Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002191.1 Hibiscus syriacus cultivar Beakdansim tig00004465_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: 86638
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:6061 original size:64 final size:65
Alignment explanation
Indices: 5968--6123 Score: 165
Period size: 64 Copynumber: 2.4 Consensus size: 65
5958 ATAAGACCTA
* * * *
5968 GTGCATCGTTACACT-AATTACATTCGATGTTTCAA-AAGAGTCAGGAGTACATCGAT-CATGGT
1 GTGCATCGATACA-TAAAATACATTCGATGTTTCAATAA-AATCAGGAGGACATCGATGCATGGT
6030 TT
64 TT
* * * *
6032 GTGCATCGATACATAAAATACATTTGATGTTTCAATAAAATTATGAGGGCATCGATGCATGGTTT
1 GTGCATCGATACATAAAATACATTCGATGTTTCAATAAAATCAGGAGGACATCGATGCATGGTTT
* * * *
6097 ATGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGATACATAAAATACATTCGA
6124 ATTAGGGTGT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 1 0.01
64 43 0.57
65 32 0.42
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (65 bp):
GTGCATCGATACATAAAATACATTCGATGTTTCAATAAAATCAGGAGGACATCGATGCATGGTTT
Found at i:17399 original size:18 final size:18
Alignment explanation
Indices: 17376--17444 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
17366 AGCAAATTTG
17376 GTATCGATACTCATGGGA
1 GTATCGATACTCATGGGA
* *
17394 GTATCGATACCCAGGGTAGA
1 GTATCGATACTCATGG--GA
* *
17414 GTATCAATACTCTTAATAGGA
1 GTATCGATACTC---ATGGGA
17435 GTATCGATAC
1 GTATCGATAC
17445 CAAGGTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 14 0.36
20 12 0.31
21 11 0.28
23 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATCGATACTCATGGGA
Found at i:17522 original size:21 final size:21
Alignment explanation
Indices: 17496--17548 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
17486 TACTCAGGTG
*
17496 AATATCGATACCTAATGGGTA-
1 AATATCGATACCT-ATGGGCAC
* *
17517 AATATCAATA-CTATTGGCAC
1 AATATCGATACCTATGGGCAC
17537 AATATCGATACC
1 AATATCGATACC
17549 CACAGTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.19
20 11 0.42
21 10 0.38
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (21 bp):
AATATCGATACCTATGGGCAC
Found at i:17543 original size:103 final size:102
Alignment explanation
Indices: 17331--17548 Score: 244
Period size: 103 Copynumber: 2.1 Consensus size: 102
17321 ACTCAGAGGT
*** * * *
17331 CAATATCGATATTGAGGCATTTTTTAAAATATTGAAGCAAATTTGGTATCGATACTCATGGGAGT
1 CAATATCGATACCAAGGCATTTTTCAAAACATTGAAGCAAATTTGGTATCGATACTCATGGGAAT
* * * *
17396 ATCGATACCCAGGGTAGAGTATCAATACTCTTAATAG
66 ATCGATACCAAGGGTAGAATATCAATACTATTAACAG
* * *
17433 GAGTATCGATACCAAGGTATTTTTCAAAACATTGAAGCAAATTTTGGTATCGATACTCA-GGTGA
1 CAATATCGATACCAAGGCATTTTTCAAAACATTGAAGCAAA-TTTGGTATCGATACTCATGG-GA
**
17497 ATATCGATACCTAATGGGTA-AATATCAATACTATTGGCA-
64 ATATCGATACC-AA-GGGTAGAATATCAATACTATTAACAG
17536 CAATATCGATACC
1 CAATATCGATACC
17549 CACAGTGATT
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
102 35 0.37
103 40 0.42
104 15 0.16
105 5 0.05
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (102 bp):
CAATATCGATACCAAGGCATTTTTCAAAACATTGAAGCAAATTTGGTATCGATACTCATGGGAAT
ATCGATACCAAGGGTAGAATATCAATACTATTAACAG
Found at i:22477 original size:18 final size:18
Alignment explanation
Indices: 22450--22489 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
22440 AGTTTTCAAA
*
22450 AAAAACATAA-TTAAATC
1 AAAAACATAATTTAAAAC
22467 AAAAACAATAATTTAAAAC
1 AAAAAC-ATAATTTAAAAC
22486 AAAA
1 AAAA
22490 CATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 10 0.50
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAACATAATTTAAAAC
Found at i:22968 original size:21 final size:23
Alignment explanation
Indices: 22913--22957 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
22903 ACCCCTCTAG
* *
22913 GGGTATCGATATATATTCAAAGA
1 GGGTATCGATACACATTCAAAGA
22936 GGGTATCGATACACATTCAAAG
1 GGGTATCGATACACATTCAAAG
22958 TGTATCGATA
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:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (23 bp):
GGGTATCGATACACATTCAAAGA
Found at i:28711 original size:27 final size:27
Alignment explanation
Indices: 28660--28718 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
28650 ATTCATCAAA
*
28660 AATAAAAAAAAATTAAAACTTAAAATT
1 AATAAAAAAAAATTAAAACTTAAAAAT
* *
28687 AATATAAAAAATTTAAAA-TTAAAAAAT
1 AATAAAAAAAAATTAAAACTT-AAAAAT
28714 AATAA
1 AATAA
28719 TAATTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (27 bp):
AATAAAAAAAAATTAAAACTTAAAAAT
Found at i:31165 original size:189 final size:192
Alignment explanation
Indices: 30805--31178 Score: 506
Period size: 189 Copynumber: 2.0 Consensus size: 192
30795 TCTTTAATAT
* * * * * * *
30805 TCTTATTAGTCATTGGATGAGATGAGCTTTAGCGATTCAATGGAGTATTTAGAATCATGTTCTGT
