Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 3 of 352
Found at i:682398 original size:24 final size:24
Alignment explanation
Indices: 682371--682424 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
682361 TTTAAATACT
682371 AAAT-TAAACATTAAAAATAAACTC
1 AAATATAAA-ATTAAAAATAAACTC
* *
682395 AAATATCAAATTAAAAATAAATTC
1 AAATATAAAATTAAAAATAAACTC
682419 AAATAT
1 AAATAT
682425 TAATCGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATATAAAATTAAAAATAAACTC
Found at i:702246 original size:16 final size:18
Alignment explanation
Indices: 702210--702248 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
702200 GATTTATCAC
*
702210 TATTTTATTTGACATTAT
1 TATTTTATTTGACAGTAT
702228 TATTTTATTT-A-AGTAT
1 TATTTTATTTGACAGTAT
702244 TATTT
1 TATTT
702249 CTTTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
TATTTTATTTGACAGTAT
Found at i:703991 original size:19 final size:19
Alignment explanation
Indices: 703967--704008 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
703957 TAAGGACAAG
703967 TTTTAAAGTTATATAT-TAA
1 TTTTAAAGTTA-ATATGTAA
*
703986 TTTT-AATTTAATATGTAA
1 TTTTAAAGTTAATATGTAA
704004 TTTTA
1 TTTTA
704009 TACCAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTAAAGTTAATATGTAA
Found at i:704188 original size:154 final size:153
Alignment explanation
Indices: 703918--704202 Score: 378
Period size: 152 Copynumber: 1.9 Consensus size: 153
703908 TCTCACTTTG
* * *
703918 ATTTAAAACTTTTATAAAATAATACATTTTTTTAATACTTAAGGACAAGTTTTAAAGTTATATAT
1 ATTTAAAACTTTTATAAAATAATACATTTTTTTAATACTTAAAGACAAGTTTTAAAATTATACAT
* * * *
703983 TAATTTTAATTTAATATGTAATTTTATACCAATTCAATCATGAGTTCTATTAATAGTATAGATAT
66 AAATTTTAATTTAATATGTAATTTTATACCAACTCAATAATGAATTCTATT-ATAGTATAGATAT
704048 TTTAATAAAAAATTTCTGATGTCA
130 TTTAATAAAAAATTTCTGATGTCA
* ** * *
704072 ATTTAGAACTTTTATAAAATAATACA-TTTTTT-ATTTTTAAAGATAATTTTTAAAATTATACAT
1 ATTTAAAACTTTTATAAAATAATACATTTTTTTAATACTTAAAGACAAGTTTTAAAATTATACAT
** *
704135 AAATTTTAATTTAATATGTAATTTTATATACCAACTCGGTTAAT-AATTTTATTATAGTATAGAT
66 AAATTTTAATTTAATATGTAA-TTT-TATACCAACTC-AATAATGAATTCTATTATAGTATAGAT
704199 ATTT
128 ATTT
704203 CAACAAGAGT
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
152 44 0.39
153 24 0.21
154 42 0.37
155 3 0.03
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (153 bp):
ATTTAAAACTTTTATAAAATAATACATTTTTTTAATACTTAAAGACAAGTTTTAAAATTATACAT
AAATTTTAATTTAATATGTAATTTTATACCAACTCAATAATGAATTCTATTATAGTATAGATATT
TTAATAAAAAATTTCTGATGTCA
Found at i:711565 original size:23 final size:23
Alignment explanation
Indices: 711535--711580 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
711525 CCTGGTGGGT
711535 TCTTTGTTTTGTGTGCAGAGTTA
1 TCTTTGTTTTGTGTGCAGAGTTA
711558 TCTTTGTTTTGTGTGCAGAGTTA
1 TCTTTGTTTTGTGTGCAGAGTTA
711581 GGGATTGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.09, G:0.26, T:0.52
Consensus pattern (23 bp):
TCTTTGTTTTGTGTGCAGAGTTA
Found at i:713180 original size:25 final size:25
Alignment explanation
Indices: 713149--713198 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
713139 GATGTCCAGG
713149 TTAGTCTATCAAGTCAAATTCATAT
1 TTAGTCTATCAAGTCAAATTCATAT
713174 TTAGTCTATCAAGTCAAATTCATAT
1 TTAGTCTATCAAGTCAAATTCATAT
713199 CACAAGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (25 bp):
TTAGTCTATCAAGTCAAATTCATAT
Found at i:717456 original size:509 final size:509
Alignment explanation
Indices: 716499--717519 Score: 2042
Period size: 509 Copynumber: 2.0 Consensus size: 509
716489 AAGACAAATC
716499 CTTGAAAGGCTAATGAGTAAAGAGTTCCCATATGTTCCAAATATGATACATTTCTAATGCTCAAA
1 CTTGAAAGGCTAATGAGTAAAGAGTTCCCATATGTTCCAAATATGATACATTTCTAATGCTCAAA
716564 AACTCACATTAAATAAGGGATAAAACAATCAAGATTGTTCCTTCTACTAAAAAAATAGATAAATT
66 AACTCACATTAAATAAGGGATAAAACAATCAAGATTGTTCCTTCTACTAAAAAAATAGATAAATT
716629 AGTCTATGTACATTATATCAAAGAGAAATTTGGTCTTTCTGTTAAAAATTTCATTCATTTCTACC
131 AGTCTATGTACATTATATCAAAGAGAAATTTGGTCTTTCTGTTAAAAATTTCATTCATTTCTACC
716694 ATTAAAAACTGATCATTGTATGTCAACGTGGCATGTCATGTTTCACCGTCTAGTTATTCCGTTAG
196 ATTAAAAACTGATCATTGTATGTCAACGTGGCATGTCATGTTTCACCGTCTAGTTATTCCGTTAG
716759 GCATACTGGTTTTTAACAATACAAATAGATAAAAATTGTAACAGAAATGACAAGTTTGCTCTTTG
261 GCATACTGGTTTTTAACAATACAAATAGATAAAAATTGTAACAGAAATGACAAGTTTGCTCTTTG
716824 GTCTAATATATAAGGACTAATTTCTCCCATTTTTTGAATAGAGGGGGCAAAATTAGGGGTGTTCA
326 GTCTAATATATAAGGACTAATTTCTCCCATTTTTTGAATAGAGGGGGCAAAATTAGGGGTGTTCA
716889 ATCGGTTAACCGACCGGTTAATCAACCCGAATTACCATTAACCGAATTAACCGACCCTTTTAAAC
391 ATCGGTTAACCGACCGGTTAATCAACCCGAATTACCATTAACCGAATTAACCGACCCTTTTAAAC
716954 CTTTAACCGTTAACCGAACCGAAGTTTTTTTCAAAAAAAATTAACCGAACCAAA
456 CTTTAACCGTTAACCGAACCGAAGTTTTTTTCAAAAAAAATTAACCGAACCAAA
717008 CTTGAAAGGCTAATGAGTAAAGAGTTCCCATATGTTCCAAATATGATACATTTCTAATGCTCAAA
1 CTTGAAAGGCTAATGAGTAAAGAGTTCCCATATGTTCCAAATATGATACATTTCTAATGCTCAAA
717073 AACTCACATTAAATAAGGGATAAAACAATCAAGATTGTTCCTTCTACTAAAAAAATAGATAAATT
66 AACTCACATTAAATAAGGGATAAAACAATCAAGATTGTTCCTTCTACTAAAAAAATAGATAAATT
717138 AGTCTATGTACATTATATCAAAGAGAAATTTGGTCTTTCTGTTAAAAATTTCATTCATTTCTACC
131 AGTCTATGTACATTATATCAAAGAGAAATTTGGTCTTTCTGTTAAAAATTTCATTCATTTCTACC
717203 ATTAAAAACTGATCATTGTATGTCAACGTGGCATGTCATGTTTCACCGTCTAGTTATTCCGTTAG
196 ATTAAAAACTGATCATTGTATGTCAACGTGGCATGTCATGTTTCACCGTCTAGTTATTCCGTTAG
717268 GCATACTGGTTTTTAACAATACAAATAGATAAAAATTGTAACAGAAATGACAAGTTTGCTCTTTG
261 GCATACTGGTTTTTAACAATACAAATAGATAAAAATTGTAACAGAAATGACAAGTTTGCTCTTTG
717333 GTCTAATATATAAGGACTAATTTCTCCCATTTTTTGAATAGAGGGGGCAAAATTAGGGGTGTTCA
326 GTCTAATATATAAGGACTAATTTCTCCCATTTTTTGAATAGAGGGGGCAAAATTAGGGGTGTTCA
717398 ATCGGTTAACCGACCGGTTAATCAACCCGAATTACCATTAACCGAATTAACCGACCCTTTTAAAC
391 ATCGGTTAACCGACCGGTTAATCAACCCGAATTACCATTAACCGAATTAACCGACCCTTTTAAAC
717463 CTTTAACCGTTAACCGAACCGAAGTTTTTTTCAAAAAAAATTAACCGAACCAAA
456 CTTTAACCGTTAACCGAACCGAAGTTTTTTTCAAAAAAAATTAACCGAACCAAA
717517 CTT
1 CTT
717520 TTTCGATTAA
Statistics
Matches: 512, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
509 512 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (509 bp):
CTTGAAAGGCTAATGAGTAAAGAGTTCCCATATGTTCCAAATATGATACATTTCTAATGCTCAAA
AACTCACATTAAATAAGGGATAAAACAATCAAGATTGTTCCTTCTACTAAAAAAATAGATAAATT
AGTCTATGTACATTATATCAAAGAGAAATTTGGTCTTTCTGTTAAAAATTTCATTCATTTCTACC
ATTAAAAACTGATCATTGTATGTCAACGTGGCATGTCATGTTTCACCGTCTAGTTATTCCGTTAG
GCATACTGGTTTTTAACAATACAAATAGATAAAAATTGTAACAGAAATGACAAGTTTGCTCTTTG
GTCTAATATATAAGGACTAATTTCTCCCATTTTTTGAATAGAGGGGGCAAAATTAGGGGTGTTCA
ATCGGTTAACCGACCGGTTAATCAACCCGAATTACCATTAACCGAATTAACCGACCCTTTTAAAC
CTTTAACCGTTAACCGAACCGAAGTTTTTTTCAAAAAAAATTAACCGAACCAAA
Found at i:719829 original size:56 final size:56
Alignment explanation
Indices: 719757--719879 Score: 239
Period size: 56 Copynumber: 2.2 Consensus size: 56
719747 AATTACTTTC
719757 AATAT-ATAAAGATGATATATATTTTACATATATTAATAATTTAAATTTATATAAA
1 AATATCATAAAGATGATATATATTTTACATATATTAATAATTTAAATTTATATAAA
719812 AATATCATAAAGATGATATATATTTTACATATATTAATAATTTAAATTTATATAAA
1 AATATCATAAAGATGATATATATTTTACATATATTAATAATTTAAATTTATATAAA
719868 AATATCATAAAG
1 AATATCATAAAG
719880 GCTTGTTTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
55 5 0.07
56 62 0.93
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (56 bp):
AATATCATAAAGATGATATATATTTTACATATATTAATAATTTAAATTTATATAAA
Found at i:720137 original size:19 final size:20
Alignment explanation
Indices: 720099--720137 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
720089 CTATTTGTTA
* *
720099 AAAATTAATTAATTATATAT
1 AAAATTAATTAATAAAATAT
720119 AAAA-TAATTAATAAAATAT
1 AAAATTAATTAATAAAATAT
720138 TTTCTAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATTAATTAATAAAATAT
Found at i:724773 original size:8 final size:8
