Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 113 of 185
Found at i:35292022 original size:15 final size:15
Alignment explanation
Indices: 35291998--35292029 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35291988 TGTGCATGCA
*
35291998 AAATATAAAAGACAT
1 AAATACAAAAGACAT
35292013 AAATACAAAAGACAT
1 AAATACAAAAGACAT
35292028 AA
1 AA
35292030 TAGTGAAATG
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:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:35293337 original size:206 final size:206
Alignment explanation
Indices: 35292976--35293380 Score: 648
Period size: 206 Copynumber: 2.0 Consensus size: 206
35292966 GATAGTTGGT
* * * *
35292976 ATGTAAGTGTATACAAAAACTGTAGTGGTATCCACTCGAGGTAGAAGAAAGTGGTCTAAAAAGGA
1 ATGTAACTGTATACAAAAACTGTAGTGGTATCCACCCGAGGTAGAAGAAAGTGGTCGAAAAAGAA
*
35293041 TAATTGGGGCACAGATGTTCATTAATCATAATCAATATTAGCCAAGGTATATTTTGGATTAAAGC
66 TAATTGGGGCACAGATGTTCATTAATCATAATCAATATCAGCCAAGGTATATTTTGGATTAAAGC
*
35293106 TCATTAAGTTCTCCTGAACTTACAAAAAAATTATATTTATGTTTCAAGTAAAGTGGGATGTATTG
131 TCATTAAGTTCTCCTGAACTTACAAAAAAATTATATTTATGTTTCAAGTAAAGTGAGATGTATTG
35293171 CGTCGGGTGGC
196 CGTCGGGTGGC
* ** *
35293182 ATGTAACTGTATACCAAAACTGTAGTGGTATCTGCCCGAGGTAGAAGAAAGTGGTCGAAAAATAA
1 ATGTAACTGTATACAAAAACTGTAGTGGTATCCACCCGAGGTAGAAGAAAGTGGTCGAAAAAGAA
* * *
35293247 TAGTTGGTGCACAGATGTTCATTAATCATAATCAATATCCGCCAAGGTATATTTTGGATTAAAGC
66 TAATTGGGGCACAGATGTTCATTAATCATAATCAATATCAGCCAAGGTATATTTTGGATTAAAGC
* ** * *
35293312 TCATTAAGTTCTCTTGAACTTACAAAAATGTTATATTTATGTTTCAGGTAAGGTGAGATGTATTG
131 TCATTAAGTTCTCCTGAACTTACAAAAAAATTATATTTATGTTTCAAGTAAAGTGAGATGTATTG
35293377 CGTC
196 CGTC
35293381 AGGAGGGAGG
Statistics
Matches: 181, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
206 181 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (206 bp):
ATGTAACTGTATACAAAAACTGTAGTGGTATCCACCCGAGGTAGAAGAAAGTGGTCGAAAAAGAA
TAATTGGGGCACAGATGTTCATTAATCATAATCAATATCAGCCAAGGTATATTTTGGATTAAAGC
TCATTAAGTTCTCCTGAACTTACAAAAAAATTATATTTATGTTTCAAGTAAAGTGAGATGTATTG
CGTCGGGTGGC
Found at i:35303176 original size:17 final size:20
Alignment explanation
Indices: 35303146--35303182 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
35303136 GAATTTTTGC
35303146 TTCAGCCCCAAATTT-GCTT
1 TTCAGCCCCAAATTTAGCTT
35303165 TTCA-CCCC-AATTTAGCTT
1 TTCAGCCCCAAATTTAGCTT
35303183 GTATTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.22, C:0.32, G:0.08, T:0.38
Consensus pattern (20 bp):
TTCAGCCCCAAATTTAGCTT
Found at i:35310120 original size:30 final size:30
Alignment explanation
Indices: 35310079--35310191 Score: 124
Period size: 30 Copynumber: 3.8 Consensus size: 30
35310069 GTGCAACAGA
*
35310079 CAGA-TCAGTTACAGATGCAGATATAGGTT
1 CAGATTCAGTTACAGATGCAGATATAGATT
** *
35310108 CAGATTTGGTTACTGATGCAGATACTA-ATAT
1 CAGATTCAGTTACAGATGCAGATA-TAGAT-T
* *
35310139 -AGATTCAGTTACAGATGCAAATATAGATA
1 CAGATTCAGTTACAGATGCAGATATAGATT
*
35310168 CAAATTCAGTTACAGATGCAGATA
1 CAGATTCAGTTACAGATGCAGATA
35310192 AATGTACAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
29 6 0.09
30 59 0.87
31 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (30 bp):
CAGATTCAGTTACAGATGCAGATATAGATT
Found at i:35310200 original size:30 final size:29
Alignment explanation
Indices: 35310083--35310206 Score: 106
Period size: 30 Copynumber: 4.1 Consensus size: 29
35310073 AACAGACAGA
* * *
35310083 TCAGTTACAGATGCAGATATAGGTTCAGAT
1 TCAGTTACAGATGCAGATA-AAGTACAAAT
** * * *
35310113 TTGGTTACTGATGCAGATACTAA-TATAGAT
1 TCAGTTACAGATGCAGATA--AAGTACAAAT
* *
35310143 TCAGTTACAGATGCAAATATAGATACAAAT
1 TCAGTTACAGATGCAGATAAAG-TACAAAT
35310173 TCAGTTACAGATGCAGATAAATGTACAAAT
1 TCAGTTACAGATGCAGATAAA-GTACAAAT
35310203 TCAG
1 TCAG
35310207 ATCTTACCCT
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
28 1 0.01
30 71 0.95
31 3 0.04
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (29 bp):
TCAGTTACAGATGCAGATAAAGTACAAAT
Found at i:35310205 original size:60 final size:59
Alignment explanation
Indices: 35310083--35310206 Score: 133
Period size: 60 Copynumber: 2.1 Consensus size: 59
35310073 AACAGACAGA
* * * * ** * * *
35310083 TCAGTTACAGATGCAGATATAGGTTCAGATTTGGTTACTGATGCAGATACTAATATAGAT
1 TCAGTTACAGATGCAAATATAGATACAAATTCAGTTACAGATGCAGATAC-AATACAAAT
35310143 TCAGTTACAGATGCAAATATAGATACAAATTCAGTTACAGATGCAGATA-AATGTACAAAT
1 TCAGTTACAGATGCAAATATAGATACAAATTCAGTTACAGATGCAGATACAA--TACAAAT
35310203 TCAG
1 TCAG
35310207 ATCTTACCCT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 2 0.04
60 51 0.96
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (59 bp):
TCAGTTACAGATGCAAATATAGATACAAATTCAGTTACAGATGCAGATACAATACAAAT
Found at i:35310351 original size:23 final size:22
Alignment explanation
Indices: 35310319--35310364 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
35310309 CACTTTTTAG
35310319 AATAGCGCAGTCAAGCTGCCAGA
1 AATAGCGCAGT-AAGCTGCCAGA
* *
35310342 AATAGTGCAGTAATCTGCCAGA
1 AATAGCGCAGTAAGCTGCCAGA
35310364 A
1 A
35310365 TAAGATAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (22 bp):
AATAGCGCAGTAAGCTGCCAGA
Found at i:35312348 original size:15 final size:15
Alignment explanation
Indices: 35312328--35312356 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35312318 TAATAGGGAA
35312328 ATGAATGAGAGAATG
1 ATGAATGAGAGAATG
35312343 ATGAATGAGAGAAT
1 ATGAATGAGAGAAT
35312357 AAACAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (15 bp):
ATGAATGAGAGAATG
Found at i:35326839 original size:19 final size:19
Alignment explanation
Indices: 35326823--35326896 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
35326813 GAACGCATAC
35326823 TGGCACAT-AAGGTGCATCT
1 TGGCACATGAA-GTGCATCT
35326842 TGGCACATGAAGTGCATCT
1 TGGCACATGAAGTGCATCT
* * *
35326861 TGGCGCATGAAGAGCGTCT
1 TGGCACATGAAGTGCATCT
* *
35326880 TAGCACATAAAGTGCAT
1 TGGCACATGAAGTGCAT
35326897 AAAATCGTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 44 0.96
20 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (19 bp):
TGGCACATGAAGTGCATCT
Found at i:35328421 original size:9 final size:9
Alignment explanation
Indices: 35328407--35328473 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
35328397 AATTTTTATT
35328407 TTATAAAAA
1 TTATAAAAA
*
35328416 TTATAATAA
1 TTATAAAAA
*
35328425 -TAT--TAA
1 TTATAAAAA
35328431 TTATAAAAA
1 TTATAAAAA
35328440 TTATAATAAA
1 TTATAA-AAA
* *
35328450 TGAAAAATAA
1 TTATAAA-AA
35328460 TTATAAAAA
1 TTATAAAAA
35328469 TTATA
1 TTATA
35328474 TAGAGAATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
6 3 0.06
7 3 0.06
8 3 0.06
9 24 0.51
10 14 0.30
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
TTATAAAAA
Found at i:35328502 original size:10 final size:10
Alignment explanation
Indices: 35328489--35328541 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
35328479 AATTGTAGAG
35328489 AAAATATTAA
1 AAAATATTAA
* *
35328499 AAAATGTT-G
1 AAAATATTAA
*
35328508 AAAATAGTAA
1 AAAATATTAA
**
35328518 AAAATAAGAA
1 AAAATATTAA
35328528 AAAATATTAA
1 AAAATATTAA
35328538 AAAA
1 AAAA
35328542 ACATATAAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 6 0.18
10 27 0.82
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAATATTAA
Found at i:35328570 original size:19 final size:19
Alignment explanation
Indices: 35328548--35328584 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35328538 AAAAACATAT
35328548 AAATTGCAAAAATTATAAC
1 AAATTGCAAAAATTATAAC
*
35328567 AAATTGTAAAAATTATAA
1 AAATTGCAAAAATTATAA
35328585 AGAGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATTGCAAAAATTATAAC
Found at i:35328613 original size:21 final size:21
Alignment explanation
Indices: 35328573--35328614 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35328563 TAACAAATTG
* * *
35328573 TAAAAATTATAAAGAGTTATT
1 TAAAAACTATAAAAAATTATT
35328594 TAAAAACTATAAAAAATTATT
1 TAAAAACTATAAAAAATTATT
35328615 AAACATATTA
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:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
TAAAAACTATAAAAAATTATT
Found at i:35329034 original size:19 final size:19
Alignment explanation
Indices: 35329007--35329120 Score: 68
Period size: 19 Copynumber: 5.9 Consensus size: 19
35328997 TTTTTTAAAA
* *
35329007 ATAATTTTTGTAATTTTTT
1 ATAACTTTTATAATTTTTT
*
35329026 ATAACTTTTATAATGTTTT
1 ATAACTTTTATAATTTTTT
** * *
35329045 -GCACTTTTACATTTTTTT
1 ATAACTTTTATAATTTTTT
* * *
35329063 ATAAATTTCACAATTTTTTT
1 ATAACTTTTATAA-TTTTTT
* * *
35329083 ATAGCTTTTGTAATTTTTAA
1 ATAACTTTTATAATTTTT-T
* *
35329103 ATAATTTTTATGATTTTT
1 ATAACTTTTATAATTTTT
35329121 CATATGTTAT
Statistics
Matches: 69, Mismatches: 23, Indels: 5
0.71 0.24 0.05
Matches are distributed among these distances:
18 13 0.19
19 28 0.41
20 28 0.41
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (19 bp):
ATAACTTTTATAATTTTTT
Found at i:35337604 original size:11 final size:11
Alignment explanation
Indices: 35337588--35337645 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
35337578 AGGTAAATAT
35337588 TATTTTATTAA
1 TATTTTATTAA
*
35337599 TATTTTGATTTGA
1 TATTTT-A-TTAA
*
35337612 TA-TTTATTTA
1 TATTTTATTAA
35337622 TATTTTATTAA
1 TATTTTATTAA
35337633 T-TTTTACTTAA
1 TATTTTA-TTAA
35337644 TA
1 TA
35337646 CATAAGGAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 10 0.26
11 20 0.51
12 4 0.10
13 5 0.13
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:35338366 original size:22 final size:22
Alignment explanation
Indices: 35338327--35338382 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
