Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 324 of 410
Found at i:100595929 original size:16 final size:16
Alignment explanation
Indices: 100595897--100595961 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
100595887 TTATTATTTT
*
100595897 ATTTATATAAATAAAAA
1 ATTTAT-TAATTAAAAA
100595914 ATTTATTAATTAAAAA
1 ATTTATTAATTAAAAA
* * *
100595930 ACTTTA-AAATTAATAT
1 A-TTTATTAATTAAAAA
100595946 ATTTATTAATTAAAAA
1 ATTTATTAATTAAAAA
100595962 TAAATAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 4 0.10
16 25 0.64
17 10 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTATTAATTAAAAA
Found at i:100596181 original size:23 final size:24
Alignment explanation
Indices: 100596144--100596192 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
100596134 TAAAATCAAA
*
100596144 TTATTACCTTAATTTTCTATTTTT
1 TTATTACCTTAATTTTCCATTTTT
* *
100596168 TTATTAGC-TAATTTTCCCTTTTT
1 TTATTACCTTAATTTTCCATTTTT
100596191 TT
1 TT
100596193 CTCATTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.65
Consensus pattern (24 bp):
TTATTACCTTAATTTTCCATTTTT
Found at i:100598322 original size:28 final size:27
Alignment explanation
Indices: 100598276--100598379 Score: 93
Period size: 28 Copynumber: 3.7 Consensus size: 27
100598266 ATATACATGT
* *
100598276 ATATGGCCCACTAAGCCCAATCTCTTTC
1 ATATGG-CCATTAGGCCCAATCTCTTTC
* *
100598304 ATATAGCCTATTAGGCCCAATCATATTT-
1 ATATGGCC-ATTAGGCCCAATC-TCTTTC
* * *
100598332 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGG-CCATTAGGCCC-AATCTCTTTC
100598361 ATATGGCCATTAGGCCCAA
1 ATATGGCCATTAGGCCCAA
100598380 ATCACATTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
27 4 0.07
28 42 0.69
29 15 0.25
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (27 bp):
ATATGGCCATTAGGCCCAATCTCTTTC
Found at i:100598373 original size:56 final size:57
Alignment explanation
Indices: 100598270--100598389 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 57
100598260 AAATCCATAT
* * * *
100598270 ACATGTATATGGCCCACTAAGCCCAATCTCTTTCATATAGCCTATTAGGCCC-AATC
1 ACATTTATGTGGCCCACTAAGCCCAATCACATTCATATAGCCTATTAGGCCCAAATC
* * * *
100598326 ATATTTATGTGGCCCATTAGGCCCAAATCACATTCATATGGCC-ATTAGGCCCAAATC
1 ACATTTATGTGGCCCACTAAGCCC-AATCACATTCATATAGCCTATTAGGCCCAAATC
100598383 ACATTTA
1 ACATTTA
100598390 CAGTCATGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
56 28 0.53
57 25 0.47
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (57 bp):
ACATTTATGTGGCCCACTAAGCCCAATCACATTCATATAGCCTATTAGGCCCAAATC
Found at i:100598380 original size:28 final size:28
Alignment explanation
Indices: 100598301--100598387 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
100598291 CCCAATCTCT
* *
100598301 TTCATATAGCCTATTAGGCCC-AATCATA
1 TTCATATGGCC-ATTAGGCCCAAATCACA
* *
100598329 TTTATGTGGCCCATTAGGCCCAAATCACA
1 TTCATATGG-CCATTAGGCCCAAATCACA
100598358 TTCATATGGCCATTAGGCCCAAATCACA
1 TTCATATGGCCATTAGGCCCAAATCACA
100598386 TT
1 TT
100598388 TACAGTCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
28 36 0.71
29 15 0.29
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (28 bp):
TTCATATGGCCATTAGGCCCAAATCACA
Found at i:100598619 original size:8 final size:8
Alignment explanation
Indices: 100598602--100598644 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
100598592 GTAGCCGAAC
100598602 TTTCGGCT
1 TTTCGGCT
*
100598610 TTTCGACTT
1 TTTCGGC-T
100598619 TTTC-GCT
1 TTTCGGCT
*
100598626 TTTCGGCA
1 TTTCGGCT
100598634 TTTCGGCT
1 TTTCGGCT
100598642 TTT
1 TTT
100598645 ACTGATCTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 5 0.17
8 19 0.66
9 5 0.17
ACGTcount: A:0.05, C:0.23, G:0.19, T:0.53
Consensus pattern (8 bp):
TTTCGGCT
Found at i:100604610 original size:20 final size:20
Alignment explanation
Indices: 100604585--100604628 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
100604575 AAAGAGAGTT
100604585 GTTTTCGTAAATCATCTACA
1 GTTTTCGTAAATCATCTACA
*
100604605 GTTTTCGTAAATCCTCTACA
1 GTTTTCGTAAATCATCTACA
100604625 GTTT
1 GTTT
100604629 AAATATCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (20 bp):
GTTTTCGTAAATCATCTACA
Found at i:100606135 original size:56 final size:57
Alignment explanation
Indices: 100606069--100606185 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 57
100606059 CACATACCTG
* * * * *
100606069 TATATGGCCCACTATGC-CCAATCTCTTTCATATGGCCCATTAGGCCC-AATCATATT
1 TATATGGCCCACTAGGCTCAAATCACATTCATAT-GCCCATTAGGCCCAAATCACATT
* * *
100606125 TATATGGCCCATTAGGCTTAAATCACATTCATATGTCCATTAGGCCCAAATCACATT
1 TATATGGCCCACTAGGCTCAAATCACATTCATATGCCCATTAGGCCCAAATCACATT
100606182 TATA
1 TATA
100606186 GTCATGCTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
56 27 0.53
57 24 0.47
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (57 bp):
TATATGGCCCACTAGGCTCAAATCACATTCATATGCCCATTAGGCCCAAATCACATT
Found at i:100606175 original size:28 final size:29
Alignment explanation
Indices: 100606070--100606181 Score: 122
Period size: 28 Copynumber: 4.0 Consensus size: 29
100606060 ACATACCTGT
* * * *
100606070 ATATGGCCCACTATGCCC-AATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
100606098 ATATGGCCCATTAGGCCC-AATCATATTT
1 ATATGGCCCATTAGGCCCAAATCACATTC
**
100606126 ATATGGCCCATTAGGCTTAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
100606155 ATAT-GTCCATTAGGCCCAAATCACATT
1 ATATGGCCCATTAGGCCCAAATCACATT
100606182 TATAGTCATG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
28 58 0.83
29 12 0.17
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:100610108 original size:7 final size:7
Alignment explanation
Indices: 100610092--100610184 Score: 50
Period size: 7 Copynumber: 13.1 Consensus size: 7
100610082 AATAAACCCC
*
100610092 AAACCCT
1 AAACCTT
100610099 AAACCTT
1 AAACCTT
100610106 AAAACCTT
1 -AAACCTT
*
100610114 AAACC-C
1 AAACCTT
*
100610120 AGAACCTA
1 A-AACCTT
100610128 AAACAC-T
1 AAAC-CTT
*
100610135 AAACCAT
1 AAACCTT
*
100610142 AAATCTT
1 AAACCTT
100610149 AAAACC-T
1 -AAACCTT
100610156 AAA-CTAT
1 AAACCT-T
*
100610163 AGACCTT
1 AAACCTT
*
100610170 AAACATT
1 AAACCTT
100610177 AAACCTT
1 AAACCTT
100610184 A
1 A
100610185 GACCCTAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
5 1 0.02
6 5 0.08
7 45 0.68
8 15 0.23
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (7 bp):
AAACCTT
Found at i:100610110 original size:22 final size:22
Alignment explanation
Indices: 100610085--100610159 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
100610075 ATAAAACAAT
*
100610085 AAACCCCAAACCCTAAACCTTA
1 AAACCCTAAACCCTAAACCTTA
*
100610107 AAACCTTAAACCC-AGAACC-TA
1 AAACCCTAAACCCTA-AACCTTA
* * *
100610128 AAACACTAAACCATAAATCTTA
1 AAACCCTAAACCCTAAACCTTA
100610150 AAA-CCTAAAC
1 AAACCCTAAAC
100610160 TATAGACCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
21 22 0.51
22 21 0.49
ACGTcount: A:0.51, C:0.32, G:0.01, T:0.16
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACCTTA
Found at i:100610170 original size:21 final size:20
Alignment explanation
Indices: 100610101--100610172 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
100610091 CAAACCCTAA
**
100610101 ACCTTAAAACCTTAAACCCAG
1 ACCTTAAAACC-TAAACATAG
*
100610122 AACC-TAAAACACTAAACCATAA
1 -ACCTTAAAAC-CTAAA-CATAG
*
100610144 ATCTTAAAACCTAAACTATAG
1 ACCTTAAAACCTAAAC-ATAG
100610165 ACCTTAAA
1 ACCTTAAA
100610173 CATTAAACCT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 1 0.03
21 27 0.68
22 12 0.30
ACGTcount: A:0.50, C:0.26, G:0.03, T:0.21
Consensus pattern (20 bp):
ACCTTAAAACCTAAACATAG
Found at i:100611311 original size:83 final size:83
Alignment explanation
Indices: 100611155--100611312 Score: 217
Period size: 83 Copynumber: 1.9 Consensus size: 83
100611145 ATTTTATTTT
** * * * * * *
100611155 AGGGGGCTAAAGTGTAATTTTATTATATATTAATTTATAATTTTTTATTTATAAGAAGACTGAAT
1 AGGGGGCTAAAGTGTAATTCAACTACATATTAATTTATAATTTTCTATTTATAAGAAGAATAAAA
*
100611220 TGATAATTTTTCTTTTGG
66 TGAAAATTTTTCTTTTGG
* *
100611238 AGGGGGTTAAAGTGTAATTCAACTACATATTAATTTATAATTTTCTATTTATAAGAGGAATAAAA
1 AGGGGGCTAAAGTGTAATTCAACTACATATTAATTTATAATTTTCTATTTATAAGAAGAATAAAA
100611303 TGAAAATTTT
66 TGAAAATTTT
100611313 CATTTTTAGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 64 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (83 bp):
AGGGGGCTAAAGTGTAATTCAACTACATATTAATTTATAATTTTCTATTTATAAGAAGAATAAAA
TGAAAATTTTTCTTTTGG
Found at i:100618321 original size:36 final size:35
Alignment explanation
Indices: 100618276--100618343 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
100618266 TGTTGTCATT
* *
100618276 TTTGTTATTATCTTATTAC-TATTTTATTATTATTC
1 TTTGTTATTATCTAACT-CTTATTTTATTATTATTC
100618311 TTTGTATATTATCTAACTCTTATTTTATTATTA
1 TTTGT-TATTATCTAACTCTTATTTTATTATTA
100618344 ATTTAACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.63
Consensus pattern (35 bp):
TTTGTTATTATCTAACTCTTATTTTATTATTATTC
Found at i:100618719 original size:15 final size:15
Alignment explanation
Indices: 100618699--100618728 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
100618689 CAATCATCAT
100618699 TGGTCTCTCCTCCTA
1 TGGTCTCTCCTCCTA
100618714 TGGTCTCTCCTCCTA
1 TGGTCTCTCCTCCTA
100618729 CAACACCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.40, G:0.13, T:0.40
Consensus pattern (15 bp):
TGGTCTCTCCTCCTA
Found at i:100622544 original size:22 final size:24
Alignment explanation
Indices: 100622498--100622550 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
100622488 AATAATATTG
100622498 AAATATAAAAAGCAAATATAATAA
1 AAATATAAAAAGCAAATATAATAA
* *
100622522 AAATATTAAAA-CAAA-GTAATAA
1 AAATATAAAAAGCAAATATAATAA
100622544 AAA-ATAA
1 AAATATAA
100622551 TACTATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 9 0.35
23 4 0.15
24 10 0.38
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (24 bp):
AAATATAAAAAGCAAATATAATAA
Found at i:100623355 original size:25 final size:25
Alignment explanation
Indices: 100623325--100623375 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
100623315 ATAAAAAGAG
* *
100623325 AAAAGAAATAAAATAAAATAA-CGAA
1 AAAAGAAAGAAAA-AAAAAAATCGAA