1 TCTTATTAGCCATTGAATCAGATGAGCTTTACCAATTCAATAGAGCATTTAGAA-CATGTTCTGT
* * * * *
30870 AGTATCATGTTATCCTTGTGTGCGACTTGCTGATATCTCATCTTTTCAAATTTAGAGTTTATCAA
65 AGCATCATGTTATCCTTGTGTGCAACTTCCTGATATCTCATCTTTCCAAATTAAGAGTTTATCAA
30935 AATTTTATGTTTAAAACAATGCATAACATCTAAGTAATTGATGTTGAAGGATATCTTTGCTCC
130 AATTTTATGTTTAAAACAATGCATAACATCTAAGTAATTGATGTTGAAGGATATCTTTGCTCC
* *
30998 TCTTATTGGCCATTGAATCAGATGAGCTTTACCAATTCAATAGAGCATTTGGAA-A-GTTCTGTA
1 TCTTATTAGCCATTGAATCAGATGAGCTTTACCAATTCAATAGAGCATTTAGAACATGTTCTGTA
* * * *
31061 GCATTATGTTATCCTTGTGTGCAACTTCCTGATCTGTCATC-TTCCAAATTAATG-GTTTCTCAA
66 GCATCATGTTATCCTTGTGTGCAACTTCCTGATATCTCATCTTTCCAAATTAA-GAGTTTATCAA
* *
31124 CAA-TTTATGTTTAAAACAATGCATCACATGTAAGTAATTGATGTTGAAGGATATC
130 -AATTTTATGTTTAAAACAATGCATAACATCTAAGTAATTGATGTTGAAGGATATC
31179 ATATATTATT
Statistics
Matches: 159, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
189 67 0.42
190 46 0.29
191 1 0.01
193 45 0.28
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (192 bp):
TCTTATTAGCCATTGAATCAGATGAGCTTTACCAATTCAATAGAGCATTTAGAACATGTTCTGTA
GCATCATGTTATCCTTGTGTGCAACTTCCTGATATCTCATCTTTCCAAATTAAGAGTTTATCAAA
ATTTTATGTTTAAAACAATGCATAACATCTAAGTAATTGATGTTGAAGGATATCTTTGCTCC
Found at i:51059 original size:36 final size:36
Alignment explanation
Indices: 51016--51326 Score: 320
Period size: 36 Copynumber: 8.6 Consensus size: 36
51006 GTAAGCTCAG
* * *
51016 GTATATCATGCATATGATCATTATTAGCAAGCATAT
1 GTATATCATGCATATAATCATTATTAGCAGGCACAT
* * **
51052 GTGTATCATGCATATAATCATTATTGGCAGGTGCAT
1 GTATATCATGCATATAATCATTATTAGCAGGCACAT
* ** ** *
51088 GTATATCGTATATATAATCATTAGCAACAAGGGCA-A-
1 GTATATCATGCATATAATCATTATTAGC-A-GGCACAT
* * * *
51124 GAATATCATGCATGTAATCATCATTAGCAAGCACAT
1 GTATATCATGCATATAATCATTATTAGCAGGCACAT
* ***
51160 GGATATCATGCATACGCTCATTATTAGCAGGCACAT
1 GTATATCATGCATATAATCATTATTAGCAGGCACAT
* ** *
51196 GTATATAATGCATATAATCATTATTAATAGGCGCAT
1 GTATATCATGCATATAATCATTATTAGCAGGCACAT
* *
51232 GCATATGATGCATATAATCATTATTAGCAGGCACAT
1 GTATATCATGCATATAATCATTATTAGCAGGCACAT
* **
51268 GTATATCATGCATATGATCATTATTAGCAGGGGCAT
1 GTATATCATGCATATAATCATTATTAGCAGGCACAT
51304 GTATATCATGCATATAATCATTA
1 GTATATCATGCATATAATCATTA
51327 GCAATAAGCG
Statistics
Matches: 218, Mismatches: 53, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
34 3 0.01
35 2 0.01
36 209 0.96
37 2 0.01
38 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (36 bp):
GTATATCATGCATATAATCATTATTAGCAGGCACAT
Found at i:51130 original size:108 final size:108
Alignment explanation
Indices: 51018--51330 Score: 387
Period size: 108 Copynumber: 2.9 Consensus size: 108
51008 AAGCTCAGGT
* * * *
51018 ATATCATGCATATGATCATTATTAGCAAGCATATGTGTATCATGCATATAATCATTATTGGCAGG
1 ATATCATGCATATAATCATTATTAGCAAGCACATGTGTATCATGCATATGATCATTATTAGCAGG
* * **
51083 TGCATGTATATCGTATATATAATCATTAGCAACAAGG-GCAAGA
66 CGCATGTATATCATGCATATAATCATTAGCAA-AAGGCGCAAGA
* * * *
51126 ATATCATGCATGTAATCATCATTAGCAAGCACATG-GATATCATGCATACGCTCATTATTAGCAG
1 ATATCATGCATATAATCATTATTAGCAAGCACATGTG-TATCATGCATATGATCATTATTAGCAG
* * ** * * *
51190 GCACATGTATATAATGCATATAATCATTATTAATAGGCGCATGC
65 GCGCATGTATATCATGCATATAATCATTAGCAAAAGGCGCAAGA
* * *
51234 ATATGATGCATATAATCATTATTAGCAGGCACATGTATATCATGCATATGATCATTATTAGCAGG
1 ATATCATGCATATAATCATTATTAGCAAGCACATGTGTATCATGCATATGATCATTATTAGCAGG
*
51299 GGCATGTATATCATGCATATAATCATTAGCAA
66 CGCATGTATATCATGCATATAATCATTAGCAA
51331 TAAGCGTATG
Statistics
Matches: 171, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
107 4 0.02
108 167 0.98
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (108 bp):
ATATCATGCATATAATCATTATTAGCAAGCACATGTGTATCATGCATATGATCATTATTAGCAGG
CGCATGTATATCATGCATATAATCATTAGCAAAAGGCGCAAGA
Found at i:51232 original size:144 final size:144
Alignment explanation
Indices: 50920--51326 Score: 360
Period size: 144 Copynumber: 2.8 Consensus size: 144
50910 AGATCACGCT
** * * * * * *
50920 TATAATCATTATTCTCAAGCACAT-CAATATCATACATATAATTATTAGCAACAAGCACGGATAT
1 TATAATCATTATTAACAGGCGCATGC-ATATCGTATATATAATCATTAGCAACAAGCACAGATAT
* * * * *
50984 ATCATGCTTGTATTCATCAGTAGTAAGCTCAGGTATATCATGCATATGATCATTATTAGCAAGCA
65 ATCATGCATGTAATCATCAGTAGCAAGCACAGGTATATCATGCATACGATCATTATTAGCAAGCA
* * *
51049 TATGTGTATCATGCA
130 CATGTATATAATGCA
** * *
51064 TATAATCATTATTGGCAGGTGCATGTATATCGTATATATAATCATTAGCAACAAGGGCA-AGA-A
1 TATAATCATTATTAACAGGCGCATGCATATCGTATATATAATCATTAGCAACAA--GCACAGATA
* * *
51127 TATCATGCATGTAATCATCATTAGCAAGCACATGG-ATATCATGCATACGCTCATTATTAGCAGG
64 TATCATGCATGTAATCATCAGTAGCAAGCACA-GGTATATCATGCATACGATCATTATTAGCAAG
51191 CACATGTATATAATGCA
128 CACATGTATATAATGCA
* ** * *
51208 TATAATCATTATTAATAGGCGCATGCATAT-G-ATGCATATAATCATTATTAGCAGGCACATG-T
