Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001162.1 Hibiscus syriacus cultivar Beakdansim tig00002317_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: 1560963
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:816901 original size:18 final size:20
Alignment explanation
Indices: 816864--816901 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
816854 CAGATGAAGG
816864 CAGAAGACTAGTCAACATAT
1 CAGAAGACTAGTCAACATAT
*
816884 CAGAAG-CT-GTCAATATAT
1 CAGAAGACTAGTCAACATAT
816902 TTTGTCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (20 bp):
CAGAAGACTAGTCAACATAT
Found at i:819313 original size:95 final size:95
Alignment explanation
Indices: 819203--819380 Score: 261
Period size: 95 Copynumber: 1.9 Consensus size: 95
819193 TATTTATATC
* * * *
819203 CAATAAAGCTTGAGTTGTCCCTCT-AGAGAAATTGGTTAAATG-TTATGGCTTTATGGATAATAT
1 CAATAAAGCTTGAGTTGTCCCTCTAAG-GAAATTGGTTAAACGCCT-CGGCTTTATGGATAAGAT
*
819266 TCAGCTAGCCTGATAAATGTGATTATACTATA
64 TCAGCTAACCTGATAAATGTGATTATACTATA
*
819298 CAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCTCGGCTTTATGGATAAGATTC
1 CAATAAAGCTTGAGTTGTCCCTCTAAGGAAATTGGTTAAACGCCTCGGCTTTATGGATAAGATTC
*
819363 AGCTAACTTGATAAATGT
66 AGCTAACCTGATAAATGT
819381 ATTTACATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
95 71 0.96
96 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (95 bp):
CAATAAAGCTTGAGTTGTCCCTCTAAGGAAATTGGTTAAACGCCTCGGCTTTATGGATAAGATTC
AGCTAACCTGATAAATGTGATTATACTATA
Found at i:820804 original size:36 final size:36
Alignment explanation
Indices: 820743--820862 Score: 186
Period size: 36 Copynumber: 3.3 Consensus size: 36
820733 GACTGATTTA
*
820743 CTTAAAACAAAGTTTTGTCTATCTTGAGACAGTTTCT
1 CTTAAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCT
*
820780 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCT
1 CTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
* *
820816 CTTAAAACAAATTTTGTCTCTCTTGAGTCAGTTTCC
1 CTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
*
820852 CTTGAAACAAA
1 CTTAAAACAAA
820863 ATATTTGAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 66 0.86
37 11 0.14
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (36 bp):
CTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
Found at i:820995 original size:138 final size:137
Alignment explanation
Indices: 820747--820999 Score: 357
Period size: 138 Copynumber: 1.8 Consensus size: 137
820737 GATTTACTTA
* * * *
820747 AAACAAAGTTTTGTCTATCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATT
1 AAACAAAGTTTCGTCTATCTTGAGACAATTTCTCTTAAAACAAATTTTGACTCTCTTGAGACAAT
*
820812 TTCTCTTAAAACAAATTTTGTCTCTCTTGAGTCAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 TTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG-AACAAAATATTTGAATATGT
820877 TTTCCTTG
130 TTTCCTTG
* ** * *
820885 AAACAAA-TTTCGTCT-TCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGACTCTCTTTAGACA
1 AAACAAAGTTTCGTCTAT-CTTGAGACAATTTCTCTTAAAAC-AAATTTTGACTCTCTTGAGACA
* *
820948 ATTTCTCTTGAAACAAATTTTTTCTCTCTTGAGACAGTTTCCCTTGAACAAA
64 ATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAACAAA
821000 TCTTGTCTCT
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
136 1 0.01
137 32 0.32
138 68 0.67
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (137 bp):
AAACAAAGTTTCGTCTATCTTGAGACAATTTCTCTTAAAACAAATTTTGACTCTCTTGAGACAAT
TTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAACAAAATATTTGAATATGTT
TTCCTTG
Found at i:821042 original size:173 final size:174
Alignment explanation
Indices: 820752--821161 Score: 635
Period size: 173 Copynumber: 2.4 Consensus size: 174
820742 ACTTAAAACA
* * * *
820752 AAGTTTTGTCTATCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTC
1 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
* * *
820817 TTAAAACAAATTTTGTCTCTCTTGAGTCAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCC
66 TTAAAACAAATCTTGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCC
*
820882 TTGAAACAAATTTCGTCT-TCCTTGAGACAATTTCTTTTGGAACT
131 TTGAAACAAATTTCGTCTCT-CTCGAGACAATTTCTTTTGGAACT
* * * *
820926 AAGTTTTGACTCTCTTTAGACAATTTCTCTTGAAACAAATTTTTTCTCTCTTGAGACAGTTTCCC
1 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
* *
820991 TT-GAACAAATCTTGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATATTTGAATTTGTTTTCC
66 TTAAAACAAATCTTGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCC
* * *
821055 TTTAAACAAATTTTGTCTCTCTCGAGACAGTTTCTTTTGGAACT
131 TTGAAACAAATTTCGTCTCTCTCGAGACAATTTCTTTTGGAACT
*
821099 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTC
1 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
821162 TCTGGAAACA
Statistics
Matches: 213, Mismatches: 22, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
173 153 0.72
174 60 0.28
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (174 bp):
AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
TTAAAACAAATCTTGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCC
TTGAAACAAATTTCGTCTCTCTCGAGACAATTTCTTTTGGAACT
Found at i:821119 original size:37 final size:36
Alignment explanation
Indices: 820877--821171 Score: 254
Period size: 36 Copynumber: 8.4 Consensus size: 36
820867 TTGAATATGT
* *
820877 TTTC-CTTGAAACAAATTTCGTCT-TCCTTGAGACAA
1 TTTCTCTTGAAACAAATTTTGTCTCT-CTTGAGACAG
* * * * * *
820912 TTTCTTTTGGAACTAAGTTTTGACTCTCTTTAGACAA
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
820949 TTTCTCTTGAAACAAATTTTTTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
820985 TTTCCCTTG-AACAAATCTTGTCTCTCTTAAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* ** *
821020 TTTCCCTTGAAACAAAATATTTG--AAT-TT--G---T
1 TTTCTCTTGAAAC-AAAT-TTTGTCTCTCTTGAGACAG
* *
821050 TTTC-CTTTAAACAAATTTTGTCTCTCTCGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
821085 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
821122 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
821158 TTTCTCTGGAAACA
1 TTTCTCTTGAAACA
821172 CAAAAAACCT
Statistics
Matches: 208, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.02
28 4 0.02
29 8 0.04
30 5 0.02
32 1 0.00
33 1 0.00
35 42 0.20
36 75 0.36
37 64 0.31
38 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:821133 original size:102 final size:101
Alignment explanation
Indices: 820949--821137 Score: 272
Period size: 102 Copynumber: 1.9 Consensus size: 101
820939 CTTTAGACAA
* *
820949 TTTCTCTTGAAACAAATTTTTTCTCTCTTGAGACAGTTTCCCTTGAACAAATCTTGTCTCTCTTA
1 TTTCTCTTGAAACAAATTTTGTCTCTCTCGAGACAGTTTCCCTTGAACAAATCTTGTCTCTCTTA
821014 AGACAGTTTCCCTTGAAACAAAATATTTGAATTTGT
66 AGACAGTTTCCCTTGAAACAAAATATTTGAATTTGT
* ** * *
821050 TTTC-CTTTAAACAAATTTTGTCTCTCTCGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTTGTCTCTCTCGAGACAGTTTCCCTT-GAAC-AAATCTTGTCTCTCT
* *
821114 TGAGACAGTTTCTCTTGAAACAAA
64 TAAGACAGTTTCCCTTGAAACAAA
821138 TTTTGTCTCT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 34 0.44
101 8 0.10
102 35 0.45
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (101 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTCGAGACAGTTTCCCTTGAACAAATCTTGTCTCTCTTA
AGACAGTTTCCCTTGAAACAAAATATTTGAATTTGT
Found at i:821223 original size:29 final size:29
Alignment explanation
Indices: 821177--821234 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
821167 AAACACAAAA
* *
821177 AACCTTTGAAATTATTTCTCTTGAAACAC
1 AACCTTTGAAAATATTTCTCTTAAAACAC
*
821206 AACCTTTGAAAATGTTTCTCTTAAAACAC
1 AACCTTTGAAAATATTTCTCTTAAAACAC
821235 TAAACCTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (29 bp):
AACCTTTGAAAATATTTCTCTTAAAACAC
Found at i:823057 original size:2 final size:2
Alignment explanation
Indices: 823050--823078 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
823040 ATGTAATCAT
823050 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
823079 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:828596 original size:21 final size:21
Alignment explanation
Indices: 828545--828643 Score: 150
Period size: 21 Copynumber: 4.9 Consensus size: 21
828535 GCACTGAAAT
*
828545 TTGTCCCGAAAGACCAC--TA
1 TTGTCCCGAAGGACCACTGTA
*
828564 -TGTCCCGTAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
*
828584 TTATCCCGAAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
828605 TTGTCCCGAAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
828626 TTGTCCCGAAGGACCACT
1 TTGTCCCGAAGGACCACT
828644 CTAACCCTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
18 14 0.19
20 2 0.03
21 56 0.78
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACTGTA
Found at i:833218 original size:24 final size:24
Alignment explanation
Indices: 833186--833232 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
833176 CATTGTTTAT
833186 TATATATGATGGTTATCATGAATA
1 TATATATGATGGTTATCATGAATA
* *
833210 TATATATGATGTTTATTATGAAT
1 TATATATGATGGTTATCATGAAT
833233 GTTATTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (24 bp):
TATATATGATGGTTATCATGAATA
Found at i:836514 original size:29 final size:31
Alignment explanation
Indices: 836466--836523 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
836456 AAACTAATTA
836466 ATATATATAAGAGTATTA-TTATAATTATTTT
1 ATATATATAAGAGTATTATTTAT-ATTATTTT
*
836497 ATATATTTAAGA-TA-TATTTATATTATT
1 ATATATATAAGAGTATTATTTATATTATT
836524 ATGTCGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 6 0.24
31 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (31 bp):
ATATATATAAGAGTATTATTTATATTATTTT
Found at i:838185 original size:70 final size:70
Alignment explanation
Indices: 838073--838214 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
838063 AATAATGTAC
838073 TAAATACTATTTAATAGATACTTAATTTGAATTTAATGAAAAAAATAAAACATGTGTTTATAATC
1 TAAATACTATTTAATAGATACTTAATTTGAATTTAATGAAAAAAATAAAACATGTGTTTATAATC
838138 TCACT
66 TCACT
838143 TAAATACTATTTAATAGATACTTAATTTGAATTTAATGAAAAAAATAAAACATGTGTTTATAATC
1 TAAATACTATTTAATAGATACTTAATTTGAATTTAATGAAAAAAATAAAACATGTGTTTATAATC
838208 TCACT
66 TCACT
838213 TA
1 TA
838215 TACCCGATTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (70 bp):
TAAATACTATTTAATAGATACTTAATTTGAATTTAATGAAAAAAATAAAACATGTGTTTATAATC
TCACT
Found at i:839809 original size:33 final size:34
Alignment explanation
Indices: 839762--839825 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
839752 TATATTATAT
*
839762 TTTTTATACAATATCTAAAATAAAAGTATTTTAA
1 TTTTTATAAAATATCTAAAATAAAAGTATTTTAA
* *
839796 TTTTTA-AAAATATCTAAAGTTAAAGTATTT
1 TTTTTATAAAATATCTAAAATAAAAGTATTT
839826 GAGTTCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (34 bp):
TTTTTATAAAATATCTAAAATAAAAGTATTTTAA
Found at i:841750 original size:31 final size:31
Alignment explanation
Indices: 841712--841773 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
841702 AAGTGTTCTA
841712 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
*
841743 TACGAGCTGTGGTGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
841774 ATGCGCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:841806 original size:22 final size:22
Alignment explanation
Indices: 841777--841828 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
841767 GCTTTGCATG
*
841777 CGCCATGCACGTCGGAAGAGGT
1 CGCCATGCACATCGGAAGAGGT
*
841799 TGCCATGCACATCGGAAGAGGT
1 CGCCATGCACATCGGAAGAGGT
841821 CGCC-TGCA
1 CGCCATGCA
841829 TTCAGTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.15