100623350 AAAAGAAAGAAAAAAAAAAATCGAA
1 AAAAGAAAGAAAAAAAAAAATCGAA
100623375 A
1 A
100623376 GGAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.78, C:0.04, G:0.10, T:0.08
Consensus pattern (25 bp):
AAAAGAAAGAAAAAAAAAAATCGAA
Found at i:100629214 original size:46 final size:46
Alignment explanation
Indices: 100629147--100629238 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
100629137 TCTCCTATTC
100629147 AGTAGTTGTAAACGGATACATAAGAGTAAGCTTCCAACTAACAAAA
1 AGTAGTTGTAAACGGATACATAAGAGTAAGCTTCCAACTAACAAAA
100629193 AGTAGTTGTAAACGGATACATAAGAGTAAGCTTCCAACTAACAAAA
1 AGTAGTTGTAAACGGATACATAAGAGTAAGCTTCCAACTAACAAAA
100629239 GAACTTCATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (46 bp):
AGTAGTTGTAAACGGATACATAAGAGTAAGCTTCCAACTAACAAAA
Found at i:100629240 original size:23 final size:23
Alignment explanation
Indices: 100629168--100629240 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
100629158 ACGGATACAT
100629168 AAGAGTAAGCTTCCAACTAACAA
1 AAGAGTAAGCTTCCAACTAACAA
** * *
100629191 AA-AGT-AG-TTGTAAACGGATACAT
1 AAGAGTAAGCTT-CCAAC-TA-ACAA
100629214 AAGAGTAAGCTTCCAACTAACAA
1 AAGAGTAAGCTTCCAACTAACAA
100629237 AAGA
1 AAGA
100629241 ACTTCATCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
20 2 0.06
21 5 0.14
22 4 0.11
23 14 0.39
24 4 0.11
25 5 0.14
26 2 0.06
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (23 bp):
AAGAGTAAGCTTCCAACTAACAA
Found at i:100635925 original size:23 final size:23
Alignment explanation
Indices: 100635864--100635925 Score: 54
Period size: 23 Copynumber: 2.6 Consensus size: 23
100635854 TAAAAATTAA
*
100635864 AATTTCTAAATTTAGATAAATTTTT
1 AATTTCTTAATTT--ATAAATTTTT
** *
100635889 AA-TTAATAACTTTATAATTTTTT
1 AATTTCTTAA-TTTATAAATTTTT
100635912 AATTTCTTAATTTA
1 AATTTCTTAATTTA
100635926 GAGTAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
23 15 0.52
24 9 0.31
25 5 0.17
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTTCTTAATTTATAAATTTTT
Found at i:100639871 original size:3 final size:3
Alignment explanation
Indices: 100639793--100639857 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
100639783 TGTACATTTA
100639793 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
100639841 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
100639858 GTTTTGATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:100640427 original size:2 final size:2
Alignment explanation
Indices: 100640420--100640446 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100640410 ATTATTATTA
100640420 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
100640447 CTATGTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100653261 original size:42 final size:42
Alignment explanation
Indices: 100653209--100653336 Score: 213
Period size: 42 Copynumber: 3.1 Consensus size: 42
100653199 GAGCAGCTAA
*
100653209 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
* *
100653251 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAAGCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
*
100653292 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATTG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
100653334 AAG
1 AAG
100653337 TCACGTGTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 39 0.49
42 40 0.51
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
Found at i:100653306 original size:41 final size:41
Alignment explanation
Indices: 100653209--100653325 Score: 198
Period size: 41 Copynumber: 2.8 Consensus size: 41
100653199 GAGCAGCTAA
* * *
100653209 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAAGCG
100653251 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGATTAAGCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGATTAAGCG
100653292 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGA
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGA
100653326 ATTGATTGAA
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 40 0.56
42 32 0.44
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (41 bp):
AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGATTAAGCG
Found at i:100653598 original size:8 final size:8
Alignment explanation
Indices: 100653585--100653610 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
100653575 CAATTTTGGG
100653585 CCCAAAAC
1 CCCAAAAC
100653593 CCCAAAAC
1 CCCAAAAC
100653601 CCCAAAAC
1 CCCAAAAC
100653609 CC
1 CC
100653611 ACTAAGCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.54, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCAAAAC
Found at i:100654963 original size:3 final size:3
Alignment explanation
Indices: 100654903--100654949 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
100654893 TATACATTTA
100654903 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
100654950 GTTTTGATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:100664023 original size:26 final size:26
Alignment explanation
Indices: 100663987--100664122 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
100663977 ACATGAATTC
100663987 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100664013 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100664039 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100664065 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100664091 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100664117 TTATCA
1 TTATCA
100664123 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100669720 original size:26 final size:26
Alignment explanation
Indices: 100669684--100669816 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
100669674 CATGAAATTC
100669684 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100669710 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100669736 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100669762 TTATCATG--ACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100669785 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100669811 TTATCA
1 TTATCA
100669817 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 10 0.10
24 12 0.12
25 12 0.12
26 66 0.66
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100669805 original size:49 final size:51
Alignment explanation
Indices: 100669684--100669816 Score: 225
Period size: 49 Copynumber: 2.6 Consensus size: 51
100669674 CATGAAATTC
* *
100669684 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
100669736 TTATCATGGAACATTTACCTAACCTATTATCATG-ACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
100669785 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
100669817 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
49 35 0.44
50 12 0.15
52 32 0.41
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
Found at i:100673714 original size:26 final size:26
Alignment explanation
Indices: 100673645--100673777 Score: 218
Period size: 25 Copynumber: 5.2 Consensus size: 26
100673635 ACATGAATTC
*
100673645 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
100673671 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
100673696 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
100673722 TTATCAT-GAACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCCA
*
100673746 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
100673772 TTATCA
1 TTATCA
100673778 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
24 9 0.09
25 52 0.52
26 39 0.39
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:100673725 original size:51 final size:50
Alignment explanation
Indices: 100673645--100673777 Score: 239
Period size: 51 Copynumber: 2.6 Consensus size: 50
100673635 ACATGAATTC
* *
100673645 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAA-CCA
100673696 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCA
100673746 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
100673778 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
50 35 0.44
51 45 0.56
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (50 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCA
Found at i:100679401 original size:26 final size:26
Alignment explanation
Indices: 100679365--100679500 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
100679355 CATGATATTC
100679365 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100679391 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100679417 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100679443 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100679469 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100679495 TTATCA
1 TTATCA
100679501 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100684133 original size:69 final size:69
Alignment explanation
Indices: 100684022--100684163 Score: 257
Period size: 69 Copynumber: 2.1 Consensus size: 69
100684012 GAACCCAAAC
* * *
100684022 TTGCACTCATAAACTCCCCTCAAGGATAATATTTTGCTCTAATGACTCGTGCAAATAAGCAATTG
1 TTGCACTCATAAACTCCCCTCAAGGATAATAATTTACTCTAATGACTCGTGCAAATAAGCAACTG
100684087 AGAT
66 AGAT
100684091 TTGCACTCATAAACTCCCCTCAAGGATAATAATTTACTCTAATGACTCGTGCAAATAAGCAACTG
1 TTGCACTCATAAACTCCCCTCAAGGATAATAATTTACTCTAATGACTCGTGCAAATAAGCAACTG
100684156 AGAT
66 AGAT
100684160 TTGC
1 TTGC
100684164 GATTAGTTTC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (69 bp):
TTGCACTCATAAACTCCCCTCAAGGATAATAATTTACTCTAATGACTCGTGCAAATAAGCAACTG
AGAT
Found at i:100684831 original size:30 final size:30
Alignment explanation
Indices: 100684795--100684856 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
100684785 ACTCCTTACC
100684795 ATCCAATCTAGTTACTATGCACGAGAAAAG
1 ATCCAATCTAGTTACTATGCACGAGAAAAG
*
100684825 ATCCAATCTAGTTACTATGCATGAGAAAAG
1 ATCCAATCTAGTTACTATGCACGAGAAAAG
100684855 AT
1 AT
100684857 TCTTTCTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (30 bp):
ATCCAATCTAGTTACTATGCACGAGAAAAG
Found at i:100691839 original size:8 final size:8
Alignment explanation
Indices: 100691814--100691864 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
100691804 ATGAATCGGC
100691814 AAAAGTCG
