Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 147 of 208
Found at i:47865077 original size:3 final size:3
Alignment explanation
Indices: 47865069--47865096 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
47865059 AATATGTTAA
47865069 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
47865097 GTAGATCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47867160 original size:23 final size:23
Alignment explanation
Indices: 47867128--47867171 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
47867118 TAGTTATCAT
*
47867128 TAAAATAATAAAGTAAA-TAAACA
1 TAAAAGAATAAAG-AAACTAAACA
47867151 TAAAAGAATAAAGAAACTAAA
1 TAAAAGAATAAAGAAACTAAA
47867172 AGAGTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (23 bp):
TAAAAGAATAAAGAAACTAAACA
Found at i:47867173 original size:17 final size:18
Alignment explanation
Indices: 47867141--47867179 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
47867131 AATAATAAAG
*
47867141 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
*
47867159 TAAAGAAAC-TAAAAGAG
1 TAAAGAAACATAAAAGAA
47867176 TAAA
1 TAAA
47867180 AAGAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:47870970 original size:16 final size:16
Alignment explanation
Indices: 47870949--47870980 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47870939 GTTTTGTTGC
*
47870949 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
47870965 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
47870981 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:47871179 original size:46 final size:44
Alignment explanation
Indices: 47871110--47871198 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 44
47871100 AACAGATACA
*
47871110 CAGTGGATTCAGCACACAACAACCACCCTTTGTAATCAATGATATC
1 CAGTGGATTCAGCACACAACAACCA-CC-TTATAATCAATGATATC
* * *
47871156 CAGTGGGA-TCAGCACATAGCAACCACCTTATAATTAATGATAT
1 CAGT-GGATTCAGCACACAACAACCACCTTATAATCAATGATAT
47871199 TGGTTCACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 14 0.37
45 2 0.05
46 19 0.50
47 3 0.08
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (44 bp):
CAGTGGATTCAGCACACAACAACCACCTTATAATCAATGATATC
Found at i:47871271 original size:51 final size:51
Alignment explanation
Indices: 47871208--47871396 Score: 213
Period size: 51 Copynumber: 3.7 Consensus size: 51
47871198 TTGGTTCACA
* * *
47871208 TAGTAGCTTGCACATAGTACTACACATGTGACCATCTTTAACCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCATTAACCGGTACACG
* * * * * *
47871259 TAGTAGCCTGCACATAGTACTACACATGTGATCA-AAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-TTAACCGGTACACG
* * *
47871310 TAGTAGCCTGCACATAGTACTACACATGCGACATATCATT-A-TGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGAC-CATCATTAACCGGTACACG
* *
47871360 TAGTAGCCTACACATAGTACTACACACGTGACCATCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA
47871397 CTTTCACTTT
Statistics
Matches: 113, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 4 0.04
50 35 0.31
51 71 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCATTAACCGGTACACG
Found at i:47871375 original size:101 final size:102
Alignment explanation
Indices: 47871206--47871390 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
47871196 TATTGGTTCA
* * * *
47871206 CATAGTAGCTTGCACATAGTACTACACATGTGACCATCTTTAACCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCATTAACCGATACACGTAGTAGCCTACA
*
47871271 CATAGTACTACACATGTGATCAAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
* * *
47871308 CATAGTAGCCTGCACATAGTACTACACATGCGACATATCATT-A-TGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGAC-CATCATTAACCGATACACGTAGTAGCCTAC
47871371 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
47871391 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 36 0.49
102 33 0.45
103 5 0.07
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCATTAACCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
Found at i:47874264 original size:44 final size:43
Alignment explanation
Indices: 47874163--47874274 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 43
47874153 GATTCCACTA
* *
47874163 TCCCAGACAGGGTCTTACACGAAAT-T-ATATACGATGTCAATG
1 TCCCAGACAGGGTCTTACACGAAATCTAATAT-CGATGCCAACG
* *
47874205 TCCTAGACATGGTCTTACACGTAAATCTAATATCGATGCCAACG
1 TCCCAGACAGGGTCTTACACG-AAATCTAATATCGATGCCAACG
47874249 TCCCAGAC-GAGGTCTTACACGAAATC
1 TCCCAGACAG-GGTCTTACACGAAATC
47874275 ACATATCAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
42 19 0.32
43 9 0.15
44 28 0.47
45 4 0.07
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGAAATCTAATATCGATGCCAACG
Found at i:47878570 original size:18 final size:18
Alignment explanation
Indices: 47878545--47878594 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47878535 AATGTAATAT
*
47878545 AAATATTTGTTATTAAAT
1 AAATATTTGTTATTAAAA
* * *
47878563 AGATATTTATTATAAAAA
1 AAATATTTGTTATTAAAA
47878581 AAATA-TTGTTATTA
1 AAATATTTGTTATTA
47878595 TAATTTTCAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
AAATATTTGTTATTAAAA
Found at i:47878652 original size:17 final size:18
Alignment explanation
Indices: 47878616--47878656 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
47878606 AAAATAATAA
* *
47878616 AGTAAATAAACATTAAAG
1 AGTAAAGAAACATAAAAG
47878634 AGTAAAGAAAC-TAAAAG
1 AGTAAAGAAACATAAAAG
47878651 AGTAAA
1 AGTAAA
47878657 AAGAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.63, C:0.05, G:0.15, T:0.17
Consensus pattern (18 bp):
AGTAAAGAAACATAAAAG
Found at i:47879129 original size:20 final size:20
Alignment explanation
Indices: 47879104--47879143 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47879094 CGAAAAATGA
*
47879104 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
47879124 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
47879144 AGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:47882483 original size:23 final size:21
Alignment explanation
Indices: 47882440--47882487 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 21
47882430 AGACCCTAAG
47882440 TAGAAAAGAAGTATGAATTAGGT
1 TAGAAAAGAAGTA-GAATTA-GT
47882463 TAGAAAAGTAAGTA-AACTTAGT
1 TAGAAAAG-AAGTAGAA-TTAGT
47882485 TAG
1 TAG
47882488 GATTAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 11 0.48
24 5 0.22
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (21 bp):
TAGAAAAGAAGTAGAATTAGT
Found at i:47885313 original size:27 final size:27
Alignment explanation
Indices: 47885283--47885419 Score: 125
Period size: 27 Copynumber: 5.1 Consensus size: 27
47885273 GGCGAACCCT
* *
47885283 AAAGGAATGTCTTTGTGACTCAATATG
1 AAAGGAATGCCTTTGTGACGCAATATG
* *
47885310 AAAGGAACGCCTTTGTGGCGCAATATG
1 AAAGGAATGCCTTTGTGACGCAATATG
**
47885337 AAAGGAATGCCTTTGTGGTGCAATATG
1 AAAGGAATGCCTTTGTGACGCAATATG
* * * *
47885364 TAAGAGTAT-CCTTTGTTACGAAATATG
1 AAAG-GAATGCCTTTGTGACGCAATATG
* * *
47885391 AAA-GAGTAGCCTTTGTGGCGAAATATG
1 AAAGGAAT-GCCTTTGTGACGCAATATG
47885418 AA
1 AA
47885420 GGGATAACCT
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.02
27 85 0.94
28 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (27 bp):
AAAGGAATGCCTTTGTGACGCAATATG
Found at i:47890249 original size:13 final size:13
Alignment explanation
Indices: 47890231--47890258 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47890221 TTAAAAATAT
47890231 CTTTAACATTCTG
1 CTTTAACATTCTG
47890244 CTTTAACATTCTG
1 CTTTAACATTCTG
47890257 CT
1 CT
47890259 ATGACGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.25, G:0.07, T:0.46
Consensus pattern (13 bp):
CTTTAACATTCTG
Found at i:47891987 original size:3 final size:3
Alignment explanation
Indices: 47891946--47891972 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47891936 CATGCAAGAA
47891946 CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG
47891973 TTGTGGTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:47892334 original size:83 final size:79
Alignment explanation
Indices: 47892187--47892393 Score: 235
Period size: 83 Copynumber: 2.6 Consensus size: 79
47892177 TGGATTTGTA
* *
47892187 AAACTACCGTCACTGAACAAATGATAAACAACAATCTCAGCAACTTTTTAAAGGCAAAGCCAAGC
1 AAACTACCGTCACTGAACAAATTA-AAACAACGATCTCAGCAACTTTTTAAAGGCAAAGCCAAGC
*
47892252 ACAAATGAAGAATAG
65 ACAAATGAAGAACAG
* * *
47892267 AAGCAATTACTGTCACTGAACAAATTAAAAACAACGATCTCAGCAACTTTTTAGAA-GC-ACGAC
1 -A--AACTACCGTCACTGAACAAATT-AAAACAACGATCTCAGCAACTTTTTA-AAGGCAAAG-C
* *
47892330 CAAGCATAATTGAAGAACAG
60 CAAGCACAAATGAAGAACAG
*
47892350 AAACTACCGTTACTGAACAAA-T-AAA-AACGATCTCAGCAACTTTT
1 AAACTACCGTCACTGAACAAATTAAAACAACGATCTCAGCAACTTTT
47892394 ATGGGTAAAT
Statistics
Matches: 110, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
76 19 0.17
77 3 0.03
79 1 0.01
80 17 0.15
81 1 0.01
82 3 0.03
83 63 0.57
84 3 0.03
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.20
Consensus pattern (79 bp):
AAACTACCGTCACTGAACAAATTAAAACAACGATCTCAGCAACTTTTTAAAGGCAAAGCCAAGCA
CAAATGAAGAACAG
Found at i:47893769 original size:2 final size:2
Alignment explanation
Indices: 47893724--47893749 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47893714 GAGGGATTTG
47893724 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
47893750 AGGAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47893817 original size:14 final size:14
