Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007879.1 Hibiscus syriacus cultivar Beakdansim tig00110257_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: 1117421
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:850754 original size:42 final size:41
Alignment explanation
Indices: 850702--850833 Score: 194
Period size: 42 Copynumber: 3.2 Consensus size: 41
850692 TGATGTTAAT
*
850702 TTTA-TTTAGACTTATTGAGACTTATTAGTATTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTATT-GTGTTATGGTGTTA
* *
850743 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGATGTTA
1 TTTATTTTAGACTTATTGAGACTT-ATTGTGTTATGGTGTTA
*
850785 TTTATTTTAGACTTATTGAGACTTAATTGTGCTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTT-ATTGTGTTATGGTGTTA
850827 TTTATTT
1 TTTATTT
850834 ACTTGTTTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
41 4 0.05
42 77 0.93
43 2 0.02
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.52
Consensus pattern (41 bp):
TTTATTTTAGACTTATTGAGACTTATTGTGTTATGGTGTTA
Found at i:851832 original size:4 final size:4
Alignment explanation
Indices: 851792--851817 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
851782 GAAGAAGAAG
851792 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
851818 TAAGAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:853320 original size:2 final size:2
Alignment explanation
Indices: 853313--853352 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
853303 CTATTTTTGA
*
853313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
853353 TGTATTAGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:859270 original size:16 final size:16
Alignment explanation
Indices: 859249--859281 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
859239 TAATAAATAA
859249 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
859265 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
859281 A
1 A
859282 ATTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:859680 original size:24 final size:26
Alignment explanation
Indices: 859651--859702 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
859641 GACCTCTGTT
*
859651 CGAACATAAATGAACATA-AAT-GAA
1 CGAACATAAACGAACATATAATCGAA
859675 CGAACATAAACGAACATATAATCGAA
1 CGAACATAAACGAACATATAATCGAA
859701 CG
1 CG
859703 TTCACGAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.54, C:0.17, G:0.13, T:0.15
Consensus pattern (26 bp):
CGAACATAAACGAACATATAATCGAA
Found at i:868639 original size:6 final size:6
Alignment explanation
Indices: 868625--868654 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
868615 GACCACAAAA
*
868625 GTCATC GTCAAC GTCAAC GTCAAC GTCAAC
1 GTCAAC GTCAAC GTCAAC GTCAAC GTCAAC
868655 TTTGGATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (6 bp):
GTCAAC
Found at i:871867 original size:24 final size:24
Alignment explanation
Indices: 871840--871886 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
871830 TAAAACACAT
*
871840 AAAATAT-ATTTACTAATAATTTTC
1 AAAATATAATATACTAAT-ATTTTC
871864 AAAATATAATATACTAATATTTT
1 AAAATATAATATACTAATATTTT
871887 ATTTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAATATAATATACTAATATTTTC
Found at i:872007 original size:14 final size:14
Alignment explanation
Indices: 871976--872057 Score: 51
Period size: 14 Copynumber: 5.6 Consensus size: 14
871966 ATATTTTAAC
*
871976 AATAATATTATCATA
1 AATAATATTA-AATA
871991 AATAATATTAAATA
1 AATAATATTAAATA
* * *
872005 AATTATTTTTAATA
1 AATAATATTAAATA
* *
872019 ATTTAATAAT-AAT-
1 A-ATAATATTAAATA
872032 AATAAATATTTATAATA
1 AAT-AATA-TTA-AATA
872049 AATAATATT
1 AATAATATT
872058 GTTTATTCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
12 1 0.02
13 5 0.10
14 19 0.37
15 16 0.31
16 7 0.14
17 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (14 bp):
AATAATATTAAATA
Found at i:873100 original size:64 final size:63
Alignment explanation
Indices: 872987--873131 Score: 179
Period size: 64 Copynumber: 2.3 Consensus size: 63
872977 GTGCACTAAT
* * * *
872987 GATGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAACCTGGTGCATCGATGCATGGA-
1 GATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAT-ACATGGTGCATCGATGCATGGAC
873050 GAGTGCATCGGTGCATGAAATGCATTCGATG-TTCAATTAAAT-CATAGGTGCATCGATGCATGG
1 GA-TGCATCGGTGCATGAAATGCATTCGATGTTTCAA--AAATACAT-GGTGCATCGATGCATGG
873113 AC
62 AC
873115 TGATGCATCGGTGCATG
1 -GATGCATCGGTGCATG
873132 CCTTTGAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
63 8 0.11
64 44 0.61
65 18 0.25
66 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (63 bp):
GATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATACATGGTGCATCGATGCATGGAC
Found at i:873320 original size:12 final size:12
Alignment explanation
Indices: 873303--873336 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
873293 CGAATATAAA
*
873303 TTGTAAAATCGT
1 TTGTAAAATCAT
873315 TTGTAAAATCAT
1 TTGTAAAATCAT
873327 TTGTAAAATC
1 TTGTAAAATC
873337 TTAAAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (12 bp):
TTGTAAAATCAT
Found at i:883488 original size:23 final size:23
Alignment explanation
Indices: 883462--883506 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
883452 CACCACAGCT
*
883462 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
883485 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
883507 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:883749 original size:151 final size:149
Alignment explanation
Indices: 883474--883790 Score: 546
Period size: 151 Copynumber: 2.1 Consensus size: 149
883464 TATAATTGCA
883474 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
*
883538 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTATTTCAAGACTTTACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTATTTCAAGACTTCACACATGTT
* *
883603 CCACAGAATATATATATATATC
130 CCAAAG-A-ATATACATATATC
883625 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
883690 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTATTTCAAGACTTCACACATGTTC
* *
883755 CAAAGAATATGCATATGTC
131 CAAAGAATATACATATATC
883774 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
883791 CCCTCGACTC
Statistics
Matches: 159, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
149 27 0.17
150 2 0.01
151 130 0.82
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTATTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:885118 original size:21 final size:21
Alignment explanation
Indices: 885094--885138 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
885084 TCTTGTTCGT
* *
885094 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
885115 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
885136 TTG
1 TTG
885139 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:888855 original size:151 final size:149
Alignment explanation