1 AAAAGTCG
* *
100691822 AAATGCCG
1 AAAAGTCG
100691830 AAAAGTCG
1 AAAAGTCG
100691838 AAAAGTC-
1 AAAAGTCG
100691845 AAAA-TGCTG
1 AAAAGT-C-G
100691854 AAAAGTCG
1 AAAAGTCG
100691862 AAA
1 AAA
100691865 GTTAGGCTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 23 0.66
9 5 0.14
10 1 0.03
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (8 bp):
AAAAGTCG
Found at i:100691849 original size:24 final size:24
Alignment explanation
Indices: 100691814--100691864 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
100691804 ATGAATCGGC
*
100691814 AAAAGTCGAAATGCCGAAAAGTCG
1 AAAAGTCAAAATGCCGAAAAGTCG
*
100691838 AAAAGTCAAAATGCTGAAAAGTCG
1 AAAAGTCAAAATGCCGAAAAGTCG
100691862 AAA
1 AAA
100691865 GTTAGGCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (24 bp):
AAAAGTCAAAATGCCGAAAAGTCG
Found at i:100693081 original size:60 final size:60
Alignment explanation
Indices: 100692988--100693108 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
100692978 ATAAGTTTAT
100692988 TAAGTATGTTTCAAACCAGATTGTAATAAGGTTTTCATTATGCTATTATTACTTGAAGTA
1 TAAGTATGTTTCAAACCAGATTGTAATAAGGTTTTCATTATGCTATTATTACTTGAAGTA
* *
100693048 TAAGTGTGTTTCAGACCAGATTGTAATAAGGTTTTCATTATGCTATTATTACTTGAAGTA
1 TAAGTATGTTTCAAACCAGATTGTAATAAGGTTTTCATTATGCTATTATTACTTGAAGTA
100693108 T
1 T
100693109 TATTATTTCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (60 bp):
TAAGTATGTTTCAAACCAGATTGTAATAAGGTTTTCATTATGCTATTATTACTTGAAGTA
Found at i:100701883 original size:11 final size:11
Alignment explanation
Indices: 100701809--100701940 Score: 58
Period size: 12 Copynumber: 11.4 Consensus size: 11
100701799 AGTCCAAAAA
*
100701809 TAATATTATTT
1 TAATATTAATT
100701820 TAATAGATTTAATAT
1 TAAT--A-TTAAT-T
100701835 TAA-ATTTAATT
1 TAATA-TTAATT
*
100701846 TAATACTTATTT
1 TAATA-TTAATT
*
100701858 TAATAGT-ATT
1 TAATATTAATT
100701868 T--TATTAATT
1 TAATATTAATT
**
100701877 TAATATTAAAG
1 TAATATTAATT
100701888 TAATTATCTTAATAT
1 TAA-TA--TTAAT-T
100701903 TAA-ATTAAATT
1 TAATATT-AATT
* *
100701914 TAATGTTTATGT
1 TAATATTAAT-T
100701926 TAATATTAATT
1 TAATATTAATT
100701937 TAAT
1 TAAT
100701941 TTGCCTACTC
Statistics
Matches: 92, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
8 3 0.03
9 4 0.04
10 3 0.03
11 31 0.34
12 34 0.37
13 2 0.02
14 8 0.09
15 7 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:100710942 original size:16 final size:16
Alignment explanation
Indices: 100710921--100710956 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
100710911 AATTAATAAA
100710921 TATTACTTTATTCATC
1 TATTACTTTATTCATC
*
100710937 TATTACTTTATTCGTC
1 TATTACTTTATTCATC
100710953 TATT
1 TATT
100710957 GGTTAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTACTTTATTCATC
Found at i:100714565 original size:20 final size:20
Alignment explanation
Indices: 100714540--100714585 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
100714530 AGGAACTAAA
* *
100714540 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
100714560 ATGAAAAAATTCTAAAATTTT
1 ATG-AAAAATTCTAAAATTTG
100714581 ATGAA
1 ATGAA
100714586 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:100716037 original size:7 final size:7
Alignment explanation
Indices: 100716025--100716108 Score: 60
Period size: 7 Copynumber: 11.9 Consensus size: 7
100716015 GTTTCAAGTG
100716025 TAGGGTT
1 TAGGGTT
100716032 TAGGGTT
1 TAGGGTT
*
100716039 TAAGGTT
1 TAGGGTT
***
100716046 TAATTTT
1 TAGGGTT
*
100716053 TAGTGTT
1 TAGGGTT
* *
100716060 TAAGTTT
1 TAGGGTT
100716067 TAGGGTT
1 TAGGGTT
*
100716074 TAGAGTTT
1 TAG-GGTT
* *
100716082 TAAGATT
1 TAGGGTT
*
100716089 TAAGGTT
1 TAGGGTT
100716096 TAGGGTT
1 TAGGGTT
100716103 TAGGGT
1 TAGGGT
100716109 GAAGTTAGAA
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TAGGGTT
Found at i:100716045 original size:14 final size:14
Alignment explanation
Indices: 100716025--100716104 Score: 79
Period size: 14 Copynumber: 5.6 Consensus size: 14
100716015 GTTTCAAGTG
* *
100716025 TAGGGTTTAGGGTT
1 TAGGGTTTAAGTTT
* *
100716039 TAAGGTTTAATTTT
1 TAGGGTTTAAGTTT
*
100716053 TAGTGTTTAAGTTT
1 TAGGGTTTAAGTTT
100716067 TAGGGTTTAGAGTTT
1 TAGGGTTTA-AGTTT
* * *
100716082 TAAGATTTAAGGTT
1 TAGGGTTTAAGTTT
100716096 TAGGGTTTA
1 TAGGGTTTA
100716105 GGGTGAAGTT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
14 40 0.77
15 12 0.23
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TAGGGTTTAAGTTT
Found at i:100716054 original size:21 final size:21
Alignment explanation
Indices: 100716028--100716104 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
100716018 TCAAGTGTAG
*
100716028 GGTTTAGGGTTTAAGGTTTAA
1 GGTTTAGGGTTTAAGATTTAA
** * * *
100716049 TTTTTAGTGTTTAAGTTTTAG
1 GGTTTAGGGTTTAAGATTTAA
*
100716070 GGTTTAGAGTTTTAAGATTTAA
1 GGTTTAG-GGTTTAAGATTTAA
100716092 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
100716105 GGGTGAAGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 26 0.60
22 17 0.40
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.49
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATTTAA
Found at i:100716090 original size:22 final size:22
Alignment explanation
Indices: 100716028--100716103 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
100716018 TCAAGTGTAG
* *
100716028 GGTTTAG-GGTTTAAGGTTTAA
1 GGTTTAGAGTTTTAAGATTTAA
** * * *
100716049 TTTTTAGTG-TTTAAGTTTTAG
1 GGTTTAGAGTTTTAAGATTTAA
100716070 GGTTTAGAGTTTTAAGATTTAA
1 GGTTTAGAGTTTTAAGATTTAA
*
100716092 GGTTTAGGGTTT
1 GGTTTAGAGTTT
100716104 AGGGTGAAGT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 21 0.49
22 22 0.51
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (22 bp):
GGTTTAGAGTTTTAAGATTTAA
Found at i:100717896 original size:23 final size:23
Alignment explanation
Indices: 100717870--100717918 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
100717860 TAGGCCAATG
100717870 AATGTCAACAATATGAAGATGCT
1 AATGTCAACAATATGAAGATGCT
100717893 AATGTCAACAATATGAAGATGCT
1 AATGTCAACAATATGAAGATGCT
100717916 AAT
1 AAT
100717919 AAATAACTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (23 bp):
AATGTCAACAATATGAAGATGCT
Found at i:100718177 original size:27 final size:27
Alignment explanation
Indices: 100718138--100718213 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
100718128 AAGATTTAAC
* * *
100718138 ATAAATAAAATATAAA-TCAATTTGAA
1 ATAAATAATATATAAAGTAAATTTCAA
100718164 ATAAAATAATATATAAAGTAAATTTCAA
1 AT-AAATAATATATAAAGTAAATTTCAA
100718192 ATAAATAATA-AGTAAA-TAAATT
1 ATAAATAATATA-TAAAGTAAATT
100718214 AAGATAAAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.20
27 25 0.57
28 10 0.23
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (27 bp):
ATAAATAATATATAAAGTAAATTTCAA
Found at i:100718655 original size:25 final size:25
Alignment explanation
Indices: 100718607--100718656 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
100718597 TGTATGATAG
*
100718607 ATTAAAATAAATAATACGTATAAAA
1 ATTAAAAAAAATAATACGTATAAAA
*
100718632 ATTAAAAAAGAATAATA-GTTTAAAA
1 ATTAAAAAA-AATAATACGTATAAAA
100718657 TGCGCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (25 bp):
ATTAAAAAAAATAATACGTATAAAA
Found at i:100718706 original size:17 final size:18
Alignment explanation
Indices: 100718675--100718708 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
100718665 ATAAACTTAA
100718675 AATACCTAATAATAATAT
1 AATACCTAATAATAATAT
*
100718693 AATA-CTAATTATAATA
1 AATACCTAATAATAATA
100718709 AGGACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (18 bp):
AATACCTAATAATAATAT
Found at i:100721702 original size:21 final size:22
Alignment explanation
Indices: 100721669--100721713 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
100721659 TTTCTAGATA
100721669 TTTTAAATAATTTTTA-ATAATT
1 TTTTAAATAATTTTTATAT-ATT
*
100721691 TTTTAAA-CATTTTTATATATT
1 TTTTAAATAATTTTTATATATT
100721712 TT
1 TT
100721714 ATTAGCAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTAAATAATTTTTATATATT
Found at i:100722036 original size:23 final size:25
Alignment explanation
Indices: 100721999--100722047 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
100721989 TAAAGTATAA
100721999 TATCAAATTTAGTTTATATT-TTTT
1 TATCAAATTTAGTTTATATTCTTTT
* *
100722023 TATC-AATTTTGTTTTTATTCTTTT
1 TATCAAATTTAGTTTATATTCTTTT
100722047 T
1 T
100722048 TTAGTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (25 bp):
TATCAAATTTAGTTTATATTCTTTT
Found at i:100724500 original size:3 final size:3
Alignment explanation
Indices: 100724494--100724533 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
100724484 CCATGTTTTT
* *
100724494 TTA TTA TTC TTA TTA TTA TTA TTA TTA TTA CTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
100724534 GTATACGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:100724598 original size:26 final size:27
Alignment explanation
Indices: 100724565--100724624 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
100724555 GTGAATGTTG
*
100724565 TATA-TATT-TATGTATAATATTATTTT
1 TATATTATTGTAT-TATAATATTATTAT
*
100724591 TA-ATTATTGTATTTTAATATTATTAT
1 TATATTATTGTATTATAATATTATTAT
100724617 TATATTAT
1 TATATTAT
100724625 ATATACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 1 0.03
26 20 0.69
27 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TATATTATTGTATTATAATATTATTAT
Found at i:100724634 original size:29 final size:26
Alignment explanation
Indices: 100724579--100724634 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 26
100724569 TATTTATGTA
* *
100724579 TAATATTATTTTTAATTATTGTATTT
1 TAATATTATTATTAATTATTATATTT
100724605 TAATATTATTATTATATTATATATACTTT
1 TAATATTATTATTA-ATTAT-TATA-TTT
100724634 T
1 T
100724635 TCGTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 5 0.20
28 3 0.12
29 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TAATATTATTATTAATTATTATATTT
Found at i:100724760 original size:23 final size:24
Alignment explanation
Indices: 100724716--100724761 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
100724706 TATACACATT
*
100724716 TCATATAGTATTATCTTTTTACTA
1 TCATATAGTATTATCTTCTTACTA
