Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 31
Found at i:2382181 original size:18 final size:18
Alignment explanation
Indices: 2382160--2382204 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
2382150 TCATATCAGT
2382160 ACTATGTGTACTATCGAC
1 ACTATGTGTACTATCGAC
2382178 ACTATGTGTACTATCGAC
1 ACTATGTGTACTATCGAC
2382196 ACTATGTGT
1 ACTATGTGT
2382205 GTAACCCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (18 bp):
ACTATGTGTACTATCGAC
Found at i:2382277 original size:54 final size:54
Alignment explanation
Indices: 2382195--2382300 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
2382185 GTACTATCGA
* *
2382195 CACTATGTGTGTAACCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCTG
1 CACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATTTCTG
*
2382249 CACTATGTGTGCAATCCATGGAATTCATAATGAGTTTGTGAATTACCATTTC
1 CACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATTTC
2382301 AGCATTTAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (54 bp):
CACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATTTCTG
Found at i:2383356 original size:43 final size:42
Alignment explanation
Indices: 2383296--2383385 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 42
2383286 AGAACATTAA
* *
2383296 CGATACTATAGGCTAAAATAGGATGAATATGCTACGTAGTAT
1 CGATACTATAGGCTAAAATACGATGAATATGATACGTAGTAT
* * *
2383338 CGATACTAATTGGCTAAAATACGATGAATCTGATATGTAGTAT
1 CGATACT-ATAGGCTAAAATACGATGAATATGATACGTAGTAT
2383381 CGATA
1 CGATA
2383386 TTGATTCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 7 0.17
43 35 0.83
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (42 bp):
CGATACTATAGGCTAAAATACGATGAATATGATACGTAGTAT
Found at i:2383422 original size:20 final size:19
Alignment explanation
Indices: 2383397--2383446 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2383387 TGATTCAATC
* *
2383397 AGTATCGATATTGAAAGGGG
1 AGTATCGATA-TCAAAGGGA
*
2383417 AGTATCTATATCAAAGGGA
1 AGTATCGATATCAAAGGGA
2383436 AGGTATCGATA
1 A-GTATCGATA
2383447 CCAGTTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (19 bp):
AGTATCGATATCAAAGGGA
Found at i:2383517 original size:22 final size:22
Alignment explanation
Indices: 2383472--2383541 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
2383462 ATGAAAAATG
*
2383472 GTATCGATACCATAGCA---TA
1 GTATCGATACCATAGTATGGTA
2383491 GTATCCG-TACCATAGTATGGTA
1 GTAT-CGATACCATAGTATGGTA
*
2383513 GTATCGATACCATGGTATGG--
1 GTATCGATACCATAGTATGGTA
2383533 GTATCGATA
1 GTATCGATA
2383542 TTAAGGAGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
19 13 0.30
20 11 0.25
21 2 0.05
22 18 0.41
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (22 bp):
GTATCGATACCATAGTATGGTA
Found at i:2383932 original size:54 final size:54
Alignment explanation
Indices: 2383875--2384184 Score: 399
Period size: 54 Copynumber: 5.8 Consensus size: 54
2383865 GGCACTAGGC
* * **
2383875 GTGCATTTCACGGAATTCATCTTATGTGGATGAATAACTGTTTCGACACTAAAC
1 GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGT
* * **
2383929 GTGCATTTAACGGAATTCATCCTATGTGGATGAATATCAATTTCGGA-ACTAAGT
1 GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC-GACACTAAGT
*
2383983 GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGT
1 GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGT
* ** *
2384037 GTGCATTCCACAAAATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGT
1 GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGT
* * * * ** *
2384091 GTGCATTTCACCGAATTCATCCCATGTGGATAAAAAATTGTTTCGGCACTAAGT
1 GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGT
**
2384145 GTGCATTTCATAGAATTCATCCTATGT-GATGAATAACCGT
1 GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGT
2384185 ACAAGCACTA
Statistics
Matches: 220, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
53 10 0.05
54 208 0.95
55 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (54 bp):
GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGT
Found at i:2384216 original size:108 final size:108
Alignment explanation
Indices: 2383887--2384219 Score: 296
Period size: 108 Copynumber: 3.1 Consensus size: 108
2383877 GCATTTCACG
** * * * * ** ** **
2383887 GAATTCATCTTATGTGGATGAATAACTGTTTCGACACTAAACGTGCATTTAACGGAATTCATCCT
1 GAATTCATCCCATGTGGATAAAAAACCGTTTCGGCACTAAGTGTGCATTCCACAAAATTCATCCT
* * * * * **
2383952 ATGTGGATGAATATCAATTTCGGA-ACTAAGTGTGCATTTC-AC
66 ATGTGGATGAATAACCAGTAC-AACACTAAGTGTGCAAATCAAC
* * *
2383994 GGAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTCCACAAAATTCATCC
1 -GAATTCATCCCATGTGGATAAAAAACCGTTTCGGCACTAAGTGTGCATTCCACAAAATTCATCC
* * * ** *
2384059 TATGTGGATGAATAACCATTTCGACACTAAGTGTGCATTTCACC
65 TATGTGGATGAATAACCAGTACAACACTAAGTGTGCAAATCAAC
** * * *
2384103 GAATTCATCCCATGTGGATAAAAAATTGTTTCGGCACTAAGTGTGCATTTCATAGAATTCATCCT
1 GAATTCATCCCATGTGGATAAAAAACCGTTTCGGCACTAAGTGTGCATTCCACAAAATTCATCCT
*
2384168 ATGT-GATGAATAACC-GTACAAGCACTATGTGTGCAAATCAAC
66 ATGTGGATGAATAACCAGTACAA-CACTAAGTGTGCAAATCAAC
2384210 GAAATTCATC
1 G-AATTCATC
2384220 ATGAGTTGAT
Statistics
Matches: 194, Mismatches: 27, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
106 3 0.02
107 30 0.15
108 160 0.82
109 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (108 bp):
GAATTCATCCCATGTGGATAAAAAACCGTTTCGGCACTAAGTGTGCATTCCACAAAATTCATCCT
ATGTGGATGAATAACCAGTACAACACTAAGTGTGCAAATCAAC
Found at i:2384217 original size:162 final size:162
Alignment explanation
Indices: 2383888--2384237 Score: 429
Period size: 162 Copynumber: 2.2 Consensus size: 162
2383878 CATTTCACGG
* ** * *
2383888 AATTCATCTTATGTGGATGAATAACTGTTTCGACACTAAACGTGCATTTAACGGAATTCATCCTA
1 AATTCATCATATGTGGATGAATAACCATTTCGACACTAAACGTGCATTTAACCGAATTCATCCCA
* * *
2383953 TGTGGATGAATATCAATTTCGGAACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAAT
66 TGTGGATAAAAATCAATTTCGGAACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAAT
* * * *
2384018 AACCGTTTCGGCACTAAGTGTGCATTCCACAA
131 AACCGTTACAGCACTAAGTGTGCAATCAACAA
* ** *
2384050 AATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGTGTGCATTTCACCGAATTCATCCCA
1 AATTCATCATATGTGGATGAATAACCATTTCGACACTAAACGTGCATTTAACCGAATTCATCCCA
** * *
2384115 TGTGGATAAAAAAT-TGTTTCGGCACTAAGTGTGCATTTCATAGAATTCATCCTATGT-GATGAA
66 TGTGGAT-AAAAATCAATTTCGGAACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAA
* *
2384178 TAACCG-TACAAGCACTATGTGTGCAAATCAACGA
130 TAACCGTTAC-AGCACTAAGTGTGC-AATCAACAA
*
2384212 AATTCATCATGA-GTTGATGAATAACC
1 AATTCATCAT-ATGTGGATGAATAACC
2384238 GTACATGTAG
Statistics
Matches: 161, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
160 2 0.01
161 24 0.15
162 130 0.81
163 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (162 bp):
AATTCATCATATGTGGATGAATAACCATTTCGACACTAAACGTGCATTTAACCGAATTCATCCCA
TGTGGATAAAAATCAATTTCGGAACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAAT
AACCGTTACAGCACTAAGTGTGCAATCAACAA
Found at i:2384238 original size:55 final size:55
Alignment explanation
Indices: 2384171--2384735 Score: 713
Period size: 55 Copynumber: 10.3 Consensus size: 55
2384161 TCATCCTATG
*
2384171 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCAACGAAATTCATCATGAGT
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
* * * * * * *
2384226 TGATGAATAACCGTACATGTAGTATGTGTGCAAATCTATGGAATTCATCACGAGT
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
* *
2384281 TGATGAATAACCGTACAGGCACTATGTGTGCAAATCCATGAAATTCATCATGAGT
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
* * *
2384336 TAATGAATATCCGTACAAGCACTATGTGTGCAAATCCACAAAATTCATCATGAGT
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
* * * * * * *
2384391 TGATGAATAATCATACATGCACTATGTATGCAAACCCATGAAATTAATCATGAGT
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
* * *
2384446 TGATGAATAACCGTAC-AGACACTATGTGTACAAATCCACGGAATTCATTATGA-T
1 TGATGAATAACCGTACAAG-CACTATGTGTGCAAATCCACGAAATTCATCATGAGT
* *
2384500 TGATGAATAACCGTACAGGCACTATGTGTGCAAATCCATGAAA-TCTATCATGAGT
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTC-ATCATGAGT
* * * *
2384555 TGATGAATAACAGTACATGCATTATGTGTGCAAATCCACGAAATTCATCATTAGT
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
* * * * * * *
2384610 TGATGAATAACCGTACATGAACTATATGTGCAAATCCACGGAATTAATCATTAGA
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
* * * * *
2384665 TGATGAATAACCGTACAAGAACTACGTGTGCAAATCCACGGAATTAATTATGAGT
1 TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
*
2384720 TGATGAATAACTGTAC
1 TGATGAATAACCGTAC
2384736 TGGTGTGCAA
Statistics
Matches: 443, Mismatches: 62, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.00
54 45 0.10
55 394 0.89
56 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (55 bp):
TGATGAATAACCGTACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGT
Found at i:2389583 original size:20 final size:21
Alignment explanation
Indices: 2389539--2389583 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2389529 ATGGTATTGG
*
2389539 TACCATAGTATGGTAGTATCGA
1 TACCATAGTATGG-AGTATCAA
*
2389561 TACCATGGTATGG-GTATCAA
1 TACCATAGTATGGAGTATCAA
2389581 TAC
1 TAC
2389584 TGATGAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (21 bp):
TACCATAGTATGGAGTATCAA
Found at i:2389965 original size:54 final size:54
Alignment explanation
Indices: 2389907--2390387 Score: 632
Period size: 54 Copynumber: 8.9 Consensus size: 54
2389897 TTACCAAATA
** ** *
2389907 GGCACTAAGCATGCATTTCACAGAATTCATCCTATGTGGATGAATAATTGTTTG
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
2389961 GGCACTGAAG-GTTCATTTCACGGAATTCAT-CTGATGTGGATGAATAA-CTTTTC
1 GGCACT-AAGTGTGCATTTCACAGAATTCATCCT-ATGTGGATGAATAACCGTTTC
* * *
2390014 GACACTAAAG-GTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACT-AAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
2390068 GGCAATAAGTGTGCATTTCACGGAATTCATCCTATATGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
2390122 GGCACTAAGTCTGCATTTCACAGAATACATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
2390176 GGCACTAAGTGTGCATTTCAC-GAAATACATCCTATCTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAG-AATTCATCCTATGTGGATGAATAACCGTTTC
* * *
2390230 GACACTAAGTGTGCATTTCATAGAATTCATCCTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
2390284 GGAACTAAGTGTGCATTTCACAGAATTCATCATATATGGATGAATAACCTTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
2390338 GGCACTAAGTGTGCATTTCACGGAATTCATGCTATGT-GATGAATAACCGT
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGT
2390388 ACAACACTAT
Statistics
Matches: 380, Mismatches: 40, Indels: 15
0.87 0.09 0.03
Matches are distributed among these distances:
53 62 0.16
54 314 0.83
55 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:2390548 original size:55 final size:55
Alignment explanation
Indices: 2390374--2390847 Score: 654
Period size: 55 Copynumber: 8.6 Consensus size: 55
2390364 TCATGCTATG
* * *
2390374 TGATGAATAACCGTACA-ACACTATGTGTGTAAATCCACATAATTCATCATGAGT
1 TGATGAATAACCGTACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGT
* *
2390428 TGATGAATAACAGTACATGCACTATGTGTGCAAAATCCACGGAATTCATCATGAGT
1 TGATGAATAACCGTACATGCACTATGTGTGC-AAATCCACAGAATTCATCATGAGT
*
2390484 TGATGAATAACCGTACAGGCACTATGTGTGCAAATCCAC-GAAATTCATCATGAGT
1 TGATGAATAACCGTACATGCACTATGTGTGCAAATCCACAG-AATTCATCATGAGT
*
2390539 TGATAAATAACCGTACA-GACACTATGTGTGCAAATCCACAGAATTCATCATGAGT
1 TGATGAATAACCGTACATG-CACTATGTGTGCAAATCCACAGAATTCATCATGAGT
* *
2390594 TGATGAATAACCGTACATGCACTATGTGTGCAAATCCAC-GAAATTAATCATGAGA
1 TGATGAATAACCGTACATGCACTATGTGTGCAAATCCACAG-AATTCATCATGAGT
* * *
2390649 TGATGAATAATCGTATATGCACTATGTGTGCAAATCCACAGAATTCATTATGAGT
1 TGATGAATAACCGTACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGT
* **
2390704 TGATGAATAACCGTACAGGCACTATGTGTGTGAATCCAC-GAAATTCATCATGAGT
1 TGATGAATAACCGTACATGCACTATGTGTGCAAATCCACAG-AATTCATCATGAGT
* * ** * *
2390759 TGATGAATAACCGTACATGCACTAT-TGTGTAAATCTACAGAATGAATCATTAGA
1 TGATGAATAACCGTACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGT
