Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 95 of 109
Found at i:19099687 original size:19 final size:19
Alignment explanation
Indices: 19099665--19099703 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19099655 AAGGAATCAA
19099665 CCCCTTGAAAAGGGTGGGG
1 CCCCTTGAAAAGGGTGGGG
19099684 CCCCTTGAAAAGGGTGGGG
1 CCCCTTGAAAAGGGTGGGG
19099703 C
1 C
19099704 ATGTTTGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.41, T:0.15
Consensus pattern (19 bp):
CCCCTTGAAAAGGGTGGGG
Found at i:19106298 original size:20 final size:21
Alignment explanation
Indices: 19106273--19106319 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
19106263 CGTAAAAATC
19106273 TAATGTAATTATTAATTTT-T
1 TAATGTAATTATTAATTTTAT
*
19106293 TAATGTAATTATTGATTTTAT
1 TAATGTAATTATTAATTTTAT
19106314 TAATGT
1 TAATGT
19106320 GACAGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (21 bp):
TAATGTAATTATTAATTTTAT
Found at i:19108652 original size:16 final size:17
Alignment explanation
Indices: 19108618--19108650 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19108608 GATCTTTATT
*
19108618 TTTTTCTTTTAAAAAAA
1 TTTTTCATTTAAAAAAA
19108635 TTTTTCATTTAAAAAA
1 TTTTTCATTTAAAAAA
19108651 TTAATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTTCATTTAAAAAAA
Found at i:19109014 original size:25 final size:26
Alignment explanation
Indices: 19108986--19109034 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
19108976 TTTTTTTACC
19108986 TTTTTAA-C-TTTTTTCATAATTAAAA
1 TTTTTAATCATTTTTT-ATAATTAAAA
*
19109011 TTTTTAATCATTTTTTTTAATTAA
1 TTTTTAATCATTTTTTATAATTAA
19109035 TTTTTTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 8 0.38
27 6 0.29
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTTAATCATTTTTTATAATTAAAA
Found at i:19114316 original size:19 final size:20
Alignment explanation
Indices: 19114280--19114317 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
19114270 GAATCATAAG
*
19114280 TTTTCATTTTTTTATTTTGA
1 TTTTCATTTTTTGATTTTGA
*
19114300 TTTT-ATTTTTTGGTTTTG
1 TTTTCATTTTTTGATTTTG
19114318 GCTTTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (20 bp):
TTTTCATTTTTTGATTTTGA
Found at i:19114342 original size:31 final size:34
Alignment explanation
Indices: 19114287--19114358 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 34
19114277 AAGTTTTCAT
** *
19114287 TTTTTTATTTTGATTTTATTTTTTGGTTTTGG-C
1 TTTTTTATTTTGATTTTACATTTTGATTTTGGTC
19114320 TTTTTTA-TTT-ATTTTACATTTTGATTTTGGTTC
1 TTTTTTATTTTGATTTTACATTTTGATTTTGG-TC
19114353 TTTTTT
1 TTTTTT
19114359 TCAGTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 17 0.50
32 3 0.09
33 14 0.41
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.74
Consensus pattern (34 bp):
TTTTTTATTTTGATTTTACATTTTGATTTTGGTC
Found at i:19119980 original size:10 final size:10
Alignment explanation
Indices: 19119965--19119994 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19119955 ATCAAGCTTT
19119965 TATATTTTAA
1 TATATTTTAA
19119975 TATATTTTAA
1 TATATTTTAA
19119985 T-TATTTTAA
1 TATATTTTAA
19119994 T
1 T
19119995 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:19122462 original size:190 final size:190
Alignment explanation
Indices: 19122150--19122531 Score: 730
Period size: 190 Copynumber: 2.0 Consensus size: 190
19122140 ATTAATAAAA
19122150 ATCTCATTTTTATATTAATTAAATTTGATAATATTGATCGAATATTAATGATGTTAATTATTCTC
1 ATCTCATTTTTATATTAATTAAATTTGATAATATTGATCGAATATTAATGATGTTAATTATTCTC
19122215 CTTTAATTTTGTTAGTATGACATTAATTTTACTAACCATTAAAAATAACATTAAATTTTATATCT
66 CTTTAATTTTGTTAGTATGACATTAATTTTACTAACCATTAAAAATAACATTAAATTTTATATCT
19122280 ATATTCTTTTAAATATTATTAAATTAATTTAAAATAAAAAATTTAATTTAATTAATTTAT
131 ATATTCTTTTAAATATTATTAAATTAATTTAAAATAAAAAATTTAATTTAATTAATTTAT
19122340 ATCTCATTTTTATATTAATTAAATTTGATAATATTGATCGAATATTAATGATGTTAATTATTC-C
1 ATCTCATTTTTATATTAATTAAATTTGATAATATTGATCGAATATTAATGATGTTAATTATTCTC
* *
19122404 CTTTTAATTTTGTTAGTATGACATTAATTTTACTAACCCTTACAAATAACATTAAATTTTATATC
66 C-TTTAATTTTGTTAGTATGACATTAATTTTACTAACCATTAAAAATAACATTAAATTTTATATC
19122469 TATATTCTTTTAAATATTATTAAATTAATTTAAAATAAAAAATTTAATTTAATTAATTTAT
130 TATATTCTTTTAAATATTATTAAATTAATTTAAAATAAAAAATTTAATTTAATTAATTTAT
19122530 AT
1 AT
19122532 AACCATTTAA
Statistics
Matches: 189, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
189 2 0.01
190 187 0.99
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.48
Consensus pattern (190 bp):
ATCTCATTTTTATATTAATTAAATTTGATAATATTGATCGAATATTAATGATGTTAATTATTCTC
CTTTAATTTTGTTAGTATGACATTAATTTTACTAACCATTAAAAATAACATTAAATTTTATATCT
ATATTCTTTTAAATATTATTAAATTAATTTAAAATAAAAAATTTAATTTAATTAATTTAT
Found at i:19126113 original size:2 final size:2
Alignment explanation
Indices: 19126106--19126139 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
19126096 GATGTGAGTG
* *
19126106 TA TA TA TA TA TA CA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19126140 CACACACATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:19127288 original size:10 final size:10
Alignment explanation
Indices: 19127273--19127305 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
19127263 AATATATACC
19127273 ATAATTTTTA
1 ATAATTTTTA
19127283 ATAATTTTTA
1 ATAATTTTTA
19127293 ATAATTTATTA
1 ATAATTT-TTA
19127304 AT
1 AT
19127306 TTTACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:19127335 original size:29 final size:29
Alignment explanation
Indices: 19127263--19127344 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 29
19127253 ATAAAAATAA
** * *
19127263 AATATATACCATAATTTTTAATAATTTTT
1 AATATATATTATAAATTTTAATAATATTT
*
19127292 AATA-AT-TTATTAATTTTACA-AATATTT
1 AATATATATTATAAATTTTA-ATAATATTT
*
19127319 AATATATATTATAAA-TTTAATTATAT
1 AATATATATTATAAATTTTAATAATAT
19127345 AAAAATTTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
27 19 0.45
28 13 0.31
29 10 0.24
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
AATATATATTATAAATTTTAATAATATTT
Found at i:19127352 original size:16 final size:16
Alignment explanation
Indices: 19127301--19127352 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
19127291 TAATAATTTA
* * *
19127301 TTAATTTTACAAATAT
1 TTAATTATATAAAAAT
*
19127317 TTAATATATATTATAAAT
1 TTAAT-TATA-TAAAAAT
19127335 TTAATTATATAAAAAT
1 TTAATTATATAAAAAT
19127351 TT
1 TT
19127353 TGATATAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 13 0.45
17 7 0.24
18 9 0.31
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTATATAAAAAT
Found at i:19128813 original size:19 final size:19
Alignment explanation
Indices: 19128786--19128826 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
19128776 ATCATTAAAC
*
19128786 CATACAATAAACATAAAAT
1 CATAAAATAAACATAAAAT
*
19128805 CATAAAATAAATATAAAAT
1 CATAAAATAAACATAAAAT
19128824 CAT
1 CAT
19128827 CCAACAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.24
Consensus pattern (19 bp):
CATAAAATAAACATAAAAT
Found at i:19130413 original size:37 final size:37
Alignment explanation
Indices: 19130330--19130413 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
19130320 GCTGCTGGCA
* * *
19130330 GAGTGCAGGATAGTGGATCAAGGTGTTGGGGCTGATG
1 GAGTGCAGGGTAGTGGATCAAGGTATTGGAGCTGATG
19130367 GAGTGCAGGGTAGTGGATC-AGGCTATTGGAGCT-AGTG
1 GAGTGCAGGGTAGTGGATCAAGG-TATTGGAGCTGA-TG
19130404 GAGTGCAGGG
1 GAGTGCAGGG
19130414 CCTATCTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 4 0.10
37 38 0.90
ACGTcount: A:0.21, C:0.10, G:0.46, T:0.23
Consensus pattern (37 bp):
GAGTGCAGGGTAGTGGATCAAGGTATTGGAGCTGATG
Found at i:19131220 original size:22 final size:22
Alignment explanation
Indices: 19131128--19131211 Score: 98
Period size: 22 Copynumber: 3.8 Consensus size: 22
19131118 ATTTTACTTG
*
19131128 AAGGTCTTACAGATTATGTCTA
1 AAGGTCTTAGAGATTATGTCTA
*
19131150 AAGATCTTAGAGATTATGTCTA
1 AAGGTCTTAGAGATTATGTCTA
* * * *
19131172 AAAGTTTTAAAGATTAT-ACTCA
1 AAGGTCTTAGAGATTATGTCT-A
19131194 AAGGTCTTAGAGATTATG
1 AAGGTCTTAGAGATTATG
19131212 CCCTAAGGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.04
22 48 0.96
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (22 bp):
AAGGTCTTAGAGATTATGTCTA
Found at i:19131851 original size:102 final size:103
Alignment explanation
Indices: 19131681--19131873 Score: 255