100724740 TCATAT-GTATTAT-TATCTTACT
1 TCATATAGTATTATCT-TCTTACT
100724762 TATTTTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 13 0.65
24 6 0.30
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (24 bp):
TCATATAGTATTATCTTCTTACTA
Found at i:100724775 original size:21 final size:21
Alignment explanation
Indices: 100724747--100724799 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
100724737 CTATCATATG
100724747 TATTATTATCTTACTTATTTTCAC
1 TATTATTA--TTA-TTATTTTCAC
100724771 TATTATTATTATTATTTTCA-
1 TATTATTATTATTATTTTCAC
100724791 TCATTATTA
1 T-ATTATTA
100724800 CACGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
24 8 0.29
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATTATTATTTTCAC
Found at i:100725951 original size:5 final size:5
Alignment explanation
Indices: 100725941--100726026 Score: 58
Period size: 5 Copynumber: 17.2 Consensus size: 5
100725931 CAATAATTTT
*
100725941 TTATA TTATA -TATA TT-TA TTAT- TTATC TATATA TTAAATA TT-TA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TT--ATA TTATA
*
100725985 TTATA TCT-TA CTTATA TT-TCT TTATA TTATA TTATA TTATA T
1 TTATA T-TATA -TTATA TTAT-A TTATA TTATA TTATA TTATA T
100726027 GTTATATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 24
0.71 0.03 0.26
Matches are distributed among these distances:
4 17 0.26
5 35 0.53
6 9 0.14
7 5 0.08
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:100725971 original size:26 final size:26
Alignment explanation
Indices: 100725942--100726026 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 26
100725932 AATAATTTTT
100725942 TATATTATATATATTTATTATTTATC
1 TATATTATATATATTTATTATTTATC
*
100725968 TATA-TATTAAATATTTATTA--TATC
1 TATATTA-TATATATTTATTATTTATC
* *
100725992 T-TACTTATATTTCTTTA-TATTATAT-
1 TATA-TTATATATATTTATTATT-TATC
100726017 TATATTATAT
1 TATATTATAT
100726027 GTTATATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
23 4 0.08
24 12 0.25
25 11 0.23
26 21 0.44
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATTATATATATTTATTATTTATC
Found at i:100725973 original size:19 final size:18
Alignment explanation
Indices: 100725949--100725990 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
100725939 TTTTATATTA
* *
100725949 TATATATTTATTATTTAT
1 TATATATTAAATATTTAT
100725967 CTATATATTAAATATTTAT
1 -TATATATTAAATATTTAT
100725986 TATAT
1 TATAT
100725991 CTTACTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATATTAAATATTTAT
Found at i:100729547 original size:30 final size:30
Alignment explanation
Indices: 100729518--100729617 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
100729508 CTTAGCCTTT
*
100729518 TCCACCACCAACTCCACTAGCCACACCTT-T
1 TCCACCACCAACTCCACTAGCCACA-CTTGC
*
100729548 TCCACCACCAAATCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
** * *
100729578 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
100729608 TCCACCACCA
1 TCCACCACCA
100729618 CTTGTACCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 3 0.05
30 56 0.95
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:100730240 original size:25 final size:25
Alignment explanation
Indices: 100730117--100730247 Score: 98
Period size: 25 Copynumber: 5.5 Consensus size: 25
100730107 CTCTTTTTGT
* *
100730117 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
*
100730140 TATTA--TATATATCCTTT--TAATA
1 TATTATGTATATAT-CTTTAATACTA
* * *
100730162 TATTAGGTATAT-T-TTAAATTCTA
1 TATTATGTATATATCTTTAATACTA
* * *
100730185 TATTACGTATATATATTTTATACTA
1 TATTATGTATATATCTTTAATACTA
*
100730210 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCTTTAATACTA
*
100730235 TATTATTTATATA
1 TATTATGTATATA
100730248 CATATATTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 21 0.25
24 8 0.09
25 39 0.46
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:100730246 original size:50 final size:48
Alignment explanation
Indices: 100730134--100730247 Score: 113
Period size: 50 Copynumber: 2.3 Consensus size: 48
100730124 ATATTTCTTA
*
100730134 ATATTATATTATATATATCCTTTTAATATATTAGGTATATTTTAAATTCT
1 ATATTAT-TTATATATAT-CTTTTAATATATTAGGTATATTTTAAATACT
** * * * *
100730184 ATATTACGTATATATAT-TTTATACTATTTTATGTATATATCTTTAATACT
1 ATATTATTTATATATATCTTT-TAATATATTAGGTATAT-T-TTAAATACT
100730234 ATATTATTTATATA
1 ATATTATTTATATA
100730248 CATATATTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
47 3 0.06
48 14 0.27
49 10 0.19
50 25 0.48
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (48 bp):
ATATTATTTATATATATCTTTTAATATATTAGGTATATTTTAAATACT
Found at i:100730255 original size:14 final size:14
Alignment explanation
Indices: 100730195--100730256 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
100730185 TATTACGTAT
100730195 ATATATTT-TATAC
1 ATATATTTATATAC
* *
100730208 -TAT-TTTATGTAT
1 ATATATTTATATAC
*
100730220 ATATCTTTA-ATAC
1 ATATATTTATATAC
100730233 TATATTATTTATATAC
1 -ATA-TATTTATATAC
100730249 ATATATTT
1 ATATATTT
100730257 TTTTCTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
11 3 0.08
12 6 0.16
13 5 0.13
14 12 0.32
15 8 0.21
16 4 0.11
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (14 bp):
ATATATTTATATAC
Found at i:100730293 original size:29 final size:28
Alignment explanation
Indices: 100730211--100730295 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
100730201 TTTATACTAT
100730211 TTTATGTATATATCTTTAA-TACTATATTA
1 TTTATGTATATAT-TTTAACTA-TATATTA
* ** *
100730240 TTTATATACATATATTTTTTTCTATATGTTA
1 TTTATGT--ATATA-TTTTAACTATATATTA
100730271 TCTTATGTATATATTTTAACTATAT
1 T-TTATGTATATATTTTAACTATAT
100730296 TATGTATGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
29 16 0.36
30 5 0.11
31 15 0.34
32 8 0.18
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAACTATATATTA
Found at i:100730323 original size:25 final size:24
Alignment explanation
Indices: 100730273--100730337 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
100730263 ATATGTTATC
100730273 TTATGTATATA-TTTT-AACTATA
1 TTATGTATATATTTTTAAACTATA
*
100730295 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAA-ACTATA
100730320 TTATGTATATATTTTTAA
1 TTATGTATATATTTTTAA
100730338 TATTATCACG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 10 0.26
23 4 0.11
24 1 0.03
25 23 0.61
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATGTATATATTTTTAAACTATA
Found at i:100730514 original size:24 final size:22
Alignment explanation
Indices: 100730487--100730535 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
100730477 TAATTATTAT
100730487 TATTCTAATATTTTGATATTTTGA
1 TATTCTAATATTTT-ATATTTT-A
*
100730511 TATTTTAATATTTTATATTTTA
1 TATTCTAATATTTTATATTTTA
100730533 TAT
1 TAT
100730536 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.17
23 7 0.29
24 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
TATTCTAATATTTTATATTTTA
Found at i:100730530 original size:7 final size:8
Alignment explanation
Indices: 100730494--100730535 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
100730484 TATTATTCTA
100730494 ATATTTTG
1 ATATTTTG
100730502 ATATTTTG
1 ATATTTTG
*
100730510 ATATTTTA
1 ATATTTTG
100730518 ATATTTT-
1 ATATTTTG
100730525 ATATTTT-
1 ATATTTTG
100730532 ATAT
1 ATAT
100730536 ATTTTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 11 0.33
8 22 0.67
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (8 bp):
ATATTTTG
Found at i:100730537 original size:16 final size:16
Alignment explanation
Indices: 100730494--100730542 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
100730484 TATTATTCTA
*
100730494 ATATTTTGATAT-TTTG
1 ATATTTT-ATATATTTT
100730510 ATATTTTA-ATATTTT
1 ATATTTTATATATTTT
100730525 ATATTTTATATATTTT
1 ATATTTTATATATTTT
100730541 AT
1 AT
100730543 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 2 0.07
15 12 0.40
16 16 0.53
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATATTTTATATATTTT
Found at i:100738270 original size:30 final size:30
Alignment explanation
Indices: 100738240--100738340 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
100738230 TCTTAGCCTT
*
100738240 TTCCACTACCAACTCCACTAGCCACACCTT-
1 TTCCACCACCAACTCCACTAGCCACA-CTTG
* * *
100738270 TTCCACCGCCAAAGT-CACTAGTCACACTTG
1 TTCCACCACC-AACTCCACTAGCCACACTTG
* ** * *
100738300 CTCCATTACCTACTCCACTAACCACACTTG
1 TTCCACCACCAACTCCACTAGCCACACTTG
100738330 TTCCACCACCA
1 TTCCACCACCA
100738341 CTTGTACCTA
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
29 5 0.10
30 44 0.85
31 3 0.06
ACGTcount: A:0.27, C:0.44, G:0.06, T:0.24
Consensus pattern (30 bp):
TTCCACCACCAACTCCACTAGCCACACTTG
Found at i:100738967 original size:25 final size:24
Alignment explanation
Indices: 100738837--100738968 Score: 78
Period size: 25 Copynumber: 5.5 Consensus size: 24
100738827 CTCCTTTTGT
*
100738837 TATTAT-TATAT-TTCTTAATATTA
1 TATTATGTATATATT-TTAATACTA
* *
100738860 TATTATATATATCCTTTT-A-A-TA
1 TATTATGTATAT-ATTTTAATACTA
* * *
100738882 TATTAGGTATAT-TTTAAATTCTA
1 TATTATGTATATATTTTAATACTA
* *
100738905 TATTACGTATATATATTTTTATACTA
1 TATTA--TGTATATATTTTAATACTA
* *
100738931 TTTTATGCATATATCTTTAATACTA
1 TATTATGTATATAT-TTTAATACTA
*
100738956 TATTATTTATATA
1 TATTATGTATATA
100738969 CATATATTTT
Statistics
Matches: 83, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
20 3 0.04
21 1 0.01
22 12 0.14
23 14 0.17
24 13 0.16
25 26 0.31
26 14 0.17
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (24 bp):
TATTATGTATATATTTTAATACTA
Found at i:100739046 original size:25 final size:24
Alignment explanation
Indices: 100738996--100739060 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
100738986 ACATGTTATC
100738996 TTATGTATATA-TTTT-AACTATA
1 TTATGTATATATTTTTAAACTATA
*
100739018 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAA-ACTATA
100739043 TTATGTATATATTTTTAA
1 TTATGTATATATTTTTAA
100739061 TATTATCACG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 10 0.26
23 4 0.11
24 1 0.03
25 23 0.61
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATGTATATATTTTTAAACTATA
Found at i:100739232 original size:8 final size:8
Alignment explanation