Consensus pattern (22 bp):
CGCCATGCACATCGGAAGAGGT
Found at i:841911 original size:29 final size:29
Alignment explanation
Indices: 841874--841961 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
841864 AGGGCGCAGG
* *
841874 ACAAGGTCGCCCAGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGAGTGCATGGCGACCT
* * * *
841903 ACCATGTCGCCTGGAGTGCATGGCGATCT
1 ACAAGGTCGCCCGGAGTGCATGGCGACCT
*
841932 ACAAGGTCGCCCGGAGGGCATGGCGACCT
1 ACAAGGTCGCCCGGAGTGCATGGCGACCT
841961 A
1 A
841962 TGCTGGGAAG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (29 bp):
ACAAGGTCGCCCGGAGTGCATGGCGACCT
Found at i:848694 original size:55 final size:55
Alignment explanation
Indices: 848556--848848 Score: 387
Period size: 55 Copynumber: 5.3 Consensus size: 55
848546 TTCTTTGAGA
* * *
848556 TGCACACGTATTGTCGATACAGTCATTCATAAACATATTATGAATTATGTGG-GT
1 TGCACACTTAGTGTCGATACAGTCATTCATAAACATATTATGAATTATGTGGTTT
* * * *
848610 TGCACACTTAGTGTCGATACGGTCGTTCATAAATATATTATGAATTTTGTGGTTT
1 TGCACACTTAGTGTCGATACAGTCATTCATAAACATATTATGAATTATGTGGTTT
*
848665 TGCACACTTAGTTTCGATACAGTCATTCATAAACATATTATGAATT-TCGTGGTTT
1 TGCACACTTAGTGTCGATACAGTCATTCATAAACATATTATGAATTAT-GTGGTTT
* *
848720 TGCACACTTAGTGTCGATA-AGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
1 TGCACACTTAGTGTCGATACA-GTCATTCATAAACATATTATGAATTATGTGGTTT
* * * *
848775 TGCACACTTAGTGCCCATACGGTCATTCATAAACAT-TTAATGAATTACGTGGTTT
1 TGCACACTTAGTGTCGATACAGTCATTCATAAACATATT-ATGAATTATGTGGTTT
* *
848830 TGCACAGTTAGTGCCGATA
1 TGCACACTTAGTGTCGATA
848849 GTACACATAG
Statistics
Matches: 212, Mismatches: 21, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
54 50 0.24
55 161 0.76
56 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (55 bp):
TGCACACTTAGTGTCGATACAGTCATTCATAAACATATTATGAATTATGTGGTTT
Found at i:856861 original size:54 final size:55
Alignment explanation
Indices: 856795--857023 Score: 311
Period size: 55 Copynumber: 4.2 Consensus size: 55
856785 TTTCTTTGGA
* *
856795 TGCACAC-TAGTACCGATACGGTCGTTCAGAAACATATTATGAATTCTGTGG-GT
1 TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
* * * *
856848 TGCACATTTAGTACCGATACAGTCGTTCATAAATATATTATGAATTGTGTGGTTT
1 TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
* * * * *
856903 TGCACACTTAGTGCTGATACGGTCGTTTATAAACATATTATGAATTTTTTGGTTT
1 TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
* * *
856958 TGTACACTTAGTACCAATACGGTCTTTCATAAACATATTATGAATTC-GTGGTTT
1 TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
857012 TGCACACTTAGT
1 TGCACACTTAGT
857024 GTCGATAGTA
Statistics
Matches: 151, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 6 0.04
54 57 0.38
55 88 0.58
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (55 bp):
TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
Found at i:857009 original size:109 final size:109
Alignment explanation
Indices: 856795--857030 Score: 314
Period size: 109 Copynumber: 2.2 Consensus size: 109
856785 TTTCTTTGGA
* *
856795 TGCACAC-TAGTACCGATACGGTCGTTCAGAAACATATTATGAATTCTGTGGGTTGCACATTTAG
1 TGCACACTTAGTGCCGATACGGTCGTTCAGAAACATATTATGAATTCTGTGGGTTGCACACTTAG
* * *
856859 TACCGATACAGTCGTTCATAAATATATTATGAATTGTGTGGTTT
66 TACCAATACAGTCGTTCATAAACATATTATGAATTGCGTGGTTT
* * * * * * *
856903 TGCACACTTAGTGCTGATACGGTCGTTTATAAACATATTATGAATTTTTTGGTTTTGTACACTTA
1 TGCACACTTAGTGCCGATACGGTCGTTCAGAAACATATTATGAATTCTGTGG-GTTGCACACTTA
* *
856968 GTACCAATACGGTCTTTCATAAACATATTATGAATT-CGTGGTTT
65 GTACCAATACAGTCGTTCATAAACATATTATGAATTGCGTGGTTT
*
857012 TGCACACTTAGTGTCGATA
1 TGCACACTTAGTGCCGATA
857031 GTACACATAG
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
108 7 0.06
109 62 0.56
110 41 0.37
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (109 bp):
TGCACACTTAGTGCCGATACGGTCGTTCAGAAACATATTATGAATTCTGTGGGTTGCACACTTAG
TACCAATACAGTCGTTCATAAACATATTATGAATTGCGTGGTTT
Found at i:866935 original size:13 final size:13
Alignment explanation
Indices: 866917--866941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
866907 ATATATACCT
866917 CCAGAAGTACCCC
1 CCAGAAGTACCCC
866930 CCAGAAGTACCC
1 CCAGAAGTACCC
866942 GTTGATGTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.44, G:0.16, T:0.08
Consensus pattern (13 bp):
CCAGAAGTACCCC
Found at i:871416 original size:32 final size:32
Alignment explanation
Indices: 871380--871446 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
871370 CACCTCTTCA
871380 CTTGTTTTTATTTTCTCTATATTATTCTTCTT
1 CTTGTTTTTATTTTCTCTATATTATTCTTCTT
871412 CTTGTTTTTATTTTCTCTATATTATTCTTCTT
1 CTTGTTTTTATTTTCTCTATATTATTCTTCTT
871444 CTT
1 CTT
871447 TCTTCACCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.12, C:0.16, G:0.03, T:0.69
Consensus pattern (32 bp):
CTTGTTTTTATTTTCTCTATATTATTCTTCTT
Found at i:888474 original size:15 final size:15
Alignment explanation
Indices: 888456--888486 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
888446 TCCATGTACT
888456 GGTCTTCCAGGAATC
1 GGTCTTCCAGGAATC
888471 GGTCTTCCAGGAATC
1 GGTCTTCCAGGAATC
888486 G
1 G
888487 ATGAGGAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (15 bp):
GGTCTTCCAGGAATC
Found at i:889177 original size:3 final size:3
Alignment explanation
Indices: 889169--889222 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
889159 TCCGAGAATA
* * *
889169 TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
889215 TAT TAT TA
1 TAT TAT TA
889223 CAAATATTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:890543 original size:27 final size:29
Alignment explanation
Indices: 890512--890572 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
890502 GTATATATCT
* *
890512 TAATAATATATACTAG-TATTTAAAATAA
1 TAATAATATATAATAGATAATTAAAATAA
*
890540 -AAT-ATATATAATGGATAATTAAAATAA
1 TAATAATATATAATAGATAATTAAAATAA
890567 TAATAA
1 TAATAA
890573 AGACATAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.33
27 14 0.52
28 3 0.11
29 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
TAATAATATATAATAGATAATTAAAATAA
Found at i:897060 original size:24 final size:26
Alignment explanation
Indices: 897018--897075 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
897008 CATCCATCAG
*
897018 AAAAA-AAAAAGAGAGAAAA-TAACAA
1 AAAAAGAAAAAGAGAGAAAAGGAA-AA
897043 AAAAAGAAAAAG-GA-AAAAGGAAAA
1 AAAAAGAAAAAGAGAGAAAAGGAAAA
897067 AAAAAGAAA
1 AAAAAGAAA
897076 TTGAATCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 15 0.50
25 9 0.30
26 6 0.20
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (26 bp):
AAAAAGAAAAAGAGAGAAAAGGAAAA
Found at i:900179 original size:20 final size:20
Alignment explanation
Indices: 900154--900208 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
900144 TCAAGAAAAT
900154 TAAATCCTCCGGGTAATTTG
1 TAAATCCTCCGGGTAATTTG
*
900174 TAAATCCTCCGGGTCATTTG
1 TAAATCCTCCGGGTAATTTG
* *
900194 TAAAACCTCAGGGTA
1 TAAATCCTCCGGGTA
900209 GGATGTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (20 bp):
TAAATCCTCCGGGTAATTTG
Found at i:900208 original size:119 final size:119
Alignment explanation
Indices: 900049--900693 Score: 1029
Period size: 119 Copynumber: 5.4 Consensus size: 119
900039 ATTTCCCACA
**
900049 AATTTGTAAATCCTCCACGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* *
900114 AAGTGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGT
66 AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
*
900168 AATTTGTAAATCCTCCGGGTCATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* * *
900233 AAGCGATTACCAAAGTTTCTCATTTAATATTCAAGAAAATTAAATCCTCCGAGT
66 AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
*
900287 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* *
900352 AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCTGGGT
66 AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
* *
900406 AATTTGTAAATCCTTCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAGATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* * *
900471 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCTGGGT
66 AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
* * * * * *
900525 AATTTGTAAAACCTTCGGGTCATTTATAAAACTTCAGGGTATGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* *
900590 AAGCGATTACCAAAGTTTTTCATTTAATGTTCTAGAAAATTAAATCCTCCGGTT
66 AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
* * * * *
900644 GATTTATAAAACCTCTGGGTCATCTGTAAAACCTCCGGGTAGGATGTTTT
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
900694 TACTTTAATT
Statistics
Matches: 489, Mismatches: 37, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 489 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (119 bp):
AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGT
Found at i:900314 original size:20 final size:20
Alignment explanation
Indices: 900273--900327 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
900263 TCAAGAAAAT
* *
900273 TAAATCCTCCGAGTAATTTG
1 TAAATCCTCCGGGTAATCTG
*
900293 TAAATCCTCCGGGTCATCTG
1 TAAATCCTCCGGGTAATCTG
* *
900313 TAAAACCTCAGGGTA
1 TAAATCCTCCGGGTA
900328 TGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (20 bp):
TAAATCCTCCGGGTAATCTG
Found at i:900445 original size:20 final size:19
Alignment explanation
Indices: 900392--900446 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
900382 TCTAGAAAAT
*
900392 TAAAACCTCTGGGTAATTTG
1 TAAAACCTC-GGGTAATCTG
* *
900412 TAAATCCTTCGGGTCATCTG
1 TAAAACC-TCGGGTAATCTG
900432 TAAAACCTCAGGGTA
1 TAAAACCTC-GGGTA
900447 GGATGTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (19 bp):
TAAAACCTCGGGTAATCTG
Found at i:900536 original size:20 final size:20
Alignment explanation
Indices: 900511--900565 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
900501 TCTAGAAAAT
*
900511 TAAAACC-TCTGGGTAATTTG
1 TAAAACCTTC-GGGTAATTTA
*
900531 TAAAACCTTCGGGTCATTTA
1 TAAAACCTTCGGGTAATTTA
900551 TAAAA-CTTCAGGGTA
1 TAAAACCTTC-GGGTA
900566 TGATGTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 24 0.80
21 2 0.07
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
TAAAACCTTCGGGTAATTTA
Found at i:900833 original size:3 final size:3
Alignment explanation
Indices: 900825--900889 Score: 80
Period size: 3 Copynumber: 22.3 Consensus size: 3
900815 TCCGAGAATA
* * *
900825 TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TA- TAT TAC AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
900872 TAT TAT CA- TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
900890 GTAGACACGC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
2 3 0.06
3 49 0.94
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:911455 original size:22 final size:22
Alignment explanation
Indices: 911388--911494 Score: 80
Period size: 22 Copynumber: 5.0 Consensus size: 22
911378 TAAGTCTTTT
*
911388 GAGCATGATGCTTAAATCCTTC
1 GAGCATGATGATTAAATCCTTC
* * * *
911410 GGGCCATCA--A-TAAGTCTTTC
1 GAG-CATGATGATTAAATCCTTC
911430 GAGCATGATGATTAAATCCTTC
1 GAGCATGATGATTAAATCCTTC
* * * *
911452 GAGC-T-ATCAGTAAGTCTTTC
1 GAGCATGATGATTAAATCCTTC
*
911472 GAGCAAGATGATTAAATCCTTC
1 GAGCATGATGATTAAATCCTTC
911494 G
1 G
911495 GGTAATTTGT
Statistics
Matches: 61, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
19 4 0.07
20 25 0.41
21 2 0.03
22 26 0.43
23 4 0.07
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (22 bp):
GAGCATGATGATTAAATCCTTC
Found at i:911474 original size:20 final size:22
Alignment explanation
Indices: 911331--911476 Score: 67