1 TATAATCATTATTAACAGGCGCATGCATATCGTAT--ATATAATCATTAGCAACAAGCACA-GAT
* * * * * ** * **
51270 ATATCATGCATATGATCATTATTAGCAGGGGCATGTATATCATGCATATAATCATTA
63 ATATCATGCATGTAATCATCAGTAGCAAGCACAGGTATATCATGCATACGATCATTA
51327 GCAATAAGCG
Statistics
Matches: 213, Mismatches: 40, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
142 5 0.02
143 3 0.01
144 198 0.93
145 4 0.02
146 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (144 bp):
TATAATCATTATTAACAGGCGCATGCATATCGTATATATAATCATTAGCAACAAGCACAGATATA
TCATGCATGTAATCATCAGTAGCAAGCACAGGTATATCATGCATACGATCATTATTAGCAAGCAC
ATGTATATAATGCA
Found at i:59448 original size:31 final size:30
Alignment explanation
Indices: 59413--59481 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
59403 CATTCACAAT
* *
59413 TTTTCTAAAATTAC-TAAATCGGTCCCCCAAC
1 TTTTCTAAAATTACAT-AAT-GGTCCCCAAAA
*
59444 TTTTCAAAAATTACATAATGGTCCCCAAAA
1 TTTTCTAAAATTACATAATGGTCCCCAAAA
59474 TTTTCTAA
1 TTTTCTAA
59482 GACTTTAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 16 0.48
31 16 0.48
32 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (30 bp):
TTTTCTAAAATTACATAATGGTCCCCAAAA
Found at i:59469 original size:30 final size:31
Alignment explanation
Indices: 59413--59478 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
59403 CATTCACAAT
* * *
59413 TTTTCTAAAATTACTAAATCGGTCCCCCAAC
1 TTTTCAAAAATTACTAAATCGGTCCCCAAAA
59444 TTTTCAAAAATTAC-ATAAT-GGTCCCCAAAA
1 TTTTCAAAAATTACTA-AATCGGTCCCCAAAA
59474 TTTTC
1 TTTTC
59479 TAAGACTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (31 bp):
TTTTCAAAAATTACTAAATCGGTCCCCAAAA
Found at i:64446 original size:4 final size:4
Alignment explanation
Indices: 64437--66042 Score: 3024
Period size: 4 Copynumber: 405.0 Consensus size: 4
64427 TTTTACGGTG
64437 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
64485 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
64533 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
64581 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
64629 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
64677 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
64725 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
64773 CATA CATA CAT- -ATA TATA CATA TATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
64819 CATA CATA CATA CATA CATA CATA CATA TATA CATA CATA TATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
64867 CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
64913 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
64961 TATA CATA TATA CATA CATA TATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
65009 CATA CATA TATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65057 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65105 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65153 CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65199 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65247 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65295 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
65343 CATA CATA CATA CATA CATA CATA CATA CATG CATA CATG CAT- -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65389 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65437 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65485 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65531 CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65577 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65625 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65671 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65719 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65767 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65815 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65863 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65911 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
65959 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
66007 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
66043 TTTCACTCGA
Statistics
Matches: 1570, Mismatches: 18, Indels: 28
0.97 0.01 0.02
Matches are distributed among these distances:
2 14 0.01
4 1556 0.99
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:67000 original size:38 final size:38
Alignment explanation
Indices: 66957--67048 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
66947 AAGGATTTGG
* * *
66957 TTCCCAACTTAAAATCTAGTTTCTAACTTGAAACCTTA
1 TTCCCAACCTAAAATCTAGTTTCCAACTTGAAACCATA
* * * *
66995 TTCCCAACCTGAAATTTGGTTTCCAACTTGAAATCATA
1 TTCCCAACCTAAAATCTAGTTTCCAACTTGAAACCATA
*
