Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003208.1 Hibiscus syriacus cultivar Beakdansim tig00006753_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1278004
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:687578 original size:37 final size:37
Alignment explanation
Indices: 687475--687578 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
687465 ATAAGTTTGT
* *
687475 TTCACTACTGTTTCGTGCAA-GCTTATAGA-TGATTTGC
1 TTCACTACTCTTTCGTG-AAGGCTTA-AGATTGAATTGC
*
687512 TTCACTACTCTTCCGTGAAGGCTTAAGATTGAATTGC
1 TTCACTACTCTTTCGTGAAGGCTTAAGATTGAATTGC
*
687549 TTCACTGCTCTTTCGTGAAGGCTTAAGATT
1 TTCACTACTCTTTCGTGAAGGCTTAAGATT
687579 AACTTGTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
36 5 0.08
37 55 0.92
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (37 bp):
TTCACTACTCTTTCGTGAAGGCTTAAGATTGAATTGC
Found at i:688122 original size:7 final size:7
Alignment explanation
Indices: 688107--688305 Score: 54
Period size: 7 Copynumber: 26.9 Consensus size: 7
688097 CCCCCTTTTA
*
688107 TTTCCTT
1 TTTCTTT
688114 TTTCTTT
1 TTTCTTT
688121 TTTCATCATTT
1 TTTC-T---TT
*
688132 TTTCCT-
1 TTTCTTT
688138 TTTCTTT
1 TTTCTTT
688145 TTTC-TT
1 TTTCTTT
688151 TTTCATTT
1 TTTC-TTT
688159 TTTC-TT
1 TTTCTTT
688165 TTTCATTT
1 TTTC-TTT
688173 TTTCTTCCAT
1 TTTCTT---T
*
688183 TTTCTAT
1 TTTCTTT
*
688190 TTTC--A
1 TTTCTTT
*
688195 TTTCATT
1 TTTCTTT
688202 TTTCTTCAT
1 TTTCTT--T
688211 TTT-TTT
1 TTTCTTT
688217 TAATT-TTT
1 T--TTCTTT
*
688225 TTCATCATTA
1 TT--TC-TTT
688235 TTTCATTT
1 TTTC-TTT
*
688243 TTTCCTT
1 TTTCTTT
*
688250 TTTCCTT
1 TTTCTTT
*
688257 TTTC-CT
1 TTTCTTT
*
688263 TTCCTTT
1 TTTCTTT
*
688270 TTTTTTT
1 TTTCTTT
*
688277 TTTTTTT
1 TTTCTTT
688284 TTTCTCTT
1 TTTCT-TT
688292 TTTCATTT
1 TTTC-TTT
*
688300 ATTCTT
1 TTTCTT
688306 CAAGCAAAAT
Statistics
Matches: 150, Mismatches: 17, Indels: 50
0.69 0.08 0.23
Matches are distributed among these distances:
5 4 0.03
6 24 0.16
7 59 0.39
8 42 0.28
9 5 0.03
10 10 0.07
11 6 0.04
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTCTTT
Found at i:688156 original size:27 final size:28
Alignment explanation
Indices: 688126--688178 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
688116 TCTTTTTTCA
688126 TCATTTTTTCCTTTTC-TTTTTTCTTTT
1 TCATTTTTTCCTTTTCATTTTTTCTTTT
*
688153 TCATTTTTTCTTTTTCATTTTTTCTT
1 TCATTTTTTCCTTTTCATTTTTTCTT
688179 CCATTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (28 bp):
TCATTTTTTCCTTTTCATTTTTTCTTTT
Found at i:688159 original size:14 final size:14
Alignment explanation
Indices: 688126--688305 Score: 92
Period size: 14 Copynumber: 12.9 Consensus size: 14
688116 TCTTTTTTCA
*
688126 TCATTTTTTCCTTT
1 TCATTTTTTCTTTT
688140 TC-TTTTTTCTTTT
1 TCATTTTTTCTTTT
688153 TCATTTTTTCTTTT
1 TCATTTTTTCTTTT
688167 TCATTTTTTC--TT
1 TCATTTTTTCTTTT
*
688179 CCA--TTTTCTATTT
1 TCATTTTTTCT-TTT
*
688192 TCATTTCATTT-TTCT
1 TCATTT--TTTCTTTT
688207 TCATTTTTT-TTAATT
1 TCATTTTTTCTT--TT
*
688222 T--TTTTCATCATTATT
1 TCATTTT-TTC-TT-TT
688237 TCATTTTTTCCTTTT
1 TCATTTTTT-CTTTT
* *
688252 TC-CTTTTTCCTTT
1 TCATTTTTTCTTTT
* * *
688265 CCTTTTTTTTTTTT
1 TCATTTTTTCTTTT
**
688279 TTTTTTTTCTCTTTT
1 TCATTTTT-TCTTTT
*
688294 TCATTTATTCTT
1 TCATTTTTTCTT
688306 CAAGCAAAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
10 5 0.04
12 4 0.03
13 30 0.23
14 47 0.36
15 29 0.22
16 6 0.05
17 8 0.06
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (14 bp):
TCATTTTTTCTTTT
Found at i:688160 original size:44 final size:44
Alignment explanation
Indices: 688102--688207 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 44
688092 TGAACCCCCC
* *
688102 TTTT-ATTTCCTTTTTCTTTTTTCATCATTTT-TTCC-TTTTCTT
1 TTTTCATTTCATTTTTCTTTTTTCAT-ATTTTCTTCCATTTTCTA
* *
688144 TTTTCTTTTTCATTTTT-TCTTTTTCATTTTTTCTTCCATTTTCTA
1 TTTTC-ATTTCATTTTTCT-TTTTTCATATTTTCTTCCATTTTCTA
688189 TTTTCATTTCATTTTTCTT
1 TTTTCATTTCATTTTTCTT
688208 CATTTTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.08
43 5 0.09
44 32 0.60
45 12 0.23
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (44 bp):
TTTTCATTTCATTTTTCTTTTTTCATATTTTCTTCCATTTTCTA
Found at i:688217 original size:25 final size:25
Alignment explanation
Indices: 688114--688218 Score: 67
Period size: 27 Copynumber: 4.0 Consensus size: 25
688104 TTATTTCCTT
* *
688114 TTTC-TTTTTTCATCATTTTTTCCT-
1 TTTCATTTTTTCTTCATTTTTT-TTA
688138 TTTC-TTTTTTCTTTTTCATTTTTTCTT-
1 TTTCATTTTTTC---TTCATTTTTT-TTA
688165 TTTCATTTTTTCTTCCATTTTCTATTTTCA
1 TTTCATTTTTTCTT-CA-TTT-T-TTTT-A
688195 TTTCA-TTTTTCTTCATTTTTTTTA
1 TTTCATTTTTTCTTCATTTTTTTTA
688219 ATTTTTTTCA
Statistics
Matches: 69, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
24 12 0.17
25 6 0.09
26 3 0.04
27 21 0.30
28 12 0.17
29 10 0.14
30 5 0.07
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTCATTTTTTCTTCATTTTTTTTA
Found at i:699233 original size:42 final size:41
Alignment explanation
Indices: 699137--699234 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
699127 CCCCCCACTT
* * * * *
699137 CGAGAGCCATCACCTGATCGAGCCGATTCTACAGCTCGACA
1 CGAGAGTCATCACCTGATCGAGCCAATTATACACCTCCACA
* *
699178 CCAGAGTCATCACCTGATCTAGCCAATTATACACCTCCACAA
1 CGAGAGTCATCACCTGATCGAGCCAATTATACACCTCCAC-A
*
699220 TGAGAGTCATCACCT
1 CGAGAGTCATCACCT
699235 ATTCCATCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 33 0.70
42 14 0.30
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (41 bp):
CGAGAGTCATCACCTGATCGAGCCAATTATACACCTCCACA
Found at i:699430 original size:21 final size:21
Alignment explanation
Indices: 699406--699455 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
699396 TGGTGCATGG
*
699406 CGTGATGAGGTA-CGGTCTTTA
1 CGTGATGAGGTAGAGGT-TTTA
*
699427 CGTGGTGAGGTAGAGGTTTTA
1 CGTGATGAGGTAGAGGTTTTA
*
699448 CGCGATGA
1 CGTGATGA
699456 AAATGGTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGAGGTTTTA
Found at i:699638 original size:24 final size:24
Alignment explanation
Indices: 699602--699654 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
699592 AAATAACCTT
* **
699602 TTTTTGGCATTATTTATTTGTTTA
1 TTTTTGGCATTATGTATTAATTTA
699626 TTTTTGG-ATTTATGTATTAATTTA
1 TTTTTGGCA-TTATGTATTAATTTA
699650 TTTTT
1 TTTTT
699655 AGCGGCCCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.19, C:0.02, G:0.11, T:0.68
Consensus pattern (24 bp):
TTTTTGGCATTATGTATTAATTTA
Found at i:699845 original size:21 final size:21
Alignment explanation
Indices: 699800--699869 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
699790 CACTTGTCAT
*
699800 CGTTCAAGAGG-CCC-CCTAT
1 CGTTCAAGAGGCCCCTCCTAC
*
699819 CTTTCAAGAGGCCCCTCCTAC
1 CGTTCAAGAGGCCCCTCCTAC
*
699840 CGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCTAC
699861 CGTTCAAGA
1 CGTTCAAGA
699870 TCCCGATTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.22
20 3 0.07
21 32 0.71
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.20
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCTAC
Found at i:701398 original size:20 final size:20
Alignment explanation
Indices: 701360--701400 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
701350 GTCAAATGCA
*
701360 CGTTGCGAATTTTACTTTCG
1 CGTTGCGAATTTAACTTTCG
* *
701380 CGTTTCGAATTTAATTTTCG
1 CGTTGCGAATTTAACTTTCG
701400 C
1 C
701401 AACAATCGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (20 bp):
CGTTGCGAATTTAACTTTCG
Found at i:701417 original size:14 final size:14
Alignment explanation
Indices: 701398--701426 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
701388 ATTTAATTTT
701398 CGCAACAATCGTAA
1 CGCAACAATCGTAA
701412 CGCAACAATCGTAA
1 CGCAACAATCGTAA
701426 C
1 C
701427 ACGAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.31, G:0.14, T:0.14
Consensus pattern (14 bp):
CGCAACAATCGTAA
Found at i:701727 original size:18 final size:18
Alignment explanation
Indices: 701704--701739 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
701694 AAGCTGATTG
*
701704 TGATTGGGATTTTAATTT
1 TGATTGCGATTTTAATTT
*
701722 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTAATTT
701740 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTAATTT
Found at i:704799 original size:22 final size:23
Alignment explanation
Indices: 704774--704825 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
704764 CTGAACCGGT
*
704774 TTGACCCGACTCGACC-CGACCG
1 TTGACCCGACCCGACCGCGACCG
*
704796 TTGACCCGACCCGACCGTTGACCG
1 TTGACCCGACCCGACCG-CGACCG
704820 TTGACC
1 TTGACC
704826 GTTGATCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 15 0.58
24 11 0.42
ACGTcount: A:0.17, C:0.42, G:0.23, T:0.17
Consensus pattern (23 bp):
TTGACCCGACCCGACCGCGACCG
Found at i:704807 original size:17 final size:17
Alignment explanation
Indices: 704785--704818 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
704775 TGACCCGACT
704785 CGACCCGACCGTTGACC
1 CGACCCGACCGTTGACC
704802 CGACCCGACCGTTGACC
1 CGACCCGACCGTTGACC
704819 GTTGACCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.12
Consensus pattern (17 bp):
CGACCCGACCGTTGACC
Found at i:704818 original size:7 final size:7
Alignment explanation
Indices: 704808--704838 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
704798 GACCCGACCC
704808 GACCGTT
1 GACCGTT
704815 GACCGTT
1 GACCGTT