Alignment explanation
Indices: 47893798--47893824 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47893788 AGCGGAAAGC
47893798 TTTTGCTTAGCTGG
1 TTTTGCTTAGCTGG
47893812 TTTTGCTTAGCTG
1 TTTTGCTTAGCTG
47893825 TTTCTTCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.26, T:0.52
Consensus pattern (14 bp):
TTTTGCTTAGCTGG
Found at i:47897805 original size:18 final size:18
Alignment explanation
Indices: 47897782--47897818 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
47897772 ACGGAGGAAG
*
47897782 ACGATGGAGATGAAGACA
1 ACGATGGAGACGAAGACA
47897800 ACGATGGAGACGAAGACA
1 ACGATGGAGACGAAGACA
47897818 A
1 A
47897819 ATACAAGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.32, T:0.08
Consensus pattern (18 bp):
ACGATGGAGACGAAGACA
Found at i:47900952 original size:39 final size:39
Alignment explanation
Indices: 47900897--47900993 Score: 158
Period size: 39 Copynumber: 2.5 Consensus size: 39
47900887 CTTGTACAAG
47900897 ATTGCACTTTGGTGCCTCTGTTTGCACTTCGATGCCTCT
1 ATTGCACTTTGGTGCCTCTGTTTGCACTTCGATGCCTCT
* * *
47900936 GTTGCACTTCGGTGCCTCTGTTTGCACTTCGGTGCCTCT
1 ATTGCACTTTGGTGCCTCTGTTTGCACTTCGATGCCTCT
*
47900975 ATTTCACTTTGGTGCCTCT
1 ATTGCACTTTGGTGCCTCT
47900994 ATTAGTATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.08, C:0.29, G:0.22, T:0.41
Consensus pattern (39 bp):
ATTGCACTTTGGTGCCTCTGTTTGCACTTCGATGCCTCT
Found at i:47900996 original size:19 final size:20
Alignment explanation
Indices: 47900898--47900993 Score: 142
Period size: 20 Copynumber: 4.9 Consensus size: 20
47900888 TTGTACAAGA
*
47900898 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
47900918 TTGCACTTCGATGCCTCTG-
1 TTGCACTTCGGTGCCTCTGT
47900937 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
47900957 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCGGTGCCTCTGT
*
47900977 TT-CACTTTGGTGCCTCT
1 TTGCACTTCGGTGCCTCT
47900994 ATTAGTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
19 32 0.46
20 38 0.54
ACGTcount: A:0.07, C:0.29, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:47903236 original size:19 final size:18
Alignment explanation
Indices: 47903196--47903236 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
47903186 AATATTACAC
*
47903196 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
47903214 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
47903233 ATTT
1 ATTT
47903237 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:47905572 original size:25 final size:26
Alignment explanation
Indices: 47905544--47905620 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 26
47905534 ATAAGCGTAT
*
47905544 CGATATATGGCTCTTC-GGAGCTTTC
1 CGATATATGGCTCTTCAGGAGCTTCC
* * *
47905569 CGATAAAAGGCTCTTTCATGAGCTTCC
1 CGATATATGGCTC-TTCAGGAGCTTCC
*
47905596 CGAT-TAATGGCTC-TCTGGAGCTTCC
1 CGATAT-ATGGCTCTTCAGGAGCTTCC
47905621 TATTGGATCG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
25 21 0.51
26 3 0.07
27 17 0.41
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.32
Consensus pattern (26 bp):
CGATATATGGCTCTTCAGGAGCTTCC
Found at i:47905685 original size:25 final size:25
Alignment explanation
Indices: 47905657--47905704 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
47905647 ATTGGCTCGT
*
47905657 ATGAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCCGGTACATGGCTCAC
*
47905682 ATGAGCTTCCCGGTATATGGCTC
1 ATGAGCTTCCCGGTACATGGCTC
47905705 GAGAGAGAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (25 bp):
ATGAGCTTCCCGGTACATGGCTCAC
Found at i:47905718 original size:27 final size:25
Alignment explanation
Indices: 47905659--47905718 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
47905649 TGGCTCGTAT
* *
47905659 GAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGGTACATGGCTCACAA
* *
47905684 GAGCTTCCCGGTATATGGCTCGAGAGA
1 GAGCTTCCCGGTACATGGCTC-ACA-A
47905711 GAGCTTCC
1 GAGCTTCC
47905719 TGTTTATGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 19 0.66
26 2 0.07
27 8 0.28
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (25 bp):
GAGCTTCCCGGTACATGGCTCACAA
Found at i:47909450 original size:26 final size:26
Alignment explanation
Indices: 47909419--47909488 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
47909409 CATTTCGTCC
*
47909419 CACAGCTCGTGTGTGCAGAAC-CATTT
1 CACAGCTCGTGTGAGCA-AACTCATTT
*
47909445 CACAGCTCGTGTGAGCATACTCATTT
1 CACAGCTCGTGTGAGCAAACTCATTT
**
47909471 CACAAATCGTGTGAGCAA
1 CACAGCTCGTGTGAGCAA
47909489 TGATGTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 2 0.05
26 36 0.95
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAACTCATTT
Found at i:47915826 original size:30 final size:32
Alignment explanation
Indices: 47915760--47915830 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
47915750 TAGGCAACTT
** **
47915760 TTTTTTTGCGCTTTTCTTTTTCTTTTTTTTTA
1 TTTTTTTGCGCTTTTCTTACTCTTTTTTTGCA
*
47915792 TTTTTTTGCGC-TTT-TTACTCTTTTTTTGCG
1 TTTTTTTGCGCTTTTCTTACTCTTTTTTTGCA
47915822 TTTTTTTGC
1 TTTTTTTGC
47915831 TTTTTTGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 20 0.59
31 3 0.09
32 11 0.32
ACGTcount: A:0.03, C:0.14, G:0.10, T:0.73
Consensus pattern (32 bp):
TTTTTTTGCGCTTTTCTTACTCTTTTTTTGCA
Found at i:47915871 original size:9 final size:9
Alignment explanation
Indices: 47915811--47915862 Score: 56
Period size: 8 Copynumber: 5.9 Consensus size: 9
47915801 GCTTTTTACT
47915811 CTTTTTTTG
1 CTTTTTTTG
47915820 CGTTTTTTTG
1 C-TTTTTTTG
47915830 C-TTTTTTG
1 CTTTTTTTG
47915838 -TTTTTTT-
1 CTTTTTTTG
*
47915845 CTGTTTTTG
1 CTTTTTTTG
47915854 CTATTTTTT
1 CT-TTTTTT
47915863 TTTGCTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 19 0.53
9 3 0.08
10 14 0.39
ACGTcount: A:0.02, C:0.10, G:0.12, T:0.77
Consensus pattern (9 bp):
CTTTTTTTG
Found at i:47916506 original size:31 final size:31
Alignment explanation
Indices: 47916413--47916508 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
47916403 GGAAAATTAC
*
47916413 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
47916444 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
47916476 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
47916507 AA
1 AA
47916509 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:47919868 original size:17 final size:18
Alignment explanation
Indices: 47919824--47919868 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
47919814 TATGAAATTT
47919824 TGATATGAAATGTGAGTA
1 TGATATGAAATGTGAGTA
*
47919842 TGAT-TAAAATGATGA-TA
1 TGATATGAAATG-TGAGTA
47919859 T-ATATGAAAT
1 TGATATGAAAT
47919869 ATATGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (18 bp):
TGATATGAAATGTGAGTA
Found at i:47920570 original size:14 final size:14
Alignment explanation
Indices: 47920551--47920578 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47920541 ACAAAGGAAA
47920551 ATCCCGCTTAAGTG
1 ATCCCGCTTAAGTG
47920565 ATCCCGCTTAAGTG
1 ATCCCGCTTAAGTG
47920579 TAAGGACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (14 bp):
ATCCCGCTTAAGTG
Found at i:47925646 original size:12 final size:13
Alignment explanation
Indices: 47925629--47925676 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
47925619 CTACGTTTTA
47925629 AAATAAATAA-AT
1 AAATAAATAATAT
47925641 AAATAAAATAATAT
1 AAAT-AAATAATAT
*
47925655 ATAATATATAATAT
1 A-AATAAATAATAT
*
47925669 ATATAAAT
1 AAATAAAT
47925677 GAAAGTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.13
13 11 0.37
14 12 0.40
15 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATAAATAATAT
Found at i:47926308 original size:23 final size:23
Alignment explanation
Indices: 47926255--47926309 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
47926245 AAATTTGAAG
* * *
47926255 TATTTAGAATTATTTAGTGATAA
1 TATTTAGGATTATTTACTAATAA
47926278 TATTTAGGATTATTTACTAATAA
1 TATTTAGGATTATTTACTAATAA
47926301 TATTTAGGA
1 TATTTAGGA
47926310 AAATTCTAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (23 bp):
TATTTAGGATTATTTACTAATAA
Found at i:47929551 original size:23 final size:23
Alignment explanation
Indices: 47929525--47929574 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
47929515 ACATTTTTAT
47929525 ATTTACATTTTTTTGAACAATAC
1 ATTTACATTTTTTTGAACAATAC
*
47929548 ATTTACATTTTTTTGAACAATAT
1 ATTTACATTTTTTTGAACAATAC
47929571 ATTT
1 ATTT
47929575 TTAAATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTTACATTTTTTTGAACAATAC
Found at i:47930321 original size:19 final size:19
Alignment explanation
Indices: 47930276--47930323 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
47930266 TATGCTTCTT
*
47930276 ATAATATTTAAATTTTTTAA
1 ATAAT-TTTAAATATTTTAA
*
47930296 TTAAATTTTAAATATTTTAA
1 AT-AATTTTAAATATTTTAA
47930316 ATAATTTT
1 ATAATTTT
47930324 CTATATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.25
20 15 0.62
21 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATAATTTTAAATATTTTAA
Found at i:47944010 original size:17 final size:17
Alignment explanation
Indices: 47943988--47944051 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
47943978 AATCAAAGGC
*
47943988 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
47944005 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