* *
2390813 TGATGAATAACCGTACAAGCACTATGTGTGTAAAT
1 TGATGAATAACCGTACATGCACTATGTGTGCAAAT
2390848 GAATAACTGT
Statistics
Matches: 379, Mismatches: 30, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
54 65 0.17
55 260 0.69
56 54 0.14
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (55 bp):
TGATGAATAACCGTACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGT
Found at i:2390853 original size:31 final size:31
Alignment explanation
Indices: 2390815--2390873 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2390805 TCATTAGATG
*
2390815 ATGAATAACCGTACAAGCACTATGTGTGTAA
1 ATGAATAACCGTACAAGCACGATGTGTGTAA
* *
2390846 ATGAATAACTGTACAGGCACGATGTGTG
1 ATGAATAACCGTACAAGCACGATGTGTG
2390874 CAACTGACGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (31 bp):
ATGAATAACCGTACAAGCACGATGTGTGTAA
Found at i:2413855 original size:23 final size:24
Alignment explanation
Indices: 2413825--2413874 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
2413815 AGCTCCAGAG
2413825 TAAAGTAGGAAAAA-GGGCAAAGA
1 TAAAGTAGGAAAAATGGGCAAAGA
*
2413848 TAAAGTAGGAAAAATTGGCAAAGA
1 TAAAGTAGGAAAAATGGGCAAAGA
2413872 TAA
1 TAA
2413875 TAATGGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.56, C:0.04, G:0.26, T:0.14
Consensus pattern (24 bp):
TAAAGTAGGAAAAATGGGCAAAGA
Found at i:2414398 original size:109 final size:111
Alignment explanation
Indices: 2414181--2414407 Score: 345
Period size: 109 Copynumber: 2.1 Consensus size: 111
2414171 GTTATAGGTG
* *
2414181 CATTTCGACATACTTTGTGTATGATAGTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTT
1 CATTTCGACATACTTCGTGTATGAAAGTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTT
* *
2414246 CGGCATAAAAGGTGCCACCCATTGTATTCATAATGTGGTGAATTAC
66 CGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
* *
2414292 CATTTCGACATACTTCGTGTATGAAAGTTATCGATCGATTTT-TCTTAATGTATAACTGTGC-TT
1 CATTTCGACATACTTCGTGTATGAAAG-TATCGATCGATTTTGT-TTAATGCATAACGGTGCATT
*
2414355 TTCGGC-TAAAA-GTGCCACCCATGGTATTCATAATGAGGTGAATTAT
64 TTCGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
2414401 CATTTCG
1 CATTTCG
2414408 GCACTTCGGT
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
109 39 0.36
110 5 0.05
111 34 0.32
112 29 0.27
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (111 bp):
CATTTCGACATACTTCGTGTATGAAAGTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTT
CGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
Found at i:2420448 original size:20 final size:20
Alignment explanation
Indices: 2420415--2420472 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2420405 AAATTCATAA
2420415 TTTA-TTTCAGATTCATAGC
1 TTTACTTTCAGATTCATAGC
* * *
2420434 TTTACTTTTAGATTCTTAAC
1 TTTACTTTCAGATTCATAGC
*
2420454 TTTACTTTCAGAATCATAG
1 TTTACTTTCAGATTCATAG
2420473 TCAACTGTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.48
Consensus pattern (20 bp):
TTTACTTTCAGATTCATAGC
Found at i:2423273 original size:21 final size:20
Alignment explanation
Indices: 2423243--2423283 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
2423233 ATGCGCTTTA
*
2423243 TTTATTTATAACTATTAACT
1 TTTATTTATAACAATTAACT
2423263 TTTATTTTATAACAATTAACT
1 TTTA-TTTATAACAATTAACT
2423284 ACGAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTTATAACAATTAACT
Found at i:2423434 original size:138 final size:135
Alignment explanation
Indices: 2423279--2423712 Score: 508
Period size: 138 Copynumber: 3.2 Consensus size: 135
2423269 TTATAACAAT
* * *
2423279 TAACTACGAACTTTTATTTTACTGCCCTTTAATCATTATTATTTATTTATTTATTTATTTACTGA
1 TAACTACTAACTTTTATTTTATTGCACTTTAATCATT-TTATTTATTTATTTATTTATTTAC-G-
* ** * *
2423344 TTCTAATATTCGATTTGGCCTTGTGGTGACCCGATCATGGGTATGATCCGCATTATTATGGTTCT
63 TTCTAATATTCGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCTGCATTATTATGGTTCA
*
2423409 GAATCTGC
128 GACTCTGC
* *
2423417 TAATTACTAACTTTTATTTTATTGCACTGTAATCATTGTTATTTATTTATTTATTTATTTACCGT
1 TAACTACTAACTTTTATTTTATTGCACTTTAATCATT-TTATTTATTTATTTATTTATTTA-CG-
* * ** *
2423482 TTCTATTATTCGATTCAGCCTTGTGGTGACTAGATCCGGGGTATAATCTGCATTATTATGGTTCA
63 TTCTAATATTCGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCTGCATTATTATGGTTCA
2423547 GACTCTGC
128 GACTCTGC
* * * * *
2423555 TAACTATTGACATTTATTTTATTGCATTTTAA-C-TTTTGTTTATTTATTTA-TTATTT-C---C
1 TAACTACTAACTTTTATTTTATTGCACTTTAATCATTTTATTTATTTATTTATTTATTTACGTTC
* * * *
2423613 -AAAATTTGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATATGCATTATTATGGATT-GGA
66 TAATATTCGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCTGCATTATTATGG-TTCAGA
2423676 CTCTGC
130 CTCTGC
*
2423682 TAACTACTAACTTTTATTTTATTGCATTTTA
1 TAACTACTAACTTTTATTTTATTGCACTTTA
2423713 TTTATGTTAT
Statistics
Matches: 257, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
127 85 0.33
128 3 0.01
132 1 0.00
134 6 0.02
135 14 0.05
136 2 0.01
137 1 0.00
138 144 0.56
139 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (135 bp):
TAACTACTAACTTTTATTTTATTGCACTTTAATCATTTTATTTATTTATTTATTTATTTACGTTC
TAATATTCGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCTGCATTATTATGGTTCAGAC
TCTGC
Found at i:2423722 original size:19 final size:19
Alignment explanation
Indices: 2423694--2423733 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2423684 ACTACTAACT
* *
2423694 TTTATTTTATTGCATTTTA
1 TTTATGTTATTGAATTTTA
*
2423713 TTTATGTTATTTAATTTTA
1 TTTATGTTATTGAATTTTA
2423732 TT
1 TT
2423734 CACCTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTATGTTATTGAATTTTA
Found at i:2423815 original size:26 final size:26
Alignment explanation
Indices: 2423767--2423825 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
2423757 AAATTTTAAA
* *
2423767 TTTTTATTTTTTTACTTTTTTTATTGT
1 TTTTTATTATTGTACTTTTTTTATT-T
2423794 TTTTTATTATTGTAC-TTTTTTATTT
1 TTTTTATTATTGTACTTTTTTTATTT
2423819 TATTTTA
1 T-TTTTA
2423826 ATTAAGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 14 0.48
27 13 0.45
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.78
Consensus pattern (26 bp):
TTTTTATTATTGTACTTTTTTTATTT
Found at i:2423824 original size:27 final size:28
Alignment explanation
Indices: 2423766--2423829 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
2423756 TAAATTTTAA
* *
2423766 ATTTTTATTTTTTTACTTTTTTTATTGT
1 ATTTTTATTATTGTACTTTTTTTATTGT
*
2423794 -TTTTTATTATTGTAC-TTTTTTATTTT
1 ATTTTTATTATTGTACTTTTTTTATTGT
*
2423820 ATTTTAATTA
1 ATTTTTATTA
2423830 AGTTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (28 bp):
ATTTTTATTATTGTACTTTTTTTATTGT
Found at i:2431237 original size:2 final size:2
Alignment explanation
Indices: 2431230--2431263 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2431220 TGATATACGA
2431230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2431264 TGTAGTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2431921 original size:21 final size:21
Alignment explanation
Indices: 2431897--2431937 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
2431887 TTTACTATTT
2431897 ATAATTTTATGGGATGAAAAA
1 ATAATTTTATGGGATGAAAAA
2431918 ATAATTTTATGGGATGAAAA
1 ATAATTTTATGGGATGAAAA
2431938 TAGTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (21 bp):
ATAATTTTATGGGATGAAAAA
Found at i:2431946 original size:19 final size:20
Alignment explanation
Indices: 2431897--2431946 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
2431887 TTTACTATTT
*
2431897 ATAATTTTATGGGATGAAAAA
1 ATAATATTATGGGATG-AAAA
*
2431918 ATAATTTTATGGGATG-AAA
1 ATAATATTATGGGATGAAAA
*
2431937 ATAGTATTAT
1 ATAATATTAT
2431947 TGTAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (20 bp):
ATAATATTATGGGATGAAAA
Found at i:2432010 original size:17 final size:17
Alignment explanation
Indices: 2431988--2432020 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2431978 TACTACCATA
2431988 ATATTAT-TTGTTATATC
1 ATATTATATT-TTATATC
2432005 ATATTATATTTTATAT
1 ATATTATATTTTATAT
2432021 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTATATTTTATATC
Found at i:2433083 original size:17 final size:19
Alignment explanation
Indices: 2433040--2433084 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2433030 TATAAATAAA
2433040 TACATAACATAAAAAATATG
1 TACAT-ACATAAAAAATATG
*
2433060 TACATACATAAAGAAT-TG
1 TACATACATAAAAAATATG
2433078 -ACATACA
1 TACATACA
2433085 AGCAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 10 0.42
20 5 0.21
ACGTcount: A:0.56, C:0.13, G:0.07, T:0.24
Consensus pattern (19 bp):
TACATACATAAAAAATATG
Found at i:2433849 original size:19 final size:20
Alignment explanation
Indices: 2433819--2433869 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
2433809 TAATAAATTC
*
2433819 TTAAAAATAATTAATCAAAA
1 TTAAAAATAATTAACCAAAA
2433839 TTAAAAA-AATTAACCAAAA
1 TTAAAAATAATTAACCAAAA
*
2433858 TAAATAAATAAT
1 TTAA-AAATAAT
2433870 AAACATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 14 0.52
20 10 0.37
21 3 0.11
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAAAAATAATTAACCAAAA
Found at i:2435403 original size:45 final size:45
Alignment explanation
Indices: 2435352--2435636 Score: 390
Period size: 45 Copynumber: 6.3 Consensus size: 45
2435342 GAATACAATG
* * * *
2435352 AGTGGCACCTTTTGTGCCTATAATGCACTGTTATGCATTTTCATC
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
* * *
2435397 AGTGGCACATTTTATGGCGATAATACACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
* * ** * *
2435442 AGTGGCACCTTTTATGTCGATAATACACTATTATACCTTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
* * *
2435487 AGTGGCATCTTTTATGCAGATAATGCACCATTATGCATTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
*
2435532 AATGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
* *
2435577 AGTGGCACCTTTTATGCCTATAATGCACCGTTATGTATTTTCATT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
*
2435622 AGTGGCACATTTTAT
1 AGTGGCACCTTTTAT
2435637 TCATTTATTT
Statistics
Matches: 212, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 212 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.40
Consensus pattern (45 bp):
AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTTTCATT
Found at i:2435547 original size:26 final size:26
Alignment explanation
Indices: 2435517--2435593 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
2435507 TAATGCACCA
2435517 TTATGCATTTTCATTAATGGCACCTT
1 TTATGCATTTTCATTAATGGCACCTT
*
2435543 TTATGC-----CGA-TAAT-GCACC-G
1 TTATGCATTTTC-ATTAATGGCACCTT
*
2435562 TTATGCATTTTCATTAGTGGCACCTT
1 TTATGCATTTTCATTAATGGCACCTT
2435588 TTATGC
1 TTATGC
2435594 CTATAATGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 18
0.65 0.05 0.30
Matches are distributed among these distances:
19 6 0.15
20 5 0.13
21 5 0.13
22 1 0.03
23 1 0.03
24 4 0.10
25 5 0.13
26 12 0.31
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.42
Consensus pattern (26 bp):
TTATGCATTTTCATTAATGGCACCTT
Found at i:2435584 original size:25 final size:25
Alignment explanation
Indices: 2435556--2435629 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
2435546 TGCCGATAAT
2435556 GCACCGTTATGCATTTTCATTAGTG
1 GCACCGTTATGCATTTTCATTAGTG
* * *
2435581 GCACCTTTTATGC---CT-A-TAAT-
1 GCACC-GTTATGCATTTTCATTAGTG
*
2435601 GCACCGTTATGTATTTTCATTAGTG
1 GCACCGTTATGCATTTTCATTAGTG
2435626 GCAC
1 GCAC
2435630 ATTTTATTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
19 5 0.14
20 5 0.14
21 3 0.09
22 2 0.06
23 2 0.06
24 3 0.09
25 9 0.26
26 6 0.17
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
GCACCGTTATGCATTTTCATTAGTG
Found at i:2440806 original size:75 final size:74
Alignment explanation
Indices: 2440670--2441066 Score: 539
Period size: 75 Copynumber: 5.3 Consensus size: 74
2440660 AAAGATGCGT
* * * *
2440670 TACCTATTACATTAAAATACCTACCGGTTTTTTGAAGGTTGCTAATAATATAAACGATAAAACAA
1 TACCTATTACATTAAAATACCTACCGTTTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAACAA
2440735 AATAGGCTC
66 AATAGGCTC
*
2440744 TATCTATTACATTAAAATACCTACCAGTTTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAA-A