Indices: 888677--888985 Score: 564
Period size: 151 Copynumber: 2.1 Consensus size: 149
888667 CACTGAAGTG
888677 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
* *
888742 AATTATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAG-A-
*
888807 ATATATATATATCCCGAAGGA
129 ATATACATATATCCCGAAGGA
888828 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
888893 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
*
888958 ATACATATGTCCCGAAGGA
131 ATACATATATCCCGAAGGA
888977 CCGCGTAGA
1 CCGCGTAGA
888986 CCCTCGACTC
Statistics
Matches: 154, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
149 28 0.18
150 1 0.01
151 125 0.81
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
ATACATATATCCCGAAGGA
Found at i:890308 original size:21 final size:21
Alignment explanation
Indices: 890284--890328 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
890274 TCTTGTTCGT
* *
890284 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
890305 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
890326 TTG
1 TTG
890329 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:894510 original size:2 final size:2
Alignment explanation
Indices: 894499--894555 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
894489 AGAAAACTGT
894499 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
894540 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
894556 ATTAAAAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:899003 original size:27 final size:28
Alignment explanation
Indices: 898944--899008 Score: 96
Period size: 27 Copynumber: 2.3 Consensus size: 28
898934 ACCAGATCTG
*
898944 TAGTGAAAAACTCGCAGAATAAAAAAAGA
1 TAGTG-AAAACTCGCAAAATAAAAAAAGA
*
898973 TAGTGAAAACTCGCAAAAT-AAAAAATA
1 TAGTGAAAACTCGCAAAATAAAAAAAGA
899000 TAGTGAAAA
1 TAGTGAAAA
899009 ACCGGACTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 16 0.47
28 13 0.38
29 5 0.15
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.17
Consensus pattern (28 bp):
TAGTGAAAACTCGCAAAATAAAAAAAGA
Found at i:899009 original size:28 final size:29
Alignment explanation
Indices: 898944--899010 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 29
898934 ACCAGATCTG
*
898944 TAGTGAAAAACTCGCAGAATAAAAAAAGA
1 TAGTGAAAAACTCGCAAAATAAAAAAAGA
*
898973 TAGTG-AAAACTCGCAAAAT-AAAAAATA
1 TAGTGAAAAACTCGCAAAATAAAAAAAGA
899000 TAGTGAAAAAC
1 TAGTGAAAAAC
899011 CGGACTGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 12 0.34
28 18 0.51
29 5 0.14
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.16
Consensus pattern (29 bp):
TAGTGAAAAACTCGCAAAATAAAAAAAGA
Found at i:919878 original size:21 final size:20
Alignment explanation
Indices: 919792--919949 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
919782 AAATGACCAA
**
919792 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
919811 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
919831 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
919851 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
919872 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
919893 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
919913 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
919934 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
919950 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:919978 original size:20 final size:20
Alignment explanation
Indices: 919916--920104 Score: 195
Period size: 20 Copynumber: 9.5 Consensus size: 20
919906 CGATTTTCCA
* ** *
919916 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
919936 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
919956 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
919976 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
919996 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
920016 -AATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
920035 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
920055 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
920075 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
920095 AAATCACAAC
1 AAATCGCAAC
920105 ACTGAAATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 18 0.13
20 122 0.86
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:920824 original size:24 final size:24
Alignment explanation
Indices: 920785--920831 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
920775 AAATTTGGTC
920785 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
920809 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
920832 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:921023 original size:12 final size:12
Alignment explanation
Indices: 921006--921030 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
920996 ATATAATCCT
921006 GAAGAAGAAAAA
1 GAAGAAGAAAAA
921018 GAAGAAGAAAAA
1 GAAGAAGAAAAA
921030 G
1 G
921031 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:923360 original size:33 final size:33
Alignment explanation
Indices: 923290--923438 Score: 219
Period size: 33 Copynumber: 4.5 Consensus size: 33
923280 GCATTTGACT
* * *
923290 ATCGCAATACGGAAATTACAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
923324 ATCGCAATGCGAAATGAAAATCCCAAC-ATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGA-GAGA
923357 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
923391 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
923424 ATCGCAATGCGAAAT
1 ATCGCAATGCGAAAT
923439 TATAAACGCA
Statistics
Matches: 105, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.01
33 65 0.62
34 38 0.36
35 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:923374 original size:20 final size:19
Alignment explanation
Indices: 923323--923416 Score: 91
Period size: 14 Copynumber: 5.4 Consensus size: 19
923313 GCAACGAGAG
923323 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
923342 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
923356 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
923376 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
923390 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
923409 AATCGCAA
1 AATCGCAA
923417 CGAGAGAATC
Statistics
Matches: 60, Mismatches: 4, Indels: 22
0.70 0.05 0.26
Matches are distributed among these distances:
14 22 0.37
15 1 0.02
16 3 0.05
17 2 0.03
18 2 0.03
19 17 0.28
20 13 0.22
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:923395 original size:14 final size:14
Alignment explanation
Indices: 923376--923430 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
923366 CGGAAATGAA
923376 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
923390 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
923409 AATCGCAACGAGAG
1 AATCGCAACGAGAG
923423 AATCGCAA
1 AATCGCAA