47944024 TATAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
47944041 TACAATTAGAA
1 TACAATTAGAA
47944052 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:47944032 original size:19 final size:19
Alignment explanation
Indices: 47944004--47944060 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
47943994 TAAAAGCTGT
47944004 ATACAATTAGAACTCTAAG
1 ATACAATTAGAACTCTAAG
* *
47944023 ATATAATTAGAA-GCT--G
1 ATACAATTAGAACTCTAAG
47944039 TATACAATTAGAACTCTAAG
1 -ATACAATTAGAACTCTAAG
47944059 AT
1 AT
47944061 TAAATAATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (19 bp):
ATACAATTAGAACTCTAAG
Found at i:47944038 original size:36 final size:36
Alignment explanation
Indices: 47943991--47944060 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
47943981 CAAAGGCTAC
47943991 AATTAAAAGCTGTATACAATTAGAACTCTAAGATAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGATAT
*
47944027 AATTAGAAGCTGTATACAATTAGAACTCTAAGAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGAT
47944061 TAAATAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGATAT
Found at i:47946632 original size:14 final size:14
Alignment explanation
Indices: 47946613--47946639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47946603 ACACAAACAA
47946613 AAAAAAAAAAGAAG
1 AAAAAAAAAAGAAG
47946627 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
47946640 AAAGAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAG
Found at i:47946633 original size:17 final size:17
Alignment explanation
Indices: 47946611--47946645 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47946601 ACACACAAAC
*
47946611 AAAAAAAAAA-AAGAAG
1 AAAAAAAAAAGAAAAAG
47946627 AAAAAAAAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
47946644 AA
1 AA
47946646 GAAACTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:47946636 original size:20 final size:20
Alignment explanation
Indices: 47946611--47946649 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
47946601 ACACACAAAC
47946611 AAAAAAAAAAAAGAAGAAAA
1 AAAAAAAAAAAAGAAGAAAA
*
47946631 AAAAAAGAAAAAGAAGAAA
1 AAAAAAAAAAAAGAAGAAA
47946650 CTATATTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAGAAGAAAA
Found at i:47961350 original size:7 final size:6
Alignment explanation
Indices: 47961305--47961338 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
47961295 AAAAGAATAA
47961305 GAAAT- GAAATTG GAAATG GAAATG GAAATG GAAA
1 GAAATG GAAA-TG GAAATG GAAATG GAAATG GAAA
47961339 ATGAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 19 0.70
7 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (6 bp):
GAAATG
Found at i:47970982 original size:40 final size:40
Alignment explanation
Indices: 47970938--47971022 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
47970928 TCTACGTTGA
* * * *
47970938 TGGCAATTTATTTGCAATACTAGCAGCTTGTCTGCATTAT
1 TGGCAATTTATCTGCAATACTAGCAGCTTATCTACATTAC
* * * *
47970978 TGGCAGTTTATCTGCATTATTGGCAGCTTATCTACATTAC
1 TGGCAATTTATCTGCAATACTAGCAGCTTATCTACATTAC
47971018 TGGCA
1 TGGCA
47971023 GCTTGTCTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (40 bp):
TGGCAATTTATCTGCAATACTAGCAGCTTATCTACATTAC
Found at i:47970983 original size:20 final size:20
Alignment explanation
Indices: 47970960--47971026 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
47970950 TGCAATACTA
*
47970960 GCAGCTTGTCTGCATTATTG
1 GCAGCTTATCTGCATTATTG
*
47970980 GCAGTTTATCTGCATTATTG
1 GCAGCTTATCTGCATTATTG
* *
47971000 GCAGCTTATCTACATTACTG
1 GCAGCTTATCTGCATTATTG
47971020 GCAGCTT
1 GCAGCTT
47971027 GTCTTCAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (20 bp):
GCAGCTTATCTGCATTATTG
Found at i:47986003 original size:42 final size:42
Alignment explanation
Indices: 47985956--47986039 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
47985946 CAGTTAGTGA
*
47985956 AATATACAATAATTTACATAAAATTAGAGGTCAATCCAAATT
1 AATATACAATAATTTACATAAAATTAAAGGTCAATCCAAATT
*
47985998 AATATACAATAATTTACATAAAATTAAAGGTTAATCCAAATT
1 AATATACAATAATTTACATAAAATTAAAGGTCAATCCAAATT
47986040 GTCAAGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (42 bp):
AATATACAATAATTTACATAAAATTAAAGGTCAATCCAAATT
Found at i:48010931 original size:40 final size:40
Alignment explanation
Indices: 48010703--48010930 Score: 366
Period size: 40 Copynumber: 5.7 Consensus size: 40
48010693 GCAAACACAT
* * * *
48010703 TTGCCTTCGGGTTTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48010743 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
48010783 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48010823 TTGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48010863 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48010903 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
48010931 TCCAATGCTC
Statistics
Matches: 173, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 173 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:48020257 original size:103 final size:104
Alignment explanation
Indices: 48020027--48020292 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 104
48020017 GTTGTACATA
** *
48020027 AAGGGGTTGCTGTGTGCTGATTCCTCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
* **
48020092 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
48020131 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTAGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
48020196 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
48020234 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTATGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACC
48020293 AATAACGGTT
Statistics
Matches: 145, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
103 81 0.56
104 64 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:48022315 original size:18 final size:17
Alignment explanation
Indices: 48022286--48022349 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
48022276 ATAAAAACAT
48022286 TTTGAAATTGAATAACGA
1 TTTGAAA-TGAATAACGA
* *
48022304 TTTGTAAATGAATAATGT
1 TTTG-AAATGAATAACGA
*
48022322 TTTGAAAACGAATGACACGA
1 TTTG-AAATGAAT-A-ACGA
48022342 TTTGAAAT
1 TTTGAAAT
48022350 TAACATAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 23 0.64
19 7 0.19
20 6 0.17
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.34
Consensus pattern (17 bp):
TTTGAAATGAATAACGA
Found at i:48026204 original size:22 final size:22
Alignment explanation
Indices: 48026179--48026220 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
48026169 ATTAATCCTT
48026179 TCGCAATTTCC-TCTCAAATTGC
1 TCGCAATTTCCTTC-CAAATTGC
48026201 TCGCAATTTCCTTCCAAATT
1 TCGCAATTTCCTTCCAAATT
48026221 TCTCTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.38
Consensus pattern (22 bp):
TCGCAATTTCCTTCCAAATTGC
Found at i:48026252 original size:51 final size:51
Alignment explanation
Indices: 48026190--48026289 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
48026180 CGCAATTTCC
48026190 TCTCAAATTGCTCGCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCGCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * * *
48026241 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCTTATTT
1 TCTCAAATTGCTCGCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
48026290 TTAATTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAAATTGCTCGCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:48028626 original size:16 final size:17
Alignment explanation
Indices: 48028605--48028637 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48028595 AGTCCGCCTG
48028605 AGGATA-CTATCCGCCA
1 AGGATAGCTATCCGCCA
*
48028621 AGGATAGGTATCCGCCA
1 AGGATAGCTATCCGCCA
48028638 TTAATCTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.18
Consensus pattern (17 bp):
AGGATAGCTATCCGCCA
Found at i:48035988 original size:26 final size:25
Alignment explanation
Indices: 48035963--48036044 Score: 72
Period size: 26 Copynumber: 3.4 Consensus size: 25
48035953 TGGTTGTTGA
48035963 AATTG-GAATTGAGTCTATGTGTTTG
1 AATTGTGAATTGAG-CTATGTGTTTG
48035988 AATTGTGAATGTG-G---T-TG-TTG
1 AATTGTGAAT-TGAGCTATGTGTTTG
48036008 AAATTG-GAATTGAGCTTATGTGTTTG
1 -AATTGTGAATTGAGC-TATGTGTTTG
48036034 AATTGTGAATT
1 AATTGTGAATT
48036045 AGATTGGTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 21
0.69 0.00 0.31
Matches are distributed among these distances:
19 2 0.04
20 8 0.17
21 7 0.15
22 1 0.02
24 1 0.02
25 12 0.26
26 13 0.28
27 2 0.04
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (25 bp):
AATTGTGAATTGAGCTATGTGTTTG
Found at i:48036010 original size:46 final size:46
Alignment explanation
Indices: 48035943--48036043 Score: 186
Period size: 46 Copynumber: 2.2 Consensus size: 46
48035933 GAAAAATGTT
48035943 ATTGTGAATGTGGTTGTTGAAATTGGAATTGAG-TCTATGTGTTTGA
1 ATTGTGAATGTGGTTGTTGAAATTGGAATTGAGCT-TATGTGTTTGA
48035989 ATTGTGAATGTGGTTGTTGAAATTGGAATTGAGCTTATGTGTTTGA
1 ATTGTGAATGTGGTTGTTGAAATTGGAATTGAGCTTATGTGTTTGA
48036035 ATTGTGAAT
1 ATTGTGAAT
48036044 TAGATTGGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 53 0.98
47 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.30, T:0.44
Consensus pattern (46 bp):
ATTGTGAATGTGGTTGTTGAAATTGGAATTGAGCTTATGTGTTTGA
Found at i:48036017 original size:20 final size:21