1 TACCTATTACATTAAAATACCTACC-GTTTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAACA
2440808 AAATAGGCGT-
65 AAATAGGC-TC
* *
2440818 TACCTATTACATTAAACTACCTACCGGTTTTTTTTAAAGTTGCTAATAATGTAAACGGTAAAACA
1 TACCTATTACATTAAAATACCTACC-GTTTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAAC-
2440883 AAAATAGGCGT-
64 AAAATAGGC-TC
** * * *
2440894 TACCTATTACATTAAAATACCTATAGGTTTTTTTTAGGGTTGTTAATAATGTAAACGGTAAAAAA
1 TACCTATTACATTAAAATACCTA-CCGTTTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAACA
*
2440959 AAATAGGCGC
65 AAATAGGCTC
* * * *
2440969 TACCTATTACATTAAACTACCTACCGATTTTTTTTAAGGTTGTTAATAATGTAAACGATAAAATA
1 TACCTATTACATTAAAATACCTACCG-TTTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAACA
* *
2441034 AAATAAGCGC
65 AAATAGGCTC
2441044 TACCTATTACATTAAAATACCTA
1 TACCTATTACATTAAAATACCTA
2441067 TTACATTAAA
Statistics
Matches: 291, Mismatches: 25, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
74 93 0.32
75 131 0.45
76 67 0.23
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (74 bp):
TACCTATTACATTAAAATACCTACCGTTTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAACAA
AATAGGCTC
Found at i:2440924 original size:150 final size:149
Alignment explanation
Indices: 2440666--2441067 Score: 612
Period size: 150 Copynumber: 2.7 Consensus size: 149
2440656 AATAAAAGAT
* * *
2440666 GCGTTACCTATTACATTAAAATACCTACCGG-TTTTTTGAAGGTTGCTAATAATATAAACGATAA
1 GCGTTACCTATTACATTAAACTACCTACCGGTTTTTTTTAAGGTTGCTAATAATGTAAACGATAA
* *
2440730 AACAAAATAGGC-TCTATCTATTACATTAAAATACCTACCAGTTTTTTTTAAGGTTGCTAATAAT
66 AACAAAATAGGCGT-TACCTATTACATTAAAATACCTA-TAGTTTTTTTTAAGGTTGCTAATAAT
2440794 GTAAACGGT-AAAAAAAATAG
129 GTAAACGGTAAAAAAAAATAG
* *
2440814 GCGTTACCTATTACATTAAACTACCTACCGGTTTTTTTTAAAGTTGCTAATAATGTAAACGGTAA
1 GCGTTACCTATTACATTAAACTACCTACCGGTTTTTTTTAAGGTTGCTAATAATGTAAACGATAA
* *
2440879 AACAAAAATAGGCGTTACCTATTACATTAAAATACCTATAGGTTTTTTTTAGGGTTGTTAATAAT
66 AAC-AAAATAGGCGTTACCTATTACATTAAAATACCTATA-GTTTTTTTTAAGGTTGCTAATAAT
2440944 GTAAACGGTAAAAAAAAATAG
129 GTAAACGGTAAAAAAAAATAG
* * *
2440965 GCGCTACCTATTACATTAAACTACCTACCGATTTTTTTTAAGGTTGTTAATAATGTAAACGATAA
1 GCGTTACCTATTACATTAAACTACCTACCGGTTTTTTTTAAGGTTGCTAATAATGTAAACGATAA
* * *
2441030 AATAAAATAAGCGCTACCTATTACATTAAAATACCTAT
66 AACAAAATAGGCGTTACCTATTACATTAAAATACCTAT
2441068 TACATTAAAC
Statistics
Matches: 232, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
148 30 0.13
149 33 0.14
150 95 0.41
151 74 0.32
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (149 bp):
GCGTTACCTATTACATTAAACTACCTACCGGTTTTTTTTAAGGTTGCTAATAATGTAAACGATAA
AACAAAATAGGCGTTACCTATTACATTAAAATACCTATAGTTTTTTTTAAGGTTGCTAATAATGT
AAACGGTAAAAAAAAATAG
Found at i:2441066 original size:17 final size:17
Alignment explanation
Indices: 2441044--2441082 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2441034 AAATAAGCGC
2441044 TACCTATTACATTAAAA
1 TACCTATTACATTAAAA
*
2441061 TACCTATTACATTAAAC
1 TACCTATTACATTAAAA
2441078 TACCT
1 TACCT
2441083 CCCAGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (17 bp):
TACCTATTACATTAAAA
Found at i:2445777 original size:21 final size:21
Alignment explanation
Indices: 2445751--2445798 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2445741 CTATGGACCT
* *
2445751 CATATATGTCATGAAGGAAGA
1 CATATATATCATGAAGGAACA
* *
2445772 CATATATATCCTGAAGGACCA
1 CATATATATCATGAAGGAACA
2445793 CATATA
1 CATATA
2445799 ATTCTCCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (21 bp):
CATATATATCATGAAGGAACA
Found at i:2445811 original size:23 final size:24
Alignment explanation
Indices: 2445780--2445826 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
2445770 GACATATATA
2445780 TCCTGAAGGACCACATATA-ATTC
1 TCCTGAAGGACCACATATATATTC
*
2445803 TCCTTAAGGACCACATATATATTC
1 TCCTGAAGGACCACATATATATTC
2445827 CAAAGGACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (24 bp):
TCCTGAAGGACCACATATATATTC
Found at i:2445834 original size:21 final size:22
Alignment explanation
Indices: 2445771--2445841 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 22
2445761 ATGAAGGAAG
*
2445771 ACATATATA-TCCTGAAGGACC
1 ACATATATATTCCTAAAGGACC
*
2445792 ACATATA-ATTCTCCTTAAGGACC
1 ACATATATA-T-TCCTAAAGGACC
2445815 ACATATATATTCC-AAAGGACC
1 ACATATATATTCCTAAAGGACC
*
2445836 AAATAT
1 ACATAT
2445842 GTGTTCCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 1 0.02
21 19 0.44
22 3 0.07
23 19 0.44
24 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.27
Consensus pattern (22 bp):
ACATATATATTCCTAAAGGACC
Found at i:2445848 original size:21 final size:21
Alignment explanation
Indices: 2445808--2445852 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2445798 AATTCTCCTT
*
2445808 AAGGACCACATATATATTCCA
1 AAGGACCAAATATATATTCCA
* *
2445829 AAGGACCAAATATGTGTTCCA
1 AAGGACCAAATATATATTCCA
2445850 AAG
1 AAG
2445853 AACTGCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (21 bp):
AAGGACCAAATATATATTCCA
Found at i:2446581 original size:23 final size:21
Alignment explanation
Indices: 2446547--2446602 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
2446537 GTACCCAAGG
*
2446547 TATGGTACCGATACTTCCTTCAC
1 TATGGTATCGATACTT-CTTC-C
*
2446570 TATGGTATCGATA-TTGTTCC
1 TATGGTATCGATACTTCTTCC
2446590 T-TGGTATCGATAC
1 TATGGTATCGATAC
2446603 CCTTTCCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 3 0.10
22 2 0.07
23 12 0.40
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (21 bp):
TATGGTATCGATACTTCTTCC
Found at i:2450868 original size:17 final size:17
Alignment explanation
Indices: 2450846--2450888 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
2450836 TCCCAAAGAG
2450846 AAAATTACAAATTTCAC
1 AAAATTACAAATTTCAC
*
2450863 AAAATTATAAATTTCAC
1 AAAATTACAAATTTCAC
*
2450880 AAACTTACA
1 AAAATTACA
2450889 GAAAAACCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTACAAATTTCAC
Found at i:2451674 original size:12 final size:12
Alignment explanation
Indices: 2451652--2451686 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2451642 TAAGATTTTC
2451652 TTTTTGAAAATCA
1 TTTTTG-AAATCA
2451665 TTTTTGAAATCA
1 TTTTTGAAATCA
*
2451677 ATTTTGAAAT
1 TTTTTGAAAT
2451687 ATTACTCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (12 bp):
TTTTTGAAATCA
Found at i:2454018 original size:21 final size:22
Alignment explanation
Indices: 2453964--2454018 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
2453954 CCCGTGAGGG
2453964 GTATCGATACACATTCAAGGAAT
1 GTATCGATACACATTCAAGG-AT
*
2453987 GTATCGGTACACATTCAAGG-T
1 GTATCGATACACATTCAAGGAT
*
2454008 GTATTGATACA
1 GTATCGATACA
2454019 TAGCAAGGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.34
23 19 0.66
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (22 bp):
GTATCGATACACATTCAAGGAT
Found at i:2456715 original size:2 final size:2
Alignment explanation
Indices: 2456702--2456732 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2456692 TTTACCCCTT
*
2456702 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2456733 TATTATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2456874 original size:2 final size:2
Alignment explanation
Indices: 2456867--2456925 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
2456857 TTATGTACGT
2456867 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2456909 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
2456926 TTATTTATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2457346 original size:25 final size:23
Alignment explanation
Indices: 2457313--2457394 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 23
2457303 TTTTGTTTTG
*
2457313 TTTTATTTTTATTCATTCTATTA
1 TTTTTTTTTTATTCATTCTATTA
2457336 TTTCGTTTTTTTATTC-TATCTATT-
1 TTT--TTTTTTTATTCAT-TCTATTA
*
2457360 TTTTTATTTTATT-ATTCTATCTA
1 TTTTTTTTTTATTCATTCTAT-TA
2457383 TTTTTTTATTTA
1 TTTTTTT-TTTA
2457395 ATTTTATGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
21 5 0.10
22 11 0.22
23 9 0.18
24 8 0.16
25 16 0.33
ACGTcount: A:0.18, C:0.09, G:0.01, T:0.72
Consensus pattern (23 bp):
TTTTTTTTTTATTCATTCTATTA
Found at i:2465331 original size:14 final size:14
Alignment explanation
Indices: 2465312--2465338 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2465302 GATCGAAACT
2465312 TCAAGATTCCAGAA
1 TCAAGATTCCAGAA
2465326 TCAAGATTCCAGA
1 TCAAGATTCCAGA
2465339 TAGGCAACTG
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:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (14 bp):
TCAAGATTCCAGAA
Found at i:2465834 original size:106 final size:106
Alignment explanation
Indices: 2465668--2466249 Score: 761
Period size: 106 Copynumber: 5.5 Consensus size: 106
2465658 ATATCGTGTC
* * * *
2465668 ACTCGAGACAATACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAGCAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCC
* *
2465733 AAATACAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2465774 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGACTGATTGTCACCAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCC
*
2465839 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * *
2465880 ACTTGAGACAACACAAGTTCAACTTCACAGTGAGGGGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCC
*
2465945 AACTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
2465986 ACTCGACACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCACCAAACAGTTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCC
* * *
2466051 AGTTTCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * *
2466092 ACTCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTAACTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCC
* *
2466157 AATTTCAGAGCCAATTTCAACTTC-CTAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCAC-AGCGAAGGATATTGG
* * * * * ** *
2466198 ACCCAAGACAACACAAGCTCAACTTCACGACGTAGGGGTGGTTGATTGTCAA
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAA
2466250 TTTCAACGTC
Statistics
Matches: 420, Mismatches: 55, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
105 1 0.00
106 419 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2468432 original size:23 final size:23
Alignment explanation
Indices: 2468405--2468453 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2468395 CCACAGCTCA
2468405 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* * *
2468428 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
2468451 TGC
1 TGC
2468454 GTAGTGCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:2468661 original size:100 final size:102
Alignment explanation
Indices: 2468488--2468674 Score: 333
Period size: 100 Copynumber: 1.9 Consensus size: 102
2468478 AGGACCACAT
* *
2468488 ATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGT
1 ATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGT
2468553 TCCAAAG-A-ACATATATGTCCCGAATGACACATATC
66 TCCAAAGAATACATATATGTCCCGAATGACACATATC
*
2468588 ATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGT
1 ATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGT
2468653 TCCAAAGAATACATATATGTCC
66 TCCAAAGAATACATATATGTCC
2468675 TGAAAGGACC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
100 69 0.84
101 1 0.01
102 12 0.15
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (102 bp):
ATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGT
TCCAAAGAATACATATATGTCCCGAATGACACATATC
Found at i:2470222 original size:21 final size:20
Alignment explanation
Indices: 2470179--2470218 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2470169 ATTCTGTCGT
* *
2470179 TTGAAGGGGTATCGGTTCCC
1 TTGAAGGGGTACCGATTCCC
*
2470199 TTGAATGGGTACCGATTCCC
1 TTGAAGGGGTACCGATTCCC
2470219 CTTGCCCAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (20 bp):
TTGAAGGGGTACCGATTCCC
Found at i:2473394 original size:23 final size:23
Alignment explanation
Indices: 2473368--2473428 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
2473358 GCTCATAAAA
2473368 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