Period size: 20 Copynumber: 6.9 Consensus size: 22
911321 CCTTCGGGCC
911331 ATCAATAAGTCTTTCGAGCATG
1 ATCAATAAGTCTTTCGAGCATG
* * * *
911353 ATGC-TTAAATCCTTT-GGGC--C
1 AT-CAATAAGT-CTTTCGAGCATG
*
911373 ATCAATAAGTCTTTTGAGCATG
1 ATCAATAAGTCTTTCGAGCATG
* * * * *
911395 ATGC-TTAAATCCTTCGGGC--C
1 AT-CAATAAGTCTTTCGAGCATG
911415 ATCAATAAGTCTTTCGAGCATG
1 ATCAATAAGTCTTTCGAGCATG
* * * *
911437 ATGATTAAATCCTTCGAGC-T-
1 ATCAATAAGTCTTTCGAGCATG
*
911457 ATCAGTAAGTCTTTCGAGCA
1 ATCAATAAGTCTTTCGAGCA
911477 AGATGATTAA
Statistics
Matches: 86, Mismatches: 27, Indels: 23
0.63 0.20 0.17
Matches are distributed among these distances:
19 6 0.07
20 37 0.43
21 1 0.01
22 36 0.42
23 6 0.07
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (22 bp):
ATCAATAAGTCTTTCGAGCATG
Found at i:911507 original size:42 final size:42
Alignment explanation
Indices: 911320--911496 Score: 282
Period size: 42 Copynumber: 4.2 Consensus size: 42
911310 ACTTAGTAAG
*
911320 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
* * *
911362 TCCTTTGGGCCATCAATAAGTCTTTTGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
911404 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
* * * *
911446 TCCTTCGAGCTATCAGTAAGTCTTTCGAGCAAGATGATTAAA
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
911488 TCCTTCGGG
1 TCCTTCGGG
911497 TAATTTGTAA
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 125 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (42 bp):
TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
Found at i:911610 original size:42 final size:42
Alignment explanation
Indices: 911547--911646 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
911537 ATCAGTAAGT
* * *
911547 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCTTTCGG
1 GCCATCAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGG
* *
911589 GCCATCAGTAAGCCTTCCGAGCATGGTGATTAAGTCCTTCGG
1 GCCATCAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGG
*
911631 GCCATC-TTAAGCCTTC
1 GCCATCAGTAAGCCTTC
911647 ACAAAAGAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 9 0.17
42 43 0.83
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (42 bp):
GCCATCAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGG
Found at i:911840 original size:53 final size:53
Alignment explanation
Indices: 911681--911846 Score: 253
Period size: 53 Copynumber: 3.1 Consensus size: 53
911671 ACACCAAAAT
* *
911681 ATTGTTCGAGTTCTACTCCCTAAAGCAAGAGGGAGCGAACCCGTAGGCAGAAG
1 ATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAGAAG
* * *
911734 ATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCATAGACAGAAG
1 ATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAGAAG
* *
911787 ACTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTTAGTC-GAAG
1 ATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGACAGAAG
911840 ATTGTTC
1 ATTGTTC
911847 AAAGAAGAGA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
53 97 0.96
54 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (53 bp):
ATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGACAGAAG
Found at i:915528 original size:33 final size:33
Alignment explanation
Indices: 915458--915528 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
915448 TGACCGGCGG
* *** *
915458 TGGTCATCGGTGCCGGAGTTTGGTTTTTAGCGG
1 TGGTCATCGGTGCCGGAGTTCGGTCCCTAGCGA
915491 TGGTCATCGGTGCCGGAGTTCGGTGCCCT-GCGA
1 TGGTCATCGGTGCCGGAGTTCGGT-CCCTAGCGA
915524 TGGTC
1 TGGTC
915529 GAATTTCTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.08, C:0.21, G:0.39, T:0.31
Consensus pattern (33 bp):
TGGTCATCGGTGCCGGAGTTCGGTCCCTAGCGA
Found at i:916827 original size:18 final size:18
Alignment explanation
Indices: 916804--916839 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
916794 ATAGTGATGA
916804 TACTGTTTGAACAGTAAT
1 TACTGTTTGAACAGTAAT
916822 TACTGTTTGAACAGTAAT
1 TACTGTTTGAACAGTAAT
916840 GAACAGTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
TACTGTTTGAACAGTAAT
Found at i:916925 original size:43 final size:43
Alignment explanation
Indices: 916877--916963 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
916867 CGAATGTAAA
* *
916877 TAGTGTATCGATGTACTACTACAGTGCATCGATGCAGTCACTG
1 TAGTGTACCGATGCACTACTACAGTGCATCGATGCAGTCACTG
* * *
916920 TAGTGTACCGATGCATTGCTACAGTGCATCGATGCAGTTACTG
1 TAGTGTACCGATGCACTACTACAGTGCATCGATGCAGTCACTG
916963 T
1 T
916964 TCACACAGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (43 bp):
TAGTGTACCGATGCACTACTACAGTGCATCGATGCAGTCACTG
Found at i:916952 original size:21 final size:22
Alignment explanation
Indices: 916894--916957 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
916884 TCGATGTACT
916894 ACTACAGTGCATCGATGCAGTC
1 ACTACAGTGCATCGATGCAGTC
** * * *
916916 ACTGTAGTGTACCGATGCA-TT
1 ACTACAGTGCATCGATGCAGTC
*
916937 GCTACAGTGCATCGATGCAGT
1 ACTACAGTGCATCGATGCAGT
916958 TACTGTTCAC
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (22 bp):
ACTACAGTGCATCGATGCAGTC
Found at i:917097 original size:21 final size:21
Alignment explanation
Indices: 917068--917107 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
917058 TTTGAGTAGA
917068 AAAATCATCTCCAAACGGCTTC
1 AAAATCATC-CCAAACGGCTTC
*
917090 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
917108 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTTC
Found at i:920433 original size:21 final size:21
Alignment explanation
Indices: 920404--920443 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
920394 TTTGAGTAGA
920404 AAAATCATCTCCAAACGGCTCC
1 AAAATCATC-CCAAACGGCTCC
*
920426 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
920444 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:920697 original size:34 final size:32
Alignment explanation
Indices: 920658--920727 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
920648 TTTTGTAAAG
* * *
920658 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAAGTTCTAGCTTAGCCCG-G-AAAAACTA
*
920692 GGGAAAAGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAAGTTCTAGCTTAGCCCGGAAAAACTA
920724 GGGA
1 GGGA
920728 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (32 bp):
GGGAAAAGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:924633 original size:16 final size:15
Alignment explanation
Indices: 924601--924648 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
924591 ACGAGAGATT
924601 AGAGAAGTAGAGAGA
1 AGAGAAGTAGAGAGA
*
924616 AGAGAACGTAG-GAGG
1 AGAGAA-GTAGAGAGA
924631 A-AGAAGTAGAGA-A
1 AGAGAAGTAGAGAGA
924644 AGAGA
1 AGAGA
924649 TGAAGAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 5 0.18
14 9 0.32
15 10 0.36
16 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.40, T:0.06
Consensus pattern (15 bp):
AGAGAAGTAGAGAGA
Found at i:939274 original size:17 final size:17
Alignment explanation
Indices: 939252--939303 Score: 95
Period size: 17 Copynumber: 3.1 Consensus size: 17
939242 AATATGTCTG
939252 TCTGATGCGAGTATGTA
1 TCTGATGCGAGTATGTA
939269 TCTGATGCGAGTATGTA
1 TCTGATGCGAGTATGTA
*
939286 TCTGATGCGGGTATGTA
1 TCTGATGCGAGTATGTA
939303 T
1 T
939304 ATTTTTTACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.37
Consensus pattern (17 bp):
TCTGATGCGAGTATGTA
Found at i:953310 original size:63 final size:63
Alignment explanation
Indices: 953221--953339 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 63
953211 AATAAAGAAA
* * * * * *
953221 ACATCGAATGCAATTAGTGTATCGATACACAGTTAGTGTATCGATACTCCCCTTAAAATGAAT
1 ACATCGAATGAAATTAGGGTACCGATACACAGGTAGTGTATCGATACACCCATTAAAATGAAT
*
953284 ACATCGAATGTAAATT-GGGTACCGATACACAGGTGGTGTATCGATACACCCATTAA
1 ACATCGAATG-AAATTAGGGTACCGATACACAGGTAGTGTATCGATACACCCATTAA
953340 GGAATGTATC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
63 44 0.92
64 4 0.08
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (63 bp):
ACATCGAATGAAATTAGGGTACCGATACACAGGTAGTGTATCGATACACCCATTAAAATGAAT
Found at i:953940 original size:18 final size:18
Alignment explanation
Indices: 953917--953969 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
953907 AGGGATTATC
*
953917 AGTGGTCCTTCGAGACAT
1 AGTGGTCATTCGAGACAT
953935 AGTGGTCATTCGAGACAT
1 AGTGGTCATTCGAGACAT
953953 AGTGGTCATTCGAGACA
1 AGTGGTCATTCGAGACA
953970 AATATTCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGAGACAT
Found at i:955426 original size:14 final size:14
Alignment explanation
Indices: 955407--955435 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
955397 ATTTTTTTAA
955407 ATTTTTTTAAAAAT
1 ATTTTTTTAAAAAT
955421 ATTTTTTTAAAAAT
1 ATTTTTTTAAAAAT
955435 A
1 A
955436 AAAATATGAC
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTTAAAAAT
Found at i:956566 original size:20 final size:21
Alignment explanation
Indices: 956529--956569 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
956519 TGAAGAGATT
*
956529 TCATCCCCAAACGGCTAAAAA
1 TCATCCCCAAACGCCTAAAAA
956550 TCATCCCC-AACGCCTAAAAA
1 TCATCCCCAAACGCCTAAAAA
956570 CGGCCACAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.41, C:0.37, G:0.07, T:0.15
Consensus pattern (21 bp):
TCATCCCCAAACGCCTAAAAA
Found at i:958854 original size:16 final size:17
Alignment explanation
Indices: 958823--958855 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
958813 GAAAAAACAT
*
958823 AAAAGTTTAAATACTAA
1 AAAAGATTAAATACTAA
958840 AAAAGATTAAA-ACTAA
1 AAAAGATTAAATACTAA
958856 TAGTTTAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAAGATTAAATACTAA
Found at i:958913 original size:10 final size:10
Alignment explanation
Indices: 958900--958932 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
958890 TATATATATA
958900 TATGTGTGTG
1 TATGTGTGTG
958910 TATGTGTGTG
1 TATGTGTGTG
*
958920 TATGTGTGCG
1 TATGTGTGTG
958930 TAT
1 TAT
958933 AGTTTTAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.12, C:0.03, G:0.36, T:0.48
Consensus pattern (10 bp):
TATGTGTGTG
Found at i:960758 original size:35 final size:33
Alignment explanation
Indices: 960719--960803 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
960709 GTATTTCAGT
*
960719 TAATTTTGTT-TATTACGATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
960754 TAATTTAGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
960789 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
960804 TAAAATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 2 0.05
38 12 0.29
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:968735 original size:33 final size:32
Alignment explanation
Indices: 968674--968751 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 32
968664 GTCTGCATGT
968674 GCCATGCACATCCCCAACACCCAACACAGGTC
1 GCCATGCACATCCCCAACACCCAACACAGGTC
* *
968706 GCCATGCACGTCTCCAACACCCCAACACAGGTC
1 GCCATGCACATCCCCAACA-CCCAACACAGGTC
968739 GCCATGCAC-TCCC
1 GCCATGCACATCCC
968752 AGCGACCTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
32 20 0.48
33 22 0.52
ACGTcount: A:0.27, C:0.47, G:0.14, T:0.12
Consensus pattern (32 bp):
GCCATGCACATCCCCAACACCCAACACAGGTC
Found at i:968821 original size:26 final size:26
Alignment explanation
Indices: 968792--968841 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
968782 ACGACCAAGC
968792 TGGCGACCAAACTTAACCCTGCTCGT
1 TGGCGACCAAACTTAACCCTGCTCGT
968818 TGGCGACCAAACTTAACCCTGCTC
1 TGGCGACCAAACTTAACCCTGCTC
968842 CCTCGTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (26 bp):