Period size: 102 Copynumber: 1.9 Consensus size: 103
19131671 CTTTTATTTA
* * * * * ** *
19131681 TGAAAATAATTTATTTTTAGAAATAACTTCTAATATGTTGGTAAGATTTTTTGTTAAAAATTATC
1 TGAAAATAATTTATTTTCAAAAATAACTTCTAATATGTTAGTAAAATTTGTCATGAAAAATTATC
**
19131746 TTCCAATATGTTGGTAAAATTGAAAATTTATTTGTTTG
66 TTCCAATACATTGGTAAAATTGAAAATTTATTTGTTTG
19131784 TGAAAATAATTTATTTTCAAAAATATA-TTC-AATATGTTAGTAAAATTTGTCATGAAAAATTAT
1 TGAAAATAATTTATTTTCAAAAATA-ACTTCTAATATGTTAGTAAAATTTGTCATGAAAAATTAT
* *
19131847 CTTCCAATACATTGGTAAGATTTAAAA
65 CTTCCAATACATTGGTAAAATTGAAAA
19131874 AAAAATTTGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
102 50 0.65
103 26 0.34
104 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (103 bp):
TGAAAATAATTTATTTTCAAAAATAACTTCTAATATGTTAGTAAAATTTGTCATGAAAAATTATC
TTCCAATACATTGGTAAAATTGAAAATTTATTTGTTTG
Found at i:19131981 original size:20 final size:20
Alignment explanation
Indices: 19131965--19132013 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
19131955 AAAAATAGTA
19131965 CAATATATCATGCAATAATAT
1 CAAT-TATCATGCAATAATAT
*
19131986 TAATTATCATGCAATTAAATAT
1 CAATTATCATGCAA-T-AATAT
19132008 -AATTAT
1 CAATTAT
19132014 ACAATTATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
21 10 0.40
22 5 0.20
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (20 bp):
CAATTATCATGCAATAATAT
Found at i:19132012 original size:21 final size:20
Alignment explanation
Indices: 19131970--19132013 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
19131960 TAGTACAATA
19131970 TATCATGCAATAATATTAAT
1 TATCATGCAATAATATTAAT
19131990 TATCATGCAATTAA-ATATAAT
1 TATCATGCAA-TAATAT-TAAT
19132011 TAT
1 TAT
19132014 ACAATTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (20 bp):
TATCATGCAATAATATTAAT
Found at i:19132156 original size:13 final size:13
Alignment explanation
Indices: 19132134--19132200 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
19132124 TAACCATAAT
19132134 AAATATTAAAATATA
1 AAATA-TAAAA-ATA
19132149 AAA-ATAAAAAT-
1 AAATATAAAAATA
*
19132160 -AATATAAAAACA
1 AAATATAAAAATA
* *
19132172 AAATAAAAAAATT
1 AAATATAAAAATA
19132185 AAATA-AGAAAATA
1 AAATATA-AAAATA
19132198 AAA
1 AAA
19132201 ATCAAACCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
10 2 0.05
11 7 0.16
12 3 0.07
13 27 0.63
14 1 0.02
15 3 0.07
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (13 bp):
AAATATAAAAATA
Found at i:19132195 original size:21 final size:22
Alignment explanation
Indices: 19132149--19132202 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
19132139 TTAAAATATA
19132149 AAAATAAAAATAATATAAAAAC
1 AAAATAAAAATAATATAAAAAC
*
19132171 AAAATAAAAA-AAT-TAAATAAG
1 AAAATAAAAATAATATAAA-AAC
19132192 AAAATAAAAAT
1 AAAATAAAAAT
19132203 CAAACCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 15 0.52
22 10 0.34
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAATAAAAATAATATAAAAAC
Found at i:19132213 original size:13 final size:12
Alignment explanation
Indices: 19132197--19132238 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
19132187 ATAAGAAAAT
19132197 AAAAATCAAACCA
1 AAAAATCAAA-CA
*
19132210 AAAATTCAAAACA
1 AAAAATC-AAACA
19132223 AAAAAT-AAACA
1 AAAAATCAAACA
19132234 AAAAA
1 AAAAA
19132239 AAGGGAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 10 0.38
13 13 0.50
14 3 0.12
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAATCAAACA
Found at i:19133147 original size:20 final size:20
Alignment explanation
Indices: 19133104--19133147 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19133094 TTTTCCTCTT
* *
19133104 TTTTACTTTTGACCTTTTTT
1 TTTTACTTTTGAACTTTTTC
19133124 TTTTACTTTT-AACTTTTCTC
1 TTTTACTTTTGAACTTTT-TC
19133144 TTTT
1 TTTT
19133148 TGTAACCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTACTTTTGAACTTTTTC
Found at i:19133867 original size:15 final size:16
Alignment explanation
Indices: 19133849--19133911 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
19133839 TTCAAGCGTA
19133849 TTTTTTT-CTTTCCTT
1 TTTTTTTACTTTCCTT
*
19133864 TTTTTTTATTTTCCTT
1 TTTTTTTACTTTCCTT
*
19133880 TTTTTTGACTTTGGCTCTT
1 TTTTTTTACTTT--C-CTT
19133899 TTTTTTTAACTTT
1 TTTTTTT-ACTTT
19133912 TAACTTTACT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
15 7 0.18
16 17 0.44
18 1 0.03
19 9 0.23
20 5 0.13
ACGTcount: A:0.06, C:0.14, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTTTTACTTTCCTT
Found at i:19133991 original size:22 final size:23
Alignment explanation
Indices: 19133955--19133998 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19133945 TCACAAAGTT
19133955 AAAATCAAAACTAAAACTAAAAA
1 AAAATCAAAACTAAAACTAAAAA
* *
19133978 AAAATCTAAA-TAAAATTAAAA
1 AAAATCAAAACTAAAACTAAAA
19133999 TTAAAACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (23 bp):
AAAATCAAAACTAAAACTAAAAA
Found at i:19134378 original size:22 final size:22
Alignment explanation
Indices: 19134337--19134379 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19134327 TATAAGGTTT
* *
19134337 TGCTCGAAGGTCTTACAAATTA
1 TGCTCGAACGTCCTACAAATTA
*
19134359 TGCTCGAACGTCCTATAAATT
1 TGCTCGAACGTCCTACAAATT
19134380 TTGTCATGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (22 bp):
TGCTCGAACGTCCTACAAATTA
Found at i:19134627 original size:40 final size:40
Alignment explanation
Indices: 19134583--19134661 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
19134573 CTTTTAAAGA
*
19134583 TTTAAGATTTTGTGCAAAGGTCTTAGAAATCATGCAAAAT
1 TTTAAAATTTTGTGCAAAGGTCTTAGAAATCATGCAAAAT
* * * *
19134623 TTTAAAATTTTGTTCGAAGGTCTTATAAATCATGTAAAA
1 TTTAAAATTTTGTGCAAAGGTCTTAGAAATCATGCAAAA
19134662 AATCTAAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (40 bp):
TTTAAAATTTTGTGCAAAGGTCTTAGAAATCATGCAAAAT
Found at i:19134734 original size:40 final size:40
Alignment explanation
Indices: 19134598--19134772 Score: 115
Period size: 40 Copynumber: 4.3 Consensus size: 40
19134588 GATTTTGTGC
* *
19134598 AAAGGTCTTAGAAATCATGCAAAATTTTAAAATTTTG-TT
1 AAAGGTCTTAGAAATCATTCAAAATTTTAAAATTTTGCCT
* * * * * ** *
19134637 CGAAGGTCTTATAAATCATGTAAAAAATCTAAGGTTTTACCTT
1 -AAAGGTCTTAGAAATCAT-TCAAAATTTTAAAATTTTGCC-T
* * *
19134680 GAA-GTCTTTGGAAATAATTCAAAATTTTAAAATTTTGCCT
1 AAAGGTC-TTAGAAATCATTCAAAATTTTAAAATTTTGCCT
* * * *
19134720 AAAGGTCTTAGAAATCATTTAGAAA-TCTAAGATTTTGCCC
1 AAAGGTCTTAGAAATCATTCA-AAATTTTAAAATTTTGCCT
*
19134760 AGAGGTCTT-GAAA
1 AAAGGTCTTAGAAA
19134773 ATCAAGTACT
Statistics
Matches: 102, Mismatches: 27, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
39 4 0.04
40 50 0.49
41 36 0.35
42 11 0.11
43 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (40 bp):
AAAGGTCTTAGAAATCATTCAAAATTTTAAAATTTTGCCT
Found at i:19134860 original size:23 final size:21
Alignment explanation
Indices: 19134814--19134864 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
19134804 ATATTTTCAC
*
19134814 TTCAAAATTTTCACTTTTGGT
1 TTCAAAATTTTCACTTTTGAT
19134835 TTCAAAAGTCTTTCACTATTT-AT
1 TTCAAAA-T-TTTCACT-TTTGAT
19134858 TTCAAAA
1 TTCAAAA
19134865 CATTTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 1 0.04
23 15 0.58
24 3 0.12
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (21 bp):
TTCAAAATTTTCACTTTTGAT
Found at i:19136789 original size:23 final size:23
Alignment explanation
Indices: 19136764--19136848 Score: 91
Period size: 23 Copynumber: 3.6 Consensus size: 23
19136754 TTTCTCTTTT
19136764 TTTTC-TTTTTTTTCCTTTTTCA
1 TTTTCATTTTTTTTCCTTTTTCA
* **
19136786 TTTTCATTTTTTTTTCTTTTTTG
1 TTTTCATTTTTTTTCCTTTTTCA
* *
19136809 TTCTCATTGTTTTTTTCATTTTCTCA
1 TTTTCA-T-TTTTTTTCCTTTT-TCA
19136835 TTTTCATTTTTTTT
1 TTTTCATTTTTTTT
19136849 TATTATCTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.10
23 19 0.38
24 8 0.16
25 12 0.24
26 6 0.12
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTCATTTTTTTTCCTTTTTCA
Found at i:19136797 original size:33 final size:36
Alignment explanation
Indices: 19136720--19136807 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 36
19136710 CCTTTTCCCT
19136720 TTTTTCTTTTCTTTTGTTCTTCCCTTTTTTCCATTTTC
1 TTTTT-TTTTCTTTT-TTCTTCCCTTTTTTCCATTTTC
19136758 TCTTTTTTTTCTTTTTT-TT-CC-TTTTT-CATTTTC
1 T-TTTTTTTTCTTTTTTCTTCCCTTTTTTCCATTTTC
19136791 ATTTTTTTTTCTTTTTT
1 -TTTTTTTTTCTTTTTT
19136808 GTTCTCATTG
Statistics
