Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 361 of 425
Found at i:111551295 original size:55 final size:56
Alignment explanation
Indices: 111551210--111551319 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 56
111551200 AATTCATATT
*
111551210 TAGAACTAAGTTTGAAAAAATCATTTTAATTTCAATTTTAATTGTAAACGAGTCTC
1 TAGAACTAAGTTTGAAAAAATCATTTTAATTTCAATTTTAATTGCAAACGAGTCTC
* *
111551266 TAGAACTAAGTTT-ACAAAATCGTTTTAATTTCAATTTTAATTGCAAACGAGTCT
1 TAGAACTAAGTTTGAAAAAATCATTTTAATTTCAATTTTAATTGCAAACGAGTCT
111551320 TTAAAATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 38 0.75
56 13 0.25
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (56 bp):
TAGAACTAAGTTTGAAAAAATCATTTTAATTTCAATTTTAATTGCAAACGAGTCTC
Found at i:111553801 original size:15 final size:15
Alignment explanation
Indices: 111553781--111553811 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
111553771 AGAGGGAGTA
*
111553781 AGCATAAAGTTTAGT
1 AGCATAAAGCTTAGT
111553796 AGCATAAAGCTTAGT
1 AGCATAAAGCTTAGT
111553811 A
1 A
111553812 AGTTGCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (15 bp):
AGCATAAAGCTTAGT
Found at i:111554238 original size:48 final size:46
Alignment explanation
Indices: 111554179--111554405 Score: 186
Period size: 48 Copynumber: 4.8 Consensus size: 46
111554169 ATTACCGATC
* **
111554179 CCATGTTCCAAATGTGGTCTTACACTGGCTCACATGTCGAGGCCAATG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATGTC--GGCCAATG
* * * * * *
111554227 CCATGTCCCAAACATAGTCTTACATTGGCTCTCATAGCTTGGTCGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACAT-G-TCGGCCAATG
*
111554275 CCATGTCCCAAACATGGTCTTACACTGGCTCTCACAATGTC-GCCTATG
1 CCATGTCCCAAACATGGTCTTACACTGG--CTCAC-ATGTCGGCCAATG
* * * * **
111554323 CCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTATGGCTGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACAT-GT-CGGCCAATG
** * *
111554371 CCATGTCCCAGGCATGGTCTTACACTAGCACACAT
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACAT
111554406 ATCACCCAAA
Statistics
Matches: 144, Mismatches: 27, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.01
46 5 0.03
48 127 0.88
49 2 0.01
50 6 0.04
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGGCCAATG
Found at i:111554343 original size:96 final size:93
Alignment explanation
Indices: 111554174--111554405 Score: 261
Period size: 96 Copynumber: 2.4 Consensus size: 93
111554164 GGTGAATTAC
* * **
111554174 CGATCCCATGTTCCAAATGTGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCCAAA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTC--GGCCAATGCCATGTCCCAAA
*
111554239 CATAGTCTTACATTGGCTCTCATAGCT-TGG
64 CATAGTCTTACACTGGCTCTCATA-CTATGG
* *
111554269 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAATGTC-GCCTATGCCATGTTCCA
1 -CGATGCCATGTCCCAAACATGGTCTTACACTGG--CTCAC-ATGTCGGCCAATGCCATGTCCCA
* *
111554333 AACATGGTCTTACACTGGCTCTCATATTATGG
62 AACATAGTCTTACACTGGCTCTCATACTATGG
** * *
111554365 CTGATGCCATGTCCCAGGCATGGTCTTACACTAGCACACAT
1 C-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT
111554406 ATCACCCAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
93 2 0.02
94 4 0.03
95 2 0.02
96 100 0.85
98 5 0.04
99 5 0.04
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGGCCAATGCCATGTCCCAAACA
TAGTCTTACACTGGCTCTCATACTATGG
Found at i:111554407 original size:48 final size:49
Alignment explanation
Indices: 111554224--111554396 Score: 201
Period size: 48 Copynumber: 3.6 Consensus size: 49
111554214 GTCGAGGCCA
* * * * *
111554224 ATGCCATGTCCCAAACATAGTCTTACATTGGCTCTCATAGCT-TGGTC-G
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-TTATCGCCTG
* * *
111554272 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAATGTCGCCT-
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATTATCGCCTG
* *
111554320 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTAT-GGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATTATCGCCTG
**
111554368 ATGCCATGTCCCAGGCATGGTCTTACACT
1 ATGCCATGTCCCAAACATGGTCTTACACT
111554397 AGCACACATA
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
47 4 0.04
48 104 0.96
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATTATCGCCTG
Found at i:111557825 original size:44 final size:44
Alignment explanation
Indices: 111557757--111557845 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
111557747 CTTCGACCTT
*
111557757 GAGTCGATGAGGCACTATACGTGTCGCACTGTTACT-TTGACTTC
1 GAGTCGATGAGGCACTATACGTGTCGCACTGCTACTGTT-ACTTC
** *
111557801 GAGTCGATGAGGCACCT-TGTGTGTCGTACTGCTACTGTTACTTC
1 GAGTCGATGAGGCA-CTATACGTGTCGCACTGCTACTGTTACTTC
111557845 G
1 G
111557846 GTTTAATCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 35 0.90
45 4 0.10
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (44 bp):
GAGTCGATGAGGCACTATACGTGTCGCACTGCTACTGTTACTTC
Found at i:111558118 original size:23 final size:23
Alignment explanation
Indices: 111558092--111558141 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
111558082 GGAATATTAG
111558092 GCACTTTATATGTCGTATATCAA
1 GCACTTTATATGTCGTATATCAA
* *
111558115 GCACTTTATGTGTCGTATTTCAA
1 GCACTTTATATGTCGTATATCAA
111558138 GCAC
1 GCAC
111558142 CTTGTGTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (23 bp):
GCACTTTATATGTCGTATATCAA
Found at i:111558149 original size:23 final size:22
Alignment explanation
Indices: 111558092--111558217 Score: 107
Period size: 21 Copynumber: 5.8 Consensus size: 22
111558082 GGAATATTAG
* *
111558092 GCACTTTATATGTCGTATATCAA
1 GCACCTTATGTGTCGTAT-TCAA
*
111558115 GCACTTTATGTGTCGTATTTCAA
1 GCACCTTATGTGTCGTA-TTCAA
* * *
111558138 GCACCTTGTGTGACGTA-TCAG
1 GCACCTTATGTGTCGTATTCAA
* *
111558159 GCACCTTCTGTATCGTA-TCAA
1 GCACCTTATGTGTCGTATTCAA
**
111558180 GCACCTCGTGTGTCGT-TTCAA
1 GCACCTTATGTGTCGTATTCAA
*
111558201 ACA-CTTATGTGTCGTAT
1 GCACCTTATGTGTCGTAT
111558218 ACTGATCAGG
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.12
21 40 0.47
23 34 0.40
24 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (22 bp):
GCACCTTATGTGTCGTATTCAA
Found at i:111558415 original size:18 final size:19
Alignment explanation
Indices: 111558392--111558430 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
111558382 TGGAATTATG
*
111558392 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
111558410 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
111558429 AA
1 AA
111558431 GCTTGAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:111559113 original size:22 final size:22
Alignment explanation
Indices: 111559087--111559155 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
111559077 TCTTTGATTA
*
111559087 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
111559109 TTAGCACATCTA-TGCTATCTGT
1 TTAGCACAT-TAGTGCTCTCTGT
* * *
111559131 ATAACACCTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
111559153 TTA
1 TTA
111559156 ATAGTGCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:111566411 original size:19 final size:19
Alignment explanation
Indices: 111566367--111566423 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
111566357 AAACTACAAA
*
111566367 AAAAATTGAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
* *
111566386 TATAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
111566405 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
111566423 A
1 A
111566424 TTTTCTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:111566444 original size:10 final size:10
Alignment explanation
Indices: 111566429--111566497 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 10
111566419 TTATATTTTC
111566429 TAAAAAATTA
1 TAAAAAATTA
* *
111566439 TAAAAATTTC
1 TAAAAAATTA
*
111566449 TAAAAAATCTC
1 TAAAAAAT-TA
111566460 TAAAAATATATA
1 TAAAAA-AT-TA
*
111566472 TAAAAAAAGT-
1 T-AAAAAATTA
*
111566482 TAAAAAATTT
1 TAAAAAATTA
111566492 TAAAAA
1 TAAAAA
111566498 TTAAAGAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 7 0.15
10 22 0.46
11 9 0.19
12 5 0.10
13 5 0.10
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:111569662 original size:25 final size:25
Alignment explanation
Indices: 111569589--111569662 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 25
111569579 ACTTCCTGAT
*
111569589 TATGGCTTG-GACGAGCTTCCCGTTA
1 TATGGCTTGAAAC-AGCTTCCCGTTA
* ** * *
111569614 TATGGC-TCACATGAGTTTCTCGTTA
1 TATGGCTTGA-AACAGCTTCCCGTTA
111569639 TATGGCTTGAAACAGCTTCCCGTT
1 TATGGCTTGAAACAGCTTCCCGTT
111569663 TACATATTTT
Statistics
Matches: 35, Mismatches: 11, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
24 1 0.03
25 32 0.91
26 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (25 bp):
TATGGCTTGAAACAGCTTCCCGTTA
Found at i:111583132 original size:39 final size:39
Alignment explanation
Indices: 111582976--111583122 Score: 249
Period size: 39 Copynumber: 3.8 Consensus size: 39
111582966 TGATATTGGG
*
111582976 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGG
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
111583015 AATATACCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
111583054 AATATATCCGAACATGAGGTCCGCAGGCTATATGCTGGA
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
111583093 AATATATCCGGACTTGAAGTCCGCAGGCTA
1 AATATATCCGGACATGAGGTCCGCAGGCTA
111583123 CGTGTTGGAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (39 bp):
AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:111585174 original size:17 final size:17
Alignment explanation
Indices: 111585152--111585249 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
111585142 ATTGAATCAC
111585152 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
111585169 TACATAAATCTTTGAATCAC
1 TACAT-AA--TTAAAAACAT
111585189 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
* ** * *