TGGCGACCAAACTTAACCCTGCTCGT
Found at i:968886 original size:23 final size:23
Alignment explanation
Indices: 968856--968899 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
968846 GTGCATGCGT
968856 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
968879 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
968900 GTAGCCAAGC
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:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:969372 original size:28 final size:27
Alignment explanation
Indices: 969331--969389 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 27
969321 AATTTAGTTA
969331 ATTAGTTTTCTAGTTTAAGTTATATTAT
1 ATTAGTTTTCTAGTTTAAGTTATA-TAT
969359 ATTAGTTTGT-TAGTTTAAGTTATATAT
1 ATTAGTTT-TCTAGTTTAAGTTATATAT
969386 ATTA
1 ATTA
969390 TATTATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 7 0.23
28 22 0.73
29 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (27 bp):
ATTAGTTTTCTAGTTTAAGTTATATAT
Found at i:969890 original size:15 final size:16
Alignment explanation
Indices: 969864--969922 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
969854 AGATAATTTA
969864 TGTTTAAAAAATATTG
1 TGTTTAAAAAATATTG
*
969880 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAA-A--TATTG
* *
969899 TTGTTTTAAAAATATTT
1 -TGTTTAAAAAATATTG
969916 TGTTTAA
1 TGTTTAA
969923 TTTATATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 16 0.47
17 4 0.12
19 5 0.15
20 9 0.26
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (16 bp):
TGTTTAAAAAATATTG
Found at i:969899 original size:17 final size:16
Alignment explanation
Indices: 969858--969900 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
969848 TGTACGAGAT
969858 AATTTA-TGTTTAAAA
1 AATTTAGTGTTTAAAA
969873 AATATT-GTGTTTAAAA
1 AAT-TTAGTGTTTAAAA
969889 ATATTTAGTGTT
1 A-ATTTAGTGTT
969901 GTTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.12
16 14 0.58
17 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (16 bp):
AATTTAGTGTTTAAAA
Found at i:969926 original size:20 final size:21
Alignment explanation
Indices: 969882--969926 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
969872 AAATATTGTG
**
969882 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
969903 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
969923 TTTA
1 TTTA
969927 TATTATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:973067 original size:10 final size:10
Alignment explanation
Indices: 973049--973080 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
973039 AGTAATGATA
973049 TATGTATTTC
1 TATGTATTTC
*
973059 TATGAATTTC
1 TATGTATTTC
973069 TATGTATTTC
1 TATGTATTTC
973079 TA
1 TA
973081 AGATTTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (10 bp):
TATGTATTTC
Found at i:973141 original size:48 final size:49
Alignment explanation
Indices: 973089--973300 Score: 257
Period size: 48 Copynumber: 4.1 Consensus size: 49
973079 TAAGATTTAG
973089 TAATGATAAGTAATAATGAAATTATTATTAATA-TTAATGATTTGATAT
1 TAATGATAAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
* *
973137 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTTGATAT
1 TAATGATAAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
* *
973186 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAG
1 T-A--A--T-G--AT-A--AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
* *
973246 TAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATAAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
973294 TAATGAT
1 TAATGAT
973301 TTAATAATAA
Statistics
Matches: 142, Mismatches: 10, Indels: 24
0.81 0.06 0.14
Matches are distributed among these distances:
48 67 0.47
49 24 0.17
50 1 0.01
52 3 0.02
54 2 0.01
55 2 0.01
57 3 0.02
59 1 0.01
60 39 0.27
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (49 bp):
TAATGATAAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
Found at i:973175 original size:35 final size:35
Alignment explanation
Indices: 973136--973239 Score: 86
Period size: 35 Copynumber: 3.3 Consensus size: 35
973126 TGATTTGATA
973136 TTAATGATTAGTAATAATGAAATTATTATTAATAT
1 TTAATGATTAGTAATAATGAAATTATTATTAATAT
* *
973171 TTAATG--T--T--T--TGATATTAATGATT--TA-
1 TTAATGATTAGTAATAATGAAATT-ATTATTAATAT
* *
973196 GTAATGATTAGTAATAATGAAATTATTATTAATTT
1 TTAATGATTAGTAATAATGAAATTATTATTAATAT
973231 TTAATGATT
1 TTAATGATT
973240 TGATAGTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 24
0.62 0.09 0.30
Matches are distributed among these distances:
25 5 0.10
26 2 0.04
27 7 0.14
28 5 0.10
29 2 0.04
31 2 0.04
32 5 0.10
33 7 0.14
34 1 0.02
35 14 0.28
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (35 bp):
TTAATGATTAGTAATAATGAAATTATTATTAATAT
Found at i:973209 original size:60 final size:59
Alignment explanation
Indices: 973119--973308 Score: 222
Period size: 60 Copynumber: 3.3 Consensus size: 59
973109 ATTATTATTA
*
973119 ATATTAATGATTTGATATTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTTG
1 ATATTAATGA-TT--TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG-TTTG
*
973182 ATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAA----TG
1 ATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTG
*
973237 --ATT--TGA--TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTG
1 ATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG-TTTG
*
973290 ATATTAATGATTTAATAAT
1 ATATTAATGATTTAGTAAT
973309 AATTTGATAG
Statistics
Matches: 111, Mismatches: 5, Indels: 26
0.78 0.04 0.18
Matches are distributed among these distances:
48 18 0.16
49 20 0.18
51 3 0.03
53 5 0.05
55 5 0.05
57 3 0.03
59 6 0.05
60 39 0.35
62 2 0.02
63 10 0.09
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (59 bp):
ATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTG
Found at i:973283 original size:21 final size:22
Alignment explanation
Indices: 973259--973328 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 22
973249 TGATTAGTAA
973259 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
973280 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
*
973303 AATAATAATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
973327 TA
1 TA
973329 CGACTTGAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 15 0.37
22 4 0.10
23 2 0.05
24 2 0.05
25 18 0.44
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:973296 original size:14 final size:14
Alignment explanation
Indices: 973279--973327 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
973269 TTATTAATAT
973279 TTAATGATTTGATA
1 TTAATGATTTGATA
973293 TTAATGATTT-A-A
1 TTAATGATTTGATA
*
973305 -TAATAATTTGATA
1 TTAATGATTTGATA
*
973318 GTAATGATTT
1 TTAATGATTT
973328 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:973301 original size:48 final size:48
Alignment explanation
Indices: 973194--973313 Score: 190
Period size: 48 Copynumber: 2.5 Consensus size: 48
973184 ATTAATGATT
* *
973194 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
973243 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
*
973291 TATTAATGATT--TAATAATAATTT
1 TAGTAATGATTAGTAATAATAATTT
973314 GATAGTAATG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
46 12 0.18
48 36 0.53
49 20 0.29
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
Found at i:973430 original size:13 final size:12
Alignment explanation
Indices: 973394--973561 Score: 72
Period size: 11 Copynumber: 14.1 Consensus size: 12
973384 TAGTAATGAA
973394 ATTATAATAATG
1 ATTATAATAATG
*
973406 ATT-TAGTAATG
1 ATTATAATAATG
973417 ATTAGTAATAATG
1 ATTA-TAATAATG
*
973430 AAATTATTATTAAT-
1 --ATTA-TAATAATG
973444 ATT-TAATAAT-
1 ATTATAATAATG
*
973454 -TTGATATTAATG
1 ATT-ATAATAATG
*
973466 ATT-TAGTAATG
1 ATTATAATAATG
973477 ATTAATAATAATG
1 ATT-ATAATAATG
*
973490 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
973504 ATT-TAATGAT-
1 ATTATAATAATG
*
973514 -TTGATAGTAATG
1 ATT-ATAATAATG
*
973526 ATT-TAGTAATG
1 ATTATAATAATG
*
973537 ATT-TAGTAATG
1 ATTATAATAATG
973548 ATTAGTAATAATG
1 ATTA-TAATAATG
973561 A
1 A
973562 AATTATTATT
Statistics
Matches: 123, Mismatches: 14, Indels: 37
0.71 0.08 0.21
Matches are distributed among these distances:
9 4 0.03
10 11 0.09
11 53 0.43
12 9 0.07
13 26 0.21
14 1 0.01
15 19 0.15
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:973494 original size:60 final size:60
Alignment explanation
Indices: 973401--973718 Score: 390
Period size: 60 Copynumber: 5.3 Consensus size: 60
973391 GAAATTATAA
973401 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATAT
*
973461 TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAAT-A----AT--T--TG
*
973526 ATTTAG
57 A--TAT
*
973532 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATAT
*
973592 TAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAAT-TTT--TAA--TG--AT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATAT
* * *
973645 T--TGA--TAGTAATAATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATAT
973700 TAATGATTTAGTAATGATT
1 TAATGATTTAGTAATGATT
973719 TGATAGTAAT
Statistics
Matches: 225, Mismatches: 11, Indels: 45
0.80 0.04 0.16
Matches are distributed among these distances:
48 13 0.06
49 22 0.10
51 5 0.02
53 5 0.02
55 5 0.02
57 5 0.02
59 13 0.06
60 93 0.41
61 1 0.00
62 3 0.01
64 1 0.00
65 2 0.01
66 2 0.01
67 1 0.00
69 3 0.01
71 51 0.23
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (60 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATAT
Found at i:973536 original size:25 final size:24
Alignment explanation
Indices: 973507--973610 Score: 76
Period size: 22 Copynumber: 4.3 Consensus size: 24
973497 TATTAATATT
973507 TAATGATTTGATAGTAATGATTTAG
1 TAATGATTT-ATAGTAATGATTTAG
*
973532 TAATGA-TT-TAGTAATGATTAGTAA
1 TAATGATTTATAGTAATGATT--TAG
* *
973556 TAATGAAATTATTATTAAT-A-TT--
1 TAATG-ATTTA-TAGTAATGATTTAG
*
973578 TAATGATTTGATATTAATGATTTAG
1 TAATGATTT-ATAGTAATGATTTAG
973603 TAATGATT
1 TAATGATT
973611 AGTAATAATA
Statistics
Matches: 65, Mismatches: 3, Indels: 22
0.72 0.03 0.24
Matches are distributed among these distances:
21 10 0.15
22 18 0.28
23 2 0.03
24 10 0.15
25 15 0.23
26 3 0.05
27 1 0.02
28 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
TAATGATTTATAGTAATGATTTAG
Found at i:973536 original size:71 final size:71
Alignment explanation
Indices: 973461--973734 Score: 290
Period size: 71 Copynumber: 4.0 Consensus size: 71
973451 AATTTGATAT
973461 TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
973526 ATTTAG
66 ATTTAG
* *
973532 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATG
1 TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
973597 ATTTAG
66 ATTTAG
*
973603 TAATGA--T--T-A-G--TAATAAT-A--AAATTATTATTAATTTTTAATGATTTGATAGTAAT-
1 TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
*
973656 AATTAG
66 ATTTAG
* * * * * * *
973662 TAAT-AATAATTTATTATTAATATTTAATG-ATTTGA-TATTAATGATTTAGTAATGATTTGATA
1 TAATGATTTAGTAATGATTAATA-ATAATGAAATT-ATTATTAAT-A-TT--TAATGATTTGATA
973724 GTAATGATTTA
60 GTAATGATTTA
973735 AGACTTGAAC
Statistics
Matches: 173, Mismatches: 12, Indels: 33
0.79 0.06 0.15
Matches are distributed among these distances:
58 1 0.01
59 9 0.05
60 33 0.19
62 2 0.01
63 7 0.04
65 1 0.01
66 6 0.03
67 2 0.01
68 1 0.01
69 11 0.06
70 1 0.01
71 77 0.45
73 18 0.10
74 4 0.02
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (71 bp):
TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
