGTCACCTAGTCCGCTTTTACAT-T-GAAGGT
1 ATTTTAGTAATTTTTTAGAAACAAGTCCTAGATTGTCACCGGGTCCGC-TTTA-ATGTCGAAGGT
* * * * * *
925283 GGGGATTTAGGATAGGTTTATCTTTTCTATGATCCTTTTAAATCCTTTAGGGGTGTCGAGTACTT
64 GGGTATTTAGGATAGGTTCATCTTTTCTAT-ATCCTTTTAAATCCTTTAGGGATATAGAGCACTT
* * *
925348 TTATGTCAAAGGTATCCCCTAAAGGC
128 CTACGTCAAAGATATCCCCTAAAGGC
* * * * * *
925374 ATTTTTGTAATTTTCTAGAAACAAGTTCTAGGTTGTCACCGGGTCTGCTTTAATGTCGAAGCTGG
1 ATTTTAGTAATTTTTTAGAAACAAGTCCTAGATTGTCACCGGGTCCGCTTTAATGTCGAAGGTGG
* * *
925439 GTATTTAGGATAGGTTCATCCGATTTTGTA-ATCCTTTTTAAGT-CTTTTGGGATATAGAGCACT
66 GTATTTAGGATAGGTTCAT-C--TTTTCTATATCC-TTTTAAATCCTTTAGGGATATAGAGCACT
* **
925502 TCTACGTCTAAGATATCCCCTAGGGGC
127 TCTACGTCAAAGATATCCCCTAAAGGC
* * * * *
925529 ATTTTAGTAATTTTTTAGAACCAAGTCCTAGATTGTCATCGGGTCCGCTTTTATGCCGAAGGTGA
1 ATTTTAGTAATTTTTTAGAAACAAGTCCTAGATTGTCACCGGGTCCGCTTTAATGTCGAAGGTGG
*** *
925594 GTATTTAGGATAGGTTCATCCCATCTATAATCTTTTCTAAATCCTTTAGGGATAT
66 GTATTTAGGATAGGTTCATCTTTTCTAT-ATCCTTT-TAAATCCTTTAGGGATAT
925649 TAGGTGTTAT
Statistics
Matches: 223, Mismatches: 42, Indels: 19
0.79 0.15 0.07
Matches are distributed among these distances:
152 5 0.02
153 8 0.04
154 72 0.32
155 125 0.56
156 7 0.03
157 6 0.03
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.39
Consensus pattern (153 bp):
ATTTTAGTAATTTTTTAGAAACAAGTCCTAGATTGTCACCGGGTCCGCTTTAATGTCGAAGGTGG
GTATTTAGGATAGGTTCATCTTTTCTATATCCTTTTAAATCCTTTAGGGATATAGAGCACTTCTA
CGTCAAAGATATCCCCTAAAGGC
Found at i:930159 original size:29 final size:29
Alignment explanation
Indices: 930126--930196 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
930116 TAGCTATATG
*
930126 AAAAGTACCTCTGTGAAAAGTATTTATGGT
1 AAAAGTACCTCTGT-AAAAGTATTTATGCT
* * *
930156 -AAAGTACCTCTATAAAAGTGTTTCTGCT
1 AAAAGTACCTCTGTAAAAGTATTTATGCT
930184 AAAAGTACCTCTG
1 AAAAGTACCTCTG
930197 GCAAAATATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 12 0.34
29 23 0.66
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (29 bp):
AAAAGTACCTCTGTAAAAGTATTTATGCT
Found at i:930233 original size:15 final size:15
Alignment explanation
Indices: 930156--930241 Score: 61
Period size: 15 Copynumber: 5.9 Consensus size: 15
930146 TATTTATGGT
*
930156 AAAGTACCTCTA-TA
1 AAAGTATCTCTACTA
* * *
930170 AAAGTGTTTCTGCTA
1 AAAGTATCTCTACTA
* *
930185 AAAGTACCTCTGGC-A
1 AAAGTATCTCT-ACTA
* *
930200 AAA-TATCTTTACCA
1 AAAGTATCTCTACTA
*
930214 AAAGTATTTCTACTA
1 AAAGTATCTCTACTA
930229 AAAGTATCTCTAC
1 AAAGTATCTCTAC
930242 CAAAGATTGT
Statistics
Matches: 54, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
13 1 0.02
14 17 0.31
15 34 0.63
16 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (15 bp):
AAAGTATCTCTACTA
Found at i:930455 original size:17 final size:16
Alignment explanation
Indices: 930425--930461 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
930415 ATAAATTAAA
*
930425 ATATTTATATTAATGT
1 ATATTTATATTAATAT
930441 ATATTTATAATTAATAT
1 ATATTTAT-ATTAATAT
930458 ATAT
1 ATAT
930462 AAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATATTTATATTAATAT
Found at i:932366 original size:2 final size:2
Alignment explanation
Indices: 932361--932409 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
932351 ACAAACATTC
932361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
932403 AT AT AT A
1 AT AT AT A
932410 AAGTAGAGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:932504 original size:14 final size:14
Alignment explanation
Indices: 932485--932516 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
932475 TTTTCACTTT
*
932485 TTTAAATATTTGTA
1 TTTAAATATTTATA
932499 TTTAAATATTTATA
1 TTTAAATATTTATA
932513 TTTA
1 TTTA
932517 TTATTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTAAATATTTATA
Found at i:932559 original size:21 final size:22
Alignment explanation
Indices: 932534--932575 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
932524 TATTTAAACA
*
932534 TAAATAT-AAAAATATATTTTT
1 TAAATATAAAAAAAATATTTTT
932555 TAAATATAAAAAAAATATTTT
1 TAAATATAAAAAAAATATTTT
932576 AAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATATAAAAAAAATATTTTT
Found at i:932607 original size:17 final size:17
Alignment explanation
Indices: 932558--932613 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
932548 TATTTTTTAA
*
932558 ATATAAAAAAAATATTT
1 ATATAAAATAAATATTT
932575 -TA-AAAATTAAACATATTT
1 ATATAAAA-T-AA-ATATTT
932593 ATATAAAATAAATATTT
1 ATATAAAATAAATATTT
932610 ATAT
1 ATAT
932614 CGTATATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
15 4 0.12
16 2 0.06
17 12 0.36
18 8 0.24
19 3 0.09
20 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATAAAATAAATATTT
Found at i:933117 original size:3 final size:3
Alignment explanation
Indices: 933109--933143 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
933099 AAATTATATT
*
933109 ATA ATA ATA ATA AAA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
933144 CAGTCTATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:933692 original size:32 final size:32
Alignment explanation
Indices: 933656--933728 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
933646 ATTAAAATTT
* *
933656 TTTAATGATT-ATTAAATTTGTGAGTAATTATG
1 TTTAAT-ATTAATTAAATTTATGAGTAATTATA
933688 TTTAATATTAATTAAATTTATGAGTAATTATA
1 TTTAATATTAATTAAATTTATGAGTAATTATA
933720 TTTAATATT
1 TTTAATATT
933729 CATCAAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 3 0.08
32 35 0.92
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (32 bp):
TTTAATATTAATTAAATTTATGAGTAATTATA
Found at i:933699 original size:16 final size:16
Alignment explanation
Indices: 933680--933728 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
933670 AATTTGTGAG
*
933680 TAATTATGTTTAATAT
1 TAATTATATTTAATAT
* *
933696 TAATTAAATTT-ATGAG
1 TAATTATATTTAAT-AT
933712 TAATTATATTTAATAT
1 TAATTATATTTAATAT
933728 T
1 T
933729 CATCAAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
TAATTATATTTAATAT
Found at i:934245 original size:15 final size:15
Alignment explanation
Indices: 934225--934253 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
934215 GCATTTAATA
934225 TTTTTTTTATAAATT
1 TTTTTTTTATAAATT
934240 TTTTTTTTATAAAT
1 TTTTTTTTATAAAT
934254 ATTAGATTAC
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTTTATAAATT
Found at i:934419 original size:16 final size:16
Alignment explanation
Indices: 934395--934437 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
934385 TTTTTAAGAG
*
934395 TTTTTAAAAATTTTTA
1 TTTTAAAAAATTTTTA
934411 TTTTAAAAAAATTTTTA
1 TTTT-AAAAAATTTTTA
**
934428 AATTAAAAAA
1 TTTTAAAAAA
934438 ATCACACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAAAAAATTTTTA
Found at i:934426 original size:18 final size:17
Alignment explanation
Indices: 934400--934439 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
934390 AAGAGTTTTT
**
934400 AAAAATTTTTATTTTAA
1 AAAAATTTTTAAATTAA
934417 AAAAATTTTTAAATTAA
1 AAAAATTTTTAAATTAA
934434 AAAAAT
1 AAAAAT
934440 CACACTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTTTTAAATTAA
Found at i:940167 original size:40 final size:39
Alignment explanation
Indices: 940121--940244 Score: 98
Period size: 40 Copynumber: 3.2 Consensus size: 39
940111 TGAAAAAAAT
940121 TATTATTAATTATTTATTTTATTTAATGGTAATTTAAAGA
1 TATTATTAATTATTTATTTTATTTAAT-GTAATTTAAAGA
* * ** *
940161 TATTATTTATCGATGTTAAAATT-TTTAGTG-AA---AAA-A
1 TATTATTAAT-TAT-TT-ATTTTATTTAATGTAATTTAAAGA
*
940197 TTATTATTAATTATTTATTTTATTTAAAAGTAATTTAAAGA
1 -TATTATTAATTATTTATTTTATTT-AATGTAATTTAAAGA
940238 TATTATT
1 TATTATT
940245 TATTTTAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 22
0.65 0.12 0.23
Matches are distributed among these distances:
34 3 0.05
35 5 0.08
36 5 0.08
37 14 0.23
40 21 0.34
41 4 0.06
42 7 0.11
43 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (39 bp):
TATTATTAATTATTTATTTTATTTAATGTAATTTAAAGA
Found at i:940220 original size:77 final size:78
Alignment explanation
Indices: 940092--940247 Score: 278
Period size: 77 Copynumber: 2.0 Consensus size: 78
940082 TAGAATCATG
**
940092 TCGATGTTAAAATTTTTAATGAAAAAAATTATTATTAATTATTTATTTTATTTAATGGTAATTTA
1 TCGATGTTAAAATTTTTAATGAAAAAAATTATTATTAATTATTTATTTTATTTAAAAGTAATTTA
940157 AAGATATTATTTA
66 AAGATATTATTTA
*
940170 TCGATGTTAAAATTTTTAGTG-AAAAAATTATTATTAATTATTTATTTTATTTAAAAGTAATTTA
1 TCGATGTTAAAATTTTTAATGAAAAAAATTATTATTAATTATTTATTTTATTTAAAAGTAATTTA
940234 AAGATATTATTTA
66 AAGATATTATTTA
940247 T
1 T
940248 TTTAATAATA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 55 0.73
78 20 0.27
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.50
Consensus pattern (78 bp):
TCGATGTTAAAATTTTTAATGAAAAAAATTATTATTAATTATTTATTTTATTTAAAAGTAATTTA
AAGATATTATTTA
Found at i:940295 original size:15 final size:14
Alignment explanation
Indices: 940254--940309 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
940244 TTATTTTAAT
940254 AATAATTTAAATTA
1 AATAATTTAAATTA
** *
940268 AATTTTTTTAATTTA
1 AA-TAATTTAAATTA
*
940283 TATAATTTAAATTA
1 AATAATTTAAATTA
940297 AATAAATTTAAAT
1 AAT-AATTTAAAT
940310 GAACTTAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATTTAAATTA
Found at i:941554 original size:19 final size:19
Alignment explanation
Indices: 941519--941556 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
941509 ATTCTGTAGA
* *
941519 TAAAATTTTAGATTTTTTT
1 TAAAATTTTAAAATTTTTT
941538 TAAAATTTTAAAATTTTTT
1 TAAAATTTTAAAATTTTTT
941557 ATATTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TAAAATTTTAAAATTTTTT
Found at i:942742 original size:26 final size:27
Alignment explanation
Indices: 942708--942760 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
942698 CGTGTTGATA
* *
942708 AATATATATT-TTTTATTTTAGATATAT
1 AATATATATTAGTATATTTT-GATATAT
942735 AATA-ATATTAGTATATTTTGATATAT
1 AATATATATTAGTATATTTTGATATAT
942761 TATTTCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (27 bp):
AATATATATTAGTATATTTTGATATAT
Found at i:943722 original size:25 final size:25
Alignment explanation
Indices: 943694--943741 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
943684 CCACCATGAC
943694 ATTACATGTAAAATGAAAAAGAACT
1 ATTACATGTAAAATGAAAAAGAACT
*
943719 ATTACTTGTAAAATGAAAAAGAA
1 ATTACATGTAAAATGAAAAAGAA
943742 TTAAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (25 bp):
ATTACATGTAAAATGAAAAAGAACT
Found at i:944328 original size:19 final size:20
Alignment explanation
Indices: 944304--944354 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
944294 CGATACAAAA
**
944304 TATCGATACATGTTC-ATTG
1 TATCGATACATGCACAATTG
944323 TATCGATACATGCACAATTG
1 TATCGATACATGCACAATTG
944343 TATCGATACATG
1 TATCGATACATG
944355 AAACTGGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCACAATTG
Found at i:944421 original size:33 final size:32
Alignment explanation
Indices: 944384--944446 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
944374 TACCATTGTT
*
944384 TGTATGGATACATGGCAT-ATTGTATCGATATAA
1 TGTATCGATACAT-G-ATAATTGTATCGATATAA
944417 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGAT-AATTGTATCGATA
944447 CATTGCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 2 0.07
32 1 0.04
33 24 0.89
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATGATAATTGTATCGATATAA
Found at i:946055 original size:3 final size:3
Alignment explanation
Indices: 946040--946069 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
946030 AACCATCAAA
*
946040 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
946070 TTTGATTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:951111 original size:20 final size:20
Alignment explanation
Indices: 951086--951128 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
951076 GTAGCCACTT
951086 CCAGGTCGCGATCGGCATTC
1 CCAGGTCGCGATCGGCATTC
951106 CCAGGTCGCGATCGGCATTC
1 CCAGGTCGCGATCGGCATTC
951126 CCA
1 CCA
951129 TATCGCAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.37, G:0.28, T:0.19
Consensus pattern (20 bp):
CCAGGTCGCGATCGGCATTC
Found at i:951134 original size:20 final size:20
Alignment explanation
Indices: 951086--951134 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
951076 GTAGCCACTT
*
951086 CCAGGTCGCGATCGGCATTC
1 CCAGATCGCGATCGGCATTC
*
951106 CCAGGTCGCGATCGGCATTC
1 CCAGATCGCGATCGGCATTC
*
951126 CCATATCGC
1 CCAGATCGC
951135 AACCGGGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.37, G:0.27, T:0.20
Consensus pattern (20 bp):
CCAGATCGCGATCGGCATTC
Found at i:952554 original size:21 final size:22
Alignment explanation
Indices: 952513--952556 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
952503 GTTTGAAAAT
952513 AAATTTTTATCAAGGGAGAGAA
1 AAATTTTTATCAAGGGAGAGAA
952535 AAATTTTTATCAAGGG-GAGAA
1 AAATTTTTATCAAGGGAGAGAA
952556 A
1 A
952557 TTTTTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (22 bp):
AAATTTTTATCAAGGGAGAGAA
Found at i:953194 original size:20 final size:19
Alignment explanation
Indices: 953148--953204 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
953138 TTGTATCGAT
* *
953148 ACATTGTATTGATACATGT
1 ACATTGTATCGATACATGC
*
953167 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
953186 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
953205 AAACTGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:958098 original size:19 final size:20