704822 GACCGTT
1 GACCGTT
*
704829 GATCGTT
1 GACCGTT
704836 GAC
1 GAC
704839 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:704869 original size:22 final size:21
Alignment explanation
Indices: 704842--704885 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
704832 CGTTGACTTT
704842 CTTTGACCAAAACCTTAAATGA
1 CTTTGACC-AAACCTTAAATGA
* *
704864 CTTTGACCGACCCTTAAATGA
1 CTTTGACCAAACCTTAAATGA
704885 C
1 C
704886 CGTAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.27
Consensus pattern (21 bp):
CTTTGACCAAACCTTAAATGA
Found at i:704947 original size:13 final size:13
Alignment explanation
Indices: 704929--704963 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
704919 GTTTTCGACG
704929 TCCCAAATCCGTT
1 TCCCAAATCCGTT
*
704942 TCCCAAGTCCGTT
1 TCCCAAATCCGTT
704955 TCACCAAAT
1 TC-CCAAAT
704964 TCGAATCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.26, C:0.37, G:0.09, T:0.29
Consensus pattern (13 bp):
TCCCAAATCCGTT
Found at i:712079 original size:22 final size:22
Alignment explanation
Indices: 712051--712100 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
712041 CTGAACCGAT
*
712051 TTGACCCGACCCGACCCGACCG
1 TTGACCCGACCCGACCCAACCG
712073 TTGACCCGACCCGACCCAACCG
1 TTGACCCGACCCGACCCAACCG
712095 TTGACC
1 TTGACC
712101 GTTGACTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.48, G:0.20, T:0.12
Consensus pattern (22 bp):
TTGACCCGACCCGACCCAACCG
Found at i:713784 original size:32 final size:33
Alignment explanation
Indices: 713748--713815 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
713738 ATTTGTGTAG
713748 TTAGTCTTTAGGGATGTTGGAGGGTATGA-CAT
1 TTAGTCTTTAGGGATGTTGGAGGGTATGACCAT
*
713780 TTAGTCTTTAGGGTTGTTGGAGGGTATGACCAT
1 TTAGTCTTTAGGGATGTTGGAGGGTATGACCAT
713813 TTA
1 TTA
713816 CGTTATATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 28 0.82
33 6 0.18
ACGTcount: A:0.21, C:0.07, G:0.32, T:0.40
Consensus pattern (33 bp):
TTAGTCTTTAGGGATGTTGGAGGGTATGACCAT
Found at i:717456 original size:60 final size:60
Alignment explanation
Indices: 717392--717505 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 60
717382 AAATGGTCTC
* * *
717392 TTGACTATATAAATATTACTTT-TTAAGT-CCTCCGACTATTAAAAGTTATAAAATGATCCA
1 TTGACCATACAAA-ATTACTTTATTAAGTACCT-CGACTATTAAAAGTTACAAAATGATCCA
* * * *
717452 TTGACCATACAAAGTTGCTTTATTGAGTACGTCGACTATTAAAAGTTACAAAAT
1 TTGACCATACAAAATTACTTTATTAAGTACCTCGACTATTAAAAGTTACAAAAT
717506 AATCACCCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
59 6 0.13
60 37 0.82
61 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (60 bp):
TTGACCATACAAAATTACTTTATTAAGTACCTCGACTATTAAAAGTTACAAAATGATCCA
Found at i:724199 original size:24 final size:24
Alignment explanation
Indices: 724172--724233 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
724162 CAAAACATAG
*
724172 TCCATGTCAAGTATCAGATCAAAA
1 TCCAAGTCAAGTATCAGATCAAAA
* * * * *
724196 TCCAGGTTAAGTATCCGTTCAGAA
1 TCCAAGTCAAGTATCAGATCAAAA
*
724220 TCCAAGTCAGGTAT
1 TCCAAGTCAAGTAT
724234 TATAACAGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (24 bp):
TCCAAGTCAAGTATCAGATCAAAA
Found at i:737192 original size:18 final size:18
Alignment explanation
Indices: 737171--737224 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
737161 TCGAAAGGAC
737171 TGAATTAAAT-GATAAGAT
1 TGAATTAAATAG-TAAGAT
*
737189 TGAATTTAATAGTAAGAT
1 TGAATTAAATAGTAAGAT
*
737207 TGAATTTAATAGTAAGAT
1 TGAATTAAATAGTAAGAT
737225 CGGACGGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 33 0.97
19 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (18 bp):
TGAATTAAATAGTAAGAT
Found at i:740836 original size:13 final size:13
Alignment explanation
Indices: 740818--740847 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
740808 GTTATAACCC
*
740818 GACCCGACCTGTT
1 GACCCGACCCGTT
740831 GACCCGACCCGTT
1 GACCCGACCCGTT
740844 GACC
1 GACC
740848 GGCATTGACC
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:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:748796 original size:2 final size:2
Alignment explanation
Indices: 748789--748818 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
748779 AATACAATTA
748789 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
748819 TATTTAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:750435 original size:15 final size:14
Alignment explanation
Indices: 750414--750447 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
750404 GCCTGCGAAA
750414 AATAAATATAAAAT
1 AATAAATATAAAAT
750428 ATATAAATATAAAAT
1 A-ATAAATATAAAAT
750443 AATAA
1 AATAA
750448 TAATAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAAATATAAAAT
Found at i:750904 original size:130 final size:130
Alignment explanation
Indices: 750630--751136 Score: 481
Period size: 130 Copynumber: 3.9 Consensus size: 130
750620 AGAGATTTTT
* * ** * * *
750630 GAAGATGAAATTTGAAAA-GGGATCTGCTCCACTGCTC-TCAGGGTAGATCATATCTGGAAACGT
1 GAAGATCAAATATGAAAATGGGATCTGCTCTGCTGCTCTTCAGGGTAGATCAGATCTGAAAACAT
* * * * * ** * * *
750693 CGATTAATTCCACT-GCTCTTCAGGGAAGATTGAATCGAAGTAGATTTCTTTTATTTCTCTTCAG
66 TGATTCACTCCACTAGCTCTTCAGGGAAGATTGAATCGAGGTAGATTTATTCCACTACTCCTCA-
750757 G
130 G
* * * * *
750758 GAAGATCAAATCTGAAAATGTGATATGCTCTGTTGCTCTTCAGGGTAGATTAGATCTGAAAACAT
1 GAAGATCAAATATGAAAATGGGATCTGCTCTGCTGCTCTTCAGGGTAGATCAGATCTGAAAACAT
*
750823 TGATTCACTCCA-TAGCTCTTCAGGGAATATAT-AATCGAGGTAGATTTATTCCACTACTCCTCA
66 TGATTCACTCCACTAGCTCTTCAGGGAAGAT-TGAATCGAGGTAGATTTATTCCACTACTCCTCA
750886 TG
130 -G
* * * *
750888 GAAGATCAAATATGAAAAAGGGGTCTACTCTGCTGTTCTTCAGGGTAGATCAGATCTGAAAACAT
1 GAAGATCAAATATGAAAATGGGATCTGCTCTGCTGCTCTTCAGGGTAGATCAGATCTGAAAACAT
* * * * * **
750953 TGATTCACTCCATTA-CTCTTCAAGGAAGATTGAATCAAGGGAGATTTGTTCCACTGTTCCTCAG
66 TGATTCACTCCACTAGCTCTTCAGGGAAGATTGAATCGAGGTAGATTTATTCCACTACTCCTCAG
* *
751017 GAAAGATCAAATATGGAAAAAAAATGAGGGATCTGCTCTGCTGCTCTTCAGGGTAGATAAGATAT
1 G-AAGATCAAATAT-G----AAAAT--GGGATCTGCTCTGCTGCTCTTCAGGGTAGATCAGATCT
* * * **
751082 GAAAACATTGATTTATTCCGCTA-CTCTTCAATGAAGATTGAATC-ACGGTAGATTT
58 GAAAACATTGATTCACTCCACTAGCTCTTCAGGGAAGATTGAATCGA-GGTAGATTT
751137 GCTTCTCTTG
Statistics
Matches: 313, Mismatches: 51, Indels: 21
0.81 0.13 0.05
Matches are distributed among these distances:
128 16 0.05
129 18 0.06
130 190 0.61
131 4 0.01
135 4 0.01
136 1 0.00
137 80 0.26
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (130 bp):
GAAGATCAAATATGAAAATGGGATCTGCTCTGCTGCTCTTCAGGGTAGATCAGATCTGAAAACAT
TGATTCACTCCACTAGCTCTTCAGGGAAGATTGAATCGAGGTAGATTTATTCCACTACTCCTCAG
Found at i:752443 original size:8 final size:8
Alignment explanation
Indices: 752425--752489 Score: 62
Period size: 8 Copynumber: 7.9 Consensus size: 8
752415 CTTCTATTTA
752425 CTTTCTTTT
1 CTTT-TTTT
752434 CTTTTTTT
1 CTTTTTTT
752442 C-TTTTTT
1 CTTTTTTT
752449 CTTTTTCTT
1 CTTTTT-TT
*
752458 TTTGTCTTTT
1 CTT-T-TTTT
*
752468 CTTTTTGT
1 CTTTTTTT
752476 C-TTTTTT
1 CTTTTTTT
752483 CTTTTTT
1 CTTTTTT
752490 CAGGTGAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
7 13 0.28
8 18 0.38
9 9 0.19
10 5 0.11
11 2 0.04
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:752444 original size:13 final size:13
Alignment explanation
Indices: 752426--752490 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
752416 TTCTATTTAC
752426 TTTCTTTTCTTT-T
1 TTTCTTTT-TTTCT
752439 TTTC-TTTTTTCTT
1 TTTCTTTTTTTC-T
*
752452 TTTCTTTTTGTCT
1 TTTCTTTTTTTCT
*
752465 TTTCTTTTTGTCT
1 TTTCTTTTTTTCT
*
752478 TTTTTCTTTTTTC
1 TTTCT-TTTTTTC
752491 AGGTGAAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
11 3 0.07
12 3 0.07
13 27 0.60
14 12 0.27
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:752446 original size:7 final size:7
Alignment explanation
Indices: 752426--752490 Score: 75
Period size: 7 Copynumber: 9.6 Consensus size: 7
752416 TTCTATTTAC
752426 TTTCTTT
1 TTTCTTT
*
752433 TCT-TTT
1 TTTCTTT
752439 TTTCTTT
1 TTTCTTT
752446 TTTC-TT
1 TTTCTTT
752452 TTTCTTT
1 TTTCTTT
752459 TTGTC--T
1 TT-TCTTT
752465 TTTCTTT
1 TTTCTTT
752472 TTGTCTTT
1 TT-TCTTT
752480 TTTCTTT
1 TTTCTTT
752487 TTTC
1 TTTC
752491 AGGTGAAGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
5 2 0.04
6 14 0.28
7 25 0.50
8 9 0.18
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:753570 original size:21 final size:21
Alignment explanation
Indices: 753544--753592 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
753534 TCCCTCATGC
753544 ACTTCTTCAATGATCGTTTTA
1 ACTTCTTCAATGATCGTTTTA
*
753565 ACTTCTTCAATGATTGTTTTA
1 ACTTCTTCAATGATCGTTTTA
*
753586 GCTTCTT
1 ACTTCTT
753593 TGGCATCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.51
Consensus pattern (21 bp):
ACTTCTTCAATGATCGTTTTA
Found at i:755142 original size:23 final size:23
Alignment explanation
Indices: 755098--755144 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
755088 AATACCAAAG
* *
755098 ATAAACTTAAATCCACCGTTAAA
1 ATAAACTTAAATCAACCATTAAA
755121 ATAAAGCTTAAA-CAACCATTAAA
1 ATAAA-CTTAAATCAACCATTAAA
755144 A
1 A
755145 CAACCACCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.23
Consensus pattern (23 bp):
ATAAACTTAAATCAACCATTAAA
Found at i:769509 original size:7 final size:7
Alignment explanation
Indices: 769492--769564 Score: 69