Matches: 48, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
33 22 0.46
34 6 0.12
35 2 0.04
36 2 0.04
37 2 0.04
38 10 0.21
39 4 0.08
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.77
Consensus pattern (36 bp):
TTTTTTTTTCTTTTTTCTTCCCTTTTTTCCATTTTC
Found at i:19138625 original size:40 final size:40
Alignment explanation
Indices: 19138565--19138640 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
19138555 AATGAGGTAC
* *
19138565 CGACTTTCTATTAGCAAAGGTAAAAGGTGAAAAATATGAT
1 CGACCTTCTATTAACAAAGGTAAAAGGTGAAAAATATGAT
* *
19138605 CGACCTTCTATTAATAAAGGTAAAAGGTGAGAAATA
1 CGACCTTCTATTAACAAAGGTAAAAGGTGAAAAATA
19138641 GGGATTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (40 bp):
CGACCTTCTATTAACAAAGGTAAAAGGTGAAAAATATGAT
Found at i:19141137 original size:20 final size:20
Alignment explanation
Indices: 19141112--19141159 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
19141102 AATTTAGGTG
19141112 TGAAATTCTCGGAAGACGCA
1 TGAAATTCTCGGAAGACGCA
19141132 TGAAATTCTCGGAAGACGCA
1 TGAAATTCTCGGAAGACGCA
19141152 TGAAATTC
1 TGAAATTC
19141160 GGAGACCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (20 bp):
TGAAATTCTCGGAAGACGCA
Found at i:19141665 original size:111 final size:111
Alignment explanation
Indices: 19141533--19141756 Score: 412
Period size: 111 Copynumber: 2.0 Consensus size: 111
19141523 TATGCACAAA
*
19141533 TTCCTTTTGATTCAACTTCAATGCACTAATTTTTGCTTTCAATTGATCTCTCATTTCATTATTAT
1 TTCCTCTTGATTCAACTTCAATGCACTAATTTTTGCTTTCAATTGATCTCTCATTTCATTATTAT
* * *
19141598 GATTCTTGCCAAGATAGATATTTTATTTCAAGACTTAAACCAAAAG
66 GATTCTTACCAAGACAGATATTTTATTTCAAAACTTAAACCAAAAG
19141644 TTCCTCTTGATTCAACTTCAATGCACTAATTTTTGCTTTCAATTGATCTCTCATTTCATTATTAT
1 TTCCTCTTGATTCAACTTCAATGCACTAATTTTTGCTTTCAATTGATCTCTCATTTCATTATTAT
19141709 GATTCTTACCAAGACAGATATTTTATTTCAAAACTTAAACCAAAAG
66 GATTCTTACCAAGACAGATATTTTATTTCAAAACTTAAACCAAAAG
19141755 TT
1 TT
19141757 TTATGTTATT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (111 bp):
TTCCTCTTGATTCAACTTCAATGCACTAATTTTTGCTTTCAATTGATCTCTCATTTCATTATTAT
GATTCTTACCAAGACAGATATTTTATTTCAAAACTTAAACCAAAAG
Found at i:19143897 original size:64 final size:64
Alignment explanation
Indices: 19143825--19143945 Score: 208
Period size: 64 Copynumber: 1.9 Consensus size: 64
19143815 TAAAAACCTT
*
19143825 GCATATTAAGAAATTCTCAAAAATA-TTCTAATACATTGGTAATATTAAAAGAAACTTAAACATG
1 GCATATTAAGAAATTCTCAAAAATATTTC-AATACATTGATAATATTAAAAGAAACTTAAACATG
*
19143889 GCATATTAAGAAATTCTCAAAAATATTTCAATACTTTGATAATATTAAAAGAAACTT
1 GCATATTAAGAAATTCTCAAAAATATTTCAATACATTGATAATATTAAAAGAAACTT
19143946 TCTCACATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
64 51 0.94
65 3 0.06
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (64 bp):
GCATATTAAGAAATTCTCAAAAATATTTCAATACATTGATAATATTAAAAGAAACTTAAACATG
Found at i:19144407 original size:3 final size:3
Alignment explanation
Indices: 19144399--19144431 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19144389 ATTCAAATTA
19144399 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19144432 CTTTATATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19145829 original size:96 final size:96
Alignment explanation
Indices: 19145598--19145825 Score: 431
Period size: 96 Copynumber: 2.4 Consensus size: 96
19145588 GGCTCTGGAA
19145598 AGGGGTTGTGATGGAGGTTTGGTTGGGGTGTGGGAAATGGGTTGGCAGGGCCCTGAAGTGGGCTC
1 AGGGGTTGTGATGGAGGTTTGGTTGGGGTGTGGGAAATGGGTTGGCAGGGCCCTGAAGTGGGCTC
19145663 AGGTTGAGCTCAGGGGAAGGGACCGATGATG
66 AGGTTGAGCTCAGGGGAAGGGACCGATGATG
19145694 AGGGGTTGTGATGGAGGTTTGGTTGGGGTGTGGGAAATGGGTTGGCAGGGCCCTGAAGTGGGCTC
1 AGGGGTTGTGATGGAGGTTTGGTTGGGGTGTGGGAAATGGGTTGGCAGGGCCCTGAAGTGGGCTC
19145759 AGGTTGAGCTCAGGGGAAGGGA-CGATGATG
66 AGGTTGAGCTCAGGGGAAGGGACCGATGATG
* *
19145789 AGGGGTTGTGATGGAGGTTCGGTTGGGGTGTGAGAAA
1 AGGGGTTGTGATGGAGGTTTGGTTGGGGTGTGGGAAA
19145826 ATGGTTGCTT
Statistics
Matches: 130, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
95 43 0.33
96 87 0.67
ACGTcount: A:0.18, C:0.09, G:0.50, T:0.24
Consensus pattern (96 bp):
AGGGGTTGTGATGGAGGTTTGGTTGGGGTGTGGGAAATGGGTTGGCAGGGCCCTGAAGTGGGCTC
AGGTTGAGCTCAGGGGAAGGGACCGATGATG
Found at i:19155711 original size:358 final size:353
Alignment explanation
Indices: 19155020--19155738 Score: 1174
Period size: 355 Copynumber: 2.0 Consensus size: 353
19155010 TTTCTTACCA
*
19155020 AAAAAAATCACATCTCATCAAGTGTCATATTTAGATTAAATTCTTGAAAAGTACCCATTAACATT
1 AAAAAAATCACATCTCATCAAGTGTCATATTTAGATTAAATTATTGAAAAGTACCCATTAACATT
19155085 ATCACTTGCAAAATTATGTAAATAAAATAAAGAACAAATAATTGATAATATAAAGTAATAAAAAA
66 ATCACTTGCAAAATTATGTAAATAAAATAAAGAACAAATAATTGATAATATAAAGTAATAAAAAA
*
19155150 GATAAACACTAATTGCATTTTTATGTAAAAAGAATAACAAACTGTTTTGTTCCACTGTTATTAGA
131 GATAAACACTAATTGCATTTTTATGTAAAAAGAATAACAAACTGTTTTATTCCACTGTTATTAGA
* * * *
19155215 TATACACTAGCCCAATTTCTTCAACCGTCACATCTCATCAAATGGTACACGTGTCTCCATCATAT
196 TATACACTAGCCCAATTTCTACAACCGTCACATCTCATCAAATGGTACACATGTCCCCATCAAAT
*
19155280 AATATTAACACGAACAATCACCATACATAAAAAAAAAATTAAAATTAAAAAAGAGCAGTGACAAA
261 AATATTAACACGAACAATCACCATACATAAAAAAAAAATTAAAATTAAAAAAGAG-AGTGAAAAA
19155345 ATGAAAAATAAAAGTAAAAGGAAAAACACT
325 ATGAAAAAT-AAAGTAAAAGGAAAAACACT
* * *
19155375 AAAAAAATCACATTTCATCGAGTGTCTTATTTAGATTAAATTATTGAAAAGTACCCATTAACATT
1 AAAAAAATCACATCTCATCAAGTGTCATATTTAGATTAAATTATTGAAAAGTACCCATTAACATT
* * *
19155440 ATCACTTGCAAAATTATGTTAATTAAATAAAGAACAAATAATTGATAATATAAATTAATAAAAAA
66 ATCACTTGCAAAATTATGTAAATAAAATAAAGAACAAATAATTGATAATATAAAGTAATAAAAAA
19155505 GATAAACGTGACTAATTGCATTTTTATGTAAAAAGAATAACAAACTGTTTTATTCCACTGTTATT
131 GATAAAC---ACTAATTGCATTTTTATGTAAAAAGAATAACAAACTGTTTTATTCCACTGTTATT
* *
19155570 AGATGTACACTAGCCCAATTTCTACAACCGTCCCATCTCATCAAATGGTACACATGTCACCCATC
193 AGATATACACTAGCCCAATTTCTACAACCGTCACATCTCATCAAATGGTACACATGTC-CCCATC
* *
19155635 AAAATAATATTAACATC-AACAATCACCGTACATAAAAAATAAATTAAAATTAAAAAAGTAG-G-
257 -AAATAATATTAACA-CGAACAATCACCATACATAAAAAAAAAATTAAAATTAAAAAAG-AGAGT
19155697 GAAAAAATGAAAAATAAAGTAAAAGGAAAAACACT
319 GAAAAAATGAAAAATAAAGTAAAAGGAAAAACACT
*
19155732 AACAAAA
1 AAAAAAA
19155739 GGGCAAAGAG
Statistics
Matches: 339, Mismatches: 18, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
355 130 0.38
357 26 0.08
358 122 0.36
359 6 0.02
360 52 0.15
361 3 0.01
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (353 bp):
AAAAAAATCACATCTCATCAAGTGTCATATTTAGATTAAATTATTGAAAAGTACCCATTAACATT
ATCACTTGCAAAATTATGTAAATAAAATAAAGAACAAATAATTGATAATATAAAGTAATAAAAAA
GATAAACACTAATTGCATTTTTATGTAAAAAGAATAACAAACTGTTTTATTCCACTGTTATTAGA
TATACACTAGCCCAATTTCTACAACCGTCACATCTCATCAAATGGTACACATGTCCCCATCAAAT
AATATTAACACGAACAATCACCATACATAAAAAAAAAATTAAAATTAAAAAAGAGAGTGAAAAAA
TGAAAAATAAAGTAAAAGGAAAAACACT
Found at i:19155779 original size:15 final size:15
Alignment explanation
Indices: 19155761--19155789 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19155751 TGAAATCAAG
19155761 AATCATGATCAAAAC
1 AATCATGATCAAAAC
19155776 AATCATGATCAAAA
1 AATCATGATCAAAA
19155790 GCAAGGTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (15 bp):
AATCATGATCAAAAC
Found at i:19155998 original size:60 final size:60
Alignment explanation
Indices: 19155907--19156041 Score: 207
Period size: 60 Copynumber: 2.2 Consensus size: 60
19155897 GGAGGCGCCA
* *
19155907 GAGGGAGGAGGGACTAGGTTGGCTGAAGGCTCGGAGGCTGGAGAAGGTACACCCGATGGG
1 GAGGGAGGAGGGACAAGGTTAGCTGAAGGCTCGGAGGCTGGAGAAGGTACACCCGATGGG
* *
19155967 GAGGGAGGAGGGACAAGGTTAGCTGAAGGCTCGGAGGCTGGAGCAGGTACACCTGATGGG
1 GAGGGAGGAGGGACAAGGTTAGCTGAAGGCTCGGAGGCTGGAGAAGGTACACCCGATGGG
19156027 GTAGGAGCAGGAGGG
1 G-AGG-G-AGGAGGG
19156042 GAGATTGATG
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
60 57 0.84
61 3 0.04
62 1 0.01
63 7 0.10
ACGTcount: A:0.24, C:0.14, G:0.49, T:0.13
Consensus pattern (60 bp):
GAGGGAGGAGGGACAAGGTTAGCTGAAGGCTCGGAGGCTGGAGAAGGTACACCCGATGGG
Found at i:19156132 original size:6 final size:6
Alignment explanation
Indices: 19156117--19156204 Score: 50
Period size: 6 Copynumber: 14.7 Consensus size: 6
19156107 TGTAGATGGG
* * * * * * * *
19156117 GTTGGA GTTGGC GTTGGT GATGGA GATGGA GATGGG GTTGGG GTTGGC
1 GTTGGA GTTGGA GTTGGA GTTGGA GTTGGA GTTGGA GTTGGA GTTGGA
* * * * * *
19156165 GTTGGC GTTGGC GTTGGC GTTGGA GATGGG GTTGGT GTTG