Alignment explanation
Indices: 958054--958105 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
958044 ACACCCAAAT
958054 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
958074 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
958093 GTATCGATACATA
1 GTATCGATACATA
958106 AAACTAGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:958186 original size:14 final size:14
Alignment explanation
Indices: 958169--958211 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
958159 CTTCACGTAG
*
958169 CACTGTTCACATAT
1 CACTGTTCATATAT
*
958183 CACTGTTCATGTAT
1 CACTGTTCATATAT
958197 CACTGTTCATATAT
1 CACTGTTCATATAT
958211 C
1 C
958212 GATACATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (14 bp):
CACTGTTCATATAT
Found at i:960336 original size:21 final size:21
Alignment explanation
Indices: 960312--960369 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
960302 AATGTTTTTA
*
960312 AAAAGAAATTAAATGAATTAG
1 AAAAGAAAATAAATGAATTAG
960333 AAAAGAAAATAAATGAATTAG
1 AAAAGAAAATAAATGAATTAG
** *
960354 AGGAGAAAAGAAATGA
1 AAAAGAAAATAAATGA
960370 GTTGCAACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (21 bp):
AAAAGAAAATAAATGAATTAG
Found at i:961938 original size:13 final size:13
Alignment explanation
Indices: 961920--961958 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
961910 AAGAAATTTA
*
961920 TATCGATATATTG
1 TATCGATAAATTG
*
961933 TATCGATAAAATG
1 TATCGATAAATTG
*
961946 TATCGATACATTG
1 TATCGATAAATTG
961959 CTTCAGTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (13 bp):
TATCGATAAATTG
Found at i:962782 original size:52 final size:51
Alignment explanation
Indices: 962704--962828 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 51
962694 TGGTTTTGAA
962704 ATAACAAAAAGGGAGAGAGATTGTTGTTGATAAATTAGTATCAAATTAGCTT
1 ATAACAAAAAGGG-GAGAGATTGTTGTTGATAAATTAGTATCAAATTAGCTT
962756 ATAACAAAAAGGAGGAGAGATTGTTGTTGATAAATTAGTATCAAATTAGCTT
1 ATAACAAAAAGG-GGAGAGATTGTTGTTGATAAATTAGTATCAAATTAGCTT
962808 ATAACAAAAAGGGGGAGAGAT
1 ATAACAAAAA-GGGGAGAGAT
962829 GAAAATATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
52 68 0.96
53 3 0.04
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (51 bp):
ATAACAAAAAGGGGAGAGATTGTTGTTGATAAATTAGTATCAAATTAGCTT
Found at i:962886 original size:16 final size:16
Alignment explanation
Indices: 962865--962895 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
962855 TTAAAAGGAT
962865 GAAAATTCGTATTAAA
1 GAAAATTCGTATTAAA
*
962881 GAAAATTTGTATTAA
1 GAAAATTCGTATTAA
962896 GGGGAAGAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (16 bp):
GAAAATTCGTATTAAA
Found at i:963768 original size:32 final size:33
Alignment explanation
Indices: 963711--963775 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
963701 CACACCCAGC
963711 TGTATCGAGACATATTTCTTAGTATCAATACAT
1 TGTATCGAGACATATTTCTTAGTATCAATACAT
* * *
963744 TGTATCGATACATA-TTCTTGGTATCGATACAT
1 TGTATCGAGACATATTTCTTAGTATCAATACAT
963776 CATGAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGAGACATATTTCTTAGTATCAATACAT
Found at i:964393 original size:32 final size:34
Alignment explanation
Indices: 964348--964410 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
964338 CAAGTAATTA
*
964348 AGAGGTTCTATCTTAGCC-TTG-AAAGATAGTGT
1 AGAGGTTCCATCTTAGCCTTTGTAAAGATAGTGT
964380 AGAGGTTCCATCTTAGCCTTTGTAAAGATAG
1 AGAGGTTCCATCTTAGCCTTTGTAAAGATAG
964411 GGTTGTAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 17 0.61
33 3 0.11
34 8 0.29
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (34 bp):
AGAGGTTCCATCTTAGCCTTTGTAAAGATAGTGT
Found at i:966251 original size:22 final size:22
Alignment explanation
Indices: 966226--966271 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
966216 CTTTCTAAAC
966226 AAGGGAT-TGATCCTATATGAAT
1 AAGGGATCT-ATCCTATATGAAT
* *
966248 AAGGGATCTATCCTTTTTGAAT
1 AAGGGATCTATCCTATATGAAT
966270 AA
1 AA
966272 AAGATCAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (22 bp):
AAGGGATCTATCCTATATGAAT
Found at i:966920 original size:13 final size:13
Alignment explanation
Indices: 966899--966928 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
966889 CGATACATGG
*
966899 TACATTGTATCGA
1 TACAATGTATCGA
966912 TACAATGTATCGA
1 TACAATGTATCGA
966925 TACA
1 TACA
966929 TGAAGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:966926 original size:33 final size:32
Alignment explanation
Indices: 966884--966948 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
966874 TACCACTGTT
966884 TGTATCGATACATG-GTACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
966917 TGTATCGATACATGAAGAATTGTATCGATACA
1 TGTATCGATACATG-AGAATTGTATCGATACA
966949 TTGCCTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:972492 original size:13 final size:13
Alignment explanation
Indices: 972474--972501 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
972464 CAATGTTCTT
972474 TGTATCGATACAA
1 TGTATCGATACAA
972487 TGTATCGATACAA
1 TGTATCGATACAA
972500 TG
1 TG
972502 GTTACTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:972612 original size:21 final size:21
Alignment explanation
Indices: 972588--972631 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
972578 CAAACCCTAA
972588 CAAAT-TTTCATCAAATTTCTT
1 CAAATCTTTC-TCAAATTTCTT
972609 CAAATCTTTCTCAAATTTCTT
1 CAAATCTTTCTCAAATTTCTT
972630 CA
1 CA
972632 TTTTCACTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (21 bp):
CAAATCTTTCTCAAATTTCTT
Found at i:977987 original size:78 final size:78
Alignment explanation
Indices: 977854--978041 Score: 189
Period size: 78 Copynumber: 2.4 Consensus size: 78
977844 TATGATAGAT
* * * * * *
977854 ATTTCATATTATTATCGAGTCCTTTAGGGTTACTAATATACTTTCATATCGAAGGTGTACTTTTA
1 ATTTCATATTATTATCAAGTCCTTTAGGGTCACCAAGATACTTTCATATCAAAGGTGTACTTTAA
977919 GGGTACAATAGCC
66 GGGTACAATAGCC
* ** * * *
977932 ATTTCATCTTATTATCAAGTTTTTTAGGGTCACCAAGGTACTTTCATGTTAAAGGTGTACTTTAA
1 ATTTCATATTATTATCAAGTCCTTTAGGGTCACCAAGATACTTTCATATCAAAGGTGTACTTTAA
* * * *
977997 TGGTATAATGGTC
66 GGGTACAATAGCC
* * *
978010 ATTTCATGTTATTA-CTGAGTCCTTTAAGGTCA
1 ATTTCATATTATTATC-AAGTCCTTTAGGGTCA
978042 TTGGTAACTT
Statistics
Matches: 88, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
77 1 0.01
78 87 0.99
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (78 bp):
ATTTCATATTATTATCAAGTCCTTTAGGGTCACCAAGATACTTTCATATCAAAGGTGTACTTTAA
GGGTACAATAGCC
Found at i:979526 original size:40 final size:40
Alignment explanation
Indices: 979482--979564 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
979472 AGTGTTCCTG
* *
979482 TCATTTTATTGTCAAAATAGGCATTGGCAATGCTCAAAGA
1 TCATTTTATTGTCAAAACAAGCATTGGCAATGCTCAAAGA