2473391 TGCACC-ATAGTGCCACGTAGAAT
1 TGCACCGA-AGTGCCACATAGAAT
*
2473414 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
2473429 TATAATAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:2473611 original size:101 final size:97
Alignment explanation
Indices: 2473443--2473652 Score: 334
Period size: 101 Copynumber: 2.1 Consensus size: 97
2473433 ATAATGTCAT
*
2473443 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTAGTGTCTCACCAG
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAGGGATCAAGTAGTGTCTCACCAG
2473508 ACTTCACACATGTTCCAAAGAATACATATATG-TCCG
66 ACTT--CACATGTTCCAAAG-A-A-ATATATGTTCCG
*
2473544 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCA-GGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAGGGATCAAGTA-GTGTCTCACCA
2473608 GACTTCACATGTTCCAAAGAAATATATGTTCCG
65 GACTTCACATGTTCCAAAGAAATATATGTTCCG
2473641 AAGGACCACATA
1 AAGGACCACATA
2473653 GACCCTCGCT
Statistics
Matches: 105, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
96 7 0.07
97 17 0.16
98 1 0.01
99 14 0.13
100 10 0.10
101 56 0.53
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (97 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAGGGATCAAGTAGTGTCTCACCAG
ACTTCACATGTTCCAAAGAAATATATGTTCCG
Found at i:2475941 original size:18 final size:18
Alignment explanation
Indices: 2475918--2475976 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
2475908 TATACTATTA
2475918 TTTTTCTATTCATTATAT
1 TTTTTCTATTCATTATAT
*
2475936 TTTTTCTATT--TTTTAT
1 TTTTTCTATTCATTATAT
* *
2475952 TTTTATTTATACTATTATAT
1 TTTT-TCTATTC-ATTATAT
2475972 TTTTT
1 TTTTT
2475977 AATTATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.27
17 4 0.12
18 10 0.30
19 1 0.03
20 9 0.27
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTCTATTCATTATAT
Found at i:2476490 original size:24 final size:24
Alignment explanation
Indices: 2476463--2476525 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
2476453 ATTTTATCAT
2476463 TCTATTTTCGT-TTTATTTATTCTA
1 TCTATTTT-GTATTTATTTATTCTA
* *
2476487 TCTATTTTTTATTTTTTTATTCTA
1 TCTATTTTGTATTTATTTATTCTA
*
2476511 TCTATTTTTTATTTA
1 TCTATTTTGTATTTA
2476526 ATTTTATGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (24 bp):
TCTATTTTGTATTTATTTATTCTA
Found at i:2476530 original size:28 final size:24
Alignment explanation
Indices: 2476473--2476524 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 24
2476463 TCTATTTTCG
2476473 TTTTATTTATTCTATCTATTTTTTA
1 TTTT-TTTATTCTATCTATTTTTTA
2476498 TTTTTTTATTCTATCTATTTTTTA
1 TTTTTTTATTCTATCTATTTTTTA
2476522 TTT
1 TTT
2476525 AATTTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTTTATTCTATCTATTTTTTA
Found at i:2483827 original size:21 final size:20
Alignment explanation
Indices: 2483793--2483886 Score: 64
Period size: 21 Copynumber: 4.5 Consensus size: 20
2483783 AATATAAAAT
*
2483793 TGTCCCTAAGGACCTCATATA
1 TGTCCC-AAAGACCTCATATA
2483814 TGTCCCAAATGACCAT-ATATA
1 TGTCCCAAA-GACC-TCATATA
* * * *
2483835 TATCTCGAAAGACCACATATG
1 TGTC-CCAAAGACCTCATATA
**
2483856 TGTCCCAAAGAACGACATATA
1 TGTCCCAAAG-ACCTCATATA
*
2483877 TGTTCCAAAG
1 TGTCCCAAAG
2483887 GATTACATAC
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.12
21 46 0.79
22 5 0.09
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTCCCAAAGACCTCATATA
Found at i:2483894 original size:21 final size:21
Alignment explanation
Indices: 2483856--2483916 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
2483846 ACCACATATG
* * *
2483856 TGTCCCAAAGAACGACATATA
1 TGTCCCAAAGGACTACATACA
* *
2483877 TGTTCCAAAGGATTACATACA
1 TGTCCCAAAGGACTACATACA
*
2483898 TGTCCCGAAGGACTACATA
1 TGTCCCAAAGGACTACATA
2483917 GAACCCTCGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (21 bp):
TGTCCCAAAGGACTACATACA
Found at i:2489456 original size:16 final size:16
Alignment explanation
Indices: 2489435--2489477 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
2489425 ACTCGACAGG
2489435 CACACACGCACGCCCA
1 CACACACGCACGCCCA
2489451 CACACACGCACGCCCA
1 CACACACGCACGCCCA
2489467 CACACACGCAC
1 CACACACGCAC
2489478 ATAGAGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.33, C:0.56, G:0.12, T:0.00
Consensus pattern (16 bp):
CACACACGCACGCCCA
Found at i:2490235 original size:21 final size:22
Alignment explanation
Indices: 2490202--2490245 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2490192 AGTTGATCCA
2490202 TACCGTGTATGATATTTTGTAT
1 TACCGTGTATGATATTTTGTAT
* * *
2490224 TACCTTGT-TGATTTTTTTTAT
1 TACCGTGTATGATATTTTGTAT
2490245 T
1 T
2490246 TCTACGATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (22 bp):
TACCGTGTATGATATTTTGTAT
Found at i:2492260 original size:29 final size:30
Alignment explanation
Indices: 2492228--2492284 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
2492218 GTTTAGAGCT
*
2492228 CTAATTATAAATA-TAAAAAATTGGGAGAC
1 CTAATTATAAATACAAAAAAATTGGGAGAC
2492257 CTAATTATAAATACAAAAAAATTGGGAG
1 CTAATTATAAATACAAAAAAATTGGGAG
2492285 CACTGAGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (30 bp):
CTAATTATAAATACAAAAAAATTGGGAGAC
Found at i:2494392 original size:2 final size:2
Alignment explanation
Indices: 2494385--2494411 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2494375 TACGAAAATA
2494385 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2494412 CTTTTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2494995 original size:15 final size:15
Alignment explanation
Indices: 2494975--2495091 Score: 121
Period size: 15 Copynumber: 7.5 Consensus size: 15
2494965 TAATAAGGTT
2494975 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2494990 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2495005 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
2495020 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
* *
2495034 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
*
2495053 TTGATTTATTTTTAAATA
1 ---ATTTATTTTAAAATA
2495071 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
2495085 ATTTATT
1 ATTTATT
2495092 AGTATAGATT
Statistics
Matches: 87, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
14 23 0.26
15 47 0.54
16 2 0.02
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 3 0.03
22 6 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2495069 original size:22 final size:22
Alignment explanation
Indices: 2495044--2495138 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 22
2495034 AATTATTATA
2495044 AAATATGGATTGATTTATTTTT
1 AAATATGGATTGATTTATTTTT
** * * *
2495066 AAATAATTTATTTTAAATAATTTATT
1 AAAT-ATGGA--TTGATTTATTT-TT
* * *
2495092 -AGTATAGATTGATTTATTTTA
1 AAATATGGATTGATTTATTTTT
2495113 AAATATGGATTGATTTA-TTTT
1 AAATATGGATTGATTTATTTTT
2495134 AAATA
1 AAATA
2495139 ATTTATTAGT
Statistics
Matches: 53, Mismatches: 15, Indels: 11
0.67 0.19 0.14
Matches are distributed among these distances:
21 9 0.17
22 26 0.49
23 3 0.06
24 3 0.06
25 10 0.19
26 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
AAATATGGATTGATTTATTTTT
Found at i:2495109 original size:32 final size:31
Alignment explanation
Indices: 2495071--2495276 Score: 178
Period size: 32 Copynumber: 7.4 Consensus size: 31
2495061 TTTTTAAATA
2495071 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
2495103 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
2495125 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
2495157 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
2495179 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
2495211 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
*
2495233 ATTTATTTTACATAATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTG
2495265 ATTTATTTTAAA
1 ATTTATTTTAAA
2495277 ATATGGATTG
Statistics
Matches: 142, Mismatches: 2, Indels: 60
0.70 0.01 0.29
Matches are distributed among these distances:
22 42 0.30
23 5 0.04
24 6 0.04
26 9 0.06
27 6 0.04
28 9 0.06
30 6 0.04
31 7 0.05
32 52 0.37
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (31 bp):
ATTTATTTTAAATAATTTATTAGTATGATTG
Found at i:2495136 original size:54 final size:54
Alignment explanation
Indices: 2495071--2495293 Score: 419
Period size: 54 Copynumber: 4.1 Consensus size: 54
2495061 TTTTTAAATA
*
2495071 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2495125 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2495179 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
2495233 ATTTATTTTACATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2495287 ATTTATT
1 ATTTATT
2495294 ATTGTAGTTG
Statistics
Matches: 166, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 166 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:2495173 original size:22 final size:22
Alignment explanation
Indices: 2495148--2495190 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2495138 AATTTATTAG
2495148 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2495170 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2495191 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2495272 original size:22 final size:22
Alignment explanation
Indices: 2495247--2495319 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
2495237 ATTTTACATA
2495247 ATTTATTAGTATGTATTGATTT
1 ATTTATTAGTATGTATTGATTT
* * *
2495269 ATTT-TAAAATATGGATTGATTT
1 ATTTAT-TAGTATGTATTGATTT
* *
2495291 A-TTATT-GTAGTTGTATGGATTG
1 ATTTATTAGTA--TGTATTGATTT
2495313 ATTTATT
1 ATTTATT
2495320 TTAAATAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 28 0.74
23 5 0.13
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (22 bp):
ATTTATTAGTATGTATTGATTT
Found at i:2495334 original size:134 final size:134
Alignment explanation
Indices: 2495170--2495529 Score: 587
Period size: 134 Copynumber: 2.7 Consensus size: 134
2495160 TATTTTAAAA
*
2495170 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
*
2495235 TTATTTTACATAATTTATTAGTAT-GTATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
66 TTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
2495299 AGTTG
130 AGTTG
* * *
2495304 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGTATCAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
*
2495369 TTATTTTAAATAATTTATCAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
2495434 GTTG
131 GTTG
* ****
2495438 TATGGATTGATTTATTTTAAATAATTTAGTAGTATGGATTGATTTAAGCAAAAAATATGGATTAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTT-ATTTTAAAATATGGATTAA
*
2495503 TTTATTTTAAATAATTTATTATTATAG
65 TTTATTTTAAATAATTTATTAGTATAG
2495530 TTGTATGGAT
Statistics
Matches: 208, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
134 169 0.81
135 39 0.19
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (134 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
GTTG
Found at i:2495349 original size:32 final size:32
Alignment explanation
Indices: 2495303--2495410 Score: 119
Period size: 32 Copynumber: 3.7 Consensus size: 32
2495293 TATTGTAGTT
*
2495303 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATAGATTGATTTATTTTAAATAATTTATTA
2495335 GTATAGATTGATTTATTTT-AA-AA--TA-T-
1 GTATAGATTGATTTATTTTAAATAATTTATTA
* *
2495361 GTAT-CA---ATTTATTTTAAATAATTTATCA
1 GTATAGATTGATTTATTTTAAATAATTTATTA
2495389 GTATAGATTGATTTATTTTAAA
1 GTATAGATTGATTTATTTTAAA
2495411 ATATGGATTG
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
22 9 0.15
23 2 0.03
24 2 0.03
25 1 0.02
26 6 0.10
27 1 0.02
28 6 0.10
29 1 0.02
30 2 0.03
31 2 0.03
32 30 0.48
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (32 bp):
GTATAGATTGATTTATTTTAAATAATTTATTA
Found at i:2495371 original size:80 final size:80
Alignment explanation
Indices: 2495224--2495373 Score: 248
Period size: 80 Copynumber: 1.9 Consensus size: 80
2495214 TATTTTAAAA
* **
2495224 TATGGATTGATTTATTTTACATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATCAAT
2495289 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