1 GTTGGA GTTGGA GTTGGA GTTGGA GTTGGA GTTGGA GTTG
19156205 CTGTTGGGGA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.09, C:0.06, G:0.53, T:0.32
Consensus pattern (6 bp):
GTTGGA
Found at i:19156132 original size:12 final size:12
Alignment explanation
Indices: 19156117--19156187 Score: 61
Period size: 12 Copynumber: 5.9 Consensus size: 12
19156107 TGTAGATGGG
19156117 GTTGGAGTTGGC
1 GTTGGAGTTGGC
* * *
19156129 GTTGGTGATGGA
1 GTTGGAGTTGGC
* * *
19156141 GATGGAGATGGG
1 GTTGGAGTTGGC
*
19156153 GTTGGGGTTGGC
1 GTTGGAGTTGGC
*
19156165 GTTGGCGTTGGC
1 GTTGGAGTTGGC
*
19156177 GTTGGCGTTGG
1 GTTGGAGTTGG
19156188 AGATGGGGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.08, C:0.07, G:0.54, T:0.31
Consensus pattern (12 bp):
GTTGGAGTTGGC
Found at i:19156198 original size:18 final size:18
Alignment explanation
Indices: 19156123--19156204 Score: 65
Period size: 18 Copynumber: 4.6 Consensus size: 18
19156113 TGGGGTTGGA
* *
19156123 GTTGGCGTTGGTGATGGA
1 GTTGGCGTTGGAGATGGG
* * * * *
19156141 GATGGAGATGGGGTTGGG
1 GTTGGCGTTGGAGATGGG
* * *
19156159 GTTGGCGTTGGCGTTGGC
1 GTTGGCGTTGGAGATGGG
19156177 GTTGGCGTTGGAGATGGG
1 GTTGGCGTTGGAGATGGG
*
19156195 GTTGGTGTTG
1 GTTGGCGTTG
19156205 CTGTTGGGGA
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.09, C:0.06, G:0.54, T:0.32
Consensus pattern (18 bp):
GTTGGCGTTGGAGATGGG
Found at i:19156211 original size:42 final size:42
Alignment explanation
Indices: 19156113--19156204 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
19156103 GGGCTGTAGA
* *
19156113 TGGGGTTGGAGTTGGCGTTGGTGATGGAGATGGAGATGGGGT
1 TGGGGTTGGCGTTGGCGTTGGCGATGGAGATGGAGATGGGGT
* * *
19156155 TGGGGTTGGCGTTGGCGTTGGCGTTGGCGTTGGAGATGGGGT
1 TGGGGTTGGCGTTGGCGTTGGCGATGGAGATGGAGATGGGGT
*
19156197 TGGTGTTG
1 TGGGGTTG
19156205 CTGTTGGGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.09, C:0.05, G:0.54, T:0.32
Consensus pattern (42 bp):
TGGGGTTGGCGTTGGCGTTGGCGATGGAGATGGAGATGGGGT
Found at i:19156212 original size:18 final size:17
Alignment explanation
Indices: 19156153--19156213 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
19156143 TGGAGATGGG
19156153 GTTGGGGTTGGCGTTGGC
1 GTTGGGGTTGGCGTT-GC
* *
19156171 GTTGGCGTTGGCGTTGGA
1 GTTGGGGTTGGCGTT-GC
* *
19156189 GATGGGGTTGGTGTTGC
1 GTTGGGGTTGGCGTTGC
19156206 TGTTGGGG
1 -GTTGGGG
19156214 AAGATGGTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
17 1 0.03
18 34 0.97
ACGTcount: A:0.03, C:0.08, G:0.54, T:0.34
Consensus pattern (17 bp):
GTTGGGGTTGGCGTTGC
Found at i:19156804 original size:24 final size:24
Alignment explanation
Indices: 19156772--19156832 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
19156762 ATACAAAAGA
*
19156772 AATTATAAAATAATAAATATT-TT
1 AATTTTAAAATAATAAATATTATT
19156795 GAATTTT-AAATACATTAAATATTATT
1 -AATTTTAAAATA-A-TAAATATTATT
19156821 --TTTTAAAATAAT
1 AATTTTAAAATAAT
19156833 TATGCGAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
22 1 0.03
23 10 0.31
24 11 0.34
25 8 0.25
26 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTTTAAAATAATAAATATTATT
Found at i:19156834 original size:23 final size:23
Alignment explanation
Indices: 19156777--19156834 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
19156767 AAAGAAATTA
19156777 TAAAATAA-TAAATATTTTGAATTT
1 TAAAATAATTAAATATTTT--ATTT
19156801 T-AAATACATTAAATATTATT-TTT
1 TAAAATA-ATTAAATATT-TTATTT
19156824 TAAAATAATTA
1 TAAAATAATTA
19156835 TGCGAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
23 13 0.43
24 7 0.23
25 8 0.27
26 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAAATAATTAAATATTTTATTT
Found at i:19156888 original size:19 final size:19
Alignment explanation
Indices: 19156851--19156889 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19156841 TAAATCGGAC
* *
19156851 TAAAATTTTAAATTCACTG
1 TAAAATTTGAAATTAACTG
*
19156870 TAAAATTTGAATTTAACTG
1 TAAAATTTGAAATTAACTG
19156889 T
1 T
19156890 TGATTTACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (19 bp):
TAAAATTTGAAATTAACTG
Found at i:19157323 original size:29 final size:29
Alignment explanation
Indices: 19157290--19157359 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
19157280 TGATGGATTG
*
19157290 ATAAAATTTAATGTAAAA-ATTAATAATA
1 ATAAAATTTAATATAAAATATTAATAATA
* *
19157318 TATAAAATAT-ATATAAAATATTAATCATA
1 -ATAAAATTTAATATAAAATATTAATAATA
*
19157347 ATTTAAATTTAAT
1 A-TAAAATTTAAT
19157360 TGATACATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 8 0.24
29 23 0.70
30 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (29 bp):
ATAAAATTTAATATAAAATATTAATAATA
Found at i:19157412 original size:14 final size:13
Alignment explanation
Indices: 19157388--19157424 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
19157378 TATCAATATT
19157388 TTTATTAAAAATA
1 TTTATTAAAAATA
19157401 TTTATCTAAAAATA
1 TTTAT-TAAAAATA
*
19157415 TATATTAAAA
1 TTTATTAAAA
19157425 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTATTAAAAATA
Found at i:19157560 original size:21 final size:22
Alignment explanation
Indices: 19157516--19157571 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
19157506 TTACGTGAAA
* *
19157516 AATTTTTTTAAATGACATAGGAT
1 AATTTTTTTAAA-GAAATAAGAT
19157539 AATTTTTTTAAA-AAATAAGAT
1 AATTTTTTTAAAGAAATAAGAT
*
19157560 AGTTTCTTTTAA
1 AATTT-TTTTAA
19157572 TTACAAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.38
22 6 0.21
23 12 0.41
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (22 bp):
AATTTTTTTAAAGAAATAAGAT
Found at i:19157914 original size:30 final size:30
Alignment explanation
Indices: 19157846--19157915 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
19157836 TTATCTTTTT
*
19157846 AAAAAAATTTACGTAAGACATTAAAAATTC
1 AAAAAATTTTACGTAAGACATTAAAAATTC
** * ** *
19157876 AAGCAATTTTATGTAAGATTTTGAAAATTC
1 AAAAAATTTTACGTAAGACATTAAAAATTC
19157906 AAAAAATTTT
1 AAAAAATTTT
19157916 CAGCTTAAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (30 bp):
AAAAAATTTTACGTAAGACATTAAAAATTC
Found at i:19158502 original size:17 final size:18
Alignment explanation
Indices: 19158482--19158515 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19158472 TGACAAATTA
19158482 ATATA-TATGAATTTTAT
1 ATATATTATGAATTTTAT
*
19158499 ATATATTATGAGTTTTA
1 ATATATTATGAATTTTA
19158516 AAATTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
ATATATTATGAATTTTAT
Found at i:19158585 original size:25 final size:25
Alignment explanation
Indices: 19158557--19158611 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
19158547 TATATATTCA
19158557 TATTAAATAAGTAAAATATTTTGTG
1 TATTAAATAAGTAAAATATTTTGTG
19158582 TATTAAATAAGTAAAATATTTTGTG
1 TATTAAATAAGTAAAATATTTTGTG
19158607 TATTA
1 TATTA
19158612 TACGAGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (25 bp):
TATTAAATAAGTAAAATATTTTGTG
Found at i:19158667 original size:14 final size:13
Alignment explanation
Indices: 19158650--19158688 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
19158640 TAATAATATT
19158650 TTTTAATTTTTTAA
1 TTTTAATTTTTT-A
19158664 TTTTAATTTTTTA
1 TTTTAATTTTTTA
19158677 -TTTAATTATTTT
1 TTTTAATT-TTTT
19158689 TAATAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.29
13 5 0.21
14 12 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTAATTTTTTA
Found at i:19158689 original size:22 final size:22
Alignment explanation
Indices: 19158629--19158692 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
19158619 TATAATCTAA
**
19158629 TTTAATTTATATAATAAT-ATTT
1 TTTAATTTAT-TAATTTTAATTT
*
19158651 TTTAATTTTTTAATTTTAATTT
1 TTTAATTTATTAATTTTAATTT
*
19158673 TTT-ATTTAATTATTTTTAAT
1 TTTAATTT-ATTAATTTTAAT
19158693 AAAAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.26
22 26 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAATTTATTAATTTTAATTT
Found at i:19159871 original size:70 final size:70
Alignment explanation
Indices: 19159786--19159927 Score: 221
Period size: 70 Copynumber: 2.0 Consensus size: 70
19159776 TTAAATTAAA
* * * *
19159786 TAATATAATTCTATCTTATGTTTGATATATGTAACAATTAAGATATGATAATTTATTTATTTATC
1 TAATATAATTATATCTTATATTTGATATATGTAACAATTAAGATAAGATAATTTATTTATTGATC
19159851 AAAAT
66 AAAAT
* * *
19159856 TAATATCATTATATCTTATATTTGATGTATGTAATAATTAAGATAAGATAATTTATTTATTGATC