Alignment explanation
Indices: 48035943--48036017 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 21
48035933 GAAAAATGTT
48035943 ATTGTGAATGTGGTTGTTGAA
1 ATTGTGAATGTGGTTGTTGAA
48035964 ATTG-GAAT-TGAGTCTATGTGTTTG-A
1 ATTGTGAATGTG-G----T-TG-TTGAA
48035989 ATTGTGAATGTGGTTGTTGAA
1 ATTGTGAATGTGGTTGTTGAA
48036010 ATTG-GAAT
1 ATTGTGAAT
48036018 TGAGCTTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 21
0.68 0.00 0.32
Matches are distributed among these distances:
19 2 0.05
20 12 0.27
21 11 0.25
22 1 0.02
24 1 0.02
25 7 0.16
26 8 0.18
27 2 0.05
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (21 bp):
ATTGTGAATGTGGTTGTTGAA
Found at i:48037046 original size:20 final size:18
Alignment explanation
Indices: 48036999--48037105 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
48036989 CAAGAAAAAC
48036999 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
48037016 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
**
48037036 ATTAAATTAATAAAATAAT
1 ATTAAATTAAT-ATTTAAT
* *
48037055 ATTAAAATAAGCA-TTAA-
1 ATTAAATTAA-TATTTAAT
* *
48037072 ATCAAATTTAATATTAAAAT
1 ATTAAA-TTAATATT-TAAT
*
48037092 ATTAAAATAATATT
1 ATTAAATTAATATT
48037106 ATTTTTAGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
17 14 0.21
18 8 0.12
19 25 0.37
20 21 0.31
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:48037226 original size:23 final size:23
Alignment explanation
Indices: 48037200--48037246 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
48037190 TTACCGAACA
48037200 TATCAGATAATTTACAATTAAAT
1 TATCAGATAATTTACAATTAAAT
* *
48037223 TATCTGATAATTTACGATTAAAT
1 TATCAGATAATTTACAATTAAAT
48037246 T
1 T
48037247 CACAAATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (23 bp):
TATCAGATAATTTACAATTAAAT
Found at i:48039240 original size:25 final size:25
Alignment explanation
Indices: 48039212--48039262 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
48039202 AAAATCTTAT
48039212 AATATA-ATTAATTAATTAATAAATA
1 AATATATATTAATTAA-TAATAAATA
* *
48039237 AATATATTTTACTTAATAATAAATA
1 AATATATATTAATTAATAATAAATA
48039262 A
1 A
48039263 TAAATATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
AATATATATTAATTAATAATAAATA
Found at i:48039256 original size:29 final size:29
Alignment explanation
Indices: 48039219--48039293 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
48039209 TATAATATAA
*
48039219 TTAATTAATTAATAAATAAATATAT-TTTAC
1 TTAA-TAATAAAT-AATAAATATATATTTAC
*
48039249 TTAATAATAAATAATAAATATCTATTTAC
1 TTAATAATAAATAATAAATATATATTTAC
*
48039278 TTAAATAATAAGTAAT
1 TT-AATAATAAATAAT
48039294 TTAAATCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.25
29 14 0.35
30 16 0.40
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (29 bp):
TTAATAATAAATAATAAATATATATTTAC
Found at i:48042640 original size:26 final size:28
Alignment explanation
Indices: 48042604--48042655 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
48042594 AAATACAAGT
*
48042604 ATCTACAA-GGGG-ATGAACGTCCATGA
1 ATCTACAAGGGGGAATGAACATCCATGA
*
48042630 ATCTTCAAGGGGGAATGAACATCCAT
1 ATCTACAAGGGGGAATGAACATCCAT
48042656 TTACATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 4 0.18
28 11 0.50
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (28 bp):
ATCTACAAGGGGGAATGAACATCCATGA
Found at i:48045057 original size:20 final size:20
Alignment explanation
Indices: 48045030--48045081 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
48045020 TATGAACCAC
48045030 TCCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
*
48045050 TTCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
48045070 TCCATTTACTTA
1 TCCATTTACTTA
48045082 GCAAAAGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (20 bp):
TCCATTTACTTACTTTCCAT
Found at i:48048535 original size:37 final size:38
Alignment explanation
Indices: 48048484--48048558 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
48048474 TTATTTCAAG
48048484 ATAGGTACCTCGAATGTTGAAAGACCCGAGGAGTTTTA
1 ATAGGTACCTCGAATGTTGAAAGACCCGAGGAGTTTTA
48048522 ATAGG-ACCTCGAATGTTGAAAGACCCGAGGAGTTTTA
1 ATAGGTACCTCGAATGTTGAAAGACCCGAGGAGTTTTA
48048559 CTATTCCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 32 0.86
38 5 0.14
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (38 bp):
ATAGGTACCTCGAATGTTGAAAGACCCGAGGAGTTTTA
Found at i:48058628 original size:25 final size:24
Alignment explanation
Indices: 48058598--48058649 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
48058588 ACATACCATA
48058598 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTGATAT-G
* *
48058623 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATGAGCGTCCTGATATG
48058647 GCT
1 GCT
48058650 TGGTTGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTGATATG
Found at i:48064057 original size:25 final size:25
Alignment explanation
Indices: 48064029--48064112 Score: 132
Period size: 25 Copynumber: 3.4 Consensus size: 25
48064019 AGCTATAAAT
48064029 GGTAAGCTCCTCCAAGTTGAATAAC
1 GGTAAGCTCCTCCAAGTTGAATAAC
* * *
48064054 GGTAAGCTCATCCAAGCTGAATAAT
1 GGTAAGCTCCTCCAAGTTGAATAAC
48064079 GGTAAGCTCCTCCAAGTTGAATAAC
1 GGTAAGCTCCTCCAAGTTGAATAAC
*
48064104 AGTAAGCTC
1 GGTAAGCTC
48064113 ATACGAGTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (25 bp):
GGTAAGCTCCTCCAAGTTGAATAAC
Found at i:48064121 original size:25 final size:25
Alignment explanation
Indices: 48064030--48064140 Score: 114
Period size: 25 Copynumber: 4.4 Consensus size: 25
48064020 GCTATAAATG
* * *
48064030 GTAAGCTCCTCCAAGTTGAATAACG
1 GTAAGCTCATACAAGTTGAATAACA
* * **
48064055 GTAAGCTCATCCAAGCTGAATAATG
1 GTAAGCTCATACAAGTTGAATAACA
* *
48064080 GTAAGCTCCTCCAAGTTGAATAACA
1 GTAAGCTCATACAAGTTGAATAACA
* * *
48064105 GTAAGCTCATACGAGTTGAGTACCA
1 GTAAGCTCATACAAGTTGAATAACA
48064130 GTAAGCTCATA
1 GTAAGCTCATA
48064141 AGAGCTGAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 74 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (25 bp):
GTAAGCTCATACAAGTTGAATAACA
Found at i:48064134 original size:50 final size:50
Alignment explanation
Indices: 48064030--48064137 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 50
48064020 GCTATAAATG
* * **
48064030 GTAAGCTCCTCCAAGTTGAATAACGGTAAGCTCATCCAAGCTGAATAATG
1 GTAAGCTCCTCCAAGTTGAATAACAGTAAGCTCATACAAGCTGAATAACA
* * * *
48064080 GTAAGCTCCTCCAAGTTGAATAACAGTAAGCTCATACGAGTTGAGTACCA
1 GTAAGCTCCTCCAAGTTGAATAACAGTAAGCTCATACAAGCTGAATAACA
48064130 GTAAGCTC
1 GTAAGCTC
48064138 ATAAGAGCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (50 bp):
GTAAGCTCCTCCAAGTTGAATAACAGTAAGCTCATACAAGCTGAATAACA
Found at i:48067922 original size:26 final size:26
Alignment explanation
Indices: 48067890--48067955 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
48067880 AAGTGAGCAC
*
48067890 TAATGGGAAGCTCACAAAGAGCC-TT
1 TAATGGGAAGCTCACAAAGAGCCATA
*
48067915 TAATTGGGAAGCTCACGAAGAGCCATA
1 TAA-TGGGAAGCTCACAAAGAGCCATA
*
48067942 TAATGGGACGCTCA
1 TAATGGGAAGCTCA
48067956 TAAGAACTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.08
26 29 0.81
27 4 0.11
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (26 bp):
TAATGGGAAGCTCACAAAGAGCCATA
Found at i:48068429 original size:21 final size:21
Alignment explanation
Indices: 48068403--48068442 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
48068393 TATACGAGTA
48068403 AATTTAACA-TCAATTTAATAC
1 AATTT-ACATTCAATTTAATAC
48068424 AATTTACATTCAATTTAAT
1 AATTTACATTCAATTTAAT
48068443 CCAAGTCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTACATTCAATTTAATAC
Found at i:48068453 original size:21 final size:21
Alignment explanation
Indices: 48068412--48068453 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48068402 AAATTTAACA
* *
48068412 TCAATTTAATACAATTTACAT
1 TCAATTTAATACAAGTCACAT
*
48068433 TCAATTTAATCCAAGTCACAT
1 TCAATTTAATACAAGTCACAT
48068454 CTTAGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (21 bp):
TCAATTTAATACAAGTCACAT
Found at i:48073636 original size:25 final size:26
Alignment explanation
Indices: 48073608--48073657 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
48073598 GAAGATCTTT
48073608 TGAGCCATATAACA-GGAAGCTCATG
1 TGAGCCATATAACAGGGAAGCTCATG
* * *
48073633 TGAGTCATGTAATAGGGAAGCTCAT
1 TGAGCCATATAACAGGGAAGCTCAT
48073658 AAGAGCTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (26 bp):
TGAGCCATATAACAGGGAAGCTCATG
Found at i:48073928 original size:24 final size:25
Alignment explanation
Indices: 48073882--48073929 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
48073872 ATAACGAAAA
* *
48073882 GCTCGTGAGAGCCAAATATCGGGAT
1 GCTCATGAGAGCCAAATAACGGGAT
*
48073907 GCTCATGAGAG-CTAATAACGGGA
1 GCTCATGAGAGCCAAATAACGGGA
48073930 CACTCTTTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (25 bp):
GCTCATGAGAGCCAAATAACGGGAT
Found at i:48075461 original size:12 final size:12
Alignment explanation
Indices: 48075444--48075468 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48075434 CGGAACTTCA
48075444 ACACAACAATTC
1 ACACAACAATTC
48075456 ACACAACAATTC
1 ACACAACAATTC
48075468 A
1 A
48075469 TTCAATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (12 bp):
ACACAACAATTC
Found at i:48081329 original size:20 final size:20
Alignment explanation