Alignment explanation
Indices: 724762--724811 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
724752 ATTATAAAAT
724762 ATTATTAA
1 ATTATTAA
724770 ATTATTAA
1 ATTATTAA
**
724778 A--AAAAA
1 ATTATTAA
724784 ATTATTTAA
1 ATTA-TTAA
*
724793 GTTATTAA
1 ATTATTAA
724801 ATTATTAA
1 ATTATTAA
724809 ATT
1 ATT
724812 CTTTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
6 4 0.12
8 24 0.73
9 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (8 bp):
ATTATTAA
Found at i:724787 original size:22 final size:23
Alignment explanation
Indices: 724757--724801 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
724747 TAAAAATTAT
*
724757 AAAATATTA-TTAAATTATTAAA
1 AAAAAATTATTTAAATTATTAAA
*
724779 AAAAAATTATTTAAGTTATTAAA
1 AAAAAATTATTTAAATTATTAAA
724802 TTATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
AAAAAATTATTTAAATTATTAAA
Found at i:725366 original size:20 final size:20
Alignment explanation
Indices: 725338--725383 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
725328 TTCCATACAG
*
725338 CCAAGACCTAACTCTTGGGA
1 CCAAAACCTAACTCTTGGGA
725358 CCAAAACCTAACTCTTGGGA
1 CCAAAACCTAACTCTTGGGA
725378 CCAAAA
1 CCAAAA
725384 AACCAGCGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.17
Consensus pattern (20 bp):
CCAAAACCTAACTCTTGGGA
Found at i:730828 original size:21 final size:21
Alignment explanation
Indices: 730802--730842 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
730792 ATCTGCTCAA
* *
730802 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
730823 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
730843 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:735853 original size:10 final size:10
Alignment explanation
Indices: 735825--735861 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
735815 CATCTTTGTA
735825 ATTTTAAA--
1 ATTTTAAATT
735833 ATTTATAAATT
1 ATTT-TAAATT
735844 ATTTTAAATT
1 ATTTTAAATT
735854 ATTTTAAA
1 ATTTTAAA
735862 AAAATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 14 0.54
11 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTAAATT
Found at i:736156 original size:11 final size:11
Alignment explanation
Indices: 736142--736166 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
736132 AATATTTCTA
736142 AATAATTTAAT
1 AATAATTTAAT
736153 AATAATTTAAT
1 AATAATTTAAT
736164 AAT
1 AAT
736167 TTTATAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:738552 original size:19 final size:18
Alignment explanation
Indices: 738528--738566 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
738518 CATAATTTAA
738528 ATTCCATGTACCTATACTT
1 ATTCCATGTACCTAT-CTT
* *
738547 ATTCCATTTATCTATCTT
1 ATTCCATGTACCTATCTT
738565 AT
1 AT
738567 AAATTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTCCATGTACCTATCTT
Found at i:738808 original size:46 final size:47
Alignment explanation
Indices: 738745--739013 Score: 339
Period size: 46 Copynumber: 5.8 Consensus size: 47
738735 TTCGACATGA
* * * * *
738745 TGCCATTGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* ** * **
738791 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
*
738838 TGCTATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* *
738884 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* * * * *
738930 TTCCATGGTATATTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
738976 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC
739014 TATCAGAGAG
Statistics
Matches: 197, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
46 158 0.80
47 39 0.20
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
Found at i:741174 original size:11 final size:11
Alignment explanation
Indices: 741158--741209 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
741148 TATACTAAAT
741158 AAATAATAATA
1 AAATAATAATA
*
741169 AAATAAT-ATT
1 AAATAATAATA
* *
741179 AAATATCTCATA
1 AAATA-ATAATA
*
741191 AAATATTAATA
1 AAATAATAATA
741202 AAATAATA
1 AAATAATA
741210 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:745520 original size:46 final size:46
Alignment explanation
Indices: 745468--745695 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
745458 AGTGTGCTCT
745468 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
745514 CTGATATGAAATGTGTAAGACCATGGTTGATAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
745560 TTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
745606 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
745652 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
745696 TCACGTCAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:746000 original size:23 final size:24
Alignment explanation
Indices: 745956--746001 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
745946 AATAAATATA
*
745956 CATAAATATATGGAAATGATGAAG
1 CATAAATATATGGAAATAATGAAG
* *
745980 CATAAA-ATATTGATATAATGAA
1 CATAAATATATGGAAATAATGAA
746002 ATGAATGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.28
Consensus pattern (24 bp):
CATAAATATATGGAAATAATGAAG
Found at i:746718 original size:20 final size:18
Alignment explanation
Indices: 746681--746719 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
746671 ATATATTCTC
*
746681 ACATTTTCACAATTCAAT
1 ACATTTTCACAATCCAAT
746699 ACATTTTCATTCAATCCAAT
1 ACATTTTCA--CAATCCAAT
746719 A
1 A
746720 TCAATACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (18 bp):
ACATTTTCACAATCCAAT
Found at i:747198 original size:5 final size:5
Alignment explanation
Indices: 747183--747256 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
747173 TTTCTTTTGT
* * *
747183 TATATA TATAA TAT-A -ATAA TTTAA TATAA TGTAA TATTGA TATAA TAATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TA-TAA TATAA T-ATAA
* * *
747234 AATAA TATAT TATAA TAAAA TAT
1 TATAA TATAA TATAA TATAA TAT
747257 TAACTAAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 36 0.69
6 12 0.23
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:747211 original size:18 final size:17
Alignment explanation
Indices: 747188--747251 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 17
747178 TTTGTTATAT
747188 ATATAATATAATAATTTA
1 ATATAATATAATAA-TTA
* *
747206 ATATAATGTAAT-ATTG
1 ATATAATATAATAATTA
747222 ATATAATAATAA-AA-TA
1 ATATAAT-ATAATAATTA
*
747238 ATATATTATAATAA
1 ATATAATATAATAA
747252 AATATTAACT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
15 4 0.11
16 18 0.47
17 5 0.13
18 11 0.29
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
ATATAATATAATAATTA
Found at i:747252 original size:18 final size:18
Alignment explanation
Indices: 747183--747255 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
747173 TTTCTTTTGT
*
747183 TATATATATAATATAATAA
1 TATAT-TATAATAAAATAA
* * ** *
747202 TTTAATATAATGTAATAT
1 TATATTATAATAAAATAA
*
747220 TGATATAATAATAAAATAA
1 T-ATATTATAATAAAATAA
747239 TATATTATAATAAAATA
1 TATATTATAATAAAATA
747256 TTAACTAAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
18 27 0.64
19 15 0.36
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TATATTATAATAAAATAA
Found at i:747256 original size:37 final size:38
Alignment explanation
Indices: 747184--747257 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 38
747174 TTCTTTTGTT
* * **
747184 ATATATATAATATAATAATTTAATATAATGTAATATTG
1 ATATATATAATAAAATAATATAATATAATAAAATATTG
*
747222 ATATA-ATAATAAAATAATATATTATAATAAAATATT
1 ATATATATAATAAAATAATATAATATAATAAAATATT
747258 AACTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 26 0.84
38 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (38 bp):
ATATATATAATAAAATAATATAATATAATAAAATATTG
Found at i:750269 original size:26 final size:26
Alignment explanation