923431 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:923398 original size:67 final size:67
Alignment explanation
Indices: 923290--923438 Score: 230
Period size: 67 Copynumber: 2.2 Consensus size: 67
923280 GCATTTGACT
* * *
923290 ATCGCAATACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGA-G
923354 AAA
65 AAA
*
923357 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGAGA
*
923422 GA
66 AA
923424 ATCGCAATGC-GAAAT
1 ATCGCAATGCGGAAAT
923439 TATAAACGCA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
66 5 0.07
67 70 0.92
68 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.14
Consensus pattern (67 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGAGA
AA
Found at i:923557 original size:52 final size:53
Alignment explanation
Indices: 923445--923560 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
923435 AAATTATAAA
*
923445 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTAGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
923498 CGCATTGCGATTCTCTAGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTAGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
923550 CGCATTGCGAT
1 CGCATTGCGAT
923561 AGTCATTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTAGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:923568 original size:19 final size:19
Alignment explanation
Indices: 923463--923560 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
923453 GATTCTCTCG
923463 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
923483 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
923502 TTGCGA--TTC-TCTAG--
1 TTGCGATTTTCATTTCGCA
923516 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
923535 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
923554 TTGCGAT
1 TTGCGAT
923561 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.09
16 6 0.09
17 6 0.09
19 36 0.52
20 15 0.22
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:923686 original size:14 final size:14
Alignment explanation
Indices: 923658--923703 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
923648 TTATGTTCGC
*
923658 ATCAA-TTACACAA
1 ATCAACTTATACAA
923671 ATCAACTTATACAA
1 ATCAACTTATACAA
* *
923685 ATCATCTTTTACAA
1 ATCAACTTATACAA
923699 ATCAA
1 ATCAA
923704 TTAAACAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ATCAACTTATACAA
Found at i:925665 original size:19 final size:19
Alignment explanation
Indices: 925620--925734 Score: 106
Period size: 19 Copynumber: 6.6 Consensus size: 19
925610 TAGTTTACTT
* **
925620 TCGCAACACGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
925639 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
925658 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
925672 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
925691 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
925705 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
925724 TCGCAATGCGA
1 TCGCAACGCGA
925735 TTTTGGTTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
14 16 0.20
16 11 0.14
17 11 0.14
19 42 0.52
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:925675 original size:14 final size:14
Alignment explanation
Indices: 925656--925712 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
925646 GCGAAATGAA
*
925656 AATCGCAACGACAG
1 AATCGCAACGAAAG
925670 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
925687 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
925703 AATCGCAACG
1 AATCGCAACG
925713 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:925683 original size:33 final size:33
Alignment explanation
Indices: 925637--925729 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
925627 ACGAAACCAA
*
925637 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
925670 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
925703 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
925730 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:925752 original size:19 final size:19
Alignment explanation
Indices: 925730--925858 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
925720 AAAATCGCAA
925730 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
925749 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
925763 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
925782 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
925796 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
925815 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
925834 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
925854 TGCGA
1 TGCGA
925859 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:925772 original size:33 final size:33
Alignment explanation
Indices: 925730--925821 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
925720 AAAATCGCAA
925730 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
925763 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
925796 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
925822 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:926022 original size:93 final size:93
Alignment explanation
Indices: 925906--926188 Score: 559
Period size: 93 Copynumber: 3.1 Consensus size: 93
925896 ATGGATTGCA
925906 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
925970 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
925998 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
926063 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
926091 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
926156 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
926184 TTACT
1 TTACT
926189 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 4 0.02
93 186 0.98
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:927913 original size:14 final size:14
Alignment explanation
Indices: 927894--927983 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
927884 TTGAAATGAA
927894 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
927908 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
927927 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
927941 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
927960 AATCGCAACGAGAG
1 AATCGCAACGAGAG
927974 AATCGCAACG
1 AATCGCAACG
927984 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:927931 original size:33 final size:33
Alignment explanation
Indices: 927886--928000 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
927876 TCTTTTGGTT
927886 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
927919 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
927952 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
927985 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
928001 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:927932 original size:19 final size:19