2495304 TATGGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGTATCAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GTATTGATTTATTTTAAAATATGGATCAA
2495368 TTTATT
65 TTTATT
2495374 TTAAATAATT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
80 64 0.98
81 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATCAAT
TTATTATTGTAGTTG
Found at i:2495425 original size:54 final size:54
Alignment explanation
Indices: 2495304--2495427 Score: 212
Period size: 54 Copynumber: 2.3 Consensus size: 54
2495294 ATTGTAGTTG
*
2495304 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATCAGTATAGATTGATTTATTTTAAAA
* **
2495358 TATGTATCAATTTATTTTAAATAATTTATCAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATCAGTATAGATTGATTTATTTTAAAA
2495412 TATGGATTGATTTATT
1 TATGGATTGATTTATT
2495428 ATTGTAGTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATCAGTATAGATTGATTTATTTTAAAA
Found at i:2499050 original size:32 final size:32
Alignment explanation
Indices: 2498980--2499061 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 32
2498970 GCTTTGAGAT
* *
2498980 TAAAATTTTTGAAGTTTTTTTAAAGATTTTAG
1 TAAAAATTTTGAAGTTTTTTTAAAGATTTTAA
* *
2499012 T-GAAATTTTGATA-TTTTTTTTAAGATTTTAA
1 TAAAAATTTTGA-AGTTTTTTTAAAGATTTTAA
2499043 TAAAAA-TTT-AAGTTTTTTT
1 TAAAAATTTTGAAGTTTTTTT
2499062 TATAAAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.02
30 8 0.19
31 28 0.67
32 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (32 bp):
TAAAAATTTTGAAGTTTTTTTAAAGATTTTAA
Found at i:2523397 original size:18 final size:18
Alignment explanation
Indices: 2523370--2523405 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2523360 GGTTTTGCTC
2523370 GCCCCATCCCCGAACCTG
1 GCCCCATCCCCGAACCTG
*
2523388 GCCCCGTCCCCGAACCTG
1 GCCCCATCCCCGAACCTG
2523406 AAATAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.56, G:0.19, T:0.11
Consensus pattern (18 bp):
GCCCCATCCCCGAACCTG
Found at i:2523566 original size:25 final size:25
Alignment explanation
Indices: 2523538--2523593 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
2523528 AATATTTTAT
2523538 ATATAAT-TAATATAAAAAATATAAA
1 ATATAATAT-ATATAAAAAATATAAA
* **
2523563 ATATTATATATATAATTAATATAAA
1 ATATAATATATATAAAAAATATAAA
*
2523588 AAATAA
1 ATATAA
2523594 AAAATATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATAATATATATAAAAAATATAAA
Found at i:2523573 original size:34 final size:34
Alignment explanation
Indices: 2523526--2523610 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
2523516 CCCGAACCCG
* *
2523526 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAA
2523560 AAAATATTATATATATAATTAATATAAAAAATAA
1 AAAATATTATATATATAATTAATATAAAAAATAA
2523594 AAAATATTATATATATA
1 AAAATATTATATATATA
2523611 TATAATCGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAA
Found at i:2523695 original size:25 final size:25
Alignment explanation
Indices: 2523665--2523725 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
2523655 TATCCCTAAT
*
2523665 ACCCGACCCGACCCGATATCATTCA
1 ACCCGACCCGACCCGATAACATTCA
*
2523690 ACCCGACCCGACCTGATAACATTCA
1 ACCCGACCCGACCCGATAACATTCA
2523715 ACCCGACCCGA
1 ACCCGACCCGA
2523726 ACTTGACCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.44, G:0.13, T:0.13
Consensus pattern (25 bp):
ACCCGACCCGACCCGATAACATTCA
Found at i:2536092 original size:27 final size:27
Alignment explanation
Indices: 2536045--2536096 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2536035 CAATTTAATG
*
2536045 TCATGCAACTAATAAACTCATGCAAAT
1 TCATGCAACTAATAAAATCATGCAAAT
*
2536072 TCATGC-ACTAGTAAAAATCATGCAA
1 TCATGCAACTAAT-AAAATCATGCAA
2536097 TGAATGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (27 bp):
TCATGCAACTAATAAAATCATGCAAAT
Found at i:2537603 original size:14 final size:14
Alignment explanation
Indices: 2537584--2537612 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2537574 TCTTTACTTT
2537584 CATTGGTTCTAATG
1 CATTGGTTCTAATG
2537598 CATTGGTTCTAATG
1 CATTGGTTCTAATG
2537612 C
1 C
2537613 TTCTTATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (14 bp):
CATTGGTTCTAATG
Found at i:2542105 original size:345 final size:344
Alignment explanation
Indices: 2541333--2542107 Score: 1104
Period size: 344 Copynumber: 2.2 Consensus size: 344
2541323 TCTCAGTAGG
* * * * *
2541333 CACTTTTTCAGCTACTTTCCAGTTCTCAATTAATGTA-CAGTGTCAGTTACTTTTCAGAGGTCAT
1 CACTGTTTCAGCTACTTTCCAGTGCTCAATTAATGCACCA-TGCCAGCTACTTTTCAGAGGTCAT
* * * ** *
2541397 TTATTGCAACAATAATGAAATGGTTGGCTTATTTTGTTGGACATTTACTGCAAAATTCAAACAAC
65 TTATTGCAGCAATAATGCAACGGTTGAATTATTTTGTTAGACATTTACTGCAAAATTCAAACAAC
* * * * * *
2541462 TTTTCAGAAAACGGGTGAAATAATGGTGTATTGTCATCTTTAGCAATTTTTCAGTGATATATCAT
130 TTTTCAGAAAACGGGTGAAATAATGGCGCATTATCATCTTCAGCAACTTTTCAGTGATATATCAA
*
2541527 TTCAAATCAAATAACGTGTTTTTAAATCAGGAAAAATAATGCACCCTTCTAGCTATTGTTCAGTG
195 TTCAAATCAAATAACGTGTTTTTAAATCAGGAAAAATAATGCACCCTTCCAGCTATTGTTCAGTG
* * *
2541592 AAATACAGACTCAAATCTTAAAACTTTCAGTTTTGAATTATCACTAAAATAAAAAAAATGTGTAT
260 AAATACAAACTCAAATCTTAAAACTTTCAGTGTTGAATTATCACTAAAATAAAAAAAAAGTGTAT
*
2541657 TTAAAACATGCTAAATTATT
325 TTAAAACATGCCAAATTATT
* * * ** * *
2541677 CACAGTTTTAACTACTTTCCAGTGCTCAATTAATGCACTGTGCCATCTACTTTTCAAAGGTCATT
1 CACTGTTTCAGCTACTTTCCAGTGCTCAATTAATGCACCATGCCAGCTACTTTTCAGAGGTCATT
* * * *
2541742 TATTGCAGTAATAATGCAACGGTTGAATTATTTTGTTAGACATTTATTGCAGAATTCAAGCAACT
66 TATTGCAGCAATAATGCAACGGTTGAATTATTTTGTTAGACATTTACTGCAAAATTCAAACAACT
** *
2541807 TTTTGGAAAACGGGTGAAATAGTGGCGCATTATCATCTTCAGCAACTTTTCAGTGATATATCAAT
131 TTTCAGAAAACGGGTGAAATAATGGCGCATTATCATCTTCAGCAACTTTTCAGTGATATATCAAT
* * * * *
2541872 TCAAAT-AGATAACGTGTTTTTAACTCAGGCAAAATAATGCACCCTTCCAGCTATTGTTCGGTGT
196 TCAAATCAAATAACGTGTTTTTAAATCAGGAAAAATAATGCACCCTTCCAGCTATTGTTCAGTGA
*
2541936 AATACAAACTCAAATCTTAAAACTTCTCAGTGTTGAATTATCACTTCAAATAAAAAAAAAGTGTA
261 AATACAAACTCAAATCTTAAAACTT-TCAGTGTTGAATTATCAC-TAAAATAAAAAAAAAGTGTA
2542001 TTTAAAACATGCCAAATTATT
324 TTTAAAACATGCCAAATTATT
* * *
2542022 CACTGTTTCAGCTACTTTTCAGTGCTCAATTAATGCACCATGGCAGCTACTTTTTAGAGGTCATT
1 CACTGTTTCAGCTACTTTCCAGTGCTCAATTAATGCACCATGCCAGCTACTTTTCAGAGGTCATT
2542087 TATTGCAGCAATAATGCAACG
66 TATTGCAGCAATAATGCAACG
2542108 ATTAGCTTTT
Statistics
Matches: 375, Mismatches: 53, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
343 76 0.20
344 186 0.50
345 113 0.30
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (344 bp):
CACTGTTTCAGCTACTTTCCAGTGCTCAATTAATGCACCATGCCAGCTACTTTTCAGAGGTCATT
TATTGCAGCAATAATGCAACGGTTGAATTATTTTGTTAGACATTTACTGCAAAATTCAAACAACT
TTTCAGAAAACGGGTGAAATAATGGCGCATTATCATCTTCAGCAACTTTTCAGTGATATATCAAT
TCAAATCAAATAACGTGTTTTTAAATCAGGAAAAATAATGCACCCTTCCAGCTATTGTTCAGTGA
AATACAAACTCAAATCTTAAAACTTTCAGTGTTGAATTATCACTAAAATAAAAAAAAAGTGTATT
TAAAACATGCCAAATTATT
Found at i:2546176 original size:40 final size:40
Alignment explanation
Indices: 2546121--2546282 Score: 306
Period size: 40 Copynumber: 4.0 Consensus size: 40
2546111 TGCAGGTTTA
2546121 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2546161 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
2546201 TAATACATTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2546241 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2546281 TA
1 TA
2546283 GCAGTACGGT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:2552410 original size:18 final size:17
Alignment explanation
Indices: 2552389--2552432 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
2552379 AAAACTTCAA
2552389 ATTTTGAAAATTAAAATC
1 ATTTTGAAAATTAAAA-C
* *
2552407 ATTTTAAAAATTTAAAC
1 ATTTTGAAAATTAAAAC
2552424 A-TTTGAAAA
1 ATTTTGAAAA
2552433 GTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (17 bp):
ATTTTGAAAATTAAAAC
Found at i:2552422 original size:8 final size:8
Alignment explanation
Indices: 2552409--2552478 Score: 52
Period size: 8 Copynumber: 8.1 Consensus size: 8
2552399 TTAAAATCAT
2552409 TTTAAAAA
1 TTTAAAAA
*
2552417 TTTAAACA
1 TTTAAAAA
2552425 TTTGAAAAGTA
1 TTT-AAAA--A
2552436 TTT-AAAA
1 TTTAAAAA
2552443 TGTTAAAAA
1 T-TTAAAAA
*
2552452 TTTAAATAT
1 TTTAAA-AA
*
2552461 TATTAAACA
1 T-TTAAAAA
2552470 TTTAAAAA
1 TTTAAAAA
2552478 T
1 T
2552479 ATAGAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
7 2 0.04
8 24 0.49
9 14 0.29
10 5 0.10
11 4 0.08
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (8 bp):
TTTAAAAA
Found at i:2552439 original size:27 final size:27
Alignment explanation
Indices: 2552409--2552478 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
2552399 TTAAAATCAT
*
2552409 TTTAAAAATTTAAACATTTGAAA-AGTA
1 TTTAAAAATTTAAAAATTT-AAATAGTA
*
2552436 TTT-AAAATGTTAAAAATTTAAATATTA
1 TTTAAAAAT-TTAAAAATTTAAATAGTA
*
2552463 -TTAAACATTTAAAAAT
1 TTTAAAAATTTAAAAAT
2552479 ATAGAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (27 bp):
TTTAAAAATTTAAAAATTTAAATAGTA
Found at i:2552466 original size:18 final size:18
Alignment explanation
Indices: 2552395--2552504 Score: 70
Period size: 18 Copynumber: 6.2 Consensus size: 18
2552385 TCAAATTTTG
*
2552395 AAAATTAAAATCATT-TTA
1 AAAATTTAAAT-ATTATTA
* *
2552413 AAAATTTAAACATT-TGA
1 AAAATTTAAATATTATTA
*
2552430 AAAGTATTTAAA-A-TGTTA
1 AAA--ATTTAAATATTATTA
2552448 AAAATTTAAATATTATTA
1 AAAATTTAAATATTATTA
* * *
2552466 AACATTTAAA-AATATAGA
1 AAAATTTAAATATTAT-TA
*
2552484 AAAATTCAAATA-TATTA
1 AAAATTTAAATATTATTA
2552501 AAAA
1 AAAA
2552505 CTATATTAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
16 7 0.09
17 19 0.26
18 40 0.54
19 8 0.11
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (18 bp):
AAAATTTAAATATTATTA
Found at i:2553603 original size:16 final size:15
Alignment explanation
Indices: 2553583--2553643 Score: 52
Period size: 16 Copynumber: 4.0 Consensus size: 15
2553573 TAAGTCAAAC
2553583 CGAAAGTAACCCGAA
1 CGAAAGTAACCCGAA
* *
2553598 CTGAAAGCAA-CTGAA
1 C-GAAAGTAACCCGAA
* **
2553613 CGAAAATAACCTAAA
1 CGAAAGTAACCCGAA
2553628 CCGAAAGTAACCCGAA
1 -CGAAAGTAACCCGAA
2553644 TTTAATTTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
14 6 0.17
15 10 0.29
16 19 0.54
ACGTcount: A:0.49, C:0.25, G:0.16, T:0.10
Consensus pattern (15 bp):
CGAAAGTAACCCGAA
Found at i:2554216 original size:60 final size:60
Alignment explanation
Indices: 2554137--2554296 Score: 205
Period size: 60 Copynumber: 2.7 Consensus size: 60
2554127 TGAAAGATCT
* * * ** * * *
2554137 AAAAGTTTAGGGACTAATTTAGAATGAGATTCATAGTTTGGGGATGAAATTTGAATGTTC
1 AAAAGTTTAAGGAATAATTTAGAATGAGAGTCATAGTTTAAGGATAAAATTAGAATATTC
* *
2554197 AAAAGTTTAAGGAGTAATTTAGAATGAGAGTCATAGTTTAAGGATAAAATTAGAATATTT
1 AAAAGTTTAAGGAATAATTTAGAATGAGAGTCATAGTTTAAGGATAAAATTAGAATATTC
*
2554257 AAAAGTTTAAGGAATAATTT-GAAAGGAGAGTCATAGTTTA
1 AAAAGTTTAAGGAATAATTTAG-AATGAGAGTCATAGTTTA
2554297 GAGACATATG
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
59 1 0.01
60 87 0.99
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (60 bp):
AAAAGTTTAAGGAATAATTTAGAATGAGAGTCATAGTTTAAGGATAAAATTAGAATATTC
Found at i:2554235 original size:31 final size:31
Alignment explanation
Indices: 2554140--2554296 Score: 96
Period size: 31 Copynumber: 5.2 Consensus size: 31
2554130 AAGATCTAAA
* *
2554140 AGTTTAGGGACTAATTTAGAATGAGATTCAT
1 AGTTTAAGGAGTAATTTAGAATGAGATTCAT
** * *
2554171 AGTTTGGGGATGAAATTT-GAAT--G-TTCAAA
1 AGTTTAAGGA-GTAATTTAGAATGAGATTC-AT
*
2554200 AGTTTAAGGAGTAATTTAGAATGAGAGTCAT
1 AGTTTAAGGAGTAATTTAGAATGAGATTCAT
* * * *
2554231 AGTTTAAGGA-TAAAATTAGAAT-A-TTTAAA
1 AGTTTAAGGAGT-AATTTAGAATGAGATTCAT
* * *
2554260 AGTTTAAGGAATAATTT-GAAAGGAGAGTCAT
1 AGTTTAAGGAGTAATTTAG-AATGAGATTCAT
2554291 AGTTTA
1 AGTTTA
2554297 GAGACATATG
Statistics
Matches: 95, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
28 10 0.11
29 32 0.34
30 4 0.04
31 42 0.44
32 7 0.07
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (31 bp):
AGTTTAAGGAGTAATTTAGAATGAGATTCAT
Found at i:2554813 original size:26 final size:26
Alignment explanation
Indices: 2554784--2554837 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
2554774 ACAAACTATA
* *