979522 TCATTTTATTGTCAAAACAAGCATTGGCAATGCTCAAAGA
1 TCATTTTATTGTCAAAACAAGCATTGGCAATGCTCAAAGA
979562 TCA
1 TCA
979565 GCTCGTGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (40 bp):
TCATTTTATTGTCAAAACAAGCATTGGCAATGCTCAAAGA
Found at i:982050 original size:20 final size:20
Alignment explanation
Indices: 982025--982105 Score: 92
Period size: 20 Copynumber: 4.0 Consensus size: 20
982015 AGCTTAGGTA
982025 ATGTAATTTGATAATGTTTT
1 ATGTAATTTGATAATGTTTT
*
982045 ATGTAATTT-AGTGATGTTTT
1 ATGTAATTTGA-TAATGTTTT
* *
982065 GTGTAATTTTGGTAATGTTTT
1 ATGTAA-TTTGATAATGTTTT
*
982086 ATATAATTTGATAATAGTTT
1 ATGTAATTTGATAAT-GTTT
982106 ACATAAGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 30 0.60
21 19 0.38
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.54
Consensus pattern (20 bp):
ATGTAATTTGATAATGTTTT
Found at i:982105 original size:21 final size:20
Alignment explanation
Indices: 982028--982118 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
982018 TTAGGTAATG
*
982028 TAATTTGATAATGTTTTATG
1 TAATTTGATAATGTTTTATA
* * *
982048 TAATTT-AGTGATGTTTTGTG
1 TAATTTGA-TAATGTTTTATA
*
982068 TAATTTTGGTAATGTTTTATA
1 TAA-TTTGATAATGTTTTATA
*
982089 TAATTTGATAATAG-TTTACA
1 TAATTTGATAAT-GTTTTATA
982109 TAAGTTTGAT
1 TAA-TTTGAT
982119 GATGATATGT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
19 1 0.02
20 35 0.60
21 22 0.38
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (20 bp):
TAATTTGATAATGTTTTATA
Found at i:982369 original size:20 final size:21
Alignment explanation
Indices: 982344--982383 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
982334 ACCATTATTA
982344 GGTAATATTT-TATGTAATTT
1 GGTAATATTTATATGTAATTT
*
982364 GGTAATGTTTATATGTAATT
1 GGTAATATTTATATGTAATT
982384 CGATAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (21 bp):
GGTAATATTTATATGTAATTT
Found at i:982380 original size:21 final size:20
Alignment explanation
Indices: 982344--982393 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
982334 ACCATTATTA
* *
982344 GGTAATATTTTATGTAATTT
1 GGTAATGTTTTATGTAATTC
982364 GGTAATGTTTATATGTAATTC
1 GGTAATGTTT-TATGTAATTC
*
982385 GATAATGTT
1 GGTAATGTT
982394 ATGTTTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (20 bp):
GGTAATGTTTTATGTAATTC
Found at i:982448 original size:20 final size:20
Alignment explanation
Indices: 982423--982476 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
982413 AGGTTTCATG
982423 GGTAATGTTTTATGTAATTT
1 GGTAATGTTTTATGTAATTT
*
982443 GGTAATATTTGTATGTAATTT
1 GGTAATGTTT-TATGTAATTT
*
982464 AGTAATGTTTTAT
1 GGTAATGTTTTAT
982477 ATAGTTTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.54
Consensus pattern (20 bp):
GGTAATGTTTTATGTAATTT
Found at i:982744 original size:21 final size:20
Alignment explanation
Indices: 982718--982770 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
982708 TAGGTAATGC
982718 TTTATGTAATT-GGATAATAT
1 TTTATGTAATTCGG-TAATAT
982738 TTGTATGTAATTCGGTAATAT
1 TT-TATGTAATTCGGTAATAT
*
982759 TTTATATAATTC
1 TTTATGTAATTC
982771 TAATAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.37
21 17 0.57
22 2 0.07
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (20 bp):
TTTATGTAATTCGGTAATAT
Found at i:982976 original size:280 final size:283
Alignment explanation
Indices: 982328--983048 Score: 671
Period size: 287 Copynumber: 2.5 Consensus size: 283
982318 ACTAGCATTT
* * * *
982328 CTAATGACCATTATTAGGTAATATTTTATGTAATTTGGTAATGTTTATATGTAATTCG-ATAATG
1 CTAATGACAATTATTAGGTAATGTTATATGTAATTTTGTAATGTTTATATGTAATT-GAATAATG
* * * * * *
982392 TTATGTTTAACTCTATTAAAAAGGTTTCATGGGTAATGTTTTATGTAATTTGGTAATATTTGTAT
65 TTATG-ATAATTTTGTTAAAAAGGTTTCATAGGTAATGCTTTATGTAATTTGGTAATATTTGTAT
* * * * * * ** *
982457 GTAATTTAGTAATGTTTTATATAGTTTCGATGAGAACTTGTTAAGTAATATTTTATGTAGTTGGG
129 GTAATTCAGTAATATTTTATATAATTTCAATAAAAACTCATTAAGTAATATTTTATGTAATT-GG
* * ** *
982522 TAAAGTTCGTATGTAAATTAGGTAATGTTTTACATAACTTGGTAAATTTTTATATAATTTGATCA
193 T--AGTTCGTATATAAATTAAGTAATGTTTTACATAACTTGAAAAATTTTTACATAATTTGATCA
** *
982587 TGTTCTATATAATTTGATACCAATATTT
256 TGTTCTATATAATTCAATACCAATATTG
* * * * * * *
982615 CTAATGATAATTATTAGGCAATGTTATATATAA-TTTGACAATGTTTATATGTAGTTTAGTAATG
1 CTAATGACAATTATTAGGTAATGTTATATGTAATTTTG-TAATGTTTATATGTAATTGAATAATG
*
982679 TTAT-ATGTATCTTTGTTAAAAAGGTTTCATAGGTAATGCTTTATGTAA-TTGGATAATATTTGT
65 TTATGAT-AAT-TTTGTTAAAAAGGTTTCATAGGTAATGCTTTATGTAATTTGG-TAATATTTGT
* * * *
982742 ATGTAATTCGGTAATATTTTATATAA-TTCTAATAAAAAGTCATTATGTAATGCTTTT-TGTAAT
127 ATGTAATTCAGTAATATTTTATATAATTTC-AATAAAAACTCATTAAGTAAT-ATTTTATGTAAT
* * *
982805 T-GT-G-T-GTATAT-AATATAAGTAATGTTTTACATAATTTGAAAATATTTTTACGTAATTTGG
190 TGGTAGTTCGTATATAAAT-TAAGTAATGTTTTACATAACTTGAAAA-ATTTTTACATAATTTGA
* * ** *
982865 TTATGTTTTATATGCTTCAATACTAATATTG
253 TCATGTTCTATATAATTCAATACCAATATTG
* * *
982896 CT-GTGACAATTATTAGGTAATGTTATATGTAATTTTGTAATCTTTATATGTAACTGAATAATGT
1 CTAATGACAATTATTAGGTAATGTTATATGTAATTTTGTAATGTTTATATGTAATTGAATAATGT
* ** ** * * *
982960 TATGCATAATTTTGTTAAAAAGGTTTCATAAGTAATATTTTACATAATTGGGTAAT-TTT-TTTT
66 TATG-ATAATTTTGTTAAAAAGGTTTCATAGGTAATGCTTTATGTAATTTGGTAATATTTGTATG
*
983023 TAATTCAGTAATGA-TTTATGTAATTT
130 TAATTCAGTAAT-ATTTTATATAATTT
983049 TGCTAACAAC
Statistics
Matches: 351, Mismatches: 68, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
278 21 0.06
279 9 0.03
280 114 0.32
281 49 0.14
282 3 0.01
285 3 0.01
286 11 0.03
287 137 0.39
288 4 0.01
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (283 bp):
CTAATGACAATTATTAGGTAATGTTATATGTAATTTTGTAATGTTTATATGTAATTGAATAATGT
TATGATAATTTTGTTAAAAAGGTTTCATAGGTAATGCTTTATGTAATTTGGTAATATTTGTATGT
AATTCAGTAATATTTTATATAATTTCAATAAAAACTCATTAAGTAATATTTTATGTAATTGGTAG
TTCGTATATAAATTAAGTAATGTTTTACATAACTTGAAAAATTTTTACATAATTTGATCATGTTC
TATATAATTCAATACCAATATTG
Found at i:983248 original size:21 final size:20
Alignment explanation
Indices: 983205--983262 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
983195 GATGACAATT
*
983205 ATTTGGAAATGTTATACATA
1 ATTTGGTAATGTTATACATA
* *
983225 ATTTGGTAATGTTTGTATATA
1 ATTTGGTAATG-TTATACATA
*
983246 ATTTGGTAATATTATAC
1 ATTTGGTAATGTTATAC
983263 TTAACTCTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTTGGTAATGTTATACATA
Found at i:983644 original size:21 final size:20
Alignment explanation
Indices: 983585--983647 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
983575 GATGAAAAGT
*
983585 AATTAGGTATTTTTTATGT-
1 AATTAGGTATGTTTTATGTA
*
983604 AATT-GGATAAAGTTTGTATGTA
1 AATTAGG-T-ATGTTT-TATGTA
983626 AATTAGGTCATGTTTTATGTA
1 AATTAGGT-ATGTTTTATGTA
983647 A
1 A
983648 TTTTGTCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 2 0.06