1 TAATATAATTATATCTTATATTTGATATATGTAACAATTAAGATAAGATAATTTATTTATTGATC
19159921 AAAAT
66 AAAAT
19159926 TA
1 TA
19159928 TTTTTTTTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (70 bp):
TAATATAATTATATCTTATATTTGATATATGTAACAATTAAGATAAGATAATTTATTTATTGATC
AAAAT
Found at i:19159945 original size:17 final size:18
Alignment explanation
Indices: 19159905--19159945 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19159895 AAGATAAGAT
19159905 AATTTATTTATTGATCAA
1 AATTTATTTATTGATCAA
**
19159923 AA-TTATTT-TTTTTCAA
1 AATTTATTTATTGATCAA
19159939 AATTTAT
1 AATTTAT
19159946 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTTATTTATTGATCAA
Found at i:19160695 original size:6 final size:6
Alignment explanation
Indices: 19160675--19160741 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
19160665 TAATAAATAA
** *
19160675 ATTT-T ATTT-T ATTTAT ATTTAT ATTTAT ATTTA- ATGAAT ATTTTAA
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT A-TTTAT
*
19160721 ATTTAT -TTTAT -TTTAT TTTTA
1 ATTTAT ATTTAT ATTTAT ATTTA
19160742 AAAATATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
5 22 0.42
6 27 0.52
7 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (6 bp):
ATTTAT
Found at i:19160741 original size:11 final size:11
Alignment explanation
Indices: 19160675--19160739 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
19160665 TAATAAATAA
19160675 ATTT-TATTTT
1 ATTTATATTTT
19160685 ATTTATATTTAT
1 ATTTATATTT-T
*
19160697 ATTTATATTTA
1 ATTTATATTTT
**
19160708 ATGAATATTTT
1 ATTTATATTTT
*
19160719 AAATT-TATTTT
1 -ATTTATATTTT
19160730 ATTT-TATTTT
1 ATTTATATTTT
19160740 TAAAAATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 13 0.30
11 19 0.43
12 12 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
ATTTATATTTT
Found at i:19160838 original size:31 final size:32
Alignment explanation
Indices: 19160801--19160860 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
19160791 AAATTAAAAT
* * *
19160801 TAATTTTTTAATTTTATATT-ATATATTTAAA
1 TAATTTTATAAATATATATTAATATATTTAAA
19160832 TAATTTTATAAATATATATTAATATATTT
1 TAATTTTATAAATATATATTAATATATTT
19160861 TTTAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
TAATTTTATAAATATATATTAATATATTTAAA
Found at i:19160853 original size:23 final size:24
Alignment explanation
Indices: 19160809--19160866 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
19160799 ATTAATTTTT
*
19160809 TAATTTTATATTATATATTTAA-A
1 TAATTTTATAATATATATTTAATA
19160832 TAATTTTATAA-ATATATATTAATA
1 TAATTTTATAATATATAT-TTAATA
*
19160856 T-ATTTTTTAAT
1 TAATTTTATAAT
19160867 TAAAATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.20
23 22 0.73
24 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TAATTTTATAATATATATTTAATA
Found at i:19160929 original size:15 final size:16
Alignment explanation
Indices: 19160901--19160931 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
19160891 TTAAAATAAT
19160901 AAATTATATTATTAAA
1 AAATTATATTATTAAA
19160917 AAATTAT-TTATTAAA
1 AAATTATATTATTAAA
19160932 TATATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTATATTATTAAA
Found at i:19161608 original size:24 final size:23
Alignment explanation
Indices: 19161563--19161613 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
19161553 TTTATATTTT
*
19161563 TATATTATACTTTATATAAAATTA
1 TATATTATAATTTATATAAAA-TA
19161587 TATATTATAATTTA-ATATAAATA
1 TATATTATAATTTATATA-AAATA
19161610 TATA
1 TATA
19161614 AAATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATTATAATTTATATAAAATA
Found at i:19161653 original size:32 final size:32
Alignment explanation
Indices: 19161575--19161658 Score: 91
Period size: 32 Copynumber: 2.6 Consensus size: 32
19161565 TATTATACTT
*
19161575 TATATAAAATTATATATTATAATTTAATATAAA
1 TATAT-AAATTATATATTTTAATTTAATATAAA
* *
19161608 TATATAAAATATATATTTTAATTT-TTATTAAA
1 TATATAAATTATATATTTTAATTTAATA-TAAA
*
19161640 -ATTTTAAATTATATATTTT
1 TA-TATAAATTATATATTTT
19161659 TATATTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 3 0.07
32 36 0.82
33 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TATATAAATTATATATTTTAATTTAATATAAA
Found at i:19161689 original size:21 final size:20
Alignment explanation
Indices: 19161648--19161698 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
19161638 AAATTTTAAA
* * *
19161648 TTATATATTTTTATATTATT
1 TTATATATTTTCAGATCATT
19161668 TTATATTATTTTCAGATCATT
1 TTATA-TATTTTCAGATCATT
19161689 TTATCATATT
1 TTAT-ATATT
19161699 ATCAACGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 20 0.77
22 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATATATTTTCAGATCATT
Found at i:19164700 original size:22 final size:22
Alignment explanation
Indices: 19164672--19164716 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19164662 TTTAAATATT
19164672 TATTTTAAAAAATAATATTTTA
1 TATTTTAAAAAATAATATTTTA
19164694 TATTTTAAAAAATAATATTTTA
1 TATTTTAAAAAATAATATTTTA
19164716 T
1 T
19164717 TAATTTCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTTAAAAAATAATATTTTA
Found at i:19164717 original size:20 final size:20
Alignment explanation
Indices: 19164666--19164717 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 20
19164656 GATATTTTTA
19164666 AATA-TTTATTTTAAAAAAT
1 AATATTTTATTTTAAAAAAT
19164685 AATATTTTATATTTTAAAAAAT
1 AATA-TTT-TATTTTAAAAAAT
19164707 AATATTTTATT
1 AATATTTTATT
19164718 AATTTCGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 5 0.17
22 17 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTTTATTTTAAAAAAT
Found at i:19169391 original size:7 final size:7
Alignment explanation
Indices: 19169381--19169432 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
19169371 AAAATGCAAT
19169381 AAAAATA
1 AAAAATA
19169388 AAAAAT-
1 AAAAATA
*
19169394 AAAAGTA
1 AAAAATA
*
19169401 AAAAATTT
1 AAAAA-TA
19169409 AAAAATA
1 AAAAATA
*
19169416 AAAAACA
1 AAAAATA
19169423 AAAAA-A
1 AAAAATA
19169429 AAAA
1 AAAA
19169433 TACAATGGCG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
6 10 0.26
7 22 0.58
8 6 0.16
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:19169394 original size:13 final size:13
Alignment explanation
Indices: 19169378--19169434 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
19169368 TAAAAAATGC
19169378 AATAAAAATAAAA
1 AATAAAAATAAAA
*
19169391 AATAAAAGTAAAA
1 AATAAAAATAAAA
19169404 AATTTAAAAATAAAA
1 AA--TAAAAATAAAA
*
19169419 AACAAAAA-AAAA
1 AATAAAAATAAAA
19169431 AATA
1 AATA
19169435 CAATGGCGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
12 7 0.18
13 19 0.50
15 12 0.32
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:19169412 original size:28 final size:27
Alignment explanation
Indices: 19169380--19169433 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
19169370 AAAAATGCAA
* *
19169380 TAAAAATAAAAAATAAAAGTAAAAAATT
1 TAAAAATAAAAAACAAAA-AAAAAAATT
19169408 TAAAAATAAAAAACAAAAAAAAAAAT
1 TAAAAATAAAAAACAAAAAAAAAAAT
19169434 ACAATGGCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (27 bp):
TAAAAATAAAAAACAAAAAAAAAAATT
Found at i:19170194 original size:9 final size:9
Alignment explanation
Indices: 19170180--19170205 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19170170 AGAATTTAAG
19170180 TATTAAATT
1 TATTAAATT
19170189 TATTAAATT
1 TATTAAATT
19170198 TATTAAAT
1 TATTAAAT
19170206 ATATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TATTAAATT
Found at i:19170392 original size:19 final size:20
Alignment explanation
Indices: 19170358--19170397 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
19170348 TTATAAGATT
19170358 TATAAAATATTATTTTTTAA
1 TATAAAATATTATTTTTTAA
19170378 TATAAAATA-TATTTTTTAA
1 TATAAAATATTATTTTTTAA
19170397 T
1 T
19170398 TATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATAAAATATTATTTTTTAA
Found at i:19170401 original size:20 final size:21
Alignment explanation
Indices: 19170357--19170401 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
19170347 ATTATAAGAT
19170357 TTATAAAATATTATTTTTTAA
1 TTATAAAATATTATTTTTTAA
19170378 -TATAAAATA-TATTTTTTAA
1 TTATAAAATATTATTTTTTAA
19170397 TTATA
1 TTATA
19170402 TATAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATAAAATATTATTTTTTAA
Found at i:19170418 original size:24 final size:22