111585206 TACCTAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
111585226 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
111585243 TACATAA
1 TACATAA
111585250 GTCTTGAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 30 0.53
18 2 0.04
19 2 0.04
20 23 0.40
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:111585275 original size:37 final size:37
Alignment explanation
Indices: 111585143--111585254 Score: 206
Period size: 37 Copynumber: 3.0 Consensus size: 37
111585133 ATTAACCGAA
*
111585143 TTGAATCACTACATAATTAAAAACATTACATAAATCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
111585180 TTGAATCACTACATAATTAAAAACATTACCTAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
111585217 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
111585254 T
1 T
111585255 GAAATTAACA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:111588109 original size:53 final size:53
Alignment explanation
Indices: 111588045--111588201 Score: 172
Period size: 53 Copynumber: 2.9 Consensus size: 53
111588035 TTTAAGATTG
* * * *
111588045 CATGAAAATGCTCAGTTTGATACACTAAAACACCAACTTTAATTCAATGAAAA
1 CATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATGAAAA
* * * * * *
111588098 CATGAAAATGCTCAATATGAAACACTAAAATAGCAGC-TTGATTCAATTTAAGA
1 CATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAA-TGAAAA
*
111588151 CAGTAAGAAAATGCTCAATTTGAAACACTCAAACAACAGCTTTAATTCAAT
1 CA-T--GAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAAT
111588202 TTATGCCAGC
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
52 8 0.09
53 37 0.44
54 1 0.01
56 31 0.36
57 8 0.09
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (53 bp):
CATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATGAAAA
Found at i:111594636 original size:79 final size:81
Alignment explanation
Indices: 111594517--111594699 Score: 250
Period size: 79 Copynumber: 2.3 Consensus size: 81
111594507 TACTCGTTCA
* *
111594517 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTCGGGA-CTTAACCCG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCC-TTC-GGATCTTAACCCG
*
111594580 GATTTAGTAAC-TCGCAC
64 GATTTAGTAACTTAGCAC
**
111594597 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
111594660 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
111594676 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
111594700 CATCATTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
77 3 0.03
78 20 0.22
79 45 0.49
80 24 0.26
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:111594665 original size:40 final size:40
Alignment explanation
Indices: 111594515--111594699 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
111594505 GCTACTCGTT
*
111594515 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
111594555 CAAATGCCTTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCC-TTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
111594596 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
111594634 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
111594675 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
111594700 CATCATTCGA
Statistics
Matches: 129, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
38 26 0.20
39 15 0.12
40 47 0.36
41 39 0.30
42 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:111601268 original size:19 final size:19
Alignment explanation
Indices: 111601244--111601281 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
111601234 CTTGACAGAA
* *
111601244 TTCACAATGTTTTTCATGT
1 TTCACAATATATTTCATGT
111601263 TTCACAATATATTTCATGT
1 TTCACAATATATTTCATGT
111601282 GTATATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.50
Consensus pattern (19 bp):
TTCACAATATATTTCATGT
Found at i:111602956 original size:27 final size:25
Alignment explanation
Indices: 111602914--111602983 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 25
111602904 CATGATATAT
*
111602914 GGCTCTTCAGAGCTTCCCGATTAAA
1 GGCTCTTCAGAGCTTCCCAATTAAA
*
111602939 GGCTCTTTCATGAGCTTCCCAATTAATT
1 GGCTC-TTCA-GAGCTTCCCAATTAA-A
111602967 GGCTC-TCTAGAGCTTCC
1 GGCTCTTC-AGAGCTTCC
111602984 TGATATTGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 5 0.13
26 14 0.36
27 15 0.38
28 5 0.13
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.33
Consensus pattern (25 bp):
GGCTCTTCAGAGCTTCCCAATTAAA
Found at i:111605525 original size:47 final size:47
Alignment explanation
Indices: 111605444--111605631 Score: 186
Period size: 47 Copynumber: 3.9 Consensus size: 47
111605434 CAGCTCGTAT
*
111605444 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTATCAGCTCATTG
1 GAGCTTACC-AT-T-TCAGATCGTAAGAGCTTACTGTTATCAGCTCATTG
* *
111605494 GAGCTTACCATTTTAGATCGTAAGAGCTTACTGTTATCAGCTTATTG
1 GAGCTTACCATTTCAGATCGTAAGAGCTTACTGTTATCAGCTCATTG
* * * * *
111605541 GAGCTTACCGTTTCAGCTCGTATGAGCTTACGGTT-TCAGCTCGTAT-
1 GAGCTTACCATTTCAGATCGTAAGAGCTTACTGTTATCAGCTCAT-TG
* * *
111605587 GAGCTTATCGTTTCAG--CTTAATAGAGCTTACTGTTCATCAGCTCA
1 GAGCTTACCATTTCAGATCGT-A-AGAGCTTACTGTT-ATCAGCTCA
111605632 GGAGGAGCTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 33 0.28
47 63 0.53
48 8 0.07
49 2 0.02
50 9 0.08
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (47 bp):
GAGCTTACCATTTCAGATCGTAAGAGCTTACTGTTATCAGCTCATTG
Found at i:111605567 original size:23 final size:23
Alignment explanation
Indices: 111605434--111605604 Score: 159
Period size: 23 Copynumber: 7.2 Consensus size: 23
111605424 GGACTCACCA
111605434 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCG-T-T-T
* *
111605460 CAGCTCGTAAGAGCTTACTGTTAT
1 CAGCTCGTATGAGCTTACCGTT-T
* *
111605484 CAGCTCAT-TGGAGCTTACCATTT
1 CAGCTCGTAT-GAGCTTACCGTTT
* * * *
111605507 TAGATCGTAAGAGCTTACTGTTAT
1 CAGCTCGTATGAGCTTACCGTT-T
111605531 CAGCT--TATTGGAGCTTACCGTTT
1 CAGCTCGTA-T-GAGCTTACCGTTT
*
111605554 CAGCTCGTATGAGCTTACGGTTT
1 CAGCTCGTATGAGCTTACCGTTT
*
111605577 CAGCTCGTATGAGCTTATCGTTT
1 CAGCTCGTATGAGCTTACCGTTT
111605600 CAGCT
1 CAGCT
111605605 TAATAGAGCT
Statistics
Matches: 119, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
22 2 0.02
23 60 0.50
24 36 0.30
25 3 0.03
26 18 0.15
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACCGTTT
Found at i:111605585 original size:70 final size:71
Alignment explanation
Indices: 111605434--111605631 Score: 197
Period size: 70 Copynumber: 2.8 Consensus size: 71
111605424 GGACTCACCA
* ** * *
111605434 CAGCTCGTATGAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTATCAGCTCATTGGAGCT
1 CAGCTCGTATGAGCTTACTG-T-TATCAGCTTATTAGAGCTTACCGTTATCAGCTCATTGGAGCT
111605499 TACCATTT
64 TACCATTT
* * * * *
111605507 TAGATCGTAAGAGCTTACTGTTATCAGCTTATTGGAGCTTACCGTT-TCAGCTCGTAT-GAGCTT
1 CAGCTCGTATGAGCTTACTGTTATCAGCTTATTAGAGCTTACCGTTATCAGCTCAT-TGGAGCTT
**
111605570 ACGGTTT
65 ACCATTT
* *
111605577 CAGCTCGTATGAGCTTA-TCGTT-TCAGCTTAATAGAGCTTACTGTTCATCAGCTCA
1 CAGCTCGTATGAGCTTACT-GTTATCAGCTTATTAGAGCTTACCGTT-ATCAGCTCA
111605632 GGAGGAGCTT
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
69 21 0.21
70 36 0.35
71 28 0.27
72 1 0.01
73 16 0.16
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (71 bp):
CAGCTCGTATGAGCTTACTGTTATCAGCTTATTAGAGCTTACCGTTATCAGCTCATTGGAGCTTA
CCATTT
Found at i:111609635 original size:10 final size:10
Alignment explanation
Indices: 111609616--111609658 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
111609606 TTAAATTCTA
111609616 AAAGATAAAT
1 AAAGATAAAT
111609626 ACAA-ATAAAT
1 A-AAGATAAAT
* *
111609636 AAATATAATT
1 AAAGATAAAT
111609646 AAAGATAAAT
1 AAAGATAAAT
111609656 AAA
1 AAA
111609659 AATATATCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 2 0.07
10 24 0.86
11 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:111612022 original size:46 final size:46
Alignment explanation
Indices: 111611959--111612200 Score: 286
Period size: 46 Copynumber: 5.3 Consensus size: 46
111611949 CAGAGCTTAA
* * * *
111611959 TATTCCTATATTCTCAAGTTTGCAACATATGCAAGAGCTTGGAACC
1 TATTCCTGTATTTTCAAGTTCGCAACATATGCAAGAGCTCGGAACC
* ** *
111612005 TATTCCTGTATTTTCAAGTCCATAACATATGTAAGAGCTCGGAACC
1 TATTCCTGTATTTTCAAGTTCGCAACATATGCAAGAGCTCGGAACC
* * *
111612051 TATTCCTGTATTTTCGAGTCCGCAACATATGCAATAGCTCGGAACC
1 TATTCCTGTATTTTCAAGTTCGCAACATATGCAAGAGCTCGGAACC
* * ** *
111612097 TATTCCTCTATTTTCAAGTTTGCAACATATGCAAGAGCTCAAAACT
1 TATTCCTGTATTTTCAAGTTCGCAACATATGCAAGAGCTCGGAACC
* * * * *
111612143 TATACCTGTATTCTCAAGTTAGCAACATATGCAAAAGCTCAGAACC
1 TATTCCTGTATTTTCAAGTTCGCAACATATGCAAGAGCTCGGAACC
*
111612189 TATTCCAGTATT
1 TATTCCTGTATT
111612201 CTCGAGTCCA
Statistics
Matches: 166, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (46 bp):
TATTCCTGTATTTTCAAGTTCGCAACATATGCAAGAGCTCGGAACC
Found at i:111612207 original size:138 final size:138
Alignment explanation
Indices: 111611959--111612209 Score: 351
Period size: 138 Copynumber: 1.8 Consensus size: 138
111611949 CAGAGCTTAA
*** * *
111611959 TATTCCTATATTCTCAAGTTTGCAACATATGCAAGAGCTTGGAACCTATTCCTGTATTTTCAAGT
1 TATTCCTATATTCTCAAGTTTGCAACATATGCAAGAGCTCAAAACCTATACCTGTATTCTCAAGT
* * * * * *
111612024 CCATAACATATGTAAGAGCTCGGAACCTATTCCTGTATTTTCGAGTCCGCAACATATGCAATAGC
66 CCACAACATATGCAAAAGCTCAGAACCTATTCCAGTATTCTCGAGTCCGCAACATATGCAATAGC
111612089 TCGGAACC
131 TCGGAACC
* * *
111612097 TATTCCTCTATTTTCAAGTTTGCAACATATGCAAGAGCTCAAAACTTATACCTGTATTCTCAAGT
1 TATTCCTATATTCTCAAGTTTGCAACATATGCAAGAGCTCAAAACCTATACCTGTATTCTCAAGT
*
111612162 -TAGCAACATATGCAAAAGCTCAGAACCTATTCCAGTATTCTCGAGTCC
66 CCA-CAACATATGCAAAAGCTCAGAACCTATTCCAGTATTCTCGAGTCC
111612210 ACAATACATG
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
137 1 0.01
138 96 0.99
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (138 bp):
TATTCCTATATTCTCAAGTTTGCAACATATGCAAGAGCTCAAAACCTATACCTGTATTCTCAAGT
CCACAACATATGCAAAAGCTCAGAACCTATTCCAGTATTCTCGAGTCCGCAACATATGCAATAGC