Indices: 750240--750299 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
750230 TCCCTTTGAA
* * *
750240 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
750266 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
750294 CCATTC
1 TCATTC
750300 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:750285 original size:28 final size:28
Alignment explanation
Indices: 750254--750325 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
750244 TCGATATTTT
*
750254 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
750282 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
750310 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
750326 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:755175 original size:47 final size:47
Alignment explanation
Indices: 755066--755176 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
755056 CCGGGATAAG
*
755066 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
* * * *
755113 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTA-TAGTA
755160 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
755177 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:756031 original size:42 final size:43
Alignment explanation
Indices: 755935--756031 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
755925 TTTATTTCTT
* * *
755935 TCTTTCT-TTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
755977 TCTTTCTA-TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
756019 T-TTTCTATTCTTT
1 TCTTTCTATTCTTT
756032 ACTTATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 6 0.12
42 44 0.88
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.59
Consensus pattern (43 bp):
TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:761665 original size:46 final size:46
Alignment explanation
Indices: 761613--761840 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
761603 AGTATGCTCT
*
761613 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
761659 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
761705 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
761751 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
761797 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
761841 TCATGTCAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 166 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:769477 original size:22 final size:24
Alignment explanation
Indices: 769452--769497 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
769442 AATATATGTA
769452 AATAATTAGGAT-AAA-AATATAT
1 AATAATTAGGATGAAATAATATAT
* *
769474 AATATTTAGGTTGAAATAATATAT
1 AATAATTAGGATGAAATAATATAT
769498 TCTTTCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 3 0.15
24 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (24 bp):
AATAATTAGGATGAAATAATATAT
Found at i:772273 original size:23 final size:23
Alignment explanation
Indices: 772247--772290 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
772237 CTTTGAGCAG
772247 CAAAAGATTGTAATATATGGACT
1 CAAAAGATTGTAATATATGGACT
772270 CAAAAGATTGTAATATATGGA
1 CAAAAGATTGTAATATATGGA
772291 AGGATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (23 bp):
CAAAAGATTGTAATATATGGACT
Found at i:777386 original size:46 final size:44
Alignment explanation
Indices: 777282--777389 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
777272 TGTCTTTGAC
** * * *
777282 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
777326 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
777372 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
777390 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:778930 original size:21 final size:21
Alignment explanation
Indices: 778904--778959 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
778894 AACAGCGGTG
*
778904 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
778925 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
778946 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
778960 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:779390 original size:17 final size:17
Alignment explanation
Indices: 779370--779419 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
779360 TATTACTAGA
*
779370 AATTTTTAATTATAAAT
1 AATTTTAAATTATAAAT
* *
779387 AATTTAAAATAATAAAT
1 AATTTTAAATTATAAAT
779404 AATTTTAAATTATAAA
1 AATTTTAAATTATAAA
779420 AAATACTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTTAAATTATAAAT
Found at i:782112 original size:20 final size:21
Alignment explanation
Indices: 782067--782109 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
782057 AATACAAGTT
*
782067 AATTATTTGTATTCTAAAAAA
1 AATTACTTGTATTCTAAAAAA
*
782088 AATTACTTGTATTTTAAAAAA
1 AATTACTTGTATTCTAAAAAA
782109 A
1 A
782110 TTAGATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
AATTACTTGTATTCTAAAAAA
Found at i:782700 original size:24 final size:24
Alignment explanation
Indices: 782649--782700 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
782639 GCCTAAACTT
* * *
782649 GGTGGAGGAGCCCCATATGCTGCT
1 GGTGGAGCAGCCCCATACGCTGCC
*
782673 GGTGGAGCAGCCCCATACGGTGCC
1 GGTGGAGCAGCCCCATACGCTGCC
782697 GGTG
1 GGTG
782701 AAGGAGGTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.15, C:0.27, G:0.40, T:0.17
Consensus pattern (24 bp):
GGTGGAGCAGCCCCATACGCTGCC
Found at i:783760 original size:22 final size:22
Alignment explanation
Indices: 783718--783763 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
783708 AGTTTTTTTT
*
783718 TAATTTTAAATTGTCACACAAA
1 TAATTTTAAAGTGTCACACAAA
*
783740 TAATTTTAATAGTGTTA-ACAAA
1 TAATTTTAA-AGTGTCACACAAA
783762 TA
1 TA
783764 TTAATTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (22 bp):
TAATTTTAAAGTGTCACACAAA
Found at i:784042 original size:14 final size:15
Alignment explanation
Indices: 784007--784043 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
783997 AGTATGTAGT
784007 TTAAAA-TAATTACA
1 TTAAAATTAATTACA
*
784021 TTACAATTAATTA-A
1 TTAAAATTAATTACA
784035 TTAAAATTA
1 TTAAAATTA
784044 TGTAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATTAATTACA
Found at i:786812 original size:32 final size:32
Alignment explanation
Indices: 786775--786838 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
786765 GTTGCTTGCC
*
786775 TGCATTGCTTTTGGTTGATTTGCTTTCCTATT
1 TGCATTGCTTTTGGTTGATTTGCCTTCCTATT
* * *
786807 TGCATTGGTTTTGGTTGTTTTTCCTTCCTATT
1 TGCATTGCTTTTGGTTGATTTGCCTTCCTATT
786839 GTATTCATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.16, G:0.19, T:0.58
Consensus pattern (32 bp):
TGCATTGCTTTTGGTTGATTTGCCTTCCTATT
Found at i:787177 original size:218 final size:219
Alignment explanation
Indices: 786788--787217 Score: 736
Period size: 218 Copynumber: 2.0 Consensus size: 219
786778 ATTGCTTTTG
* * * * *
786788 GTTGATTTGCTTTCCTATTTGCATTGGTTTTGGTTGTTTTTCCTTCCTATTGTATTCATATGATG
1 GTTGATTTGCCTTCCTATTTGCATTGGTTTTGGTTGTTTTTCCCTCCTATTATATGCATACGATG
*
786853 AACTCTACTCGGATTCCCCTTCAAGACTTCATGGGTGATGCTAACTCGAGTTTCTGATGCAAACA
66 AACTCTACTCGGATTCCCCTTCAAGACATCATGGGTGATGCTAACTCGAGTTTCTGATGCAAACA
* * *
786918 TTAAGTGATCAATTTTACATAGTTCACAAATTTGATTTGTATTAAAGTAT-GAAAAATGTGTTTC
131 TTAAGTGATCAATTTTACATAGTTCACAAATTCGATTTGTATGAAAGTATAAAAAAATGTGTTTC
786982 TTCATTCTTTCTTCAATTCAGTTT
196 TTCATTCTTTCTTCAATTCAGTTT
787006 GTTGATTTGCCTTCCTATTTGCATTGGTTTTGGTTGTTTTTCCCTCCTATTATATGCATACGATG
1 GTTGATTTGCCTTCCTATTTGCATTGGTTTTGGTTGTTTTTCCCTCCTATTATATGCATACGATG
*
787071 AACTCTACTCGGATTCCCCTTCAAGACATCATGGGTGATGCTAACTCGAGTTTCTGATGCAAGCA
66 AACTCTACTCGGATTCCCCTTCAAGACATCATGGGTGATGCTAACTCGAGTTTCTGATGCAAACA
* * *
787136 TTAAGTGATCAATTTTACATAGTTCACAACTTCGGTTTGTATGGAAGTATAAAAAAATGTGTTTC