67033 TTCCCAACCTGAAATC
1 TTCCCAACCTAAAATC
67049 AGGTTCCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.34
Consensus pattern (38 bp):
TTCCCAACCTAAAATCTAGTTTCCAACTTGAAACCATA
Found at i:67039 original size:19 final size:19
Alignment explanation
Indices: 66957--67049 Score: 64
Period size: 19 Copynumber: 4.9 Consensus size: 19
66947 AAGGATTTGG
*
66957 TTCCCAACTTAAAATC-TA
1 TTCCCAACTTGAAATCATA
* * * *
66975 GTTTCTAACTTGAAACCTTA
1 -TTCCCAACTTGAAATCATA
* * *
66995 TTCCCAACCTGAAAT-TTGG
1 TTCCCAACTTGAAATCAT-A
*
67014 TTTCCAACTTGAAATCATA
1 TTCCCAACTTGAAATCATA
*
67033 TTCCCAACCTGAAATCA
1 TTCCCAACTTGAAATCA
67050 GGTTCCTAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
18 2 0.04
19 51 0.91
20 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (19 bp):
TTCCCAACTTGAAATCATA
Found at i:67055 original size:19 final size:19
Alignment explanation
Indices: 66995--67055 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
66985 TGAAACCTTA
**
66995 TTCCCAACCTGAAATTTGG
1 TTCCCAACCTGAAATCAGG
* * **
67014 TTTCCAACTTGAAATCATA
1 TTCCCAACCTGAAATCAGG
67033 TTCCCAACCTGAAATCAGG
1 TTCCCAACCTGAAATCAGG
67052 TTCC
1 TTCC
67056 TAAATCATAA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (19 bp):
TTCCCAACCTGAAATCAGG
Found at i:68939 original size:24 final size:24
Alignment explanation
Indices: 68901--68947 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
68891 TTTAATCTTT
68901 AAATTCATAATTTTAATATTTTTAA
1 AAATTCATAATTTTAA-ATTTTTAA
*
68926 AAATTTAT-ATTTTAAATTTTTA
1 AAATTCATAATTTTAAATTTTTA
68948 TATTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATTCATAATTTTAAATTTTTAA
Found at i:68955 original size:14 final size:15
Alignment explanation
Indices: 68909--68956 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
68899 TTAAATTCAT
*
68909 AATTTTAATATTTTTA
1 AATTTTTATA-TTTTA
**
68925 AAAATTTATATTTTA
1 AATTTTTATATTTTA
68940 AATTTTTATA-TTTA
1 AATTTTTATATTTTA
68954 AAT
1 AAT
68957 ATCAAAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 7 0.26
15 13 0.48
16 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATTTTTATATTTTA
Found at i:76628 original size:137 final size:135
Alignment explanation
Indices: 76202--76657 Score: 524
Period size: 133 Copynumber: 3.4 Consensus size: 135
76192 AATCATATAT
* * * * * *
76202 GAAAATTTTGATTCACTTCAAC-G-TACTTTAGGGAAGATTGAATCGAATGTGATTTGCTCCACT
1 GAAAATTTTGATCCACTTC-ACTGCT-CTTCAGGGAAGAATGAATCGAATTTGATTTGCTTCGCT
* * *
76265 ATTCTTGAGGAGGACC-ACTCT-AAA-ACAGAAGAAT-A-TGCTCCACTACTCTTTAGGGGAGAT
64 GTTCTT-AGGAAGACCAAATCTGAAAGA-AGAAGAATAATTGCTCCACTACTCTTTAGGGGAGAT
*
76325 CAG-A-CTA
127 CAGAATCAA
*
76332 GAGAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCGAATTTGATTTGCTTCGTTG
1 GA-AAATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCGAATTTGATTTGCTTCGCTG
* *
76397 TTCTTATGAAAGACCAAATCTGAAAGAA-AAAAAT-A-TGCTCCACTACTCTTTAGGGGAGATCA
65 TTCTTA-GGAAGACCAAATCTGAAAGAAGAAGAATAATTGCTCCACTACTCTTTAGGGGAGATCA
* **
76459 GACTGGA
129 GAATCAA
* * ** *
76466 GAAAACTTTGATCCACTTCACTGCTCTTTAGGGAAGCTTGAATCGAATTTGATTTGCTTCGCTGC
1 GAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCGAATTTGATTTGCTTCGCTGT
76531 TCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATAATCTGCTCCACTACTCTTTAGGGGAGATCA
66 TCTT-AGGAAGACCAAATCTGAAAGAAGAAGAATAAT-TGCTCCACTACTCTTTAGGGGAGATCA
76596 GAATCAA
129 GAATCAA
* ** *
76603 GAAAATTTTGATCCATTTCGTTGCTCTTCAGGGAAG-ATGAATCGAACTTGATTTG
1 GAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCGAATTTGATTTG
76658 TTTCTCTTAT
Statistics
Matches: 279, Mismatches: 33, Indels: 22
0.84 0.10 0.07
Matches are distributed among these distances:
130 5 0.02
131 60 0.22
132 39 0.14
133 85 0.30
134 10 0.04
135 1 0.00
136 17 0.06
137 62 0.22
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (135 bp):
GAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCGAATTTGATTTGCTTCGCTGT
TCTTAGGAAGACCAAATCTGAAAGAAGAAGAATAATTGCTCCACTACTCTTTAGGGGAGATCAGA
ATCAA
Found at i:77329 original size:51 final size:51
Alignment explanation
Indices: 77311--77511 Score: 251
Period size: 51 Copynumber: 3.9 Consensus size: 51
77301 TTGAGGAAGA
77311 ATACTATTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAAATG
1 ATACTATTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAAATG
* * * *
77362 ATACTATTGAAAAGTTGGCTCCTCTTC-GCGAGAAATTCAAGTTGATAAATG
1 ATACTATTGAAAAGTTGACTCCTC-TCAGCGAGAAAGTCAAGTTAAGAAATG
* * *** *
77413 ATACTACTGAAAAGTTGGCTCCTCTCCTTGAGAAAGTCAAGTTGAGAAATG
1 ATACTATTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAAATG
* * * * *
77464 CTACTACTGAAAAGTTGACTCCTCTCCGCAAGAAAGTCAAGTTGAGAA
1 ATACTATTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAA
77512 GGACATCACT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
50 2 0.01
51 130 0.97
52 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (51 bp):
ATACTATTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAAATG
Found at i:77446 original size:102 final size:102
Alignment explanation
Indices: 77311--77508 Score: 288
Period size: 102 Copynumber: 1.9 Consensus size: 102
77301 TTGAGGAAGA
* *
77311 ATACTATTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAAATGATACTATTGAAAAG
1 ATACTACTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAAATGATACTACTGAAAAG
* * * *
77376 TTGGCTCCTCTTCGCGAGAAATTCAAGTTGATAAATG
66 TTGACTCCTCTCCGCAAGAAAGTCAAGTTGATAAATG
* *** * *
77413 ATACTACTGAAAAGTTGGCTCCTCTCCTTGAGAAAGTCAAGTTGAGAAATGCTACTACTGAAAAG
1 ATACTACTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAAATGATACTACTGAAAAG
77478 TTGACTCCTCTCCGCAAGAAAGTCAAGTTGA
66 TTGACTCCTCTCCGCAAGAAAGTCAAGTTGA
77509 GAAGGACATC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 84 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (102 bp):
ATACTACTGAAAAGTTGACTCCTCTCAGCGAGAAAGTCAAGTTAAGAAATGATACTACTGAAAAG
TTGACTCCTCTCCGCAAGAAAGTCAAGTTGATAAATG
Found at i:77599 original size:45 final size:45
Alignment explanation
Indices: 77508--77849 Score: 300
Period size: 45 Copynumber: 7.6 Consensus size: 45
77498 AGTCAAGTTG
* * * *
77508 AGAAGGACATCACTAAAAGGTTGA-TTCCTCTTTC-TGAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTT-CTC-TTCACGAGAAAGTCA
* * * * * *
77553 AGAATCATAACACTGAAAGATTAACTTCTCTTCATGAGAAAATCA
1 AGAATGACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCA
* * * *
77598 AGAATAACACCACTAAAAGGTTGACTTCTCTTCACGAGAAATTCA
1 AGAATGACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCA
* * *
77643 AGAGTGACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCA
* * * *
77688 AGGAA-GACAATACTGAAAGATTGACTTCTCTTTACGAAAAAGTCA
1 A-GAATGACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCA
** * * * *
77733 AGGAA-GACAACGTTAAAAGATTGACTCCTCTTTATGAGAAAGTTA
1 A-GAATGACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCA
** * * *
77778 ATGAA-GACAACGTTAAAAGATTGACTCCTTTTCACGATAAAGTCA
1 A-GAATGACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCA
77823 AGGAA-GACAACACTAAAAGATTGACTT
1 A-GAATGACAACACTAAAAGATTGACTT
77850 GCCTATCAAT
Statistics
Matches: 248, Mismatches: 46, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
44 3 0.01
45 241 0.97
46 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.25
Consensus pattern (45 bp):
AGAATGACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCA
Found at i:77764 original size:135 final size:135
Alignment explanation
Indices: 77513--77849 Score: 364
Period size: 135 Copynumber: 2.5 Consensus size: 135
77503 AGTTGAGAAG
* * * * * *
77513 GACATCACTAAAAGGTTGATTCCTCTTT-CTGAGAAAGTCAA-GAATCATAACACTGAAAGATTA
1 GACAACACTAAAAGATTGACTCCTCTTTAC-GAGAAAGTCAAGGAA-GACAACACTGAAAGATTG
* * * *
77576 ACTTCTCTTCATGAGAAAATCAAGAATAACACCACTAAAAGGTTGACTTCTCTTCACGAGAAA-T
64 ACTTCTCTTCACGAGAAAATCAAGAATAACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGT
*
77640 TCAA-GAGT
129 T-AATGA-A
*
77648 GACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAGGAAGACAATACTGAAAGATTGAC
1 GACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAGGAAGACAACACTGAAAGATTGAC
* * ** * *
77713 TTCTCTTTACGA-AAAAGTCAAGGAA-GACAACGTTAAAAGATTGACTCCTCTTTATGAGAAAGT
66 TTCTCTTCACGAGAAAA-TCAA-GAATAACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGT
77776 TAATGAA
129 TAATGAA
** * *
77783 GACAACGTTAAAAGATTGACTCCT-TTTCACGATAAAGTCAAGGAAGACAACACTAAAAGATTGA
1 GACAACACTAAAAGATTGACTCCTCTTT-ACGAGAAAGTCAAGGAAGACAACACTGAAAGATTGA
77847 CTT
65 CTT
77850 GCCTATCAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
134 7 0.04
135 154 0.90
136 11 0.06
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (135 bp):
GACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAGGAAGACAACACTGAAAGATTGAC
TTCTCTTCACGAGAAAATCAAGAATAACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTTA
ATGAA
Found at i:78103 original size:15 final size:16
Alignment explanation
Indices: 78085--78135 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
78075 TCTTTCTTCC
78085 TTTTCTTTTTCT-TTT
1 TTTTCTTTTTCTCTTT
*
78100 TTTT-TTTGTTCTCTAT
1 TTTTCTTT-TTCTCTTT
78116 TTTTCTTTTTCTCTTT
1 TTTTCTTTTTCTCTTT
78132 TTTT
1 TTTT
78136 TTATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 3 0.10
15 8 0.26
16 17 0.55
17 3 0.10
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTCTCTTT
Found at i:78147 original size:30 final size:31
Alignment explanation