Alignment explanation
Indices: 19170358--19170423 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 22
19170348 TTATAAGATT
19170358 TATAAAATAT-TATTTT--TTAA
1 TATAAAATATATATTTTAATT-A
*
19170378 TATAAAATATATTTTTTAATTA
1 TATAAAATATATATTTTAATTA
*
19170400 TATATAAATATAATATTTTTATTA
1 TATA-AAATAT-ATATTTTAATTA
19170424 AATTAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 10 0.26
21 5 0.13
22 5 0.13
23 8 0.21
24 10 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATAAAATATATATTTTAATTA
Found at i:19170439 original size:13 final size:13
Alignment explanation
Indices: 19170419--19170456 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
19170409 ATAATATTTT
19170419 TATTAAATTAATA
1 TATTAAATTAATA
* *
19170432 TTTTAAATTAAAA
1 TATTAAATTAATA
19170445 TATTAAA-TAATA
1 TATTAAATTAATA
19170457 AAATTTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTAAATTAATA
Found at i:19170441 original size:18 final size:18
Alignment explanation
Indices: 19170404--19170443 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
19170394 TAATTATATA
*
19170404 TAAATATAATATTTTTAT
1 TAAATATAATATTTTAAT
19170422 TAAAT-TAATATTTTAAAT
1 TAAATATAATATTTT-AAT
19170440 TAAA
1 TAAA
19170444 ATATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATATAATATTTTAAT
Found at i:19170458 original size:15 final size:14
Alignment explanation
Indices: 19170419--19170490 Score: 67
Period size: 15 Copynumber: 5.1 Consensus size: 14
19170409 ATAATATTTT
*
19170419 TATTAAAT-TAATA
1 TATTAAATATAAAA
*
19170432 TTTTAAAT-TAAAA
1 TATTAAATATAAAA
19170445 TATTAAATAATAAAA
1 TATTAAAT-ATAAAA
* * *
19170460 TTTTTAATATAACA
1 TATTAAATATAAAA
19170474 TATATAAATATAAAA
1 TAT-TAAATATAAAA
19170489 TA
1 TA
19170491 AAATAAATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
13 18 0.38
14 7 0.15
15 22 0.47
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (14 bp):
TATTAAATATAAAA
Found at i:19170476 original size:29 final size:27
Alignment explanation
Indices: 19170419--19170489 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 27
19170409 ATAATATTTT
*
19170419 TATTAAAT-TAATATTTTAAATTAAAA
1 TATTAAATATAAAATTTTAAATTAAAA
* *
19170445 TATTAAATAATAAAATTTTTAATATAACA
1 TATTAAAT-ATAAAATTTTAAAT-TAAAA
19170474 TATATAAATATAAAAT
1 TAT-TAAATATAAAAT
19170490 AAAATAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 8 0.21
28 11 0.29
29 14 0.37
30 5 0.13
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (27 bp):
TATTAAATATAAAATTTTAAATTAAAA
Found at i:19170848 original size:21 final size:19
Alignment explanation
Indices: 19170818--19170880 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 19
19170808 ATTATTTTTT
*
19170818 AAAATATGAAAAAAATAAAA
1 AAAATGTGAAAAAAA-AAAA
*
19170838 AAAATTGTGAAAAAAAACCAA
1 AAAA-TGTGAAAAAAAA-AAA
19170859 AAAATGT-AAAAAAAAAAA
1 AAAATGTGAAAAAAAAAAA
19170877 AAAA
1 AAAA
19170881 AAATGAAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 6 0.16
19 8 0.21
20 8 0.21
21 16 0.42
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (19 bp):
AAAATGTGAAAAAAAAAAA
Found at i:19170850 original size:20 final size:17
Alignment explanation
Indices: 19170827--19170879 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 17
19170817 TAAAATATGA
19170827 AAAAAATAAAAAAAATTGT
1 AAAAAA-AAAAAAAA-TGT
19170846 GAAAAAAAACCAAAAAATGT
1 -AAAAAAAA--AAAAAATGT
19170866 AAAAAAAAAAAAAA
1 AAAAAAAAAAAAAA
19170880 AAAATGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 6 0.19
19 10 0.32
20 9 0.29
21 6 0.19
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAAAAAAAAAAAATGT
Found at i:19170885 original size:21 final size:20
Alignment explanation
Indices: 19170826--19170882 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
19170816 TTAAAATATG
* *
19170826 AAAAAAATAAAAAAAATTGT
1 AAAAAAAAAAAAAAAAATGT
* **
19170846 GAAAAAAAACCAAAAAATGT
1 AAAAAAAAAAAAAAAAATGT
19170866 AAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAA
19170883 ATGAAGAGGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.81, C:0.04, G:0.05, T:0.11
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAATGT
Found at i:19177270 original size:24 final size:24
Alignment explanation
Indices: 19177241--19177293 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
19177231 TATATATTCA
19177241 TATTAAATAAGT-AAATATTTTGTG
1 TATTAAATAAGTAAAATA-TTTGTG
19177265 TATTAAATAAGTAAAATATTTGTG
1 TATTAAATAAGTAAAATATTTGTG
19177289 TATTA
1 TATTA
19177294 TACGAGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.45
Consensus pattern (24 bp):
TATTAAATAAGTAAAATATTTGTG
Found at i:19177349 original size:15 final size:16
Alignment explanation
Indices: 19177331--19177364 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19177321 ATAATAAAAA
*
19177331 TTTTTATTT-TTTATT
1 TTTTTATTTAATTATT
19177346 TTTTTATTTAATTATT
1 TTTTTATTTAATTATT
19177362 TTT
1 TTT
19177365 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATTTAATTATT
Found at i:19178545 original size:70 final size:70
Alignment explanation
Indices: 19178460--19178601 Score: 221
Period size: 70 Copynumber: 2.0 Consensus size: 70
19178450 TTAAATTAAA
* * * *
19178460 TAATATAATTTTATCTTATGTTTGATATATGTAACAATTAAGATATGATAATTTATTTATTTATC
1 TAATATAATTATATCTTATATTTGATATATGTAACAATTAAGATAAGATAATTTATTTATTGATC
19178525 AAAAT
66 AAAAT
* * *
19178530 TAATATCATTATATCTTATATTTGATGTATGTAATAATTAAGATAAGATAATTTATTTATTGATC
1 TAATATAATTATATCTTATATTTGATATATGTAACAATTAAGATAAGATAATTTATTTATTGATC
19178595 AAAAT
66 AAAAT
19178600 TA
1 TA
19178602 TCTTTTTTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (70 bp):
TAATATAATTATATCTTATATTTGATATATGTAACAATTAAGATAAGATAATTTATTTATTGATC
AAAAT
Found at i:19179368 original size:6 final size:6
Alignment explanation
Indices: 19179348--19179416 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
19179338 ATATAAATAA
** *
19179348 ATTT-T ATTT-T ATTTAT ATTTAT ATTTAT ATTTA- ATAAAT ATTTTAA
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT A-TTTAT
* * *
19179394 ATTTAT TTTTAT TTTTAT TTTTA
1 ATTTAT ATTTAT ATTTAT ATTTA
19179417 AAAATATTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
5 12 0.22
6 39 0.72
7 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTAT
Found at i:19179398 original size:36 final size:35
Alignment explanation
Indices: 19179358--19179425 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
19179348 ATTTTATTTT
19179358 ATTTATATTTATATTTATATTTAATAAATATTTTAA
1 ATTTATATTTATATTTATATTTAA-AAATATTTTAA
* * *
19179394 ATTTATTTTTATTTTTATTTTTAAAAATATTT
1 ATTTATATTTATATTTATATTTAAAAATATTT
19179426 AATAGATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (35 bp):
ATTTATATTTATATTTATATTTAAAAATATTTTAA
Found at i:19179526 original size:31 final size:32
Alignment explanation
Indices: 19179477--19179536 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
19179467 AAATTAAAAT
* * *
19179477 TAATTTTTTAATTTTATATT-ATATATTTAAA
1 TAATTTTATAAATATATATTAATATATTTAAA
19179508 TAATTTTATAAATATATATTAATATATTT
1 TAATTTTATAAATATATATTAATATATTT
19179537 TTTAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
TAATTTTATAAATATATATTAATATATTTAAA
Found at i:19179529 original size:23 final size:24
Alignment explanation
Indices: 19179485--19179542 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
19179475 ATTAATTTTT
*
19179485 TAATTTTATATTATATATTTAA-A
1 TAATTTTATAATATATATTTAATA
19179508 TAATTTTATAA-ATATATATTAATA
1 TAATTTTATAATATATAT-TTAATA
*
19179532 T-ATTTTTTAAT
1 TAATTTTATAAT
19179543 TAAAATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.20
23 22 0.73
24 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TAATTTTATAATATATATTTAATA
Found at i:19179605 original size:15 final size:16
Alignment explanation
Indices: 19179577--19179607 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
19179567 TTAAAATAAT
19179577 AAATTATATTATTAAA
1 AAATTATATTATTAAA
19179593 AAATTAT-TTATTAAA
1 AAATTATATTATTAAA
19179608 TATATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTATATTATTAAA
Found at i:19179636 original size:14 final size:15
Alignment explanation
Indices: 19179609--19179642 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19179599 TTTATTAAAT
19179609 ATATAAATATTTATA