Indices: 48081279--48081371 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
48081269 GAGTTACCGG
*
48081279 AGTATAAACA-GGGTACCAA
1 AGTACAAACAGGGGTACCAA
** *
48081298 AGTGTAATCAGGGGTACCAA
1 AGTACAAACAGGGGTACCAA
*
48081318 AGTACAAACAGGGGCA-CATA
1 AGTACAAACAGGGGTACCA-A
* * * * *
48081338 AGTGCAATCAGGTGTATCGA
1 AGTACAAACAGGGGTACCAA
48081358 AGTACAAACAGGGG
1 AGTACAAACAGGGG
48081372 CACGTAAGTG
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
19 10 0.18
20 46 0.81
21 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (20 bp):
AGTACAAACAGGGGTACCAA
Found at i:48081347 original size:40 final size:40
Alignment explanation
Indices: 48081297--48081427 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
48081287 CAGGGTACCA
* *
48081297 AAGTGTAATCAGGGGTACCAAAGTACAAACAGGGGCACAT
1 AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACAT
* * *
48081337 AAGTGCAATCAGGTGTATCGAAGTACAAACAGGGGCACGT
1 AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACAT
* * * *
48081377 AAGTGTAATAAGGGGTACCGAATTACAAATAGGGGCACAT
1 AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACAT
48081417 AAGTGCAATCA
1 AAGTGCAATCA
48081428 TTCAATAATT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (40 bp):
AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACAT
Found at i:48081380 original size:20 final size:20
Alignment explanation
Indices: 48081317--48081380 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
48081307 AGGGGTACCA
*
48081317 AAGTACAAACAGGGGCACAT
1 AAGTACAAACAGGGGCACGT
* * * *
48081337 AAGTGCAATCAGGTGTATCG-
1 AAGTACAAACAGGGGCA-CGT
48081357 AAGTACAAACAGGGGCACGT
1 AAGTACAAACAGGGGCACGT
48081377 AAGT
1 AAGT
48081381 GTAATAAGGG
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.91
21 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (20 bp):
AAGTACAAACAGGGGCACGT
Found at i:48082931 original size:37 final size:38
Alignment explanation
Indices: 48082877--48082949 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
48082867 TTTTCATAAT
* *
48082877 TTCACTTTTTCACTTTCAA-TCACTATTCAATTCAAAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
*
48082914 TTCACTTTGTCATTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAA
48082950 TTCCACACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.44
Consensus pattern (38 bp):
TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:48082980 original size:23 final size:22
Alignment explanation
Indices: 48082937--48082980 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
48082927 TTTCAAGTCA
48082937 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
48082960 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
48082981 TTAATTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:48083212 original size:51 final size:50
Alignment explanation
Indices: 48083154--48083345 Score: 237
Period size: 51 Copynumber: 3.8 Consensus size: 50
48083144 CCGGTTCACA
* * *
48083154 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT-TCTGGTACACG
* * * *
48083205 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTGTCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CT-TCTGGTACACG
* *
48083256 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTTCTGGTACACG
48083306 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTT
48083346 TCACTTTCAT
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.03
50 43 0.36
51 69 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTCTGGTACACG
Found at i:48083333 original size:101 final size:102
Alignment explanation
Indices: 48083152--48083336 Score: 320
Period size: 101 Copynumber: 1.8 Consensus size: 102
48083142 TACCGGTTCA
*
48083152 CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
48083217 CATAGTACTACACACGTGATCGAAGCTGTCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTGTCCGGTACG
* *
48083254 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCTGATACACGTAGTAGCCTGC
48083317 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
48083337 CCATCACTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
101 41 0.52
102 34 0.43
103 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTGTCCGGTACG
Found at i:48083473 original size:10 final size:10
Alignment explanation
Indices: 48083447--48083477 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
48083437 AATTGGGGAA
48083447 TTTCTCACTT
1 TTTCTCACTT
48083457 TTT-TCACTT
1 TTTCTCACTT
48083466 TTTCTCACTT
1 TTTCTCACTT
48083476 TT
1 TT
48083478 CTTTTTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTCTCACTT
Found at i:48085154 original size:43 final size:44
Alignment explanation
Indices: 48085107--48085195 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
48085097 TGCATGAAGA
48085107 AAATCAAAACCAAAGCTTCC-CCCCTTTAATGGTGATTTCAGCC
1 AAATCAAAACCAAAGCTTCCTCCCCTTTAATGGTGATTTCAGCC
48085150 AAATCAAAACCAAAGCTTCCTCCCCTTTAATGGTGATTTCAGCC
1 AAATCAAAACCAAAGCTTCCTCCCCTTTAATGGTGATTTCAGCC
48085194 AA
1 AA
48085196 GGAATAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 20 0.44
44 25 0.56
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (44 bp):
AAATCAAAACCAAAGCTTCCTCCCCTTTAATGGTGATTTCAGCC
Found at i:48085261 original size:16 final size:16
Alignment explanation
Indices: 48085240--48085286 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
48085230 CATCTTTTGT
48085240 TTAATTAACATTTAAC
1 TTAATTAACATTTAAC
* *
48085256 TTAATTATCAAATT-AC
1 TTAATTAAC-ATTTAAC
*
48085272 TTAATTAACCTTTAA
1 TTAATTAACATTTAA
48085287 AAATTATTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
15 2 0.08
16 19 0.79
17 3 0.12
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATTAACATTTAAC
Found at i:48086042 original size:33 final size:33
Alignment explanation
Indices: 48085980--48086042 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
48085970 ACCGAGACAA
*
48085980 TAAACATGAAACAGAGTAAGTTCGTTGGGATGG
1 TAAACATGAAACAGAGTAAGTTCGCTGGGATGG
* *
48086013 TAAACATGGAACAGAG-ATAGTTTGCTGGGA
1 TAAACATGAAACAGAGTA-AGTTCGCTGGGA
48086043 CTATAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.37, C:0.10, G:0.30, T:0.24
Consensus pattern (33 bp):
TAAACATGAAACAGAGTAAGTTCGCTGGGATGG
Found at i:48086050 original size:33 final size:33
Alignment explanation
Indices: 48085979--48086052 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
48085969 TACCGAGACA
*
48085979 ATAAACATGAAACAGAGTAAGTTCGTTGGGATG
1 ATAAACATGAAACAGAGTAAGTTCGCTGGGATG
* * *
48086012 GTAAACATGGAACAGAG-ATAGTTTGCTGGGACT-
1 ATAAACATGAAACAGAGTA-AGTTCGCTGGGA-TG
48086045 ATAAACAT
1 ATAAACAT
48086053 AGACCAAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 1 0.03
33 32 0.94
34 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (33 bp):
ATAAACATGAAACAGAGTAAGTTCGCTGGGATG
Found at i:48089088 original size:38 final size:37
Alignment explanation
Indices: 48089018--48089090 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
48089008 CTTTCATAAT
*
48089018 TTCACTTTTTCACTTTCAATCAGAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCAGAATTCAATTCAAAA
48089055 TTCACTTTTCCA-TTTCTAAGTC-GATATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TCAGA-ATTCAATTCAA
48089091 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 15 0.47
38 13 0.41
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCAGAATTCAATTCAAAA
Found at i:48089121 original size:23 final size:22
Alignment explanation
Indices: 48089078--48089121 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
48089068 TTCTAAGTCG
48089078 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
48089101 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
48089122 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:48089232 original size:45 final size:45
Alignment explanation
Indices: 48089168--48089254 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
48089158 CAGATACTCG
* * * *
48089168 GTGGATTCAGCATATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACATTACTAATCAATGATGTCCA
48089213 GTGGAATCAGCACATAGCAACCACATTACTAATCAATGATGT
1 GTGGAATCAGCACATAGCAACCACATTACTAATCAATGATGT
48089255 TTGATTCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACATTACTAATCAATGATGTCCA
Found at i:48089291 original size:26 final size:26
Alignment explanation
Indices: 48089261--48089341 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
48089251 ATGTTTGATT
48089261 CACATAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
* *
48089287 CACAT-GT-GACCAT-TACCATCCG-A-TA
1 CACATAGTAG-CC-TGCA-CAT-AGTACTA
*
48089312 CACGTAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
48089338 CACA
1 CACA
48089342 CGTGATCGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (26 bp):
CACATAGTAGCCTGCACATAGTACTA
Found at i:48089323 original size:51 final size:50
Alignment explanation
Indices: 48089265--48089451 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 50
48089255 TTGATTCACA
*
48089265 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * * *
48089316 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGA-TACACG
* * * *
48089367 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATACACG
*
48089417 TAGTAGCCTGCACATAGTACTACGCACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