Period size: 7 Copynumber: 10.1 Consensus size: 7
769482 TTTTTATGTA
769492 CTTTATTT
1 CTTT-TTT
769500 CTTTTTT
1 CTTTTTT
769507 CTTTTTT
1 CTTTTTT
769514 -TTTTCTT
1 CTTTT-TT
*
769521 TTTTCTTT
1 CTTT-TTT
769529 CTTTTTGT
1 CTTTTT-T
*
769537 CTTTCTT
1 CTTTTTT
*
769544 -TTTTCT
1 CTTTTTT
769550 CTTTTTT
1 CTTTTTT
769557 CTTTTTT
1 CTTTTTT
769564 C
1 C
769565 AGGAGAAGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
6 8 0.15
7 28 0.51
8 18 0.33
9 1 0.02
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (7 bp):
CTTTTTT
Found at i:769517 original size:11 final size:11
Alignment explanation
Indices: 769504--769560 Score: 82
Period size: 11 Copynumber: 5.3 Consensus size: 11
769494 TTATTTCTTT
*
769504 TTTCTTTTTTT
1 TTTCTTTTTTC
769515 TTTCTTTTTTC
1 TTTCTTTTTTC
769526 TTTCTTTTTGTC
1 TTTCTTTTT-TC
769538 TTTCTTTTTTC
1 TTTCTTTTTTC
769549 --TCTTTTTTC
1 TTTCTTTTTTC
769558 TTT
1 TTT
769561 TTTCAGGAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
9 9 0.21
11 22 0.52
12 11 0.26
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:775806 original size:22 final size:22
Alignment explanation
Indices: 775764--775806 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
775754 CATAGATCTG
*
775764 ATTTCATCTTCTAATTGTTTTC
1 ATTTCATCTTCTAATTCTTTTC
*
775786 ATTTC-TCTTCTAGTTTCTTTT
1 ATTTCATCTTCTA-ATTCTTTT
775807 TCTACTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.14, C:0.19, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTTCATCTTCTAATTCTTTTC
Found at i:776525 original size:18 final size:18
Alignment explanation
Indices: 776502--776540 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
776492 GATTTATCTC
776502 CCCTAATTGTTGCATGTG
1 CCCTAATTGTTGCATGTG
776520 CCCTAATTGTTGCATGTG
1 CCCTAATTGTTGCATGTG
776538 CCC
1 CCC
776541 AAGTAAACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.21, T:0.36
Consensus pattern (18 bp):
CCCTAATTGTTGCATGTG
Found at i:778822 original size:11 final size:11
Alignment explanation
Indices: 778793--778822 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
778783 ATGTTATACA
*
778793 AAAATGAATGC
1 AAAATGAGTGC
778804 AAAATGAGTGC
1 AAAATGAGTGC
778815 AAAATGAG
1 AAAATGAG
778823 GTACCTCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.23, T:0.17
Consensus pattern (11 bp):
AAAATGAGTGC
Found at i:789353 original size:74 final size:74
Alignment explanation
Indices: 789232--789446 Score: 310
Period size: 74 Copynumber: 2.9 Consensus size: 74
789222 TGCAAGATTC
* * *
789232 CCTGCAACACCAAGACAAAGAAAAATAGTAAGGCATGATAATGGATCAAAGAGTTCAAACAAAGC
1 CCTGCTACACCAAGACAAGGAAAAATAGTAAGCCATGATAATGGATCAAAGAGTTCAAACAAAGC
*
789297 ATTTTCATT
66 ATTATCATT
*
789306 CCTGCTACACCAAGACAAGGATAAATAGTAAGCCATGATAATGGATCAAAGAGTTCAAACAAAGC
1 CCTGCTACACCAAGACAAGGAAAAATAGTAAGCCATGATAATGGATCAAAGAGTTCAAACAAAGC
789371 ATTATCATT
66 ATTATCATT
* * * * * *
789380 CCTACTACACCAAGACAAGGAGAAATAGTATGCCATG---ATGGATCAAAGAATACAAGCAAAGC
1 CCTGCTACACCAAGACAAGGAAAAATAGTAAGCCATGATAATGGATCAAAGAGTTCAAACAAAGC
789442 ATTAT
66 ATTAT
789447 TGCAAGGAGA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
71 27 0.21
74 103 0.79
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.20
Consensus pattern (74 bp):
CCTGCTACACCAAGACAAGGAAAAATAGTAAGCCATGATAATGGATCAAAGAGTTCAAACAAAGC
ATTATCATT
Found at i:789860 original size:29 final size:30
Alignment explanation
Indices: 789827--789900 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
789817 CAAAAGTTAT
789827 ATTTTAAAAAATATTTAAT-AAATT-TCT-AA
1 ATTTT-AAAAATATTT-ATGAAATTCTCTAAA
* *
789856 TTTTTAAAAATATTTTTGAAATTCTCTAAA
1 ATTTTAAAAATATTTATGAAATTCTCTAAA
789886 ATTTTAAAAATATTT
1 ATTTTAAAAATATTT
789901 TATTTTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.03
28 15 0.38
29 7 0.18
30 16 0.41
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (30 bp):
ATTTTAAAAATATTTATGAAATTCTCTAAA
Found at i:789901 original size:29 final size:26
Alignment explanation
Indices: 789827--789913 Score: 81
Period size: 29 Copynumber: 3.2 Consensus size: 26
789817 CAAAAGTTAT
789827 ATTTTAAAAAATATTTAATAAATTTCTAA
1 ATTTT-AAAAATATTT--TAAATTTCTAA
*
789856 TTTTTAAAAATATTTTTGAAATTCTCTAAA
1 ATTTTAAAAATA-TTTT-AAATT-TCT-AA
789886 ATTTTAAAAATATTTT--ATTT-TAA
1 ATTTTAAAAATATTTTAAATTTCTAA
789909 ATTTT
1 ATTTT
789914 TATTATGGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
23 7 0.13
24 1 0.02
25 1 0.02
26 3 0.06
27 1 0.02
28 12 0.23
29 14 0.27
30 13 0.25
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (26 bp):
ATTTTAAAAATATTTTAAATTTCTAA
Found at i:796064 original size:24 final size:24
Alignment explanation
Indices: 795904--796067 Score: 235
Period size: 24 Copynumber: 6.8 Consensus size: 24
795894 CATAAATCAA
* *
795904 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* *
795928 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
795952 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
795976 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
796000 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
796024 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
796048 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
796068 TCAAATTGAA
Statistics
Matches: 128, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
23 7 0.05
24 117 0.91
25 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:798566 original size:13 final size:13
Alignment explanation
Indices: 798548--798572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
798538 GTCAACGGTC
798548 AACGGGTCGGGTA
1 AACGGGTCGGGTA
798561 AACGGGTCGGGT
1 AACGGGTCGGGT
798573 CGGGTTATGA
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:0.20, C:0.16, G:0.48, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:799798 original size:16 final size:17
Alignment explanation
Indices: 799772--799813 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
799762 TAATGTTTAT
799772 ATTTA-TTATAATTA-A
1 ATTTATTTATAATTAGA
799787 ATTTATTTATAATTAGA
1 ATTTATTTATAATTAGA
799804 ATTTATTTAT
1 ATTTATTTAT
799814 CGTAATGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.20
16 9 0.36
17 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTATTTATAATTAGA
Found at i:799913 original size:25 final size:26
Alignment explanation
Indices: 799863--799913 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
799853 ATAATTTAAA
* *
799863 TTATTTTAAAAATATTTATTTTTTAT
1 TTATTTTAAAAATATATATTATTTAT
*
799889 TTATTTTTAAAATA-ATATTATTTAT
1 TTATTTTAAAAATATATATTATTTAT
799914 AGTTTTACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTTTAAAAATATATATTATTTAT
Found at i:801378 original size:18 final size:18
Alignment explanation
Indices: 801355--801390 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
801345 AGAGTCATGT
801355 CAACCCAGTAAAATGAAA
1 CAACCCAGTAAAATGAAA
* *
801373 CAACCCATTGAAATGAAA
1 CAACCCAGTAAAATGAAA
801391 AACATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.22, G:0.11, T:0.14
Consensus pattern (18 bp):
CAACCCAGTAAAATGAAA
Found at i:801747 original size:22 final size:22
Alignment explanation
Indices: 801719--802649 Score: 104
Period size: 20 Copynumber: 42.9 Consensus size: 22
801709 TCTTTATAGT
801719 TATACTTTATATATATATAATA
1 TATACTTTATATATATATAATA
* *
801741 TATAC-TTATATTTTATATTATTA
1 TATACTTTATA-TATATA-TAATA
* * * *
801764 TATA-TGTACATACACT-TTATA
1 TATACTTTATATATA-TATAATA
* *
801785 CTAAAACTTTATATATATGT-ATA
1 -T-ATACTTTATATATATATAATA
* *
801808 TATACTTTATATTTA-ATACTTA
1 TATACTTTATATATATATA-ATA
* * *
801830 TATATTTTATAT-TATATACTT
1 TATACTTTATATATATATAATA
* * * *
801851 TATATTTTATGCT-TATATACTT
1 TATACTTTAT-ATATATATAATA
* *
801873 TAGT-CTTTATA-AT-TATACTT
1 TA-TACTTTATATATATATAATA
* *
801893 TATA-TATATATA-ATATACT-
1 TATACTTTATATATATATAATA
*
801912 CATACTTTATAT-TA-AT-ATA
1 TATACTTTATATATATATAATA
* * *
801931 TAT-GTTTATATACTTTATACTA
1 TATACTTTATATA-TATATAATA
* *
801953 -AAACTTTATATATATAT-GTA
1 TATACTTTATATATATATAATA
* *
801973 TACACTTTATA-ATTTAT-ATA
1 TATACTTTATATATATATAATA
* *
801993 TATACTTT-TACT-T-TATAGTT
1 TATACTTTATA-TATATATAATA
*
802013 TATA-TATATATATATAT-ATA
1 TATACTTTATATATATATAATA
* *
802033 TATA-TATATATATATATACT-
1 TATACTTTATATATATATAATA
802053 TATACTTTATA-AGTATACT--TA
1 TATACTTTATATA-TATA-TAATA
* * *
802074 TATACTTATATACTTTAGTCTTTATAA
1 TATACTT-TATA-TATA-T-ATAAT-A
* * *
802101 TTATGCTTTATATGTATA-ATTA
1 -TATACTTTATATATATATAATA
* *
802123 CT-TA-TATATATATTATATATGTA
1 -TATACTTTATATA-TATATA-ATA
* *
802146 TATAACTTTATATGTATACATATAA
1 TAT-ACTTTATATATATATA-AT-A
* *
802171 TATAGTTTATATATAT-TGATA
1 TATACTTTATATATATATAATA
*
802192 CTATA-TTTATATATA-A-ACTA
1 -TATACTTTATATATATATAATA
* *
802212 TATAATTTATATAATACATATAATT
1 TATACTTTATAT-AT--ATATAATA
*
802237 TATAGTTTATAT-TA-ATAACTA
1 TATACTTTATATATATATAA-TA
* * *
802258 TATAATTATACATAGTATATAATT
1 TATACTT-TATATA-TATATAATA
* * *
802282 TGTAATTATACATAATATATAATA
1 TATACTT-TATAT-ATATATAATA
*
802306 TA-AGTTGTATATAT-T-TAATA
1 TATACTT-TATATATATATAATA
* * * *
802326 TATTA-TATATAAACTATACAATT
1 TA-TACTTTATATA-TATATAATA
* * *
802349 TATA-TTAATAAACTATATAGTTCA
1 TATACTTTATATA-TATATA-AT-A
* * *
802373 TATAGTTCATATATA-A-AATC
1 TATACTTTATATATATATAATA
* * **
802393 TATAGTTTATACAT-GGT--TA
1 TATACTTTATATATATATAATA