131 TTAAGTGATCAATTTTACATAGTTCACAAATTCGATTTGTATGAAAGTATAAAAAAATGTGTTTC
787201 TTCATTCTTTCTTCAAT
196 TTCATTCTTTCTTCAAT
787218 ACTCTAATAA
Statistics
Matches: 198, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
218 168 0.85
219 30 0.15
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (219 bp):
GTTGATTTGCCTTCCTATTTGCATTGGTTTTGGTTGTTTTTCCCTCCTATTATATGCATACGATG
AACTCTACTCGGATTCCCCTTCAAGACATCATGGGTGATGCTAACTCGAGTTTCTGATGCAAACA
TTAAGTGATCAATTTTACATAGTTCACAAATTCGATTTGTATGAAAGTATAAAAAAATGTGTTTC
TTCATTCTTTCTTCAATTCAGTTT
Found at i:799390 original size:23 final size:23
Alignment explanation
Indices: 799349--799411 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
799339 ATATAATATA
*
799349 AATTACAAATAATAAATTTTTAAT
1 AATTA-AAATAATAAATTTATAAT
**
799373 AATTAAAATAATTTATTTATAAT
1 AATTAAAATAATAAATTTATAAT
*
799396 AA-TATAAATCATAAAT
1 AATTA-AAATAATAAAT
799412 ATTCAATGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 2 0.06
23 25 0.78
24 5 0.16
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTAAAATAATAAATTTATAAT
Found at i:800817 original size:19 final size:19
Alignment explanation
Indices: 800778--800815 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
800768 CAAATCTTAA
*
800778 TAATAATAAGTTAAAATTT
1 TAATAATAAATTAAAATTT
800797 TAAT-ATAAATTAAAATTT
1 TAATAATAAATTAAAATTT
800815 T
1 T
800816 TATTCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TAATAATAAATTAAAATTT
Found at i:806798 original size:24 final size:24
Alignment explanation
Indices: 806770--806835 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
806760 TGATAATAAT
*
806770 AAAATAATATATTATTTATGTAAA
1 AAAATAATATATAATTTATGTAAA
* *
806794 AAAAT-ATAAATAATTTTATTTAAA
1 AAAATAATATATAA-TTTATGTAAA
*
806818 ATAATAA-ATATAATTTAT
1 AAAATAATATATAATTTAT
806836 ATTTTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 11 0.31
24 23 0.66
25 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
AAAATAATATATAATTTATGTAAA
Found at i:806854 original size:24 final size:21
Alignment explanation
Indices: 806793--806854 Score: 52
Period size: 24 Copynumber: 2.6 Consensus size: 21
806783 ATTTATGTAA
806793 AAAAATATAAATAATTTTATTT
1 AAAAA-ATAAATAATTTTATTT
806815 AAAATAATAAATATAATTTATATTTTT
1 AAAA-AAT-AA-ATAATTT-TA--TTT
*
806842 AAAACATAAATAA
1 AAAAAATAAATAA
806855 ACACAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
22 6 0.18
23 3 0.09
24 11 0.33
25 4 0.12
26 2 0.06
27 7 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATAAATAATTTTATTT
Found at i:807048 original size:20 final size:22
Alignment explanation
Indices: 806998--807052 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
806988 TTAGAAAAAG
806998 TTAATTATTTTATATATAAATT
1 TTAATTATTTTATATATAAATT
* *
807020 TTAAATATTTT-TAT-TATATT
1 TTAATTATTTTATATATAAATT
*
807040 TTAGTTATTTTAT
1 TTAATTATTTTAT
807053 TTATTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 14 0.50
21 4 0.14
22 10 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTAATTATTTTATATATAAATT
Found at i:830774 original size:22 final size:22
Alignment explanation
Indices: 830733--830777 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
830723 GAACGAACTG
*
830733 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTATAAATATTT
* *
830755 TAGGAATATTTTATAGATATTT
1 TAGGAATATTCTATAAATATTT
830777 T
1 T
830778 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTATAAATATTT
Found at i:830918 original size:12 final size:12
Alignment explanation
Indices: 830901--830928 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
830891 CTCCTTCTCC
830901 TACTTCGGAGAT
1 TACTTCGGAGAT
830913 TACTTCGGAGAT
1 TACTTCGGAGAT
830925 TACT
1 TACT
830929 CCTAATCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (12 bp):
TACTTCGGAGAT
Found at i:832953 original size:22 final size:22
Alignment explanation
Indices: 832925--832969 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
832915 AGGGGGAGTG
832925 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
832947 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
832969 T
1 T
832970 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:847103 original size:14 final size:17
Alignment explanation
Indices: 847072--847108 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
847062 ATTATAAATG
847072 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
847089 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
847103 ATATTA
1 ATATTA
847109 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:847120 original size:31 final size:28
Alignment explanation
Indices: 847054--847121 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
847044 ATATAAATAT
**
847054 ATAAATTAATTATAAATGATATTATTAA
1 ATAAATTAATTATAAATGATATTAAGAA
* *
847082 ATTAATTATATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-ATGATATTAAGAA
847113 ATAAATTAA
1 ATAAATTAA
847122 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
ATAAATTAATTATAAATGATATTAAGAA
Found at i:847284 original size:14 final size:14
Alignment explanation
Indices: 847258--847308 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
847248 GAAAACAAAA
847258 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
847272 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
847286 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
847301 G-AATAAAA
1 GAAATAAAA
847309 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:847319 original size:17 final size:16
Alignment explanation
Indices: 847297--847330 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
847287 AAGTTAAAAT
847297 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
847314 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
847330 A
1 A
847331 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:848245 original size:22 final size:25
Alignment explanation
Indices: 848202--848278 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 25
848192 TGAAAATGTG
* *
848202 TGAATTTGTGAAATAATTATTG-AT
1 TGAATGTGTGAAATAATGATTGAAT
848226 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTGAAT
* **
848249 TGAAAGTGTGAGAAATTGTGATTGAAT
1 TG-AA-TGTGTGAAATAATGATTGAAT
848276 TGA
1 TGA
848279 GAATATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.16
23 8 0.18
24 9 0.20
25 4 0.09
26 5 0.11
27 11 0.25
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (25 bp):
TGAATGTGTGAAATAATGATTGAAT
Found at i:848250 original size:23 final size:24
Alignment explanation
Indices: 848202--848259 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
848192 TGAAAATGTG
* *
848202 TGAATTTGTGAAATAATTATTGAT
1 TGAATGTGTGAAATAATGATTGAT
848226 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTG-AT
*
848249 TGAAAGTGTGA
1 TGAATGTGTGA
848260 GAAATTGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (24 bp):
TGAATGTGTGAAATAATGATTGAT
Found at i:848481 original size:37 final size:39
Alignment explanation
Indices: 848422--848517 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
848412 CGGATAGATT
* * * *
848422 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
848459 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
848498 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
848518 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:854558 original size:14 final size:17
Alignment explanation
Indices: 854527--854563 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
854517 ATTATAAATG
854527 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
854544 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
854558 ATATTA
1 ATATTA
854564 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:854575 original size:31 final size:28