ATTTAG
Found at i:973665 original size:275 final size:274
Alignment explanation
Indices: 973136--974020 Score: 736
Period size: 275 Copynumber: 3.2 Consensus size: 274
973126 TGATTTGATA
**
973136 TTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTTGATATTAATGATTTAGTAAT
1 TTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATATTAATGATTTAGTAAT
* * * *
973201 GATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAAT-AATA
66 GATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTT
* * * * * * * *
973264 ATTTATTATTAATATTTAATG-ATTTGA-TATTAATGATTTAATAATAATTTGATAGTAATGATT
131 AGTAATGATTAGTA-ATAATGAAATT-ATTATTAAT-A-TT--TAATGATTTGATATTAATGATT
* * * **** *
973327 TACG--A--CTT-G-AACAATGAACAATGT-TTGGTTCAATTAACCAT-ATTT--TCGTTACATA
190 TA-GTAATGATTAGTAATAAT-AA-AAT-TATT-ATT-AATTTTTAATGATTTGATAG-TA-ATA
* *
973382 ACTAGTAATGA-AA-TTA-TAATAATGATT
247 ATTAGTAATAATAATTTATTAATAAT-A-T
973409 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATATTAATGATTTAGTA
1 T--TAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATATTAATGATTTAGTA
973474 ATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGAT
64 ATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGAT
973539 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGT
129 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGT
973604 AATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAAT
194 AATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAAT
*
973669 AATTTATTATTAATAT
259 AATTTATTAATAATAT
* * * * * * *
973685 TTAATGATTTGATATTAATG--A-T-TTAGTAATGATTTGATAGTAATGAT-TTAA-GACTT-G-
1 TTAATGATTAG-TAATAATGAAATTATTATTAAT-ATTTAATAAT-TTGATATTAATGATTTAGT
** * * ** * *** * *
973742 AACAATGAACAATGTTTG--GTTCAATTAACCATATTT-TTG-TTACATAACTAGTAATGAAATT
63 AATGATTAATAAT-AATGAAATT--ATTATTAATATTTAATGATT---TGA-TAGTAATG--ATT
* *
973803 ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATGATTTGATATT
119 -TAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATT
* * *
973868 AATGATTTAGTAATGATTAGTAATAATGAAGTTATTATTAATTTTTAATGATTTGATAGTAATTA
183 AATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAA
*
973933 TTAGTAATAATAATTTATTATTAATAT
248 TTAGTAATAATAATTTATTAATAATAT
* * * * *
973960 TTAATGATTTGATATTAATGATTAATAATGATTAATA-ATAATAATTT-ATTATTAAT-ATTTA
1 TTAATGATTAG-TAATAATGA--AATTATTATTAATATTTAATAATTTGA-TATTAATGATTTA
974021 ATGATTTAAT
Statistics
Matches: 513, Mismatches: 57, Indels: 77
0.79 0.09 0.12
Matches are distributed among these distances:
268 4 0.01
269 11 0.02
270 13 0.03
271 13 0.03
272 22 0.04
273 28 0.05
274 19 0.04
275 310 0.60
276 28 0.05
277 32 0.06
278 13 0.03
279 13 0.03
280 1 0.00
281 6 0.01
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (274 bp):
TTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATATTAATGATTTAGTAAT
GATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTT
AGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAA
TGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAATAA
TTTATTAATAATAT
Found at i:973702 original size:14 final size:14
Alignment explanation
Indices: 973686--973733 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
973676 TATTAATATT
*
973686 TAATGATTTGATAT
1 TAATGATTTGATAG
973700 TAATGA-TT--TAG
1 TAATGATTTGATAG
973711 TAATGATTTGATAG
1 TAATGATTTGATAG
973725 TAATGATTT
1 TAATGATTT
973734 AAGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:973711 original size:49 final size:49
Alignment explanation
Indices: 973600--973714 Score: 178
Period size: 48 Copynumber: 2.3 Consensus size: 49
973590 ATTAATGATT
*
973600 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGA
* *
973649 TAGTAATAATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGA
*
973697 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
973715 GATTTGATAG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 33 0.55
49 27 0.45
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGA
Found at i:973715 original size:25 final size:25
Alignment explanation
Indices: 973686--973734 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
973676 TATTAATATT
*
973686 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
973711 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
973735 AGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:973867 original size:21 final size:21
Alignment explanation
Indices: 973843--973992 Score: 69
Period size: 21 Copynumber: 6.9 Consensus size: 21
973833 ATGAAATTAT
973843 TATTAATATTTAATGATTTGA
1 TATTAATATTTAATGATTTGA
* *
973864 TATTAATGATTTAGT-A-ATGA
1 TATTAAT-ATTTAATGATTTGA
* * *
973884 TTAGTAATAATGAA-G-TTAT--
1 -TATTAATATTTAATGATT-TGA
*
973903 TATTAATTTTTAATGATTTGA
1 TATTAATATTTAATGATTTGA
* * *
973924 TAGTAATTATTAGTAATAATAATTTA
1 TATTAA-TATT--TAATGAT--TTGA
973950 TTATTAATATTTAATGATTTGA
1 -TATTAATATTTAATGATTTGA
973972 TATTAATGATTAATAATGATT
1 TATTAAT-ATT--TAATGATT
973993 AATAATAATA
Statistics
Matches: 93, Mismatches: 18, Indels: 33
0.65 0.12 0.23
Matches are distributed among these distances:
18 9 0.10
19 2 0.02
20 8 0.09
21 27 0.29
22 15 0.16
24 20 0.22
26 7 0.08
27 5 0.05
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (21 bp):
TATTAATATTTAATGATTTGA
Found at i:973894 original size:406 final size:405
Alignment explanation
Indices: 973137--973940 Score: 1482
Period size: 406 Copynumber: 2.0 Consensus size: 405
973127 GATTTGATAT
*
973137 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTTGATATTAATGATTTAGTAATG
1 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
* *
973202 ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATT
66 ATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAATAATT
*
973267 TATTATTAATATTTAATGATTTGATATTAATGATTTAATAATAATTTGATAGTAATGATTTACGA
131 TATTATTAATATTTAATGATTTGATATTAATGATTTAATAATAATTTGATAGTAATGATTTAAGA
973332 CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
196 CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
*
973397 ATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATATT
261 ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATAATTTGATATT
973462 AATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
326 AATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
973527 TTTAGTAATGATTTAG
391 -TTAGTAATGATTTAG
973543 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
1 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
973608 ATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAATAATT
66 ATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAATAATT
* *
973673 TATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTAAGA
131 TATTATTAATATTTAATGATTTGATATTAATGATTTAATAATAATTTGATAGTAATGATTTAAGA
*
973738 CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTTGTTACATAACTAGTAATGAAATT
196 CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
*
973803 ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATGATTTGATATT
261 ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATAATTTGATATT
* * * *
973868 AATGATTTAGTAATGATTAGTAATAATGAAGTTATTATTAATTTTTAATGATTTGATAGTAATTA
326 AATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
973933 TTAGTAAT
391 TTAGTAAT
973941 AATAATTTAT
Statistics
Matches: 385, Mismatches: 13, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
405 8 0.02
406 377 0.98
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (405 bp):
TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
ATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAATAATT
TATTATTAATATTTAATGATTTGATATTAATGATTTAATAATAATTTGATAGTAATGATTTAAGA
CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATAATTTGATATT
AATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
TTAGTAATGATTTAG
Found at i:973966 original size:48 final size:48
Alignment explanation
Indices: 973875--974047 Score: 184
Period size: 58 Copynumber: 3.4 Consensus size: 48
973865 ATTAATGATT
* *
973875 TAGTAATGATTAGTAATAATGAAGTTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
*
973924 TAGTAATTATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTG--A
* *
973974 TTAATGATTAATAATGATTAATAATAATAATTTATTATTAATATTTAATGATTTAA
1 -T-A-G-----TAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
*
974030 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
974048 GATTTGATAG
Statistics
Matches: 105, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
48 31 0.30
49 26 0.25
50 1 0.01
51 1 0.01
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 1 0.01
58 41 0.39
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
Found at i:973977 original size:14 final size:13
Alignment explanation
Indices: 973960--974067 Score: 58
Period size: 14 Copynumber: 8.8 Consensus size: 13
973950 TTATTAATAT
973960 TTAATGATTTGATA
1 TTAATGATTT-ATA
973974 TTAATGA-TTA-A
1 TTAATGATTTATA
*
973985 -TAATGATTAATA
1 TTAATGATTTATA
* *
973997 ATAATAATTTATTA
1 TTAATGATTTA-TA
974011 TT-A--A--TAT-
1 TTAATGATTTATA
974018 TTAATGATTTAATA
1 TTAATGATTT-ATA
974032 TTAATGA-TT-TA
1 TTAATGATTTATA
*
974043 GTAATGATTTGATA
1 TTAATGATTT-ATA
*
974057 GTAATGATTTA
1 TTAATGATTTA
974068 CGACTTGAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 29
0.69 0.05 0.27
Matches are distributed among these distances:
7 2 0.03
8 2 0.03
9 2 0.03
10 7 0.09
11 12 0.16
12 5 0.07
13 16 0.21
14 29 0.39
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (13 bp):
TTAATGATTTATA
Found at i:974015 original size:58 final size:59
Alignment explanation
Indices: 973912--974051 Score: 210
Period size: 58 Copynumber: 2.3 Consensus size: 59
973902 TTATTAATTT
* * *
973912 TTAATGATTTGATAGTAATTATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATA
1 TTAATGATTT-A-A-TAATGATTAATAATAATAATTTATTATTAATATTTAATGATTTAATA
973974 TTAATGA-TTAATAATGATTAATAATAATAATTTATTATTAATATTTAATGATTTAATA
1 TTAATGATTTAATAATGATTAATAATAATAATTTATTATTAATATTTAATGATTTAATA
*
974032 TTAATGATTTAGTAATGATT
1 TTAATGATTTAATAATGATT
974052 TGATAGTAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
58 51 0.70
59 12 0.16
60 1 0.01
61 2 0.03
62 7 0.10
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (59 bp):
TTAATGATTTAATAATGATTAATAATAATAATTTATTATTAATATTTAATGATTTAATA
Found at i:974048 original size:25 final size:25
Alignment explanation
Indices: 974019--974067 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
974009 TATTAATATT
*
974019 TAATGATTTAATATTAATGATTTAG
1 TAATGATTTAATAGTAATGATTTAG
*
974044 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTAATAGTAATGATTTA
974068 CGACTTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (25 bp):
TAATGATTTAATAGTAATGATTTAG
Found at i:974050 original size:406 final size:406
Alignment explanation
Indices: 973137--974061 Score: 1369
Period size: 406 Copynumber: 2.3 Consensus size: 406
973127 GATTTGATAT
* * * * * *
973137 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTTGATATTAATGATTTAGTAATG
1 TAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTAATAATAATAATTTAGTAATA
* * * *
973202 ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATT
66 ATTAGTAATAATAAAATTATTAATAATTTGTAATGATTTGATAGTAATAATTAGTAATAATAATT
*
973267 TATTATTAATATTTAATGATTTGATATTAATGATTTAATAATAATTTGATAGTAATGATTTACGA
131 TATTATTAATATTTAATGATTTGATATTAATGATTTAATAATAATTTGATAGTAATGATTTAAGA
973332 CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