48089452 CACTTTCACT
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 70 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:48089445 original size:101 final size:101
Alignment explanation
Indices: 48089263--48089447 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
48089253 GTTTGATTCA
*
48089263 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
48089328 CATAGTACTACACACGTGATCGAAACTATCCAGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCAGTACG
* *
48089365 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
*
48089429 CATAGTACTACGCACGTGA
65 CATAGTACTACACACGTGA
48089448 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.51
102 34 0.44
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCAGTACG
Found at i:48095635 original size:16 final size:16
Alignment explanation
Indices: 48095610--48095643 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48095600 AAAATAATAT
* *
48095610 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
48095626 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
48095642 AT
1 AT
48095644 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:48115337 original size:15 final size:15
Alignment explanation
Indices: 48115314--48115345 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48115304 GTGGTAAGAA
48115314 TTTAATACTTAATTT
1 TTTAATACTTAATTT
*
48115329 TTTAGTACTTAATTT
1 TTTAATACTTAATTT
48115344 TT
1 TT
48115346 AATTGATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTAATACTTAATTT
Found at i:48117039 original size:22 final size:22
Alignment explanation
Indices: 48117005--48117047 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48116995 ACACCAAAAC
* * *
48117005 AGGTTTTTTGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
48117027 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
48117048 AACGCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.14, G:0.28, T:0.51
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:48117208 original size:42 final size:41
Alignment explanation
Indices: 48117148--48117261 Score: 167
Period size: 41 Copynumber: 2.8 Consensus size: 41
48117138 AAAAAACGCT
*
48117148 GCTAAAGACCATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-TAAGCGCC
*
48117190 GCTAAAGAACAT-TATCTTTAGCAGCGTTTTTTTTAAGCGCC
1 GCTAAAGAACATGT-TCTTTAGCGGCGTTTTTTTTAAGCGCC
* *
48117231 GCTAAAGAACATGTTTTTTAGCGGCGCTTTT
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTT
48117262 GTACAAAAAC
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
41 35 0.54
42 30 0.46
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (41 bp):
GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAGCGCC
Found at i:48117611 original size:21 final size:21
Alignment explanation
Indices: 48117582--48117636 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
48117572 CTCTGCTCTA
* *
48117582 CTTCTCTCGCTGCAGCCTCCG
1 CTTCCCTCGCTGCAGCCGCCG
* *
48117603 CTTCCCTCGCTGCAGTCGCTG
1 CTTCCCTCGCTGCAGCCGCCG
48117624 CTTCCCTCGCTGC
1 CTTCCCTCGCTGC
48117637 CGCATTTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.47, G:0.20, T:0.29
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCGCCG
Found at i:48117734 original size:15 final size:15
Alignment explanation
Indices: 48117714--48117747 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
48117704 ATCTGAGCCA
48117714 TCTGGTCTTTTAACC
1 TCTGGTCTTTTAACC
48117729 TCTGGTCTTTTAACC
1 TCTGGTCTTTTAACC
48117744 TCTG
1 TCTG
48117748 AACTTCAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.26, G:0.15, T:0.47
Consensus pattern (15 bp):
TCTGGTCTTTTAACC
Found at i:48123309 original size:25 final size:24
Alignment explanation
Indices: 48123255--48123529 Score: 97
Period size: 27 Copynumber: 10.4 Consensus size: 24
48123245 TCATTATGTG
* *
48123255 AGTTGTGTATAATGTAAGTTAAGA
1 AGTTATGTATAATGTAAGTTATGA
*
48123279 AGGTTATGTATAATGTAAGTTATGCC
1 A-GTTATGTATAATGTAAGTTATG-A
* *
48123305 AGTTATTTAATTTATGTAAGTTATGTA
1 AGTTATGT-A-TAATGTAAGTTATG-A
* ** *
48123332 AGTTATTTAATTTTTGTAAGTTACGTA
1 AGTTATGT-A-TAATGTAAGTTATG-A
* *
48123359 AGTTACT-TAATTTATGTAAGTCATGTA
1 AGTTA-TGT-A-TAATGTAAGTTATG-A
* *
48123386 AGTTATTTAATTTATGTAAGTTATGTA
1 AGTTATGT-A-TAATGTAAGTTATG-A
* *
48123413 AGTTATGTAAGTTACT-TAATTTATGTA
1 AGTTATGT-A--TAATGTAAGTTATG-A
*
48123440 AGTTATGTAAGTTATGTAAGTTATGTA
1 AGTTATGT-A-TAATGTAAGTTATG-A
*
48123467 AGTTACT-TAATTTATGTAAGTTATGTA
1 AGTTA-TGT-A-TAATGTAAGTTATG-A
* *
48123494 AGTTATGTAAGTTATTTAAGTTATGTA
1 AGTTATGT-A-TAATGTAAGTTATG-A
48123521 AGTTATGTA
1 AGTTATGTA
48123530 AGTTACTTAA
Statistics
Matches: 217, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.00
25 26 0.12
26 7 0.03
27 178 0.82
28 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.47
Consensus pattern (24 bp):
AGTTATGTATAATGTAAGTTATGA
Found at i:48123325 original size:27 final size:27
Alignment explanation
Indices: 48123291--48123737 Score: 515
Period size: 27 Copynumber: 16.6 Consensus size: 27
48123281 GTTATGTATA
**
48123291 ATGTAAGTTATGCCAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
48123318 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
48123345 TTGTAAGTTACGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
48123372 ATGTAAGTCATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* *
48123399 ATGTAAGTTATGTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
48123426 ACT-TAATTTATGTAAGTTATGTAAGTT
1 A-TGTAAGTTATGTAAGTTATTTAATTT
*
48123453 ATGTAAGTTATGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* *
48123480 ATGTAAGTTATGTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
48123507 ATTTAAGTTATGTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* *
48123534 ACT-TAATTTATGTAAGATATTTAATTT
1 A-TGTAAGTTATGTAAGTTATTTAATTT
48123561 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
48123588 ACT-TAATTTATGTAAGTTATGTAAGTT
1 A-TGTAAGTTATGTAAGTTATTTAATTT
* * * *
48123615 ACT-TAATTTTTGTAAGTTATGTAATTA
1 A-TGTAAGTTATGTAAGTTATTTAATTT
* * * *
48123642 ATGTAAGTTATTTAATTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
48123669 ATGTAAGTTATTTAATTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
48123696 ATGTAAGTTATGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
48123723 TTGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
48123738 TTAATGTAAG
Statistics
Matches: 369, Mismatches: 45, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
26 3 0.01
27 363 0.98
28 3 0.01
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (27 bp):
ATGTAAGTTATGTAAGTTATTTAATTT
Found at i:48123360 original size:36 final size:36
Alignment explanation
Indices: 48123317--48123758 Score: 405
Period size: 36 Copynumber: 12.5 Consensus size: 36
48123307 TTATTTAATT
* * * *
48123317 TATGTAAGTTATGTAAGTTATT-TAATTTTTGTAAGT
1 TATGTAAGTTATTTAA-TTTTTGTAAGTTATGTAAGT
* * * *
48123353 TACGTAAGTTACTTAATTTATGTAAGTCATGTAAGT
1 TATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
* * * * *
48123389 TATTTAATTTATGTAAGTTATGTAAGTTATGTAAGT
1 TATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
* * * *
48123425 TACT-TAATTTATGTAAGTTATGTAAGTTATGTAAGT
1 TA-TGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
* *
48123461 TATGTAAGTTACTTAATTTATGTAAGTTATGTAAGT
1 TATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
* *
48123497 TATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGT
1 TATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
* * * * *
48123533 TACT-TAATTTATGTAAGATATT-TAATTTATGTAAGT
1 TA-TGTAAGTTATTTAA-TTTTTGTAAGTTATGTAAGT
* *
48123569 TATGTAAGTTATTTAATTTACT-TAATTTATGTAAGT
1 TATGTAAGTTATTTAATTT-TTGTAAGTTATGTAAGT
*
48123605 TATGTAAGTTACTTAATTTTTGTAAGTTATGTAA-T
1 TATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
48123640 TAATGTAAGTTATTTAA------T---TTATGTAAGT
1 T-ATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
* *
48123668 TATGTAAGTTATTTAATTTACT-TAATTTATGTAAGT
1 TATGTAAGTTATTTAATTT-TTGTAAGTTATGTAAGT
*
48123704 TATGTAAGTTACTTAATTTTTGTAAGTTATGTAA-T
1 TATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
48123739 TAATGTAAGTTATTTAATTT
1 T-ATGTAAGTTATTTAATTT
48123759 GTGATACCTA
Statistics
Matches: 345, Mismatches: 40, Indels: 42
0.81 0.09 0.10
Matches are distributed among these distances:
27 23 0.07
28 2 0.01
30 1 0.00
33 1 0.00
35 12 0.03
36 302 0.88
37 4 0.01
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (36 bp):
TATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGT
Found at i:48123385 original size:63 final size:63
Alignment explanation
Indices: 48123307--48123737 Score: 539
Period size: 63 Copynumber: 6.8 Consensus size: 63
48123297 GTTATGCCAG
* * * *
48123307 TTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTTTGTAAGTTACGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* * * * *
48123370 TTATGTAAGTCATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* * * *
48123433 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTA-TGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTA-TGTAAGTTATGTAAGTTACT-TAAT
* * * * * *
48123496 TTATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGTTACT-TAATTTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTA-TGTAAGTTATGTAAGTTACTTAAT