Alignment explanation
Indices: 854509--854576 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
854499 ATATAAATAT
**
854509 ATAAATTAATTATAAATGATATTATTAA
1 ATAAATTAATTATAAATGATATTAAGAA
* *
854537 ATTAATTATATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-ATGATATTAAGAA
854568 ATAAATTAA
1 ATAAATTAA
854577 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
ATAAATTAATTATAAATGATATTAAGAA
Found at i:855703 original size:22 final size:25
Alignment explanation
Indices: 855660--855736 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 25
855650 TGAAAATGTG
* *
855660 TGAATTTGTGAAATAATTATTG-AT
1 TGAATGTGTGAAATAATGATTGAAT
855684 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTGAAT
* **
855707 TGAAAGTGTGAGAAATTGTGATTGAAT
1 TG-AA-TGTGTGAAATAATGATTGAAT
855734 TGA
1 TGA
855737 GAATATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.16
23 8 0.18
24 9 0.20
25 4 0.09
26 5 0.11
27 11 0.25
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (25 bp):
TGAATGTGTGAAATAATGATTGAAT
Found at i:855708 original size:23 final size:24
Alignment explanation
Indices: 855660--855717 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
855650 TGAAAATGTG
* *
855660 TGAATTTGTGAAATAATTATTGAT
1 TGAATGTGTGAAATAATGATTGAT
855684 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTG-AT
*
855707 TGAAAGTGTGA
1 TGAATGTGTGA
855718 GAAATTGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (24 bp):
TGAATGTGTGAAATAATGATTGAT
Found at i:855939 original size:37 final size:39
Alignment explanation
Indices: 855880--855975 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
855870 CGGATAGATT
* * * *
855880 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
855917 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
855956 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
855976 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:858806 original size:240 final size:241
Alignment explanation
Indices: 858301--858835 Score: 905
Period size: 240 Copynumber: 2.2 Consensus size: 241
858291 TTGCCGAGGC
* * *
858301 AAAGTTTTAGAAGATTTCGTTTTTATATTCCAATGGTGCAAACAGAGGACCGTAATGTCTATATG
1 AAAGTTTAAGAGGATTTCGTTTTTAAATTCCAATGGTGCAAACAGAGGACCGTAATGTCTATATG
**
858366 CAGTAATGATTTGTCTGACTTGTTTTTGGTTATATACGATTAGAAAATGTTAGTAGCAATACGGT
66 CAGTAATGATTTGTCTGACTTGTTTTCAGTTATATACGATTAGAAAATGTTAGTAGCAATACGGT
858431 GAAGAACGTTGTTTGGTTGCCGAGAAAAACGTAAGGAGAAAAGAAAAATGGAGTGAATGAGTGAT
131 GAAGAACGTTGTTTGGTTGCCGAGAAAAACGTAAGGAGAAAAGAAAAATGGAGTGAATGAGTGAT
* *
858496 ATGTTTATGAACTCCATGCAACTACCTCCCTGTTTTACCTGATGGC
196 ATGTTTATGAACTCCATGCAACTACCTCCCTATTTTACCTGATGGA
* * *
858542 AAGGTTTTAGAGGATTTAGTTTTTAAATTCCAATGGTGCAAACAGAGGACCGTAATGTCTATATG
1 AAAGTTTAAGAGGATTTCGTTTTTAAATTCCAATGGTGCAAACAGAGGACCGTAATGTCTATATG
*
858607 CAGTAATGATTTGTCTGACTT-TTTTCAGTTATATACGATTAGAAAATGTTAGTAGCAATACTGT
66 CAGTAATGATTTGTCTGACTTGTTTTCAGTTATATACGATTAGAAAATGTTAGTAGCAATACGGT
858671 GAAGAACGTTGTTTGGTTGCCGAGAAAAACGTAAGGA-AAAA-AAAAATGGAGTGAATGAGTGAT
131 GAAGAACGTTGTTTGGTTGCCGAGAAAAACGTAAGGAGAAAAGAAAAATGGAGTGAATGAGTGAT
* *
858734 ATGTTTATGAACTCCATGCAACTATCTCCCTATTTTACTTGATGGA
196 ATGTTTATGAACTCCATGCAACTACCTCCCTATTTTACCTGATGGA
*
858780 AAAGTTTCAAGAGGATTTTCGTTTTTAAATTCCAATGGTGCAAACAGCGGACCGTA
1 AAAGTTT-AAGAGGA-TTTCGTTTTTAAATTCCAATGGTGCAAACAGAGGACCGTA
858836 GTAGTGAAAA
Statistics
Matches: 277, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
238 70 0.25
239 10 0.04
240 115 0.42
241 82 0.30
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (241 bp):
AAAGTTTAAGAGGATTTCGTTTTTAAATTCCAATGGTGCAAACAGAGGACCGTAATGTCTATATG
CAGTAATGATTTGTCTGACTTGTTTTCAGTTATATACGATTAGAAAATGTTAGTAGCAATACGGT
GAAGAACGTTGTTTGGTTGCCGAGAAAAACGTAAGGAGAAAAGAAAAATGGAGTGAATGAGTGAT
ATGTTTATGAACTCCATGCAACTACCTCCCTATTTTACCTGATGGA
Found at i:859461 original size:27 final size:27
Alignment explanation
Indices: 859423--859476 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
859413 ATTGAGCATG
859423 ACAGAGACATCATAACGATCATTTAAT
1 ACAGAGACATCATAACGATCATTTAAT
859450 ACAGAGACATCATAACGATCATTTAAT
1 ACAGAGACATCATAACGATCATTTAAT
859477 TTTGTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (27 bp):
ACAGAGACATCATAACGATCATTTAAT
Found at i:860750 original size:26 final size:26
Alignment explanation
Indices: 860711--860766 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
860701 ACTATACTAA
*
860711 TGAAAAGAATCAAATAAGGCCAAAAT
1 TGAAAAGAACCAAATAAGGCCAAAAT
*
860737 TGAAAAGAACCAAATAAGGCCAAACT
1 TGAAAAGAACCAAATAAGGCCAAAAT
860763 TGAA
1 TGAA
860767 TAGATTTAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.14
Consensus pattern (26 bp):
TGAAAAGAACCAAATAAGGCCAAAAT
Found at i:865466 original size:2 final size:2
Alignment explanation
Indices: 865453--865484 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
865443 TGTTCAGAGT
*
865453 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
865485 GCGCGCGCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:865525 original size:12 final size:12
Alignment explanation
Indices: 865503--865539 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
865493 GCACACACGC
865503 ACATACATCCAT
1 ACATACATCCAT
* *
865515 CCATCCATCCAT
1 ACATACATCCAT
865527 ACATACATCCAT
1 ACATACATCCAT
865539 A
1 A
865540 TAGAGAGAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (12 bp):
ACATACATCCAT
Found at i:877751 original size:40 final size:40
Alignment explanation
Indices: 877706--877790 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
877696 AATGTATATA
877706 TTAAAAATTTATATAAATAATAGATGAGACTTTGAAAAGG
1 TTAAAAATTTATATAAATAATAGATGAGACTTTGAAAAGG
877746 TTAAAAATTTATATAAATAATAGATGAGACTTTGAAAAGG
1 TTAAAAATTTATATAAATAATAGATGAGACTTTGAAAAGG
877786 -TAAAA
1 TTAAAA
877791 TAATAATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 5 0.11
40 40 0.89
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (40 bp):
TTAAAAATTTATATAAATAATAGATGAGACTTTGAAAAGG
Found at i:892840 original size:21 final size:22
Alignment explanation
Indices: 892793--892842 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
892783 CTGAATTCGT
*
892793 CCATGGTCAATAAAGTACTTAA
1 CCATTGTCAATAAAGTACTTAA
892815 CCATTGTCAATAAAGTACTT-A
1 CCATTGTCAATAAAGTACTTAA
892836 CCATTGT
1 CCATTGT
892843 TCTCTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (22 bp):
CCATTGTCAATAAAGTACTTAA
Found at i:904045 original size:16 final size:17
Alignment explanation
Indices: 904015--904046 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
904005 TTGTCATTGG
904015 TTTCTTTTGCTTTTTCC
1 TTTCTTTTGCTTTTTCC
904032 TTTCTTTT-CTTTTTC
1 TTTCTTTTGCTTTTTC
904047 TAGTGTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTTTTGCTTTTTCC
Found at i:910740 original size:21 final size:21
Alignment explanation
Indices: 910714--910802 Score: 85
Period size: 21 Copynumber: 4.3 Consensus size: 21
910704 GTGTTTTACT
*
910714 TTCTGTTTAGCTCTT-TCGAGC
1 TTCTGTTCAGCTCTTAT-GAGC
* *
910735 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
*
910756 TTTTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
910777 TTTTGCTCAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTATGAGC
910796 TTCTGTT
1 TTCTGTT
910803 GGCGTATTTG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 9 0.16
20 2 0.04
21 45 0.79
22 1 0.02
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.48
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:923658 original size:16 final size:17
Alignment explanation
Indices: 923639--923671 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
923629 AATTTGTTTT
*
923639 TATATAAAAA-TAATAA
1 TATAAAAAAATTAATAA
923655 TATAAAAAAATTAATAA