2554784 GACCTAAAATAAACCGATTCGATATT
1 GACCCAAAATAAAACGATTCGATATT
*
2554810 GACCCGAAATAAAACGATTCGATATT
1 GACCCAAAATAAAACGATTCGATATT
2554836 GA
1 GA
2554838 TCCGACCCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (26 bp):
GACCCAAAATAAAACGATTCGATATT
Found at i:2554842 original size:26 final size:26
Alignment explanation
Indices: 2554790--2554842 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2554780 TATAGACCTA
*
2554790 AAATAAACCGATTCGATATTGACCCG
1 AAATAAAACGATTCGATATTGACCCG
*
2554816 AAATAAAACGATTCGATATTGATCCG
1 AAATAAAACGATTCGATATTGACCCG
2554842 A
1 A
2554843 CCCGAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (26 bp):
AAATAAAACGATTCGATATTGACCCG
Found at i:2554845 original size:31 final size:31
Alignment explanation
Indices: 2554810--2554878 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
2554800 ATTCGATATT
* * *
2554810 GACCCGAAATAAAAC-GATTCGATATTGATCC
1 GACCCGAAAT-AAACTAATCCGATATTGACCC
2554841 GACCCGAAATAAACTAATCCGATATTGACCC
1 GACCCGAAATAAACTAATCCGATATTGACCC
2554872 GACCCGA
1 GACCCGA
2554879 TACCCGAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (31 bp):
GACCCGAAATAAACTAATCCGATATTGACCC
Found at i:2555417 original size:28 final size:28
Alignment explanation
Indices: 2555282--2555417 Score: 71
Period size: 28 Copynumber: 4.7 Consensus size: 28
2555272 TCATTATAAT
* *
2555282 ATATATATATATATG-TTTATAGTATTA
1 ATATATAAATATATGTTTTATATTATTA
* *
2555309 ATATGTAAATAT-TTTATTTATATTATCTTTA
1 ATATATAAATATATGT-TTTATATTA---TTA
* * *
2555340 CATATATATAACTTTTAT-TTTTCTATTATTT
1 -ATATATA-AA--TATATGTTTTATATTATTA
* * * *
2555371 ATATACATATTTATATTTTATATTATTA
1 ATATATAAATATATGTTTTATATTATTA
*
2555399 ATATGTAAATATATGTTTT
1 ATATATAAATATATGTTTT
2555418 TGGTTACTAT
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
26 1 0.01
27 15 0.19
28 33 0.41
29 1 0.01
30 6 0.07
31 5 0.06
32 6 0.07
33 2 0.02
34 8 0.10
35 3 0.04
36 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (28 bp):
ATATATAAATATATGTTTTATATTATTA
Found at i:2555435 original size:90 final size:90
Alignment explanation
Indices: 2555247--2555439 Score: 218
Period size: 90 Copynumber: 2.2 Consensus size: 90
2555237 TATTGTATTA
* *
2555247 TTTATAT-TATATGACTTTTATGTATTCATTATAATATATATATATATATGTTTATAGTATTAAT
1 TTTATATATATATAACTTTTATGTATTCATTATAATATACATATATATATGTTTATAGTATTAAT
*
2555311 ATGTAAATATTTTATTTATATTATC
66 ATGTAAATATTTTATTTAGATTATC
* * * * *
2555336 TTTACATATATATAACTTTTAT-TTTTCTATTATTTATATACATATTTATAT-TTTATATTATTA
1 TTTATATATATATAACTTTTATGTATTC-ATTA-TAATATACATATATATATGTTTATAGTATTA
*
2555399 ATATGTAAATATATGTT-TTT-GGTTA-C
64 ATATGTAAATAT-T-TTATTTAGATTATC
2555425 TATTATATATATATA
1 T-TTATATATATATA
2555440 TATATATATA
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
89 12 0.14
90 55 0.62
91 19 0.22
92 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (90 bp):
TTTATATATATATAACTTTTATGTATTCATTATAATATACATATATATATGTTTATAGTATTAAT
ATGTAAATATTTTATTTAGATTATC
Found at i:2555905 original size:36 final size:35
Alignment explanation
Indices: 2555854--2555922 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
2555844 TTGGTTTTCC
* *
2555854 AGAAAATGAATTACTGGAATTTGAATTACTGGAACT
1 AGAAAATGAAATACTGAAATTTGAATT-CTGGAACT
2555890 AGAAAATGAAATACTGAAATTTGAATTCTGGAA
1 AGAAAATGAAATACTGAAATTTGAATTCTGGAA
2555923 AATGAATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.19
36 25 0.81
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (35 bp):
AGAAAATGAAATACTGAAATTTGAATTCTGGAACT
Found at i:2556216 original size:30 final size:28
Alignment explanation
Indices: 2556166--2556305 Score: 95
Period size: 30 Copynumber: 4.8 Consensus size: 28
2556156 ATTTATTATT
2556166 AAATATTATTTTTATAATTTTATTAATAA
1 AAATATTATTTTTAT-ATTTTATTAATAA
*
2556195 AAATATTAATTTTGTATATTTTAGTGAA-ATA
1 AAATATT-ATTTT-TATATTTTA-TTAATA-A
* * *
2556226 AAATATTATAATTTATATTAATTATTTATTA
1 AAATATTAT-TTTTATATT--TTATTAATAA
* * * *
2556257 AAGTAATAGTTTTATATTTTATT-TTAA
1 AAATATTATTTTTATATTTTATTAATAA
**
2556284 AAATATTAATTAGTATATTTTA
1 AAATATT-ATTTTTATATTTTA
2556306 AATATCTTTA
Statistics
Matches: 86, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
27 7 0.08
28 16 0.19
29 7 0.08
30 28 0.33
31 25 0.29
32 3 0.03
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (28 bp):
AAATATTATTTTTATATTTTATTAATAA
Found at i:2556232 original size:31 final size:30
Alignment explanation
Indices: 2556166--2556233 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
2556156 ATTTATTATT
*
2556166 AAATATT-ATTTTTATAATTTTATTAATAA
1 AAATATTAATTTTTATAATTTTATAAATAA
2556195 AAATATTAATTTTGTAT-ATTTTAGTGAAAT-A
1 AAATATTAATTTT-TATAATTTTA-T-AAATAA
2556226 AAATATTA
1 AAATATTA
2556234 TAATTTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
29 7 0.21
30 11 0.32
31 13 0.38
32 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (30 bp):
AAATATTAATTTTTATAATTTTATAAATAA
Found at i:2556479 original size:31 final size:31
Alignment explanation
Indices: 2556431--2556489 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
2556421 TATGATTGAT
*
2556431 TATTTTATATAATATTAA-AAATATAATATTA
1 TATTTTATATAACATTAATAAATA-AATATTA
2556462 TATTATTATA-AACATTAATAAATAAATA
1 TATT-TTATATAACATTAATAAATAAATA
2556490 AATAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTTATATAACATTAATAAATAAATATTA
Found at i:2565444 original size:15 final size:15
Alignment explanation
Indices: 2565424--2565465 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
2565414 ATTATCGGTT
2565424 TCGATATTTTTTGGA
1 TCGATATTTTTTGGA
2565439 TCGATATTTTTTGGA
1 TCGATATTTTTTGGA
*
2565454 TCAATACTTTTT
1 TCGATA-TTTTT
2565466 ATAAATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (15 bp):
TCGATATTTTTTGGA
Found at i:2566169 original size:180 final size:182
Alignment explanation
Indices: 2565496--2566333 Score: 1445
Period size: 182 Copynumber: 4.6 Consensus size: 182
2565486 TGCGTTCACC
** * * * *
2565496 TTTTGTCATTTATAGACCGATTTTATCATATTTTTACATGTTATATTATTATGAATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
2565561 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * *
2565626 TACTTATAATAAATTATCGACACTTTCAACATATCCAGTAGCACTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
2565678 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
2565743 TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
2565808 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
2565860 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
2565925 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
* *
2565987 ATACTTATAATAAATTATTGGCACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
2566040 TTTTGTCATTTCGAGACC-GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
2566104 TTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
2566168 TACGTAT-ATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
2566219 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
2566284 TTTATAAAGTATCGACACTTTATTGACGGTATAACTTCTTCTCTTTTAAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAA
2566334 AAATGTAAAA
Statistics
Matches: 624, Mismatches: 26, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
177 2 0.00
178 19 0.03
179 140 0.22
180 161 0.26
181 14 0.02
182 286 0.46
183 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:2566266 original size:359 final size:362
Alignment explanation
Indices: 2565496--2566332 Score: 1439
Period size: 359 Copynumber: 2.3 Consensus size: 362
2565486 TGCGTTCACC
** * * * *
2565496 TTTTGTCATTTATAGACCGATTTTATCATATTTTTACATGTTATATTATTATGAATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
2565561 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTT-AATTCCAAAAG-GTCGA
*
2565626 TACTTATAATAAATTATCGACACTTTCAACATATCCAGTAGCACTTTACCTGTTTTGTCATTTCG
129 TACTTATAATAAATTATCGACACTTTCAACATAACCAGTAGCACTTTACCTGTTTTGTCATTTCG
*
2565691 AGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATC
194 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAATATC
*
2565756 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATAATAAA
259 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACGTATAATAAA
2565821 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
324 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
2565860 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
2565925 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAA-GTCGAT
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAATTCCAAAAGGTCGAT
* * * *
2565989 ACTTATAATAAATTATTGGCACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
130 ACTTATAATAAATTATCGACACTTTCAACATAACCAGTAGCACTTTACCTGTTTTGTCATTTCGA
*
2566054 GACC-GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
195 GACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAATATCG
*
2566118 ACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTAT-ATAAAT
260 ACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACGTATAATAAAT
2566181 TATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
325 TATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
2566219 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
2566284 TTTATAAAGTATCGACACTTTATTGACGGTATAACTTCTTCTCTTTTAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAA
2566333 AAAATGTAAA
Statistics
Matches: 451, Mismatches: 21, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
358 4 0.01
359 149 0.33
360 34 0.08
361 79 0.18
362 70 0.16
364 113 0.25
365 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (362 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAATTCCAAAAGGTCGATA
CTTATAATAAATTATCGACACTTTCAACATAACCAGTAGCACTTTACCTGTTTTGTCATTTCGAG
ACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGA
CACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACGTATAATAAATT
ATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:2569347 original size:184 final size:184
Alignment explanation
Indices: 2569038--2569380 Score: 587
Period size: 184 Copynumber: 1.9 Consensus size: 184
2569028 TAAAAGCATG
*
2569038 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTA
1 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTA
* *
2569103 TACCGGTTATATTAAAAAATTACCTATTACATTATAATTGTGGGTTCCGATGTTTTTTCAATCGA
66 TACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTCCGATGTTTTTTCAATCGA
2569168 CACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTATGGACATAAAGTAGC
131 CACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTATGGACATAAAGTAGC
* * * *
2569222 GACACAATATTAAAAAGTTTTGATATAGGTTGTATACCTATTTTCTCATAAAACCGGTATATCTA
1 GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTA
* * *
2569287 TACCGGTTATATTACAAAATTACCTATTATATTATAATTATAGGTTTCGATGTTTTTTCAATCGA
66 TACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTCCGATGTTTTTTCAATCGA
*
2569352 CATTTTTTGAAAAGGTATCGACACTTTTT
131 CACTTTTTGAAAAGGTATCGACACTTTTT
2569381 GCTGATATTT
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 148 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (184 bp):
GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTA
TACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTCCGATGTTTTTTCAATCGA
CACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTATGGACATAAAGTAGC
Found at i:2570679 original size:12 final size:12
Alignment explanation
Indices: 2570656--2570707 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
2570646 ATTGTTTGGA
*
2570656 TCATCATCATCG
1 TCATCTTCATCG
*
2570668 TAATCTTCATCG
1 TCATCTTCATCG
2570680 TCATCTTCATCG
1 TCATCTTCATCG
* *
2570692 TCAGCTTCATCT
1 TCATCTTCATCG
2570704 TCAT
1 TCAT
2570708 TGACCGCTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.40
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:2570705 original size:6 final size:6
Alignment explanation
Indices: 2570656--2570707 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
2570646 ATTGTTTGGA
* * * * * *
2570656 TCATCA TCATCG TAATCT TCATCG TCATCT TCATCG TCAGCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