* * *
48123559 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* *
48123622 TTTTGTAAGTTATGTAA-TTAATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTT-ATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* * *
48123685 TTACT-TAATTTATGTAAGTTATGTAAGTTACTTAATTTTTGTAAGTTATGTAA
1 TTA-TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAA
48123738 TTAATGTAAG
Statistics
Matches: 326, Mismatches: 35, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
62 4 0.01
63 317 0.97
64 5 0.02
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (63 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
Found at i:48126599 original size:20 final size:20
Alignment explanation
Indices: 48126570--48126609 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48126560 CGTTTTTATC
48126570 AAAAACGCCACAAAATATTT
1 AAAAACGCCACAAAATATTT
*
48126590 AAAAATGCCACAAAATATTT
1 AAAAACGCCACAAAATATTT
48126610 CTTTCCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAACGCCACAAAATATTT
Found at i:48127075 original size:84 final size:85
Alignment explanation
Indices: 48126908--48127068 Score: 236
Period size: 84 Copynumber: 1.9 Consensus size: 85
48126898 CACATTGCCA
* * * *
48126908 AACATTAATTCACTCTTGCGGCGTTTTCTTTAAAAAACGCCACTATAAGATTTCATTCGAGTAGA
1 AACATTAATTCACTCTTGCGGCGTTTTCTATAAAAAACGCCACTAAAAGATTTCATTCAAGTAAA
48126973 GAAACGGCGCCGTATTGGCC
66 GAAACGGCGCCGTATTGGCC
* *
48126993 AACATTAATTCACAT-TTGCGGCGTTTTC-ATACAAAACGCCACTAAAAGATTTTATTCAAGTAA
1 AACATTAATTCAC-TCTTGCGGCGTTTTCTATAAAAAACGCCACTAAAAGATTTCATTCAAGTAA
*
48127056 AGAAATGGCGCCG
65 AGAAACGGCGCCG
48127069 CTTTGGCAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 41 0.60
85 26 0.38
86 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (85 bp):
AACATTAATTCACTCTTGCGGCGTTTTCTATAAAAAACGCCACTAAAAGATTTCATTCAAGTAAA
GAAACGGCGCCGTATTGGCC
Found at i:48127352 original size:82 final size:82
Alignment explanation
Indices: 48127253--48127499 Score: 291
Period size: 90 Copynumber: 2.9 Consensus size: 82
48127243 ATATAAAGAA
* * *
48127253 TTTATTTAATATATAAATTAA-AAAGTACTAATTAATCTAAATCTTAAACCCTAACCCGACTCCA
1 TTTATTTAATATATAAATTAACAAA-CACTAATTAATCTAAACCCTAAACCCTAACCCGACTCCA
*
48127317 AATCTCTAACCCCTAAAT
65 AATCTCTAACCCCTAAAC
* ** *
48127335 TTTATTTAATATGTAAATTAACAAACACTAATTAATCTAAACCCTAAACCCTAAACCTAACCCCA
1 TTTATTTAATATATAAATTAACAAACACTAATTAATCTAAACCCTAAACCCT-AACCCGACTCCA
48127400 AATCCCTAACCCCTAACCCCTAAAC
65 AAT--CT-----CTAACCCCTAAAC
* *
48127425 TTTATTTAATATATAAATTAACAAACATTAATTAATCTAAACCCTAAACCATAACCCGA-TCCTA
1 TTTATTTAATATATAAATTAACAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACTCC-A
*
48127489 AATCCCTAACC
65 AATCTCTAACC
48127500 TTTAACCCTT
Statistics
Matches: 140, Mismatches: 15, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
82 50 0.36
83 15 0.11
85 2 0.01
87 1 0.01
88 2 0.01
89 9 0.06
90 61 0.44
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (82 bp):
TTTATTTAATATATAAATTAACAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACTCCAA
ATCTCTAACCCCTAAAC
Found at i:48127383 original size:7 final size:7
Alignment explanation
Indices: 48127371--48127424 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
48127361 ACTAATTAAT
48127371 CTAAACC
1 CTAAACC
48127378 CTAAACC
1 CTAAACC
48127385 CTAAA-C
1 CTAAACC
48127391 CT-AACC
1 CTAAACC
*
48127397 CCAAATCC
1 CTAAA-CC
*
48127405 CTAACCC
1 CTAAACC
*
48127412 CTAACCC
1 CTAAACC
48127419 CTAAAC
1 CTAAAC
48127425 TTTATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 2 0.05
6 5 0.12
7 28 0.70
8 5 0.12
ACGTcount: A:0.39, C:0.46, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:48127597 original size:102 final size:103
Alignment explanation
Indices: 48127390--48127621 Score: 276
Period size: 102 Copynumber: 2.3 Consensus size: 103
48127380 AAACCCTAAA
** * * * *
48127390 CCTAACCCCAAATCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAATTAACAAACATTA
1 CCTAACCTTAAATCCCTAACTCTTAACCCCTAAACCTTATTTAATATATAAATTAACAAACACTA
* *
48127455 ATTAATCTAAACCCTAAACCATAACCCGATCCTAAATC
66 ATTAATCTAAACCCTAAACCATAACACGATCATAAATC
* *
48127493 CCTAACCTTTAA-CCCTTAACTCTTAACCCCTAAACCTTATTTAATATAT-AATTAA-AATATAC
1 CCTAACCTTAAATCCC-TAACTCTTAACCCCTAAACCTTATTTAATATATAAATTAACAA-ACAC
* *
48127555 TAATTAATCTAAACCCTAAACTC-TAACATGA-CATCGAATC
64 TAATTAATCTAAACCCTAAAC-CATAACACGATCAT-AAATC
*
48127595 CCTGACCTTAAATCCCTAACTCTTAAC
1 CCTAACCTTAAATCCCTAACTCTTAAC
48127622 ATCTAACCCC
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
101 4 0.04
102 63 0.57
103 43 0.39
ACGTcount: A:0.40, C:0.29, G:0.02, T:0.29
Consensus pattern (103 bp):
CCTAACCTTAAATCCCTAACTCTTAACCCCTAAACCTTATTTAATATATAAATTAACAAACACTA
ATTAATCTAAACCCTAAACCATAACACGATCATAAATC
Found at i:48128396 original size:115 final size:115
Alignment explanation
Indices: 48128248--48128976 Score: 893
Period size: 115 Copynumber: 6.4 Consensus size: 115
48128238 TAAATTATTT
* *
48128248 TAAATCCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
**
48128313 CGGCG-CTGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTAACAAAACGCCGC
66 CGGCGTC-GTTGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
*
48128363 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAACCGCCACTAAATCCCCAAAAAGCTAATAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
*
48128428 CGGCGTCATTGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
66 CGGCGTCGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
* * * * * *
48128478 TAAAGCCCTCAGCATTAGCGGCGCTTTACCAAAAACGCCACTAAAT-ACCTAAAGGCTAAGAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
* * * *
48128542 CGACGTCGTTGGGCTTAGGTCCGTTTGCGGCGCTTATCCCAAAACGCTGC
66 CGGCGTCGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
*
48128592 TAAAGCCCTAAGCATTAGCGGCGCTTCACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
* *
48128657 CGACGTCGTCGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
66 CGGCGTCGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
** * *
48128707 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAAGACCC-AAAGGCTAAGAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
* ** * * **
48128771 CGGCGTCTTTGGGCTTAGGTTTTCTTTGTGGCGCTTTACTAAAAACGCCGC
66 CGGCGTCGTTGGGCTTAGG-TCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
* * * * * * * * * * *
48128822 AAAAGCCCGGAA-CATCAGCGGCGC-TTACTTACAAACGCCGCAAAAGCCCC--GAATCTCATTA
1 TAAAGCCC-TAAGCATTAGCGGCGCTTTAC-TAAAAACGCCACTAAATCCCCAAAAAGCTAATAA
* * * *
48128883 AACGGCGTCGTTGGGATTAGGT--TTTTGTGGCG-TTTTCGCGAAAACGCCGC
64 AACGGCGTCGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTC-CCAAAACGCCGC
* * * * *
48128933 TAAAGCCCTGATCATTAGCGGCGCTTTATTAAAATCGCCGCTAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAA
48128977 TGCTTATTTT
Statistics
Matches: 536, Mismatches: 70, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
110 5 0.01
111 49 0.09
112 3 0.01
113 1 0.00
114 158 0.29
115 317 0.59
116 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (115 bp):
TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
CGGCGTCGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
Found at i:48128673 original size:229 final size:226
Alignment explanation
Indices: 48128248--48128976 Score: 907
Period size: 229 Copynumber: 3.2 Consensus size: 226
48128238 TAAATTATTT
* * * *
48128248 TAAATCCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAAT-ACCAAAAGGCTAAGAAAA
*
48128313 CGGCG-CTGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTAACAAAACGCCGCTAAAGCCCTAAGCA
65 CGGCGTC-GTTGGGCTTAGGT-CCTTTGCGGCGC-TTTCACAAAACGCCGCTAAAGCCCTAAGCA
* *
48128377 TTAGCGGCGCTTTACTAAAACCGCCACTAAATCCCCAAAAAGCTAATAAAACGGCGTCATTGGGC
127 TTAGCGGCGC-TTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAACGGCGTCGTTGGGC
48128442 TTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
191 TTAGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
* * *
48128478 TAAAGCCCTCAGCATTAGCGGCGCTTTACCAAAAACGCCACTAAATACCTAAAGGCTAAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATACCAAAAGGCTAAGAAAAC
* * *
48128543 GACGTCGTTGGGCTTAGGTCCGTTTGCGGCGCTTATCCCAAAACGCTGCTAAAGCCCTAAGCATT
66 GGCGTCGTTGGGCTTAGGTCC-TTTGCGGCGCTT-TCACAAAACGCCGCTAAAGCCCTAAGCATT
* *
48128608 AGCGGCGCTTCACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAACGACGTCGTCGGGCTT
129 AGCGGCGCTT-ACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAACGGCGTCGTTGGGCTT
48128673 AGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
193 AGGTCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
* * *
48128707 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAAGACCCAAAGGCTAAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATACCAAAAGGCTAAGAAAAC
* * * * *
48128772 GGCGTCTTTGGGCTTAGGTTTTCTTTGTGGCGCTTT-ACTAAAAACGCCGCAAAAGCCCGGAA-C
66 GGCGTCGTTGGGCTTAGG--TCCTTTGCGGCGCTTTCAC--AAAACGCCGCTAAAGCCC-TAAGC
* * * * * * * * *
48128835 ATCAGCGGCGCTTACTTACAAACGCCGCAAAAGCCCC--GAATCTCATTAAACGGCGTCGTTGGG
126 ATTAGCGGCGCTTAC-TAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAACGGCGTCGTTGGG
* * * *
48128898 ATTAGGT--TTTTGTGGCG-TTTTCGCGAAAACGCCGC
190 CTTAGGTCCCTTTGCGGCGCTTTTC-CCAAAACGCCGC
* * * *