1 TATAAAAAAATTAATAA
923672 GGCAGGTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TATAAAAAAATTAATAA
Found at i:923862 original size:41 final size:41
Alignment explanation
Indices: 923785--923863 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
923775 CAATCCAACC
**
923785 CATGATCACTCTAGATCGAACCCTACCAAACGCATGATGCT
1 CATGATCACTCTAGATCGAACCCTACCAAAAACATGATGCT
923826 CATGATCACTCTAGATCGAACCCTACCAAAAACATGAT
1 CATGATCACTCTAGATCGAACCCTACCAAAAACATGAT
923864 ACTTACATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (41 bp):
CATGATCACTCTAGATCGAACCCTACCAAAAACATGATGCT
Found at i:924653 original size:77 final size:77
Alignment explanation
Indices: 924526--924683 Score: 289
Period size: 77 Copynumber: 2.1 Consensus size: 77
924516 GTGTCAACTT
*
924526 ATTTAAAATTTAATCGATAAAAAAGTAATTGGTTAGATTGATAAGTTTATATAAAATTTGGAAAT
1 ATTTAAAATTTAATCGATAAAAAAATAATTGGTTAGATTGATAAGTTTATATAAAATTTGGAAAT
924591 GTCTAAAATGAG
66 GTCTAAAATGAG
*
924603 ATTTAAAATTTAATCGATAAAAAAATAATTGGTTAGATTGATAAGTTTATATATAATTTGGAAAT
1 ATTTAAAATTTAATCGATAAAAAAATAATTGGTTAGATTGATAAGTTTATATAAAATTTGGAAAT
*
924668 GTCTAAAATGTG
66 GTCTAAAATGAG
924680 ATTT
1 ATTT
924684 TATTATAGTA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.39
Consensus pattern (77 bp):
ATTTAAAATTTAATCGATAAAAAAATAATTGGTTAGATTGATAAGTTTATATAAAATTTGGAAAT
GTCTAAAATGAG
Found at i:925516 original size:20 final size:20
Alignment explanation
Indices: 925487--925530 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
925477 TTATATTAAA
*
925487 TTTAAAAAAATTAGA-TTTAT
1 TTTAAAAAAA-TAAATTTTAT
*
925507 TTTAATAAAATAAATTTTAT
1 TTTAAAAAAATAAATTTTAT
925527 TTTA
1 TTTA
925531 TGGCTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTAAAAAAATAAATTTTAT
Found at i:933163 original size:20 final size:20
Alignment explanation
Indices: 933135--933181 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
933125 AAGCTTATAG
*
933135 TATCAATACTTGCCCCAAGA
1 TATCGATACTTGCCCCAAGA
* * *
933155 TATCGATACTTGTCCCAGGG
1 TATCGATACTTGCCCCAAGA
933175 TATCGAT
1 TATCGAT
933182 GCTCAGGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (20 bp):
TATCGATACTTGCCCCAAGA
Found at i:943054 original size:10 final size:10
Alignment explanation
Indices: 943049--943073 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
943039 AATAATAATT
943049 AATAATTAAA
1 AATAATTAAA
943059 AATAATTAAA
1 AATAATTAAA
943069 AATAA
1 AATAA
943074 AAAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAATTAAA
Found at i:943064 original size:17 final size:17
Alignment explanation
Indices: 943042--943078 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
943032 CTAAATCAAT
* *
943042 AATAATTAATAATTAAA
1 AATAATTAAAAATAAAA
943059 AATAATTAAAAATAAAA
1 AATAATTAAAAATAAAA
943076 AAT
1 AAT
943079 TTATTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAATTAAAAATAAAA
Found at i:949392 original size:19 final size:20
Alignment explanation
Indices: 949368--949408 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
949358 ATTTAACATG
949368 CTTAA-TTTTTTATTTTTAT
1 CTTAATTTTTTTATTTTTAT
949387 CTTAATTTTTTTTATTTTTAT
1 CTTAA-TTTTTTTATTTTTAT
949408 C
1 C
949409 AATTTTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
21 15 0.75
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTAATTTTTTTATTTTTAT
Found at i:949412 original size:19 final size:20
Alignment explanation
Indices: 949373--949414 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
949363 ACATGCTTAA
949373 TTTTTTATTTTTATCTTAATT
1 TTTTTTATTTTTATC-TAATT
949394 TTTTTTATTTTTATC-AATT
1 TTTTTTATTTTTATCTAATT
949413 TT
1 TT
949415 CAAGCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTTTATCTAATT
Found at i:950477 original size:21 final size:21
Alignment explanation
Indices: 950447--950497 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
950437 AAATATTTTA
*
950447 TAATTAATATTAAATTAACAAT
1 TAATT-ATATTAAATCAACAAT
* * *
950469 TAATTATATTTACTCAATAAT
1 TAATTATATTAAATCAACAAT
950490 TAATTATA
1 TAATTATA
950498 AAAATGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTATATTAAATCAACAAT
Found at i:956375 original size:30 final size:30
Alignment explanation
Indices: 956339--956399 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
956329 CCCCAACAGG
956339 ATATAAAGGAAACCAAGTAATGGATCATGA
1 ATATAAAGGAAACCAAGTAATGGATCATGA
*
956369 ATATAAAGGAAACCAAGTCATGGATCATGA
1 ATATAAAGGAAACCAAGTAATGGATCATGA
956399 A
1 A
956400 AGCCGGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (30 bp):
ATATAAAGGAAACCAAGTAATGGATCATGA
Found at i:970431 original size:18 final size:18
Alignment explanation
Indices: 970405--970447 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
970395 TTTAATCATT
*
970405 TAAAATATTATAAA-AATA
1 TAAATTATTA-AAATAATA
970423 TAAATTATTAAAATAATA
1 TAAATTATTAAAATAATA
970441 -AAATTAT
1 TAAATTAT
970448 ATTTTAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAATTATTAAAATAATA
Found at i:970435 original size:15 final size:17
Alignment explanation
Indices: 970411--970448 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
970401 CATTTAAAAT
970411 ATTATAAAAAT-AT-AA
1 ATTATAAAAATAATAAA
*
970426 ATTATTAAAATAATAAA
1 ATTATAAAAATAATAAA
970443 ATTATA
1 ATTATA
970449 TTTTAACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 10 0.53
16 2 0.11
17 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTATAAAAATAATAAA
Found at i:971857 original size:22 final size:23
Alignment explanation
Indices: 971825--971880 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
971815 GCTATTCAAT
*
971825 TTTAAAAAATTATAAAATAAA-TA
1 TTTAAATAATTATAAAA-AAATTA
971848 -TTAAATAATT-TAAAAAAATTA
1 TTTAAATAATTATAAAAAAATTA
*
971869 TTTAAATTATTA
1 TTTAAATAATTA
971881 GATTATTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 7 0.25
22 18 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTAAATAATTATAAAAAAATTA
Found at i:972051 original size:14 final size:15
Alignment explanation
Indices: 972027--972055 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
972017 AATATCAAAA
972027 AAAATTATTTAAATT
1 AAAATTATTTAAATT
972042 AAAA-TATTTAAATT
1 AAAATTATTTAAATT
972056 TTGATTCGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATTATTTAAATT
Found at i:976639 original size:31 final size:31
Alignment explanation
Indices: 976604--976663 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
976594 CAAAATGGTT
976604 ATTGAACTATTCGAAAG-TTTTCATTTAAGTC
1 ATTGAACTATTCGAAAGTTTTTC-TTTAAGTC
* *
976635 ATTGAATTATTTGAAAGTTTTTCTTTAAG
1 ATTGAACTATTCGAAAGTTTTTCTTTAAG
976664 CAATTGGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTGAACTATTCGAAAGTTTTTCTTTAAGTC
Found at i:978496 original size:16 final size:16
Alignment explanation
Indices: 978475--978546 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
978465 TTTGGTTCAG
* *
978475 TGTAATGGAATAGGGT
1 TGTAATAGAATAGAGT
* **
978491 TGTAATGGAATAGAAC
1 TGTAATAGAATAGAGT
978507 TGTAATAGAATAGAGT
1 TGTAATAGAATAGAGT
**
978523 TGTAATAGAATAGAAC
1 TGTAATAGAATAGAGT
978539 TGTAATAG
1 TGTAATAG
978547 CAATTCAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:978518 original size:32 final size:32
Alignment explanation
Indices: 978475--978546 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
978465 TTTGGTTCAG
* * *
978475 TGTAATGGAATAGGGTTGTAATGGAATAGAAC
1 TGTAATAGAATAGAGTTGTAATAGAATAGAAC
978507 TGTAATAGAATAGAGTTGTAATAGAATAGAAC
1 TGTAATAGAATAGAGTTGTAATAGAATAGAAC
978539 TGTAATAG
1 TGTAATAG
978547 CAATTCAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (32 bp):
TGTAATAGAATAGAGTTGTAATAGAATAGAAC
Found at i:978616 original size:44 final size:44
Alignment explanation