Indices: 78085--78148 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
78075 TCTTTCTTCC
* * ***
78085 TTTTCTTTTTCTTTTTTTTTTTGTTCTCTAT
1 TTTTCTTTTTCTCTTTTTTTTTGATAAATAT
78116 TTTTCTTTTTCTCTTTTTTTTT-ATAAATAT
1 TTTTCTTTTTCTCTTTTTTTTTGATAAATAT
78146 TTT
1 TTT
78149 AAATGAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTTCTTTTTCTCTTTTTTTTTGATAAATAT
Found at i:78719 original size:258 final size:257
Alignment explanation
Indices: 78148--78995 Score: 1083
Period size: 258 Copynumber: 3.3 Consensus size: 257
78138 ATAAATATTT
** * *
78148 TAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTATT-ACAAATACCATATGAAAGCATCTTGC
1 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTT-TTGA-AAAT--CATATGAAAACATCCTGC
* * * * *
78212 CTGAAAGTCTTATAGA-TGGTCGAAGGACTTATCATCTTGCTCGAAAGACTGACATATGACCCGA
62 CCGAAGGTCTTATAGATTGCTCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGA
* * * * *
78276 ATGATTTAACCATCATGCTCAAAAGACTTACTGATGGCCCGAAGAACTTATCAATTTTGGAAATA
127 AAGATTTAATCATCATGCTCGAAAGGCTTACTGATGGCCCGAAGAACTTACCAATTTTGGAAATA
* * *
78341 GTCTATTGGGTAAGAAACTTTGGAAATCACTTTCTTACATTTCAAAAAATTCATTTTTTGAAAAC
192 GT-TATTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAAC
78406 AC
256 AC
* * * * * **
78408 TGAATGATAAACTTTGGAAATCATTTTCTCAGTTTTTGAAAATCATATGAAAACATTATGCCCGA
1 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTGAAAATCATATGAAAACATCCTGCCCGA
* * * * * *
78473 AGGTCTTATAGATTTCTCGAATGACATATCAACTTGCTAGAAAGACTGACAGATGACCCGAAGGA
66 AGGTCTTATAGATTGCTCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAAGA
* * * * *
78538 ATTAATTATCATGCTCGAAAGGCTTATTGATGGCCCAAATG-ACTTACCAATTTTGAAAATAGAT
131 TTTAATCATCATGCTCGAAAGGCTTACTGATGGCCCGAA-GAACTTACCAATTTTGGAAATAG-T
* * *
78602 TACTGGGTAAGAAACTTTGGCAATCGTTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAACAC
194 TATTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAACAC
* **
78666 TAAATGAGAAACTTTGAAAATCACTTTCTTATTTTTTGAAAATCACGTGAAAACATCCTGCCCGA
1 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTGAAAATCATATGAAAACATCCTGCCCGA
* * * * * *
78731 ATGTCTTATAGATGGCCCGAAAAACTTATCATCTTGCTCGAATGACTGACAGATGACCCAAAAGA
66 AGGTCTTATAGATTGCTCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAAGA
* *
78796 TTTAATCATTATGCTTGAAAGGCTTACTGATGGCCCGAAGAACTTACCAATTTTGGAAATAGTTC
131 TTTAATCATCATGCTCGAAAGGCTTACTGATGGCCCGAAGAACTTACCAATTTTGGAAATAGTT-
* * * *
78861 ATTGGGTAAAAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTATCTGAAAATAC
195 ATTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAACAC
* * * *
78924 TAAATGAGAAACTTTGGAAATCACTTTCTCA-TTTTTGAAATTCATGTGAAAACATCCTACCCGA
1 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTGAAAATCATATGAAAACATCCTGCCCGA
78988 AGGTCTTA
66 AGGTCTTA
78996 CGGATGGCCC
Statistics
Matches: 505, Mismatches: 77, Indels: 15
0.85 0.13 0.03
Matches are distributed among these distances:
257 69 0.14
258 399 0.79
259 8 0.02
260 29 0.06
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (257 bp):
TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTGAAAATCATATGAAAACATCCTGCCCGA
AGGTCTTATAGATTGCTCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAAGA
TTTAATCATCATGCTCGAAAGGCTTACTGATGGCCCGAAGAACTTACCAATTTTGGAAATAGTTA
TTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAACAC
Found at i:79112 original size:153 final size:154
Alignment explanation
Indices: 78871--79158 Score: 416
Period size: 153 Copynumber: 1.9 Consensus size: 154
78861 ATTGGGTAAA
* *
78871 AAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTATCTGAAAATACTAAATGAGAAAC
1 AAACTTTGGAAATCGCTTTCCTACTTTTCAAAAATTTCATTATCAGAAAATACTAAATGAGAAAC
* * * * *
78936 TTTGGAAATCACTTTCTCATTTTTGAAATTCATGTGAAAACATCCTACCCGAAGGTCTTACGGAT
66 TTTGAAAATCACATTCTCATTTTTGAAAATCATGTGAAAACATCCTACCCAAAGGTCTTACAGAT
79001 GGCCCGAAGGATTTAGTAACTAAG
131 GGCCCGAAGGATTTAGTAACTAAG
* ** * *
79025 AAACTTTGGAAATCGTTTTCCTACTTTTTTAAAA-TTCATTTTCAGAAAATATTAAATGAGAAAC
1 AAACTTTGGAAATCGCTTTCCTACTTTTCAAAAATTTCATTATCAGAAAATACTAAATGAGAAAC
** * * *
79089 TTTGAAAATTTCATTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCTAAAGGTCTTATAGAT
66 TTTGAAAATCACATTCTCATTTTTGAAAATCATGTGAAAACATCCTACCCAAAGGTCTTACAGAT
79154 GGCCC
131 GGCCC
79159 AAATGACTTA
Statistics
Matches: 117, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
153 87 0.74
154 30 0.26
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (154 bp):
AAACTTTGGAAATCGCTTTCCTACTTTTCAAAAATTTCATTATCAGAAAATACTAAATGAGAAAC
TTTGAAAATCACATTCTCATTTTTGAAAATCATGTGAAAACATCCTACCCAAAGGTCTTACAGAT
GGCCCGAAGGATTTAGTAACTAAG
Found at i:79438 original size:258 final size:257
Alignment explanation
Indices: 79021--79679 Score: 914