1 ATATAAATATTTATA
19179624 ATATAAA-ATTTATA
1 ATATAAATATTTATA
*
19179638 TTATA
1 ATATA
19179643 TTATTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATAAATATTTATA
Found at i:19183375 original size:22 final size:22
Alignment explanation
Indices: 19183347--19183391 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19183337 TTTAAATATT
19183347 TATTTTAAAAAATAATATTTTA
1 TATTTTAAAAAATAATATTTTA
19183369 TATTTTAAAAAATAATATTTTA
1 TATTTTAAAAAATAATATTTTA
19183391 T
1 T
19183392 TAATTTCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTTAAAAAATAATATTTTA
Found at i:19183392 original size:20 final size:20
Alignment explanation
Indices: 19183341--19183392 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 20
19183331 GATATTTTTA
19183341 AATA-TTTATTTTAAAAAAT
1 AATATTTTATTTTAAAAAAT
19183360 AATATTTTATATTTTAAAAAAT
1 AATA-TTT-TATTTTAAAAAAT
19183382 AATATTTTATT
1 AATATTTTATT
19183393 AATTTCGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 5 0.17
22 17 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTTTATTTTAAAAAAT
Found at i:19187471 original size:17 final size:17
Alignment explanation
Indices: 19187432--19187495 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
19187422 GATATAATTT
19187432 AAAAGAAAAAAAAAGAA
1 AAAAGAAAAAAAAAGAA
**
19187449 GGAAGAAAAAAAATA-AA
1 AAAAGAAAAAAAA-AGAA
*
19187466 AAAAGACAAAAAGCAAG-A
1 AAAAGA-AAAAA-AAAGAA
*
19187484 AATAGAAAAAAA
1 AAAAGAAAAAAA
19187496 GGAAAAAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
17 22 0.61
18 13 0.36
19 1 0.03
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAAAAAGAA
Found at i:19188065 original size:7 final size:7
Alignment explanation
Indices: 19188055--19188101 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
19188045 AAAATGCAAT
19188055 AAAAATA
1 AAAAATA
19188062 AAAAAT-
1 AAAAATA
*
19188068 AAAAGTA
1 AAAAATA
*
19188075 AAAAATTT
1 AAAAA-TA
19188083 AAAAATA
1 AAAAATA
*
19188090 AAAAACA
1 AAAAATA
19188097 AAAAA
1 AAAAA
19188102 AAATACAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
6 5 0.15
7 22 0.67
8 6 0.18
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:19188068 original size:13 final size:13
Alignment explanation
Indices: 19188052--19188104 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
19188042 TAAAAAATGC
19188052 AATAAAAATAAAA
1 AATAAAAATAAAA
*
19188065 AATAAAAGTAAAA
1 AATAAAAATAAAA
19188078 AATTTAAAAATAAAA
1 AA--TAAAAATAAAA
*
19188093 AACAAAAA-AAAA
1 AATAAAAATAAAA
19188105 TACAATGGCG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 4 0.11
13 19 0.54
15 12 0.34
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:19189055 original size:30 final size:32
Alignment explanation
Indices: 19189021--19189092 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 32
19189011 TATTATTTTT
19189021 AATATAAAATATATTTT-TT-AATT-ATATATA
1 AATATAAAATAT-TTTTATTAAATTAATATATA
*
19189051 AATAT--AATATTTTTATTAAATTAATATTTA
1 AATATAAAATATTTTTATTAAATTAATATATA
19189081 AAT-TAAAATATT
1 AATATAAAATATT
19189093 AAATAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 4 0.11
28 7 0.19
29 5 0.14
30 14 0.39
31 6 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
AATATAAAATATTTTTATTAAATTAATATATA
Found at i:19189068 original size:24 final size:24
Alignment explanation
Indices: 19189004--19189068 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
19188994 TTATAAGATT
*
19189004 TATAAA-ATATTATTTTTA--ATA
1 TATAAATATAATATTTTTATTATA
19189025 TA-AAATAT-AT-TTTTTAATTATA
1 TATAAATATAATATTTTT-ATTATA
19189047 TATAAATATAATATTTTTATTA
1 TATAAATATAATATTTTTATTA
19189069 AATTAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
19 5 0.14
20 5 0.14
21 4 0.11
22 5 0.14
23 6 0.17
24 6 0.17
25 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATAAATATAATATTTTTATTATA
Found at i:19189069 original size:28 final size:30
Alignment explanation
Indices: 19189025--19189092 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 30
19189015 ATTTTTAATA
19189025 TAAAATATATTTTTT-AATT-ATATATAAA-
1 TAAAATAT-TTTTTTAAATTAATATATAAAT
* *
19189053 TATAATATTTTTATTAAATTAATATTTAAAT
1 TAAAATATTTTT-TTAAATTAATATATAAAT
19189084 TAAAATATT
1 TAAAATATT
19189093 AAATAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 4 0.12
28 9 0.27
29 4 0.12
30 8 0.24
31 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TAAAATATTTTTTTAAATTAATATATAAAT
Found at i:19189083 original size:12 final size:13
Alignment explanation
Indices: 19189064--19189100 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
19189054 ATAATATTTT
19189064 TATTAAATTAATA
1 TATTAAATTAATA
*
19189077 T-TTAAATTAAAA
1 TATTAAATTAATA
19189089 TATTAAA-TAATA
1 TATTAAATTAATA
19189101 AAATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTAAATTAATA
Found at i:19189085 original size:17 final size:18
Alignment explanation
Indices: 19189049--19189087 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
19189039 TAATTATATA
**
19189049 TAAATATAATATTTTTAT
1 TAAATATAATATTTAAAT
19189067 TAAAT-TAATATTTAAAT
1 TAAATATAATATTTAAAT
19189084 TAAA
1 TAAA
19189088 ATATTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATATAATATTTAAAT
Found at i:19189104 original size:15 final size:14
Alignment explanation
Indices: 19189064--19189134 Score: 67
Period size: 15 Copynumber: 5.1 Consensus size: 14
19189054 ATAATATTTT
*
19189064 TATTAAAT-TAATA
1 TATTAAATATAAAA
19189077 T-TTAAAT-TAAAA
1 TATTAAATATAAAA
19189089 TATTAAATAATAAAA
1 TATTAAAT-ATAAAA
* * *
19189104 TTTTTAATATAACA
1 TATTAAATATAAAA
19189118 TATATAAATATAAAA
1 TAT-TAAATATAAAA
19189133 TA
1 TA
19189135 AAATAAATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
12 11 0.23
13 7 0.15
14 7 0.15
15 22 0.47
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (14 bp):
TATTAAATATAAAA
Found at i:19189495 original size:19 final size:18
Alignment explanation
Indices: 19189472--19189523 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
19189462 AAAATATGAA
19189472 AAAAAATAAAAAAAATTGT
1 AAAAAA-AAAAAAAATTGT
*
19189491 GAAAAAAACCAAAAAA-TGT
1 -AAAAAAA-AAAAAAATTGT
19189510 AAAAAAAAAAAAAA
1 AAAAAAAAAAAAAA
19189524 ATGAAGAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 6 0.21
18 7 0.24
19 4 0.14
20 12 0.41
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAAAAAAAAAAATTGT
Found at i:19190623 original size:16 final size:17
Alignment explanation
Indices: 19190602--19190634 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19190592 AAATTATTTA
*
19190602 AAAAAT-AGGAAAAAAT
1 AAAAATCAGAAAAAAAT
19190618 AAAAATCAGAAAAAAAT
1 AAAAATCAGAAAAAAAT
19190635 TTGAAAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAATCAGAAAAAAAT
Found at i:19196066 original size:31 final size:35
Alignment explanation
Indices: 19195982--19196066 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 35
19195972 TATCATTTTA
* *
19195982 TTTTATTTATATTTTATGTAACAAATATCCTATGTAT
1 TTTTATTT-TATTTTAT-TAACAAATATCATATATAT
*
19196019 TTTTATTATT-TATTATT-AC-AATAT-ATATAT-T
1 TTTTATT-TTATTTTATTAACAAATATCATATATAT
19196050 TTTTATTTTATTTTATT
1 TTTTATTTTATTTTATT
19196067 TATTTTGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
30 2 0.05
31 14 0.33
32 4 0.10
33 5 0.12
34 2 0.05
35 1 0.02
36 5 0.12
37 8 0.19
38 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (35 bp):
TTTTATTTTATTTTATTAACAAATATCATATATAT
Found at i:19196068 original size:14 final size:14
Alignment explanation
Indices: 19196044--19196085 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
19196034 TTACAATATA
19196044 TATATTTTTTATTT
1 TATATTTTTTATTT
19196058 TAT-TTTATTTATTT
1 TATATTT-TTTATTT
*
19196072 TGTATTTTTTATTT
1 TATATTTTTTATTT
19196086 ATCTAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 19 0.76
15 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (14 bp):
TATATTTTTTATTT
Found at i:19197022 original size:33 final size:33
Alignment explanation
Indices: 19196984--19197057 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
19196974 TAGATTAGAT
19196984 TTATTTAATATTTTT-TTAT-CTTTATCTTTATTC
1 TTATTT-ATATTTTTGTTATACTTT-TCTTTATTC
* * *
19197017 TTATTTTTATTTTTGTTTTACTTTTCTTTATTT
1 TTATTTATATTTTTGTTATACTTTTCTTTATTC
*
19197050 TTTTTTAT
1 TTATTTAT