TCGGAACC
Found at i:111612230 original size:92 final size:92
Alignment explanation
Indices: 111611967--111612235 Score: 304
Period size: 92 Copynumber: 2.9 Consensus size: 92
111611957 AATATTCCTA
* * * *
111611967 TATTCTCAAGTTTGCAACATATGCAAGAGCTTGGAACCTATTCCTGTATTTTCAAGTCCATAACA
1 TATTCTCAAGTTAGCAACATATGCAAAAGCTCGGAACCTATTCCTGTATTTTCAAGTCCACAACA
** *
111612032 TATGTAAGAGCTCGGAACCTATTCCTG
66 TATGTAAGAGCTCAAAACCTATACCTG
* * ** * * ***
111612059 TATTTTCGAGTCCGCAACATATGCAATAGCTCGGAACCTATTCCTCTATTTTCAAGTTTGCAACA
1 TATTCTCAAGTTAGCAACATATGCAAAAGCTCGGAACCTATTCCTGTATTTTCAAGTCCACAACA
* *
111612124 TATGCAAGAGCTCAAAACTTATACCTG
66 TATGTAAGAGCTCAAAACCTATACCTG
* * * * *
111612151 TATTCTCAAGTTAGCAACATATGCAAAAGCTCAGAACCTATTCCAGTATTCTCGAGTCCACAATA
1 TATTCTCAAGTTAGCAACATATGCAAAAGCTCGGAACCTATTCCTGTATTTTCAAGTCCACAACA
* * *
111612216 CATGTAGGAACTCAAAACCT
66 TATGTAAGAGCTCAAAACCT
111612236 GGGCAAGAAC
Statistics
Matches: 142, Mismatches: 35, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
92 142 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (92 bp):
TATTCTCAAGTTAGCAACATATGCAAAAGCTCGGAACCTATTCCTGTATTTTCAAGTCCACAACA
TATGTAAGAGCTCAAAACCTATACCTG
Found at i:111612598 original size:5 final size:5
Alignment explanation
Indices: 111612588--111612631 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
111612578 TATTTTTAAC
111612588 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
111612632 ATTTCAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:111614009 original size:23 final size:22
Alignment explanation
Indices: 111613949--111614011 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
111613939 GTTAATGTTC
*
111613949 ACGAACATGTTCATTTAACTTAA
1 ACGAACATGTTCA-TGAACTTAA
**
111613972 TTGAACATGTTCATGAACATTAA
1 ACGAACATGTTCATGAAC-TTAA
111613995 ACGAACATGTTCATGAA
1 ACGAACATGTTCATGAA
111614012 ATAAAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 4 0.12
23 30 0.88
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (22 bp):
ACGAACATGTTCATGAACTTAA
Found at i:111614024 original size:23 final size:24
Alignment explanation
Indices: 111613970--111614036 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 24
111613960 CATTTAACTT
*
111613970 AATTGAACATGTTCATGAACATTA
1 AATTGAACATGTTCATGAACATAA
*
111613994 AA-CGAACATGTTCATGAA-ATAA
1 AATTGAACATGTTCATGAACATAA
* *
111614016 AATTTAACATGTTTATGAACA
1 AATTGAACATGTTCATGAACA
111614037 ATGTTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.14
23 28 0.78
24 3 0.08
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (24 bp):
AATTGAACATGTTCATGAACATAA
Found at i:111618639 original size:72 final size:72
Alignment explanation
Indices: 111618522--111618667 Score: 247
Period size: 72 Copynumber: 2.0 Consensus size: 72
111618512 CTCAGCCTTT
*
111618522 CATAAATTTCCTCAACCACTTTTTGTGCATCCATCAGAGTTGGGGCTTGGCACAAACCTTGACAA
1 CATAAATTTCCTCAACCACTTTTTGTGCATCCATCAGAGTTGGGGCATGGCACAAACCTTGACAA
111618587 GCAATCC
66 GCAATCC
* * * *
111618594 CATAATTTTCCTCAACCACTTTTTGTGTATCCATTAGAGTTGGGGCATGGCACAAACCTTGACAT
1 CATAAATTTCCTCAACCACTTTTTGTGCATCCATCAGAGTTGGGGCATGGCACAAACCTTGACAA
111618659 GCAATCC
66 GCAATCC
111618666 CA
1 CA
111618668 GGATGTGTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (72 bp):
CATAAATTTCCTCAACCACTTTTTGTGCATCCATCAGAGTTGGGGCATGGCACAAACCTTGACAA
GCAATCC
Found at i:111620560 original size:21 final size:20
Alignment explanation
Indices: 111620536--111620574 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
111620526 GCTCAAAAAA
111620536 AAAAGAAGAAAACTCAAACCC
1 AAAAGAAGAAAA-TCAAACCC
* *
111620557 AAAATAAGAACATCAAAC
1 AAAAGAAGAAAATCAAAC
111620575 TGGAACTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.21, G:0.08, T:0.08
Consensus pattern (20 bp):
AAAAGAAGAAAATCAAACCC
Found at i:111625235 original size:11 final size:11
Alignment explanation
Indices: 111625204--111625245 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
111625194 AGATTAAATT
111625204 ATAGTTTAA-A
1 ATAGTTTAATA
111625214 ATATGTTTAATA
1 ATA-GTTTAATA
111625226 ATAGTTTAATTA
1 ATAGTTTAA-TA
111625238 ATA-TTTAA
1 ATAGTTTAA
111625246 CTGATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.10
11 17 0.59
12 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (11 bp):
ATAGTTTAATA
Found at i:111627865 original size:48 final size:48
Alignment explanation
Indices: 111627769--111627869 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
111627759 GGGTGTTACA
** * ** ** *
111627769 GGTAATATATTGAATTGTTTAAACCATCGTTGTCGGGTTATCTCGGAT
1 GGTAATATATTGAATTGAATAAACCATCGATGTCCAGCCATCCCGGAT
111627817 GGTAATATATTGAATTGAATAAACCATCGATGTCCAGCCA-CCCGGGAT
1 GGTAATATATTGAATTGAATAAACCATCGATGTCCAGCCATCCC-GGAT
111627865 GGTAA
1 GGTAA
111627870 ATTGTGCATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 2 0.05
48 42 0.95
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (48 bp):
GGTAATATATTGAATTGAATAAACCATCGATGTCCAGCCATCCCGGAT
Found at i:111631345 original size:20 final size:20
Alignment explanation
Indices: 111631309--111631347 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
111631299 TATGCTCAAT
111631309 AAACATGAATATTTGTAATTA
1 AAACATGAATA-TTGTAATTA
111631330 AAACATGAGATA-TGTAAT
1 AAACATGA-ATATTGTAAT
111631348 ACCAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (20 bp):
AAACATGAATATTGTAATTA
Found at i:111633403 original size:15 final size:15
Alignment explanation
Indices: 111633383--111633415 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
111633373 AGTCGCTCAT
111633383 ACCTGTAATATTCAA
1 ACCTGTAATATTCAA
111633398 ACCTGTAATATTCAA
1 ACCTGTAATATTCAA
111633413 ACC
1 ACC
111633416 ATAGATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (15 bp):
ACCTGTAATATTCAA
Found at i:111644795 original size:17 final size:18
Alignment explanation
Indices: 111644742--111644867 Score: 175
Period size: 19 Copynumber: 6.9 Consensus size: 18
111644732 AATCATATCT
*
111644742 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
111644761 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
111644779 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
111644796 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
111644814 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
111644831 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
111644850 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
111644868 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 33 0.34
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:111644800 original size:35 final size:35
Alignment explanation
Indices: 111644742--111644859 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
111644732 AATCATATCT
111644742 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
111644779 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
111644814 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
111644850 TCTAAGATTG
1 TCTAAGATTG
111644860 CATATCATTG
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:111644875 original size:17 final size:18
Alignment explanation
Indices: 111644742--111644864 Score: 96
Period size: 17 Copynumber: 6.8 Consensus size: 18
111644732 AATCATATCT
* *
111644742 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
111644761 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
111644779 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
111644796 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
111644814 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
111644831 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
111644850 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
111644865 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:111645714 original size:207 final size:207
Alignment explanation
Indices: 111645257--111646256 Score: 1635
Period size: 207 Copynumber: 4.8 Consensus size: 207
111645247 AAATCTGCTT
* * * * * *
111645257 CTTCAATTTATTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * ** * *
111645322 GCGAAAGCCAAATTAGGTATGTCTTCGATTTACTCCTTGTAAGCGCAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * * * * * *
111645387 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAAATCTGCTAAAAGTCTGTCTTCTGTCAAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
111645451 GGAGACGCCAAA
196 GGAGACGCCAAA
*
111645463 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
111645528 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCGCAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
111645593 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
111645658 GGAGACGCCAAA
196 GGAGACGCCAAA
111645670 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
111645735 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
111645800 GGATCTTGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
111645865 GGAGACGCCAAA
196 GGAGACGCCAAA
*
111645877 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
111645942 GTGAAAGTCAAATCAGCTATGTCTTCGATTTATTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
111646007 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGTCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
111646072 GGAGACGCCAAA
196 GGAGACGCCAAA
111646084 CTTCGATTT-TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
111646148 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
111646213 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATA
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATA
111646257 CTTTAACCTG
Statistics
Matches: 750, Mismatches: 43, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
206 281 0.37
207 469 0.63
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:111646422 original size:87 final size:82