* *
802412 TATAGTTTATACATA-AT-ATA
1 TATACTTTATATATATATAATA
*
802432 TAT-CGTTTATATATATATTATGTA
1 TATAC-TTTATATATATA-TA-ATA
* * *
802456 TAAACTATATATACCATGTATAAACTA
1 TATACT-T-TATA-TATATAT-AA-TA
* *
802483 TAGATTTTATATAT-TAT-ATA
1 TATACTTTATATATATATAATA
*
802503 TATAGTTTAT-TA-ATATAATA
1 TATACTTTATATATATATAATA
* ***
802523 TATA-TACCT-TATATATACGCTA
1 TATACT--TTATATATATATAATA
*
802545 TATAGTTTATAT-TA-ATAAATTA
1 TATACTTTATATATATAT-AA-TA
* *
802567 TATAGTTTATACATA-AT-ATA
1 TATACTTTATATATATATAATA
* *
802587 TATAGTTTATATATA-AT-TTA
1 TATACTTTATATATATATAATA
802607 TATA-TATTATATATATATACTATA
1 TATACT-TTATATATATATA--ATA
*
802631 TATAGTTTATATATATATA
1 TATACTTTATATATATATA
802650 TAATAATTGT
Statistics
Matches: 680, Mismatches: 122, Indels: 212
0.67 0.12 0.21
Matches are distributed among these distances:
18 8 0.01
19 48 0.07
20 183 0.27
21 111 0.16
22 121 0.18
23 49 0.07
24 86 0.13
25 42 0.06
26 10 0.01
27 16 0.02
28 6 0.01
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (22 bp):
TATACTTTATATATATATAATA
Found at i:801766 original size:34 final size:35
Alignment explanation
Indices: 801728--801857 Score: 108
Period size: 34 Copynumber: 3.8 Consensus size: 35
801718 TTATACTTTA
*
801728 TATATATATAATATATAC-TTATATTTTATATTAT
1 TATATATATAATATATACTTTATATTTAATATTAT
* * * * * *
801762 TATATATGT-ACATACACTTTATA-CTAAAACT-T
1 TATATATATAATATATACTTTATATTTAATATTAT
*
801794 TATATATATGTATATATACTTTATATTTAATACTTA-
1 TATATATAT-AATATATACTTTATATTTAATA-TTAT
* *
801830 TATATTTTATATTATATACTTTATATTT
1 TATA-TATATAATATATACTTTATATTT
801858 TATGCTTATA
Statistics
Matches: 73, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
32 9 0.12
33 10 0.14
34 25 0.34
35 4 0.05
36 21 0.29
37 4 0.05
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (35 bp):
TATATATATAATATATACTTTATATTTAATATTAT
Found at i:801822 original size:6 final size:6
Alignment explanation
Indices: 801808--802047 Score: 50
Period size: 6 Copynumber: 35.8 Consensus size: 6
801798 TATATGTATA
801808 TATACTT TATATT TAATACTT ATATATTT TATATT ATATACTT TATATTT
1 TATA-TT TATATT T-ATA-TT -TATA-TT TATATT -TATA-TT TATA-TT
* * * * *
801858 TATGCTT ATATACTT TAGTCTT TATAAT TATACTT TATATA TATATAA
1 TAT-ATT -TATA-TT TA-TATT TATATT TATA-TT TATATT TATAT-T
* * * * * * * *
801906 TATACT CATACTT TATATT AATATA TATGTTT ATATACTT TATACT AAAACTT
1 TATATT TATA-TT TATATT TATATT TAT-ATT -TATA-TT TATATT TATA-TT
* * *
801959 TATATA TATATGT ATACACTT TATAATT TATATA TATACTT T-TACTT
1 TATATT TATAT-T -TATA-TT TAT-ATT TATATT TATA-TT TATA-TT
* * * * *
802006 TATAGTT TATATA TATATA TATATA TATATA TATATA TATAT
1 TATA-TT TATATT TATATT TATATT TATATT TATATT TATAT
802048 ATACTTATAC
Statistics
Matches: 177, Mismatches: 34, Indels: 45
0.69 0.13 0.18
Matches are distributed among these distances:
6 79 0.45
7 71 0.40
8 25 0.14
9 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (6 bp):
TATATT
Found at i:801842 original size:7 final size:7
Alignment explanation
Indices: 801808--801860 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
801798 TATATGTATA
*
801808 TATACTT
1 TATATTT
801815 TATATTT
1 TATATTT
* *
801822 AATACTTA
1 TATA-TTT
801830 TATATTT
1 TATATTT
*
801837 TATATTA
1 TATATTT
*
801844 TATACTT
1 TATATTT
801851 TATATTT
1 TATATTT
801858 TAT
1 TAT
801861 GCTTATATAC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (7 bp):
TATATTT
Found at i:801935 original size:165 final size:168
Alignment explanation
Indices: 801680--801988 Score: 498
Period size: 165 Copynumber: 1.9 Consensus size: 168
801670 TAAAAACTAA
*
801680 ACTTTATATTATATGCTTATATACTTTAGTCTTTATAGTTATACTTTATATATATATAATATATA
1 ACTTTATATTATATGCTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATATA
* * * *
801745 CTTATATTTTATATTATTATATATGTACATACACTTTATACTAAAACTTTATATATATGTATATA
66 CTCATACTTTATATTAATATATATGTACATACACTTTATACTAAAACTTTATATATATATATATA
*
801810 TACTTTAT-ATTTAATACTTATATATTTTATATTATAT
131 CACTTTATAATTTAATACTTATATATTTTATATTATAT
*
801847 ACTTTATATTTTATGCTTATATACTTTAGTCTTTATAATTATACTTTATATATATAT-A-ATATA
1 ACTTTATATTATATGCTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATATA
** * *
801910 CTCATACTTTATATTAATATATATGTTTATATACTTTATACTAAAACTTTATATATATATGTATA
66 CTCATACTTTATATTAATATATATGTACATACACTTTATACTAAAACTTTATATATATATATATA
801975 CACTTTATAATTTA
131 CACTTTATAATTTA
801989 TATATATACT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
165 69 0.53
166 6 0.05
167 55 0.42
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (168 bp):
ACTTTATATTATATGCTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATATA
CTCATACTTTATATTAATATATATGTACATACACTTTATACTAAAACTTTATATATATATATATA
CACTTTATAATTTAATACTTATATATTTTATATTATAT
Found at i:801951 original size:34 final size:34
Alignment explanation
Indices: 801877--802090 Score: 85
Period size: 34 Copynumber: 6.4 Consensus size: 34
801867 ATACTTTAGT
* * *
801877 CTTTATA-ATTATACTTTATATATATAT-AATATA
1 CTTTATACTTTATA-TTAATATATATATGTATATA
* * *
801910 C-TCATACTTTATATTAATATATATGTTTATATA
1 CTTTATACTTTATATTAATATATATATGTATATA
* * * *
801943 CTTTATAC-TAAAACTTTATATATATATGTATACA
1 CTTTATACTTTATA-TTAATATATATATGTATATA
* *
801977 CTTTATAATTTATA-T-ATATACTTTTACT-T-TATA
1 CTTTATACTTTATATTAATATA--TATA-TGTATATA
* * *
802010 GTTTATA-TATATATATATATATATATATATATATA
1 CTTTATACTTTATAT-TA-ATATATATATGTATATA
* *
802045 -TATATAC-TTATACTTTATA-AGTATACT-TATATA
1 CTTTATACTTTATA-TTAATATA-TATA-TGTATATA
802078 CTTATATACTTTA
1 CTT-TATACTTTA
802091 GTCTTTATAA
Statistics
Matches: 136, Mismatches: 24, Indels: 39
0.68 0.12 0.20
Matches are distributed among these distances:
32 26 0.19
33 39 0.29
34 49 0.36
35 14 0.10
36 8 0.06
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (34 bp):
CTTTATACTTTATATTAATATATATATGTATATA
Found at i:802015 original size:54 final size:54
Alignment explanation
Indices: 801926--802063 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 54
801916 CTTTATATTA
* * * * * * *
801926 ATATATATGTTTATATACTTTATAC-TAAAACTTTATATATATATGTATACACTTT
1 ATATATATATATATATAC-TTATACTTTATAGTTTATATATATATATATACA-TAT
* * *
801981 ATA-ATTTATATATATACTTTTACTTTATAGTTTATATATATATATATATATAT
1 ATATATATATATATATACTTATACTTTATAGTTTATATATATATATATACATAT
802034 ATATATATATATATATACTTATACTTTATA
1 ATATATATATATATATACTTATACTTTATA
802064 AGTATACTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 10 0.14
54 56 0.81
55 3 0.04
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (54 bp):
ATATATATATATATATACTTATACTTTATAGTTTATATATATATATATACATAT
Found at i:802020 original size:2 final size:2
Alignment explanation
Indices: 802013--802050 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
802003 CTTTATAGTT
802013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
802051 CTTATACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:802129 original size:16 final size:15
Alignment explanation
Indices: 802108--802163 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
802098 TAATTATGCT
802108 TTATATGTATAATTAC
1 TTATATGTAT-ATTAC
*
802124 TTATATATATATTA-
1 TTATATGTATATTAC
*
802138 -TATATGTATATAAC
1 TTATATGTATATTAC
802152 TTTATATGTATA
1 -TTATATGTATA
802164 CATATAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.32
15 4 0.12
16 19 0.56
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (15 bp):
TTATATGTATATTAC
Found at i:802132 original size:2 final size:2
Alignment explanation
Indices: 802125--802233 Score: 50
Period size: 2 Copynumber: 55.0 Consensus size: 2
802115 TATAATTACT
* * * *
802125 TA TA TA TA TA T- TA TA TA TG TA TA TA -A CTT TA TA TG TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* *
802166 TA TA -A TA TA GTT TA TA TA TA T- TGA TA CTA TA TT TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA
* * *
802207 AA CTA TA TA -A TT TA TA TA -A TA CA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
802234 ATTTATAGTT
Statistics
Matches: 78, Mismatches: 18, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
1 6 0.08
2 67 0.86
3 5 0.06
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:802221 original size:20 final size:18
Alignment explanation
Indices: 802196--802240 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
802186 TTGATACTAT
802196 ATTTATATATAAACTATATA
1 ATTTATATA-AAAC-ATATA
*
802216 ATTTATATAATACATATA
1 ATTTATATAAAACATATA
802234 ATTTATA
1 ATTTATA
802241 GTTTATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.50
19 3 0.12
20 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTATATAAAACATATA
Found at i:802225 original size:18 final size:18
Alignment explanation
Indices: 802201--802240 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
802191 ACTATATTTA
802201 TATATAA-ACTATATAATT
1 TATATAATAC-ATATAATT
802219 TATATAATACATATAATT
1 TATATAATACATATAATT
802237 TATA
1 TATA
802241 GTTTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TATATAATACATATAATT
Found at i:802452 original size:11 final size:11
Alignment explanation
Indices: 802438--802651 Score: 68
Period size: 11 Copynumber: 19.6 Consensus size: 11
802428 TATATATCGT
802438 TTATATATATA
1 TTATATATATA
* *
802449 TTATGTATAAA
1 TTATATATATA
* *
802460 CTATATATACCA
1 TTATATATA-TA
*
802472 TGTATAAACTATAGA
1 T-TAT--A-TATATA