Indices: 100739214--100739281 Score: 75
Period size: 8 Copynumber: 8.5 Consensus size: 8
100739204 TAATTATTAT
*
100739214 TATTCTAA
1 TATTTTAA
*
100739222 TATTTTGA
1 TATTTTAA
*
100739230 TATTTTGA
1 TATTTTAA
*
100739238 TTTTTTAA
1 TATTTTAA
100739246 TATTTTAA
1 TATTTTAA
100739254 TA-TTTAA
1 TATTTTAA
100739261 TATTTTATA
1 TATTTTA-A
*
100739270 TATTTTAT
1 TATTTTAA
100739278 TATT
1 TATT
100739282 CATATCATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
7 7 0.13
8 37 0.71
9 8 0.15
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:100739259 original size:15 final size:16
Alignment explanation
Indices: 100739241--100739274 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
100739231 ATTTTGATTT
100739241 TTTAATATTTTA-ATA
1 TTTAATATTTTATATA
100739256 TTTAATATTTTATATA
1 TTTAATATTTTATATA
100739272 TTT
1 TTT
100739275 TATTATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATATTTTATATA
Found at i:100747384 original size:16 final size:16
Alignment explanation
Indices: 100747363--100747410 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
100747353 TTTTAAAGAA
100747363 AATATATACATAAAAT
1 AATATATACATAAAAT
* *
100747379 AATATA-GCAT-CAAT
1 AATATATACATAAAAT
*
100747393 AATATATACATAGAAT
1 AATATATACATAAAAT
100747409 AA
1 AA
100747411 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 9 0.35
15 6 0.23
16 11 0.42
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.29
Consensus pattern (16 bp):
AATATATACATAAAAT
Found at i:100748711 original size:16 final size:15
Alignment explanation
Indices: 100748690--100748732 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
100748680 TCTGGATCAT
*
100748690 TTGGGCTCATTTAGGA
1 TTGGGC-CATTTAAGA
100748706 TTGGGCCAGTTTTAAGA
1 TTGGGCCA--TTTAAGA
100748723 TTGGGCCATT
1 TTGGGCCATT
100748733 GGGCCTTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 6 0.25
17 14 0.58
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (15 bp):
TTGGGCCATTTAAGA
Found at i:100748899 original size:16 final size:16
Alignment explanation
Indices: 100748864--100748898 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
100748854 CTTTTATTGG
*
100748864 TTTTGTTTTAATTTAT
1 TTTTGGTTTAATTTAT
100748880 TTTTGGTTT-ATTTAT
1 TTTTGGTTTAATTTAT
100748895 TTTT
1 TTTT
100748899 TTGATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (16 bp):
TTTTGGTTTAATTTAT
Found at i:100752972 original size:39 final size:39
Alignment explanation
Indices: 100752915--100752995 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
100752905 AATTATATTA
100752915 CCAACACAAAGCCCGCGGGACTTTAGCCCGGATACATTT
1 CCAACACAAAGCCCGCGGGACTTTAGCCCGGATACATTT
* *
100752954 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAACACAAAGCCCGCGGGACTTTAGCCCGGATACATTT
100752993 CCA
1 CCA
100752996 GTGTCTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (39 bp):
CCAACACAAAGCCCGCGGGACTTTAGCCCGGATACATTT
Found at i:100753666 original size:18 final size:18
Alignment explanation
Indices: 100753639--100753682 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
100753629 GAGTGATTAC
*
100753639 AAAC-AAATAAAATTATT
1 AAACAAAATAAAATGATT
*
100753656 AAACAAAATAATATGATT
1 AAACAAAATAAAATGATT
*
100753674 AAAAAAAAT
1 AAACAAAAT
100753683 GCGCGAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (18 bp):
AAACAAAATAAAATGATT
Found at i:100754615 original size:16 final size:15
Alignment explanation
Indices: 100754594--100754636 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
100754584 TCTGGATCAT
*
100754594 TTGGGCTCATTTAGGA
1 TTGGGC-CATTTAAGA
100754610 TTGGGCCAGTTTTAAGA
1 TTGGGCCA--TTTAAGA
100754627 TTGGGCCATT
1 TTGGGCCATT
100754637 GGGCCTTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 6 0.25
17 14 0.58
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (15 bp):
TTGGGCCATTTAAGA
Found at i:100754804 original size:16 final size:16
Alignment explanation
Indices: 100754768--100754802 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
100754758 CTTTTATTGG
*
100754768 TTTTGTTTTAATTTAT
1 TTTTGGTTTAATTTAT
100754784 TTTTGGTTT-ATTTAT
1 TTTTGGTTTAATTTAT
100754799 TTTT
1 TTTT
100754803 TGATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (16 bp):
TTTTGGTTTAATTTAT
Found at i:100758881 original size:39 final size:39
Alignment explanation
Indices: 100758824--100758904 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
100758814 AATTATATTA
100758824 CCAACACAAAGCCCGCGGGACTTTAGCCCGGATACATTT
1 CCAACACAAAGCCCGCGGGACTTTAGCCCGGATACATTT
* *
100758863 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAACACAAAGCCCGCGGGACTTTAGCCCGGATACATTT
100758902 CCA
1 CCA
100758905 GTGTCTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (39 bp):
CCAACACAAAGCCCGCGGGACTTTAGCCCGGATACATTT
Found at i:100765521 original size:20 final size:20
Alignment explanation
Indices: 100765496--100765540 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
100765486 ACATCAGTAT
*
100765496 TTTTATCCTGAATTTTAGGA
1 TTTTATCCTGAATTTCAGGA
100765516 TTTTATCCTGAATTTCAGGA
1 TTTTATCCTGAATTTCAGGA
100765536 TTTTA
1 TTTTA
100765541 ATTTGGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.51
Consensus pattern (20 bp):
TTTTATCCTGAATTTCAGGA
Found at i:100767573 original size:22 final size:22
Alignment explanation
Indices: 100767547--100767608 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
100767537 ATTATTATTG
100767547 TTATTAAATTTTAATATGACTA
1 TTATTAAATTTTAATATGACTA
* * *
100767569 TTATTAAATGTTAATAGGATTA
1 TTATTAAATTTTAATATGACTA
*
100767591 TTATTAAATATTTTATAT
1 TTATTAAAT-TTTAATAT
100767609 TAATTTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (22 bp):
TTATTAAATTTTAATATGACTA
Found at i:100767644 original size:23 final size:23
Alignment explanation
Indices: 100767587--100767644 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
100767577 TGTTAATAGG
*
100767587 ATTATTATTAAATATTTTATATTAA
1 ATTA-TATT-AATATTTTATAATAA
* *
100767612 TTTA-ATTTAATGTTTTATAATAA
1 ATTATA-TTAATATTTTATAATAA
100767635 ATTATATTAA
1 ATTATATTAA
100767645 AATCTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
23 21 0.78
24 3 0.11
25 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTATATTAATATTTTATAATAA
Found at i:100771133 original size:94 final size:92
Alignment explanation
Indices: 100770991--100771163 Score: 224
Period size: 94 Copynumber: 1.9 Consensus size: 92
100770981 TAATTGTGTG
* *
100770991 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATATAAAACCATGTCT
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAATATAAAA-CATGTCT
100771056 GGGACATGGCATCGGCAATGAGACGAGAA
65 GGGACAT-GCATCGGCAATGAGACGAGAA
* * * * * *
100771085 CTAGTGTAAGCCATGTCTAGGACATGCATCGGCCTCGA-GATGTA-AGCCAGTGTAAGATATGTC
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATG-AGAGCCAATATAAAACATGTC
100771148 TGGGACATGCATCGGC
64 TGGGACATGCATCGGC
100771164 TACAAGATGT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 8 0.12
93 13 0.19
94 46 0.67
95 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (92 bp):
CTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAATATAAAACATGTCTG
GGACATGCATCGGCAATGAGACGAGAA
Found at i:100771137 original size:46 final size:47
Alignment explanation
Indices: 100770993--100771251 Score: 198
Period size: 46 Copynumber: 5.5 Consensus size: 47
100770983 ATTGTGTGCT
* * *
100770993 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGTC
* * * * * * *
100771039 AATATAAAACCATGTCTGGGACATGGCATCGGCAAT-GAGACGAGAACT-
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCGAGATG-TAAGTC
* *
100771087 AGTGTAAG-CCATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAAGTC
* *
100771133 AGTGTAAGA-TATGTCTGGGACATGCATCGG-CTACAAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGTC
* * *
100771177 AGTGTAAGACCATGTCTGGGACATGGCTTCGGCAC-GGATATGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-A-AGTC
100771227 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
100771252 GCATTGACCT
Statistics
Matches: 168, Mismatches: 27, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.07
45 18 0.11
46 64 0.38
47 28 0.17
48 16 0.10
49 3 0.02
50 28 0.17
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAAGTC
Found at i:100773794 original size:46 final size:46
Alignment explanation
Indices: 100773742--100773917 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
100773732 TATCTAGGCA
100773742 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
100773788 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
100773833 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
100773881 CCCGAGCTTGTTGAGTTGAGTCCCAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100773918 GCTGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 60 0.56
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:100773894 original size:93 final size:93
Alignment explanation
Indices: 100773735--100773910 Score: 289
Period size: 93 Copynumber: 1.9 Consensus size: 93
100773725 ATTTAGATAT
*
100773735 CTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTT
1 CTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTT
*
100773800 GAGTTGAGTCCGAGTTCGTGAGATGTAA
66 GAGTTGAGTCCCAGTTCGTGAGATGTAA
* * * * *
100773828 CTAGGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCAGTTATGGATGCGAACGCCCGAGCTTGTT
1 CTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTT
100773893 GAGTTGAGTCCCAGTTCG
66 GAGTTGAGTCCCAGTTCG
100773911 CTTATGGGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
CTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTT
GAGTTGAGTCCCAGTTCGTGAGATGTAA
Found at i:100779253 original size:83 final size:83
Alignment explanation
Indices: 100779114--100779286 Score: 346
Period size: 83 Copynumber: 2.1 Consensus size: 83
100779104 AGTTAGGCCA
100779114 TGTGTGCCCTGCACCTTTAATTCGAGAAACAGAATGCTCAAATTTGAGCACATGGGCAGAGACAC
1 TGTGTGCCCTGCACCTTTAATTCGAGAAACAGAATGCTCAAATTTGAGCACATGGGCAGAGACAC
100779179 AGGTGTGTGTCTCAGCCG
66 AGGTGTGTGTCTCAGCCG
100779197 TGTGTGCCCTGCACCTTTAATTCGAGAAACAGAATGCTCAAATTTGAGCACATGGGCAGAGACAC