Indices: 978530--978617 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
978520 AGTTGTAATA
978530 GAATAGAACTGTAATAGCAATTCAATTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATA-CAATTCAATTGTTTGGTTGAATGGAATG
* *
978575 GAATAGAACTGTAATA-ATATTC-TTGTGTTTTGTTGAATGGAAT
1 GAATAGAACTGTAATACA-ATTCAAT-TGTTTGGTTGAATGGAAT
978618 AAAGTTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 2 0.05
44 21 0.54
45 16 0.41
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (44 bp):
GAATAGAACTGTAATACAATTCAATTGTTTGGTTGAATGGAATG
Found at i:978781 original size:61 final size:60
Alignment explanation
Indices: 978716--978868 Score: 150
Period size: 58 Copynumber: 2.5 Consensus size: 60
978706 TTTAATAGGA
** *
978716 TTATTATTAGATATAATTTAATAAAAATAATAATACATAATTTAACCCTATT-TTAATAAAT
1 TTATTATTA-ATATAA-TTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
* * * *
978777 TTATTATTAATTATAATT--TAACAATAATAATATATAATTTAATAATATTCTTAATATAG
1 TTATTATTAA-TATAATTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
**
978836 CAATTATTAAAATATAAATTAATAAAAATAATA
1 TTATTATT--AATAT-AATTAATAAAAATAATA
978869 TATAATATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
58 26 0.35
59 13 0.17
60 6 0.08
61 20 0.27
63 10 0.13
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (60 bp):
TTATTATTAATATAATTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
Found at i:978812 original size:21 final size:20
Alignment explanation
Indices: 978784--978823 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
978774 AATTTATTAT
978784 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
978804 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
978824 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:978884 original size:22 final size:21
Alignment explanation
Indices: 978847--978892 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
978837 AATTATTAAA
978847 ATATAAATTAATAAAAATAAT
1 ATATAAATTAATAAAAATAAT
978868 ATATAATATTACA-AAAAATAAT
1 ATATAA-ATTA-ATAAAAATAAT
978890 ATA
1 ATA
978893 CAACCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAATTAATAAAAATAAT
Found at i:979025 original size:12 final size:12
Alignment explanation
Indices: 978995--979029 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
978985 TCTATGTTAC
978995 TTAAAGAATAAT
1 TTAAAGAATAAT
979007 TTAAAAGAATAAT
1 TT-AAAGAATAAT
979020 TTAAAGAATA
1 TTAAAGAATA
979030 TATTGTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:982885 original size:18 final size:20
Alignment explanation
Indices: 982843--982879 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
982833 ATATTTTATG
*
982843 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
982862 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
982880 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:985080 original size:46 final size:46
Alignment explanation
Indices: 985028--985301 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
985018 AGTGTGCTCT
*
985028 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
985074 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
985120 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
985166 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
985212 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
985258 ATGA-CTGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
985302 TCATGTCAAA
Statistics
Matches: 204, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 2 0.01
46 202 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:985185 original size:92 final size:92
Alignment explanation
Indices: 985028--985301 Score: 395
Period size: 92 Copynumber: 3.0 Consensus size: 92
985018 AGTGTGCTCT
* * * *
985028 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
985093 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * * *
985120 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
985185 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * ** * *
985212 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACTGAAAATGAGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
* * *
985277 ACCATAGTTGAAAGACACTATGGCA
66 ACCATGGTTGAAAGATACCATGGCA
985302 TCATGTCAAA
Statistics
Matches: 162, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 162 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAGC
Found at i:986057 original size:25 final size:25
Alignment explanation
Indices: 986029--986079 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
986019 GCAACAACAC
986029 ACCTTAGTTAAATCTTCGATGGAGG
1 ACCTTAGTTAAATCTTCGATGGAGG
*
986054 ACCTTAGTTAAATCTTGGATGGAGG
1 ACCTTAGTTAAATCTTCGATGGAGG
986079 A
1 A
986080 GAGCCATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (25 bp):
ACCTTAGTTAAATCTTCGATGGAGG
Found at i:986854 original size:31 final size:30
Alignment explanation
Indices: 986816--986884 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
986806 GGACACTAAT
986816 TTTAAAAAGTTACA-AAACGGTCATTAAACTA
1 TTTAAAAAGTTACATAAA--GTCATTAAACTA
* * *
986847 TTTAAAAATTTTCATTTAAGTCATTAAACTA
1 TTTAAAAAGTTACA-TAAAGTCATTAAACTA
986878 TTTAAAA
1 TTTAAAA
986885 GTTTTTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 31 0.94
33 2 0.06
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (30 bp):
TTTAAAAAGTTACATAAAGTCATTAAACTA
Found at i:990906 original size:18 final size:18
Alignment explanation
Indices: 990885--990925 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
990875 TGAGCGTGAT
990885 CGTGACCATGATAGAGAC
1 CGTGACCATGATAGAGAC
* *
990903 CGTGATCGTGATAGAGAC
1 CGTGACCATGATAGAGAC
990921 CGTGA
1 CGTGA
990926 GCGTTATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (18 bp):
CGTGACCATGATAGAGAC
Found at i:990934 original size:18 final size:18
Alignment explanation
Indices: 990893--990934 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
990883 ATCGTGACCA
*
990893 TGATAGAGACCGTGATCG
1 TGATAGAGACCGTGAGCG
990911 TGATAGAGACCGTGAGCG
1 TGATAGAGACCGTGAGCG
*
990929 TTATAG
1 TGATAG
990935 GGAGAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (18 bp):
TGATAGAGACCGTGAGCG
Found at i:1009469 original size:14 final size:14
Alignment explanation
Indices: 1009450--1009477 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1009440 CTCAATCAAC
1009450 TTTTTTAAAAAATA
1 TTTTTTAAAAAATA
1009464 TTTTTTAAAAAATA
1 TTTTTTAAAAAATA
1009478 AATAAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTTTAAAAAATA
Found at i:1014908 original size:13 final size:14
Alignment explanation
Indices: 1014892--1014920 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1014882 AGGGTTTTGA
1014892 GTTCAG-GTTTAAG
1 GTTCAGAGTTTAAG
1014905 GTTCAGAGTTTAAG
1 GTTCAGAGTTTAAG
1014919 GT
1 GT
1014921 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (14 bp):
GTTCAGAGTTTAAG
Found at i:1028640 original size:21 final size:20
Alignment explanation
Indices: 1028599--1028663 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
1028589 CAAAATCTAT
* *
1028599 ATTTCAAAAAAGATTATAAA
1 ATTTCAAAAAAAATTAAAAA
1028619 ATTTCAAAAAAAATCTAAAAA
1 ATTTCAAAAAAAAT-TAAAAA
* *
1028640 ATATAT-AAAGAAAGTTAAAAA
1 AT-T-TCAAAAAAAATTAAAAA
1028661 ATT
1 ATT
1028664 AAATTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 14 0.37
21 15 0.39
22 8 0.21
23 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
ATTTCAAAAAAAATTAAAAA
Found at i:1030511 original size:18 final size:17
Alignment explanation
Indices: 1030485--1030523 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1030475 AATGTATTAT
*
1030485 AAATTACATAACATATAA
1 AAATAACATAACATA-AA
*
1030503 AAATAACATAATATAAA
1 AAATAACATAACATAAA
1030520 AAAT
1 AAAT