*
802487 TTTTATAT--A
1 TTATATATATA
802496 TTATATATATA
1 TTATATATATA
802507 GTT-TAT-TAATA
1 -TTATATAT-ATA
*
802518 TAATATATATA
1 TTATATATATA
802529 CCTTATATATACGCTA
1 --TTATATATA---TA
*
802545 -TATAGTTTATA
1 TTATA-TATATA
802556 TTA-ATA-A-A
1 TTATATATATA
*
802564 TTATATA-GT-
1 TTATATATATA
*
802573 TTATACATA-A
1 TTATATATATA
802583 T-ATATATAGT-
1 TTATATATA-TA
802593 TTATATATA-A
1 TTATATATATA
802603 TT-TATATATA
1 TTATATATATA
802613 TTATATATATA
1 TTATATATATA
802624 -TACTATATATA
1 TTA-TATATATA
802635 GTT-TATATATA
1 -TTATATATATA
802646 -TATATA
1 TTATATA
802652 ATAATTGTTT
Statistics
Matches: 154, Mismatches: 17, Indels: 65
0.65 0.07 0.28
Matches are distributed among these distances:
8 4 0.03
9 31 0.20
10 16 0.10
11 66 0.43
12 7 0.05
13 16 0.10
14 5 0.03
15 3 0.02
16 6 0.04
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (11 bp):
TTATATATATA
Found at i:802511 original size:20 final size:20
Alignment explanation
Indices: 802488--802651 Score: 127
Period size: 22 Copynumber: 7.8 Consensus size: 20
802478 AACTATAGAT
802488 TTTATATATTATATATATAG
1 TTTATATATTATATATATAG
* *
802508 TTTATTAATATAATATATATAC
1 TTTA-T-ATATTATATATATAG
* **
802530 CTTATATA-TACGCTATATAG
1 TTTATATATTA-TATATATAG
* *
802550 TTTATATTAATAAATTATATAG
1 TTTATA-TATTATA-TATATAG
* *
802572 TTTATACATAATATATATAG
1 TTTATATATTATATATATAG
*
802592 TTTATATATAATTTATATATA-
1 TTTATATAT--TATATATATAG
802613 TTATATATATATACTATATATAG
1 TT-TATATAT-TA-TATATATAG
802636 TTTATATA-TATATATA
1 TTTATATATTATATATA
802652 ATAATTGTTT
Statistics
Matches: 115, Mismatches: 18, Indels: 23
0.74 0.12 0.15
Matches are distributed among these distances:
19 7 0.06
20 35 0.30
21 11 0.10
22 60 0.52
23 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTATATATTATATATATAG
Found at i:802598 original size:13 final size:11
Alignment explanation
Indices: 802565--802651 Score: 71
Period size: 11 Copynumber: 8.2 Consensus size: 11
802555 ATTAATAAAT
802565 TATATAGTT-TA
1 TATATA-TTATA
* *
802576 TACATAATATA
1 TATATATTATA
802587 TATAGT-TTATA
1 TATA-TATTATA
802598 TATA-ATT-TA
1 TATATATTATA
802607 TATATATTATA
1 TATATATTATA
802618 TATATA-TACTA
1 TATATATTA-TA
802629 TATATAGTT-TA
1 TATATA-TTATA
802640 TATATA-TATA
1 TATATATTATA
802650 TA
1 TA
802652 ATAATTGTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
9 7 0.11
10 12 0.19
11 42 0.67
12 1 0.02
13 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (11 bp):
TATATATTATA
Found at i:803831 original size:33 final size:33
Alignment explanation
Indices: 803784--803887 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
803774 ACAAAGTTTA
* *
803784 CGAT-AATTGAAATACTTAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
803816 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
*
803849 CGATAAATTCAAATACCTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
803882 CGATAA
1 CGATAA
803888 TTGAAACAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 4 0.06
33 64 0.94
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:803907 original size:21 final size:21
Alignment explanation
Indices: 803882--803923 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
803872 CTTCCAAGTT
803882 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
803903 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
803924 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:810462 original size:24 final size:22
Alignment explanation
Indices: 810434--810514 Score: 85
Period size: 24 Copynumber: 3.6 Consensus size: 22
810424 CATTTAACAA
810434 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
810458 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
* *
810478 ATGCACCGATGCATGCCTTGAATA
1 -TGCATCGATGCAT-CCTTGAATG
810502 TGCATCGATGCAT
1 TGCATCGATGCAT
810515 AAGACCATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 2 0.04
23 14 0.29
24 16 0.33
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:810469 original size:44 final size:44
Alignment explanation
Indices: 810413--810535 Score: 110
Period size: 44 Copynumber: 2.8 Consensus size: 44
810403 TTTGTGCTTC
* * *
810413 ATGCACCGATGCATTTAACA-ATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCATTCAACAGATGCACCGATGCATCCC-TTGAAT
* ** *
810457 GTGCATCGATGCA-TCCGCATGATGCACCGATGCATGCCTTGAAT
1 ATGCATCGATGCATTCAACA-GATGCACCGATGCATCCCTTGAAT
* *
810501 ATGCATCGATGCA-T-AAGACCATGCACCGATGCATC
1 ATGCATCGATGCATTCAACA-GATGCACCGATGCATC
810536 TGTCGGGTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
43 18 0.29
44 30 0.48
45 15 0.24
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (44 bp):
ATGCATCGATGCATTCAACAGATGCACCGATGCATCCCTTGAAT
Found at i:812480 original size:18 final size:17
Alignment explanation
Indices: 812451--812499 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
812441 TTGTTAAACA
812451 TTTTGATTTGGATGTTT
1 TTTTGATTTGGATGTTT
*
812468 ATGTTTG-TTTGGATATTT
1 -T-TTTGATTTGGATGTTT
*
812486 TTTTGTTTTGGATG
1 TTTTGATTTGGATG
812500 CTTGGACGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 11 0.41
19 4 0.15
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.63
Consensus pattern (17 bp):
TTTTGATTTGGATGTTT
Found at i:814380 original size:13 final size:13
Alignment explanation
Indices: 814362--814386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
814352 TTTTTTCCAA
814362 AACCGGTTAAAAT
1 AACCGGTTAAAAT
814375 AACCGGTTAAAA
1 AACCGGTTAAAA
814387 AATCCTATCC
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:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (13 bp):
AACCGGTTAAAAT
Found at i:814563 original size:15 final size:14
Alignment explanation
Indices: 814512--814563 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
814502 TTTAAATAAG
*
814512 ATATTTTTTTTAATA
1 ATATTTTATTTAA-A
*
814527 ATATTTTATTCATTAA
1 ATATTTTATT--TAAA
814543 ATATTTTATTTAAA
1 ATATTTTATTTAAA
814557 CATATTT
1 -ATATTT
814564 GAAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 3 0.10
15 15 0.48
16 11 0.35
17 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATTTTATTTAAA
Found at i:819368 original size:25 final size:26
Alignment explanation
Indices: 819340--819408 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
819330 AAATGCTTAC
*
819340 AATTTATAATTATTTTATTAT-TTTA
1 AATTTATAATTATTTTATTATAGTTA
819365 AATTTAT--TTATTTT-TTGAATAGTTA
1 AATTTATAATTATTTTATT--ATAGTTA
819390 AATTT-TAATTATTTTATTA
1 AATTTATAATTATTTTATTA
819409 GTATTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
22 2 0.05
23 7 0.19
24 3 0.08
25 16 0.43
26 7 0.19
27 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (26 bp):
AATTTATAATTATTTTATTATAGTTA
Found at i:819511 original size:22 final size:23
Alignment explanation
Indices: 819486--819537 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
819476 TTCCAAATCA
*
819486 ATTTTAGTTA-TTTTTTCGGTTT
1 ATTTTAGTTAGTTTATTCGGTTT
819508 A-TTTAGTTAGTTTATTCGGTTT
1 ATTTTAGTTAGTTTATTCGGTTT
*
819530 -TTTAAGTT
1 ATTTTAGTT
819538 TATTCTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.17, C:0.04, G:0.15, T:0.63
Consensus pattern (23 bp):
ATTTTAGTTAGTTTATTCGGTTT
Found at i:819513 original size:21 final size:21
Alignment explanation
Indices: 819487--819533 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
819477 TCCAAATCAA
*
819487 TTTTAGTTA-TTTTTTCGGTT
1 TTTTAGTTAGTTTATTCGGTT
819507 TATTTAGTTAGTTTATTCGGTT
1 T-TTTAGTTAGTTTATTCGGTT
819529 TTTTA
1 TTTTA
819534 AGTTTATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.66
Consensus pattern (21 bp):
TTTTAGTTAGTTTATTCGGTT
Found at i:822976 original size:29 final size:27
Alignment explanation
Indices: 822931--822985 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
822921 TAAGAATTTT
*
822931 TTTAAAAAAATGTAAAATGAAATAATA
1 TTTAAAAAAATGTAAAATAAAATAATA
822958 TTTAAAAGAAACTGTAAAATAAAATAAT
1 TTTAAAA-AAA-TGTAAAATAAAATAAT
822986 GAAGCTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.28
28 3 0.12
29 15 0.60
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (27 bp):
TTTAAAAAAATGTAAAATAAAATAATA
Found at i:823434 original size:13 final size:13
Alignment explanation
Indices: 823416--823441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
823406 GAGTACAAAT
823416 ATTTTCTATCATA
1 ATTTTCTATCATA
823429 ATTTTCTATCATA
1 ATTTTCTATCATA
823442 TACATTTTTC
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:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTCTATCATA
Found at i:829812 original size:30 final size:30
Alignment explanation
Indices: 829739--829819 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
829729 AAAATTTTTG
* ** *
829739 TTTCAAGGGAAACAATCTCAAAGGTTGGTA
1 TTTCAAGAGAAACTGTCTCAAAGGTTAGTA
*
829769 TTTCAAGAGAAACTGTCTCAAAGGTTAGTG
1 TTTCAAGAGAAACTGTCTCAAAGGTTAGTA
*
829799 TTTCAAGATAAACTGTCTCAA
1 TTTCAAGAGAAACTGTCTCAA
829820 GAGAGATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (30 bp):
TTTCAAGAGAAACTGTCTCAAAGGTTAGTA
Found at i:829897 original size:96 final size:96
Alignment explanation
Indices: 829737--829915 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 96
829727 TAAAAATTTT
* *
829737 TGTTTCAAGGGAAACAATCTCAAAGGTTGGTATTTCAAGAGAAACTGTCTCAAAGGTTAGTGTTT