Alignment explanation
Indices: 111646262--111646464 Score: 273
Period size: 87 Copynumber: 2.4 Consensus size: 82
111646252 CTATACTTTA
111646262 ACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAAGGA
1 ACCTGTTACCCTACTGCTTA-GGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAAGGA
111646327 GATAAGATCCGCAATTTT
65 GATAAGATCCGCAATTTT
* *
111646345 GACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCGTAGTTGATCTGTTCCACTACTGCTT
1 -ACCTGTTACCCTACTGCTTAGGGG-TTAAGGCGCA-TC-T--TCGATCTGCTCCACTACTGCTT
* * *
111646409 AGGGAGATAAGATCTGTAATTTT
60 AAGGAGATAAGATCCGCAATTTT
*
111646432 AGCCTGTTACCCTACTACTTAGGGGTTAAGGCG
1 A-CCTGTTACCCTACTGCTTAGGGGTTAAGGCG
111646465 TTAAATTTTG
Statistics
Matches: 107, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
83 5 0.05
84 30 0.28
85 1 0.01
86 9 0.08
87 62 0.58
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (82 bp):
ACCTGTTACCCTACTGCTTAGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAAGGAG
ATAAGATCCGCAATTTT
Found at i:111647428 original size:9 final size:9
Alignment explanation
Indices: 111647411--111647448 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
111647401 GGCCTCTCCA
111647411 TTTTT-TCT
1 TTTTTCTCT
111647419 TTTTTCTCT
1 TTTTTCTCT
*
111647428 TTTTTAT-T
1 TTTTTCTCT
111647436 TTTTTCTCT
1 TTTTTCTCT
111647445 TTTT
1 TTTT
111647449 CTATTATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 12 0.46
9 14 0.54
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:111647438 original size:17 final size:18
Alignment explanation
Indices: 111647418--111647453 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
111647408 CCATTTTTTC
111647418 TTTTTTCTCTTTTT-TAT
1 TTTTTTCTCTTTTTCTAT
111647435 TTTTTTCTCTTTTTCTAT
1 TTTTTTCTCTTTTTCTAT
111647453 T
1 T
111647454 ATGTTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTCTCTTTTTCTAT
Found at i:111649353 original size:3 final size:3
Alignment explanation
Indices: 111649345--111649401 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
111649335 CCGAATTCCA
111649345 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
111649393 ATT ATT ATT
1 ATT ATT ATT
111649402 TTCAATTATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:111650368 original size:39 final size:39
Alignment explanation
Indices: 111650321--111650486 Score: 239
Period size: 39 Copynumber: 4.3 Consensus size: 39
111650311 TGACTTCGAA
*
111650321 ACTTAGCCCGGATATAACATCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
*
111650360 ACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
*
111650399 ACTTAACCCGGATATAATATCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
* * *
111650438 ACTTAGCCCGGAAATAAATCTCA-CAC-AAGGCCTT-GGG
1 ACTTAGCCCGGATAT-AATATCAGCACGAATGCCTTCGGG
111650475 ATCTTAGCCCGG
1 A-CTTAGCCCGG
111650487 TTAAAATCCT
Statistics
Matches: 117, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
37 4 0.03
38 17 0.15
39 90 0.77
40 6 0.05
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
ACTTAGCCCGGATATAATATCAGCACGAATGCCTTCGGG
Found at i:111652788 original size:20 final size:20
Alignment explanation
Indices: 111652765--111652814 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
111652755 AACAAAGAAT
111652765 AAATAAGAACAAACCGTAGA
1 AAATAAGAACAAACCGTAGA
111652785 AAATAAGAACAAACCGTAGA
1 AAATAAGAACAAACCGTAGA
111652805 AAATAAGAAC
1 AAATAAGAAC
111652815 GCAAGAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.10
Consensus pattern (20 bp):
AAATAAGAACAAACCGTAGA
Found at i:111653076 original size:17 final size:18
Alignment explanation
Indices: 111653020--111653126 Score: 146
Period size: 17 Copynumber: 5.9 Consensus size: 18
111653010 AATCATATCT
*
111653020 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
* *
111653039 TCTAAGATTGCAATTATA
1 TCTAAGATTGCTATCATA
111653057 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
111653074 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
111653092 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
111653109 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
111653127 TGAAGATTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
17 31 0.40
18 31 0.40
19 16 0.21
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:111653078 original size:35 final size:35
Alignment explanation
Indices: 111653020--111653126 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
111653010 AATCATATCT
*
111653020 TCTAAGATTGTATATCATATCTAAGATTGCAATTATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
111653057 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
111653092 TCTAAGATTGTATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
111653127 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 53 0.78
36 5 0.07
37 10 0.15
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:111654255 original size:17 final size:18
Alignment explanation
Indices: 111654202--111654327 Score: 175
Period size: 19 Copynumber: 6.9 Consensus size: 18
111654192 AATCATATCT
*
111654202 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
111654221 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
111654239 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
111654256 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
111654274 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
111654291 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
111654310 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
111654328 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 33 0.34
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:111654260 original size:35 final size:35
Alignment explanation
Indices: 111654202--111654319 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
111654192 AATCATATCT
111654202 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
111654239 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
111654274 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
111654310 TCTAAGATTG
1 TCTAAGATTG
111654320 CATATCATTG
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:111654335 original size:17 final size:18
Alignment explanation
Indices: 111654202--111654324 Score: 96
Period size: 17 Copynumber: 6.8 Consensus size: 18
111654192 AATCATATCT
* *
111654202 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
111654221 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
111654239 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
111654256 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
111654274 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
111654291 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
111654310 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
111654325 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:111655156 original size:207 final size:207
Alignment explanation
Indices: 111654708--111655418 Score: 1118
Period size: 207 Copynumber: 3.4 Consensus size: 207
111654698 AAATCTGCTT
* * * *
111654708 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
* * * * *
111654773 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCTTTATAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * * *
111654838 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
111654902 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
111654914 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATTATCTTAGACTTGCTTCAACATAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
* *
111654979 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGGACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
111655044 GGATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
111655109 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
111655121 CTTCAATTTGTTCTCTGACAATACTGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
* *
111655186 GTGAAAGCCCAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
111655251 AGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
111655316 GGAGACGCGAAA
196 GGAGACGCCAAA
* * ** * * *
111655328 CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATTGTCTTAGATTTGCTTCATCATAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
111655393 GTGAAAGCCAAATCAGCTATGTCTTC
66 GTGAAAGCCAAATCAGCTATGTCTTC
111655419 AATCTACTCT
Statistics
Matches: 463, Mismatches: 41, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
206 122 0.26
207 341 0.74
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:111655706 original size:86 final size:83
Alignment explanation
Indices: 111655550--111655835 Score: 371
Period size: 86 Copynumber: 3.4 Consensus size: 83
111655540 TTATACTTTA
* * *
111655550 ACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTTCTTATGG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTACTTAGGG
*
111655614 AGATAAGATCCGCAATTTT
65 AGATAAGATCTGCAATTTT
* ** * *
111655633 GACCTGTTACCCTACTGCTTA-GGGATTAAGGTGAGTCGTCATTAATCTGTTCCACTACTGCTTA
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTACTTA
*
111655697 GGGAGATAAGATCTGTAATTTT
62 GGGAGATAAGATCTGCAATTTT
*
111655719 AGCCTGTTACCCTACTGCTTAGGGG-TTAAGGCGAGTCTTCGATCTGCTCTACTACTACTTAGGG
1 A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGG
* *
111655783 AGATAAGATCTACAAATTTA
65 AGATAAGATCTGC-AATTTT
111655803 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
111655836 TTGAATTTTG
Statistics
Matches: 176, Mismatches: 18, Indels: 16
0.84 0.09 0.08
Matches are distributed among these distances:
82 1 0.01
83 67 0.38
84 35 0.20
85 2 0.01
86 68 0.39
87 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (83 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGGA
GATAAGATCTGCAATTTT
Found at i:111655813 original size:83 final size:83