Alignment explanation
Indices: 927908--928005 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
927898 GCAACGAGAG
*
927908 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
927927 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
927941 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
927960 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
927974 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
927993 AATCGCAATGCGA
1 AATCGCAACGCGA
928006 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:928036 original size:14 final size:14
Alignment explanation
Indices: 928017--928073 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
928007 TTTGGTTTCG
928017 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
928031 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
928050 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
928064 CGTTGCGATT
1 CGTTGCGATT
928074 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:928049 original size:33 final size:33
Alignment explanation
Indices: 928001--928081 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
927991 AAAATCGCAA
**
928001 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
928034 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
928067 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
928082 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:928084 original size:21 final size:21
Alignment explanation
Indices: 928058--928133 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
928048 CGCGTTGCGA
928058 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
928079 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
928099 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
928120 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
928134 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:928114 original size:41 final size:41
Alignment explanation
Indices: 928057--928134 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
928047 TCGCGTTGCG
*
928057 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
928098 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
928135 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:928255 original size:33 final size:33
Alignment explanation
Indices: 928213--928283 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
928203 AATACTAACT
*
928213 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
928246 TGAAAATCGCAACGACAGAATTGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
928279 TGAAA
1 TGAAA
928284 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:928517 original size:22 final size:22
Alignment explanation
Indices: 928465--928519 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
928455 TGGTTGTGAG
**
928465 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
928487 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
928509 GGATTTCTTCG
1 GGATTTCTTCG
928520 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:928691 original size:20 final size:20
Alignment explanation
Indices: 928666--928859 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
928656 CTTTAAATAT
928666 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
928686 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
928708 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
928727 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
928747 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
928767 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
928787 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
928807 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
928827 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
928847 CGCGTTGCGATTT
1 CGCGTTGCGATTT
928860 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:928853 original size:60 final size:60
Alignment explanation
Indices: 928666--928859 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
928656 CTTTAAATAT
**
928666 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
928727 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
928787 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
928847 CGCGTTGCGATTT
1 CGCGTTGCGATTT
928860 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:928876 original size:21 final size:21
Alignment explanation
Indices: 928846--928928 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
928836 ATTTTCATAT
*
928846 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
928867 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
928888 TCGCATTGCGATTTT-AAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
928909 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
928929 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:928919 original size:42 final size:43
Alignment explanation
Indices: 928826--928924 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
928816 ATTTATGTGT
* *
928826 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGAAAAA
**
928867 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-AAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGAAA-AA
*
928909 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
928925 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGAAAAA
Found at i:937581 original size:24 final size:24
Alignment explanation
Indices: 937549--937599 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
937539 GGTTATTACC
937549 ATTATTATTA-TCAACACAAATAAT
1 ATTATTATTACT-AACACAAATAAT
937573 ATTATTATTACTAACACAAATAAT
1 ATTATTATTACTAACACAAATAAT
937597 ATT
1 ATT
937600 TTCGGTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTATTATTACTAACACAAATAAT
Found at i:937818 original size:37 final size:37
Alignment explanation
Indices: 937762--937834 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
937752 TAATTAAAAG
* *
937762 TTGTTGCCTTTATAAAGCTGCTTATGCCTATTTACTA
1 TTGTTGCCTTTATAAAGCTGCTTATGCATATATACTA
* * *
937799 TTGTTGGCTTTGTACAGCTGCTTATGCATATATACT
1 TTGTTGCCTTTATAAAGCTGCTTATGCATATATACT
937835 TTACTGAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (37 bp):
TTGTTGCCTTTATAAAGCTGCTTATGCATATATACTA
Found at i:938041 original size:47 final size:47
Alignment explanation
Indices: 937972--938070 Score: 157
Period size: 47 Copynumber: 2.1 Consensus size: 47
937962 CCGTTGTTCA
937972 ATCTTTCTATCGAACCGTTTGTTTTTACACCAATTTCTACATTTTCT
1 ATCTTTCTATCGAACCGTTTGTTTTTACACCAATTTCTACATTTTCT
*
938019 ATCTTTCTATC-ACACTC-TTTGTTTTTACATCAATTTCTACATTTTCT
1 ATCTTTCTATCGA-AC-CGTTTGTTTTTACACCAATTTCTACATTTTCT
938066 ATCTT
1 ATCTT
938071 CTTTGTCCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
46 1 0.02
47 47 0.96
48 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.04, T:0.52
Consensus pattern (47 bp):