19 5 0.14
20 4 0.11
21 12 0.34
22 10 0.29
23 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.48
Consensus pattern (20 bp):
AATTAGGTATGTTTTATGTA
Found at i:983725 original size:20 final size:21
Alignment explanation
Indices: 983700--983751 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
983690 ATTATTAGGA
*
983700 AATGTTATACT-TAAGTTGGT
1 AATGTTATACTGTAAGTTGAT
*
983720 AATGTTTATA-TGTAATTTGAT
1 AATG-TTATACTGTAAGTTGAT
983741 AATGTTATACT
1 AATGTTATACT
983752 CTACTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (21 bp):
AATGTTATACTGTAAGTTGAT
Found at i:983830 original size:20 final size:21
Alignment explanation
Indices: 983773--983831 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
983763 GTTTCATAAG
983773 TAATGTTTTATGTAATT-AGA
1 TAATGTTTTATGTAATTCAGA
** *
983793 TAACATTTGTAAGTAATTCA-A
1 TAATGTTT-TATGTAATTCAGA
983814 TAATGTTTTATGTAATTC
1 TAATGTTTTATGTAATTC
983832 TAATGAAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 15 0.48
21 15 0.48
22 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (21 bp):
TAATGTTTTATGTAATTCAGA
Found at i:983923 original size:21 final size:20
Alignment explanation
Indices: 983887--983982 Score: 124
Period size: 21 Copynumber: 4.7 Consensus size: 20
983877 TGTATGTGTT
*
983887 ATATTTTATATAATTT-GATA
1 ATATTTTATGTAATTTAG-TA
983907 ATATTTGTATGTAATTTAGTA
1 ATATTT-TATGTAATTTAGTA
*
983928 ATATTTTATATAATTT-GATA
1 ATATTTTATGTAATTTAG-TA
983948 ATATTTGTATGTAATTTAGTA
1 ATATTT-TATGTAATTTAGTA
983969 ATATTTTATGTAAT
1 ATATTTTATGTAAT
983983 CTAATGAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.01
20 31 0.46
21 34 0.50
22 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.54
Consensus pattern (20 bp):
ATATTTTATGTAATTTAGTA
Found at i:983944 original size:41 final size:41
Alignment explanation
Indices: 983887--983982 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
983877 TGTATGTGTT
983887 ATATTTTATATAATTTGATAATATTTGTATGTAATTTAGTA
1 ATATTTTATATAATTTGATAATATTTGTATGTAATTTAGTA
983928 ATATTTTATATAATTTGATAATATTTGTATGTAATTTAGTA
1 ATATTTTATATAATTTGATAATATTTGTATGTAATTTAGTA
*
983969 ATATTTTATGTAAT
1 ATATTTTATATAAT
983983 CTAATGAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.54
Consensus pattern (41 bp):
ATATTTTATATAATTTGATAATATTTGTATGTAATTTAGTA
Found at i:985685 original size:21 final size:20
Alignment explanation
Indices: 985649--985698 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
985639 ATTACTAGGC
985649 AATGTTATACGTAATTTGGT
1 AATGTTATACGTAATTTGGT
*
985669 AATGTTGATATGTAATTTGGT
1 AATGTT-ATACGTAATTTGGT
*
985690 AATATTATA
1 AATGTTATA
985699 TATAACTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (20 bp):
AATGTTATACGTAATTTGGT
Found at i:985782 original size:10 final size:10
Alignment explanation
Indices: 985767--985842 Score: 57
Period size: 10 Copynumber: 7.4 Consensus size: 10
985757 AATTATTAAT
985767 ATTTTATATA
1 ATTTTATATA
985777 ATTTTATA-A
1 ATTTTATATA
*
985786 TGTTTTATATA
1 -ATTTTATATA
*
985797 ATTTT-TGTCA
1 ATTTTATAT-A
*
985807 TATTTTATGTA
1 -ATTTTATATA
* *
985818 ATTTTGTAATG
1 ATTTTAT-ATA
985829 ATTTTATATA
1 ATTTTATATA
985839 ATTT
1 ATTT
985843 AGTAGTGTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 3 0.06
10 32 0.62
11 14 0.27
12 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.61
Consensus pattern (10 bp):
ATTTTATATA
Found at i:985791 original size:20 final size:20
Alignment explanation
Indices: 985763--985842 Score: 106
Period size: 21 Copynumber: 3.9 Consensus size: 20
985753 TGAGAATTAT
*
985763 TAATATTTTATATAATTTTA
1 TAATATTTTATATAATTTTG
*
985783 TAATGTTTTATATAATTTTTG
1 TAATATTTTATATAA-TTTTG
* *
985804 TCATATTTTATGTAATTTTG
1 TAATATTTTATATAATTTTG
985824 TAATGATTTTATATAATTT
1 TAAT-ATTTTATATAATTT
985843 AGTAGTGTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 22 0.43
21 29 0.57
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (20 bp):
TAATATTTTATATAATTTTG
Found at i:988861 original size:28 final size:29
Alignment explanation
Indices: 988817--988875 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
988807 CTTTTGACTC
**
988817 ATTTGCAATTTAGTCC-TAAATTTTCAAA
1 ATTTGCAATTTAGTCCTTAAACATTCAAA
988845 ATTTGCAATTTTA-TCCTTAAACATTCAAA
1 ATTTGCAA-TTTAGTCCTTAAACATTCAAA
988874 AT
1 AT
988876 ATCACTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.42
Consensus pattern (29 bp):
ATTTGCAATTTAGTCCTTAAACATTCAAA
Found at i:989681 original size:23 final size:23
Alignment explanation
Indices: 989637--989681 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
989627 GCTAGTGCTT
* *
989637 TTTTCTCTTTTTTTTTTGTTTTG
1 TTTTCTATTTTTCTTTTGTTTTG
989660 TTTTCTATTCTTTCTTTT-TTTT
1 TTTTCTATT-TTTCTTTTGTTTT
989682 CTTCCTCTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.82
Consensus pattern (23 bp):
TTTTCTATTTTTCTTTTGTTTTG
Found at i:989855 original size:26 final size:27
Alignment explanation
Indices: 989828--989879 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
989818 TATTGCTGTG
989828 TTTGCTGTTTGTTTTCTTT-TTTTTTGT
1 TTTGCT-TTTGTTTTCTTTCTTTTTTGT
* *
989855 TTTGGTTTTGTTTTTTTTCTTTTTT
1 TTTGCTTTTGTTTTCTTTCTTTTTT
989880 CTCTTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.00, C:0.06, G:0.13, T:0.81
Consensus pattern (27 bp):
TTTGCTTTTGTTTTCTTTCTTTTTTGT
Found at i:989946 original size:33 final size:32
Alignment explanation
Indices: 989909--989980 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 32
989899 GTTTTTTCCA
*
989909 TCCTTCTCTTGC-TATTTCGATTGCTTTTTTTTT
1 TCCTTCTCTTGCTTA-TTCGATT-CTCTTTTTTT
* *
989942 TCCTTTTTTTGCTTGATTCGATTCTCTTTTTTT
1 TCCTTCTCTTGCTT-ATTCGATTCTCTTTTTTT
989975 T-CTTCT
1 TCCTTCT
989981 TCTTTCGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
32 4 0.12
33 20 0.61
34 8 0.24
35 1 0.03
ACGTcount: A:0.06, C:0.21, G:0.08, T:0.65
Consensus pattern (32 bp):
TCCTTCTCTTGCTTATTCGATTCTCTTTTTTT
Found at i:990177 original size:25 final size:25
Alignment explanation
Indices: 990111--990187 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
990101 TCCTGTAGTG
*
990111 GTTTCTCTTATTTCTTCATTGCAGCT
1 GTTTCTCTTATTT-TTTATTGCAGCT
*
990137 GTCAGTT-TCTTA--TTTTATTACAGCT
1 GT---TTCTCTTATTTTTTATTGCAGCT
990162 GTTTCTCTTATTTTTTCATTGCAGCT
1 GTTTCTCTTATTTTTT-ATTGCAGCT
990188 CCTGTTACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
22 2 0.05
23 5 0.12
25 16 0.39
26 11 0.27
28 5 0.12
29 2 0.05
ACGTcount: A:0.14, C:0.19, G:0.12, T:0.55
Consensus pattern (25 bp):
GTTTCTCTTATTTTTTATTGCAGCT
Found at i:991437 original size:42 final size:42
Alignment explanation
Indices: 991391--991846 Score: 255