Alignment explanation
Indices: 111655546--111655835 Score: 384
Period size: 83 Copynumber: 3.4 Consensus size: 83
111655536 TGTGTTATAC
*
111655546 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTTCTT
1 TTTAACCTGTTACCCTACTGCTTA-GGGGTTAAGGCG-AGTCTTCGATCTGCTCCACTACTACTT
* *
111655610 ATGGAGATAAGATCCGCAAT
64 AGGGAGATAAGATCTGCAAT
* * * ** * *
111655630 TTTGACCTGTTACCCTACTGCTTAGGGATTAAGGTGAGTCGTCATTAATCTGTTCCACTACTGCT
1 TTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGAGTC-T--TCGATCTGCTCCACTACTACT
*
111655695 TAGGGAGATAAGATCTGTAAT
63 TAGGGAGATAAGATCTGCAAT
* *
111655716 TTTAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCGAGTCTTCGATCTGCTCTACTACTACTTAG
1 TTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAG
* *
111655781 GGAGATAAGATCTACAAA
66 GGAGATAAGATCTGCAAT
111655799 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGG-TTAAGGCG
111655836 TTGAATTTTG
Statistics
Matches: 178, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
82 1 0.01
83 73 0.41
84 32 0.18
85 1 0.01
86 71 0.40
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (83 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGTTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAG
GGAGATAAGATCTGCAAT
Found at i:111656859 original size:7 final size:7
Alignment explanation
Indices: 111656847--111656900 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
111656837 GGCCTCTCCA
111656847 TTTTTTC
1 TTTTTTC
111656854 TTTTTTC
1 TTTTTTC
111656861 -TTTTTC
1 TTTTTTC
111656867 TTTTTT-
1 TTTTTTC
*
111656873 TTTTCTC
1 TTTTTTC
*
111656880 TTTTCTTTT
1 -TTT-TTTC
111656889 TTTTTTC
1 TTTTTTC
111656896 TTTTT
1 TTTTT
111656901 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 11 0.28
7 20 0.51
8 6 0.15
9 2 0.05
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:111656875 original size:18 final size:17
Alignment explanation
Indices: 111656849--111656900 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 17
111656839 CCTCTCCATT
111656849 TTTTCTTTTTTCTTTTTC
1 TTTT-TTTTTTCTTTTTC
111656867 TTTTTTTTTTCTCTTTTC
1 TTTTTTTTTTCT-TTTTC
111656885 TTTTTTTTTTCTTTTT
1 TTTTTTTTTTCTTTTT
111656901 GAAATAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTTTTTCTTTTTC
Found at i:111656876 original size:24 final size:23
Alignment explanation
Indices: 111656847--111656900 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
111656837 GGCCTCTCCA
*
111656847 TTTTTTCTTTTTTCTTTTTCTTTT
1 TTTTTTCTCTTTTCTTTTT-TTTT
111656871 TTTTTTCTCTTTTCTTTTTTTTT
1 TTTTTTCTCTTTTCTTTTTTTTT
111656894 TCTTTTT
1 T-TTTTT
111656901 GAAATAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (23 bp):
TTTTTTCTCTTTTCTTTTTTTTT
Found at i:111662633 original size:17 final size:18
Alignment explanation
Indices: 111662580--111662705 Score: 175
Period size: 19 Copynumber: 6.9 Consensus size: 18
111662570 AATCATATCT
*
111662580 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
111662599 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
111662617 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
111662634 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
111662652 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
111662669 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
111662688 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
111662706 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 33 0.34
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:111662638 original size:35 final size:35
Alignment explanation
Indices: 111662580--111662697 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
111662570 AATCATATCT
111662580 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
111662617 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
111662652 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
111662688 TCTAAGATTG
1 TCTAAGATTG
111662698 CATATCATTG
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:111662713 original size:17 final size:18
Alignment explanation
Indices: 111662580--111662702 Score: 96
Period size: 17 Copynumber: 6.8 Consensus size: 18
111662570 AATCATATCT
* *
111662580 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
111662599 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
111662617 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
111662634 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
111662652 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
111662669 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
111662688 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
111662703 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:111665947 original size:21 final size:20
Alignment explanation
Indices: 111665916--111665992 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
111665906 ACCCAGTAGG
111665916 GTTAAACTGAAACTCATAAGA
1 GTTAAA-TGAAACTCATAAGA
* * *
111665937 GTTGAAATGAAACCCATTAGG
1 GTT-AAATGAAACTCATAAGA
* *
111665958 GTTAACTGAAACTCATATGA
1 GTTAAATGAAACTCATAAGA
* *
111665978 GTTAACTGAAGCTCA
1 GTTAAATGAAACTCA
111665993 CGAGAGCTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 26 0.57
21 17 0.37
22 3 0.07
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (20 bp):
GTTAAATGAAACTCATAAGA
Found at i:111665969 original size:20 final size:21
Alignment explanation
Indices: 111665904--111665987 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
111665894 AGCTGAGCGA
* *
111665904 AAACCCAGTAGGGTTAAACTG
1 AAACCCATTAGAGTTAAACTG
* *
111665925 AAACTCATAAGAGTTGAAA-TG
1 AAACCCATTAGAGTT-AAACTG
*
111665946 AAACCCATTAGGGTT-AACTG
1 AAACCCATTAGAGTTAAACTG
*
111665966 AAACTCA-TATGAGTT-AACTG
1 AAACCCATTA-GAGTTAAACTG
111665986 AA
1 AA
111665988 GCTCACGAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
19 4 0.08
20 19 0.37
21 25 0.49
22 3 0.06
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (21 bp):
AAACCCATTAGAGTTAAACTG
Found at i:111667065 original size:38 final size:38
Alignment explanation
Indices: 111667007--111667087 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
111666997 CATTTTTTAG
*
111667007 GTTTGATCAATTGGCCTGGGAACAGAGCACACCAAGTA
1 GTTTTATCAATTGGCCTGGGAACAGAGCACACCAAGTA
* *
111667045 GTTTTATCAATTGGCTTGGGAACAGAGCACGCCAAGTA
1 GTTTTATCAATTGGCCTGGGAACAGAGCACACCAAGTA
111667083 GTTTT
1 GTTTT
111667088 CAACAACGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (38 bp):
GTTTTATCAATTGGCCTGGGAACAGAGCACACCAAGTA
Found at i:111668298 original size:77 final size:77
Alignment explanation
Indices: 111668171--111668324 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
111668161 TAACAACAAC
*
111668171 TTTAACCCTTATCATTTACATATTATATCAATTTAATCTTAATTTTAAAAAAATGGTAGGTTAAT
1 TTTAACCCTTATCATTTACATATTATATCAATTTAATATTAATTTTAAAAAAATGGTAGGTTAAT
111668236 TGAATGAGTGGT
66 TGAATGAGTGGT
*
111668248 TTTAACCCTTATCATTTACATATTATGTCAATTTAATATTAATTTTAAAAAAATGGTAGGTTAAT
1 TTTAACCCTTATCATTTACATATTATATCAATTTAATATTAATTTTAAAAAAATGGTAGGTTAAT
111668313 TGAATGAGTGGT
66 TGAATGAGTGGT
111668325 GAGGCTCTCT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (77 bp):
TTTAACCCTTATCATTTACATATTATATCAATTTAATATTAATTTTAAAAAAATGGTAGGTTAAT
TGAATGAGTGGT
Found at i:111669285 original size:30 final size:31
Alignment explanation
Indices: 111669249--111669317 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
111669239 GGTTTCATTT
* *
111669249 CAGTCACTCAAC-TT-TCAAAAAGTTACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTGACAAAA
111669279 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTGACAAAA
*
111669310 TAGTCACT
1 CAGTCACT
111669318 GATTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 10 0.29
31 21 0.62
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.23
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTGACAAAA
Found at i:111671265 original size:51 final size:52
Alignment explanation
Indices: 111671188--111671309 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 52
111671178 GAAAAAGGGT
111671188 AAATTATGTATTTAGTCACCTGATTTTACCTATGTTCCAATTTTAATTATTC
1 AAATTATGTATTTAGTCACCTGATTTTACCTATGTTCCAATTTTAATTATTC
*
111671240 -AATTATGTATTTAGTCACCTGATTTTACCTATGTTCCTATTTTAATTATTC
1 AAATTATGTATTTAGTCACCTGATTTTACCTATGTTCCAATTTTAATTATTC
111671291 AAATT-TGTTATTTTAGTCA
1 AAATTATG-TA-TTTAGTCA
111671310 TTCCTGTTAG
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
51 52 0.79
52 6 0.09
53 8 0.12
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (52 bp):
AAATTATGTATTTAGTCACCTGATTTTACCTATGTTCCAATTTTAATTATTC
Found at i:111671681 original size:16 final size:16
Alignment explanation
Indices: 111671655--111671694 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
111671645 TTAAATTACG
*
111671655 TAAATATATTTTAATAT
1 TAAA-ATATTTTAAAAT
111671672 TAAAATATTTTAAAAT
1 TAAAATATTTTAAAAT
111671688 TAAAATA
1 TAAAATA
111671695 ACAGAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATATTTTAAAAT
Found at i:111679685 original size:31 final size:31
Alignment explanation
Indices: 111679649--111679707 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
111679639 TGAGTTTGGC
111679649 TTCAATGTTCATTTAGGTACTTGAATTTAGT
1 TTCAATGTTCATTTAGGTACTTGAATTTAGT
*
111679680 TTCAATGTTCATTTAGGTATTTGAATTT
1 TTCAATGTTCATTTAGGTACTTGAATTT
111679708 TTTTAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.51
Consensus pattern (31 bp):
TTCAATGTTCATTTAGGTACTTGAATTTAGT
Found at i:111684447 original size:27 final size:27
Alignment explanation
Indices: 111684417--111684471 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
111684407 TTGAGCTTAA
*
111684417 AAGTCTGATAGCTATTATTGATGGGTC
1 AAGTCTCATAGCTATTATTGATGGGTC
* *
111684444 AAGTCTCATGGCTGTTATTGATGGGTC
1 AAGTCTCATAGCTATTATTGATGGGTC
111684471 A