1 TGTTCCAAGGGAAACAATCTCAAAGGTTGGTATCTCAAGAGAAACTGTCTCAAAGGTTAGTGTTT
*
829802 CAAGATAAACTGTCTCAAGAGAGATAAAACA
66 CAAGAGAAACTGTCTCAAGAGAGATAAAACA
* * * * * *
829833 TGTTCCAAGGGAAACAATCTCAAAGATTTTGTGTCTCAAGGGAAACAT-TTTCAAAGTTTA-TGT
1 TGTTCCAAGGGAAACAATCTCAAAG-GTTGGTATCTCAAGAGAAAC-TGTCTCAAAGGTTAGTGT
829896 TTCAAGAGAAACTGTCTCAA
64 TTCAAGAGAAACTGTCTCAA
829916 TGGAGACAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
96 46 0.64
97 25 0.35
98 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (96 bp):
TGTTCCAAGGGAAACAATCTCAAAGGTTGGTATCTCAAGAGAAACTGTCTCAAAGGTTAGTGTTT
CAAGAGAAACTGTCTCAAGAGAGATAAAACA
Found at i:830045 original size:66 final size:63
Alignment explanation
Indices: 829868--830082 Score: 252
Period size: 66 Copynumber: 3.3 Consensus size: 63
829858 ATTTTGTGTC
* *
829868 TCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAATGGAGACAAAATTTTGT
1 TCAAGGGAAAC-TTCTCAAAGTTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGT
829933 T
63 T
** * * *
829934 TCAAGGGAAACTGTCTCAGAA-ACTTGTTTCAAGAGAAATTGTCTCAAGGGAAACAAAATTCGTT
1 TCAAGGGAAACT-TCTCA-AAGTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
* * *
829998 TCAAGGGGAACGTTCTCAAAGTTTTGTGTTTCAAGAGAAACTATCTCAAGGGAGATAAAATTTGT
1 TCAAGGGAAAC-TTCTCAAAG-TTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGT
830063 T
63 T
830064 TCAAGGGAAACTGTCTCAA
1 TCAAGGGAAACT-TCTCAA
830083 GAGAGACAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
63 2 0.02
64 20 0.16
65 35 0.28
66 67 0.53
67 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (63 bp):
TCAAGGGAAACTTCTCAAAGTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
Found at i:830147 original size:39 final size:39
Alignment explanation
Indices: 830024--830449 Score: 596
Period size: 39 Copynumber: 11.1 Consensus size: 39
830014 CAAAGTTTTG
* *
830024 TGTTTCAAGAGAAACTATCTCAAGGGAGATAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
830060 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
830096 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
830135 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * * * *
830174 TGTTACGAGGGAAACTATATCAAGTGAGATAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
830213 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCATT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATC-TTC
* * *
830252 TGTTTCGAGGGAAACTATCTCAAGCGAGGTAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
830291 TGTTTCGAGGGAAACTACCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
830330 TGTTTCAAGGGAAACTACCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
830369 TGTTTCAAGGGAAACTACCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
830408 TGTTTCAAGGGAAACTATCTCAAGTGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
830447 TGT
1 TGT
830450 AAAAACAATC
Statistics
Matches: 360, Mismatches: 25, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
36 63 0.17
38 4 0.01
39 291 0.81
40 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (39 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
Found at i:830537 original size:76 final size:76
Alignment explanation
Indices: 830450--830627 Score: 209
Period size: 76 Copynumber: 2.3 Consensus size: 76
830440 AATCTTCTGT
* *
830450 AAAAACAATCTTGAGTAAAATGAAAT-GTCTTCTTTCGAGTAAAAA-TCGTCTCAAGCGAGACTA
1 AAAAACAATCTTGAGTAAAAT-AAATCGTCTTCTTTCGAGTAAAAACT-ATCTCAAGCGAGACAA
830513 A-TCTTGTTTTAAG
64 ATTC-TGTTTTAAG
* * * ** *
830526 AAAAACAATCTTGAGTGAAATAAATCTTCTTGTTTCTTGTAAAAACTATCTCAAGTGAGACAAAT
1 AAAAACAATCTTGAGTAAAATAAATCGTCTTCTTTCGAGTAAAAACTATCTCAAGCGAGACAAAT
830591 TCTGTTTTAAG
66 TCTGTTTTAAG
* * *
830602 AAAAACAATCTTAAGTGAGATAAATC
1 AAAAACAATCTTGAGTAAAATAAATC
830628 CTCTGTATTA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
75 4 0.04
76 82 0.92
77 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (76 bp):
AAAAACAATCTTGAGTAAAATAAATCGTCTTCTTTCGAGTAAAAACTATCTCAAGCGAGACAAAT
TCTGTTTTAAG
Found at i:830552 original size:36 final size:36
Alignment explanation
Indices: 830512--830627 Score: 110
Period size: 36 Copynumber: 3.1 Consensus size: 36
830502 AAGCGAGACT
* *
830512 AATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATA
1 AATCTTGTTTTAAGAAAAACAATCTTAAGTGAGATA
* * * *
830548 AATCTTCTTGTTTCT-TGTAAAAACTATCTCAAGTGAGACA
1 AA---TCTTGTTT-TAAG-AAAAACAATCTTAAGTGAGATA
830588 AAT-TCTGTTTTAAGAAAAACAATCTTAAGTGAGATA
1 AATCT-TGTTTTAAGAAAAACAATCTTAAGTGAGATA
830624 AATC
1 AATC
830628 CTCTGTATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
36 26 0.42
37 7 0.11
39 9 0.15
40 20 0.32
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (36 bp):
AATCTTGTTTTAAGAAAAACAATCTTAAGTGAGATA
Found at i:838067 original size:20 final size:20
Alignment explanation
Indices: 838042--838081 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
838032 TTTTTATTAT
838042 TAAAAGATGCCACATAGGAG
1 TAAAAGATGCCACATAGGAG
838062 TAAAAGATGCCACATAGGAG
1 TAAAAGATGCCACATAGGAG
838082 AGAGAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (20 bp):
TAAAAGATGCCACATAGGAG
Found at i:841413 original size:21 final size:22
Alignment explanation
Indices: 841387--841431 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
841377 GTGGACCGCA
* *
841387 ATAATATACTTTACTT-ATTTT
1 ATAATAAAATTTACTTAATTTT
*
841408 ATAATAAAATTTATTTAATTTT
1 ATAATAAAATTTACTTAATTTT
841430 AT
1 AT
841432 GTTGTATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
ATAATAAAATTTACTTAATTTT
Found at i:842472 original size:11 final size:12
Alignment explanation
Indices: 842456--842485 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
842446 TTTAGCCAAT
842456 TTTAATTAG-TA
1 TTTAATTAGTTA
842467 TTTAATTAGTTA
1 TTTAATTAGTTA
842479 TTTAATT
1 TTTAATT
842486 GTAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (12 bp):
TTTAATTAGTTA
Found at i:843617 original size:20 final size:19
Alignment explanation
Indices: 843575--843624 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
843565 TGATGCAATT
**
843575 GGTATCGATACTGAGAGGG
1 GGTATCGATACTGAGAGAA
*
843594 GGTATCGATACTATAGAGAA
1 GGTATCGATACT-GAGAGAA
*
843614 GGTATCAATAC
1 GGTATCGATAC
843625 CATTGATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (19 bp):
GGTATCGATACTGAGAGAA
Found at i:844178 original size:113 final size:111
Alignment explanation
Indices: 844041--844334 Score: 378
Period size: 113 Copynumber: 2.6 Consensus size: 111
844031 ATTACCAAAT
*** *
844041 GGCACTGTGTGAGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTTTATGGGCACTGTGT
1 GGCACTGTGTGAGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGCGT
844106 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
66 GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
*
844152 GGCACTGTGTGTGCAAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGC
1 GGCACTGTGTGAGC--AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGC
* *
844217 GTGTGTAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
64 GTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
* * * * * * * * * *
844265 GGTAGTAG-GTGTGC-AACCTACGTAAATT-ATAATAAGTTTGTTAATTACCGTATTGGCACTAC
1 GGCACT-GTGTGAGCAAAACTAAG-AAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGC
844327 GTGTGCAA
64 GTGTGCAA
844335 CTATAAAGCT
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
110 42 0.26
111 18 0.11
113 101 0.62
114 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.34
Consensus pattern (111 bp):
GGCACTGTGTGAGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGCGT
GTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
Found at i:844198 original size:57 final size:56
Alignment explanation
Indices: 844041--844263 Score: 376
Period size: 56 Copynumber: 4.0 Consensus size: 56
844031 ATTACCAAAT
* **
844041 GGCACTGTGTGAGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTTTTTATG
1 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
844096 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
*
844152 GGCACTGTGTGTGCAAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGC-AAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
* *
844209 GGCACTGCGTGTGTAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
844264 TGGTAGTAGG
Statistics
Matches: 159, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
55 13 0.08
56 93 0.58
57 53 0.33
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (56 bp):
GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
Found at i:868667 original size:14 final size:14
Alignment explanation
Indices: 868648--868675 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
868638 AGTTGCCAAT
868648 ACCACTAGAGGAAA
1 ACCACTAGAGGAAA
868662 ACCACTAGAGGAAA
1 ACCACTAGAGGAAA
868676 TTAATTTAGC
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:0.21, G:0.21, T:0.07
Consensus pattern (14 bp):
ACCACTAGAGGAAA
Found at i:868763 original size:21 final size:21
Alignment explanation
Indices: 868726--868788 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 21
868716 TTTTGGTGCA
*
868726 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
**
868746 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCAT
868767 GAAGGAGAACCGATTCCCCCCA
1 G-AGG-GAACCGATTCCCCCCA