35338317 AAATTTTAGC
* *
35338327 GCGCTTACCGTCTT-GCACTTTA
1 GCGCTTACTGT-TTCGCACTTCA
*
35338349 GCGCTTATTGTTTCGCACTTCA
1 GCGCTTACTGTTTCGCACTTCA
*
35338371 GTGCTTACTGTT
1 GCGCTTACTGTT
35338383 CTACACTTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.41
Consensus pattern (22 bp):
GCGCTTACTGTTTCGCACTTCA
Found at i:35341290 original size:25 final size:25
Alignment explanation
Indices: 35341201--35341295 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 25
35341191 TGTTCCGACC
* *
35341201 CACAGCTCGTTTGAGCATACCGATT
1 CACAACTCGTATGAGCATACCGATT
* * *
35341226 TATAGCTCGTGA-GAGCATACCGA-T
1 CACAACTCGT-ATGAGCATACCGATT
* *
35341250 CTACAAGTC-AAGTGAGCATACCGATT
1 C-ACAACTCGTA-TGAGCATACCGATT
35341276 CACAACTCGTATGAGCATAC
1 CACAACTCGTATGAGCATAC
35341296 ATGCACATGA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 49 0.91
26 3 0.06
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (25 bp):
CACAACTCGTATGAGCATACCGATT
Found at i:35347696 original size:96 final size:96
Alignment explanation
Indices: 35347505--35347689 Score: 298
Period size: 96 Copynumber: 1.9 Consensus size: 96
35347495 CTTACTTTTT
*
35347505 TCTCTAGTTGGATATTTCATTGGAAATTGGAAACCATTATGATCTTTTGAACTACACCAATAACA
1 TCTCTAGTTGGATATTTAATTGGAAATTGGAAACCATTATGATCTTTTGAACTACACCAATAACA
* *
35347570 TTGCATAAAAGGTGATATCTCAATCATATTC
66 TTGCACAAAAGGTGATAGCTCAATCATATTC
* * * *
35347601 TCTCTATTTGGATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTAGACCAATAACA
1 TCTCTAGTTGGATATTTAATTGGAAATTGGAAACCATTATGATCTTTTGAACTACACCAATAACA
*
35347666 TTTCACAAAAGGTGATAGCTCAAT
66 TTGCACAAAAGGTGATAGCTCAAT
35347690 TGTATTCCTC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 81 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAATTGGAAATTGGAAACCATTATGATCTTTTGAACTACACCAATAACA
TTGCACAAAAGGTGATAGCTCAATCATATTC
Found at i:35361079 original size:42 final size:43
Alignment explanation
Indices: 35360991--35361148 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 43
35360981 GCATACGTCA
* * * ** *
35360991 CAGACGAGGTCTTACATGTAATCCAATATCGATGCCACTGTCC
1 CAGACAAGGTCTTACACGAAATCTTATATCGATGCCAATGTCC
*
35361034 CAGACAAGGTCTTACACGAAATCTTATA-CGATGTCAATGTCC
1 CAGACAAGGTCTTACACGAAATCTTATATCGATGCCAATGTCC
* * * * **
35361076 CAGACATGGTCTTACACATAAATCTCAAATCGATGCCAACATCC
1 CAGACAAGGTCTTACAC-GAAATCTTATATCGATGCCAATGTCC
** * *
35361120 CAGACGTGGTCTTACACGATATCATATAT
1 CAGACAAGGTCTTACACGAAATCTTATAT
35361149 TAGATTTCCT
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 28 0.30
43 38 0.41
44 27 0.29
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
CAGACAAGGTCTTACACGAAATCTTATATCGATGCCAATGTCC
Found at i:35362237 original size:13 final size:13
Alignment explanation
Indices: 35362219--35362245 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35362209 CACAAACGAT
35362219 AAAATTTTCACAC
1 AAAATTTTCACAC
35362232 AAAATTTTCACAC
1 AAAATTTTCACAC
35362245 A
1 A
35362246 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:35363362 original size:21 final size:21
Alignment explanation
Indices: 35363334--35363376 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
35363324 TAATGATATA
*
35363334 TATAAATTATATATTT-TTAT
1 TATAAATTACATATTTATTAT
35363354 TATACAATTACATATTTATTAT
1 TATA-AATTACATATTTATTAT
35363376 T
1 T
35363377 TTATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
TATAAATTACATATTTATTAT
Found at i:35366839 original size:42 final size:41
Alignment explanation
Indices: 35366779--35366918 Score: 149
Period size: 41 Copynumber: 3.3 Consensus size: 41
35366769 AGATATGAAA
*
35366779 TAAAA-AAAAGAAGTGAAATTAATAAGTTGTTATTTTAAATTT
1 TAAAAGAAAA-AAATGAAATTAATAAGTT-TTATTTTAAATTT
* * *
35366821 TATAAGAAACAAATGAAATTAATAAGTTTTTTATTTAAA-TT
1 TAAAAGAAAAAAATGAAATTAATAAGTTTTAT-TTTAAATTT
* * * *
35366862 TACAAGAAAAAAAAGAAATTAATTAGTTTGTAATTTAAATTT
1 TAAAAGAAAAAAATGAAATTAATAAGTTT-TATTTTAAATTT
35366904 TGAAAAGAAAAAAAT
1 T-AAAAGAAAAAAAT
35366919 ATTTTTGGAC
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
41 36 0.44
42 31 0.38
43 14 0.17
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.36
Consensus pattern (41 bp):
TAAAAGAAAAAAATGAAATTAATAAGTTTTATTTTAAATTT
Found at i:35366881 original size:41 final size:42
Alignment explanation
Indices: 35366793--35366917 Score: 155
Period size: 41 Copynumber: 3.0 Consensus size: 42
35366783 AAAAAGAAGT
* * *
35366793 GAAATTAATAAG-TTGTTATTTTAAATTTTATAAGAAACAAAT
1 GAAATTAATAAGTTTGTTA-TTTAAATTTTAAAAGAAAAAAAA
* *
35366835 GAAATTAATAAGTTTTTTATTTAAA-TTTACAAGAAAAAAAA
1 GAAATTAATAAGTTTGTTATTTAAATTTTAAAAGAAAAAAAA
* *
35366876 GAAATTAATTAGTTTGTAATTTAAATTTTGAAAAGAAAAAAA
1 GAAATTAATAAGTTTGTTATTTAAATTTT-AAAAGAAAAAAA
35366918 TATTTTTGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 35 0.49
42 21 0.29
43 16 0.22
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (42 bp):
GAAATTAATAAGTTTGTTATTTAAATTTTAAAAGAAAAAAAA
Found at i:35370576 original size:18 final size:19
Alignment explanation
Indices: 35370542--35370578 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
35370532 GTAAACTAAG
35370542 TTAAATAAAACTAACCAAA
1 TTAAATAAAACTAACCAAA
*
35370561 TTAAGTAAAA-TAACCAAA
1 TTAAATAAAACTAACCAAA
35370579 CCAAATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.62, C:0.14, G:0.03, T:0.22
Consensus pattern (19 bp):
TTAAATAAAACTAACCAAA
Found at i:35373626 original size:43 final size:43
Alignment explanation
Indices: 35373556--35373713 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
35373546 AGCTTGTACA
* * *
35373556 ATGCCTACGTCCCAGACGAGGTTTTACATGTAAA-CCAATAGCG
1 ATGCCAACGTCCCAGACGAGGTCTTACACGTAAATCCAATA-CG
**
35373599 ATGCC-ACTGTCCCAGAC-AGGGTCTTACACG-AAATCTTATACG
1 ATGCCAAC-GTCCCAGACGA-GGTCTTACACGTAAATCCAATACG
* * *
35373641 ATGCCGATGTCCTAGAC-ATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGA-GGTCTTACACGTAAATC-CAATA-CG
* *
35373685 ATGCCAACGTCTCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGAGGTCTTACAC
35373714 AATATCATAT
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
42 33 0.35
43 34 0.37
44 26 0.28
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACGTAAATCCAATACG
Found at i:35373658 original size:42 final size:43
Alignment explanation
Indices: 35373597--35373713 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 43
35373587 AAACCAATAG
35373597 CGATGCCACTGTCCCAGACAGGGTCTTACACG-AAATCTTATA
1 CGATGCCACTGTCCCAGACAGGGTCTTACACGTAAATCTTATA
* * * *
35373639 CGATGCCGA-TGTCCTAGACATGGTCTTACACGTAAATCTCAAA
1 CGATGCC-ACTGTCCCAGACAGGGTCTTACACGTAAATCTTATA
*
35373682 TCGATGCCAAC-GTCTCAGAC-GTGGTCTTACAC
1 -CGATGCC-ACTGTCCCAGACAG-GGTCTTACAC
35373714 AATATCATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
42 28 0.45
43 9 0.15
44 25 0.40
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
CGATGCCACTGTCCCAGACAGGGTCTTACACGTAAATCTTATA
Found at i:35374811 original size:13 final size:13
Alignment explanation
Indices: 35374793--35374819 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35374783 CACAAACGAT
35374793 AAAATTTTCACAC
1 AAAATTTTCACAC
35374806 AAAATTTTCACAC
1 AAAATTTTCACAC
35374819 A
1 A
35374820 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:35386659 original size:27 final size:27
Alignment explanation
Indices: 35386602--35386660 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
35386592 ATGTATCGGT
* * * * *
35386602 AGACTACCCTGTGTTTACTGTCTCGAT
1 AGACTACCCTATGTTTACTATCCCAAC
*
35386629 AGACTACCCTATTTTTACTATCCCAAC
1 AGACTACCCTATGTTTACTATCCCAAC
35386656 AGACT
1 AGACT
35386661 CTATATGCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (27 bp):
AGACTACCCTATGTTTACTATCCCAAC
Found at i:35391496 original size:26 final size:26
Alignment explanation
Indices: 35391461--35391536 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
35391451 AATTATCCCT
35391461 ATTTTA-CCCTAGTAAAACTTTGACG
1 ATTTTACCCCTAGTAAAACTTTGACG
*
35391486 ATTTTACCCCTAGTAAAACTTTAACG
1 ATTTTACCCCTAGTAAAACTTTGACG
* *
35391512 ATTTTACCCCTAGCAAAATTTTGAC
1 ATTTTACCCCTAGTAAAACTTTGAC
35391537 AAGTTTGCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 6 0.13
26 40 0.87
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAACTTTGACG
Found at i:35396098 original size:29 final size:28
Alignment explanation
Indices: 35396048--35396121 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
35396038 TAGAGATAGT
* *
35396048 CACAAAGGC-TTCCATGTTTAGAGATTTGT
1 CACAAAGGCATTCC-T-TCTAGAGATTTGC
* *
35396077 CACAGAGGCATTTCCTTCTAGAGGTTTGC
1 CACAAAGGCA-TTCCTTCTAGAGATTTGC
35396106 CACAAAGGCATTCCTT
1 CACAAAGGCATTCCTT
35396122 AACATTCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 6 0.16
29 27 0.71
30 1 0.03
31 4 0.11
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (28 bp):
CACAAAGGCATTCCTTCTAGAGATTTGC
Found at i:35396385 original size:53 final size:54
Alignment explanation
Indices: 35396294--35396403 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 54
35396284 TTCCTTAAAT
*
35396294 TTTCTCATATGATGTCATAACCCACCAATTACGATCTTACACAATATGGTATTC
1 TTTCTCATATGATGCCATAACCCACCAATTACGATCTTACACAATATGGTATTC
* * * *
35396348 TTTC-CATATGATGCCATAACCCA-CAAGTTATGGTCTTACACGATATGGTCTTC
1 TTTCTCATATGATGCCATAACCCACCAA-TTACGATCTTACACAATATGGTATTC
35396401 TTT
1 TTT
35396404 AGTGTCATGG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 3 0.06
53 43 0.86
54 4 0.08
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (54 bp):
TTTCTCATATGATGCCATAACCCACCAATTACGATCTTACACAATATGGTATTC
Found at i:35400552 original size:164 final size:159