1 A
111684472 CACTTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (27 bp):
AAGTCTCATAGCTATTATTGATGGGTC
Found at i:111689298 original size:6 final size:6
Alignment explanation
Indices: 111689287--111689321 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
111689277 TTGCTTTCGG
111689287 TTTTTA TTTTTA TTTTTA TTTTTTA TTTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTT
111689322 CAAAGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 15 0.54
7 13 0.46
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:111689303 original size:7 final size:7
Alignment explanation
Indices: 111689287--111689321 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
111689277 TTGCTTTCGG
111689287 TTTTTA-
1 TTTTTAT
111689293 TTTTTA-
1 TTTTTAT
111689299 TTTTTAT
1 TTTTTAT
111689306 TTTTTAT
1 TTTTTAT
111689313 TTTTTAT
1 TTTTTAT
111689320 TT
1 TT
111689322 CAAAGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:111689309 original size:13 final size:12
Alignment explanation
Indices: 111689287--111689321 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
111689277 TTGCTTTCGG
111689287 TTTTTATTTTTA
1 TTTTTATTTTTA
111689299 TTTTTATTTTTTA
1 TTTTTA-TTTTTA
111689312 TTTTTTATTT
1 -TTTTTATTT
111689322 CAAAGAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 6 0.29
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:111689632 original size:11 final size:10
Alignment explanation
Indices: 111689616--111689668 Score: 61
Period size: 11 Copynumber: 4.9 Consensus size: 10
111689606 CACACAATAG
111689616 TTCTCTCACAA
1 TTCTCTCA-AA
111689627 TTCTCTCTAAA
1 TTCTCTC-AAA
*
111689638 TTCTTTCAAAA
1 TTCTCTC-AAA
111689649 TTCTCTCAAA
1 TTCTCTCAAA
111689659 CTTCTCTCAA
1 -TTCTCTCAA
111689669 TTTTTGTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 3 0.08
11 33 0.89
12 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:111689650 original size:22 final size:22
Alignment explanation
Indices: 111689616--111689668 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
111689606 CACACAATAG
*
111689616 TTCTCTCACAATTCTCTCTAAA-
1 TTCTCTCAAAATTCTCTC-AAAC
*
111689638 TTCTTTCAAAATTCTCTCAAAC
1 TTCTCTCAAAATTCTCTCAAAC
111689660 TTCTCTCAA
1 TTCTCTCAA
111689669 TTTTTGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (22 bp):
TTCTCTCAAAATTCTCTCAAAC
Found at i:111689687 original size:21 final size:22
Alignment explanation
Indices: 111689654--111689697 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
111689644 CAAAATTCTC
111689654 TCAAACTTCTCTC-AATTTTTG
1 TCAAACTTCTCTCTAATTTTTG
* *
111689675 TCAAAGTTGTCTCTAATTTTTG
1 TCAAACTTCTCTCTAATTTTTG
111689697 T
1 T
111689698 AAAAAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (22 bp):
TCAAACTTCTCTCTAATTTTTG
Found at i:111691483 original size:18 final size:18
Alignment explanation
Indices: 111691460--111691502 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
111691450 TGCCAGGTGC
111691460 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
111691478 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
111691496 GTTTCCT
1 GTATCCT
111691503 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:111691676 original size:34 final size:34
Alignment explanation
Indices: 111691634--111691700 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
111691624 GGAGCTCTTT
111691634 TTTTTACCATTCCCCATCACCTTATGAGATTCAC
1 TTTTTACCATTCCCCATCACCTTATGAGATTCAC
111691668 TTTTTACCATTCCCCATCACCTTATGAGATTCA
1 TTTTTACCATTCCCCATCACCTTATGAGATTCA
111691701 AACACCTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.06, T:0.39
Consensus pattern (34 bp):
TTTTTACCATTCCCCATCACCTTATGAGATTCAC
Found at i:111693372 original size:24 final size:24
Alignment explanation
Indices: 111693323--111693374 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
111693313 GAAAAACACT
* *
111693323 AAACCTTAACCCTAAAATAATCAA
1 AAACCCTAACCCTAAAATAACCAA
*
111693347 AAACCCTAACCCTAAAA-AACCTA
1 AAACCCTAACCCTAAAATAACCAA
111693370 AAACC
1 AAACC
111693375 TAATTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (24 bp):
AAACCCTAACCCTAAAATAACCAA
Found at i:111693879 original size:166 final size:159
Alignment explanation
Indices: 111693319--111693970 Score: 960
Period size: 157 Copynumber: 4.1 Consensus size: 159
111693309 ATTGGAAAAA
* * *
111693319 CACT-AAACCTTAACCCTAAAATAATCAAAAACCCTAACCCTAAAAAACC-TAAAACCTAATTTA
1 CACTAAAACCCTAATCCTAAAATAATCAAAAACCCTAACCCTAAAAAACCTTAAACCCTAATTTA
*
111693382 ATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTTTAATTAAATTAATTTT
66 ATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTT
*
111693447 TTCCTT-AAAAAATACTAAAACCTTAAAC
131 TCCCTTAAAAAAATACTAAAACCTTAAAC
*
111693475 CACTAAAACCCTAATCCTAAAATAATCAAAAA-CCTCAACCCTAAAAAACTTTAAACCCTAATTT
1 CACTAAAACCCTAATCCTAAAATAATCAAAAACCCT-AACCCTAAAAAACCTTAAACCCTAATTT
111693539 AATTGA-TTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTT
65 AATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTT
*
111693603 TTCCATTAAAAAAATACTAAAATCC-TAAAC
130 TTCCCTTAAAAAAATACTAAAA-CCTTAAAC
* * * * *
111693633 CATTAAAACCCTACTCTTAAAATAATCAAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTT
1 CACTAAAACCCTAATCCTAAAATAATC-AAAAACCCTAACCCTAAAAAACCTTAAACCCTAATTT
* * *
111693698 AATTGATTTTTTTAATTTCATATTTAATTTAATTAACTAACCCTCACCTCTAATTAAATTAATTT
65 AATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTT
111693763 TTCCCTTAAAAAACATTAAAACATTAAAACCTTAAAC
130 TTCCCTTAAAAAA-A-T---AC--TAAAACCTTAAAC
* *
111693800 CACTAAAATCCTAATCCTAAAATAATCAAAAACCCTAACCTTAAAAAACCTTAAACCCTAATTTA
1 CACTAAAACCCTAATCCTAAAATAATCAAAAACCCTAACCCTAAAAAACCTTAAACCCTAATTTA
*
111693865 ATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCGACTCTAATTAAATTAATTTT
66 ATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTT
* * *
111693930 CCCCTT--AAAAATGCTAAAACCCTAAAC
131 TCCCTTAAAAAAATACTAAAACCTTAAAC
*
111693957 CATTAAAACCCTAA
1 CACTAAAACCCTAA
111693971 ACCACTAAAC
Statistics
Matches: 449, Mismatches: 31, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
156 7 0.02
157 124 0.28
158 61 0.14
159 39 0.09
160 70 0.16
161 1 0.00
162 2 0.00
163 1 0.00
164 4 0.01
165 2 0.00
166 105 0.23
167 33 0.07
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.34
Consensus pattern (159 bp):
CACTAAAACCCTAATCCTAAAATAATCAAAAACCCTAACCCTAAAAAACCTTAAACCCTAATTTA
ATTGATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTT
TCCCTTAAAAAAATACTAAAACCTTAAAC
Found at i:111693965 original size:16 final size:16
Alignment explanation
Indices: 111693943--111693979 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
111693933 CTTAAAAATG
111693943 CTAAAACCCTAAACCA
1 CTAAAACCCTAAACCA
*
111693959 TTAAAACCCTAAACCA
1 CTAAAACCCTAAACCA
111693975 CTAAA
1 CTAAA
111693980 CCCAACCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.16
Consensus pattern (16 bp):
CTAAAACCCTAAACCA
Found at i:111694962 original size:15 final size:15
Alignment explanation
Indices: 111694942--111694993 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
111694932 GGATTCGTTA
*
111694942 ACTCGACTTGATTTG
1 ACTCGAATTGATTTG
*
111694957 ACTCGAAATT-TTTTG
1 ACTCG-AATTGATTTG
*
111694972 ACTCGATTTGATTTG
1 ACTCGAATTGATTTG
*
111694987 ATTCGAA
1 ACTCGAA
111694994 AAAATTTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (15 bp):
ACTCGAATTGATTTG
Found at i:111696623 original size:37 final size:37
Alignment explanation
Indices: 111696573--111696663 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
111696563 TTATTGTTGA
* *
111696573 GGCGTGTTATCGGTTGGATTAGCTCTTAGGAGCGTTT
1 GGCGTGTTATCGGTTGGATTAGCTCTTAGAAGCATTT
*
111696610 GGCGTGTTATCGGTTGGATTAGCTCTTATAAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCTTAGAAGCATTT
* *
111696647 GACATGTT-TCGGTTGGA
1 GGCGTGTTATCGGTTGGA
111696664 CTACTATGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 9 0.18
37 40 0.82
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.38
Consensus pattern (37 bp):
GGCGTGTTATCGGTTGGATTAGCTCTTAGAAGCATTT
Found at i:111698020 original size:29 final size:29
Alignment explanation
Indices: 111697984--111698040 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
111697974 TATGGGTTAG
111697984 GGGTGTTACATCAAGAATAACTAGTTAAA
1 GGGTGTTACATCAAGAATAACTAGTTAAA
*
111698013 GGGTGTTACATCAATAATAACTAGTTAA
1 GGGTGTTACATCAAGAATAACTAGTTAA
111698041 GACATAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (29 bp):
GGGTGTTACATCAAGAATAACTAGTTAAA
Found at i:111701901 original size:33 final size:32
Alignment explanation
Indices: 111701854--111701916 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
111701844 ACAATTGTAA
* *
111701854 TATTTTATTTAAATT-GGTAGATATTTATTATT
1 TATTTTATTAAAATTAAG-AGATATTTATTATT
111701886 TATTATTATTAAAATTAAGAGATATTTATTA
1 TATT-TTATTAAAATTAAGAGATATTTATTA
111701917 ATTAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 4 0.15
33 22 0.81
34 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (32 bp):
TATTTTATTAAAATTAAGAGATATTTATTATT
Found at i:111702595 original size:17 final size:18
Alignment explanation
Indices: 111702573--111702606 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
111702563 TAAATGAGTT
111702573 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
111702590 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
111702607 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:111705694 original size:23 final size:23
Alignment explanation
Indices: 111705633--111705720 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 23
111705623 GCTTTATCGA
* * *
111705633 TCAGGCACTTTATATGTCGTATA
1 TCAGGCACCTTATGTGTCGTATT
*
111705656 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
*
111705679 TCAGGCACCTTGTGTGT--TATT
1 TCAGGCACCTTATGTGTCGTATT