1 TGTGTGCCCTGCACCTTTAATTCGAGAAACAGAATGCTCAAATTTGAGCACATGGGCAGAGACAC
100779262 AGGTGTGTGTCTCAGCCG
66 AGGTGTGTGTCTCAGCCG
100779280 TGTGTGC
1 TGTGTGC
100779287 TACATGGCCT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 90 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (83 bp):
TGTGTGCCCTGCACCTTTAATTCGAGAAACAGAATGCTCAAATTTGAGCACATGGGCAGAGACAC
AGGTGTGTGTCTCAGCCG
Found at i:100780112 original size:20 final size:18
Alignment explanation
Indices: 100780059--100780112 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
100780049 CAAAACAGGG
100780059 GAAAAATATCGATATTTA
1 GAAAAATATCGATATTTA
*
100780077 AAAAAGAGTATCGATATTTTA
1 GAAAA-A-TATCGATA-TTTA
*
100780098 TGAAAAATATGGATA
1 -GAAAAATATCGATA
100780113 CCGCTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.14
19 1 0.03
20 15 0.52
21 5 0.17
22 4 0.14
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (18 bp):
GAAAAATATCGATATTTA
Found at i:100781005 original size:28 final size:27
Alignment explanation
Indices: 100780951--100781061 Score: 99
Period size: 28 Copynumber: 4.1 Consensus size: 27
100780941 CATATATCAC
100780951 TAAGCACA-AAGTGC-AAATAA-A-GA
1 TAAGCACAGAAGTGCAAAATAATACGA
*
100780974 TAAGCACTGAAGTGCAAAATAATTACGA
1 TAAGCACAGAAGTGCAAAATAA-TACGA
*
100781002 TAAGCACCA-AAGTGCAAATTTTACA-ACGA
1 TAAGCA-CAGAAGTGCAAA--ATA-ATACGA
* *
100781031 TAAGCACAGAAGTGCGAAATAATATGA
1 TAAGCACAGAAGTGCAAAATAATACGA
100781058 TAAG
1 TAAG
100781062 AGCACTAATT
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
23 7 0.10
24 6 0.08
25 6 0.08
26 1 0.01
27 10 0.14
28 19 0.27
29 19 0.27
30 2 0.03
31 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAGCACAGAAGTGCAAAATAATACGA
Found at i:100781043 original size:57 final size:50
Alignment explanation
Indices: 100780951--100781061 Score: 132
Period size: 57 Copynumber: 2.1 Consensus size: 50
100780941 CATATATCAC
*
100780951 TAAGCACAAAGTGCAAATAAAGATAAGCACTGAAGTGCAAAATAATTACGA
1 TAAGCACAAAGTGCAAATAAAGATAAGCACAGAAGTGCAAAATAA-TACGA
* *
100781002 TAAGCACCAAAGTGCAAATTTTACAACGATAAGCACAGAAGTGCGAAATAATATGA
1 TAAGCA-CAAAGTGCAAA---TA-AA-GATAAGCACAGAAGTGCAAAATAATACGA
100781058 TAAG
1 TAAG
100781062 AGCACTAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
51 6 0.12
52 11 0.22
55 2 0.04
56 10 0.20
57 22 0.43
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (50 bp):
TAAGCACAAAGTGCAAATAAAGATAAGCACAGAAGTGCAAAATAATACGA
Found at i:100782552 original size:40 final size:39
Alignment explanation
Indices: 100782508--100782632 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 39
100782498 GCGTTATACT
* *
100782508 TTCTGTTTGGCGTGATTCGGGTAGATTAGCTCTTATGAGC
1 TTCTGTTTGGCGTGATT-GAGTGGATTAGCTCTTATGAGC
* * *
100782548 TTCTG-TTGGCATGTATTGAGTGGACTAGCTTTTATGAGC
1 TTCTGTTTGGCGTG-ATTGAGTGGATTAGCTCTTATGAGC
* * *
100782587 TTCTATTTGGCGT-ATTTTAATTGGATTAGCTCTTATGAGC
1 TTCTGTTTGGCGTGA--TTGAGTGGATTAGCTCTTATGAGC
100782627 TTCTGT
1 TTCTGT
100782633 CTGGTGTGTT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 29 0.42
40 39 0.57
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.44
Consensus pattern (39 bp):
TTCTGTTTGGCGTGATTGAGTGGATTAGCTCTTATGAGC
Found at i:100784483 original size:20 final size:20
Alignment explanation
Indices: 100784460--100784497 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
100784450 GTGGTATGAG
*
100784460 ACATGGCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
100784480 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTGGCCTG
100784498 CCCATGGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.37, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:100785000 original size:13 final size:13
Alignment explanation
Indices: 100784982--100785018 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
100784972 AGATAATTAG
100784982 CAAATCATACATA
1 CAAATCATACATA
100784995 CAAATCATACATA
1 CAAATCATACATA
*
100785008 TAAATTCATAC
1 CAAA-TCATAC
100785019 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:100798312 original size:17 final size:17
Alignment explanation
Indices: 100798290--100798323 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100798280 TCTTGTAATA
100798290 GCTAAAATGTGACCATT
1 GCTAAAATGTGACCATT
100798307 GCTAAAATGTGACCATT
1 GCTAAAATGTGACCATT
100798324 CTTTTTTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (17 bp):
GCTAAAATGTGACCATT
Found at i:100799164 original size:517 final size:516
Alignment explanation
Indices: 100798175--100801269 Score: 5301
Period size: 517 Copynumber: 5.9 Consensus size: 516
100798165 TGCATAGGAC
100798175 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
1 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
100798240 CCCAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACCA
66 CCCAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTC---T--T-G-T--AA--T----A
*
100798305 TTGCTAAAATGTGACCATTCTTTTTTTCGGCAATACCATTTTGTTGGGGTGTGCTAACACAAGAT
116 --GCTAAAATGTGACCATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGAT
* *
100798370 AACTCATGTATAATGTCTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAACAGTCCTTGGC
179 GACTCATGTATAATGTCTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCTTGGC
* *
100798435 ATTGTCTGACCTAAACTTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTGTAAAAGGTTG
244 ATTGTCTGACCTAAACCTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTG
100798500 GAAAGACAAACCTTACATCAGATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCA
309 GAAAGACAAACCTTACATCAGATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCA
100798565 TCAATAAAGGATACAAACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATC
374 TCAATAAAGGATACAAACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATC
* *
100798630 ATTATGAATAAGAGTAAAAGGAGCGGATATTCTTTTATATGTTTATGTTTTGCAAGTTCACAAAC
439 ACTATGAATAAGAGTAAAAGGAGCGGATGTTCTTTTATATGTTTATGTTTTGCAAGTTCACAAAC
100798695 ATCACAATGGAAT
504 ATCACAATGGAAT
100798708 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
1 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
100798773 CCCTAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
66 CCC-AGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
*
100798838 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATAACTCATGTATAATGT
130 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATGACTCATGTATAATGT
* *
100798903 CTCTTTCTTGGAAATATGTTGAGAGAAATTGATTGAAATAGTCCTTGGTATTGTCTGACCTAAAC
195 CTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCTTGGCATTGTCTGACCTAAAC
* * *
100798968 TTTTTTATTTTAGCTCCAAATTGTGTTTTGATCATGTTGTAAAAGGTTGGAAAGACAAACCTTAC
260 CTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTGGAAAGACAAACCTTAC
*
100799033 ATCAAATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCATCAATAAAGGATACAA
325 ATCAGATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCATCAATAAAGGATACAA
100799098 ACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTA
390 ACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTA
*
100799163 AAAGGAGCGGATGTTCTTTTATACGTTTATGTTTTGCAAGTTCACAAACATCACAATGGAAT
455 AAAGGAGCGGATGTTCTTTTATATGTTTATGTTTTGCAAGTTCACAAACATCACAATGGAAT
* *
100799225 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATC--ATGAGTAGCAGATAAAATAGCCTCC
1 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
* *
100799288 CTACAGTATTGTTTAGCGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
66 C-CCAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
*
100799353 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAA-ATGACT-ATGTATAATGC
130 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATGACTCATGTATAATGT
* * *
100799416 CTCTTTCTTGGAAATATGGTGAGAGAAATTAATTGAAATAGTCCGTGGCATTGTCTGACTTAAAC
195 CTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCTTGGCATTGTCTGACCTAAAC
*
100799481 CTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAGAAGGTTGGAAAGACAAACCTTAC
260 CTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTGGAAAGACAAACCTTAC
* *
100799546 ATCAGATTTTTGTTTTAAAAGATATGTCCAAGACGCACGGGTACAATCATCAATAAATGATACAA
325 ATCAGATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCATCAATAAAGGATACAA
100799611 ACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTA
390 ACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTA
*
100799676 AAAGGAGCGGATATTCTTTTATATGTTTATGTTTTGCAAGTTCACAAACATCACAATGGAAT
455 AAAGGAGCGGATGTTCTTTTATATGTTTATGTTTTGCAAGTTCACAAACATCACAATGGAAT
100799738 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
1 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
100799803 CCACAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
66 CC-CAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
*
100799868 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATGACTCATCTATAATGT
130 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATGACTCATGTATAATGT
*
100799933 CTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCGTGGCATTGTCTGACCTAAAC
195 CTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCTTGGCATTGTCTGACCTAAAC
*
100799998 CTTTTTATTTAAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTGGAAAGACAAACCTTAC
260 CTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTGGAAAGACAAACCTTAC
*
100800063 ATCAGATTTTTGTTTTAAAAGATATATCCAAGATGCACGGGTACAATCATCAATAAAGGATACAA
325 ATCAGATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCATCAATAAAGGATACAA
*
100800128 ACCATCGAG-CCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTA
390 ACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTA
** *
100800192 AAAGGAGCGGATGTTCTTTTATACCTTTATGTTTTGCAAGTTCACAAGCATCACAATGGAAT
455 AAAGGAGCGGATGTTCTTTTATATGTTTATGTTTTGCAAGTTCACAAACATCACAATGGAAT
100800254 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
1 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
100800319 CCACAGTATTGTTTAGGGACA-TTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
66 CC-CAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
*
100800383 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATGACTCATCTATAATGT
130 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATGACTCATGTATAATGT
100800448 CTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGT-CTGTGGCATTGTCTGACCTAAA
195 CTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCT-TGGCATTGTCTGACCTAAA
100800512 CCTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTGGAAAGACAAACCTTA
259 CCTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTGGAAAGACAAACCTTA
100800577 CATCAGATTTTT-TTTTAAAAGATATATCCAAGACGCACGGGTACAATCATCAATAAAGGATACA
324 CATCAGATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCATCAATAAAGGATACA
*
100800641 AACCACCGAGCCCTAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGT
389 AACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGT
100800706 -AAAGGAGCGGATGTTCTTTTATTGCTTACCGGAAAAGAGGTACGTTTATGTTTTGCAAGTTCAC
454 AAAAGGAGCGGATGTTCTTTTA-----T----------A--T--GTTTATGTTTTGCAAGTTCAC
100800770 AAACATCACAATGGAAT
500 AAACATCACAATGGAAT
*
100800787 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGTCTCT
1 TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTC-
100800852 CCCCAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
65 CCCCAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACC
* * *
100800917 ATTCTTTTGTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAAATGACTCATGTATAATGC
130 ATTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATGACTCATGTATAATGT
* *
100800982 CTTTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCTTGGCACTGTCTGACCTAAAC
195 CTCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCTTGGCATTGTCTGACCTAAAC
* * * *
100801047 TTTTTTATTTCAGCTCCAAATTGTGTTTTGATTATGTTGTAAAAGGTTGGAAAGACAAACTTTAC
260 CTTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTGGAAAGACAAACCTTAC
* *
100801112 ATCAGATTTTTGTTTTAAAAGAAATATCCAAGACACACGGGTACAATCATCAATAAAGGATACAA
325 ATCAGATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCATCAATAAAGGATACAA
100801177 ACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTA
390 ACCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTA
100801242 AAAGGAGCGGATGTTCTTTTAT-TGTTTA
455 AAAGGAGCGGATGTTCTTTTATATGTTTA
100801270 CCGAAAAAGA
Statistics
Matches: 2460, Mismatches: 69, Indels: 83
0.94 0.03 0.03
Matches are distributed among these distances:
513 356 0.14
514 87 0.04
515 559 0.23
516 211 0.09
517 635 0.26
518 1 0.00
519 2 0.00
523 1 0.00
525 2 0.00
527 1 0.00
528 1 0.00
529 2 0.00
531 2 0.00
533 185 0.08
534 278 0.11
535 116 0.05
536 21 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (516 bp):
TTTGAGATTCAAGGACTTTTGTAGGCAATCAATTTATCATATGAGTAGCAGTTAAAACAGCCTCC
CCCAGTATTGTTTAGGGACATTTTTTTGGAACAAGAGGGCTCTTGTAATAGCTAAAATGTGACCA
TTCTTTTTTTCGGCAACACCATTTTGTTGGGGTGTGCTAACACAAGATGACTCATGTATAATGTC
TCTTTCTTGGAAATATGGTGAGAGAAATTGATTGAAATAGTCCTTGGCATTGTCTGACCTAAACC
TTTTTATTTCAGCTCCAAATTGTGTTTTGATCATGTTATAAAAGGTTGGAAAGACAAACCTTACA
TCAGATTTTTGTTTTAAAAGATATATCCAAGACGCACGGGTACAATCATCAATAAAGGATACAAA
CCACCGAGCCCCAGAAATATTTGAAATAGTGGATGGTCCCCAAACATCACTATGAATAAGAGTAA
AAGGAGCGGATGTTCTTTTATATGTTTATGTTTTGCAAGTTCACAAACATCACAATGGAAT
Found at i:100802275 original size:17 final size:18
Alignment explanation
Indices: 100802238--100802272 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
100802228 GATTGGGAGT
100802238 AAAAAAAAAATCGCCAGG
1 AAAAAAAAAATCGCCAGG
100802256 AAAAGAAAAAATC-CCAG
1 AAAA-AAAAAATCGCCAG
100802273 AAATCGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.63, C:0.17, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAATCGCCAGG
Found at i:100803360 original size:31 final size:31
Alignment explanation
Indices: 100803325--100803387 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
100803315 CAGCCAATTG
* *
100803325 TTTCTTGGTCTTTTAAGGTCCATGAGGACTT
1 TTTCTTGATCTTTTAAGGACCATGAGGACTT
100803356 TTTCTTGATCTTTTAAGGACCATGAGGACTT
1 TTTCTTGATCTTTTAAGGACCATGAGGACTT
100803387 T
1 T
100803388 CATTTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (31 bp):
TTTCTTGATCTTTTAAGGACCATGAGGACTT
Found at i:100808011 original size:33 final size:33
Alignment explanation
Indices: 100807957--100808078 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
100807947 TTTCTTCTTG
*
100807957 ACATTCCAGCT-CTGTCTAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
100807989 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
100808022 ACATTCCAGCTCCCGTCCAGCAA-CAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
100808054 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
100808079 TGAAACAGAG
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
32 42 0.49
33 43 0.51
ACGTcount: A:0.30, C:0.42, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:100808049 original size:65 final size:65
Alignment explanation
Indices: 100807957--100808078 Score: 210
Period size: 65 Copynumber: 1.9 Consensus size: 65
100807947 TTTCTTCTTG
* *
100807957 ACATTCCAGCTCTGTCTAGCAACCAAACACTCACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCGTCCAGCAACCAAACACTCACATTCCAGCTCCTGTCCAGCAACCAAACACTC
100808022 ACATTCCAGCTCCCGTCCAGCAA-CAAACACTCACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCT-CCGTCCAGCAACCAAACACTCACATTCCAGCTCCTGTCCAGCAACC
100808079 TGAAACAGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
65 45 0.83
66 9 0.17
ACGTcount: A:0.30, C:0.42, G:0.10, T:0.19
Consensus pattern (65 bp):
ACATTCCAGCTCCGTCCAGCAACCAAACACTCACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:100820192 original size:30 final size:31
Alignment explanation
Indices: 100820167--100820225 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
100820157 ATAAATACTT
*
100820167 AAAATTTGAAGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
100820197 AAAATTTGAAGGACTAATAGTGAAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
100820226 TTTAATAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.51, C:0.02, G:0.19, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:100820485 original size:29 final size:31
Alignment explanation
Indices: 100820437--100820500 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
100820427 TTTATAATTA
*
100820437 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
100820468 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
100820497 TTTA
1 TTTA
100820501 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:100820489 original size:8 final size:8
Alignment explanation
Indices: 100820478--100820502 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100820468 TTTAATAAGA
100820478 TATTTTAT
1 TATTTTAT
100820486 TATTTTAT
1 TATTTTAT
100820494 TATTTTAT
1 TATTTTAT
100820502 T
1 T
100820503 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:100826250 original size:34 final size:34
Alignment explanation
Indices: 100826207--100826274 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
100826197 CATGAGCTGG
100826207 CACATGGGCTTGTGGCCAGCTCGTGTGGATCACA
1 CACATGGGCTTGTGGCCAGCTCGTGTGGATCACA
*
100826241 CACATGGGCTTGTGGCTAGCTCGTGTGGATCACA
1 CACATGGGCTTGTGGCCAGCTCGTGTGGATCACA
100826275 TAGGCATGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (34 bp):
CACATGGGCTTGTGGCCAGCTCGTGTGGATCACA
Found at i:100829310 original size:19 final size:17
Alignment explanation
Indices: 100829260--100829311 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
100829250 TAGTTTTAGG
*
100829260 GTTT-TAGTTTGTATTTA
1 GTTTCTAGTTT-TACTTA
100829277 -TTTCTAGTTTTACTTA
1 GTTTCTAGTTTTACTTA
100829293 GTTTCATAGTTGTTACTTA
1 GTTTC-TAGTT-TTACTTA
100829312 AGTTAGTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.27
17 10 0.33
18 5 0.17
19 7 0.23
ACGTcount: A:0.19, C:0.08, G:0.13, T:0.60
Consensus pattern (17 bp):
GTTTCTAGTTTTACTTA
Found at i:100836982 original size:58 final size:58
Alignment explanation
Indices: 100836912--100837048 Score: 152
Period size: 58 Copynumber: 2.3 Consensus size: 58
100836902 GTTCAACTAT
* * * *
100836912 GATTAAACTTAATCACTTTAAT-ATTAAATTAATATAATATTAATC-AAGATAAATATTA
1 GATTAAATTTAAT-A-TTAAATCATTAAAATAATAGAATATTAATCAAAGATAAATATTA
* *
100836970 GATTAAATTTAATATTAAATCCATTAAAATAATAGAATGTTTATCTAAAAGATAAATATTA
1 GATTAAATTTAATATTAAAT-CATTAAAATAATAGAATATTAATC--AAAGATAAATATTA
*
100837031 AATTAAATTTAATATTAA
1 GATTAAATTTAATATTAA
100837049 GATAATCACT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
56 5 0.07
57 1 0.01
58 31 0.46
61 30 0.45
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (58 bp):
GATTAAATTTAATATTAAATCATTAAAATAATAGAATATTAATCAAAGATAAATATTA
Found at i:100837047 original size:12 final size:12
Alignment explanation
Indices: 100837022--100837134 Score: 55
Period size: 12 Copynumber: 9.8 Consensus size: 12
100837012 ATCTAAAAGA
100837022 TAAATATTAAAT
1 TAAATATTAAAT
100837034 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
100837046 TAAGATAATCACT
1 TAA-ATATTAAAT
*
100837059 TTAATATTAAAT
1 TAAATATTAAAT
100837071 T-AATA--AAA-
1 TAAATATTAAAT
*
100837079 T-ACTATTAAGA-
1 TAAATATTAA-AT
100837090 TAAATATTAAAT
1 TAAATATTAAAT
*
100837102 TAAAT-TTAGTAT
1 TAAATATTA-AAT
*
100837114 TAAACTATTAAAA
1 TAAA-TATTAAAT
100837127 T-AATATTA
1 TAAATATTA
100837135 TTTTTGAAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
8 4 0.05
9 3 0.04
10 2 0.03
11 19 0.24
12 37 0.47
13 8 0.10
14 5 0.06
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:100837074 original size:20 final size:18
Alignment explanation
Indices: 100837024--100837133 Score: 66
Period size: 20 Copynumber: 5.9 Consensus size: 18
100837014 CTAAAAGATA
100837024 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
100837041 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
**
100837061 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
* *
100837080 ACTATTAAGATAAATA-TT
1 AATATTAA-ATTAATATTT
* *
100837098 AA-ATTAAATTTAGTATTA
1 AATATTAAA-TTAATATTT
*
100837116 AACTATTAAAATAATATT
1 AA-TATTAAATTAATATT
100837134 ATTTTTGAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
16 1 0.01
17 20 0.28
18 6 0.08
19 17 0.24
20 27 0.38
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:100838721 original size:15 final size:14