Period size: 42 Copynumber: 10.9 Consensus size: 42
991381 TAAGCCAACA
* * *
991391 GGCAGACAAAGGGTAACGAAGTCTCCTGGGTCAAAGTCGATG
1 GGCAGACAAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCGACG
* * *
991433 GGCAGACAAAAGATAAAAAAGTCT-CTCGGGTCAATGTCGACG
1 GGCAGACAAAAGGTAAAGAAGTCTCCT-GGGTCAAAGTCGACG
* * * * ** * * *
991475 AGTAGACAAATGGTAATGAAGTCTCCAAGGTCAAAGCCAACA
1 GGCAGACAAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCGACG
* * * * *
991517 GACAGACAAAAAGTAAAGAAGTCTTCGGGGTCAAAG-CTAACG
1 GGCAGACAAAAGGTAAAGAAGTCTCCTGGGTCAAAGTC-GACG
* * * **
991559 GGCCA-ACAAAGGGTAAAGAAGTCTCTTGAGTCAAAGTCGATA
1 GG-CAGACAAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCGACG
* * * * *
991601 GGCAGACAAAAGGTAAATAAGTCT-CTCGAGTCAAAGCCAACA
1 GGCAGACAAAAGGTAAAGAAGTCTCCT-GGGTCAAAGTCGACG
* ** * *
991643 GGCAGACTAAAA-GTAAAAAAGTCTCCAAGGTTAAAGTCGACA
1 GGCAGAC-AAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCGACG
* * * * * **
991685 GGTAGACTAAAGGTAAAGAAGTCT-TTAGGGTTAAATTCGATA
1 GGCAGACAAAAGGTAAAGAAGTCTCCT-GGGTCAAAGTCGACG
* ** * * *
991727 GGCAGACTAAAGGTAAAGAAGTCTTTTAGGTCAAAGCCGACA
1 GGCAGACAAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCGACG
* * ** * *
991769 GGTAGA-ATAAAGGTAAAGAAATCTCCAAGGTCAAAGTTGACA
1 GGCAGACA-AAAGGTAAAGAAGTCTCCTGGGTCAAAGTCGACG
** *
991811 ACCAGACTAAAA-GTAAAGAAATCT-CTAGGGTCAAAG
1 GGCAGAC-AAAAGGTAAAGAAGTCTCCT-GGGTCAAAG
991847 CTGACAAGTA
Statistics
Matches: 320, Mismatches: 78, Indels: 32
0.74 0.18 0.07
Matches are distributed among these distances:
41 10 0.03
42 295 0.92
43 14 0.04
44 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (42 bp):
GGCAGACAAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCGACG
Found at i:991458 original size:84 final size:84
Alignment explanation
Indices: 991355--991708 Score: 306
Period size: 84 Copynumber: 4.2 Consensus size: 84
991345 AGCAGGTAAG
* *
991355 CAAAAGA-AAAAGAAGTCTCTCGAGTCTAAGCCAACAGGCAGACAAAGGGTAACGAAGTCTCCTG
1 CAAAAGATAAAA-AAGTCTCTCGAGTCAAAGCCAACAGGCAGACAAAGGGTAAAGAAGTCTCCTG
*
991419 GGTCAAAGTCGATGGGCAGA
65 GGTCAAAGTCGATAGGCAGA
* * * * * * * **
991439 CAAAAGATAAAAAAGTCTCTCGGGTCAATGTCGAC-GAGTAGACAAATGGTAATGAAGTCTCCAA
1 CAAAAGATAAAAAAGTCTCTCGAGTCAAAGCCAACAG-GCAGACAAAGGGTAAAGAAGTCTCCTG
* * * *
991503 GGTCAAAGCCAACAGACAGA
65 GGTCAAAGTCGATAGGCAGA
* * * * *
991523 CAAAA-AGTAAAGAAGTCT-TCGGGGTCAAAGCTAACGGGCCA-ACAAAGGGTAAAGAAGTCTCT
1 CAAAAGA-TAAAAAAGTCTCTC-GAGTCAAAGCCAACAGG-CAGACAAAGGGTAAAGAAGTCTCC
*
991585 TGAGTCAAAGTCGATAGGCAGA
63 TGGGTCAAAGTCGATAGGCAGA
* * * * **
991607 CAAAAGGTAAATAAGTCTCTCGAGTCAAAGCCAACAGGCAGACTAAA-AGTAAAAAAGTCTCCAA
1 CAAAAGATAAAAAAGTCTCTCGAGTCAAAGCCAACAGGCAGAC-AAAGGGTAAAGAAGTCTCCTG
* * *
991671 GGTTAAAGTCGACAGGTAGA
65 GGTCAAAGTCGATAGGCAGA
* * *
991691 CTAAAGGTAAAGAAGTCT
1 CAAAAGATAAAAAAGTCT
991709 TTAGGGTTAA
Statistics
Matches: 213, Mismatches: 47, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
83 6 0.03
84 196 0.92
85 11 0.05
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (84 bp):
CAAAAGATAAAAAAGTCTCTCGAGTCAAAGCCAACAGGCAGACAAAGGGTAAAGAAGTCTCCTGG
GTCAAAGTCGATAGGCAGA
Found at i:991730 original size:84 final size:83
Alignment explanation
Indices: 991571--991877 Score: 253
Period size: 84 Copynumber: 3.7 Consensus size: 83
991561 CCAACAAAGG
* * * * * * *
991571 GTAAAGAAGTCTCT-TGAGTCAAAGTCGATAGGCAGACAAAAGGTAAATAAGTCTCTCGA-GTCA
1 GTAAAAAAGTCTCTAAG-GTCAAAG-CGACAGGTAGACTAAAGGTAAAGAAGTCTC-CAAGGTCA
***
991634 AAGCCAACAGGCAGACTAAAA
63 AAGTTGACAGGCAGACTAAAA
* * ** * *
991655 GTAAAAAAGTCTCCAAGGTTAAAGTCGACAGGTAGACTAAAGGTAAAGAAGTCTTTAGGGTTAAA
1 GTAAAAAAGTCTCTAAGGTCAAAG-CGACAGGTAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAA
* *
991720 -TTCGATAGGCAGACTAAAG
65 GTT-GACAGGCAGACTAAAA
* * * * *
991739 GTAAAGAAGTCTTTTAGGTCAAAGCCGACAGGTAGAATAAAGGTAAAGAAATCTCCAAGGTCAAA
1 GTAAAAAAGTCTCTAAGGTCAAAG-CGACAGGTAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAA
**
991804 GTTGACAACCAGACTAAAA
65 GTTGACAGGCAGACTAAAA
* * * *
991823 GTAAAGAAA-TCTCTAGGGTCAAAGCTGACAAGTATACTAAAGGTAAAAAAGTCTC
1 GTAAA-AAAGTCTCTAAGGTCAAAGC-GACAGGTAGACTAAAGGTAAAGAAGTCTC
991878 TAGACAAGGG
Statistics
Matches: 174, Mismatches: 43, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
83 1 0.01
84 168 0.97
85 5 0.03
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (83 bp):
GTAAAAAAGTCTCTAAGGTCAAAGCGACAGGTAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAAG
TTGACAGGCAGACTAAAA
Found at i:991818 original size:126 final size:126
Alignment explanation
Indices: 991363--991881 Score: 358
Period size: 126 Copynumber: 4.1 Consensus size: 126
991353 AGCAAAAGAA
* * ** ** **
991363 AAAGAAGTCTCTCGAGTCTAAGCCAACAGGCAGACA-AAGGGTAACGAAGTCTCCTGGGTCAAAG
1 AAAGAAGTCTCTAGAGTCAAAGCCAACAGGCAGA-ATAAAAGTAAAAAAGTCTCCAAGGTCAAAG
**** * * * * * * * * *
991427 TCGATGGGCAGACAAAAGATAAAAAAGTCTCTCGGGTCAATGTCGA-CGAGTAGACAAATGGT
65 TCGACAACCAGACTAAAGGTAAAGAAGTCTTTAGGGTCAAAGTCGATAG-GCAGACAAAAGGT
* * * * * **
991489 AATGAAGTCTCCA-AGGTCAAAGCCAACAGACAGACA-AAAAGTAAAGAAGTCTTCGGGGTCAAA
1 AAAGAAGTCTCTAGA-GTCAAAGCCAACAGGCAGA-ATAAAAGTAAAAAAGTCTCCAAGGTCAAA
* ** *
991552 G-CTAACGGGCCA-AC-AAAGGGTAAAGAAGTCTCTT-GAGTCAAAGTCGATAGGCAGACAAAAG
64 GTC-GAC-AACCAGACTAAA-GGTAAAGAAGTCT-TTAGGGTCAAAGTCGATAGGCAGACAAAAG
991613 GT
125 GT
* * * *
991615 AAATAAGTCTCTCGAGTCAAAGCCAACAGGCAGACTAAAAGTAAAAAAGTCTCCAAGGTTAAAGT
1 AAAGAAGTCTCTAGAGTCAAAGCCAACAGGCAGAATAAAAGTAAAAAAGTCTCCAAGGTCAAAGT
*** * * *
991680 CGACAGGTAGACTAAAGGTAAAGAAGTCTTTAGGGTTAAATTCGATAGGCAGACTAAAGGT
66 CGACAACCAGACTAAAGGTAAAGAAGTCTTTAGGGTCAAAGTCGATAGGCAGACAAAAGGT
* * * *
991741 AAAGAAGTCTTTTAG-GTCAAAGCCGACAGGTAGAATAAAGGTAAAGAAA-TCTCCAAGGTCAAA
1 AAAGAAGTC-TCTAGAGTCAAAGCCAACAGGCAGAATAAAAGTAAA-AAAGTCTCCAAGGTCAAA
* * * * * * * * *
991804 GTTGACAACCAGACTAAAAGTAAAGAAATCTCTAGGGTCAAAG-CTGACAAGTATACTAAAGGT
64 GTCGACAACCAGACTAAAGGTAAAGAAGTCTTTAGGGTCAAAGTC-GATAGGCAGACAAAAGGT
*
991867 AAAAAAGTCTCTAGA
1 AAAGAAGTCTCTAGA
991882 CAAGGGCAGA
Statistics
Matches: 314, Mismatches: 63, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
125 14 0.04
126 283 0.90
127 17 0.05
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (126 bp):
AAAGAAGTCTCTAGAGTCAAAGCCAACAGGCAGAATAAAAGTAAAAAAGTCTCCAAGGTCAAAGT
CGACAACCAGACTAAAGGTAAAGAAGTCTTTAGGGTCAAAGTCGATAGGCAGACAAAAGGT
Found at i:991852 original size:42 final size:42
Alignment explanation
Indices: 991570--991880 Score: 184
Period size: 42 Copynumber: 7.4 Consensus size: 42
991560 GCCAACAAAG
* * * * * *
991570 GGTAAAGAAGTCTCTTGAGTCAAAG-TCGATAGGCAGACAAAA
1 GGTAAAGAAATCTCTAGGGTCAAAGCT-GACAAGCAGACTAAA