2570704 TCAT
1 TCAT
2570708 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:2577156 original size:23 final size:21
Alignment explanation
Indices: 2577105--2577165 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 21
2577095 TTTTGGTGCA
*
2577105 AGGGAATCGA-TCCCCCCTTG
1 AGGGAACCGATTCCCCCCTTG
*
2577125 AGGGAACCGATTCCCCCTTTG
1 AGGGAACCGATTCCCCCCTTG
2577146 AAGGGGAACCGATTCCCCCC
1 -A-GGGAACCGATTCCCCCC
2577166 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.26
21 9 0.26
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.18
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCCTTG
Found at i:2577191 original size:20 final size:20
Alignment explanation
Indices: 2577106--2577191 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 20
2577096 TTTGGTGCAA
* *
2577106 GGGAATCGA-TCCCCCCTTG
1 GGGAACCGATTCCCCCCTAG
*
2577125 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGATTCCCCC-CT--AG
*
2577149 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCC-TAG
* *
2577170 GGGAATCGATACCCCCCTAG
1 GGGAACCGATTCCCCCCTAG
2577190 GG
1 GG
2577192 TTCTGGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 12 0.23
21 23 0.43
22 1 0.02
23 16 0.30
24 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (20 bp):
GGGAACCGATTCCCCCCTAG
Found at i:2582543 original size:199 final size:200
Alignment explanation
Indices: 2581754--2582739 Score: 1742
Period size: 200 Copynumber: 4.9 Consensus size: 200
2581744 GATATTTAAA
2581754 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
2581819 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* * *
2581884 AGGGATCGACACCGTTTATATATGGATCGACACTTTATGGTTGCACCTTGTTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
2581949 GGACC
196 GGACC
* *
2581954 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATGTAATACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
2582019 GTATATTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
2582084 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
2582149 GGACC
196 GGACC
* * *
2582154 AATAGCATCAACACAAAATTAAAAAGTGTCGATATATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
2582219 GTATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* * * *
2582284 TGGGATCGACACCTTTTATATATAGATCAACAGTTTATGGTTGCACCATGTTTGCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
2582349 GGACC
196 GGACC
*
2582354 AATAGTATCGAAACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
*
2582419 GTATACGTATA-CGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
* *
2582483 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
*
2582548 AGACC
196 GGACC
* *
2582553 AATAGTATCGACACAAAATTAAAAAGTGTCGATATATATATTACACCTATTCTCTTATAAAT-CG
1 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
* *
2582617 ATATAATTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
2582682 TGAGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
2582740 ATTGTAAATT
Statistics
Matches: 746, Mismatches: 39, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
198 10 0.01
199 282 0.38
200 454 0.61
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCCG
GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
TGGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
GGACC
Found at i:2582998 original size:19 final size:19
Alignment explanation
Indices: 2582974--2583022 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
2582964 TTACATTCAC
2582974 ATACAAAATTATAAATCGT-
1 ATACAAAATTATAAATC-TA
2582993 ATACAAAATTATAAATCTA
1 ATACAAAATTATAAATCTA
*
2583012 ATATAAAATTA
1 ATACAAAATTA
2583023 ACCTTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCTA
Found at i:2584621 original size:33 final size:32
Alignment explanation
Indices: 2584569--2584648 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 32
2584559 ATGACATCGA
2584569 CTTCCTTCCTCCTCATTTCTTCAATCTCTTCTT
1 CTTCC-TCCTCCTCATTTCTTCAATCTCTTCTT
* *
2584602 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
1 CTTCCTCCT-CCTCATTTCTTCAATCTCTTCTT
*
2584635 CCTCCTCCGTCCTC
1 CTTCCTCC-TCCTC
2584649 CGTTTTTTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 4 0.10
33 37 0.88
34 1 0.02
ACGTcount: A:0.05, C:0.46, G:0.01, T:0.47
Consensus pattern (32 bp):
CTTCCTCCTCCTCATTTCTTCAATCTCTTCTT
Found at i:2584928 original size:21 final size:21
Alignment explanation
Indices: 2584904--2584944 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2584894 CTTATGCCTC
2584904 TCAAGTGTATCTTCAACTCTA
1 TCAAGTGTATCTTCAACTCTA
* * *
2584925 TCAAGTTTCTCTTCGACTCT
1 TCAAGTGTATCTTCAACTCT
2584945 TGATTGTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (21 bp):
TCAAGTGTATCTTCAACTCTA
Found at i:2594823 original size:47 final size:47
Alignment explanation
Indices: 2594754--2594843 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 47
2594744 TATATTACCT
* * *
2594754 TATAATTACTCTAAATTATTCAAAAGAAATAATCAAATTCTAAATCC
1 TATAATCACTCTAAACTATTCAAAAGAAACAATCAAATTCTAAATCC
2594801 TATAATCACTCTAAACTATTCAAAAGAAACAATCAAATTCTAA
1 TATAATCACTCTAAACTATTCAAAAGAAACAATCAAATTCTAA
2594844 CTTTTCATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (47 bp):
TATAATCACTCTAAACTATTCAAAAGAAACAATCAAATTCTAAATCC
Found at i:2608016 original size:81 final size:81
Alignment explanation
Indices: 2607916--2608991 Score: 1620
Period size: 81 Copynumber: 13.3 Consensus size: 81
2607906 ACTATTCCAA
* * * *
2607916 AGTAAAAGATTAATAGCCTAGTTGGGCATTTGACAGAAATGTGTCAATTATGCCAATTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2607981 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
2607997 AGTAAAAGATTTATAGCCTAGATGTGCATTTGACAGAAAGATTTCAATTATGACAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
2608062 AGGTTAAATACCTTTA
66 AGGTTAAATACCTTTG
* * * * *
2608078 AGTAAAAGATTAATAGCCTAAC--TGCATTGGACATAAAGATGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
2608141 AGGTTAAATATCTATA
66 AGGTTAAATACCTTTG
* * * * *
2608157 AGTAAAATATTTATAGCCCAACTCTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2608222 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
2608238 AGTAAAAGATTAATACCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2608303 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
2608319 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCGAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2608384 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
2608400 AGTAAAAGATTTATAGCCTAGCAGTGCATTTGACAGAAAGGTGTCAATTATGCCAGATAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2608465 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
2608481 AGCAAAAGATTTAA-AGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGA
1 AGTAAAAGA-TTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
2608545 AAGGTTAAATACCTTTA
65 AAGGTTAAATACCTTTG
* * * ** *
2608562 AGTAAAAGATTAATAGCCTAGCTATGTATTTGACAAAAAAATGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2608627 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
2608643 AGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2608708 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
2608724 AGTAAAATATTTATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2608789 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * ** *
2608805 AGTAAAAGATTTATAGCCTAGCAGTGCA-TTGTACAGAAAGGTGTCAATTTTTTCAGTTAGATAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTG-ACAGAAAGGTGTCAATTATGCCAGTTAGATGA
2608869 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* *
2608886 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
2608951 AAGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
2608967 AGTAAAAGATTAATAGCCTAGCTGT
1 AGTAAAAGATTAATAGCCTAGCTGT
2608992 TGTAATCACC
Statistics
Matches: 905, Mismatches: 84, Indels: 12
0.90 0.08 0.01
Matches are distributed among these distances:
79 70 0.08
80 7 0.01
81 822 0.91
82 6 0.01
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:2610423 original size:100 final size:100
Alignment explanation
Indices: 2610250--2610446 Score: 306
Period size: 100 Copynumber: 2.0 Consensus size: 100
2610240 AAATAAAGTA
* * * *
2610250 TGCACCAAATACATCAATTTTCGGTTACCAAGCATAGGAATTTGTTTTTATCGAAAGGTGTAGTT
1 TGCACCAAATACATCAATTTTCGGATACCAAACATAGAAATTTATTTTTATCGAAAGGTGTAGTT
2610315 TTCATTCATTATAAAAATGTTCAATTGCTTTTGCC
66 TTCATTCATTATAAAAATGTTCAATTGCTTTTGCC
* * *
2610350 TGCACCAATTACATCAATTTT-GGATACCAACACATAGAAATTTATTTTTATTGAAAGTTGTAGT
1 TGCACCAAATACATCAATTTTCGGATACCAA-ACATAGAAATTTATTTTTATCGAAAGGTGTAGT
*
2610414 TTTCATTCATTATAAAAATGTTCAATTGTTTTT
65 TTTCATTCATTATAAAAATGTTCAATTGCTTTT
2610447 TTAATGAAGT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 8 0.09
100 80 0.91
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (100 bp):
TGCACCAAATACATCAATTTTCGGATACCAAACATAGAAATTTATTTTTATCGAAAGGTGTAGTT
TTCATTCATTATAAAAATGTTCAATTGCTTTTGCC
Found at i:2641633 original size:3 final size:3
Alignment explanation
Indices: 2641625--2641657 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2641615 TACGACCTCC
2641625 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2641658 TTGCTCAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2648786 original size:81 final size:81
Alignment explanation
Indices: 2648571--2649002 Score: 582
Period size: 81 Copynumber: 5.3 Consensus size: 81
2648561 AGCATTTAGC
* * * * * * * * * * *
2648571 CTTTTACCCAAAGGCATATAGCCTCTCATCTAATTTGCATGATTGACA-CATTCATGTCCAATAC
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC-TGTCAAATGC
*
2648635 ACAGCTAGGCCATTAAT
65 ACAGCTAGGCTATTAAT
* * *
2648652 CTTTTACTCAAA-GTATTTACCCTTTCATCTAAC-GAGCATAATTGACACATTTCTATCAAATGC
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTG-GCATAATTGACACCTTTCTGTCAAATGC
2648715 ACAGCTAGGCTATTAAT
65 ACAGCTAGGCTATTAAT
*
2648732 CTTTTACTCAAAGGTATTTAACCTTTCAACTAACTGGCATAATTGACACCTTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCA
* *
2648797 CAACTAGGCTATAAAT
66 CAGCTAGGCTATTAAT
* * *
2648813 CTTTTACTCAAAGGAATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGTA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCA
2648878 CAGCTAGGCTATTAAT
66 CAGCTAGGCTATTAAT
* * *
2648894 CTTTTACTCAATGGTATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCA
* *
2648959 CAACTAGGATATTAAT
66 CAGCTAGGCTATTAAT
*
2648975 CTTTAACTCAAAGGTATTTAACCTTTCA
1 CTTTTACTCAAAGGTATTTAACCTTTCA
2649003 CTCAAAGGTA
Statistics
Matches: 311, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
80 62 0.20
81 248 0.80
82 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.35
Consensus pattern (81 bp):
CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCA
CAGCTAGGCTATTAAT
Found at i:2649023 original size:22 final size:22
Alignment explanation
Indices: 2648970--2649024 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2648960 AACTAGGATA
* *
2648970 TTAATCTTTAACTCAAAGGTAT
1 TTAACCTTTCACTCAAAGGTAT
2648992 TTAACCTTTCACTCAAAGGTAT
1 TTAACCTTTCACTCAAAGGTAT
2649014 TTAACCTTTCA
1 TTAACCTTTCA
2649025 TCTAACTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (22 bp):
TTAACCTTTCACTCAAAGGTAT
Found at i:2649078 original size:103 final size:103
Alignment explanation
Indices: 2648889--2649104 Score: 335
Period size: 103 Copynumber: 2.1 Consensus size: 103
2648879 AGCTAGGCTA
* * * * * * *
2648889 TTAATCTTTTACTCAATGGTATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTCTGTCAA
1 TTAACCTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGTCAA
2648954 ATGCACAACTAGGATATTAATCTT-TAACTCAAAGGTAT
66 ATGCACAACTAGGATATTAATCTTCT-ACTCAAAGGTAT
2648992 TTAACCTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGTCAA
1 TTAACCTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGTCAA
* *
2649057 ATGCACAGCTAGGCTATTAATCTTCTACTCAAAGGTAT
66 ATGCACAACTAGGATATTAATCTTCTACTCAAAGGTAT
2649095 TTAACCTTTC
1 TTAACCTTTC
2649105 CTCTAACTGC
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 102 0.99