868789 CAGGGGAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.29
21 8 0.23
22 3 0.09
23 14 0.40
ACGTcount: A:0.25, C:0.35, G:0.24, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:875026 original size:18 final size:17
Alignment explanation
Indices: 874984--875030 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
874974 ACAACATTCT
874984 CAGTAATCTTATTCCCG
1 CAGTAATCTTATTCCCG
* *
875001 TAGTTAATTTTATTCCCG
1 CAG-TAATCTTATTCCCG
875019 CCAGTAATCTTA
1 -CAGTAATCTTA
875031 CATTCCGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (17 bp):
CAGTAATCTTATTCCCG
Found at i:875953 original size:27 final size:27
Alignment explanation
Indices: 875930--875994 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
875920 TTTAACATTT
875930 TCGGTAAAATGCCCAATAATAACAAAA
1 TCGGTAAAATGCCCAATAATAACAAAA
875957 TCGGTAAAATGCCCAATAATAACAAAA
1 TCGGTAAAATGCCCAATAATAACAAAA
*
875984 CCGGTAGAAAT
1 TCGGTA-AAAT
875995 AATAATGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (27 bp):
TCGGTAAAATGCCCAATAATAACAAAA
Found at i:876781 original size:28 final size:26
Alignment explanation
Indices: 876742--876796 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 26
876732 CGTATGCTTA
*
876742 TTTTTTCAATTT-AGTGTCTAATGTTT
1 TTTTTTCAATTTGA-TGTCTAACGTTT
876768 TTTTGTTCTAATTTGATGTCTAACGTTT
1 TTTT-TTC-AATTTGATGTCTAACGTTT
876796 T
1 T
876797 ATTCCGATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
28 17 0.68
29 1 0.04
ACGTcount: A:0.18, C:0.09, G:0.13, T:0.60
Consensus pattern (26 bp):
TTTTTTCAATTTGATGTCTAACGTTT
Found at i:889971 original size:24 final size:24
Alignment explanation
Indices: 889944--890028 Score: 143
Period size: 24 Copynumber: 3.5 Consensus size: 24
889934 AACCATTTGT
889944 AACATCTGAGAAGGCACTTGATGG
1 AACATCTGAGAAGGCACTTGATGG
*
889968 AACATCTGAGAAGGCACATGATGG
1 AACATCTGAGAAGGCACTTGATGG
*
889992 AACATATGAGAAGGCACTTGATGG
1 AACATCTGAGAAGGCACTTGATGG
*
890016 AATATCTGAGAAG
1 AACATCTGAGAAG
890029 CTGTTATGTA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (24 bp):
AACATCTGAGAAGGCACTTGATGG
Found at i:891824 original size:24 final size:24
Alignment explanation
Indices: 891783--891829 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
891773 CACATGAATA
* *
891783 TTTTATCTAAATTTTGTTCTGATT
1 TTTTATCTAAATTCTGTTATGATT
**
891807 TTTTATCTGGATTCTGTTATGAT
1 TTTTATCTAAATTCTGTTATGAT
891830 ATCTCCATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.13, T:0.60
Consensus pattern (24 bp):
TTTTATCTAAATTCTGTTATGATT
Found at i:895237 original size:20 final size:20
Alignment explanation
Indices: 895212--895250 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
895202 TAAAATAAGC
895212 TGTGTTATTGATATAAACTT
1 TGTGTTATTGATATAAACTT
895232 TGTGTTATTGATATAAACT
1 TGTGTTATTGATATAAACT
895251 CTTATATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TGTGTTATTGATATAAACTT
Found at i:895393 original size:44 final size:44
Alignment explanation
Indices: 895368--895492 Score: 205
Period size: 44 Copynumber: 2.8 Consensus size: 44
895358 AGATATGAGA
*
895368 ATAAGATATAAGCTATGTGACATGATCTACGTGATTACATAAAC
1 ATAAGATATAAGCTATGTGACATGATCTACGTGATTACATGAAC
* *
895412 ACAAGACATAAGCTATGTGACATGATCTACGTGATTACATGAAC
1 ATAAGATATAAGCTATGTGACATGATCTACGTGATTACATGAAC
* *
895456 ATAAGATATAAGCTATGTGATATAATCTACGTGATTA
1 ATAAGATATAAGCTATGTGACATGATCTACGTGATTA
895493 TTGGTCTATG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (44 bp):
ATAAGATATAAGCTATGTGACATGATCTACGTGATTACATGAAC
Found at i:895479 original size:14 final size:14
Alignment explanation
Indices: 895460--895511 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
895450 ATGAACATAA
895460 GATATAAGCTATGT
1 GATATAAGCTATGT
* *
895474 GATATAATCTACGT
1 GATATAAGCTATGT
**
895488 GATTATTGGTCTATGT
1 GA-TATAAG-CTATGT
895504 GATATAAG
1 GATATAAG
895512 ATATAATAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
14 14 0.50
15 7 0.25
16 7 0.25
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (14 bp):
GATATAAGCTATGT
Found at i:895629 original size:23 final size:22
Alignment explanation
Indices: 895603--895687 Score: 93
Period size: 23 Copynumber: 3.9 Consensus size: 22
895593 GGTTCTAAGC
895603 GGTCCTTCGGGACAATTCTACGT
1 GGTCCTTCGGGAC-ATTCTACGT
* *
895626 GGTCCTTCGAGACATTTCTACGC
1 GGTCCTTCGGGACA-TTCTACGT
* *
895649 GGTCCTTC-GGACA-TATATGT
1 GGTCCTTCGGGACATTCTACGT
*
895669 GGTCTTTCGGGACATTCTA
1 GGTCCTTCGGGACATTCTA
895688 TATGGCACTT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
20 11 0.22
21 5 0.10
22 8 0.16
23 27 0.53
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTACGT
Found at i:897344 original size:22 final size:22
Alignment explanation
Indices: 897284--897344 Score: 54
Period size: 24 Copynumber: 2.7 Consensus size: 22
897274 AATATAGTTT
* *
897284 ATAATT-TTTTAATAATAATAT
1 ATAATTCTTTTAAAAATAATAA
*
897305 A-AATTCATATTTATAAAATATTAA
1 ATAATTC-T-TTTA-AAAATAATAA
897329 ATAATTCTTTTAAAAA
1 ATAATTCTTTTAAAAA
897345 CAGGGCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 4 0.12
21 1 0.03
22 5 0.16
23 8 0.25
24 9 0.28
25 5 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATTCTTTTAAAAATAATAA
Found at i:901360 original size:44 final size:44
Alignment explanation
Indices: 901297--901385 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
901287 GAGAAACTAC
901297 AGCAATCGAAAGAAGTAAGGCTAAAGACTAAAATAATAAATTAA
1 AGCAATCGAAAGAAGTAAGGCTAAAGACTAAAATAATAAATTAA
*
901341 AGCAATGGAAAGAAGTAAGGCTAAAGACTAAAATAATAAATTAA
1 AGCAATCGAAAGAAGTAAGGCTAAAGACTAAAATAATAAATTAA
901385 A
1 A
901386 ATATTACAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.57, C:0.08, G:0.17, T:0.18
Consensus pattern (44 bp):
AGCAATCGAAAGAAGTAAGGCTAAAGACTAAAATAATAAATTAA
Found at i:906908 original size:20 final size:20
Alignment explanation
Indices: 906885--906982 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
906875 ATCTCAACAC
*
906885 GATAGTCAAATTTGCAACGT
1 GATAGTCAAATTCGCAACGT
**
906905 GATAGTCAAATTCGCAACAC
1 GATAGTCAAATTCGCAACGT
* * *
906925 AAAAGTCAAATTCGCAACGC
1 GATAGTCAAATTCGCAACGT
*
906945 G-TAATTCCAAATTCGCAAC-T
1 GAT-AGT-CAAATTCGCAACGT
*
906965 GA-ATTTCAAATTCGCAAC
1 GATA-GTCAAATTCGCAAC
906983 TAGATTTTCG
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 13 0.20
20 39 0.61
21 12 0.19
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (20 bp):
GATAGTCAAATTCGCAACGT
Found at i:906974 original size:19 final size:20
Alignment explanation
Indices: 906910--907022 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
906900 AACGTGATAG
* **
906910 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACACGAATT
*
906930 TCAAATTCGCAACGCGTAATT
1 TCAAATTCGCAACACG-AATT
* *
906951 CCAAATTCGCAAC-TGAATT
1 TCAAATTCGCAACACGAATT
*
906970 TCAAATTCGCAACTA-GATTT
1 TCAAATTCGCAAC-ACGAATT
*
906990 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAACACGAATT
*
907010 T-AATTTCGCAACA
1 TCAAATTCGCAACA
907023 AGTTTTAGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
19 27 0.35
20 36 0.47
21 14 0.18
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.27
Consensus pattern (20 bp):
TCAAATTCGCAACACGAATT
Found at i:906996 original size:20 final size:19
Alignment explanation
Indices: 906930--907021 Score: 87
Period size: 19 Copynumber: 4.7 Consensus size: 19
906920 AACACAAAAG
*
906930 TCAAATTCGCAACGCGTAATT
1 TCAAATTCGCAAC-TG-AATT
*
906951 CCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
906970 TCAAATTCGCAACTAGATTT
1 TCAAATTCGCAACT-GAATT
* *
906990 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
907010 T-AATTTCGCAAC
1 TCAAATTCGCAAC
907022 AAGTTTTAGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 26 0.43
20 22 0.37
21 12 0.20
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:907213 original size:16 final size:15
Alignment explanation
Indices: 907178--907216 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
907168 TCCCCATCTC
*
907178 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
907193 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
907209 TAATTTTT
1 TAATTTTT
907217 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:907789 original size:12 final size:12
Alignment explanation
Indices: 907768--907801 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
907758 ATCACATTTC
*
907768 CAATACCAAACA
1 CAATATCAAACA
907780 CAATATCAAACA
1 CAATATCAAACA
*
907792 CAATCTCAAA
1 CAATATCAAA
907802 ACCCACAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:909321 original size:18 final size:18
Alignment explanation
Indices: 909300--909336 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
909290 GTAATTGGAG
909300 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
909318 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
909336 T
1 T
909337 ATCTCCACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:909681 original size:39 final size:39
Alignment explanation
Indices: 909638--909724 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
909628 TCTGATGCTC
909638 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
* *
909677 ATCAACATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
909716 ATCAAAATC
1 ATCAAAATC
909725 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:912317 original size:20 final size:20