* * * * ** *
991612 GGTAAATAAGTCTCTCGAGTCAAAGCCAACAGGCAGACTAAA
1 GGTAAAGAAATCTCTAGGGTCAAAGCTGACAAGCAGACTAAA
* * * * * *
991654 AGTAAA-AAAGTCTCCAAGGTTAAAG-TCGACAGGTAGACTAAA
1 GGTAAAGAAA-TCTCTAGGGTCAAAGCT-GACAAGCAGACTAAA
* * * * * *
991696 GGTAAAGAAGTCTTTAGGGTTAAA-TTCGATAGGCAGACTAAA
1 GGTAAAGAAATCTCTAGGGTCAAAGCT-GACAAGCAGACTAAA
* * * * * *
991738 GGTAAAGAAGTCTTTTA-GGTCAAAGCCGACAGGTAGAATAAA
1 GGTAAAGAAATC-TCTAGGGTCAAAGCTGACAAGCAGACTAAA
* * * *
991780 GGTAAAGAAATCTCCAAGGTCAAAGTTGACAACCAGACTAAA
1 GGTAAAGAAATCTCTAGGGTCAAAGCTGACAAGCAGACTAAA
* * *
991822 AGTAAAGAAATCTCTAGGGTCAAAGCTGACAAGTATACTAAA
1 GGTAAAGAAATCTCTAGGGTCAAAGCTGACAAGCAGACTAAA
991864 GGTAAA-AAAGTCTCTAG
1 GGTAAAGAAA-TCTCTAG
991881 ACAAGGGCAG
Statistics
Matches: 214, Mismatches: 46, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
41 7 0.03
42 201 0.94
43 6 0.03
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (42 bp):
GGTAAAGAAATCTCTAGGGTCAAAGCTGACAAGCAGACTAAA
Found at i:992104 original size:44 final size:44
Alignment explanation
Indices: 991989--994439 Score: 772
Period size: 44 Copynumber: 55.9 Consensus size: 44
991979 TTTGATCAAT
* **
991989 GTGGTAACCATACATCAAACACGAAA-GAGGTAG-ATTTGACCAGG
1 GTGGTAACCATACGTCAAAC-CGAAATGA-AAAGAATTTGACCAGG
* * * ** * *
992033 GTGGAAACTATATGTCAAATTGGAATGAAAAGAATCTGACCAGG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
* * *
992077 GTGGTAACCATACGTCATACCGAAATGAGCAAAG--TTTAACCAGC
1 GTGGTAACCATACGTCAAACCGAAATGA--AAAGAATTTGACCAGG
* ** * *
992121 GT-GTAACCATACATCAAATAGAAAGGAAAAGGATTT-ACCAGG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
* * * *
992163 GTGGTAACTATACGTCAAATCAAAAT-AAGAAGAATCTGACCAGG
1 GTGGTAACCATACGTCAAACCGAAATGAA-AAGAATTTGACCAGG
* * * * *
992207 GTGGTAACCATATGTCAGACCGAAATGAGAAA-AGTTTTACGAGG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
* * * * * *
992251 GTGGTAACTAATATGTCAAATC-AGAAT-AAGATGAATCTGACTAGG
1 GTGGTAAC-CATACGTCAAACCGA-AATGAA-AAGAATTTGACCAGG
* * * * * * *
992296 GTGGTAACCATATGTTAGACCGGAATGAGAAA-AGTTTGACTAAG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
* * * *
992340 GTGGTAACCATACGTCATA-CAAAAAGAAACAGGATTTGACCAGG
1 GTGGTAACCATACGTCAAACCGAAATGAAA-AGAATTTGACCAGG
* * ** * *
992384 GTGGTAACCATATGTCAGACTAAAATGAGAAACG--TTTTACGAGG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAA-GAATTTGACCAGG
* * * * *
992428 GTGGTAACTAATACGTTAAATC-AGAAT-AAGAAGAATCTGACTAGG
1 GTGGTAAC-CATACGTCAAACCGA-AATGAA-AAGAATTTGACCAGG
* * * * *
992473 GTGGTAACCATATGTCAGACCGAAATGAGAAA-AGTTTTACGAGG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
* * * * * *
992517 GTGGTAACTAATACATCAAATC-AGAATAAAAAGAATCTGACTAGG
1 GTGGTAAC-CATACGTCAAACCGA-AATGAAAAGAATTTGACCAGG
* * * * * * *
992562 GTGGTAACCATATGTTAGACTGAAATGAGAAA-AGTTTGACTAAG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
** * * * *
992606 GTGGTAACCATACGTCAAACAAAAAAGAAAGGGATTTGACCAGA
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
* * * * * *
992650 GTGATAACCATATGTCAAATC-AGGAT-AAGAAGAATCTAACCAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAA-AAGAATTTGACCAGG
* * * * * *
992694 GTGGTAACCATACATCAGATCGAACTGAGAAA-AGTTTGACTAGG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
** * * * *
992738 GTGGTAACCATACGTCAAATAGAAAGGAAAGGGATTTTACCAGG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
** * * * *
992782 GTAATAACCATACGTCAAAGC-AGAATAAAAAGAATCTGACTAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAAAAGAATTTGACCAGG
* * * ** *
992826 GTGGTAACCAAATGTCAGACTAAAATGAGAAA-AGTTTGACCAGG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
* * * * * *
992870 GTGGTAACCATACGTCAAACAGAAAAGAAAGGGATTTGACTAAG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
* * ** * * *
992914 GTGGTAACCATATGTCAAATC-AAAAAAAGAAGAATATGAGCAAG
1 GTGGTAACCATACGTCAAACCGAAATGAA-AAGAATTTGACCAGG
** * ** *
992958 GTGGTAAAAATACGTCAGACTAAAATGAGAAACG--TTTGACCAGA
1 GTGGTAACCATACGTCAAACCGAAATGA-AAA-GAATTTGACCAGG
* * * * * *
993002 GTGGTAACCGTACGTCAAACAGAAAGGAAAGGGATTTGACTAGG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
* * *
993046 GTCGTAACCATACGTCAAATC-AGAAT-AAGAAGAATTTGACTAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAA-AAGAATTTGACCAGG
* * * * * *
993090 GTGGTAACCATATGT-AGACTGAAATGAGAAA-AGTTTAACTAGG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
* * * *
993133 GTGGTAACCATATGTCAAACAGAAAGGAAACAG-ATTTGACCAAG
1 GTGGTAACCATACGTCAAACCGAAATGAAA-AGAATTTGACCAGG
** * * *** * *
993177 GTCATAACCATATGTTAAATAAAAAT-AAGAAGAATCTGACCAGA
1 GTGGTAACCATACGTCAAACCGAAATGAA-AAGAATTTGACCAGG
* * ** ** * * *
993221 GTGGTAATCATACGTTAGGCTAAAATGAGAAA-AGTTTAACCATG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
** * * ** * *
993265 GTGGTAATTATATGCCAAATAG-AATGGAAAAGGATTTGACAAGG
1 GTGGTAACCATACGTCAAACCGAAAT-GAAAAGAATTTGACCAGG
* * * *
993309 GTGGTAACCATACGTCAAATC-AGAAT-AGGAAGAATCTGACTAGG
1 GTGGTAACCATACGTCAAACCGA-AATGA-AAAGAATTTGACCAGG
* * * * ** *
993353 GTGGTAACTATAAGTTAGACTAAAATGAGAAA-AATTTGACTAGG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
** **
993397 GTGGTAACCATACGTCAAACAAAAATGAAGGGAATTTGACCAGG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
** * *
993441 GTGGTAACCATAAATCAAATC-AGACT-AAGAAGAATTTGACCAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAA-AAGAATTTGACCAGG
* * ** * ** *
993485 GTGGTAACCATATGTCAGATAGAAAAGAGGTAG-ATTTGACTAGG
1 GTGGTAACCATACGTCAAACCGAAATGA-AAAGAATTTGACCAGG
* * * *
993529 GTGGTAATCATACGTCAAATC-AGAAGGAAAAGAATCTGACCAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAAAAGAATTTGACCAGG
* * * * *
993573 GTGGTAACCATACGCCAGA-CAAAAAG-AAAGCAGATTTGACCAAG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAG-A-ATTTGACCAGG
* * *
993617 GTGGTAACCATACGTCAGACTGAAAGGAAAA-AAGTTTGACCAGG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAA-TTTGACCAGG
* * ** * * * *
993661 GTGGTAACTATACGTTAAATAGAAAGGAAAGGAATTTGACTAAG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
** * * *
993705 GTGGTAACCATACGTCAAA-TTAGAAT-ACGAAGAATCTGACCAAG
1 GTGGTAACCATACGTCAAACCGA-AATGA-AAAGAATTTGACCAGG
** * * * * * ** *
993749 GTGGTAACCATAAATTAGACAG-AA-GAGAGGCAGATTCAACCATG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAG-A-ATTTGACCAGG
** ** * * * * *
993793 GTGGTAACCATATATCAAATTGGAA-GAAAAAAATCTAACTAGG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
** * * *
993836 GTGGTAATTATACG-CTAAA-C-AAGAAGAAAATAGATTTGA-CTGAG
1 GTGGTAACCATACGTC-AAACCGAA-ATGAAAAGA-ATTTGACCAG-G
* * * * * * * *
993880 GTAGTAACCATATGCCAAATC-AGAATGAAAATAGTTTGACTAGA
1 GTGGTAACCATACGTCAAACCGA-AATGAAAAGAATTTGACCAGG
* * * * * * * * * *