196 CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
*
973397 ATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATATT
261 ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATAATTTGATATT
973462 AATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
326 AATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* *
973527 TTTAGTAATGATTTAG
391 TTTAGTAATGAATAAG
* * * * *
973543 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATG
1 TAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTAATAATAATAATTTAGTAATA
* *
973608 ATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAATAATT
66 ATTAGTAATAATAAAATTATTAATAATTTGTAATGATTTGATAGTAATAATTAGTAATAATAATT
* *
973673 TATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTAAGA
131 TATTATTAATATTTAATGATTTGATATTAATGATTTAATAATAATTTGATAGTAATGATTTAAGA
*
973738 CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTTGTTACATAACTAGTAATGAAATT
196 CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
*
973803 ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATGATTTGATATT
261 ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATAATTTGATATT
* * * *
973868 AATGATTTAGTAATGATTAGTAATAATGAAGTTATTATTAATTTTTAATGATTTGATAGTAATTA
326 AATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
973933 -TTAGTAAT-AATAAT
391 TTTAGTAATGAATAAG
* * * * *
973947 TTATTATTAATATTTAATG-ATTTGA-TATTAATGATTAATAATGA-TTAATAATAATAATTTAT
1 TAATGATTAATA-ATAATGAAATT-ATTATTAAT-ATT--TAATGATTTAATAATAATAATTTAG
* * * ** *
974009 TATTAA-TATTTAATGATTTAA-TATTAATGATTTAGTAATGATTTGATAGTAAT
61 TAATAATTA-GTAATAATAAAATTATTAATAATTT-GTAATGATTTGATAGTAAT
974062 GATTTACGAC
Statistics
Matches: 478, Mismatches: 34, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
404 22 0.05
405 29 0.06
406 421 0.88
407 6 0.01
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (406 bp):
TAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTAATAATAATAATTTAGTAATA
ATTAGTAATAATAAAATTATTAATAATTTGTAATGATTTGATAGTAATAATTAGTAATAATAATT
TATTATTAATATTTAATGATTTGATATTAATGATTTAATAATAATTTGATAGTAATGATTTAAGA
CTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
ATAATAATGATTTAGTAATGATTAGTAACAATGAAATTATTATTAATATTTAATAATTTGATATT
AATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
TTTAGTAATGAATAAG
Found at i:976395 original size:25 final size:28
Alignment explanation
Indices: 976357--976420 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 28
976347 AAACCCTTAA
* *
976357 ACAACTAAAATATTCTTTAT-ATA-ACT
1 ACAAATAAACTATTCTTTATAATATACT
*
976383 A-AAATAAACTATTTTTTATAATATACT
1 ACAAATAAACTATTCTTTATAATATACT
*
976410 ACTAATAAACT
1 ACAAATAAACT
976421 TACTAACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 15 0.48
26 4 0.13
27 4 0.13
28 8 0.26
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (28 bp):
ACAAATAAACTATTCTTTATAATATACT
Found at i:976816 original size:26 final size:26
Alignment explanation
Indices: 976770--976853 Score: 134
Period size: 26 Copynumber: 3.3 Consensus size: 26
976760 TCATTTCTTT
* *
976770 CTTTC-TCGGCTGCAATTTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
*
976795 CTTTCTTCTGCTGCAATCTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
976821 CTTTCTTCAGCTGCAATCTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
976847 CTTTCTT
1 CTTTCTT
976854 TCTTTTATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 5 0.09
26 50 0.91
ACGTcount: A:0.08, C:0.37, G:0.08, T:0.46
Consensus pattern (26 bp):
CTTTCTTCAGCTGCAATCTCTTCTCC
Found at i:977448 original size:29 final size:29
Alignment explanation
Indices: 977399--977481 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
977389 AACCAAGCTT
* * *
977399 GGTCACCGGGACTGCTTGGCGACCTACAA
1 GGTCACTGGGAGTGCATGGCGACCTACAA
* * ***
977428 GGTCGCTGGGTGTGCATGGCGACCTTGTA
1 GGTCACTGGGAGTGCATGGCGACCTACAA
*
977457 GGTCATTGGGAGTGCATGGCGACCT
1 GGTCACTGGGAGTGCATGGCGACCT
977482 GTGTTGGGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.16, C:0.24, G:0.37, T:0.23
Consensus pattern (29 bp):
GGTCACTGGGAGTGCATGGCGACCTACAA
Found at i:983807 original size:31 final size:31
Alignment explanation
Indices: 983772--983861 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 31
983762 TTCCTCGGAT
983772 AGGTTCAGCACCGACTGGTAATTCCTTATG-C
1 AGGTTCAGCA-CGACTGGTAATTCCTTATGAC
* * *
983803 AGGTTCA--ATGATGTTGGTAATTCCTTA-GAT
1 AGGTTCAGCACGA--CTGGTAATTCCTTATGAC
*
983833 AGGTTCAGCATCGACTGGTAATTTCTTAT
1 AGGTTCAGCA-CGACTGGTAATTCCTTAT
983862 AGACCTAAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 20 0.43
31 19 0.41
32 1 0.02
33 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (31 bp):
AGGTTCAGCACGACTGGTAATTCCTTATGAC
Found at i:983824 original size:61 final size:62
Alignment explanation
Indices: 983739--983861 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 62
983729 GAAGACTCTG
* * *
983739 GCAGGTTCAGTCGCTGTTGCTAATTCCTCGGATAGGTTCAGCACCGACTGGTAATTCCTTAT
1 GCAGGTTCAATCGATGTTGCTAATTCCTCAGATAGGTTCAGCACCGACTGGTAATTCCTTAT
* * * *
983801 GCAGGTTCAAT-GATGTTGGTAATTCCTTAGATAGGTTCAGCATCGACTGGTAATTTCTTAT
1 GCAGGTTCAATCGATGTTGCTAATTCCTCAGATAGGTTCAGCACCGACTGGTAATTCCTTAT
983862 AGACCTAAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
61 44 0.81
62 10 0.19
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (62 bp):
GCAGGTTCAATCGATGTTGCTAATTCCTCAGATAGGTTCAGCACCGACTGGTAATTCCTTAT
Found at i:983968 original size:15 final size:15
Alignment explanation
Indices: 983948--983979 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
983938 GATTTGAAAT
983948 ATTGATTTTAAAAGC
1 ATTGATTTTAAAAGC
983963 ATTGATTTTAAAAGC
1 ATTGATTTTAAAAGC
983978 AT
1 AT
983980 AGCTGTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (15 bp):
ATTGATTTTAAAAGC
Found at i:992794 original size:31 final size:31
Alignment explanation
Indices: 992759--992858 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 31
992749 AAGACTCTGC
992759 AGGTTCAGTCGTTGTTGGTAATTCCTCGGAT
1 AGGTTCAGTCGTTGTTGGTAATTCCTCGGAT
* *** * *
992790 AGGTTCA-ACACCGACTGGTAATTCCT--TAT
1 AGGTTCAGTCGTTG-TTGGTAATTCCTCGGAT
992819 GCAGGTTCAGTCGTTGTTGGTAATTCCTCGGAT
1 --AGGTTCAGTCGTTGTTGGTAATTCCTCGGAT
992852 AGGTTCA
1 AGGTTCA
992859 ACACCGATTG
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 43 0.84
32 2 0.04
33 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (31 bp):
AGGTTCAGTCGTTGTTGGTAATTCCTCGGAT
Found at i:992853 original size:62 final size:62
Alignment explanation
Indices: 992756--992880 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
992746 ATGAAGACTC
*
992756 TGCAGGTTCAGTCGTTGTTGGTAATTCCTCGGATAGGTTCAACACCGACTGGTAATTCCTTA
1 TGCAGGTTCAGTCGTTGTTGGTAATTCCTCGGATAGGTTCAACACCGACTGATAATTCCTTA
* *
992818 TGCAGGTTCAGTCGTTGTTGGTAATTCCTCGGATAGGTTCAACACCGATTGATAATTTCTTA
1 TGCAGGTTCAGTCGTTGTTGGTAATTCCTCGGATAGGTTCAACACCGACTGATAATTCCTTA
992880 T
1 T
992881 AGACCTAAGG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (62 bp):
TGCAGGTTCAGTCGTTGTTGGTAATTCCTCGGATAGGTTCAACACCGACTGATAATTCCTTA
Found at i:992874 original size:31 final size:31
Alignment explanation
Indices: 992773--992874 Score: 93
Period size: 31 Copynumber: 3.3 Consensus size: 31
992763 TCAGTCGTTG
992773 TTGGTAATTCCTCGGATAGGTTCAACACCGA
1 TTGGTAATTCCTCGGATAGGTTCAACACCGA
* * * ***
992804 CTGGTAATTCCT--TATGCAGGTTCAGTCGTTG-
1 TTGGTAATTCCTCGGAT--AGGTTCA-ACACCGA
992835 TTGGTAATTCCTCGGATAGGTTCAACACCGA
1 TTGGTAATTCCTCGGATAGGTTCAACACCGA
*
992866 TTGATAATT
1 TTGGTAATT
992875 TCTTATAGAC
Statistics
Matches: 52, Mismatches: 13, Indels: 12
0.68 0.17 0.16
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 44 0.85
32 2 0.04
33 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (31 bp):
TTGGTAATTCCTCGGATAGGTTCAACACCGA
Found at i:992951 original size:31 final size:31
Alignment explanation
Indices: 992896--992970 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
992886 TAAGGCGACC
*
992896 CTTGGGTAAGCTCTACAGCCCTGAG-ATTTT
1 CTTGGGTAAGCTCTACAGCCCTGAGAATTGT
* **
992926 CTTGGGTAAGCCTTTATGGCCCTGAGAATTGT
1 CTTGGGTAAG-CTCTACAGCCCTGAGAATTGT
*
992958 CTTGGGTAGGCTC
1 CTTGGGTAAGCTC
992971 GCAGGCCCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 10 0.27
31 14 0.38
32 13 0.35
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.33
Consensus pattern (31 bp):
CTTGGGTAAGCTCTACAGCCCTGAGAATTGT
Found at i:994780 original size:20 final size:20
Alignment explanation
Indices: 994757--994813 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
994747 AATTTAAATT
994757 TTAAAAGAAAATAAAAAAGA
1 TTAAAAGAAAATAAAAAAGA
994777 TTAAAAGAGAAA-ATAAAAAGA
1 TTAAAAGA-AAATA-AAAAAGA
994798 -TAAAA-AAGAATAAAAA
1 TTAAAAGAA-AATAAAAA
994814 TGTTTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.03
19 7 0.21
20 15 0.45
21 10 0.30
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (20 bp):
TTAAAAGAAAATAAAAAAGA
Found at i:994781 original size:10 final size:10
Alignment explanation
Indices: 994766--994813 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
994756 TTTAAAAGAA
994766 AATAAAAAAG
1 AATAAAAAAG
* *
994776 ATTAAAAGAG
1 AATAAAAAAG
*
994786 AAAATAAAAAG
1 AATA-AAAAAG
994797 -ATAAAAAAG
1 AATAAAAAAG
994806 AATAAAAA
1 AATAAAAA
994814 TGTTTTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
9 6 0.20
10 19 0.63
11 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.12
Consensus pattern (10 bp):
AATAAAAAAG
Found at i:994790 original size:22 final size:20
Alignment explanation
Indices: 994759--994807 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
994749 TTTAAATTTT
994759 AAAAGAAAATAAAAAAGATTAA
1 AAAAGAAAAT-AAAAAGA-TAA
*
994781 AAGAGAAAATAAAAAGATAA
1 AAAAGAAAATAAAAAGATAA
994801 AAAAGAA
1 AAAAGAA
994808 TAAAAATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.36
21 7 0.28
22 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (20 bp):
AAAAGAAAATAAAAAGATAA
Found at i:994827 original size:3 final size:3
Alignment explanation
Indices: 994819--994847 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
994809 AAAAATGTTT
994819 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
994848 ACATGATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:994836 original size:14 final size:14
Alignment explanation
Indices: 994819--994846 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
994809 AAAAATGTTT
994819 TAATAATAATAATA
1 TAATAATAATAATA
994833 TAATAATAATAATA
1 TAATAATAATAATA
994847 AACATGATAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:995741 original size:42 final size:42
Alignment explanation
Indices: 995694--995892 Score: 319
Period size: 42 Copynumber: 4.7 Consensus size: 42
995684 ATAAACAAGT
*
995694 AAATAAATAACATCATAACACCATTAAGTCGT-AATAAGTCTA
1 AAATAAATAACACCATAACACCATTAAGTC-TCAATAAGTCTA
* *
995736 AAATAAATAAAACCATAACACCATTAAGTCTCAATAAGCCTA
1 AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
*
995778 AAATAAATAACACCCTAACACCATTAAGTCTCAATAAGTCTA
1 AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
995820 AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
1 AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
* * *
995862 AAATAAATAACATCATAACACTAATAAGTCT
1 AAATAAATAACACCATAACACCATTAAGTCT
995893 AAGTAAAATC
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
41 1 0.01
42 145 0.99
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (42 bp):