* *
111705700 TCAGACA-CTGATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTAT
111705721 ACTGATCAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
20 7 0.12
21 10 0.18
22 3 0.05
23 36 0.64
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:111708208 original size:18 final size:18
Alignment explanation
Indices: 111708185--111708219 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
111708175 AATATATATT
111708185 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
111708203 AACCCAATTACCCAACC
1 AACCCAAGTACCCAACC
111708220 TAATCATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.49, G:0.03, T:0.09
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:111708289 original size:7 final size:6
Alignment explanation
Indices: 111708248--111708288 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
111708238 ATAATTTAAT
*
111708248 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
111708289 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:111708289 original size:20 final size:20
Alignment explanation
Indices: 111708251--111708290 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
111708241 ATTTAATAAA
**
111708251 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
111708271 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
111708291 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:111708322 original size:9 final size:9
Alignment explanation
Indices: 111708308--111708384 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
111708298 TTTATACAAA
111708308 TAATTCGGT
1 TAATTCGGT
*
111708317 TAATTCAGT
1 TAATTCGGT
* *
111708326 TAATTTGGG
1 TAATTCGGT
*
111708335 TAATTCGGG
1 TAATTCGGT
* *
111708344 TAATTTGGG
1 TAATTCGGT
111708353 TAATTCGGT
1 TAATTCGGT
*
111708362 TAATTCGAT
1 TAATTCGGT
111708371 TAATTCGGT
1 TAATTCGGT
111708380 TAATT
1 TAATT
111708385 TTATACTTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:111711454 original size:20 final size:20
Alignment explanation
Indices: 111711314--111711462 Score: 75
Period size: 20 Copynumber: 7.5 Consensus size: 20
111711304 ATCGAAATAT
* *
111711314 AAACAGGGGAACGTATGTGC
1 AAACAGGGGCACGTATGTAC
* * *
111711334 AATCAAGGGCACCG-AAGTAC
1 AAACAGGGGCA-CGTATGTAC
* ** *
111711354 ATACAATGGCACGTATGTGC
1 AAACAGGGGCACGTATGTAC
* * ** **
111711374 AATCAGGGGTACCAAAATAC
1 AAACAGGGGCACGTATGTAC
111711394 AAACAGGGGCACGTATGTAC
1 AAACAGGGGCACGTATGTAC
** * ** **
111711414 AATTAGGGGTACCAAAATAC
1 AAACAGGGGCACGTATGTAC
111711434 AAACAGGGGCACGTATGTAC
1 AAACAGGGGCACGTATGTAC
*
111711454 AATCAGGGG
1 AAACAGGGG
111711463 TACTAAAGTA
Statistics
Matches: 86, Mismatches: 41, Indels: 4
0.66 0.31 0.03
Matches are distributed among these distances:
19 2 0.02
20 82 0.95
21 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.16
Consensus pattern (20 bp):
AAACAGGGGCACGTATGTAC
Found at i:111711473 original size:20 final size:20
Alignment explanation
Indices: 111711373--111711475 Score: 75
Period size: 20 Copynumber: 5.2 Consensus size: 20
111711363 CACGTATGTG
* *
111711373 CAATCAGGGGTACCAAAATA
1 CAATCAGGGGTACTAAAGTA
* * *
111711393 CAAACAGGGGCACGT-ATGTA
1 CAATCAGGGGTAC-TAAAGTA
* * *
111711413 CAATTAGGGGTACCAAAATA
1 CAATCAGGGGTACTAAAGTA
* * *
111711433 CAAACAGGGGCACGT-ATGTA
1 CAATCAGGGGTAC-TAAAGTA
111711453 CAATCAGGGGTACTAAAGTA
1 CAATCAGGGGTACTAAAGTA
111711473 CAA
1 CAA
111711476 ATTGGGGCAT
Statistics
Matches: 59, Mismatches: 20, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.02
20 58 0.98
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (20 bp):
CAATCAGGGGTACTAAAGTA
Found at i:111711484 original size:40 final size:40
Alignment explanation
Indices: 111711308--111711476 Score: 212
Period size: 40 Copynumber: 4.2 Consensus size: 40
111711298 GAAATTATCG
* * * * * *
111711308 AAATATAAACAGGGGAACGTATGTGCAATCAAGGGCACCG
1 AAATACAAACAGGGGCACGTATGTACAATCAGGGGTACCA
* * ** *
111711348 AAGTACATACAATGGCACGTATGTGCAATCAGGGGTACCA
1 AAATACAAACAGGGGCACGTATGTACAATCAGGGGTACCA
*
111711388 AAATACAAACAGGGGCACGTATGTACAATTAGGGGTACCA
1 AAATACAAACAGGGGCACGTATGTACAATCAGGGGTACCA
*
111711428 AAATACAAACAGGGGCACGTATGTACAATCAGGGGTACTA
1 AAATACAAACAGGGGCACGTATGTACAATCAGGGGTACCA
*
111711468 AAGTACAAA
1 AAATACAAA
111711477 TTGGGGCATA
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (40 bp):
AAATACAAACAGGGGCACGTATGTACAATCAGGGGTACCA
Found at i:111717904 original size:28 final size:27
Alignment explanation
Indices: 111717861--111717958 Score: 83
Period size: 28 Copynumber: 3.4 Consensus size: 27
111717851 GAAATCAGAG
*
111717861 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAGTA
*
111717888 TTAATCTGGGCCATAGCCCCT-TACAGTA
1 TTAATCTGGGCC-TAGCCCATAT-CAGTA
111717916 TTAGAGTATACTGGGCCTAGCCCATATCAGTA
1 TT--A--AT-CTGGGCCTAGCCCATATCAGTA
*
111717948 TCAATCTGGGC
1 TTAATCTGGGC
111717959 TGTAGCCCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
27 11 0.19
28 22 0.38
30 2 0.03
32 15 0.26
33 8 0.14
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAGTA
Found at i:111717991 original size:60 final size:61
Alignment explanation
Indices: 111717864--111718002 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 61
111717854 ATCAGAGTTA
* * **
111717864 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATTAGAGTAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACGAGAGTAT
* **
111717925 ACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCTGTAGCCCTATTACAAGT-CGAGA-TAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACGAGAGTAT
*
111717985 ATTGGGCCTTA-CCCATAT
1 ACTGGGCCTTAGCCCATAT
111718003 TAACACAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
60 47 0.70
61 17 0.25
62 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (61 bp):
ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACGAGAGTAT
Found at i:111722146 original size:60 final size:60
Alignment explanation
Indices: 111722019--111722157 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 60
111722009 ATCAGAGTTA
* * *
111722019 ACTGGGCCTTAGCCCATATCAATATTAATCTGAGCCTTAGCCCCTTACAGTATCAAAGTAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGAGCCGTAGCCCATTACAG-ATCAAAGTAT
* * *
111722080 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGTCGTAGCCCTATTACA-AGTC-GAGATAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGAGCCGTAGCCC-ATTACAGA-TCAAAG-TAT
*
111722140 ATTGGGCCTTA-CCCATAT
1 ACTGGGCCTTAGCCCATAT
111722158 TAACACAGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
59 3 0.04
60 49 0.73
61 15 0.22
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (60 bp):
ACTGGGCCTTAGCCCATATCAATATCAATCTGAGCCGTAGCCCATTACAGATCAAAGTAT
Found at i:111733013 original size:46 final size:45
Alignment explanation
Indices: 111732953--111733218 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
111732943 TTTGACATGA
* * * * * *
111732953 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
111732999 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
111733045 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
111733091 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
111733137 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
111733175 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
111733219 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:111733182 original size:38 final size:38
Alignment explanation
Indices: 111733131--111733206 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
111733121 ACATTTTATA
111733131 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
111733169 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
111733207 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:111735372 original size:11 final size:11
Alignment explanation
Indices: 111735356--111735407 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
111735346 TATACTAAAT
111735356 AAATAATAATA
1 AAATAATAATA
*
111735367 AAATAAT-ATT
1 AAATAATAATA
* *
111735377 AAATATCTCATA
1 AAATA-ATAATA
*
111735389 AAATATTAATA
1 AAATAATAATA
111735400 AAATAATA
1 AAATAATA
111735408 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:111742687 original size:40 final size:40
Alignment explanation
Indices: 111742592--111742698 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
111742582 TGAAATATAA
* * *
111742592 ATAGTGGCACGTATGTACAATCAGGGGTATCAAAGTATAT
1 ATAGTGGCACGTATGTGCAATCAGGGGCATCAAAGTACAT
* * * ** *
111742632 ACAGGGGTATATATGTGCAATCAGGGGCA-CTGAAGTACAT
1 ATAGTGGCACGTATGTGCAATCAGGGGCATC-AAAGTACAT
*
111742672 ATAGTGGCACGTATGTGCAATTAGGGG
1 ATAGTGGCACGTATGTGCAATCAGGGG
111742699 TACCGAAATA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
39 1 0.02
40 50 0.98
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (40 bp):
ATAGTGGCACGTATGTGCAATCAGGGGCATCAAAGTACAT
Found at i:111748491 original size:14 final size:13
Alignment explanation
Indices: 111748462--111748496 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
111748452 GGGAAGGAAG
*
111748462 AAAGAAAAAGAGA
1 AAAGAAAAAGAAA
111748475 AAAGAAAGAAGAAA
1 AAAGAAA-AAGAAA
111748489 AAAGAAAA
1 AAAGAAAA
111748497 TTAAAGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:111753041 original size:45 final size:45
Alignment explanation
Indices: 111752990--111753218 Score: 145
Period size: 46 Copynumber: 5.2 Consensus size: 45
111752980 TCCCATCCAC
* *
111752990 GGTCTTA-T-TTATCTTTGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTACTATTATCTTT--CATGATGCCATAGTATCTTTCAACCAT
* * *
111753035 GGTCTTACTCATTTTCTTTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACT-ATTATCTTTCATGATGCCATAGTATCTTTCAACCAT
** * * * *
111753081 GGTCTTGTTCATT-TCATATCACGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACT-ATTATC-TTTCATGATGCCATAGTATCTTTCAACCAT