Alignment explanation
Indices: 35400265--35400596 Score: 553
Period size: 164 Copynumber: 2.1 Consensus size: 159
35400255 AATAATTTAA
35400265 TTTT-TTTTATGTTCTTTAAACTATCCTTTTTTTTTTCTTTTTTTTTCATTCTCTTCTCATTCTC
1 TTTTCTTTTATGTTCTTTAAACTATCC-TTTTTTTTTCTTTTTTTTTCATTCTCTTCTCATTCTC
* *
35400329 CCTCCTCCTATCTTCATTTCTTTTAACGTAGTTTTTCTAAGTTTTCCATTTGTTAAAACTAGTCC
65 CCTCCTCCCATCTTCATTTCTTTTAACGTAGTTTTTATAAGTTTTCCATTTGTTAAAACTAGTCC
35400394 CTATAC-TTTTTTTTGAACAATTTAATTTT
130 CTATACTTTTTTTTTGAACAATTTAATTTT
35400423 TTTTCTTTTATGTTCTTTAAACTATCC-TTTTTTTTCTTTTTTTTTCATTCTCTTCTCATTCTCC
1 TTTTCTTTTATGTTCTTTAAACTATCCTTTTTTTTTCTTTTTTTTTCATTCTCTTCTCATTCT-C
35400487 CTCAGTTTTCCTCCCATCTTCATTTCTTTTAACGTAGTTTTTATAAGTTTTCCATTTGTTAAAAC
65 C-C-----TCCTCCCATCTTCATTTCTTTTAACGTAGTTTTTATAAGTTTTCCATTTGTTAAAAC
35400552 TAGTCCCTATACTTTTTTTTTGAACAATTTAATTTT
124 TAGTCCCTATACTTTTTTTTTGAACAATTTAATTTT
35400588 TTTTCTTTT
1 TTTTCTTTT
35400597 GTATTTCTTT
Statistics
Matches: 163, Mismatches: 2, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
157 35 0.21
158 6 0.04
159 23 0.14
164 67 0.41
165 32 0.20
ACGTcount: A:0.17, C:0.20, G:0.05, T:0.58
Consensus pattern (159 bp):
TTTTCTTTTATGTTCTTTAAACTATCCTTTTTTTTTCTTTTTTTTTCATTCTCTTCTCATTCTCC
CTCCTCCCATCTTCATTTCTTTTAACGTAGTTTTTATAAGTTTTCCATTTGTTAAAACTAGTCCC
TATACTTTTTTTTTGAACAATTTAATTTT
Found at i:35401316 original size:15 final size:15
Alignment explanation
Indices: 35401296--35401346 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
35401286 ACAACTCGTT
35401296 AATGTAAGTGACTAA
1 AATGTAAGTGACTAA
* *
35401311 AATGTAA-T-ATTTTA
1 AATGTAAGTGA-CTAA
*
35401325 AATATAAGTGACTAA
1 AATGTAAGTGACTAA
35401340 AATGTAA
1 AATGTAA
35401347 CCTTAAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 1 0.04
14 9 0.33
15 16 0.59
16 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (15 bp):
AATGTAAGTGACTAA
Found at i:35407783 original size:26 final size:26
Alignment explanation
Indices: 35407747--35407797 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
35407737 TTGAATAAAA
35407747 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* *
35407773 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTCGCTAAGTGCAGATTCCCC
35407798 AAATTATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.24
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:35407880 original size:43 final size:41
Alignment explanation
Indices: 35407773--35408002 Score: 201
Period size: 43 Copynumber: 5.5 Consensus size: 41
35407763 AGATTCCCCG
** * * *
35407773 AGGGGTTGCTAAGTGCTGATTCCCCAAATTATTGACTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTAA
* * ** * *
35407814 AGGTGGTTGTTAAGTTCAAATTCCACCATATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTGT-AA
* * * * *
35407858 AGGGGTTGCTACGTGCTGATTCCCCGTATCACTGAATATAT
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTAA
* *
35407899 AGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTGT-AA
* *
35407943 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATT-TAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTG-ATTGTAA
*
35407984 AGTGGTTGCTAAGTGCTGA
1 AGGGGTTGCTAAGTGCTGA
35408003 ATCCACCGAG
Statistics
Matches: 149, Mismatches: 33, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
41 26 0.17
42 55 0.37
43 59 0.40
44 9 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTAA
Found at i:35407908 original size:42 final size:41
Alignment explanation
Indices: 35407857--35408002 Score: 163
Period size: 42 Copynumber: 3.5 Consensus size: 41
35407847 TTGATTGTGA
*
35407857 AAGG-GGTTGCTACGTGCTGATTCCCCGTATCACTGAATAT
1 AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATAT
* * *
35407897 ATAGGTGGTTGCTAAGTGTTGATTCCACCGTATC-CTTGATTGT
1 A-AGGTGGTTGCTAAGTGCTGATTCC-CCGTATCAC-TGAATAT
* *
35407940 GAAAGG-GGTTGCTATGTGCTGATTCCCCGTATCACTGAATTT
1 --AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATAT
*
35407982 AAAGTGGTTGCTAAGTGCTGA
1 AAGGTGGTTGCTAAGTGCTGA
35408003 ATCCACCGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
40 4 0.05
41 18 0.20
42 31 0.35
43 31 0.35
44 3 0.03
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATAT
Found at i:35407922 original size:85 final size:84
Alignment explanation
Indices: 35407773--35408009 Score: 287
Period size: 85 Copynumber: 2.8 Consensus size: 84
35407763 AGATTCCCCG
** * * * * * **
35407773 AGGGGTTGCTAAGTGCTGATTCCCCAAATTATTGACTCTAAAGGTGGTTGTTAAGT-TCAAATTC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATAT-AAGGTGGTTGCTAAGTGT-TGATTC
*
35407837 CACCATATCTTTGATTGTGAA
64 CACCATATCCTTGATTGTGAA
*
35407858 AGGGGTTGCTACGTGCTGATTCCCCGTATCACTGAATATATAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATA-AGGTGGTTGCTAAGTGTTGATTCC
*
35407923 ACCGTATCCTTGATTGTGAA
65 ACCATATCCTTGATTGTGAA
* * * * *
35407943 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAAGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAGGTGGTTGCTAAGTGTTGATTCCA
35408008 CC
66 CC
35408010 GAGTAACAGA
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
84 25 0.19
85 107 0.80
86 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (84 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAGGTGGTTGCTAAGTGTTGATTCCA
CCATATCCTTGATTGTGAA
Found at i:35410311 original size:153 final size:154
Alignment explanation
Indices: 35409877--35410697 Score: 1119
Period size: 153 Copynumber: 5.4 Consensus size: 154
35409867 TTAGTGTGTT
* *
35409877 TTTTTATTGAAAGTAATAAAATCCGGTAAAAAAAATACGAACAACAAAGGGCTGAAATAAGGGTT
1 TTTTTATTAAAAGTAATAAAATCCGG-AAAAAAAATACG---AACAAAGGGCCGAAATAAGGG-T
* *
35409942 TTTTTTTAATTTAAATAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAA
61 TTTTTTAAATTT-AATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAA
35410007 TGTAAAATAATAAAATACGAAAATAATATA
125 TGTAAAATAATAAAATACGAAAATAATATA
* * **
35410037 TTTTTATTAAAAGTAATAAAATCC-G--AAAAAATACGAATAAATGGTTGAAATAA-GGTTTTTT
1 TTTTTATTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
*
35410098 TAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
66 TAAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
35410163 ATAATAAAATTA-GAAAATAATATA
131 ATAATAAAA-TACGAAAATAATATA
*
35410187 -TTTT-TTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATAATGGTTTTTT
1 TTTTTATTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
* * * *
35410250 TAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAA
66 T-AAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
35410315 ACTAATAAAATACGAAAATAATATA
130 AATAATAAAATACGAAAATAATATA
** * * * *
35410340 TTTTTATTGGAAGTAATAAAATCCGG-AAAAAAATACTAACAAATGGTCGAAATAAAGGTTTTTT
1 TTTTTATTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
* * * * * *
35410404 TTAATTTATTTAAAAAACACAGTAAATTAATATATTTCAAAAATAATGTACTAAAATAATGTAAA
66 TAAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
35410469 ATAATAAAATACGAAAATAATATA
131 ATAATAAAATACGAAAATAATATA
* * *
35410493 TTTTTATTGAAAGTAATAAAAT-CTGAAAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTT
1 TTTTTATTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
* *
35410557 TAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATTTAAA
66 TAAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
35410622 ATAATAAAATTA-GAAAATAGTATA
131 ATAATAAAA-TACGAAAATAATATA
** * * * *
35410646 -TTTT-TTAAAAGTAATAAAAT-TTGAGAAAAAATACGAATAAAGAGCCAAAATA
1 TTTTTATTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATA
35410698 CAAACAATTG
Statistics
Matches: 601, Mismatches: 49, Indels: 31
0.88 0.07 0.05
Matches are distributed among these distances:
148 18 0.03
149 5 0.01
150 77 0.13
151 81 0.13
152 19 0.03
153 308 0.51
154 41 0.07
155 18 0.03
156 10 0.02
159 1 0.00
160 23 0.04
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (154 bp):
TTTTTATTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
TAAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
ATAATAAAATACGAAAATAATATA
Found at i:35423285 original size:17 final size:17
Alignment explanation
Indices: 35423263--35423296 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
35423253 ATGATGGAGG
35423263 TTTAGACTT-GGAAGAAA
1 TTTAGA-TTAGGAAGAAA
35423280 TTTAGATTAGGAAGAAA
1 TTTAGATTAGGAAGAAA
35423297 ATCCAGGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (17 bp):
TTTAGATTAGGAAGAAA
Found at i:35428203 original size:61 final size:61
Alignment explanation
Indices: 35428137--35428323 Score: 186
Period size: 61 Copynumber: 3.1 Consensus size: 61
35428127 TATAGTATCG
35428137 TATATTATGATTTTAGTAAATTCATATAAAAATATTTATTATTAAGAATTTTATTAAATTA
1 TATATTATGATTTTAGTAAATTCATATAAAAATATTTATTATTAAGAATTTTATTAAATTA
* * ** * * * * * * * *
35428198 TATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGTATCA
1 TATATTATGATTTTAGTAAATTCATATAA-AAATATTT-ATTATTAAGAATTTTATTA-AATTA
* *
35428257 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTA
1 TATATTATGATTTTAGTAAATTCATATAAAAATATTTATTATTAAGAATTTTATTAAATTA
35428318 TATATT
1 TATATT
35428324 TTAATTAAAA
Statistics
Matches: 92, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
58 3 0.03
59 34 0.37
60 10 0.11
61 42 0.46
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (61 bp):
TATATTATGATTTTAGTAAATTCATATAAAAATATTTATTATTAAGAATTTTATTAAATTA
Found at i:35428212 original size:18 final size:17
Alignment explanation
Indices: 35428184--35428218 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35428174 ATTATTAAGA
*
35428184 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