AAATAAATAACACCATAACACCATTAAGTCTCAATAAGTCTA
Found at i:997529 original size:391 final size:391
Alignment explanation
Indices: 996080--998027 Score: 3662
Period size: 391 Copynumber: 5.0 Consensus size: 391
996070 ATTATATCCT
*
996080 CCCACTCTTTTTCAATTTGTTTACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
1 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
996145 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
66 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
996210 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
131 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
996275 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
196 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
996340 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
261 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
996405 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
326 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
996470 A
391 A
996471 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
1 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
*
996536 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTTCAGG
66 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
*
996601 GACGAGGACGACCGTCCCAACCCAATTTACTTTATTCACAAACTTTAGGATTCAAATATCTGACT
131 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
*
996666 TTACATAAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATT
196 TTAC-TTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATT
* *
996731 TTTAATTATTAATATTTGGAATTTGCAAAGTACTATAAGTATTTTATGAAAAGTATGTAACAAGA
260 TTTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGA
*
996796 AGGTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATG
325 AGTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATG
996861 CA
390 CA
* *
996863 CCCACTCTTTTTCAATTTGTTGACTTTTTTGTTTCCATTTTCAGACACCATCAATAGTAATTCAT
1 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
*
996928 C-A------AT--CCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTACAGG
66 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
996984 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
131 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
997049 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
196 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
997114 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
261 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
997179 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
326 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
997244 A
391 A
*
997245 CCCACTCCTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
1 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
*
997310 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTTCAGG
66 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
997375 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
131 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
* *
997440 TTACATAAAAAAATTAATGTTTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
196 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
*
997505 TTAATTATTAATATTTGGAATTTGCAAAGTACTATAAGTATTTTATGACAAGTATGTAACAAGAA
261 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
*
997570 GGTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
326 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
997635 A
391 A
*
997636 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAATAGTAATTCAT
1 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
997701 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
66 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
*
997766 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGAATTCAAATATCTGACT
131 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
997831 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
196 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
997896 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
261 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
997961 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
326 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
998026 A
391 A
998027 C
1 C
998028 ATAAAATGTG
Statistics
Matches: 1516, Mismatches: 31, Indels: 20
0.97 0.02 0.01
Matches are distributed among these distances:
382 251 0.17
383 120 0.08
385 2 0.00
389 2 0.00
391 889 0.59
392 252 0.17
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (391 bp):
CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
A
Found at i:998025 original size:782 final size:783
Alignment explanation
Indices: 996080--998027 Score: 3745
Period size: 774 Copynumber: 2.5 Consensus size: 783
996070 ATTATATCCT
* *
996080 CCCACTCTTTTTCAATTTGTTTACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCAT
1 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAATAGTAATTCAT
996145 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
66 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
996210 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
131 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
996275 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
196 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
996340 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
261 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
996405 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
326 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
*
996470 ACCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCA
391 ACCCACTCCTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCA
996535 TCAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTTCAG
456 TCAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTTCAG
*
996600 GGACGAGGACGACCGTCCCAACCCAATTTACTTTATTCACAAACTTTAGGATTCAAATATCTGAC
521 GGACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGAC
996665 TTTACATAAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGAT
586 TTTACATAAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGAT
996730 TTTTAATTATTAATATTTGGAATTTGCAAAGTACTATAAGTATTTTATGAAAAGTATGTAACAAG
651 TTTTAATTATTAATATTTGGAATTTGCAAAGTACTATAAGTATTTTATGAAAAGTATGTAACAAG
996795 AAGGTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAAT
716 AAGGTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAAT
996860 GCA
781 GCA
*
996863 CCCACTCTTTTTCAATTTGTTGACTTTTTTGTTTCCATTTTCAGACACCATCAATAGTAATTCAT
1 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAATAGTAATTCAT
*
996928 C-A------AT--CCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTACAGG
66 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
996984 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
131 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
997049 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
196 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
997114 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
261 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
997179 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
326 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
997244 ACCCACTCCTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCA
391 ACCCACTCCTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCA
997309 TCAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTTCAG
456 TCAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTTCAG
997374 GGACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGAC
521 GGACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGAC
*
997439 TTTACAT-AAAAAAATTAATGTTTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGAT
586 TTTACATAAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGAT
*
997503 TTTTAATTATTAATATTTGGAATTTGCAAAGTACTATAAGTATTTTATGACAAGTATGTAACAAG
651 TTTTAATTATTAATATTTGGAATTTGCAAAGTACTATAAGTATTTTATGAAAAGTATGTAACAAG
997568 AAGGTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAAT
716 AAGGTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAAT
997633 GCA
781 GCA
997636 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAATAGTAATTCAT
1 CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAATAGTAATTCAT
997701 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
66 CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
*
997766 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGAATTCAAATATCTGACT
131 GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
997831 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
196 TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
997896 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
261 TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
997961 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
326 GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
998026 AC
391 AC
998028 ATAAAATGTG
Statistics
Matches: 1145, Mismatches: 11, Indels: 19
0.97 0.01 0.02
Matches are distributed among these distances:
773 253 0.22
774 512 0.45
776 2 0.00
780 2 0.00
782 313 0.27
783 63 0.06
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (783 bp):
CCCACTCTTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAATAGTAATTCAT
CAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTGCAGG
GACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGACT
TTACTTAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGATTT
TTAATTATTAATATTTGGAATTTGCAAAGTACTAAAAGTATTTTATGACAAGTATGTAACAAGAA
GTTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAATGC
ACCCACTCCTTTTCAATTTGTTGACTTTTTTCTTTCCATTTTCAGACACCATCAACAGTAATTCA
TCAATCTCTGATGACCCTGAATTAATGGTGGATATTTGATGTATAATCCAGATCAGGTACTTCAG
GGACGAGGACGACCGTCCCAACCCAATTTACTTCATTCACAAACTTTAGGATTCAAATATCTGAC
TTTACATAAAAAAAATTAATGTCTCATCCTACTAGACTAACACATTGTTAGTATATAAATTTGAT
TTTTAATTATTAATATTTGGAATTTGCAAAGTACTATAAGTATTTTATGAAAAGTATGTAACAAG
AAGGTTTGAAGAAGGTGTGGATTTTCAACCTTCTTCAACTACATAAATTGGGCTATGGCTAAAAT
GCA
Found at i:1004564 original size:42 final size:43
Alignment explanation
Indices: 1004517--1004611 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 43
1004507 TTGTGCTTCA
*
1004517 TGCATCGATACACCTA-ACA-GTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACA-CTAGA-AGGTGCATCGATGCACGCCTTGAATG
1004559 TGCATCGATACACTATGAAGGTGCATCGATGCACGCCTTGAATG
1 TGCATCGATACACTA-GAAGGTGCATCGATGCACGCCTTGAATG
*
1004603 TGTATCGAT
1 TGCATCGAT
1004612 GCACGCCTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
41 3 0.06
42 13 0.28
43 14 0.30
44 17 0.36
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (43 bp):
TGCATCGATACACTAGAAGGTGCATCGATGCACGCCTTGAATG
Found at i:1004582 original size:21 final size:21
Alignment explanation
Indices: 1004517--1004611 Score: 70
Period size: 23 Copynumber: 4.4 Consensus size: 21
1004507 TTGTGCTTCA
*
1004517 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-GG
* *
1004537 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAGG
1004559 TGCATCGATACA-CTATGAAGG
1 TGCATCGATACACCT-TGAAGG
* *
1004580 TGCATCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAAGG
*
1004603 TGTATCGAT
1 TGCATCGAT
1004612 GCACGCCTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
20 13 0.21
21 16 0.26
22 13 0.21
23 17 0.28