* * * * * * *
111753127 GGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTAC-TATTATCTTTCATGATGCCATAGTATCTTTCAACCAT
* * *
111753173 GGTCTTAC----A---TTCAGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACTATTATCTTTCATGATGCCATAGTATCTTTCAACCAT
111753211 GGTCTTAC
1 GGTCTTAC
111753219 ACATTTCATA
Statistics
Matches: 162, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
38 36 0.22
45 9 0.06
46 109 0.67
47 1 0.01
48 7 0.04
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (45 bp):
GGTCTTACTATTATCTTTCATGATGCCATAGTATCTTTCAACCAT
Found at i:111753073 original size:46 final size:46
Alignment explanation
Indices: 111753013--111753232 Score: 253
Period size: 46 Copynumber: 5.0 Consensus size: 46
111753003 TTTGACATGA
* * * * * *
111753013 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTTTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*** *
111753059 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
111753105 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
111753151 TGCCATGGTATCTTTCAACCATGGTCTT--ACA-----T-TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
111753189 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
111753233 AGAGCACACT
Statistics
Matches: 152, Mismatches: 12, Indels: 20
0.83 0.07 0.11
Matches are distributed among these distances:
38 34 0.22
39 1 0.01
40 3 0.02
44 3 0.02
45 5 0.03
46 103 0.68
47 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:111753196 original size:38 final size:38
Alignment explanation
Indices: 111753145--111753219 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
111753135 ACATTTTATA
111753145 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAT
111753183 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
111753220 CATTTCATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAT
Found at i:111755384 original size:11 final size:11
Alignment explanation
Indices: 111755368--111755419 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
111755358 TATACTAAAT
111755368 AAATAATAATA
1 AAATAATAATA
*
111755379 AAATAAT-ATT
1 AAATAATAATA
* *
111755389 AAATATCTCATA
1 AAATA-ATAATA
*
111755401 AAATATTAATA
1 AAATAATAATA
111755412 AAATAATA
1 AAATAATA
111755420 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:111757381 original size:46 final size:47
Alignment explanation
Indices: 111757314--111757418 Score: 169
Period size: 46 Copynumber: 2.3 Consensus size: 47
111757304 AAATTAGACA
111757314 TTCGATCAATGTAAAGAAAAGAGTACTCCAATGATTCTTTTGGA-CT
1 TTCGATCAATGTAAAGAAAAGAGTACTCCAATGATTCTTTTGGACCT
* *
111757360 TTCGATCAATGTAAAGAAAAGAGTATTCCACTGATTCTTTTGGACCT
1 TTCGATCAATGTAAAGAAAAGAGTACTCCAATGATTCTTTTGGACCT
*
111757407 AT-GATCAATGTA
1 TTCGATCAATGTA
111757419 GGGAAGTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 52 0.95
47 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (47 bp):
TTCGATCAATGTAAAGAAAAGAGTACTCCAATGATTCTTTTGGACCT
Found at i:111759397 original size:28 final size:29
Alignment explanation
Indices: 111759366--111759428 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
111759356 TTTATTCAGT
111759366 TTTTTAAGAACTGTTTT-AT-TATTATTTA
1 TTTTTAAG-ACTGTTTTCATATATTATTTA
** *
111759394 -TTTTAAGTTTGTTTTCTTATATTATTTA
1 TTTTTAAGACTGTTTTCATATATTATTTA
111759422 TTTTTAA
1 TTTTTAA
111759429 AATCATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 6 0.21
27 8 0.28
28 9 0.31
29 6 0.21
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.65
Consensus pattern (29 bp):
TTTTTAAGACTGTTTTCATATATTATTTA
Found at i:111759533 original size:25 final size:24
Alignment explanation
Indices: 111759474--111759536 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
111759464 TTTTTTAAAC
* * *
111759474 TATTATTCATTTTAAACTTTATATA
1 TATTATT-ATTTTAAACATTAGACA
*
111759499 TATTGTTTATTTTAAACCATTAGACA
1 TATT-ATTATTTTAAA-CATTAGACA
111759525 TATTATTATTTT
1 TATTATTATTTT
111759537 GAAGCTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (24 bp):
TATTATTATTTTAAACATTAGACA
Found at i:111762931 original size:46 final size:46
Alignment explanation
Indices: 111762864--111763041 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
111762854 TGTAACCCGC
* * *
111762864 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
111762910 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* *** **
111762956 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
111763003 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
111763042 CTCAACCATC
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
46 72 0.67
47 36 0.33
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:111762983 original size:93 final size:93
Alignment explanation
Indices: 111762871--111763042 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
111762861 CGCCCATAAG
***
111762871 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
111762936 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
*
111762964 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
111763029 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
111763043 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:111769983 original size:93 final size:93
Alignment explanation
Indices: 111769871--111770042 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
111769861 CGCCCATAAG
* *
111769871 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
111769936 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
111769964 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
111770029 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
111770043 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:111770039 original size:46 final size:46
Alignment explanation
Indices: 111769864--111770039 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
111769854 TGTAACCCGC
* * *
111769864 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
111769910 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
111769960 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
111770003 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
111770040 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:111777547 original size:93 final size:93
Alignment explanation
Indices: 111777435--111777606 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
111777425 CGCCCATAAG
* *
111777435 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
111777500 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
111777528 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
111777593 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
111777607 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:111777603 original size:46 final size:46
Alignment explanation
Indices: 111777428--111777603 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
111777418 TGTAACCCGC
* * *
111777428 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
111777474 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
111777524 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
111777567 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
111777604 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:111779788 original size:39 final size:39
Alignment explanation
Indices: 111779731--111779810 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
111779721 TACTGTGGAG
*
111779731 TATGGCGAACTGTTAAGTGTCTCACAATCCTTTCTGACT
1 TATGGCGAACTGTCAAGTGTCTCACAATCCTTTCTGACT
111779770 TATGGCGAACTGTCAAGTGTCTCACAATCCTTTCTGACT
1 TATGGCGAACTGTCAAGTGTCTCACAATCCTTTCTGACT
111779809 TA
1 TA
111779811 CACAATCTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (39 bp):
TATGGCGAACTGTCAAGTGTCTCACAATCCTTTCTGACT
Found at i:111780320 original size:54 final size:54
Alignment explanation
Indices: 111780236--111780348 Score: 217
Period size: 54 Copynumber: 2.1 Consensus size: 54
111780226 GCCAAAGTTT
*
111780236 AGTAATATCATCATCTGACAAGGAAGAGGAAGCGACAGCTACATCACCAGTAAC
1 AGTAGTATCATCATCTGACAAGGAAGAGGAAGCGACAGCTACATCACCAGTAAC
111780290 AGTAGTATCATCATCTGACAAGGAAGAGGAAGCGACAGCTACATCACCAGTAAC
1 AGTAGTATCATCATCTGACAAGGAAGAGGAAGCGACAGCTACATCACCAGTAAC
111780344 AGTAG
1 AGTAG
111780349 AACCCTGCAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (54 bp):
AGTAGTATCATCATCTGACAAGGAAGAGGAAGCGACAGCTACATCACCAGTAAC
Found at i:111782399 original size:2 final size:2
Alignment explanation
Indices: 111782392--111782416 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111782382 ATCTTAAACT
111782392 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
111782417 TACTTTGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111782593 original size:26 final size:25
Alignment explanation
Indices: 111782545--111782631 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 25
111782535 GTTTTTTTTG
*
111782545 TATTATTTACTTTAATTTATTTTACA
1 TATTATTTA-TTTAAATTATTTTACA
* *
111782571 TATTATTTATTTGAAATTGTTTTAGA
1 TATTATTTATTT-AAATTATTTTACA
* *
111782597 TGTTATTTTTATTTCAAATTATTTTATA
1 TATTA--TTTATTT-AAATTATTTTACA
*
111782625 TTTTATT
1 TATTATT
111782632 CATGTCAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
25 3 0.06
26 25 0.50
28 22 0.44
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (25 bp):
TATTATTTATTTAAATTATTTTACA
Found at i:111782615 original size:28 final size:29
Alignment explanation
Indices: 111782571--111782631 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
111782561 TTATTTTACA
* *
111782571 TATTATTTATTTGAAATTGTTTTAGATGT
1 TATTATTTATTTCAAATTATTTTAGATGT
* *
111782600 TATT-TTTATTTCAAATTATTTTATATTT
1 TATTATTTATTTCAAATTATTTTAGATGT
111782628 TATT
1 TATT
111782632 CATGTCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (29 bp):
TATTATTTATTTCAAATTATTTTAGATGT
Done.