35428201 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
35428219 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:35428232 original size:54 final size:54
Alignment explanation
Indices: 35428174--35428353 Score: 164
Period size: 54 Copynumber: 3.1 Consensus size: 54
35428164 AAAAATATTT
35428174 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
* * * * ** *
35428228 ATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTT-AGTAAATTCATATAAGAATAT
1 ATTA-TT--AA-GA-ATTTTAT--TA-AAT-TA-TAT-ATTTTAATTAAAAT-ATAT-TTAATAA
*
35428292 TG
53 TA
35428294 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
35428348 ATTATT
1 ATTATT
35428354 TCAAATTATA
Statistics
Matches: 96, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
54 15 0.16
55 11 0.11
56 9 0.09
57 4 0.04
58 3 0.03
59 9 0.09
61 9 0.09
62 3 0.03
63 4 0.04
64 9 0.09
65 11 0.11
66 9 0.09
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (54 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
Found at i:35428261 original size:120 final size:120
Alignment explanation
Indices: 35428090--35428404 Score: 569
Period size: 120 Copynumber: 2.6 Consensus size: 120
35428080 AAGTAGATTA
* *
35428090 TAAAAAATATTTAATAATAATTATTT-AAATTATATTTTATAGTATCGTATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGT
*
35428154 AAATTCATATAAAAATATTTATTATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAAAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAAT
35428209 TAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGT
*
35428274 AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAAAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAAT
*
35428329 TAAAATATATTTAATAATAATTATTTCAAATTATATTATATAGTATCATATATTATGATTTTAGT
1 TAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGT
*
35428394 AAATTTATATA
66 AAATTCATATA
35428405 TTTTATTAAA
Statistics
Matches: 189, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
119 25 0.13
120 164 0.87
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (120 bp):
TAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGT
AAATTCATATAAAAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAAT
Found at i:35428381 original size:61 final size:61
Alignment explanation
Indices: 35428196--35428381 Score: 174
Period size: 57 Copynumber: 3.1 Consensus size: 61
35428186 TTTATTAAAT
*
35428196 TATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTATATAGTATCA
* * * * * * *
35428257 TATATTATGATTTTAGT-AAAT-TCATATAAGAAT-ATTGATTATTAAGA--ATTTTAT-TA-AA
1 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATT-TCAA-ATTATATTATATAGTA
35428315 T--
59 TCA
35428316 TATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTATATAGTATCA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTATATAGTATCA
35428377 TATAT
1 TATAT
35428382 TATGATTTTA
Statistics
Matches: 94, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
55 1 0.01
56 8 0.09
57 21 0.22
58 9 0.10
59 6 0.06
61 11 0.12
62 9 0.10
63 20 0.21
64 8 0.09
65 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (61 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTATATAGTATCA
Found at i:35428440 original size:26 final size:26
Alignment explanation
Indices: 35428328--35428440 Score: 63
Period size: 26 Copynumber: 4.2 Consensus size: 26
35428318 TATATTTTAA
*
35428328 TTAAAATATATTTAATAATAATTAT-
1 TTAAATTATATTTAATAATAATTATG
35428353 TTCAAATTATATTATATAGTATCATATATTATG
1 TT-AAATTATATT-TA-A-TA--ATA-ATTATG
** * * * *
35428386 ATTTTAGTAAATTT-AT-AT-ATTTTA
1 -TTAAATTATATTTAATAATAATTATG
35428410 TTAAATTATATTTAATAATAATTATG
1 TTAAATTATATTTAATAATAATTATG
35428436 TTAAA
1 TTAAA
35428441 ATATGATTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 23
0.64 0.13 0.23
Matches are distributed among these distances:
23 9 0.14
24 6 0.10
25 4 0.06
26 20 0.32
27 2 0.03
28 1 0.02
29 3 0.05
30 1 0.02
31 3 0.05
32 6 0.10
33 6 0.10
34 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATG
Found at i:35428627 original size:39 final size:41
Alignment explanation
Indices: 35428567--35428672 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
35428557 TTTCCTTATG
* *
35428567 CTATTACACCTCTATTACATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTACATTCAACCAAACAAAAGAATTAC
35428607 C-ATTACGCCTCTATTTCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTA-TT-A---CATTCAACCAAACAAAAGAATTAC
*
35428652 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTACATT
35428673 ACACATCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 11 0.20
40 3 0.05
41 5 0.09
44 19 0.34
45 6 0.11
46 12 0.21
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (41 bp):
CTATTACGCCTCTATTACATTCAACCAAACAAAAGAATTAC
Found at i:35428647 original size:44 final size:46
Alignment explanation
Indices: 35428584--35428672 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
35428574 ACCTCTATTA
* *
35428584 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTTCATTC
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTC
35428628 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
35428673 ACACATCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 19 0.46
45 4 0.10
46 18 0.44
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.28
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTC
Found at i:35429128 original size:16 final size:16
Alignment explanation
Indices: 35429109--35429141 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35429099 ACTATTATGC
35429109 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
35429125 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
35429141 C
1 C
35429142 GAACCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:35429621 original size:3 final size:3
Alignment explanation
Indices: 35429613--35429643 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
35429603 CTACTTCTTA
35429613 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
35429644 CTCCTCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:35431191 original size:15 final size:13
Alignment explanation
Indices: 35431159--35431233 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 13
35431149 ACTAAAATAT
*
35431159 TATAATATTATAA
1 TATAATATTAAAA
*
35431172 CATAAGTGATTAAAA
1 TATAA-T-ATTAAAA
*
35431187 TATAATATTTTAAA
1 TATAATA-TTAAAA
35431201 TATAAATAATTAAAA
1 TAT-AAT-ATTAAAA
*
35431216 TAAAATA-TAAAA
1 TATAATATTAAAA
35431228 TA-AATA
1 TATAATA
35431234 AAAGTGACTA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
11 4 0.08
12 7 0.14
13 6 0.12
14 13 0.25
15 20 0.39
16 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (13 bp):
TATAATATTAAAA
Found at i:35431221 original size:14 final size:14
Alignment explanation
Indices: 35431180--35431231 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
35431170 AACATAAGTG
*
35431180 ATTAAAATATAATA
1 ATTAAAATAAAATA
* *
35431194 TTTTAAATATAAATA
1 ATTAAAATA-AAATA
35431209 ATTAAAATAAAAT-
1 ATTAAAATAAAATA
35431222 A-TAAAATAAA
1 ATTAAAATAAA
35431232 TAAAAGTGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
12 9 0.28
13 1 0.03
14 11 0.34
15 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATTAAAATAAAATA
Found at i:35431221 original size:20 final size:21
Alignment explanation
Indices: 35431198--35431236 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35431188 ATAATATTTT
*
35431198 AAATAT-AAATAATTAAAATA
1 AAATATAAAATAAATAAAATA
35431218 AAATATAAAATAAATAAAA
1 AAATATAAAATAAATAAAA
35431237 GTGACTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATATAAAATAAATAAAATA
Found at i:35440207 original size:6 final size:6
Alignment explanation
Indices: 35440196--35440224 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
35440186 GATTCGATTT
35440196 TATTAC TATTAC TATTAC TATTAC TATTA
1 TATTAC TATTAC TATTAC TATTAC TATTA
35440225 TTCTTCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (6 bp):
TATTAC
Found at i:35440558 original size:21 final size:21
Alignment explanation
Indices: 35440529--35440581 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
35440519 AGCGGTGGCG
*
35440529 GTGAAATTAGATACTATAGCA
1 GTGAGATTAGATACTATAGCA
*
35440550 GTGAGATTAGATACTGTAGCA
1 GTGAGATTAGATACTATAGCA
35440571 GTGAGATTAGA
1 GTGAGATTAGA
35440582 AATAATGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (21 bp):
GTGAGATTAGATACTATAGCA
Found at i:35441152 original size:11 final size:11
Alignment explanation
Indices: 35441109--35441165 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
35441099 TAAATCCTTT
35441109 CTCTCAATTT-
1 CTCTCAATTTC
35441119 CTCTCTAATATT-
1 CTCTC-AAT-TTC
*
35441131 CTCTAAATTTC
1 CTCTCAATTTC
*
35441142 CTCTCAGTTTC
1 CTCTCAATTTC
35441153 CTCTCAATTTC
1 CTCTCAATTTC
35441164 CT
1 CT
35441166 ATTTAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 7 0.17
11 27 0.68
12 6 0.15
ACGTcount: A:0.19, C:0.32, G:0.02, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:35442899 original size:30 final size:29
Alignment explanation
Indices: 35442861--35442944 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
35442851 TCAACGAGGC
* *
35442861 CCAAACAATCACCCAACCCATCATCAGCA
1 CCAAACAATCACCCAACCCAGCAACAGCA
*
35442890 CCAATACAATCA-TCAGACCCAGCAACAGCA
1 CCAA-ACAATCACCCA-ACCCAGCAACAGCA
* *
35442920 CCGACACAGTCACCCAACCCAGCAA
1 CC-AAACAATCACCCAACCCAGCAA
35442945 TTCAACCGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 6 0.13
30 36 0.80
31 3 0.07
ACGTcount: A:0.40, C:0.43, G:0.08, T:0.08
Consensus pattern (29 bp):