19197058 CTTTATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 7 0.21
33 23 0.68
34 4 0.12
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (33 bp):
TTATTTATATTTTTGTTATACTTTTCTTTATTC
Found at i:19197055 original size:20 final size:21
Alignment explanation
Indices: 19197022--19197070 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
19197012 TATTCTTATT
*
19197022 TTTATTTTTGTTTTA-CTTTTC
1 TTTATTTTTGTTTTATC-TTTA
19197043 TTTATTTTT-TTTTATCTTTA
1 TTTATTTTTGTTTTATCTTTA
19197063 TTTATTTT
1 TTTATTTT
19197071 CACTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTATTTTTGTTTTATCTTTA
Found at i:19197060 original size:16 final size:16
Alignment explanation
Indices: 19196994--19197070 Score: 64
Period size: 17 Copynumber: 4.3 Consensus size: 16
19196984 TTATTTAATA
19196994 TTTTTTTATCTTTATCT
1 TTTTTTTATCTTTAT-T
* *
19197011 TTATTCTTATTTTTATT
1 TT-TTTTTATCTTTATT
19197028 TTTGTTTTACTTTTCTTTATT
1 TTT-TTTTA----TCTTTATT
19197049 TTTTTTTATCTTTATT
1 TTTTTTTATCTTTATT
19197065 TATTTT
1 T-TTTT
19197071 CACTTTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
16 10 0.20
17 13 0.27
18 11 0.22
20 5 0.10
21 10 0.20
ACGTcount: A:0.13, C:0.08, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTTTTATCTTTATT
Found at i:19197060 original size:55 final size:51
Alignment explanation
Indices: 19196994--19197097 Score: 138
Period size: 55 Copynumber: 2.0 Consensus size: 51
19196984 TTATTTAATA
* *
19196994 TTTTTTTATCTTTATCTTTATTCTT-ATTTTTATTTTTGTTTTACTTTTCTTTATT
1 TTTTTTTATCTTTA--TTTATT-TTCACTTTTA-TTTTGTTCTA-TTTTCTTTATT
19197049 TTTTTTTATCTTTATTTATTTTCACTTTTATTTTGTTCTATTTTCTTTA
1 TTTTTTTATCTTTATTTATTTTCACTTTTATTTTGTTCTATTTTCTTTA
19197098 AATAAAAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
51 9 0.20
52 11 0.24
53 12 0.26
55 14 0.30
ACGTcount: A:0.13, C:0.10, G:0.02, T:0.75
Consensus pattern (51 bp):
TTTTTTTATCTTTATTTATTTTCACTTTTATTTTGTTCTATTTTCTTTATT
Found at i:19197090 original size:22 final size:22
Alignment explanation
Indices: 19197052--19197093 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19197042 CTTTATTTTT
19197052 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
*
19197074 TTTTAT-TTTGTTCTATTTTC
1 TTTTATCTTTATT-TATTTTC
19197094 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Found at i:19197214 original size:28 final size:28
Alignment explanation
Indices: 19197181--19197240 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
19197171 AATTTTTGGG
19197181 GAAAAGTTGAAAGTATCAATTTTCCTTA
1 GAAAAGTTGAAAGTATCAATTTTCCTTA
*
19197209 GAAAAGTTGAAAGTATCAATTTTTCTTA
1 GAAAAGTTGAAAGTATCAATTTTCCTTA
19197237 GAAA
1 GAAA
19197241 TAAATTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (28 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:19197223 original size:85 final size:86
Alignment explanation
Indices: 19197123--19197298 Score: 320
Period size: 85 Copynumber: 2.1 Consensus size: 86
19197113 ATATTTTTGG
*
19197123 AGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA-ATTTTTGGGGAAAAG
1 AGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTAGGGAAAAG
19197187 TTGAAAGTATCAATTTTCCTT
66 TTGAAAGTATCAATTTTCCTT
*
19197208 AGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAATATTTTTAGGGAAAAG
1 AGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTAGGGAAAAG
19197273 TTGAAAGTATCAATTTTCCTT
66 TTGAAAGTATCAATTTTCCTT
19197294 A-AAAA
1 AGAAAA
19197299 TAAAATTTCA
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
85 52 0.59
86 36 0.41
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (86 bp):
AGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTAGGGAAAAG
TTGAAAGTATCAATTTTCCTT
Found at i:19197273 original size:58 final size:57
Alignment explanation
Indices: 19197209--19197413 Score: 241
Period size: 58 Copynumber: 3.4 Consensus size: 57
19197199 ATTTTCCTTA
19197209 GAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAATATTTTTAGG
1 GAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAATATTTTT-GG
* * * *
19197267 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGAGTTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAATA-TTTTTG-G
* *
19197326 GAAAAGTTGAAAGTATCAATTTTTCTT-GAAAATCAAAGTTTCCAAAAAAATAAAAATTTTTTTG
1 GAAAAGTTGAAAGTATCAATTTTTCTTAG-AAAT-AAA-TTTTCAAAAAAAT----A-TTTTTGG
*
19197390 AAAAAGTTGAAAGTATCAATTTTT
1 GAAAAGTTGAAAGTATCAATTTTT
19197414 TCTACACGAG
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
58 47 0.37
59 36 0.29
60 3 0.02
61 10 0.08
64 24 0.19
65 6 0.05
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (57 bp):
GAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAATATTTTTGG
Found at i:19200267 original size:10 final size:10
Alignment explanation
Indices: 19200254--19200279 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19200244 CAAAAATGGA
19200254 AAAAAAAAAG
1 AAAAAAAAAG
19200264 AAAAAAAAAG
1 AAAAAAAAAG
19200274 AAAAAA
1 AAAAAA
19200280 TAAATGCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:19200645 original size:17 final size:16
Alignment explanation
Indices: 19200622--19200681 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 16
19200612 GAAAAATGAG
*
19200622 AAAAAAAAAGAAGATGA
1 AAAAAAAAAGAAGA-AA
*
19200639 TAAAAAAAAGAAGAAA
1 AAAAAAAAAGAAGAAA
19200655 AAAAAAAAAGAAAGAAA
1 AAAAAAAAAG-AAGAAA
19200672 GAAGAAAAAA
1 -AA-AAAAAA
19200682 TGAAAAAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 10 0.27
17 19 0.51
18 2 0.05
19 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAGAAA
Found at i:19200663 original size:20 final size:20
Alignment explanation
Indices: 19200622--19200681 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
19200612 GAAAAATGAG
** *
19200622 AAAAAAAAAGAAGATGATAA
1 AAAAAAAAAGAAGAAAAAAA
*
19200642 AAAAAAGAAGAA-AAAAAAA
1 AAAAAAAAAGAAGAAAAAAA
19200661 AAAGAAAGAAAGAAGAAAAAA
1 AAA-AAA-AAAGAAGAAAAAA
19200682 TGAAAAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 7 0.22
20 14 0.44
21 5 0.16
22 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAGAAGAAAAAAA
Found at i:19200672 original size:8 final size:7
Alignment explanation
Indices: 19200642--19200708 Score: 57
Period size: 8 Copynumber: 9.1 Consensus size: 7
19200632 AAGATGATAA
19200642 AAAAAAG
1 AAAAAAG
19200649 AAGAAAA-
1 AA-AAAAG
19200656 AAAAAA-
1 AAAAAAG
*
19200662 AAGAAAG
1 AAAAAAG
*
19200669 AAAGAAG
1 AAAAAAG
19200676 AAAAAATG
1 AAAAAA-G
19200684 AAAAAATG
1 AAAAAA-G
19200692 AAAAAAATG
1 -AAAAAA-G
19200701 AAAAAAG
1 AAAAAAG
19200708 A
1 A
19200709 GATTCAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
6 9 0.17
7 16 0.31
8 19 0.37
9 8 0.15
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:19200677 original size:24 final size:25
Alignment explanation
Indices: 19200642--19200708 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 25
19200632 AAGATGATAA
19200642 AAAAAAGAAGAAAAAA-AAAAAA-G
1 AAAAAAGAAGAAAAAAGAAAAAATG
19200665 AAAGAAAGAAGAAAAAATGAAAAAATG
1 AAA-AAAGAAGAAAAAA-GAAAAAATG
*
19200692 AAAAAA-ATGAAAAAAGA
1 AAAAAAGAAGAAAAAAGA
19200709 GATTCAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 3 0.08
24 15 0.38
25 8 0.21
26 9 0.23
27 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAAAAGAAGAAAAAAGAAAAAATG
Found at i:19200680 original size:33 final size:32
Alignment explanation
Indices: 19200622--19200706 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 32
19200612 GAAAAATGAG
*
19200622 AAAAAAAAAGAAGATGATAAAAAAAAGAAGAAA
1 AAAAAAAAAGAAGATGA-AAAAAAAAAAAGAAA
*
19200655 AAAAAAAAAGAA-A-GAAAGAAGAAAAAATGAAA
1 AAAAAAAAAGAAGATGAAA-AA-AAAAAAAGAAA
**
19200687 AAATGAAAA-AA-ATGAAAAAA
1 AAAAAAAAAGAAGATGAAAAAA
19200707 GAGATTCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
30 3 0.07
31 9 0.20
32 21 0.47
33 12 0.27
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (32 bp):
AAAAAAAAAGAAGATGAAAAAAAAAAAAGAAA
Found at i:19200696 original size:9 final size:9
Alignment explanation
Indices: 19200676--19200706 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
19200666 AAGAAAGAAG
19200676 AAAAAATG-
1 AAAAAATGA
19200684 AAAAAATGA
1 AAAAAATGA
19200693 AAAAAATGA
1 AAAAAATGA
19200702 AAAAA
1 AAAAA
19200707 GAGATTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAATGA
Done.