48128933 TAAAGCCCTGATCATTAGCGGCGCTTTATTAAAATCGCCGCTAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCACTAA
48128977 TGCTTATTTT
Statistics
Matches: 441, Mismatches: 47, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
225 5 0.01
226 58 0.13
228 33 0.07
229 240 0.54
230 101 0.23
231 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (226 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATACCAAAAGGCTAAGAAAAC
GGCGTCGTTGGGCTTAGGTCCTTTGCGGCGCTTTCACAAAACGCCGCTAAAGCCCTAAGCATTAG
CGGCGCTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAACGGCGTCGTTGGGCTTAGG
TCCCTTTGCGGCGCTTTTCCCAAAACGCCGC
Found at i:48137963 original size:22 final size:22
Alignment explanation
Indices: 48137932--48137973 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48137922 TACACCAAAA
*
48137932 TAGGCTTTTAGCGACGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
*
48137954 TAGGCCTTTAGCGGCGCTTT
1 TAGGCCTTTAGCGACGCTTT
48137974 GAGAAGCGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.40
Consensus pattern (22 bp):
TAGGCCTTTAGCGACGCTTTTT
Found at i:48138084 original size:43 final size:43
Alignment explanation
Indices: 48138036--48138222 Score: 241
Period size: 43 Copynumber: 4.3 Consensus size: 43
48138026 GTTTTTAGAA
* * *
48138036 ACAAACGCCGCTAAATACCAAGACCATTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
** * *
48138079 ACAAACGCTACTAAAGACCAAGACCTTTAGCGGCGATTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
* *
48138122 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTTCTC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
* *
48138165 ACAAACGCCGCTAAAGACCCAA-ACCTCTAGCGACGCTTTTCCT
1 ACAAACGCCGCTAAAGA-CCAAGACCTTTAGCGACGCTTTTCCC
* *
48138208 AGAAACGCTGCTAAA
1 ACAAACGCCGCTAAA
48138223 AATATATCTT
Statistics
Matches: 126, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
43 123 0.98
44 3 0.02
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.19
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
Found at i:48138537 original size:43 final size:43
Alignment explanation
Indices: 48138489--48138579 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
48138479 ACATATGCAA
* * * * *
48138489 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGACACAATACATTTACTTAATCAAGGAAATCTT
*
48138532 GGTAATAAAAGACATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGACACAATACATTTACTTAATCAAGGAAATCTT
48138575 -GTAAT
1 GGTAAT
48138580 GAACTCAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAAGACACAATACATTTACTTAATCAAGGAAATCTT
Found at i:48142778 original size:20 final size:20
Alignment explanation
Indices: 48142753--48142815 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
48142743 AAAATAAAAG
*
48142753 TTTAAAATCTTTTTAAAATT
1 TTTAAAATCATTTTAAAATT
** *
48142773 TTTAAAAAAAATTTAAAATAT
1 TTTAAAATCATTTTAAAAT-T
48142794 TTTAAAATTCATTTTAAAATT
1 TTTAAAA-TCATTTTAAAATT
48142815 T
1 T
48142816 CAAATCACGA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 15 0.44
21 10 0.29
22 9 0.26
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTAAAATCATTTTAAAATT
Found at i:48142807 original size:21 final size:21
Alignment explanation
Indices: 48142763--48142815 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
48142753 TTTAAAATCT
48142763 TTTTAAAATTTTTAAAAAAAA
1 TTTTAAAATTTTTAAAAAAAA
***
48142784 -TTTAAAATATTTTAAAATTCA
1 TTTTAAAAT-TTTTAAAAAAAA
48142805 TTTTAAAATTT
1 TTTTAAAATTT
48142816 CAAATCACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 8 0.30
21 11 0.41
22 8 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAATTTTTAAAAAAAA
Found at i:48142809 original size:12 final size:11
Alignment explanation
Indices: 48142753--48142814 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
48142743 AAAATAAAAG
48142753 TTTAAAATCT-T
1 TTTAAAAT-TAT
48142764 TTTAAAA-T-T
1 TTTAAAATTAT
** *
48142773 TTTAAAAAAAA
1 TTTAAAATTAT
48142784 TTTAAAA-TAT
1 TTTAAAATTAT
48142794 TTTAAAATTCAT
1 TTTAAAATT-AT
48142806 TTTAAAATT
1 TTTAAAATT
48142815 TCAAATCACG
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 9 0.21
10 8 0.19
11 15 0.35
12 11 0.26
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTAAAATTAT
Found at i:48143066 original size:29 final size:29
Alignment explanation
Indices: 48143029--48143085 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
48143019 AATTGGGCAT
* *
48143029 TGGTAACACCTAATCCTTAAACCTTAAAA
1 TGGTAACACCTAAACCTTAAACCCTAAAA
*
48143058 TGGTGACACCTAAACCTTAAACCCTAAA
1 TGGTAACACCTAAACCTTAAACCCTAAA
48143086 CCATGCATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.25
Consensus pattern (29 bp):
TGGTAACACCTAAACCTTAAACCCTAAAA
Found at i:48144416 original size:39 final size:40
Alignment explanation
Indices: 48144356--48144590 Score: 215
Period size: 41 Copynumber: 5.8 Consensus size: 40
48144346 AGATTTTATT
* * *
48144356 ATTAGCGGCGCATTTT-CAAAAACACCGCTAAAG-TCAAGC
1 ATTAGCGGCGC-TTTTGAAAAAACGCCGCTAAAGACCAAGC
** ** * *
48144395 ATTAATGGCGCTTTTTCAAAAACGCCGATAAAAGCCCAAGC
1 ATTAGCGGCGCTTTTGAAAAAACGCCGCT-AAAGACCAAGC
* *
48144436 ATTAGCGGCACTTTTGAAAAAACGCCGCTAAAGGACCGAGC
1 ATTAGCGGCGCTTTTGAAAAAACGCCGCTAAA-GACCAAGC
* * *
48144477 ATTAGTGGCGCTTTTGAAAAAATGCCGCTAAAGGACCGAGC
1 ATTAGCGGCGCTTTTGAAAAAACGCCGCTAAA-GACCAAGC
** *
48144518 ATTAGCGGCGCTTTTGAAAAAACATCGCTAAAGCCCCGAA-C
1 ATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAG-ACC-AAGC
* * *
48144559 ATTAGCTGCGCTTTTGAAAAAGCACCGCTAAA
1 ATTAGCGGCGCTTTTGAAAAAACGCCGCTAAA
48144591 TGCCCCAAAA
Statistics
Matches: 165, Mismatches: 25, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
38 4 0.02
39 20 0.12
40 8 0.05
41 132 0.80
42 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAGACCAAGC
Found at i:48144519 original size:82 final size:82
Alignment explanation
Indices: 48144356--48144579 Score: 242
Period size: 82 Copynumber: 2.8 Consensus size: 82
48144346 AGATTTTATT
* * * **
48144356 ATTAGCGGCGCATTTT-CAAAAACACCGCTAAAGTCA---AGCATTAATGGCGCTTTTTCAAAAA
1 ATTAGCGGCAC-TTTTGAAAAAACACCGCTAAAG-CACCGAGCATTAGTGGCGCTTTTGAAAAAA
*
48144417 CGCCGATAAAAGCCCAAGC
64 CGCCGATAAAAGACCAAGC
* * *
48144436 ATTAGCGGCACTTTTGAAAAAACGCCGCTAAAGGACCGAGCATTAGTGGCGCTTTTGAAAAAATG
1 ATTAGCGGCACTTTTGAAAAAACACCGCTAAAGCACCGAGCATTAGTGGCGCTTTTGAAAAAACG
* * *
48144501 CCGCTAAAGGACCGAGC
66 CCGATAAAAGACCAAGC
* * * *
48144518 ATTAGCGGCGCTTTTGAAAAAACATCGCTAAAGCCCCGAACATTAGCT-GCGCTTTTGAAAAA
1 ATTAGCGGCACTTTTGAAAAAACACCGCTAAAGCACCGAGCATTAG-TGGCGCTTTTGAAAAA
48144580 GCACCGCTAA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
79 5 0.04
80 25 0.21
82 90 0.74
83 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (82 bp):
ATTAGCGGCACTTTTGAAAAAACACCGCTAAAGCACCGAGCATTAGTGGCGCTTTTGAAAAAACG
CCGATAAAAGACCAAGC
Found at i:48144701 original size:39 final size:40
Alignment explanation
Indices: 48144642--48144781 Score: 153
Period size: 40 Copynumber: 3.5 Consensus size: 40
48144632 TTTGCAACGC
* *
48144642 TTTTTGGAAAA-CGCCGCTAATGCTT-ATTTTTAGCGGCG
1 TTTTTGCAAAAGCGCCGCTAATGCTTAATTTTTAGTGGCG
* *
48144680 TTTTT-CAATATGCGCCGCTAATGCTTAATCTTTAGTGGCG
1 TTTTTGCAA-AAGCGCCGCTAATGCTTAATTTTTAGTGGCG
* * *
48144720 TTTTTGTAAAAGCGCCGCTAATGCTTGATTTTTAGTAGCG
1 TTTTTGCAAAAGCGCCGCTAATGCTTAATTTTTAGTGGCG
*
48144760 TTTTTTGTCCAAA-CGCCGCTAA
1 -TTTTTG-CAAAAGCGCCGCTAA
48144782 AAATGTTGCT
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
37 2 0.02
38 6 0.07
39 14 0.16
40 43 0.51
41 17 0.20
42 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (40 bp):
TTTTTGCAAAAGCGCCGCTAATGCTTAATTTTTAGTGGCG
Found at i:48154970 original size:20 final size:21
Alignment explanation
Indices: 48154936--48154975 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
48154926 CAGCTTGTTG
48154936 AGCTCAATAGAGCTCATTTCT
1 AGCTCAATAGAGCTCATTTCT
48154957 AGCTCAAT-GAGCTCATTTC
1 AGCTCAATAGAGCTCATTTC
48154976 CATCTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (21 bp):
AGCTCAATAGAGCTCATTTCT
Found at i:48157582 original size:20 final size:21
Alignment explanation
Indices: 48157549--48157590 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
48157539 CAGCTTGTTG
48157549 AGCTCAATTGAGCTCATTTCC
1 AGCTCAATTGAGCTCATTTCC
*
48157570 AGCTCAA-TGAGCTCGTTTCC
1 AGCTCAATTGAGCTCATTTCC
48157590 A
1 A
48157591 TCTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (21 bp):
AGCTCAATTGAGCTCATTTCC
Found at i:48161073 original size:20 final size:20
Alignment explanation
Indices: 48161048--48161091 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
48161038 ATAACGATTC
48161048 AAAAGAAAAAAAATTGAGAG
1 AAAAGAAAAAAAATTGAGAG
* *
48161068 AAAAGAACAAAAATTGTGAG
1 AAAAGAAAAAAAATTGAGAG
48161088 AAAA
1 AAAA
48161092 ACAAGAGTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.11
Consensus pattern (20 bp):
AAAAGAAAAAAAATTGAGAG
Found at i:48161119 original size:21 final size:23
Alignment explanation
Indices: 48161086--48161130 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
48161076 AAAAATTGTG
*
48161086 AGAAAAACAAGAGTG-GAGAAAA
1 AGAAAAACAAGAGTGAAAGAAAA
*
48161108 AGAAAAA-GAGAGTGAAAGAAAA
1 AGAAAAACAAGAGTGAAAGAAAA
48161130 A
1 A
48161131 TGAATGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.27, T:0.04
Consensus pattern (23 bp):
AGAAAAACAAGAGTGAAAGAAAA
Done.