CCAAACAATCACCCAACCCAGCAACAGCA
Found at i:35443017 original size:18 final size:18
Alignment explanation
Indices: 35442994--35443036 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
35442984 TGCCAGGTGC
*
35442994 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTTTAT
35443012 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTTTAT
*
35443030 GTTTCCT
1 GTATCCT
35443037 TTTTCTAGTC
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:0.16, C:0.28, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTTTAT
Found at i:35443316 original size:21 final size:21
Alignment explanation
Indices: 35443292--35443335 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
35443282 AGATCCCCTA
* *
35443292 CCGGAGGAACCAGAATCCTCG
1 CCGGAGCAACCAGAACCCTCG
*
35443313 CCGGAGCAACCATAACCCTCG
1 CCGGAGCAACCAGAACCCTCG
35443334 CC
1 CC
35443336 AGAAGCTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.41, G:0.23, T:0.09
Consensus pattern (21 bp):
CCGGAGCAACCAGAACCCTCG
Found at i:35447078 original size:19 final size:19
Alignment explanation
Indices: 35447054--35447091 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
35447044 TTGATACAAC
35447054 AAATTAATTATCAATACCA
1 AAATTAATTATCAATACCA
*
35447073 AAATTAATTATCGATACCA
1 AAATTAATTATCAATACCA
35447092 CTATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTAATTATCAATACCA
Found at i:35448348 original size:18 final size:19
Alignment explanation
Indices: 35448325--35448372 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
35448315 ATATGAGTTT
* *
35448325 ATGCACTT-ATGTGCTAGG
1 ATGCACTTCATGTGCCAAG
*
35448343 ATGCACTTCGTGTGCCAAG
1 ATGCACTTCATGTGCCAAG
35448362 ATGCACTTCAT
1 ATGCACTTCAT
35448373 TCGCTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (19 bp):
ATGCACTTCATGTGCCAAG
Found at i:35450056 original size:13 final size:13
Alignment explanation
Indices: 35450020--35450056 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
35450010 AAACCTAAGA
35450020 AAAGAGAAAATCT
1 AAAGAGAAAATCT
**
35450033 AAAGACTAAATCT
1 AAAGAGAAAATCT
35450046 AAAGAGAAAAT
1 AAAGAGAAAAT
35450057 TATACAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAGAGAAAATCT
Found at i:35469209 original size:46 final size:46
Alignment explanation
Indices: 35469118--35469210 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
35469108 TCGCATTAAG
* * *
35469118 TGGTTATAAATCTCTAAGACATTGATTCTGACGGACATTTGCAAAC
1 TGGTAATAAATCTCTAAGACATTGATTCTGACGGAAATTTACAAAC
* * * *
35469164 TGGTAATAAATCTTTAAGACATTTATTTTGATGGAAATTTACAAAC
1 TGGTAATAAATCTCTAAGACATTGATTCTGACGGAAATTTACAAAC
35469210 T
1 T
35469211 TTATATAGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (46 bp):
TGGTAATAAATCTCTAAGACATTGATTCTGACGGAAATTTACAAAC
Found at i:35470472 original size:46 final size:45
Alignment explanation
Indices: 35470331--35470541 Score: 219
Period size: 45 Copynumber: 4.7 Consensus size: 45
35470321 GCGTGTTTCA
** *** * * **
35470331 CATGATGCCATAATGTCTTTTGGCTATGGTCTTACTTATTTCTAC
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTTTTT
* * **
35470376 CATGATGCCATAGCGTCTGTT-GGCTATGGTCTTACTCATTTTTTT
1 CATGATGCCATAACATCT-TTCAACTATGGTCTTACTCATTTTTTT
35470421 CATGATGCCATAACATCTTTCAACTATGGTTCTTACTCATTTTTTT
1 CATGATGCCATAACATCTTTCAACTATGG-TCTTACTCATTTTTTT
*
35470467 CATGATGCCATAACATCTTTCAACTATGGTCTTACTCA-TTTTTG
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTTTTT
** * *
35470511 CAGTGACACTATAACATCTTTCAGCTATGGT
1 CA-TGATGCCATAACATCTTTCAACTATGGT
35470542 ATTTGTAAGA
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
44 9 0.06
45 91 0.62
46 47 0.32
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTTTTT
Found at i:35471059 original size:22 final size:22
Alignment explanation
Indices: 35471019--35471060 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
35471009 TGTTATTTTT
*
35471019 TATTAAAATGTTAAAATAATAA
1 TATTAAAATGTAAAAATAATAA
35471041 TATTAAAA-GTAAAACATAAT
1 TATTAAAATGTAAAA-ATAAT
35471061 TTAAGGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
TATTAAAATGTAAAAATAATAA
Found at i:35471870 original size:13 final size:13
Alignment explanation
Indices: 35471852--35471972 Score: 91
Period size: 13 Copynumber: 9.3 Consensus size: 13
35471842 TAAATGTGTA
35471852 ATATGAAATGGTT
1 ATATGAAATGGTT
*
35471865 ATATGAGATGGTT
1 ATATGAAATGGTT
*
35471878 ATTTGAAATGGTT
1 ATATGAAATGGTT
**
35471891 ATAT-AAATGAAT
1 ATATGAAATGGTT
* * *
35471903 AAATAAAATGATT
1 ATATGAAATGGTT
*
35471916 ATATGAATTGGTT
1 ATATGAAATGGTT
**
35471929 ATATAGAAATAATT
1 ATAT-GAAATGGTT
* * *
35471943 ATATTAAGTGTTT
1 ATATGAAATGGTT
* *
35471956 ATACGAAATGTTT
1 ATATGAAATGGTT
35471969 ATAT
1 ATAT
35471973 AGATAAATAT
Statistics
Matches: 83, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
12 9 0.11
13 64 0.77
14 10 0.12
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.40
Consensus pattern (13 bp):
ATATGAAATGGTT
Found at i:35484901 original size:15 final size:15
Alignment explanation
Indices: 35484878--35484907 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35484868 GCATAACTGT
*
35484878 TCCTGAGGTAAAGAA
1 TCCTCAGGTAAAGAA
35484893 TCCTCAGGTAAAGAA
1 TCCTCAGGTAAAGAA
35484908 CATTTACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (15 bp):
TCCTCAGGTAAAGAA
Found at i:35491652 original size:38 final size:38
Alignment explanation
Indices: 35491601--35491676 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
35491591 ATGAAGCAAC
35491601 ATTTCTCTATGTTTGTTAACTAAATCTTGCTTTTCCTT
1 ATTTCTCTATGTTTGTTAACTAAATCTTGCTTTTCCTT
35491639 ATTTCTCTATGTTTGTTAACTAAATCTTGCTTTTCCTT
1 ATTTCTCTATGTTTGTTAACTAAATCTTGCTTTTCCTT
35491677 TTCTCACATG
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:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (38 bp):
ATTTCTCTATGTTTGTTAACTAAATCTTGCTTTTCCTT
Found at i:35502576 original size:27 final size:27
Alignment explanation
Indices: 35502546--35502598 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
35502536 AATGGGTGTA
*
35502546 ATTAATCAAAAGATAAATCTTTTGATC
1 ATTAATCAAAAGATAAATCATTTGATC
* * *
35502573 ATTAGTCAAAAGTTATATCATTTGAT
1 ATTAATCAAAAGATAAATCATTTGAT
35502599 TTTTGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTAATCAAAAGATAAATCATTTGATC
Found at i:35510393 original size:45 final size:45
Alignment explanation
Indices: 35510329--35510416 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
35510319 TTAGAGACAA
35510329 GAGTAGAAACTTTGAAAGAGAAAGGATAAAAAGAAGAATGTCTTG
1 GAGTAGAAACTTTGAAAGAGAAAGGATAAAAAGAAGAATGTCTTG
35510374 GAGTAGAAACTTTGAAAGAGAAAGGATAAAAAGAAGAATGTCT
1 GAGTAGAAACTTTGAAAGAGAAAGGATAAAAAGAAGAATGTCT
35510417 AGCCCTCCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.50, C:0.05, G:0.26, T:0.19
Consensus pattern (45 bp):
GAGTAGAAACTTTGAAAGAGAAAGGATAAAAAGAAGAATGTCTTG
Found at i:35522439 original size:42 final size:42
Alignment explanation
Indices: 35522378--35522459 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
35522368 CCTAGAAAAA
* *
35522378 AATTTAAAAAAGGAGAAGATAATCTTGCGTTGTT-GAAAATG
1 AATTTAAAAAAGGAGAAGATAAACATGCGTTGTTGGAAAATG
*
35522419 AATTTAAAAATAGGAGAAGATAAACATGGGTTGTTGGAAAA
1 AATTTAAAAA-AGGAGAAGATAAACATGCGTTGTTGGAAAA
35522460 AAGCTATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 10 0.28
42 21 0.58
43 5 0.14
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (42 bp):
AATTTAAAAAAGGAGAAGATAAACATGCGTTGTTGGAAAATG
Found at i:35524366 original size:17 final size:19
Alignment explanation
Indices: 35524339--35524373 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35524329 ACATAGTCGG
35524339 TTTCATATTT-CCCTTAGC
1 TTTCATATTTCCCCTTAGC
35524357 TTTC-TATTTCCCCTTAG
1 TTTCATATTTCCCCTTAG
35524374 AGGATGAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.14, C:0.29, G:0.06, T:0.51
Consensus pattern (19 bp):
TTTCATATTTCCCCTTAGC
Found at i:35527115 original size:16 final size:16
Alignment explanation
Indices: 35527094--35527133 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
35527084 CGTTTGGTTC
*
35527094 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
35527110 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
35527126 ACTGTAAT
1 GCTGTAAT
35527134 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:35527166 original size:45 final size:44
Alignment explanation
Indices: 35527115--35527207 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
35527105 ATAGAGCTGT
*
35527115 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGGAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
35527160 AATGGAATAGAACTGGAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGGAATAGTATTCATGTGTTTGGTTGAATGG
35527204 AATG
1 AATG
35527208 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGGAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:35527429 original size:56 final size:56
Alignment explanation
Indices: 35527321--35527442 Score: 140
Period size: 56 Copynumber: 2.2 Consensus size: 56
35527311 TTATTAATAT
* *
35527321 AAATAATAAATAATTTAATTATATTTTAACATAATTATTATTAAATATAATTTAATA
1 AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAATTTAATA
* * * *
35527378 AAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAATTTACTA
1 AAATAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AATTTAATA
*
35527434 AAATCATAA
1 AAATAATAA
35527443 TATATAATAC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
55 4 0.07
56 29 0.54
57 21 0.39
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (56 bp):
AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAATTTAATA
Found at i:35527686 original size:23 final size:21
Alignment explanation
Indices: 35527660--35527718 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 21
35527650 TCATTAGTTT
35527660 ATATGTCATAATATCCAAACATA
1 ATAT-TCAT-ATATCCAAACATA
*
35527683 ATATTCATATATTAACAAACATA
1 ATATTCATATA-T-CCAAACATA
35527706 ATATTCATATATC
1 ATATTCATATATC
35527719 AATAAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 6 0.19
23 23 0.72
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (21 bp):
ATATTCATATATCCAAACATA
Found at i:35533426 original size:23 final size:23
Alignment explanation
Indices: 35533399--35533520 Score: 163
Period size: 23 Copynumber: 5.3 Consensus size: 23
35533389 AGTGTTATTG
* *
35533399 ATCAGTGGTAACTTCGGGTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
35533422 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
35533445 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
35533468 TTCAGTGCTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
35533491 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
35533514 ATCAGTG
1 ATCAGTG
35533521 TGGCACTTAT
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 83 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:35533467 original size:46 final size:46
Alignment explanation
Indices: 35533399--35533520 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
35533389 AGTGTTATTG
* * *
35533399 ATCAGTGGTAACTTCGGGTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGCTAGCTACGGCTACAT
* *
35533445 ATCAGTGGTAGCTTTGGCTACATTTCAGTGCTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGCTAGCTACGGCTACAT
*
35533491 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
35533521 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGCTAGCTACGGCTACAT
Found at i:35533677 original size:13 final size:13
Alignment explanation
Indices: 35533636--35533686 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
35533626 TTCTTCATTA
35533636 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* * *
35533649 CTGTGGAGAAGTG
1 CTTTTGAAAAGTG
*
35533662 CTTTTGGAAAGTG
1 CTTTTGAAAAGTG
35533675 CTTTTGAAAAGT
1 CTTTTGAAAAGT
35533687 TTGGTTTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:35533915 original size:24 final size:24
Alignment explanation
Indices: 35533881--35533926 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
35533871 TATATGAAAT
* *
35533881 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
35533905 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
35533927 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:35536018 original size:16 final size:16
Alignment explanation
Indices: 35535997--35536027 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35535987 CTATGCATGC
*
35535997 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
35536013 AAAATACAAAAGACA
1 AAAATACAAAAGACA
35536028 TAATAGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:35542862 original size:34 final size:34
Alignment explanation
Indices: 35542815--35542879 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
35542805 AAGAAATAGA
*
35542815 ATCAGTCTAGGCCTGAGCCC-TTAACAGTAACAGT
1 ATCAGTCTAGGCCTGACCCCATT-ACAGTAACAGT
* * *
35542849 ATCAGTGTGGGCCTTACCCCATTACAGTAAC
1 ATCAGTCTAGGCCTGACCCCATTACAGTAAC
35542880 GGTGGCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 24 0.92
35 2 0.08
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (34 bp):
ATCAGTCTAGGCCTGACCCCATTACAGTAACAGT
Found at i:35545936 original size:49 final size:50
Alignment explanation
Indices: 35545854--35546034 Score: 204
Period size: 50 Copynumber: 3.6 Consensus size: 50
35545844 TATTGAGACT
* *
35545854 ATGAGAGGTCCCATGTAAAACCATGCCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
35545904 ATGAGAGGTCCCAT-TAAGACCATGTCTGGGACATGGCGTTGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * * * * * *
35545953 ATGTGAGGCCCCCTGTAAGACCATATCTGGGACATCGC-ATGGACACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG-CACCGAG
** * *
35546003 ATGAGAACTCCCATGTAAGATCATATCTGGGA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGA
35546035 TGTGTCATTG
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 46 0.41
50 67 0.59
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:35552897 original size:50 final size:50
Alignment explanation
Indices: 35552801--35553023 Score: 232
Period size: 50 Copynumber: 4.3 Consensus size: 50
35552791 AGATCTCATA
* *
35552801 TAAGACCATGTCTGGGACATGGCATTGCCATCATTGAGATAATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCA-C--T--GAT-ATGAGAGGTCCCATG
** *
35552857 TAAGACCATGTCTCAGACATGGCGTTGGCACTGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACTGATATGAGAGGTCCCATG
* * **
35552907 TAAGACCATGTCTGGGACATGGCGTTGGCACCGATATGTGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACTGATATGAGAGGTCCCATG
* * * * **
35552957 TAAGACCATATCTGGGACATCGCATGGGCACCT-ATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCA-CTGATATGAGAGGTCCCATG
*
35553007 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
35553024 TGTGGCATTG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
50 113 0.78
51 3 0.02
53 1 0.01
55 1 0.01
56 26 0.18
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCGTTGGCACTGATATGAGAGGTCCCATG
Found at i:35563666 original size:16 final size:16
Alignment explanation
Indices: 35563635--35563664 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35563625 CACGTACCTC
35563635 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
35563651 TTTTTT-AAATATTT
1 TTTTTTAAAATATTT
35563665 TACTTTGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:35563941 original size:3 final size:3
Alignment explanation
Indices: 35563933--35563970 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
35563923 ATTCAAAAAA
* *
35563933 CAT CAT CAT AAT CAT CAT CAT CAT CAT TAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
35563971 CTATAGTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (3 bp):
CAT
Found at i:35580113 original size:56 final size:52
Alignment explanation
Indices: 35580028--35580270 Score: 175
Period size: 50 Copynumber: 4.7 Consensus size: 52
35580018 GGTGATGAGA
* *
35580028 TCCCAT-TGAAGACCATGT-TTGGAATATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGT-AAGACCATGTCTAGG-ACATGGCATTGGCATC---GAGA-TATGAGAGG
* *
35580084 TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG--ATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATATGAGAGG
** * **
35580134 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCATC--GATATGAGAAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATATGAGAGG
* * * * * **
35580184 TCCCATGTAAGACTATATCTGGGATATGGCATTGGCAGTAC-A-A-A--AAACA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-T-CGAGATATGAGAGG
* *
35580233 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCAT
35580271 GTTATTATCG
Statistics
Matches: 155, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
48 2 0.01
49 35 0.23
50 78 0.50
51 2 0.01
52 2 0.01
53 3 0.02
56 29 0.19
57 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (52 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATATGAGAGG
Found at i:35580131 original size:50 final size:49
Alignment explanation
Indices: 35580076--35580269 Score: 183
Period size: 50 Copynumber: 3.9 Consensus size: 49
35580066 CATTGAGATT
* *
35580076 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-CGAC
** * *
35580126 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCATCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-CGAC
** * * * *
35580176 ATGAGAACTCCCATGTAAGACTATATCTGGGATATGGCATTGGCA-GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACG-AC
** * ** * *
35580225 AAAAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
35580270 TGTTATTATC
Statistics
Matches: 118, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.31
50 80 0.68
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACGAC
Found at i:35598056 original size:15 final size:15
Alignment explanation
Indices: 35598036--35598064 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35598026 GTATTGTTGC
35598036 TTGATAACACGGTGA
1 TTGATAACACGGTGA
35598051 TTGATAACACGGTG
1 TTGATAACACGGTG
35598065 TGTCAAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:35600973 original size:49 final size:49
Alignment explanation
Indices: 35600882--35600978 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
35600872 ATCTATTTAT
** * * *
35600882 AGGTTGAAAAACCTTATTCTAATCAATGTCGAATAGATGAAGTGTAGTA
1 AGGTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
35600931 AGGTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
35600979 TCTATATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:35607481 original size:10 final size:11
Alignment explanation
Indices: 35607435--35607483 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
35607425 ACTTGTTAGT
35607435 AAAATATTATA
1 AAAATATTATA
35607446 AAAA-AGTTATGA
1 AAAATA-TTAT-A
*
35607458 AAATTATT-TA
1 AAAATATTATA
35607468 AAAATATTA-A
1 AAAATATTATA
35607478 AAAATA
1 AAAATA
35607484 GGTTTAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 16 0.50
11 9 0.28
12 6 0.19
13 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (11 bp):
AAAATATTATA
Found at i:35607727 original size:13 final size:13
Alignment explanation
Indices: 35607701--35607733 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
35607691 AAAAGTACAT
35607701 AAATAATTTTAAA