Period size: 258 Copynumber: 2.6 Consensus size: 257
79011 ATTTAGTAAC
* **
79021 TAAGAAACTTTGGAAATCGTTTTCCTACTTTTTTAAAA-TTCATTTTC-AGAAAATA-TTAAATG
1 TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTA-AAAATACTT-AATG
* ** * *
79083 AGAAACTTTGAAAATTTCATTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCTAAAGGTCTT
64 AGAAACTTTGGAAATAACTTTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCTGAAGGTCTT
* *
79148 ATAGATGGCCCAAATGACTTATCATCTTGCTCGAAAGAC-AGACAGATG-ACCCAAAGGATTTAA
129 ATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTA-ACAGATGAACCCAAA-GATTTAA
* *
79211 TCATCATGCTCGAAAGGCTTACTGATGGCCCGAAGGACATACTAATTTTGAAAATAGTTTACTGG
192 TCATCATGCTCGAAAGGCTTACTGATGGCCCGAAGGACATACCAATTTGGAAAATAGTTTACTGG
79276 G
257 G
* *
79277 TAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACACTTAATGAG
1 TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTTAATGAG
* * *
79342 AAACTTTGGAAATAACTTTCTCATTTTTTGAAAATCACGTGAAAACATCTTGCCCGAAGGTCTTA
66 AAACTTTGGAAATAACTTTCTCA-TTTTTGAAAATCATGTGAAAACATCCTGCCTGAAGGTCTTA
* *
79407 TAGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGAACCGAAAGATTTAATCA
130 TAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGAACCCAAAGATTTAATCA
* * *
79472 TCATGCTCGAAAGGCTTACTGATGGCCTGAAGGACTTACCAATTTGGGAAATAGTTTACTGGG
195 TCATGCTCGAAAGGCTTACTGATGGCCCGAAGGACATACCAATTTGGAAAATAGTTTACTGGG
* * * * * * *
79535 TAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAATTTTCATTGTATGAAAATACTAAATGAG
1 TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTTAATGAG
* * * * * *
79600 AAACTTTGGAAATCACTTTCTCATTTTTGAAATTCATATAAAAACATCCTACCTGAAGGTCTTAC
66 AAACTTTGGAAATAACTTTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCTGAAGGTCTTAT
*
79665 GGATGGCCCGAAGGA
131 AGATGGCCCGAAGGA
79680 TGTACTAAGT
Statistics
Matches: 355, Mismatches: 42, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
256 34 0.10
257 86 0.24
258 228 0.64
259 7 0.02
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (257 bp):
TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTTAATGAG
AAACTTTGGAAATAACTTTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCTGAAGGTCTTAT
AGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGAACCCAAAGATTTAATCAT
CATGCTCGAAAGGCTTACTGATGGCCCGAAGGACATACCAATTTGGAAAATAGTTTACTGGG
Found at i:79439 original size:21 final size:21
Alignment explanation
Indices: 79387--79445 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
79377 CACGTGAAAA
* *
79387 CATCTTGCCCGAAGGTCTTAT
1 CATCTTGCTCGAAGGACTTAT
** *
79408 -AGATGGCTCGAAGGACTTAT
1 CATCTTGCTCGAAGGACTTAT
*
79428 CATCTTGCTCGAAAGACT
1 CATCTTGCTCGAAGGACT
79446 AACAGATGAA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (21 bp):
CATCTTGCTCGAAGGACTTAT
Found at i:79720 original size:668 final size:667
Alignment explanation
Indices: 78350--79925 Score: 2337
Period size: 668 Copynumber: 2.4 Consensus size: 667
78340 AGTCTATTGG
** * ** * * *
78350 GTAAGAAACTTTGGAAATCACTTTCTTACATTTCAAAAAATTCATTTTTTGAAAACACTGAATGA
1 GTAAGAAACTTTGGAAATCGTTTTCTTAC-TTTTAAAAAATTCATTTTAAGAAAATATTAAATGA
* * * **
78415 TAAACTTTGGAAA--TCATTTTCTCAGTTTTTGAAAATCATATGAAAACATTATGCCCGAAGGTC
65 GAAACTTTGAAAATTTCA--TTCTCA-TTTTTGAAAATCATGTGAAAACATCCTG-CCGAAGGTC
* * * * * * *
78478 TTATAGATTTCTCGAATGACATATCAACTTGCTAGAAAGACTGACAGATGACCCGAAGGAATTAA
126 TTATAGATATCCCAAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAA
* * * *
78543 TTATCATGCTCGAAAGGCTTATTGATGGCCCAAATGACTTACCAATTTTGAAAATAGATTACTGG
191 TTATCATGCTCGAAAGGCTTACTGATGGCCCGAAGGACTTACTAATTTTGAAAATAGATTACTGG
* * * *
78608 GTAAGAAACTTTGGCAATCGTTTTCTTACTTTTCAAAAATTTCATTTTTTGAAAACACTAAATGA
256 GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACACTAAATGA
* * *
78673 GAAACTTTGAAAATCACTTTCTTATTTTTTGAAAATCACGTGAAAACATCCTGCCCGAATGTCTT
321 GAAACTTTGAAAATAACTTTCTCATTTTTTGAAAATCACGTGAAAACATCCTGCCCGAAGGTCTT
* * *
78738 ATAGATGGCCCGAAAAACTTATCATCTTGCTCGAATGACTGACAGATGACCCAAAAGATTTAATC
386 ATAGATGGCCCGAAAAACTTATCATCTTGCTCGAAAGACTAACAGATGAACCAAAAGATTTAATC
* * * *
78803 ATTATGCTTGAAAGGCTTACTGATGGCCCGAAGAACTTACCAATTTTGGAAATAGTTCATTGGGT
451 ATCATGCTCGAAAGGCTTACTGATGGCCCGAAGAACTTACCAATTTGGGAAATAGTTCACTGGGT
*
78868 AAAAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTATCTGAAAATACTAAATGAGA
516 AAAAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTATATGAAAATACTAAATGAGA
* *
78933 AACTTTGGAAATCACTTTCTCATTTTTGAAATTCATGTGAAAACATCCTACCCGAAGGTCTTACG
581 AACTTTGGAAATCACTTTCTCATTTTTGAAATTCATATAAAAACATCCTACCCGAAGGTCTTACG
* *
78998 GATGGCCCGAAGGATTTAGTAA
646 GATGGCCCGAAGGATGTACTAA
* * ** *
79020 CTAAGAAACTTTGGAAATCGTTTTCCTACTTTTTTAAAATTCATTTTCAGAAAATATTAAATGAG