993924 GTGGTATCTATACGTTAGA-CAAGAAGGAGATGGATTTGACTAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAAAAGAATTTGACCAGG
* * * * *
993968 GTGGTAGCCATACATCAAATC-AGAATGAAAAGAATCTGACTAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAAAAGAATTTGACCAGG
* * * ** * *
994012 GTGGTAACCATACGTTAGA-CAAGAATGAGGTAG-ATTTGGCCAAG
1 GTGGTAACCATACGTCAAACCGA-AATGA-AAAGAATTTGACCAGG
* ** * *
994056 GTGGTGACCATACGTCAAA-TTAGAATGAAAAGAATCTGACTAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAAAAGAATTTGACCAGG
* * * *
994100 GTGGTTACCATACG-C-TA--GACAA-GAAGAAGGCAAATTTGACTAGT
1 GTGGTAACCATACGTCAAACCGA-AATGAA-AA-G--AATTTGACCAGG
* ** * *
994144 GTGGTAACCATACGTCAAATCGAAACAAAAAAAATCTGACC-GG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
* * * * * *
994187 GATGGCAACTATATGTCAGATA-TGAGA-GAGATAG-ATTTGACCAGG
1 G-TGGTAACCATACGTCA-A-ACCGAAATGA-AAAGAATTTGACCAGG
* ** * * *
994232 GTGGTAACCATATGTCAAATTGAAATGAAAAGAATCTAACCAAG
1 GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
*
994276 GTGGTAACCATACG-C-TA--GATAA-GAAAAAGGCAGATTTGACCAGG
1 GTGGTAACCATACGTCAAACCGA-AATG-AAAA-G-A-ATTTGACCAGG
* *
994320 GCGGTAACCATACGTCAAATCAGAACA--AAAAG-A----ACCAGG
1 GTGGTAACCATACGTCAAA-CCGAA-ATGAAAAGAATTTGACCAGG
* ** * *
994359 GT-GTAACTATACGTCAAA-TTAGAAT-AAAA-AATCTGGCCAGG
1 GTGGTAACCATACGTCAAACCGA-AATGAAAAGAATTTGACCAGG
* *
994400 GTGGTAACCATACGTCAAATCTG-AATGAAAAGCATTTGAC
1 GTGGTAACCATACGTCAAA-CCGAAATGAAAAGAATTTGAC
994440 TAGTGTTAGG
Statistics
Matches: 1769, Mismatches: 490, Indels: 296
0.69 0.19 0.12
Matches are distributed among these distances:
36 2 0.00
37 6 0.00
38 15 0.01
39 7 0.00
40 6 0.00
41 23 0.01
42 44 0.02
43 193 0.11
44 1266 0.72
45 169 0.10
46 22 0.01
47 8 0.00
48 5 0.00
49 3 0.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (44 bp):
GTGGTAACCATACGTCAAACCGAAATGAAAAGAATTTGACCAGG
Found at i:992256 original size:88 final size:88
Alignment explanation
Indices: 992157--993721 Score: 985
Period size: 88 Copynumber: 17.8 Consensus size: 88
992147 AAAAGGATTT
* * *
992157 ACCAGGGTGGTAACTATACGTCAAATCAAAATAAGAAGAATCTGACCAGGGTGGTAACCATATGT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAGAAGAATTTGACTAGGGTGGTAACCATATGT
*
992222 CAGACCGAAATGAGAAAAGTTTT
66 CAGACCGAAATGAGAAAAGTTTG
* * * * * *
992245 ACGAGGGTGGTAACTAATATGTCAAATCAGAATAAGATGAATCTGACTAGGGTGGTAACCATATG
1 ACCAGGGTGGTAAC-CATACGTCAAATCAAAATAAGAAGAATTTGACTAGGGTGGTAACCATATG
* *
992310 TTAGACCGGAATGAGAAAAGTTTG
65 TCAGACCGAAATGAGAAAAGTTTG
* * * * * *
992334 ACTAAGGTGGTAACCATACGTCATA-CAAAA-AGAAACAGGATTTGACCAGGGTGGTAACCATAT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATA-AGA-AGAATTTGACTAGGGTGGTAACCATAT
** * *
992397 GTCAGACTAAAATGAGAAACGTTTT
64 GTCAGACCGAAATGAGAAAAGTTTG
* * * * *
992422 ACGAGGGTGGTAACTAATACGTTAAATCAGAATAAGAAGAATCTGACTAGGGTGGTAACCATATG
1 ACCAGGGTGGTAAC-CATACGTCAAATCAAAATAAGAAGAATTTGACTAGGGTGGTAACCATATG
*
992487 TCAGACCGAAATGAGAAAAGTTTT
65 TCAGACCGAAATGAGAAAAGTTTG
* * * * * *
992511 ACGAGGGTGGTAACTAATACATCAAATCAGAATAAAAAGAATCTGACTAGGGTGGTAACCATATG
1 ACCAGGGTGGTAAC-CATACGTCAAATCAAAATAAGAAGAATTTGACTAGGGTGGTAACCATATG
* *
992576 TTAGACTGAAATGAGAAAAGTTTG
65 TCAGACCGAAATGAGAAAAGTTTG
* * * * * *
992600 ACTAAGGTGGTAACCATACGTCAAA-CAAAA-AAGAAAGGGATTTGACCAGAGTGATAACCATAT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAG-AA-GAATTTGACTAGGGTGGTAACCATAT
* * * * * *
992663 GTCAAATC-AGGATAAGAAGAA-TCTA
64 GTCAGACCGA-AATGAGAA-AAGTTTG
* * * * * *
992688 ACCAGGGTGGTAACCATACATCAGATCGAACTGAGAA-AAGTTTGACTAGGGTGGTAACCATACG
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAGAAGAA-TTTGACTAGGGTGGTAACCATATG
* ** * *
992752 TCAAATAGAAA-G-GAAAGGGATTTT
65 TCAGACCGAAATGAGAAA-AG-TTTG
** * * * * *
992776 ACCAGGGTAATAACCATACGTCAAAGCAGAATAAAAAGAATCTGACTAGGGTGGTAACCAAATGT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAGAAGAATTTGACTAGGGTGGTAACCATATGT
**
992841 CAGACTAAAATGAGAAAAGTTTG
66 CAGACCGAAATGAGAAAAGTTTG
* * *
992864 ACCAGGGTGGTAACCATACGTCAAA-CAGAA-AAGAAAGGGATTTGACTAAGGTGGTAACCATAT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAG-AA-GAATTTGACTAGGGTGGTAACCATAT
* * * ** *
992927 GTCAAATCAAAAAAAGAAGAA-TATG
64 GTCAGACCGAAATGAGAA-AAGTTTG
* * ** * * * * * * *
992952 AGCAAGGTGGTAAAAATACGTCAGA-CTAAAATGAGAA-ACGTTTGACCAGAGTGGTAACCGTAC
1 ACCAGGGTGGTAACCATACGTCAAATC-AAAATAAGAAGA-ATTTGACTAGGGTGGTAACCATAT
* * *
993015 GTCAAACAGAAA-G-GAAAGGGATTTG
64 GTCAGACCGAAATGAGAAA-AG-TTTG
* * *
993040 ACTAGGGTCGTAACCATACGTCAAATCAGAATAAGAAGAATTTGACTAGGGTGGTAACCATATGT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAGAAGAATTTGACTAGGGTGGTAACCATATGT
* *
993105 -AGACTGAAATGAGAAAAGTTTA
66 CAGACCGAAATGAGAAAAGTTTG
* * * * * **
993127 ACTAGGGTGGTAACCATATGTCAAA-CAGAAAGGAA-ACAG-ATTTGACCAAGGTCATAACCATA
1 ACCAGGGTGGTAACCATACGTCAAATCA-AAA-TAAGA-AGAATTTGACTAGGGTGGTAACCATA
* * *** * *
993189 TGTTAAATAAAAATAAGAAGAA-TCTG
63 TGTCAGACCGAAATGAGAA-AAGTTTG
* * * ** * * * * **
993215 ACCAGAGTGGTAATCATACGT-TAGGCTAAAATGAGAA-AAGTTTAACCATGGTGGTAATTATAT
1 ACCAGGGTGGTAACCATACGTCAAATC-AAAATAAGAAGAA-TTTGACTAGGGTGGTAACCATAT
* * **
993278 GCCAAATAG-AATG-GAAAAGGATTTG
64 GTCAGACCGAAATGAGAAAA-G-TTTG
* * * * * *
993303 ACAAGGGTGGTAACCATACGTCAAATCAGAATAGGAAGAATCTGACTAGGGTGGTAACTATAAGT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAGAAGAATTTGACTAGGGTGGTAACCATATGT
* ** *
993368 TAGACTAAAATGAGAAAAATTTG
66 CAGACCGAAATGAGAAAAGTTTG
* * * *
993391 ACTAGGGTGGTAACCATACGTCAAA-CAAAAATGAAG-GGAATTTGACCAGGGTGGTAACCATAA
1 ACCAGGGTGGTAACCATACGTCAAATC-AAAAT-AAGAAGAATTTGACTAGGGTGGTAACCATAT
* * * * *
993454 ATCAAATC-AGACTAAGAAGAA-TTTG
64 GTCAGACCGA-AATGAGAA-AAGTTTG
* * * * * *
993479 ACCAGGGTGGTAACCATATGTCAGAT-AGAA-AAGAGGTAGATTTGACTAGGGTGGTAATCATAC
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAGAAG-A-ATTTGACTAGGGTGGTAACCATAT
* * *
993542 GTCAAATC-AGAA-G-GAAAAGAATCTG
64 GTCAGACCGA-AATGAGAAAAG--TTTG
* * * *
993567 ACCAGGGTGGTAACCATACGCCAGA-C-AAA-AAGAAAGCAGATTTGACCAAGGTGGTAACCATA
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATAAG-AAG-A-ATTTGACTAGGGTGGTAACCATA
* * * *
993629 CGTCAGACTGAAAGGAAAAAAGTTTG
63 TGTCAGACCGAAATGAGAAAAGTTTG
* * * * * *
993655 ACCAGGGTGGTAACTATACGTTAAAT-AGAAAGGAA-AGGAATTTGACTAAGGTGGTAACCATAC
1 ACCAGGGTGGTAACCATACGTCAAATCA-AAA-TAAGAAGAATTTGACTAGGGTGGTAACCATAT
993718 GTCA
64 GTCA
993722 AATTAGAATA
Statistics
Matches: 1154, Mismatches: 252, Indels: 142
0.75 0.16 0.09
Matches are distributed among these distances:
85 9 0.01
86 21 0.02
87 97 0.08
88 725 0.63
89 270 0.23
90 29 0.03
91 1 0.00
92 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (88 bp):
ACCAGGGTGGTAACCATACGTCAAATCAAAATAAGAAGAATTTGACTAGGGTGGTAACCATATGT
CAGACCGAAATGAGAAAAGTTTG
Done.