1 AAATAATTTTAAA
35607714 AAAT-ATTTTAAA
1 AAATAATTTTAAA
*
35607726 AATTAATT
1 AAATAATT
35607734 ATTTTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATAATTTTAAA
Found at i:35610070 original size:15 final size:14
Alignment explanation
Indices: 35610012--35610063 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
35610002 ATTTGATTTA
35610012 ATATAAATTTTTTT
1 ATATAAATTTTTTT
* *
35610026 A-A-AAA-ATTGTT
1 ATATAAATTTTTTT
35610037 ATATAAATTTTTTT
1 ATATAAATTTTTTT
35610051 ATATAAATTTTTT
1 ATATAAATTTTTT
35610064 ACCTATATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 5 0.16
12 4 0.13
13 4 0.13
14 18 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
ATATAAATTTTTTT
Found at i:35610985 original size:30 final size:30
Alignment explanation
Indices: 35610949--35611005 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
35610939 GCATAGAAAT
* **
35610949 TAGTACATTAAGTATGTGTAAATTTTTATG
1 TAGTACATTAAATATGTACAAATTTTTATG
35610979 TAGTACATTAAATATGTACAAATTTTT
1 TAGTACATTAAATATGTACAAATTTTT
35611006 CCTCATACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (30 bp):
TAGTACATTAAATATGTACAAATTTTTATG
Found at i:35611782 original size:22 final size:22
Alignment explanation
Indices: 35611743--35611784 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
35611733 TTAAAATCAA
*
35611743 AACAAAAACAAAGAAAGAAAGT
1 AACAAAAAAAAAGAAAGAAAGT
35611765 AACAAAAAAAGAAG-AAGAAA
1 AACAAAAAAA-AAGAAAGAAA
35611785 AAAGACAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.76, C:0.07, G:0.14, T:0.02
Consensus pattern (22 bp):
AACAAAAAAAAAGAAAGAAAGT
Found at i:35625599 original size:22 final size:22
Alignment explanation
Indices: 35625574--35625621 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
35625564 ACTAAGAGCC
* *
35625574 ATAAACAGGATAGCTATAAGCT
1 ATAAACAGAATAGCTACAAGCT
*
35625596 ATAAACAGAATGGCTACAAGCT
1 ATAAACAGAATAGCTACAAGCT
35625618 ATAA
1 ATAA
35625622 GTACAGTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.21
Consensus pattern (22 bp):
ATAAACAGAATAGCTACAAGCT
Found at i:35625681 original size:32 final size:32
Alignment explanation
Indices: 35625624--35625815 Score: 163
Period size: 32 Copynumber: 6.0 Consensus size: 32
35625614 AGCTATAAGT
* * *
35625624 ACAGTACTATGATTGGCACAAAGCCATCAGTA
1 ACAGTAATATGATCGGCACACAGCCATCAGTA
* * *
35625656 GCAGTGATATGATCGACACACAGCCATCAGTA
1 ACAGTAATATGATCGGCACACAGCCATCAGTA
* *
35625688 ACGGTAATATGATCGGCAC-CAAGCTATCAGTA
1 ACAGTAATATGATCGGCACAC-AGCCATCAGTA
* * * * * *
35625720 ACGGTAATATAATCGGTACAAAGCTATTAGTA
1 ACAGTAATATGATCGGCACACAGCCATCAGTA
* * * * *
35625752 ACGGTAATATGATCAGCATAAAGCCACCAGTA
1 ACAGTAATATGATCGGCACACAGCCATCAGTA
* *
35625784 ACGGTAATATGA-CTGGCACAAAGCCATCAGTA
1 ACAGTAATATGATC-GGCACACAGCCATCAGTA
35625816 GCATCGCAGC
Statistics
Matches: 132, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
31 2 0.02
32 130 0.98
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
ACAGTAATATGATCGGCACACAGCCATCAGTA
Found at i:35625752 original size:64 final size:64
Alignment explanation
Indices: 35625613--35625793 Score: 193
Period size: 64 Copynumber: 2.8 Consensus size: 64
35625603 GAATGGCTAC
* * * * * * *
35625613 AAGCTATAAGT-ACAGTACTATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACACA
1 AAGCTATAAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATATAATCGACACA
* * * * * **
35625676 CAGCCATCAGTAACGGTAATATGATCGGCACCAAGCTATCAGTAACGGTAATATAATCGGTACA
1 AAGCTATAAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATATAATCGACACA
* * * *
35625740 AAGCTATTAGTAACGGTAATATGATCAGCATAAAGCCACCAGTAACGGTAATAT
1 AAGCTATAAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATAT
35625794 GACTGGCACA
Statistics
Matches: 95, Mismatches: 22, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
63 8 0.08
64 87 0.92
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (64 bp):
AAGCTATAAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATATAATCGACACA
Found at i:35625847 original size:26 final size:26
Alignment explanation
Indices: 35625818--35625871 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
35625808 CATCAGTAGC
35625818 ATCGCAGCAAAGCAGCCAGCAACAGT
1 ATCGCAGCAAAGCAGCCAGCAACAGT
* * * *
35625844 ATCGCAGGAAAGCTGCCCGCAATAGT
1 ATCGCAGCAAAGCAGCCAGCAACAGT
35625870 AT
1 AT
35625872 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.28, G:0.24, T:0.13
Consensus pattern (26 bp):
ATCGCAGCAAAGCAGCCAGCAACAGT
Found at i:35626018 original size:24 final size:24
Alignment explanation
Indices: 35625991--35626085 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 24
35625981 GCTCAGAATC
*
35625991 AGTCATAAAAATCACAAACAAATT
1 AGTCATAAAAATCACAGACAAATT
** *
35626015 AGTCATACCAATCACTGACAAATT
1 AGTCATAAAAATCACAGACAAATT
* ** *
35626039 AGTTATTTAAATCACAGACAAATC
1 AGTCATAAAAATCACAGACAAATT
** *
35626063 AGTCATTTACATCACAGACAAAT
1 AGTCATAAAAATCACAGACAAAT
35626086 CAATCATTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (24 bp):
AGTCATAAAAATCACAGACAAATT
Found at i:35626086 original size:24 final size:24
Alignment explanation
Indices: 35626025--35626097 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
35626015 AGTCATACCA
* * * *
35626025 ATCACTGACAAATTAGTTATTTAA
1 ATCACAGACAAATCAGTCATTTAC
35626049 ATCACAGACAAATCAGTCATTTAC
1 ATCACAGACAAATCAGTCATTTAC
*
35626073 ATCACAGACAAATCAATCATTTAC
1 ATCACAGACAAATCAGTCATTTAC
35626097 A
1 A
35626098 CTTGAGGGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.29
Consensus pattern (24 bp):
ATCACAGACAAATCAGTCATTTAC
Found at i:35626095 original size:48 final size:48
Alignment explanation
Indices: 35625999--35626095 Score: 108
Period size: 48 Copynumber: 2.0 Consensus size: 48
35625989 TCAGTCATAA
* * * * *
35625999 AAATCACAAACAAATTAGTCATACCAATCACTGACAAATTAGTTATTT
1 AAATCACAAACAAATCAGTCATACCAATCACAGACAAATCAATCATTT
*
35626047 AAATCACAGACAAATCAGTCATTTA-C-ATCACAGACAAATCAATCATTT
1 AAATCACAAACAAATCAGTCA--TACCAATCACAGACAAATCAATCATTT
35626095 A
1 A
35626096 CACTTGAGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
48 38 0.93
49 1 0.02
50 2 0.05
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (48 bp):
AAATCACAAACAAATCAGTCATACCAATCACAGACAAATCAATCATTT
Found at i:35626144 original size:26 final size:26
Alignment explanation
Indices: 35626115--35626217 Score: 79
Period size: 26 Copynumber: 3.9 Consensus size: 26
35626105 GGTAAAATAG
35626115 TCATTTACCCTCTAAGGGCATTACGA
1 TCATTTACCCTCTAAGGGCATTACGA
* *
35626141 TCATTTA-CCT-TACAGGGGTATTTCGA
1 TCATTTACCCTCTA-A-GGGCATTACGA
* * *
35626167 TCATTTAACCCTATGAA-GGTATTACGG
1 TCATTT-ACCCTCT-AAGGGCATTACGA
35626194 TCATTTTACCCTAC-AAGGGCATTA
1 TCA-TTTACCCT-CTAAGGGCATTA
35626218 TGGTTATTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
24 2 0.03
25 4 0.06
26 24 0.39
27 23 0.37
28 6 0.10
29 2 0.03
30 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (26 bp):
TCATTTACCCTCTAAGGGCATTACGA
Found at i:35626217 original size:27 final size:27
Alignment explanation
Indices: 35626114--35626300 Score: 157
Period size: 27 Copynumber: 7.0 Consensus size: 27
35626104 GGGTAAAATA
*
35626114 GTCA-TTTACCCT-CTAAGGGCATTACG
1 GTCATTTTACCCTAC-AAGGGTATTACG
* * * *
35626140 ATCA-TTTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTACAAGGGTATTACG
* * *
35626166 ATCATTTAACCCTATGAA-GGTATTACG
1 GTCATTTTACCCTA-CAAGGGTATTACG
* *
35626193 GTCATTTTACCCTACAAGGGCATTATG
1 GTCATTTTACCCTACAAGGGTATTACG
* * * *
35626220 GTTATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
** * *
35626247 GTCATTTTACCCTATGAGGGTTTTTCG
1 GTCATTTTACCCTACAAGGGTATTACG
*
35626274 GTTATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
35626301 ACCATGTTAC
Statistics
Matches: 125, Mismatches: 32, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
26 25 0.20
27 99 0.79
28 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:35626252 original size:81 final size:80
Alignment explanation
Indices: 35626114--35626310 Score: 236
Period size: 81 Copynumber: 2.5 Consensus size: 80
35626104 GGGTAAAATA
* *
35626114 GTCA-TTTACCCT-CTAAGGGCATTACGATCATTTACCTTACAGGGGTATTTCGATCATTTAACC
1 GTCATTTTACCCTAC-AAGGGCATTACGATCATTTACCTTACAGGGGCATTACGATCATTTAACC
35626177 CTATGAAGGTATTACG
65 CTATGAAGGTATTACG
* * * * *
35626193 GTCATTTTACCCTACAAGGGCATTATGGTTATTTTACCTTACAGGGGCATTACGGTCATTTTACC
1 GTCATTTTACCCTACAAGGGCATTACGATCA-TTTACCTTACAGGGGCATTACGATCATTTAACC
* * *
35626258 CTATGAGGGTTTTTCG
65 CTATGAAGGTATTACG
* * *
35626274 GTTATTTTACCCTACAAGGGTATTACGACCATGTTAC
1 GTCATTTTACCCTACAAGGGCATTACGATCAT-TTAC
35626311 AAATATTGGG
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 4 0.04
80 22 0.22
81 72 0.73
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (80 bp):
GTCATTTTACCCTACAAGGGCATTACGATCATTTACCTTACAGGGGCATTACGATCATTTAACCC
TATGAAGGTATTACG
Found at i:35627417 original size:41 final size:41
Alignment explanation
Indices: 35627354--35627440 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
35627344 CCTAACAGAG
* * *
35627354 AAAGGAAAAATGGAATTGGAAAAGAAGTATAGATGAAAGCA
1 AAAGAAAAAATGGAATTAGAAAAGAAGTACAGATGAAAGCA
* *
35627395 AAAGAAAAAATGGAATTAGAAAATAAGTACAGATGAAAGTA
1 AAAGAAAAAATGGAATTAGAAAAGAAGTACAGATGAAAGCA
35627436 AAAGA
1 AAAGA
35627441 GAGGATCGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.60, C:0.02, G:0.23, T:0.15
Consensus pattern (41 bp):
AAAGAAAAAATGGAATTAGAAAAGAAGTACAGATGAAAGCA
Found at i:35629241 original size:24 final size:24
Alignment explanation
Indices: 35629214--35629264 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