1 GTAAGAAACTTTGGAAATCGTTTTCTTACTTTTAAAAAATTCATTTTAAGAAAATATTAAATGAG
*
79085 AAACTTTGAAAATTTCATTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCTAAAGGTCTTAT
66 AAACTTTGAAAATTTCATTCTCATTTTTGAAAATCATGTGAAAACATCCTGCC-GAAGGTCTTAT
** * * *
79150 AGATGGCCCAAATGACTTATCATCTTGCTCGAAAGACAGACAGATGACCCAAAGGATTTAATCAT
130 AGATATCCCAAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAATTAT
* *
79215 CATGCTCGAAAGGCTTACTGATGGCCCGAAGGACATACTAATTTTGAAAATAGTTTACTGGGTAA
195 CATGCTCGAAAGGCTTACTGATGGCCCGAAGGACTTACTAATTTTGAAAATAGATTACTGGGTAA
*
79280 GAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACACTTAATGAGAAA
260 GAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACACTAAATGAGAAA
* *
79345 CTTTGGAAATAACTTTCTCATTTTTTGAAAATCACGTGAAAACATCTTGCCCGAAGGTCTTATAG
325 CTTTGAAAATAACTTTCTCATTTTTTGAAAATCACGTGAAAACATCCTGCCCGAAGGTCTTATAG
* ** *
79410 ATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGAACCGAAAGATTTAATCATCA
390 ATGGCCCGAAAAACTTATCATCTTGCTCGAAAGACTAACAGATGAACCAAAAGATTTAATCATCA
* * * *
79475 TGCTCGAAAGGCTTACTGATGGCCTGAAGGACTTACCAATTTGGGAAATAGTTTACTGGGTAAGA
455 TGCTCGAAAGGCTTACTGATGGCCCGAAGAACTTACCAATTTGGGAAATAGTTCACTGGGTAAAA
* * *
79540 AACTTTGGAAATCGCTTTCTTATTTTTCAAAATTTTCATTGTATGAAAATACTAAATGAGAAACT
520 AACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTATATGAAAATACTAAATGAGAAACT
*
79605 TTGGAAATCACTTTCTCATTTTTGAAATTCATATAAAAACATCCTACCTGAAGGTCTTACGGATG
585 TTGGAAATCACTTTCTCATTTTTGAAATTCATATAAAAACATCCTACCCGAAGGTCTTACGGATG
79670 GCCCGAAGGATGTACTAA
650 GCCCGAAGGATGTACTAA
*
79688 GTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTTAAGAAAATATTAAATG
1 GTAAGAAACTTTGGAAATCGTTTTCTTACTTTT-AAAAAATTCA-TTTTAAGAAAATATTAAATG
* *
79753 AGAAACTTTGAAAATTTCTTTCTCGTTTTTGAAAATCATGTGAAAACATCCTGTCCGAAGGTCTT
64 AGAAACTTTGAAAATTTCATTCTCATTTTTGAAAATCATGTGAAAACATCCTG-CCGAAGGTCTT
* * * *
79818 ATAGATATCCCAAATGACTTATCATCTTACTCGAAAGACTTACACATGACCCGAATGATTTAATT
128 ATAGATATCCCAAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAATT
* *
79883 ATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACTAA
193 ATCATGCTCGAAAGGCTTACTGATGGCCCGAAGGACTTACTAA
79926 GTAATAAACT
Statistics
Matches: 810, Mismatches: 90, Indels: 12
0.89 0.10 0.01
Matches are distributed among these distances:
667 2 0.00
668 553 0.68
669 51 0.06
670 199 0.25
671 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (667 bp):
GTAAGAAACTTTGGAAATCGTTTTCTTACTTTTAAAAAATTCATTTTAAGAAAATATTAAATGAG
AAACTTTGAAAATTTCATTCTCATTTTTGAAAATCATGTGAAAACATCCTGCCGAAGGTCTTATA
GATATCCCAAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAATTATC
ATGCTCGAAAGGCTTACTGATGGCCCGAAGGACTTACTAATTTTGAAAATAGATTACTGGGTAAG
AAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACACTAAATGAGAAAC
TTTGAAAATAACTTTCTCATTTTTTGAAAATCACGTGAAAACATCCTGCCCGAAGGTCTTATAGA
TGGCCCGAAAAACTTATCATCTTGCTCGAAAGACTAACAGATGAACCAAAAGATTTAATCATCAT
GCTCGAAAGGCTTACTGATGGCCCGAAGAACTTACCAATTTGGGAAATAGTTCACTGGGTAAAAA
ACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTATATGAAAATACTAAATGAGAAACTT
TGGAAATCACTTTCTCATTTTTGAAATTCATATAAAAACATCCTACCCGAAGGTCTTACGGATGG
CCCGAAGGATGTACTAA
Found at i:79804 original size:155 final size:154
Alignment explanation
Indices: 79534--79818 Score: 419
Period size: 155 Copynumber: 1.8 Consensus size: 154
79524 AGTTTACTGG
* * *
79534 GTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAATTTTCATTGTATGAAAATACTAAATGA
1 GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTGTAAGAAAATACTAAATGA
* *
79599 GAAACTTTGGAAATCACTTTCTCATTTTTGAAATTCATATAAAAACATCCT-ACCTGAAGGTCTT
66 GAAACTTTGAAAATCACTTTCTCATTTTTGAAAATCATATAAAAACATCCTGACC-GAAGGTCTT
79663 ACGGATGGCCCGAAGGATGTACTAA
130 ACGGATGGCCCGAAGGATGTACTAA
* * *
79688 GTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTTAAGAAAATATTAAATG
1 GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCA-TTGTAAGAAAATACTAAATG
** * * * *
79753 AGAAACTTTGAAAATTTCTTTCTCGTTTTTGAAAATCATGTGAAAACATCCTGTCCGAAGGTCTT
65 AGAAACTTTGAAAATCACTTTCTCATTTTTGAAAATCATATAAAAACATCCTGACCGAAGGTCTT
79818 A
130 A
79819 TAGATATCCC
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
154 41 0.36
155 72 0.63
156 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (154 bp):
GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTGTAAGAAAATACTAAATGA
GAAACTTTGAAAATCACTTTCTCATTTTTGAAAATCATATAAAAACATCCTGACCGAAGGTCTTA
CGGATGGCCCGAAGGATGTACTAA
Found at i:81743 original size:2 final size:2
Alignment explanation
Indices: 81736--81766 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
81726 CTTTATTGTG
81736 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
81767 ATCACCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.