104 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.38
Consensus pattern (103 bp):
TTAACCTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGTCAA
ATGCACAACTAGGATATTAATCTTCTACTCAAAGGTAT
Found at i:2649229 original size:264 final size:265
Alignment explanation
Indices: 2648727--2649266 Score: 857
Period size: 264 Copynumber: 2.0 Consensus size: 265
2648717 AGCTAGGCTA
* * * *
2648727 TTAATCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTGGCATAATTGACACCTTTCTGTCAA
1 TTAACCTTTCACTCAAAGGTATTTAACCTTTCAACTAACTGGCATAATTGACACATTTATGTCAA
*
2648792 ATGCACAACTAGGCTATAAATCTTTTACTCAAAGGAATTTAACCTTTCATCTAACTGACATAATT
66 ATGCACAACTAGGCTATAAATCTTCTACTCAAAGGAATTTAACCTTTCATCTAACTGACATAATT
* * *
2648857 GACACCTTTCTGTCAAATGTACAGCTAGGCTATTAATCTTTTACTCAATGGTATTTAACCTTTCA
131 GACACCTTTCTGTCAAATGCACAGCTAGGCTATAAATCTTTTACTCAAAGGTATTTAACCTTTCA
* * * * * *
2648922 TCTAACTGGCATTATTGGCACCTTTCTGTCAAATGCACAACTAGGATATTAATCTTTAACTCAAA
196 TCTAACTGGAATAATTGACACATATCTGTCAAATGCACAACTAGGATATAAATCTTTAACTCAAA
2648987 GGTAT
261 GGTAT
*
2648992 TTAACCTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGTCAA
1 TTAACCTTTCACTCAAAGGTATTTAACCTTTCAACTAACTGGCATAATTGACACATTTATGTCAA
* * * *
2649057 ATGCACAGCTAGGCTATTAATCTTCTACTCAAAGGTATTTAACCTTTCCTCTAACTG-CATAATT
66 ATGCACAACTAGGCTATAAATCTTCTACTCAAAGGAATTTAACCTTTCATCTAACTGACATAATT
* *
2649121 GACACCTTTTTGTCAAATGCAGAGCTAGGCTATAAATCTTTTACTCAAAGGTATTTAACCTTTCA
131 GACACCTTTCTGTCAAATGCACAGCTAGGCTATAAATCTTTTACTCAAAGGTATTTAACCTTTCA
* * *
2649186 TCTAACTGGAATAATTGACATATATCTGTCAAATGCACAACTAGGCTATAAATCTTTTACTCAAA
196 TCTAACTGGAATAATTGACACATATCTGTCAAATGCACAACTAGGATATAAATCTTTAACTCAAA
2649251 GGTAT
261 GGTAT
2649256 TTAACCTTTCA
1 TTAACCTTTCA
2649267 TCTAATTGGC
Statistics
Matches: 251, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
264 139 0.55
265 112 0.45
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (265 bp):
TTAACCTTTCACTCAAAGGTATTTAACCTTTCAACTAACTGGCATAATTGACACATTTATGTCAA
ATGCACAACTAGGCTATAAATCTTCTACTCAAAGGAATTTAACCTTTCATCTAACTGACATAATT
GACACCTTTCTGTCAAATGCACAGCTAGGCTATAAATCTTTTACTCAAAGGTATTTAACCTTTCA
TCTAACTGGAATAATTGACACATATCTGTCAAATGCACAACTAGGATATAAATCTTTAACTCAAA
GGTAT
Found at i:2649240 original size:81 final size:81
Alignment explanation
Indices: 2648997--2649699 Score: 973
Period size: 81 Copynumber: 8.8 Consensus size: 81
2648987 GGTATTTAAC
* *
2648997 CTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
*
2649062 CAGCTAGGCTATTAAT
66 CAGCTAGGCTATAAAT
* * * *
2649078 CTTCTACTCAAAGGTATTTAACCTTTCCTCTAACT-GCATAATTGACACCTTTTTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
*
2649142 GAGCTAGGCTATAAAT
66 CAGCTAGGCTATAAAT
* * *
2649158 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACATATATCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
*
2649223 CAACTAGGCTATAAAT
66 CAGCTAGGCTATAAAT
* * *
2649239 CTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTAACACTTTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* *
2649304 TAGCTAGGCTATTAAT
66 CAGCTAGGCTATAAAT
* * * *
2649320 CTTTTACTCAAAGGTATTTAACATTTCATCTAATTGGTATAATTGACACCTTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* *
2649385 CAACTAGGCTATTAAT
66 CAGCTAGGCTATAAAT
* *
2649401 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
2649466 CAGCTAGGCTATAAAT
66 CAGCTAGGCTATAAAT
* * *
2649482 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGAAATATTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* * *
2649547 CAGTTAGGATATTAAT
66 CAGCTAGGCTATAAAT
* * *
2649563 CTTTTACTCAAAGG----T-A----T--T-TAACTGGCATAATTGATAAATTTATGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
*
2649616 CATCTAGGCTATAAAT
66 CAGCTAGGCTATAAAT
* * *
2649632 CGTTTACTCAATGGTATTTAACCTTTCATCTAACTGGGATAATTGACACATTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
2649697 CAG
66 CAG
2649700 TAAGTCTATT
Statistics
Matches: 549, Mismatches: 60, Indels: 26
0.86 0.09 0.04
Matches are distributed among these distances:
69 55 0.10
70 1 0.00
72 1 0.00
73 1 0.00
74 1 0.00
76 1 0.00
77 1 0.00
78 1 0.00
80 75 0.14
81 412 0.75
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (81 bp):
CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
CAGCTAGGCTATAAAT
Found at i:2649389 original size:426 final size:406
Alignment explanation
Indices: 2648558--2649720 Score: 1458
Period size: 426 Copynumber: 2.8 Consensus size: 406
2648548 AATTGAACTG
* * * * * * * * *
2648558 TTAAGCATTTAGCCTTTTACCCAAAGGCATATAGCCTCTCATCTAATTTGCATGATTGACACATT
1 TTAATCATTTA-CC-TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATT
* * * * * *
2648623 CATGTCCAATACACAGCTAGGCCATTAATCTTTTACTCAAA-GTATTTACCCTTTCATCTAACGA
64 TATGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-T
*
2648687 GCATAATTGACACATTTCTATCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTA
128 GCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTA
2648752 ACCTTTCAACTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAGGCTATAAATCTTT
193 ACCTTTC-ACTAACTGG-ATAATTGACA--TTTCTGTCAAATGCACAACTAGGCTATAAATCTTT
* * * *
2648817 TACTCAAAGGAATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGTACAGC
254 TACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGC
* * * *
2648882 TAGGCTATTAATCTTTTACTCAATGGTATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTT
319 TAGGCTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACCTTT
*
2648947 CTGTCAAATGCACAACTAGGATATTAA
384 CTGTCAAATGCACAACTAGG---CT-A
2648974 TCTTTAACTCAAAGGTATTTAACCTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAA
1 ---TTAA-TC------ATTT-ACCTTT-ACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAA
*
2649039 TTGACACATTTATGTCAAATGCACAGCTAGGCTATTAATCTTCTACTCAAAGGTATTTAACCTTT
54 TTGACACATTTATGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTT
* * * * *
2649104 CCTCTAACTGCATAATTGACACCTTTTTGTCAAATGCAGAGCTAGGCTATAAATCTTTTACTCAA
119 CATCTAACTGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAA
2649169 AGGTATTTAACCTTTCATCTAACTGGAATAATTGACATATATCTGTCAAATGCACAACTAGGCTA
184 AGGTATTTAACCTTTCA-CTAACTGG-ATAATTGACAT-T-TCTGTCAAATGCACAACTAGGCTA
* * *
2649234 TAAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTAACACTTTTCTGTCAA
245 TAAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
* * *
2649299 ATGCATAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAATTGGTATAATT
310 ATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATT
2649364 GACACCTTTCTGTCAAATGCACAACTAGGCTA
375 GACACCTTTCTGTCAAATGCACAACTAGGCTA
* *
2649396 TTAATC---T---TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
1 TTAATCATTTACCTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTA
* *
2649455 TATCAAATGCACAGCTAGGCTATAAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGC
66 TGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GC
* * * *
2649520 ATAATTGAAATATTTCTGTCAAATGCACAGTTAGGATATTAATCTTTTACTCAAAGGTATTTAA-
130 ATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAAC
** * * * *
2649584 CTGGCA-TAA-TTGAT-A---A-ATTTATGTCAAATGCACATCTAGGCTATAAATCGTTTACTCA
195 CTTTCACTAACTGGATAATTGACATTTCTGTCAAATGCACAACTAGGCTATAAATCTTTTACTCA
* * *
2649642 ATGGTATTTAACCTTTCATCTAACTGGGATAATTGACACATTTCTGTCAAATGCACAG-TAAGTC
260 AAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCT-AGGC
*
2649706 TATTAATGTTTTACT
324 TATTAATCTTTTACT
2649721 TTGGAATAGT
Statistics
Matches: 664, Mismatches: 65, Indels: 56
0.85 0.08 0.07
Matches are distributed among these distances:
392 1 0.00
393 105 0.16
394 1 0.00
395 2 0.00
396 1 0.00
399 1 0.00
400 2 0.00
401 2 0.00
402 3 0.00
404 109 0.16
405 61 0.09
409 1 0.00
418 2 0.00
419 8 0.01
420 1 0.00
422 1 0.00
423 1 0.00
424 1 0.00
425 5 0.01
426 336 0.51
427 20 0.03
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (406 bp):
TTAATCATTTACCTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTA
TGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCA
TAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACC
TTTCACTAACTGGATAATTGACATTTCTGTCAAATGCACAACTAGGCTATAAATCTTTTACTCAA
AGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTA
TTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTGTCAA
ATGCACAACTAGGCTA
Found at i:2649638 original size:69 final size:69
Alignment explanation
Indices: 2649512--2649653 Score: 198
Period size: 69 Copynumber: 2.1 Consensus size: 69
2649502 ACCTTTCATC
* * *
2649512 TAACTAGCATAATTGAAATATTTCTGTCAAATGCACAGTTAGGATATTAATCTTTTACTCAAAGG
1 TAACTAGCATAATTGAAATATTTATGTCAAATGCACAGTTAGGATATAAATCGTTTACTCAAAGG
2649577 TATT
66 TATT
* * *
2649581 TAACTGGCATAATTGATAA-ATTTATGTCAAATGCACA-TCTAGGCTATAAATCGTTTACTCAAT
1 TAACTAGCATAATTGA-AATATTTATGTCAAATGCACAGT-TAGGATATAAATCGTTTACTCAAA
2649644 GGTATT
64 GGTATT
2649650 TAAC
1 TAAC
2649654 CTTTCATCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
68 1 0.02
69 62 0.95
70 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (69 bp):
TAACTAGCATAATTGAAATATTTATGTCAAATGCACAGTTAGGATATAAATCGTTTACTCAAAGG
TATT
Found at i:2649710 original size:150 final size:150
Alignment explanation
Indices: 2649431--2649720 Score: 436
Period size: 150 Copynumber: 1.9 Consensus size: 150
2649421 ACCTTTCATC
** * *
2649431 TAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCTATAAATCTTTTACTCAAAGG
1 TAACTGGCATAATTGACAAATTTATATCAAATGCACAGCTAGGCTATAAATCGTTTACTCAAAGG
* *
2649496 TATTTAACCTTTCATCTAACTAGCATAATTGAAATATTTCTGTCAAATGCACAGTTAGGATATTA
66 TATTTAACCTTTCATCTAACTAGCATAATTGAAACATTTCTGTCAAATGCACAGTAAGGATATTA
2649561 ATCTTTTACTCAAAGGTATT
131 ATCTTTTACTCAAAGGTATT
* * * *
2649581 TAACTGGCATAATTGATAAATTTATGTCAAATGCACATCTAGGCTATAAATCGTTTACTCAATGG
1 TAACTGGCATAATTGACAAATTTATATCAAATGCACAGCTAGGCTATAAATCGTTTACTCAAAGG
* * * **
2649646 TATTTAACCTTTCATCTAACTGGGATAATTGACACATTTCTGTCAAATGCACAGTAAGTCTATTA
66 TATTTAACCTTTCATCTAACTAGCATAATTGAAACATTTCTGTCAAATGCACAGTAAGGATATTA
*
2649711 ATGTTTTACT
131 ATCTTTTACT
2649721 TTGGAATAGT
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
150 124 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (150 bp):
TAACTGGCATAATTGACAAATTTATATCAAATGCACAGCTAGGCTATAAATCGTTTACTCAAAGG
TATTTAACCTTTCATCTAACTAGCATAATTGAAACATTTCTGTCAAATGCACAGTAAGGATATTA
ATCTTTTACTCAAAGGTATT
Found at i:2655202 original size:81 final size:81
Alignment explanation
Indices: 2655020--2655470 Score: 576
Period size: 80 Copynumber: 5.6 Consensus size: 81
2655010 AGGCATATAG
* * * * * * **
2655020 CCTTTCATCTAATTTGCATGAA-TGACATC-TTCCTGTCTAATACACAGCTAGGCCATTAA-AAT
1 CCTTTCATCTAACTGGCAT-AATTGACA-CATTTCTGTCAAATGCACAGCTAGGCTATTAATCTT
* *
2655082 TTACTTAAAGCTATTTAA
64 TTACTCAAAGGTATTTAA
* * *
2655100 CCTTTCATATAACTTGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATTAATTTTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATTAATCTTTT
2655165 ACTCAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * * *
2655181 CCTTTCATCTAAGTGGTATAATTGACA-AGTTTTTGTCAAATGCATAGCTAGGCTATTAATCTTT
1 CCTTTCATCTAACTGGCATAATTGACACA-TTTCTGTCAAATGCACAGCTAGGCTATTAATCTTT
*
2655245 TA-TAAAAGGTATTTAA
65 TACTCAAAGGTATTTAA
* *
2655261 CCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATAAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATTAATCTTTT
*
2655326 ACTCAAAGGTATTTCA
66 ACTCAAAGGTATTTAA
*
2655342 CCTTTCATCTAACT-GCATAATTGACATC-TTTATGTCAAATGCACAGCTAGGCTATTAATCTTT
1 CCTTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATGCACAGCTAGGCTATTAATCTTT
2655405 TACTCAAAGGTATTTAA
65 TACTCAAAGGTATTTAA
* * *
2655422 -GTTGTCATCTAACTGGCATAACTGACACCTTTCTGTCAAATGCACAGCT
1 CCTT-TCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCT
2655471 GTCAACACCG
Statistics
Matches: 329, Mismatches: 32, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
79 5 0.02
80 192 0.58
81 132 0.40
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (81 bp):
CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCTATTAATCTTTT
ACTCAAAGGTATTTAA
Done.