1030524 TATGAACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAACATAACATAAA
Found at i:1030834 original size:6 final size:6
Alignment explanation
Indices: 1030823--1030861 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
1030813 AAAAGAGTAA
*
1030823 AAAAAG AAAAAG AAAAAG AAAAAG AGAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1030862 CCCCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1041933 original size:10 final size:10
Alignment explanation
Indices: 1041918--1041978 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 10
1041908 TTTTTAGAAC
1041918 TTTATAATAT
1 TTTATAATAT
1041928 TTTAT-A-AT
1 TTTATAATAT
1041936 TTTAT-ATAT
1 TTTATAATAT
*
1041945 TTTATGAT-T
1 TTTATAATAT
* *
1041954 TTTATAAAAA
1 TTTATAATAT
*
1041964 TTTATAATTT
1 TTTATAATAT
1041974 TTTAT
1 TTTAT
1041979 TTTTTACTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 8 0.19
9 15 0.36
10 19 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTATAATAT
Found at i:1041939 original size:18 final size:18
Alignment explanation
Indices: 1041918--1041974 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
1041908 TTTTTAGAAC
1041918 TTTATAATATTTTATAAT
1 TTTATAATATTTTATAAT
*
1041936 TTTAT-ATATTTTATGATT
1 TTTATAATATTTTAT-AAT
* *
1041954 TTTATAAAAATTTATAAT
1 TTTATAATATTTTATAAT
1041972 TTT
1 TTT
1041975 TTATTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 9 0.27
18 17 0.52
19 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTATAATATTTTATAAT
Found at i:1042270 original size:90 final size:90
Alignment explanation
Indices: 1042097--1042304 Score: 216
Period size: 89 Copynumber: 2.4 Consensus size: 90
1042087 AATAAAAACA
*
1042097 AGGGCTTAATTTCTTTTTTTTGAAAAAGTTTGAGAGCATTTTTAATGTATTTTAAAAGTTCAAGT
1 AGGGCTTAATTACTTTTTTTTGAAAAAGTTTGAGAGCATTTTTAATGTATTTTAAAAGTTCAAGT
* * **
1042162 ACCCAATTTAATGCAAAAAAAAAGT
66 ACCCAAATGAATAAAAAAAAAAAGT
* * * *
1042187 AGGGACTTAATTAC-TTTTTTTGAAAAGGTTTGAGGGTC-TTTTT-CTGTATTTTGAAAGTTCAA
1 AGGG-CTTAATTACTTTTTTTTGAAAAAGTTTGAGAG-CATTTTTAATGTATTTTAAAAGTTCAA
** *
1042249 GTGTCCAAATGAGTAAAAAAAAAAAG-
64 GTACCCAAATGAATAAAAAAAAAAAGT
* *
1042275 A--GCTTAATTGC-TTTTTCT-AAAAAGTTTGAG
1 AGGGCTTAATTACTTTTTTTTGAAAAAGTTTGAG
1042305 TTTTTTTGCA
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
84 11 0.11
85 14 0.14
86 1 0.01
88 1 0.01
89 36 0.36
90 29 0.29
91 9 0.09
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (90 bp):
AGGGCTTAATTACTTTTTTTTGAAAAAGTTTGAGAGCATTTTTAATGTATTTTAAAAGTTCAAGT
ACCCAAATGAATAAAAAAAAAAAGT
Found at i:1071368 original size:20 final size:21
Alignment explanation
Indices: 1071318--1071368 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1071308 TTTTATGGAA
1071318 ATTTT-TATGAATTTTTTAAT
1 ATTTTATATGAATTTTTTAAT
* *
1071338 ATTTTAAATGAA-TTTTTATT
1 ATTTTATATGAATTTTTTAAT
*
1071358 TTTTTATATGA
1 ATTTTATATGA
1071369 GGCAGCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (21 bp):
ATTTTATATGAATTTTTTAAT
Found at i:1077645 original size:28 final size:29
Alignment explanation
Indices: 1077614--1077669 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
1077604 TATTATTATT
*
1077614 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
1077642 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
1077670 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:1078888 original size:37 final size:39
Alignment explanation
Indices: 1078829--1078924 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
1078819 CGGATAGATT
* * * *
1078829 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
1078866 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
1078905 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
1078925 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:1084070 original size:13 final size:13
Alignment explanation
Indices: 1084052--1084099 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 13
1084042 CCATAATTTG
1084052 ATTTAAAATAAAT
1 ATTTAAAATAAAT
1084065 ATTTAAAATATTTAATTT
1 ATTTAAAATA---AA--T
1084083 ATTTAAAATAAAT
1 ATTTAAAATAAAT
1084096 ATTT
1 ATTT
1084100 TATTTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 15 0.50
15 2 0.07
16 2 0.07
18 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAAAATAAAT
Found at i:1084085 original size:18 final size:18
Alignment explanation
Indices: 1084064--1084106 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1084054 TTAAAATAAA
**
1084064 TATTTAAAATATTTAATT
1 TATTTAAAATAAATAATT
*
1084082 TATTTAAAATAAATATTT
1 TATTTAAAATAAATAATT
1084100 TATTTAA
1 TATTTAA
1084107 TTAAAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTAAAATAAATAATT
Found at i:1084095 original size:22 final size:22
Alignment explanation
Indices: 1084070--1084112 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1084060 TAAATATTTA
*
1084070 AAATATTTAATTTATTTAAAAT
1 AAATATTTAATTTAATTAAAAT
*
1084092 AAATATTTTATTTAATTAAAA
1 AAATATTTAATTTAATTAAAA
1084113 ATGACACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATTTAATTTAATTAAAAT
Found at i:1084103 original size:27 final size:29
Alignment explanation
Indices: 1084045--1084108 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
1084035 TTACATGCCA
1084045 TAATTTGATTTAAAATAAATATTTAAAATATT
1 TAATTTGATTTAAAATAAATATTT---ATATT
1084077 TAATTT-ATTTAAAATAAATATTT-TATT
1 TAATTTGATTTAAAATAAATATTTATATT
1084104 TAATT
1 TAATT
1084109 AAAAATGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.28
31 17 0.53
32 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TAATTTGATTTAAAATAAATATTTATATT
Found at i:1088177 original size:22 final size:22
Alignment explanation
Indices: 1088138--1088179 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1088128 TAGGCTTTCT
**
1088138 TGAAACAATTCTACAACACACA
1 TGAAACAAAACTACAACACACA
*
1088160 TGAAACAAAACTAGAACACA
1 TGAAACAAAACTACAACACA
1088180 GGGACTGAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.24, G:0.07, T:0.14
Consensus pattern (22 bp):
TGAAACAAAACTACAACACACA
Found at i:1090248 original size:12 final size:12
Alignment explanation
Indices: 1090231--1090260 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
1090221 TGTTAATATC
1090231 TTTAACTTTATT
1 TTTAACTTTATT
1090243 TTTAACTTTATT
1 TTTAACTTTATT
1090255 TGTTAA
1 T-TTAA
1090261 ATTAGTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (12 bp):
TTTAACTTTATT
Found at i:1093951 original size:23 final size:25
Alignment explanation
Indices: 1093908--1093962 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
1093898 CAAAATATTA
1093908 AATTATACTTTATATTTATTT-T-G
1 AATTATACTTTATATTTATTTATAG
1093931 AATTATAC-TTA-ATTATAATTTATAG
1 AATTATACTTTATATT-T-ATTTATAG
1093956 AATTATA
1 AATTATA
1093963 AAGTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.11
22 4 0.14
23 12 0.43
24 1 0.04
25 8 0.29
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (25 bp):
AATTATACTTTATATTTATTTATAG
Found at i:1094124 original size:19 final size:19
Alignment explanation
Indices: 1094097--1094139 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1094087 ATATTTTCCG
1094097 TTTTCTCATTTATT-TAATAA
1 TTTTCTCATTT-TTCTAAT-A
1094117 TTTT-TCATTTTTCTAATA
1 TTTTCTCATTTTTCTAATA
1094135 TTTTC
1 TTTTC
1094140 AAAAAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTCTCATTTTTCTAATA
Found at i:1100842 original size:13 final size:13
Alignment explanation
Indices: 1100824--1100849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1100814 CTATAAAAAT
1100824 GTGGACCGTTAAA
1 GTGGACCGTTAAA
1100837 GTGGACCGTTAAA
1 GTGGACCGTTAAA
1100850 ACAAATTGGA
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:0.31, T:0.23
Consensus pattern (13 bp):
GTGGACCGTTAAA
Done.