ATCTTTCTATCGAACCGTTTGTTTTTACACCAATTTCTACATTTTCT
Found at i:939390 original size:2 final size:2
Alignment explanation
Indices: 939383--939409 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
939373 CAAAATTAAG
939383 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
939410 ATTCTCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:953548 original size:31 final size:31
Alignment explanation
Indices: 953510--953572 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
953500 GGCGTATTTG
953510 TCAGATTAAACTATGCATTGCAATGAAGTGC
1 TCAGATTAAACTATGCATTGCAATGAAGTGC
953541 TCAGATTAAACTATGCATTGCAATGAAGTGC
1 TCAGATTAAACTATGCATTGCAATGAAGTGC
953572 T
1 T
953573 AACATTGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (31 bp):
TCAGATTAAACTATGCATTGCAATGAAGTGC
Found at i:953584 original size:31 final size:31
Alignment explanation
Indices: 953514--953584 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
953504 TATTTGTCAG
* *
953514 ATTAAACTATGCATTGCAATGAAGTGCTCAG
1 ATTAAACTATGCATTGCAATGAAGTGCTAAC
953545 ATTAAACTATGCATTGCAATGAAGTGCTAAC
1 ATTAAACTATGCATTGCAATGAAGTGCTAAC
*
953576 ATTGAACTA
1 ATTAAACTA
953585 GAAAGTGATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (31 bp):
ATTAAACTATGCATTGCAATGAAGTGCTAAC
Found at i:954462 original size:2 final size:2
Alignment explanation
Indices: 954455--954495 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
954445 TGGTTTCCTG
* *
954455 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
954496 CAATGATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:964073 original size:28 final size:28
Alignment explanation
Indices: 964040--964110 Score: 142
Period size: 28 Copynumber: 2.5 Consensus size: 28
964030 GTTATATTAT
964040 TATCACCATTCACATTTTGTCATATCAA
1 TATCACCATTCACATTTTGTCATATCAA
964068 TATCACCATTCACATTTTGTCATATCAA
1 TATCACCATTCACATTTTGTCATATCAA
964096 TATCACCATTCACAT
1 TATCACCATTCACAT
964111 GTAGATTACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (28 bp):
TATCACCATTCACATTTTGTCATATCAA
Found at i:966101 original size:4 final size:4
Alignment explanation
Indices: 966069--966145 Score: 100
Period size: 4 Copynumber: 19.2 Consensus size: 4
966059 TCGACAAATA
* * ** * *
966069 ACAT ACAC ACAT ACAT GCGC ACAT GCAT ACAT ACAT ACAT ACAT ACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
966117 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
966146 TCTACAAGAT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.21
Consensus pattern (4 bp):
ACAT
Found at i:967630 original size:40 final size:40
Alignment explanation
Indices: 967575--967655 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
967565 CAAGCCTTCT
967575 CGCCCGAAGTCCCCGTGCATCACGCTCCTCGTCCATGCCA
1 CGCCCGAAGTCCCCGTGCATCACGCTCCTCGTCCATGCCA
967615 CGCCCGAAGTCCCCGTGCATCACGCTCCTCGTCCATGCCA
1 CGCCCGAAGTCCCCGTGCATCACGCTCCTCGTCCATGCCA
967655 C
1 C
967656 ACAGCCGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.15, C:0.48, G:0.20, T:0.17
Consensus pattern (40 bp):
CGCCCGAAGTCCCCGTGCATCACGCTCCTCGTCCATGCCA
Found at i:967648 original size:22 final size:22
Alignment explanation
Indices: 967583--967648 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
967573 CTCGCCCGAA
967583 GTCCCCGTGCATCACGCTCCTC
1 GTCCCCGTGCATCACGCTCCTC
* **
967605 GT--CCATGC--CACGC-CCGAA
1 GTCCCCGTGCATCACGCTCC-TC
967623 GTCCCCGTGCATCACGCTCCTC
1 GTCCCCGTGCATCACGCTCCTC
967645 GTCC
1 GTCC
967649 ATGCCACACA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 2 0.06
18 7 0.22
20 10 0.31
22 11 0.34
23 2 0.06
ACGTcount: A:0.12, C:0.48, G:0.20, T:0.20
Consensus pattern (22 bp):
GTCCCCGTGCATCACGCTCCTC
Found at i:968566 original size:13 final size:13
Alignment explanation
Indices: 968548--968572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
968538 TTTTACACTC
968548 GTATATATTATTA
1 GTATATATTATTA
968561 GTATATATTATT
1 GTATATATTATT
968573 TTACTTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
GTATATATTATTA
Found at i:968770 original size:133 final size:131
Alignment explanation
Indices: 968663--968948 Score: 362
Period size: 133 Copynumber: 2.1 Consensus size: 131
968653 CTTATTATAT
* * *
968663 TTATCTT-CA-TTATTTAGTTTTTCTATTACTATTATATAGATTTTTTTCCTCCCTCTCATATTT
1 TTATCTTACATTTATTTAATTTTTCCATTACTATTATAT--A-TATTTTCCTCCCTCTCATATTT
* *
968726 AGTTATTATATATATATGGTATTAATATTATTATATGTTTTTATTAACTTTATTTATTTTACTTT
63 AGCTA-T-CATATATATGGTATTAATATTATTATATGTTTTTATTAACTTTATTTATTTTACTTT
968791 ATACGCTA
126 ATA--CTA
* * *
968799 TTATTTTACATTTTTTTAATTTTTCCATTATTATTATATATATTTTCCTCCCTCTCATATTTAGC
1 TTATCTTACATTTATTTAATTTTTCCATTACTATTATATATATTTTCCTCCCTCTCATATTTAGC
* * *
968864 TATCATATATATGGTATTGATATTATTATATGTTTTTATTAATTTTATTTATTCTACTTTATACG
66 TATCATATATATGGTATTAATATTATTATATGTTTTTATTAACTTTATTTATTTTACTTTATA--
968929 CTA
129 CTA
*
968932 TTATTTTACATTT-TTTA
1 TTATCTTACATTTATTTA
968949 TATATACATA
Statistics
Matches: 137, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
132 4 0.03
133 74 0.54
134 1 0.01
135 25 0.18
136 7 0.05
137 2 0.01
138 24 0.18
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (131 bp):
TTATCTTACATTTATTTAATTTTTCCATTACTATTATATATATTTTCCTCCCTCTCATATTTAGC
TATCATATATATGGTATTAATATTATTATATGTTTTTATTAACTTTATTTATTTTACTTTATACT
A
Found at i:968845 original size:135 final size:133
Alignment explanation
Indices: 968706--968947 Score: 421
Period size: 133 Copynumber: 1.8 Consensus size: 133
968696 ATATAGATTT
* *
968706 TTTTCCTCCCTCTCATATTTAGTTATTATATATATATGGTATTAATATTATTATATGTTTTTATT
1 TTTTCCTCCCTCTCATATTTAGCTA-T-CATATATATGGTATTAATATTATTATATGTTTTTATT
*
968771 AACTTTATTTATTTTACTTTATACGCTATTATTTTACATTTTTTTAATTTTTCCATTATTATTAT
64 AACTTTATTTATTCTACTTTATACGCTATTATTTTACATTTTTTTAATTTTTCCATTATTATTAT
968836 ATATA
129 ATATA
*
968841 TTTTCCTCCCTCTCATATTTAGCTATCATATATATGGTATTGATATTATTATATGTTTTTATTAA
1 TTTTCCTCCCTCTCATATTTAGCTATCATATATATGGTATTAATATTATTATATGTTTTTATTAA
*
968906 TTTTATTTATTCTACTTTATACGCTATTATTTTACATTTTTT
66 CTTTATTTATTCTACTTTATACGCTATTATTTTACATTTTTT
968948 ATATATACAT
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
133 77 0.75
134 1 0.01
135 24 0.24
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (133 bp):
TTTTCCTCCCTCTCATATTTAGCTATCATATATATGGTATTAATATTATTATATGTTTTTATTAA
CTTTATTTATTCTACTTTATACGCTATTATTTTACATTTTTTTAATTTTTCCATTATTATTATAT
ATA
Found at i:969252 original size:20 final size:21
Alignment explanation
Indices: 969227--969265 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
969217 TTTCGTTTTC
*
969227 TTTATTTTTTTCA-ATTTTAA
1 TTTATTTTTATCACATTTTAA
969247 TTTATTTTTATCACATTTT
1 TTTATTTTTATCACATTTT
969266 CTAATACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATTTTTATCACATTTTAA
Found at i:969647 original size:19 final size:19
Alignment explanation