35629204 ACCATTCCAT
35629214 TTACTTACTTTCCACTT-CATTTAC
1 TTACTTACTTTCCA-TTCCATTTAC
35629238 TTACTTACTTTCCATTCCATTTAC
1 TTACTTACTTTCCATTCCATTTAC
35629262 TTA
1 TTA
35629265 GCATAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (24 bp):
TTACTTACTTTCCATTCCATTTAC
Found at i:35629261 original size:20 final size:20
Alignment explanation
Indices: 35629205--35629264 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 20
35629195 AGACGATGAA
35629205 CCATTCCATTTACTTACTTT
1 CCATTCCATTTACTTACTTT
35629225 CCACTT-CATTTACTTACTTACTTT
1 CCA-TTCCA--T--TTACTTACTTT
35629249 CCATTCCATTTACTTA
1 CCATTCCATTTACTTA
35629265 GCATAAGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
20 12 0.35
21 2 0.06
22 2 0.06
23 2 0.06
24 16 0.47
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (20 bp):
CCATTCCATTTACTTACTTT
Found at i:35633103 original size:20 final size:20
Alignment explanation
Indices: 35633073--35633112 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
35633063 ATAAATGAAC
35633073 TAAACTGCAAA-AAAAGAAA
1 TAAACTGCAAAGAAAAGAAA
35633092 TAAACATGCAAAGAAAAGAAA
1 TAAAC-TGCAAAGAAAAGAAA
35633113 ATGTACTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.68, C:0.10, G:0.12, T:0.10
Consensus pattern (20 bp):
TAAACTGCAAAGAAAAGAAA
Found at i:35634307 original size:32 final size:33
Alignment explanation
Indices: 35634262--35634342 Score: 119
Period size: 32 Copynumber: 2.5 Consensus size: 33
35634252 TAAATGGTGA
* *
35634262 AGGGTGAGAGAGAGGCGGCATTGG-GTAAGTGG
1 AGGGTGAGAGAGAGGCGACATTGGTGGAAGTGG
* *
35634294 AGGGTGAGGGAGAGGCGACATTGGTGGCAGTGG
1 AGGGTGAGAGAGAGGCGACATTGGTGGAAGTGG
35634327 AGGGTGAGAGAGAGGC
1 AGGGTGAGAGAGAGGC
35634343 AACAATGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 22 0.51
33 21 0.49
ACGTcount: A:0.25, C:0.07, G:0.54, T:0.14
Consensus pattern (33 bp):
AGGGTGAGAGAGAGGCGACATTGGTGGAAGTGG
Found at i:35637473 original size:3 final size:3
Alignment explanation
Indices: 35637465--35637498 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
35637455 ATTCTTTCTT
*
35637465 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35637499 AATCTTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:35648364 original size:41 final size:41
Alignment explanation
Indices: 35648304--35648473 Score: 232
Period size: 41 Copynumber: 4.1 Consensus size: 41
35648294 AAGATTACTT
*
35648304 CTGAATTGCACATACGTGCCCTTATTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * *
35648345 CTGAATTGCACATAAGTGCCTCTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * *
35648386 CTAAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * * *
35648427 TTGAATTGCACATATGTGCCCCTATTTATAATTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
*
35648468 TTGAAT
1 CTGAAT
35648474 GTATTTCTGT
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 114 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.35
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
Found at i:35649866 original size:20 final size:20
Alignment explanation
Indices: 35649841--35649882 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
35649831 ATTGCGGTTG
35649841 TTCAATACGAGAATTGAAAC
1 TTCAATACGAGAATTGAAAC
35649861 TTCAATACGAGAATTGAAAC
1 TTCAATACGAGAATTGAAAC
35649881 TT
1 TT
35649883 ACTCTCGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (20 bp):
TTCAATACGAGAATTGAAAC
Found at i:35663039 original size:23 final size:23
Alignment explanation
Indices: 35662994--35663039 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35662984 ACAGCCGTAT
**
35662994 TTTAGTCTTAAACAGATTTTTAG
1 TTTAGTCTTAAACAGATAGTTAG
35663017 TTTAGTCTTAAACATGA-AGTTAG
1 TTTAGTCTTAAACA-GATAGTTAG
35663040 ATCTCCATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (23 bp):
TTTAGTCTTAAACAGATAGTTAG
Found at i:35668757 original size:126 final size:126
Alignment explanation
Indices: 35668532--35668776 Score: 463
Period size: 126 Copynumber: 1.9 Consensus size: 126
35668522 TGAAATAAGA
*
35668532 TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTCGTGCCTTTGAATGGTATATTG
1 TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTCGTGCCTTTGAATGATATATTG
*
35668597 GTTAGTTGAAATAGGGTCTTCAAATGACATTTTGATGTGTGTTTAGGTGATGTTCAGCTCC
66 GTTAGTTGAAATAGGGTCTTCAAATGACATTTTGATATGTGTTTAGGTGATGTTCAGCTCC
*
35668658 TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTTGTGCCTTTGAATGATATATTG
1 TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTCGTGCCTTTGAATGATATATTG
35668723 GTTAGTTGAAATAGGGTCTTCAAATGACATTTTGATATGTGTTTAGGTGATGTT
66 GTTAGTTGAAATAGGGTCTTCAAATGACATTTTGATATGTGTTTAGGTGATGTT
35668777 TAGGTCCCTT
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.22, C:0.08, G:0.26, T:0.45
Consensus pattern (126 bp):
TAATGTTGATTTGTTTGGGCATGCTATGTTTTGGTATAATTGTCGTGCCTTTGAATGATATATTG
GTTAGTTGAAATAGGGTCTTCAAATGACATTTTGATATGTGTTTAGGTGATGTTCAGCTCC
Found at i:35676000 original size:40 final size:40
Alignment explanation
Indices: 35675927--35676243 Score: 341
Period size: 40 Copynumber: 8.0 Consensus size: 40
35675917 TATATAAAGT
* * * * *
35675927 ACATACGTGCCCCTAG-TCGTACTTCGATACCCCTAAATGT
1 ACATACATGCCCCT-GTTTGTACTTCGGTACCCCTGAATGC
* * ** *
35675967 ATACACATGCCTTTGTTTGTACTTCGGTACCCCTGAACGC
1 ACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAATGC
* *
35676007 ACATACATGCCCCTATTTGTACTTTGGTACCCCTGAATGC
1 ACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAATGC
* * *
35676047 ACATACATGCCCCTGTTTGTGCTTCGGTACCCTTAAATGC
1 ACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAATGC
** *
35676087 ACATAGGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGG
1 ACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAATGC
* *
35676127 ACATACTTGCCCCTGTTTATACTTCGGTACCCCTGAATGC
1 ACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAATGC
* * **
35676167 ACATACATGCCCCTATTTATACTTTAGTACCCCTGAATGC
1 ACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAATGC
* * * * * *
35676207 ACATACGTG-CTCTATTTATACTTTGGTAGCCCTGAAT
1 ACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAAT
35676244 CAAATAGTAT
Statistics
Matches: 236, Mismatches: 40, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
39 26 0.11
40 210 0.89
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.32
Consensus pattern (40 bp):
ACATACATGCCCCTGTTTGTACTTCGGTACCCCTGAATGC
Found at i:35676121 original size:20 final size:20
Alignment explanation
Indices: 35676096--35676161 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
35676086 CACATAGGTG
35676096 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * * *
35676116 CCCCTGAATGGACATAC-TTG
1 CCCCTGTTTGTAC-TTCGGTA
*
35676136 CCCCTGTTTATACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
35676156 CCCCTG
1 CCCCTG
35676162 AATGCACATA
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:35679174 original size:30 final size:30
Alignment explanation
Indices: 35679097--35679178 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
35679087 GGGGTCACAC
* * *
35679097 GGCCGTGTGCCTCATACAACAATGTGGCCA
1 GGCCGTGTGCCTCACACGACTATGTGGCCA
*
35679127 GGCCGTGTGCCTCACACGACTGTGTGGCCA
1 GGCCGTGTGCCTCACACGACTATGTGGCCA
*
35679157 GGCTGTGTGCCTCACACGACTA
1 GGCCGTGTGCCTCACACGACTA
35679179 AGAAACACGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.21
Consensus pattern (30 bp):
GGCCGTGTGCCTCACACGACTATGTGGCCA
Found at i:35683256 original size:26 final size:26
Alignment explanation
Indices: 35683189--35683250 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
35683179 CCTGTAAGTG
*
35683189 TTCTGAAACTGATACATGCTATAATA
1 TTCTGAAACTGATATATGCTATAATA
* *
35683215 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATATATGCTATAATA
35683241 TTCTGAAACT
1 TTCTGAAACT
35683251 ACTATAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATATATGCTATAATA
Found at i:35683399 original size:6 final size:6
Alignment explanation
Indices: 35683388--35683418 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
35683378 GTAAATACTA
35683388 AAACTG AAACTG AAACTG AAACTG AAACTG A
1 AAACTG AAACTG AAACTG AAACTG AAACTG A
35683419 TGCATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AAACTG
Found at i:35707987 original size:171 final size:171
Alignment explanation
Indices: 35707696--35708024 Score: 550
Period size: 171 Copynumber: 1.9 Consensus size: 171
35707686 GCAACAAGAG
* * * * *
35707696 AGCTTTAGACTGTACTAACTAAGGCTCATGTTTTGGTACAGCCTGAACCTGGAAAGGAGTTTATG
1 AGCTTAAGACTGTACTAACTAAGGCTCATGTTTTGGTACAGCCTGAACCTGAAAAAGAGTTCACG
*
35707761 GTTTACAATGATGCATCACATGTCGGTTTGGGATGTGTGTTGATGCAGGATGGAAAGGTGGTTGC
66 GTTTACAATGATGCATCACATGTCGGTTTGGGATATGTGTTGATGCAGGATGGAAAGGTGGTTGC
* *
35707826 ATATGTGTCTTGCTAGCTTAAGACACACGAGGGCTTTGAGA
131 ATATGTGTCTCGCCAGCTTAAGACACACGAGGGCTTTGAGA
* * *
35707867 AGCTTAAGACTGTACTGACTGAGGCTCATGTTTTGGTACAGCCTGAACTTGAAAAAGAGTTCACG
1 AGCTTAAGACTGTACTAACTAAGGCTCATGTTTTGGTACAGCCTGAACCTGAAAAAGAGTTCACG
*
35707932 GTTTACAATGATGCATCACATGTCGGTTTGGGATATGTTTTGATGCAGGATGGAAAGGTGGTTGC
66 GTTTACAATGATGCATCACATGTCGGTTTGGGATATGTGTTGATGCAGGATGGAAAGGTGGTTGC
35707997 ATATGTGTCTCGCCAGCTTAAGACACAC
131 ATATGTGTCTCGCCAGCTTAAGACACAC
35708025 AAGGTGAACT
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
171 146 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (171 bp):
AGCTTAAGACTGTACTAACTAAGGCTCATGTTTTGGTACAGCCTGAACCTGAAAAAGAGTTCACG
GTTTACAATGATGCATCACATGTCGGTTTGGGATATGTGTTGATGCAGGATGGAAAGGTGGTTGC
ATATGTGTCTCGCCAGCTTAAGACACACGAGGGCTTTGAGA
Done.