Alignment explanation
Indices: 912292--912352 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
912282 GCGTAAAAAC
912292 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
912312 ATTTGACTATCGCGTTGCG-
1 ATTTGACTTTCGCGTTGCGA
912331 ATTT-ACATATTCGCGTTGCGA
1 ATTTGAC-T-TTCGCGTTGCGA
912352 A
1 A
912353 ATTGGAAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 2 0.06
19 5 0.14
20 28 0.78
21 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:912388 original size:20 final size:19
Alignment explanation
Indices: 912339--912392 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
912329 CGATTTACAT
912339 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
912358 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
912378 AGTTCGCGTTGCGAA
1 A-TTCGCGTTGCGAA
912393 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:913084 original size:17 final size:17
Alignment explanation
Indices: 913062--913100 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
913052 TGAATCAATT
913062 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
913079 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
913096 -AATTA
1 TAATTA
913101 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:914525 original size:15 final size:15
Alignment explanation
Indices: 914505--914535 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
914495 CAACAGATAA
914505 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
914520 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
914535 A
1 A
914536 TTTAGAATTT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:915477 original size:53 final size:54
Alignment explanation
Indices: 915420--915521 Score: 163
Period size: 53 Copynumber: 1.9 Consensus size: 54
915410 AGTCGAATTG
*
915420 AACTTTTATAATAATTACATATA-TATAACTT-TTATAATAATTACATATATTAT
1 AACTTTTATAATAATTACATATATTATAACTTAATATAATAATTA-ATATATTAT
*
915473 AACTTTTATAATAATTACATATATTATAACTTAATATAATATTTAATAT
1 AACTTTTATAATAATTACATATATTATAACTTAATATAATAATTAATAT
915522 TATAATATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 23 0.51
54 12 0.27
55 10 0.22
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (54 bp):
AACTTTTATAATAATTACATATATTATAACTTAATATAATAATTAATATATTAT
Found at i:915481 original size:27 final size:27
Alignment explanation
Indices: 915420--915521 Score: 163
Period size: 27 Copynumber: 3.8 Consensus size: 27
915410 AGTCGAATTG
915420 AACTTTTATAATAATTACATATA-TAT
1 AACTTTTATAATAATTACATATATTAT
915446 AACTTTTATAATAATTACATATATTAT
1 AACTTTTATAATAATTACATATATTAT
915473 AACTTTTATAATAATTACATATATTAT
1 AACTTTTATAATAATTACATATATTAT
* *
915500 AACTTAATATAATATTTA-ATAT
1 AACTT-TTATAATAATTACATAT
915522 TATAATATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
26 23 0.32
27 39 0.54
28 10 0.14
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (27 bp):
AACTTTTATAATAATTACATATATTAT
Found at i:915533 original size:53 final size:53
Alignment explanation
Indices: 915423--915533 Score: 147
Period size: 53 Copynumber: 2.1 Consensus size: 53
915413 CGAATTGAAC
* *
915423 TTTTATAATAATTACATATATATAACTTTTATAATAATTACATATATTATAAC
1 TTTTATAATAATTACATATATATAACTTATATAATAATTACATATATTATAAA
*
915476 TTTTATAATAATTACATATATTATAACTTAATATAAT-ATT-TA-ATATTATAATA
1 TTTTATAATAATTACATATA-TATAACTT-ATATAATAATTACATATATTATAA-A
915529 TTTTA
1 TTTTA
915534 GATTAGTTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
52 9 0.17
53 26 0.50
54 11 0.21
55 6 0.12
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (53 bp):
TTTTATAATAATTACATATATATAACTTATATAATAATTACATATATTATAAA
Found at i:915936 original size:80 final size:80
Alignment explanation
Indices: 915749--915950 Score: 226
Period size: 80 Copynumber: 2.5 Consensus size: 80
915739 ACAATTGTTA
* * * ** * *
915749 CATTAAAAGAGTTGTTCTTCTATATAGATAATGAGATGAAAACAATAAACATAACACATAATCAT
1 CATTAAAAGAGTTATCCATCTATATACCTAAGGAGATGAAAACAACAAACATAACACATAATCAT
*
915814 AAACTTCATGCATTG
66 AAACTTCATACATTG
* * * * **
915829 CATTAAAAGAGTTCTTCATCCACATACCTAAGGAGATGAAAACAACAAACATTTCACATAATCAT
1 CATTAAAAGAGTTATCCATCTATATACCTAAGGAGATGAAAACAACAAACATAACACATAATCAT
915894 AAACTTCCA-ACATTG
66 AAACTT-CATACATTG
* * *
915909 CATTAAATGATTTATCCATCTATATACCTAAGAAGATTGAAA
1 CATTAAAAGAGTTATCCATCTATATACCTAAGGAGA-TGAAA
915951 TAATAAACAT
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
80 95 0.93
81 7 0.07
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (80 bp):
CATTAAAAGAGTTATCCATCTATATACCTAAGGAGATGAAAACAACAAACATAACACATAATCAT
AAACTTCATACATTG
Found at i:915959 original size:80 final size:80
Alignment explanation
Indices: 915782--915977 Score: 225
Period size: 80 Copynumber: 2.5 Consensus size: 80
915772 ATAGATAATG
* * * *
915782 AGATGAAAACAATAAACATAACACATAATCATAAACTTCATGCATTGCATTAAAAGAGTTCTTCA
1 AGATGAAAACAATAAACATTACACATAATCATAAACTTCATACATTGCATTAAAAGAGTTATCCA
*
915847 TCCACATACCTAAGG
66 TCCACATACCTAAGA
* * * *
915862 AGATGAAAACAACAAACATTTCACATAATCATAAACTTCCA-ACATTGCATTAAATGATTTATCC
1 AGATGAAAACAATAAACATTACACATAATCATAAACTT-CATACATTGCATTAAAAGAGTTATCC
* *
915926 ATCTATATACCTAAGA
65 ATCCACATACCTAAGA
* * * *
915942 AGATTG-AAATAATAAACATTAAATATAAGCATAAAC
1 AGA-TGAAAACAATAAACATTACACATAATCATAAAC
915978 ATACGACTCT
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
80 93 0.96
81 4 0.04
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (80 bp):
AGATGAAAACAATAAACATTACACATAATCATAAACTTCATACATTGCATTAAAAGAGTTATCCA
TCCACATACCTAAGA
Found at i:917820 original size:36 final size:36
Alignment explanation
Indices: 917780--917863 Score: 150
Period size: 36 Copynumber: 2.3 Consensus size: 36
917770 TGATTGATAA
917780 ATGTTATATGATTCATATGAATAGATGAAAGTACAC
1 ATGTTATATGATTCATATGAATAGATGAAAGTACAC
* *
917816 ATGTTATATGATTCATATGAATAGATGAAAGTATAT
1 ATGTTATATGATTCATATGAATAGATGAAAGTACAC
917852 ATGTTATATGAT
1 ATGTTATATGAT
917864 ACGAGATAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (36 bp):
ATGTTATATGATTCATATGAATAGATGAAAGTACAC
Found at i:919739 original size:30 final size:30
Alignment explanation
Indices: 919675--919771 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
919665 GAAGGACCTA
* * * * *
919675 TCCAGAGGTCATAAAGATCATCGGTAACTA
1 TCCATAGGTCATAAAGATCCTAGGAAACTG
* *
919705 TCCATAGGTCATAAAGATCCTTGGCAACTG
1 TCCATAGGTCATAAAGATCCTAGGAAACTG
* * *
919735 TCCATAGGTTACAAAGAACCTAGGTAAACTG
1 TCCATAGGTCATAAAGATCCTAGG-AAACTG
919766 TCCATA
1 TCCATA
919772 TGTTCCTTAG
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
30 45 0.80
31 11 0.20
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (30 bp):
TCCATAGGTCATAAAGATCCTAGGAAACTG
Found at i:919850 original size:32 final size:32
Alignment explanation
Indices: 919731--919854 Score: 130
Period size: 31 Copynumber: 3.9 Consensus size: 32
919721 ATCCTTGGCA
* * ** *
919731 ACTGTCCATAGGTTACAAAGAACCTAGGTAA-
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
*
919762 ACTGTCCATATGTTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
*
919793 ACTGTCCATATG-TCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTC-CGTAGA-ACATAGGTAAT
*
919825 TCTGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTTCCGTAGAACATAGGTA
919855 TACCCTCGAC
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
30 5 0.06
31 45 0.58
32 24 0.31
33 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:924502 original size:30 final size:30
Alignment explanation
Indices: 924466--924537 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
924456 CTCGAAGGAC
*
924466 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
*
924496 CTATCCAGAGGTCATAAAGATCCTTGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
* *
924526 CTGTCCATAGGT
1 CTATCCAGAGGT
924538 TCCGAAGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGCAA
Found at i:924562 original size:31 final size:31
Alignment explanation
Indices: 924524--924648 Score: 137
Period size: 31 Copynumber: 4.0 Consensus size: 31
924514 GATCCTTGGC
* *
924524 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
924555 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* *
924586 TACTGTCTATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
924617 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
924649 TACCCTCGAC
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
30 3 0.04
31 49 0.64
32 22 0.29
33 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:925366 original size:22 final size:22
Alignment explanation
Indices: 925349--925416 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
925339 CTCGTATAAA
925349 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
925371 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
925393 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
925415 TG
1 TG
925417 TCCATAAGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:925674 original size:30 final size:31
Alignment explanation
Indices: 925633--925692 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
925623 TAGCCATAGT
*
925633 ATTTTCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
925663 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
925693 AACTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Done.