Indices: 969623--969667 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
969613 AATAACATTA
969623 TAAAT-ATATTTTATATTT-T
1 TAAATAATA-TTTA-ATTTAT
969642 TAAATAATATTTAATTTAT
1 TAAATAATATTTAATTTAT
969661 TAAATAA
1 TAAATAA
969668 CATTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATAATATTTAATTTAT
Found at i:969678 original size:2 final size:2
Alignment explanation
Indices: 969671--969697 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
969661 TAAATAACAT
969671 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
969698 GATTAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:975272 original size:15 final size:15
Alignment explanation
Indices: 975252--975285 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
975242 TTTAGTTGGT
*
975252 CGGGCGAATGTGGGG
1 CGGGCGAATGCGGGG
*
975267 CGGGCGGATGCGGGG
1 CGGGCGAATGCGGGG
975282 CGGG
1 CGGG
975286 TAATGTCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.18, G:0.65, T:0.09
Consensus pattern (15 bp):
CGGGCGAATGCGGGG
Found at i:980284 original size:20 final size:19
Alignment explanation
Indices: 980259--980306 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
980249 TACTTAAATT
*
980259 AATTATTATTTTAGTTAAAA
1 AATTATAATTTTA-TTAAAA
980279 AATTATAATTTTATT--AA
1 AATTATAATTTTATTAAAA
980296 AATTATAATTT
1 AATTATAATTT
980307 AATAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 13 0.48
19 2 0.07
20 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AATTATAATTTTATTAAAA
Found at i:980312 original size:16 final size:17
Alignment explanation
Indices: 980273--980325 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
980263 ATTATTTTAG
980273 TTAA-AAAATTATAATT
1 TTAATAAAATTATAATT
*
980289 TTATTAAAATTATAA-T
1 TTAATAAAATTATAATT
*
980305 TTAAT-AAATAATTAATT
1 TTAATAAAATTA-TAATT
980322 TTAA
1 TTAA
980326 ACAAATCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 15 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATAAAATTATAATT
Found at i:980681 original size:29 final size:31
Alignment explanation
Indices: 980622--980682 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
980612 AATCACTTTA
*
980622 TTTATTATGTAATAATTAGGTCATTACATTT
1 TTTATTATGTAATAATCAGGTCATTACATTT
980653 TTTATTAT-TAA-AATCAGGTCACTTA-ATTT
1 TTTATTATGTAATAATCAGGTCA-TTACATTT
980682 T
1 T
980683 ACCAATAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 14 0.50
30 6 0.21
31 8 0.29
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (31 bp):
TTTATTATGTAATAATCAGGTCATTACATTT
Found at i:983112 original size:2 final size:2
Alignment explanation
Indices: 983107--983157 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
983097 TCCCTCTCTC
983107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
983149 TA TA TA TA T
1 TA TA TA TA T
983158 CTTTATTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:983323 original size:6 final size:6
Alignment explanation
Indices: 983312--983346 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
983302 GTAAAACATA
983312 ATAATT ATAATT ATAATT ATAATT ATAATT ATAAT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAAT
983347 GAGTCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:985381 original size:13 final size:13
Alignment explanation
Indices: 985363--985388 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
985353 TACAGATGTA
985363 CATATGTAGACTG
1 CATATGTAGACTG
985376 CATATGTAGACTG
1 CATATGTAGACTG
985389 TTTGACTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
CATATGTAGACTG
Found at i:986958 original size:49 final size:50
Alignment explanation
Indices: 986896--987003 Score: 137
Period size: 49 Copynumber: 2.2 Consensus size: 50
986886 TCACACATGT
* * * * *
986896 CATTTATTTTAGTTGGTGCACATATGCACGACAGTTCA-CTATTATAATA
1 CATTCATTTTAGTTGATGCACACATGCACGACAGCTCATATATTATAATA
* *
986945 CATTCATTTTAGTTGATGCACACATGCATGACAGCTCATTATATTATAATG
1 CATTCATTTTAGTTGATGCACACATGCACGACAGCTCA-TATATTATAATA
986996 CATTCATT
1 CATTCATT
987004 CCAGCACATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 33 0.66
51 17 0.34
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (50 bp):
CATTCATTTTAGTTGATGCACACATGCACGACAGCTCATATATTATAATA
Found at i:987984 original size:24 final size:23
Alignment explanation
Indices: 987952--987996 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
987942 TTACATTTCA
987952 TATTCATTT-CCATCACTTCATTC
1 TATTCATTTACCAT-ACTTCATTC
987975 TATTCCATTTACCATACTTCAT
1 TATT-CATTTACCATACTTCAT
987997 CATTACCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTCATTTACCATACTTCATTC
Found at i:988574 original size:22 final size:22
Alignment explanation
Indices: 988524--988567 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
988514 TTTGTGTTCC
988524 AAGTGCTGCTCCTCCTCTCTTT
1 AAGTGCTGCTCCTCCTCTCTTT
*
988546 AAGTGCTTCTCCTCCTCTCTTT
1 AAGTGCTGCTCCTCCTCTCTTT
988568 GTGTGCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.36, G:0.11, T:0.43
Consensus pattern (22 bp):
AAGTGCTGCTCCTCCTCTCTTT
Found at i:988900 original size:51 final size:49
Alignment explanation
Indices: 988836--988944 Score: 137
Period size: 49 Copynumber: 2.2 Consensus size: 49
988826 AATGTGCTGG
* * * *
988836 AATGAATGCATTATAATATAATGAGCTTCCATGCATGTGTGCATCAACTAA
1 AATGAATGCATTAT-A-ATAATGAACTGCCATGCATGTCTGCACCAACTAA
* * *
988887 AATGAATGTATTATAATAGTGAACTGCCGTGCATGTCTGCACCAACTAA
1 AATGAATGCATTATAATAATGAACTGCCATGCATGTCTGCACCAACTAA
988936 AATGAATGC
1 AATGAATGC
988945 CATGTGTGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
49 36 0.72
50 1 0.02
51 13 0.26
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (49 bp):
AATGAATGCATTATAATAATGAACTGCCATGCATGTCTGCACCAACTAA
Found at i:990090 original size:10 final size:10
Alignment explanation
Indices: 990075--990101 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
990065 ATTAAATTAT
990075 CATTCATATG
1 CATTCATATG
990085 CATTCATATG
1 CATTCATATG
990095 CATTCAT
1 CATTCAT
990102 TTTATCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (10 bp):
CATTCATATG
Found at i:1005610 original size:17 final size:17
Alignment explanation
Indices: 1005588--1005627 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1005578 CATTACTTTA
1005588 GGTATCCGAAATTTTCG
1 GGTATCCGAAATTTTCG
1005605 GGTATCCGAAATTTTCG
1 GGTATCCGAAATTTTCG
*
1005622 GATATC
1 GGTATC
1005628 TAAAAATTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (17 bp):
GGTATCCGAAATTTTCG
Found at i:1008501 original size:61 final size:61
Alignment explanation
Indices: 1008415--1008549 Score: 209
Period size: 61 Copynumber: 2.2 Consensus size: 61
1008405 AGTATATTAT
* * **
1008415 TTATACCACTTCA-CTTCTAATTACTTTATTTATAATACTGAATTTTAGTTTTCGTTTCAA
1 TTATACCACTTAACCTTCTAAGTACTTTATTTATAATACCAAATTTTAGTTTTCGTTTCAA
* *
1008475 TTATACTACTTAACCTTCTAAGTACTTTATTTATAATACCAAATTTTATTTTTCGTTTCAA