Alignment explanation
Indices: 100838695--100838730 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
100838685 GCTATGCATG
*
100838695 CAAAATATAAAAGA
1 CAAAATACAAAAGA
100838709 CATAAATACAAAAGA
1 CA-AAATACAAAAGA
100838724 CAAAATA
1 CAAAATA
100838731 GTGAAACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (14 bp):
CAAAATACAAAAGA
Found at i:100844791 original size:46 final size:44
Alignment explanation
Indices: 100844738--100845052 Score: 145
Period size: 49 Copynumber: 6.7 Consensus size: 44
100844728 GACAATAGCT
*
100844738 AGTGTAAGACATGTCTAGGACATGCATCGGTCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT--GCC
* * * *
100844784 AGTGTAAGGCATGTCTGGGACATACATTGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCC
* ** * *
100844828 AGTCTAAGACCATGTCTGGGACATGGCATCAAC-ACGTATAGAAGTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---AGATGTGCC
* * * **
100844876 AGTGTAAGACCATGTCTAGGACATGGCATTGGC-ACGAATATGTGAG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG-AGATGTGCC
* ** **
100844922 AGCTATGTAAGACCATGTCTGCGACATGGTGTCGGCCT-CGATTTTGATAGCC
1 AG---TGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGA-GATG-T-GCC
* * **
100844974 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGATGGATAAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGA--GATGTGCC
100845021 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
100845053 TATTATACCT
Statistics
Matches: 213, Mismatches: 41, Indels: 29
0.75 0.14 0.10
Matches are distributed among these distances:
44 9 0.04
45 19 0.09
46 45 0.21
47 34 0.16
48 43 0.20
49 53 0.25
50 6 0.03
51 1 0.00
52 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCC
Found at i:100844851 original size:45 final size:45
Alignment explanation
Indices: 100844733--100844851 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 45
100844723 ATTGAGACAA
* * * *
100844733 TAGCTAGTGTAAGACATGTCTAGGACATGCATCGGTCTCGAGATG
1 TAGCCAGTCTAAGACATGTCTGGGACATACATCGGTCTCGAGATG
* * *
100844778 TAAGCCAGTGTAAGGCATGTCTGGGACATACATTGG-CTACGAGATG
1 T-AGCCAGTCTAAGACATGTCTGGGACATACATCGGTCT-CGAGATG
*
100844824 T-GTCAGTCTAAGACCATGTCTGGGACAT
1 TAGCCAGTCTAAGA-CATGTCTGGGACAT
100844852 GGCATCAACA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 9 0.14
45 17 0.27
46 37 0.59
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (45 bp):
TAGCCAGTCTAAGACATGTCTGGGACATACATCGGTCTCGAGATG
Found at i:100844940 original size:49 final size:48
Alignment explanation
Indices: 100844644--100845052 Score: 173
Period size: 48 Copynumber: 8.6 Consensus size: 48
100844634 TTTGTGTGCT
* *
100844644 AGTGTAA-AACATGTCTGAGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTG-GACATGGCATCGGCCACGATTGTGAGAGCC
** * * * *
100844690 AGCATAAGACCATGTCTGGGACATGACATC-G--AC-ATTGAGACAATAGCT
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCCACGATTGTG---AGAGCC
* * *
100844738 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGTCTCGAGATGT-A-AGCC
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCCACGA-TTGTGAGAGCC
* * * * * *
100844784 AGTGTAAG-GCATGTCTGGGACAT-ACATTGGCTACGA----GATGTGTC
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCCACGATTGTGA-GAGCC
* ** * * * *
100844828 AGTCTAAGACCATGTCTGGGACATGGCATC-AACACGTATAG-AAGTGTC
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCCACG-ATTGTGAGAGCC
* *
100844876 AGTGTAAGACCATGTCTAGGACATGGCATTGG-CACGAATATGTGAGAGCT
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCCACG-AT-TGTGAGAGCC
** * * *
100844926 A-TGTAAGACCATGTCTGCGACATGGTGTCGGCCTCGATTTTGATAGCC
1 AGTGTAAGACCATGTCTG-GACATGGCATCGGCCACGATTGTGAGAGCC
* ** *
100844974 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TG-GATAAGCC
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCCACGATTGTGA-GAGCC
100845021 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCT-GGACATGGCATCGG
100845053 TATTATACCT
Statistics
Matches: 278, Mismatches: 55, Indels: 58
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.00
44 9 0.03
45 23 0.08
46 47 0.17
47 64 0.23
48 69 0.25
49 54 0.19
50 9 0.03
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGACATGGCATCGGCCACGATTGTGAGAGCC
Found at i:100846031 original size:28 final size:28
Alignment explanation
Indices: 100845991--100846048 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
100845981 GACACGGGCT
100845991 AGGACACGAGC-GTGTCATGGCCGTGTGA
1 AGGACACGAGCGGTGTCA-GGCCGTGTGA
*
100846019 AGGACACGGGCGTGTGTCAGGCCGTGTGA
1 AGGACACGAGCG-GTGTCAGGCCGTGTGA
100846048 A
1 A
100846049 AACCCCTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.37
29 11 0.41
30 6 0.22
ACGTcount: A:0.21, C:0.21, G:0.41, T:0.17
Consensus pattern (28 bp):
AGGACACGAGCGGTGTCAGGCCGTGTGA
Found at i:100849332 original size:3 final size:3
Alignment explanation
Indices: 100849324--100849376 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
100849314 ACACTAATTT
* * *
100849324 TAA TAA TAA TAA TAA TAG TAA TAA TAT TAA TAA TAT TAGA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
100849369 TAA TAA TA
1 TAA TAA TA
100849377 TTTAATAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:100849377 original size:18 final size:18
Alignment explanation
Indices: 100849318--100849384 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
100849308 AAATATACAC
*
100849318 TAATTTTAATAATAATAA
1 TAATATTAATAATAATAA
* *
100849336 TAATAGTAATAATATTAA
1 TAATATTAATAATAATAA
100849354 TAATATTAGA-AATAATAA
1 TAATATTA-ATAATAATAA
100849372 TAATATTTAATAA
1 TAATA-TTAATAA
100849385 AGAAACGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 35 0.85
19 6 0.15
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TAATATTAATAATAATAA
Found at i:100851477 original size:79 final size:78
Alignment explanation
Indices: 100851156--100851523 Score: 444
Period size: 79 Copynumber: 4.8 Consensus size: 78
100851146 AGAAACTAAA
* * * * * *
100851156 AGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTTTTGAAAAAGCATAAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAA-TAGAAACTAAAAATACCT
*
100851221 CAGCGTGTGTCCCG
65 CAGCGTGTGACCCG
** *
100851235 AGGCTCAACTCACCTCTCATAATATGAGTTGAGTTTTTTTGAAAAATAGAAACTAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTAAAAATACCTC
*
100851300 AACGTGTGACCCG
66 AGCGTGTGACCCG
* * * *
100851313 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAACAT--AAATTGAAAATACTTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTAAAAATACCTC
* * * *
100851375 AGTGCGTGATCTG
66 AGCGTGTGACCCG
* *
100851388 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAATAGGAACTAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAAATAGAAACTAAAAATACCT
** *
100851453 CAGTTTGTGACCCA
65 CAGCGTGTGACCCG
*
100851467 AGGCTTAACTCACCTCTCGCAATATGAGTTGA--TTTTTT-AAAAATAGAAA-TAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTAAAAATA
100851524 TCAGAATACC
Statistics
Matches: 251, Mismatches: 34, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
74 8 0.03
75 62 0.25
76 6 0.02
77 26 0.10
78 56 0.22
79 93 0.37
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTAAAAATACCTC
AGCGTGTGACCCG
Found at i:100851477 original size:154 final size:155
Alignment explanation
Indices: 100851155--100851504 Score: 499
Period size: 154 Copynumber: 2.3 Consensus size: 155
100851145 CAGAAACTAA
* *
100851155 AAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTTTTGAAAAAGCATAAATTGAAAATACC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG-AAAAGCATAAATTGAAAATACC
* *
100851220 TCAGCGTGTGTCCCGAGGCTCAACTCACCTCTCATAATATGAGTTGAGTTTTTTTGAAAAATAGA
64 TCAGCGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGAGTTTTTTTGAAAAATAGA
100851285 AACTAAAAATACCTCAACGTGTGACCC
129 AACTAAAAATACCTCAACGTGTGACCC
* *
100851312 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAA-CATAAATTGAAAATACTTC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAATACCTC
* * * * * *
100851375 AGTGCGTGAT-CTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAATAGG
66 AGCGCGTG-TCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA-GTTTTTTTGAAAAATAGA
***
100851439 AACTAAAAATACCTCAGTTTGTGACCC
129 AACTAAAAATACCTCAACGTGTGACCC
*
100851466 AAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
100851505 AAAAATAGAA
Statistics
Matches: 174, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
153 55 0.32
154 81 0.47
156 8 0.05
157 30 0.17
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (155 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAATACCTC
AGCGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGAGTTTTTTTGAAAAATAGAAA
CTAAAAATACCTCAACGTGTGACCC
Found at i:100863434 original size:24 final size:22
Alignment explanation
Indices: 100863380--100863437 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
100863370 GAAAAATATT
*
100863380 AAAAT-ATAATATTAGAATAAA
1 AAAATAATAATATTACAATAAA
*
100863401 AATAACAATAATATTCACAATAAA
1 AA-AATAATAATATT-ACAATAAA
100863425 GAAAATAATAATA
1 -AAAATAATAATA
100863438 AAAATAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 8 0.27
24 16 0.53
25 2 0.07
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAATAATAATATTACAATAAA
Found at i:100863660 original size:16 final size:16
Alignment explanation
Indices: 100863641--100863675 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
100863631 AAATAATACT
*
100863641 ATATATAAATATATAA
1 ATATATAAACATATAA
*
100863657 ATATATATACATATAA
1 ATATATAAACATATAA
100863673 ATA
1 ATA
100863676 AAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATATAAACATATAA
Found at i:100863701 original size:3 final size:3
Alignment explanation
Indices: 100863693--100863767 Score: 100
Period size: 3 Copynumber: 25.3 Consensus size: 3
100863683 CACTAATTTG
*
100863693 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
100863740 ATT AAT AAT ATT AGA- AAT AAT AAT AAT A
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT A
100863768 TTTAATAAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 3 0.05
3 60 0.95
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Done.