24 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAGG
Found at i:1004609 original size:23 final size:23
Alignment explanation
Indices: 1004536--1004638 Score: 117
Period size: 23 Copynumber: 4.6 Consensus size: 23
1004526 ACACCTAACA
*
1004536 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACGCCTTGAAT
* *
1004558 GTGCATCGAT--AC-ACTATGAAG
1 GTGCATCGATGCACGCCT-TGAAT
1004579 GTGCATCGATGCACGCCTTGAAT
1 GTGCATCGATGCACGCCTTGAAT
*
1004602 GTGTATCGATGCACGCCTTGAAT
1 GTGCATCGATGCACGCCTTGAAT
1004625 AG-GCATCGATGCAC
1 -GTGCATCGATGCAC
1004639 AAGGCCATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.04
21 14 0.20
22 10 0.14
23 39 0.57
24 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACGCCTTGAAT
Found at i:1006576 original size:14 final size:15
Alignment explanation
Indices: 1006551--1006579 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1006541 ATTATTTTTA
1006551 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
1006566 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
1006580 AAATGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:1007308 original size:45 final size:46
Alignment explanation
Indices: 1007253--1007359 Score: 132
Period size: 46 Copynumber: 2.3 Consensus size: 46
1007243 GCACAATTAT
1007253 ATGCATCGATGCACCATGA-ATTAAATTG-AACATCGAATGCATTTA
1 ATGCATCGATGCACCATGAGATTAAA-TGAAACATCGAATGCATTTA
** *
1007298 ATGCATCGATGCA-C-TGAGGATTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACCATGA-GATTAAATG-AAACATCGAATGCATTTA
1007344 ATGCATCGATGCACCA
1 ATGCATCGATGCACCA
1007360 GCCATGCATC
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
43 3 0.06
44 3 0.06
45 17 0.32
46 29 0.55
47 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGCATCGATGCACCATGAGATTAAATGAAACATCGAATGCATTTA
Found at i:1007403 original size:64 final size:65
Alignment explanation
Indices: 1007298--1007421 Score: 189
Period size: 64 Copynumber: 1.9 Consensus size: 65
1007288 AATGCATTTA
* *
1007298 ATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAGCC
1 ATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATGCACCAGCC
* *
1007363 ATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTTGATGCATCGATGCAC
1 ATGCATCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCACTTGATGCATCGATGCAC
1007422 TAAGGGTCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
64 31 0.57
65 20 0.37
66 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATGCACCAGCC
Found at i:1008701 original size:17 final size:15
Alignment explanation
Indices: 1008679--1008720 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
1008669 AAAACGATAA
1008679 ATAATATTAATAACAAT
1 ATAATA-TAAT-ACAAT
1008696 ATAATATAATACAAT
1 ATAATATAATACAAT
*
1008711 A-AATAAAATA
1 ATAATATAATA
1008721 ATAAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 6 0.25
16 4 0.17
17 6 0.25
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATATAATACAAT
Found at i:1008743 original size:16 final size:17
Alignment explanation
Indices: 1008724--1008757 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1008714 TAAAATAATA
1008724 AATAATATATATA-TAT
1 AATAATATATATACTAT
*
1008740 AATAATATGTATACTAT
1 AATAATATATATACTAT
1008757 A
1 A
1008758 TTTATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
AATAATATATATACTAT
Found at i:1008998 original size:35 final size:35
Alignment explanation
Indices: 1008776--1009141 Score: 352
Period size: 37 Copynumber: 10.2 Consensus size: 35
1008766 AAAAACTATA
* * *
1008776 AAAACCATTTTAAAAACTATACACTATATGTTTTC
1 AAAACTATTTTAAAAACTATATATTATATGTTTTC
* * *
1008811 AAAAATATTTAAAAATATATATATATTATATGTTTTC
1 AAAACTATTTTAAAA-A-CTATATATTATATGTTTTC
*
1008848 AAAAATACGTTTTCAAAAAACTATATTATATATATG-TTTC
1 AAAACTA--TTTT--AAAAACTATA-TAT-TATATGTTTTC
* *
1008888 AAAATTATTTTAGAAAAC---ATATTATACGTTTTC
1 AAAACTATTTTA-AAAACTATATATTATATGTTTTC
*
1008921 AAAATTATTTTAAAAAC--TATA-TATATGTTTTC
1 AAAACTATTTTAAAAACTATATATTATATGTTTTC
* *
1008953 AAAACCATTTTAAAAACTATATATTATACGTTTTC
1 AAAACTATTTTAAAAACTATATATTATATGTTTTC
1008988 AAAACTATTTTTTAAAAACTATATATTATATGTTTTC
1 AAAACTA--TTTTAAAAACTATATATTATATGTTTTC
*
1009025 AAAATTATTTTAAAAACTATATATTATATGTTTTC
1 AAAACTATTTTAAAAACTATATATTATATGTTTTC
* * *
1009060 AAAAACGT-TTTAAAAAACTATATATTATACGTTTTT
1 -AAAAC-TATTTTAAAAACTATATATTATATGTTTTC
** * *
1009096 AAAAAAAGTTTCCAAAAACTATATATTATATATTTTC
1 AAAACTA-TTT-TAAAAACTATATATTATATGTTTTC
1009133 AAAAACTAT
1 -AAAACTAT
1009142 ATTTGAAATT
Statistics
Matches: 280, Mismatches: 29, Indels: 42
0.80 0.08 0.12
Matches are distributed among these distances:
32 35 0.12
33 22 0.08
34 5 0.02
35 60 0.21
36 34 0.12
37 84 0.30
38 9 0.03
39 7 0.03
40 14 0.05
41 10 0.04
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (35 bp):
AAAACTATTTTAAAAACTATATATTATATGTTTTC
Found at i:1010792 original size:43 final size:43
Alignment explanation
Indices: 1010726--1010808 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
1010716 CTTGTTTTTA
* * * *
1010726 TTTTTTCAATTTAGAGTGCCCTTCCGAGTTTTCACTCTAAACG
1 TTTTTTCAACTTAGAGAGACCTTCCGAGTTTTCACCCTAAACG
*
1010769 TTTTTTTAACTTAGAGAGACCTTCCGAGTTTTCACCCTAA
1 TTTTTTCAACTTAGAGAGACCTTCCGAGTTTTCACCCTAA
1010809 GCGAAATACT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (43 bp):
TTTTTTCAACTTAGAGAGACCTTCCGAGTTTTCACCCTAAACG
Found at i:1013823 original size:11 final size:11
Alignment explanation
Indices: 1013799--1013843 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
1013789 TATGTGCTGG
1013799 AAACAAGATAA
1 AAACAAGATAA
* *
1013810 AAATAAGATTA
1 AAACAAGATAA
1013821 AAACAAGATAA
1 AAACAAGATAA
1013832 AGAA-AAGATAA
1 A-AACAAGATAA
1013843 A
1 A
1013844 TAATTGCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:1013827 original size:22 final size:22
Alignment explanation
Indices: 1013799--1013840 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1013789 TATGTGCTGG
1013799 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
1013821 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
1013841 AAATAATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:1018057 original size:1 final size:1
Alignment explanation
Indices: 1018053--1018101 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
1018043 AAATTTTGGC
* * * * *
1018053 TTTTTTTTGTTTTTTTTGTTTTTTGTTTTTTTTATTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1018102 GAAAAAAAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.04, C:0.00, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:1018065 original size:9 final size:9
Alignment explanation
Indices: 1018053--1018093 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
1018043 AAATTTTGGC
1018053 TTTTTTTTG
1 TTTTTTTTG
1018062 TTTTTTTTG
1 TTTTTTTTG
1018071 --TTTTTTG
1 TTTTTTTTG
*
1018078 TTTTTTTTA
1 TTTTTTTTG
1018087 TTTTTTT
1 TTTTTTT
1018094 ATTTTTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 7 0.24
9 22 0.76
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.90
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1018074 original size:16 final size:16
Alignment explanation
Indices: 1018055--1018102 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
1018045 ATTTTGGCTT
1018055 TTTTTTGTTTTTTTTG
1 TTTTTTGTTTTTTTTG
*
1018071 TTTTTTGTTTTTTTTA
1 TTTTTTGTTTTTTTTG
1018087 TTTTTT-TATTTTTTTG
1 TTTTTTGT-TTTTTTTG
1018103 AAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 1 0.03
16 28 0.97
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (16 bp):
TTTTTTGTTTTTTTTG
Found at i:1018074 original size:25 final size:25
Alignment explanation
Indices: 1018046--1018102 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
1018036 TTTTTTGAAA
*
1018046 TTTTGGCTTTTTTTTGTTTTTTTTGT
1 TTTTGG-TTTTTTTTATTTTTTTTGT
* *
1018072 TTTTTGTTTTTTTTATTTTTTTATTT
1 TTTTGGTTTTTTTTATTTTTTT-TGT
1018098 TTTTG
1 TTTTG
1018103 AAAAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.84
Consensus pattern (25 bp):
TTTTGGTTTTTTTTATTTTTTTTGT
Found at i:1023184 original size:259 final size:259
Alignment explanation
Indices: 1022725--1023242 Score: 1000
Period size: 259 Copynumber: 2.0 Consensus size: 259
1022715 TGTGATAAAG
1022725 AGCTATGTGAAAGAACTATGTGATATGAATATGTGAATGTGTAATGAGGTAAAAGATAATTCCCA
1 AGCTATGTGAAAGAACTATGTGATATGAATATGTGAATGTGTAATGAGGTAAAAGATAATTCCCA
1022790 TGTCATGTGTTATGAAAGCTATAGGTATAGTTGGCATGCCAAGAGTCAAGGGTCTACGCGGTTTT
66 TGTCATGTGTTATGAAAGCTATAGGTATAGTTGGCATGCCAAGAGTCAAGGGTCTACGCGGTTTT
*
1022855 TCGGGACATAGTGGTCCTTCGGGACATATGGGTTATATGTGGTCCTTTGGGACATCTACGTGGTC
131 TCGGGACATAGTGGTCCTTCAGGACATATGGGTTATATGTGGTCCTTTGGGACATCTACGTGGTC
*
1022920 CTTCAGGATAAATTCTATGTGCCCCTAGTGGGAATTATACGAGTTTTGGTGACAGCATAGTGCA
196 CTTCAGGATAAATTCTATGTGCCCCTAGTGGGAATTATACGAGTTGTGGTGACAGCATAGTGCA
1022984 AGCTATGTGAAAGAACTATGTGATATGAATATGTGAATGTGTAATGAGGTAAAAGATAATTCCCA
1 AGCTATGTGAAAGAACTATGTGATATGAATATGTGAATGTGTAATGAGGTAAAAGATAATTCCCA
* *
1023049 TGTCATGTGTTATGAAAGCTATAGGTATAGTTGGCATGCCAAGAGTCAAGTGTCTATGCGGTTTT
66 TGTCATGTGTTATGAAAGCTATAGGTATAGTTGGCATGCCAAGAGTCAAGGGTCTACGCGGTTTT
1023114 TCGGGACATAGTGGTCCTTCAGGACATATGGGTTATATGTGGTCCTTTGGGACATCTACGTGGTC
131 TCGGGACATAGTGGTCCTTCAGGACATATGGGTTATATGTGGTCCTTTGGGACATCTACGTGGTC
1023179 CTTCAGGATAAATTCTATGTGCCCCTAGTGGGAATTATACGAGTTGTGGTGACAGCATAGTGCA
196 CTTCAGGATAAATTCTATGTGCCCCTAGTGGGAATTATACGAGTTGTGGTGACAGCATAGTGCA
1023243 CAACCTCTAT
Statistics
Matches: 255, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
259 255 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (259 bp):
AGCTATGTGAAAGAACTATGTGATATGAATATGTGAATGTGTAATGAGGTAAAAGATAATTCCCA
TGTCATGTGTTATGAAAGCTATAGGTATAGTTGGCATGCCAAGAGTCAAGGGTCTACGCGGTTTT
TCGGGACATAGTGGTCCTTCAGGACATATGGGTTATATGTGGTCCTTTGGGACATCTACGTGGTC
CTTCAGGATAAATTCTATGTGCCCCTAGTGGGAATTATACGAGTTGTGGTGACAGCATAGTGCA
Found at i:1029940 original size:21 final size:20
Alignment explanation
Indices: 1029859--1029940 Score: 62
Period size: 20 Copynumber: 4.1 Consensus size: 20
1029849 AAAACCAAAT
*
1029859 AAAAAAAT-TAAAT-TTTAA
1 AAAAAAATAAAAATGTTTAA
* * *
1029877 AATAAAATAAAAAAGGTTAA
1 AAAAAAATAAAAATGTTTAA
* *
1029897 AAGAGAAAATAAAAA-GATAAA
1 AA-A-AAAATAAAAATGTTTAA
1029918 AAAAAGAATAAAAATGTTTAA
1 AAAAA-AATAAAAATGTTTAA
1029939 AA
1 AA
1029941 TAATAATAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
18 7 0.14
19 5 0.10
20 15 0.31
21 12 0.24
22 10 0.20
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (20 bp):
AAAAAAATAAAAATGTTTAA
Found at i:1029947 original size:3 final size:3
Alignment explanation
Indices: 1029939--1029970 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1029929 AAATGTTTAA
1029939 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1029971 CACATGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1029948 original size:21 final size:20
Alignment explanation
Indices: 1029868--1029949 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 20
1029858 TAAAAAAATT
1029868 AAAT-TTTAAAATAAAATAAA
1 AAATGTTTAAAATAAAAT-AA
* * *
1029888 AAAGGTTAAAAGAGAAAATAA
1 AAATGTTTAAA-ATAAAATAA
* * *
1029909 AAA-GATAAAAAAAAGAATAA
1 AAATGTTTAAAATAA-AATAA
1029929 AAATGTTTAAAATAATAATAA
1 AAATGTTTAAAATAA-AATAA
1029950 TAATAATAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.06
20 17 0.35
21 23 0.47
22 6 0.12
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.22
Consensus pattern (20 bp):
AAATGTTTAAAATAAAATAA
Done.