1 TTATACCACTTAACCTTCTAAGTACTTTATTTATAATACCAAATTTTAGTTTTCGTTTCAA
1008536 TTATACCACTTAAC
1 TTATACCACTTAAC
1008550 GTAAAATCGA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
60 11 0.16
61 56 0.84
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.48
Consensus pattern (61 bp):
TTATACCACTTAACCTTCTAAGTACTTTATTTATAATACCAAATTTTAGTTTTCGTTTCAA
Found at i:1019537 original size:2 final size:2
Alignment explanation
Indices: 1019532--1019556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1019522 TCTCTCTCTG
1019532 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1019557 TCTGATTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1021195 original size:51 final size:51
Alignment explanation
Indices: 1021118--1021220 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
1021108 TCTTGTGGTC
* * * *
1021118 GTGGGATCGAGTTTCACTGAGGGCAATTTATAACGGAGGTTTTCTACGGAA
1 GTGGGATCGAGTCTCACTGAGAGCAATTCATAACGGAGGTCTTCTACGGAA
* *
1021169 GTGGGATTGAGTCTCACTGAGAGCAATTCATAACGGATGTCTTCTACGGAA
1 GTGGGATCGAGTCTCACTGAGAGCAATTCATAACGGAGGTCTTCTACGGAA
1021220 G
1 G
1021221 CTGCTCTCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (51 bp):
GTGGGATCGAGTCTCACTGAGAGCAATTCATAACGGAGGTCTTCTACGGAA
Found at i:1035556 original size:12 final size:12
Alignment explanation
Indices: 1035539--1035569 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1035529 AACCTTAAAC
1035539 ATAAATTTATTA
1 ATAAATTTATTA
1035551 ATAAATTTATTA
1 ATAAATTTATTA
1035563 ATAAATT
1 ATAAATT
1035570 GAGGAAAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAATTTATTA
Found at i:1036023 original size:2 final size:2
Alignment explanation
Indices: 1036016--1036041 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1036006 TTAATTGAAT
1036016 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1036042 GTGGTTAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1039918 original size:30 final size:30
Alignment explanation
Indices: 1039884--1039942 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
1039874 CGTGTGCTAG
1039884 ATCAGGTTGGTTATTTGGGCAGAGTGCTCC
1 ATCAGGTTGGTTATTTGGGCAGAGTGCTCC
*
1039914 ATCAGGTTGGTTATTTGGGCGGAGTGCTC
1 ATCAGGTTGGTTATTTGGGCAGAGTGCTC
1039943 TTTCTCGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.36, T:0.34
Consensus pattern (30 bp):
ATCAGGTTGGTTATTTGGGCAGAGTGCTCC
Found at i:1042738 original size:84 final size:84
Alignment explanation
Indices: 1042647--1042815 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
1042637 ATATTAGTCA
*
1042647 ACATTCACCTTAAATCACATCAATTCAATAAAAATAAACTGTTTAAAAAAAAGTAAACAGTTGGA
1 ACATTCACCTTAAATCACATCAATTCAATAAAAATAAACTGTTTAAAAAAAAGCAAACAGTTGGA
1042712 ACTGGTTGTTGCTTTTGCT
66 ACTGGTTGTTGCTTTTGCT
*
1042731 ACATTCACCTTAAATCACATCAATTCAATAAAAATAAACTGTTTAAAAAAAAGCAAACTGTTGGA
1 ACATTCACCTTAAATCACATCAATTCAATAAAAATAAACTGTTTAAAAAAAAGCAAACAGTTGGA
1042796 ACTGGTTGTTGCTTTTGCT
66 ACTGGTTGTTGCTTTTGCT
1042815 A
1 A
1042816 TAGAGTTGAT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (84 bp):
ACATTCACCTTAAATCACATCAATTCAATAAAAATAAACTGTTTAAAAAAAAGCAAACAGTTGGA
ACTGGTTGTTGCTTTTGCT
Found at i:1044002 original size:35 final size:37
Alignment explanation
Indices: 1043957--1044025 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 37
1043947 TCGAATATCA
*
1043957 TAAATATTATATATAAATAT-T-TAATTTTATATAAT
1 TAAAAATTATATATAAATATATATAATTTTATATAAT
* *
1043992 TAAAAATTATATTTAAATATATATTATTTTATAT
1 TAAAAATTATATATAAATATATATAATTTTATAT
1044026 TTACTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 18 0.62
36 1 0.03
37 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (37 bp):
TAAAAATTATATATAAATATATATAATTTTATATAAT
Found at i:1044634 original size:27 final size:30
Alignment explanation
Indices: 1044604--1044659 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1044594 TCAAAATATT
*
1044604 ATTATTTTA-TAT-A-TTTAATAATAATAG
1 ATTATTTTAGTATCATTTTAATAAAAATAG
1044631 ATTATTTTAGTATCATTTTAATAAAAATA
1 ATTATTTTAGTATCATTTTAATAAAAATA
1044660 CTAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 9 0.36
28 3 0.12
29 1 0.04
30 12 0.48
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (30 bp):
ATTATTTTAGTATCATTTTAATAAAAATAG
Found at i:1044923 original size:43 final size:45
Alignment explanation
Indices: 1044876--1044980 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 45
1044866 TGATTTTAAT
* *
1044876 ATTAATATTATTAATATCTTATTAATATTATTTT-T-AATAAGTA
1 ATTAATATTATTAATAACATATTAATATTATTTTATAAATAAGTA
* * *
1044919 ATTAATATAATTAATAACATATTATTCTTATTTTCATAAATAAGTA
1 ATTAATATTATTAATAACATATTAATATTATTTT-ATAAATAAGTA
1044965 ATATAAT-TTA-TAATAA
1 AT-TAATATTATTAATAA
1044981 TTTTGTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
43 29 0.56
45 7 0.13
46 12 0.23
47 4 0.08
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (45 bp):
ATTAATATTATTAATAACATATTAATATTATTTTATAAATAAGTA
Found at i:1044942 original size:20 final size:20
Alignment explanation
Indices: 1044874--1044942 Score: 50
Period size: 20 Copynumber: 3.3 Consensus size: 20
1044864 TTTGATTTTA
* *
1044874 ATATTAATATTATTAATATC
1 ATATTAATATAATTAATAAC
* *
1044894 TTATTAATATTATTTTTAATAA-
1 ATATTAATA-TA--ATTAATAAC
*
1044916 GTAATTAATATAATTAATAAC
1 AT-ATTAATATAATTAATAAC
1044937 ATATTA
1 ATATTA
1044943 TTCTTATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 19 0.51
21 2 0.05
22 3 0.08
23 13 0.35
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (20 bp):
ATATTAATATAATTAATAAC
Found at i:1044964 original size:46 final size:43
Alignment explanation
Indices: 1044876--1044977 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
1044866 TGATTTTAAT
* * *
1044876 ATTAATATTATTAATATCTTATTAATATTATTTTTAATAAGTA
1 ATTAATATAATTAATAACATATTAATATTATTTTTAATAAGTA
* * * *
1044919 ATTAATATAATTAATAACATATTATTCTTA-TTTTCATAAATA
1 ATTAATATAATTAATAACATATTAATATTATTTTTAATAAGTA
* *
1044961 AGTAATATAATTTATAA
1 ATTAATATAATTAATAA
1044978 TAATTTTGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (43 bp):
ATTAATATAATTAATAACATATTAATATTATTTTTAATAAGTA
Found at i:1049180 original size:2 final size:2
Alignment explanation
Indices: 1049175--1049212 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1049165 TATAAAATTA
1049175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1049213 TAAAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1052475 original size:21 final size:19
Alignment explanation
Indices: 1052442--1052487 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
1052432 TCTAACCCTA
1052442 TAAATAAAATAAAAACAAT
1 TAAATAAAATAAAAACAAT
*
1052461 TAAATAATCAATAAAAAGAAT
1 TAAATAA--AATAAAAACAAT
*
1052482 TGAATA
1 TAAATA
1052488 TATGCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (19 bp):
TAAATAAAATAAAAACAAT
Found at i:1054064 original size:11 final size:11
Alignment explanation
Indices: 1054048--1054082 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1054038 TTATTTTAAA
*
1054048 TAATTTATCAT
1 TAATTTATAAT
*
1054059 TAATTTTTAAT
1 TAATTTATAAT
1054070 TAATTTATAAT
1 TAATTTATAAT
1054081 TA
1 TA
1054083 TACGTTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TAATTTATAAT
Found at i:1054067 original size:22 final size:22
Alignment explanation
Indices: 1054041--1054082 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1054031 TCATCCTTTA
*
1054041 TTTTAAATAATTTATCATTAAT
1 TTTTAAATAATTTATAATTAAT
*
1054063 TTTTAATTAATTTATAATTA
1 TTTTAAATAATTTATAATTA
1054083 TACGTTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAATAATTTATAATTAAT
Found at i:1059028 original size:2 final size:2
Alignment explanation
Indices: 1059021--1059047 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1059011 GAATTTTTGC
1059021 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1059048 TATTTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1059618 original size:20 final size:19
Alignment explanation
Indices: 1059580--1059619 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
1059570 TATAAAAAAG
* *
1059580 TTATTTAATTAAATTATTA
1 TTATTTAAATAAATCATTA
1059599 TTATTATAAATAAATCATTA
1 TTATT-TAAATAAATCATTA
1059619 T
1 T
1059620 GCGATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTTAAATAAATCATTA
Found at i:1061704 original size:2 final size:2
Alignment explanation
Indices: 1061697--1061721 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1061687 TCTGACCTAA
1061697 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1061722 ATCTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1064074 original size:15 final size:16
Alignment explanation
Indices: 1064054--1064093 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
1064044 AAGGTAAACT
*
1064054 GAACCGAAATTAA-CC
1 GAACCGAAATCAACCC
1064069 GAACCGAAATCAACCC
1 GAACCGAAATCAACCC
*
1064085 GAACTGAAA
1 GAACCGAAA
1064094 GTAATATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.47, C:0.28, G:0.15, T:0.10
Consensus pattern (16 bp):
GAACCGAAATCAACCC
Found at i:1065842 original size:2 final size:2
Alignment explanation
Indices: 1065835--1065861 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1065825 GCAACTATTC
1065835 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1065862 GAATTGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1074113 original size:29 final size:29
Alignment explanation
Indices: 1074080--1074154 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
1074070 AAAAATATTG
1074080 AATACTTTAGGTACTTATTTTGACCAAAA
1 AATACTTTAGGTACTTATTTTGACCAAAA
* * *
1074109 AATACTCTATGTACCTATTTTGACCAAAA
1 AATACTTTAGGTACTTATTTTGACCAAAA
1074138 AATACTTTAGGTACTTA
1 AATACTTTAGGTACTTA
1074155 GATTTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (29 bp):
AATACTTTAGGTACTTATTTTGACCAAAA
Found at i:1081100 original size:120 final size:120
Alignment explanation
Indices: 1080920--1081164 Score: 447
Period size: 120 Copynumber: 2.0 Consensus size: 120
1080910 GAAGCGTGGG
*
1080920 AAAAATATTTTAGTTTTTTTTTCTATTTTTAATCTTTTTTTCAAATTTAATTAGTACATTGTTGG
1 AAAAACATTTTAGTTTTTTTTTCTATTTTTAATCTTTTTTTCAAATTTAATTAGTACATTGTTGG
*
1080985 GTAAATTACAAAATTAGTAACTTTTTTTATTTTTTAATGTATGGTCACTCGATTT
66 GTAAACTACAAAATTAGTAACTTTTTTTATTTTTTAATGTATGGTCACTCGATTT
1081040 AAAAACATTTTAG-TTTTTTTTCTATTTTTAATCCTTTTTTTCAAATTTAATTAGTACATTGTTG
1 AAAAACATTTTAGTTTTTTTTTCTATTTTTAAT-CTTTTTTTCAAATTTAATTAGTACATTGTTG
*
1081104 GGTAAACTACAAAATTGGTAACTTTTTTTATTTTTTAATGTATGGTCACTCGATTT
65 GGTAAACTACAAAATTAGTAACTTTTTTTATTTTTTAATGTATGGTCACTCGATTT
1081160 AAAAA
1 AAAAA
1081165 AATTAATTCG
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
119 19 0.16
120 102 0.84
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (120 bp):
AAAAACATTTTAGTTTTTTTTTCTATTTTTAATCTTTTTTTCAAATTTAATTAGTACATTGTTGG
GTAAACTACAAAATTAGTAACTTTTTTTATTTTTTAATGTATGGTCACTCGATTT
Found at i:1082712 original size:18 final size:19
Alignment explanation
Indices: 1082682--1082724 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1082672 TATTCTCTTA
1082682 TTTT-TTTACTTTAATCGC
1 TTTTATTTACTTTAATCGC
*
1082700 TTTTATTTA-TTTAATCGT
1 TTTTATTTACTTTAATCGC
1082718 TTTTATT
1 TTTTATT
1082725 ACTACTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTATTTACTTTAATCGC
Found at i:1084264 original size:19 final size:19
Alignment explanation
Indices: 1084240--1084293 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
1084230 ACCGAAACCG
1084240 GTTTTTTTGGTTCGGTTCA
1 GTTTTTTTGGTTCGGTTCA
** *
1084259 GTTTTTTT--AACGGTTCG
1 GTTTTTTTGGTTCGGTTCA
*
1084276 GGTTTTTTGGTTCGGTTC
1 GTTTTTTTGGTTCGGTTC
1084294 GGTTCGGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 13 0.48
19 14 0.52
ACGTcount: A:0.06, C:0.11, G:0.28, T:0.56
Consensus pattern (19 bp):
GTTTTTTTGGTTCGGTTCA
Found at i:1084294 original size:19 final size:19
Alignment explanation
Indices: 1084242--1084295 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
1084232 CGAAACCGGT
*
1084242 TTTTTTGGTTCGGTTC-AG
1 TTTTTTGGTTCGGTTCGGG
*
1084260 TTTTTT--TAACGGTTCGGG
1 TTTTTTGGT-TCGGTTCGGG
1084278 TTTTTTGGTTCGGTTCGG
1 TTTTTTGGTTCGGTTCGG
1084296 TTCGGTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 1 0.03
17 6 0.21
18 13 0.45
19 8 0.28
20 1 0.03
ACGTcount: A:0.06, C:0.11, G:0.30, T:0.54
Consensus pattern (19 bp):
TTTTTTGGTTCGGTTCGGG
Found at i:1088708 original size:5 final size:5
Alignment explanation
Indices: 1088682--1088738 Score: 54
Period size: 5 Copynumber: 12.6 Consensus size: 5
1088672 ATTCTGTTAC
*
1088682 ATTTT A-TTT A-TTT A-TTT A-TTT ATTTT ATTTT ATTTT -TTGT -TTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
*
1088726 GTTTT ATTTT ATT
1 ATTTT ATTTT ATT
1088739 CAATCAAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
4 22 0.47
5 25 0.53
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:1090932 original size:18 final size:18
Alignment explanation
Indices: 1090909--1090976 Score: 127
Period size: 18 Copynumber: 3.8 Consensus size: 18
1090899 TGCTTATTCT
1090909 TTTTCAAAATCAAAACAG
1 TTTTCAAAATCAAAACAG
1090927 TTTTCAAAATCAAAACAG
1 TTTTCAAAATCAAAACAG
*
1090945 TTTTCAAAATCAAAACAA
1 TTTTCAAAATCAAAACAG
1090963 TTTTCAAAATCAAA
1 TTTTCAAAATCAAA
1090977 GATTGACTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.29
Consensus pattern (18 bp):
TTTTCAAAATCAAAACAG
Found at i:1091426 original size:18 final size:19
Alignment explanation
Indices: 1091382--1091429 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
1091372 AAATTTATTC
1091382 TCTTATTTT-TTTACTTTAA
1 TCTT-TTTTATTTACTTTAA
**
1091401 TCACTTTTATTTA-TTTAA
1 TCTTTTTTATTTACTTTAA
1091419 TCTTTTTTATT
1 TCTTTTTTATT
1091430 ACTACTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (19 bp):
TCTTTTTTATTTACTTTAA
Done.