Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006710.1 Hibiscus syriacus cultivar Beakdansim tig00016725_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: 2941931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 11
Found at i:1279251 original size:3 final size:3
Alignment explanation
Indices: 1279232--1279302 Score: 76
Period size: 3 Copynumber: 24.0 Consensus size: 3
1279222 GATCTGTTTG
* * *
1279232 TAA TAA TAT TAA TTAA TAA TAA TAA TAA TAA -AA TAA TAA TAG TGA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1279277 TAAA TAA -AA TAA TAA TAA -AA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA
1279303 AAACAAATGG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 46 0.81
4 5 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1279268 original size:11 final size:11
Alignment explanation
Indices: 1279245--1279302 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
1279235 TAATATTAAT
1279245 TAATAATAATAA
1 TAATAA-AATAA
1279257 TAATAAAATAA
1 TAATAAAATAA
* *
1279268 TAAT--AGTGA
1 TAATAAAATAA
1279277 TAAATAAAATAA
1 T-AATAAAATAA
1279289 TAATAAAATAA
1 TAATAAAATAA
1279300 TAA
1 TAA
1279303 AAACAAATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 22 0.56
12 10 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:1279284 original size:21 final size:20
Alignment explanation
Indices: 1279232--1279304 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
1279222 GATCTGTTTG
* *
1279232 TAATAAT-ATTAATTAATAA
1 TAATAATAATAAAATAATAA
1279251 TAATAATAATAAAATAATAA
1 TAATAATAATAAAATAATAA
* *
1279271 TAGTGATAAATAAAATAATAA
1 TAATAAT-AATAAAATAATAA
1279292 TAA-AATAATAAAA
1 TAATAATAATAAAA
1279305 ACAAATGGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 14 0.30
20 17 0.37
21 15 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
TAATAATAATAAAATAATAA
Found at i:1279310 original size:29 final size:32
Alignment explanation
Indices: 1279246--1279310 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
1279236 AATATTAATT
* *
1279246 AATAATAATAATAATAAAATAATAATAGTGATA
1 AATAATAATAATAATAAAATAATAATAG-AACA
1279279 AATAA-AATAATAATAAAATAATAA-A-AACA
1 AATAATAATAATAATAAAATAATAATAGAACA
1279308 AAT
1 AAT
1279311 GGATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
31 1 0.03
32 19 0.63
33 5 0.17
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (32 bp):
AATAATAATAATAATAAAATAATAATAGAACA
Found at i:1280608 original size:48 final size:48
Alignment explanation
Indices: 1280530--1280675 Score: 202
Period size: 48 Copynumber: 3.0 Consensus size: 48
1280520 TTAAACCACG
* * * * * *
1280530 AGTGGCACCTTTTACGTCGAAATGCACCGTTATTCATTTAACTGTCATT
1 AGTGGCACC-TTTATGCCAAAATGCACCGTTATGCATTTAATTTTCATT
1280579 AGTGGCACCTTTATGCCAAAATGCACCGTTATGCATTTAATTTTCATT
1 AGTGGCACCTTTATGCCAAAATGCACCGTTATGCATTTAATTTTCATT
* * *
1280627 AGTGGAAACTTTTTGCCAAAATGCACCGTTATGCATTTAATTTTCATT
1 AGTGGCACCTTTATGCCAAAATGCACCGTTATGCATTTAATTTTCATT
1280675 A
1 A
1280676 TAGAGTAGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 79 0.90
49 9 0.10
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (48 bp):
AGTGGCACCTTTATGCCAAAATGCACCGTTATGCATTTAATTTTCATT
Found at i:1281717 original size:18 final size:19
Alignment explanation
Indices: 1281682--1281718 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1281672 CACGGAATGT
1281682 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1281702 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1281719 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1286701 original size:18 final size:18
Alignment explanation
Indices: 1286671--1286722 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
1286661 GAATCGTTCA
*
1286671 ACCGTTGACCGTTGATCG
1 ACCGTTGATCGTTGATCG
* * *
1286689 ATCGTTGGTCGTTGACCG
1 ACCGTTGATCGTTGATCG
1286707 ACCGTTGATCGTTGAT
1 ACCGTTGATCGTTGAT
1286723 AGGTGTTGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.23, G:0.29, T:0.33
Consensus pattern (18 bp):
ACCGTTGATCGTTGATCG
Found at i:1287530 original size:39 final size:40
Alignment explanation
Indices: 1287487--1287580 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 40
1287477 TTTATGACTT
* *
1287487 GTAAGTCGTTACCGCAAGA-TCCTAGGCTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAAGATTCCTAGGCTTTGTGCACAGG
* **
1287526 GTAAGTCCTTACTGC-AGATTCCTCTGCTTTGTGCACAGG
1 GTAAGTCCTTACCGCAAGATTCCTAGGCTTTGTGCACAGG
1287565 GTAAGTCCTTACCGCA
1 GTAAGTCCTTACCGCA
1287581 GGTCCTTATG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.06
39 44 0.94
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (40 bp):
GTAAGTCCTTACCGCAAGATTCCTAGGCTTTGTGCACAGG
Found at i:1292036 original size:30 final size:30
Alignment explanation
Indices: 1291988--1292050 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
1291978 CTTAAAATTT
* *
1291988 TTTGAGGACTAAATTAAAATCTTAATTAAA
1 TTTGAGGACCAAAATAAAATCTTAATTAAA
* * *
1292018 TTTGGGGACCAAAATAAAATTTTAGTTAAA
1 TTTGAGGACCAAAATAAAATCTTAATTAAA
1292048 TTT
1 TTT
1292051 ATGCCCGGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (30 bp):
TTTGAGGACCAAAATAAAATCTTAATTAAA
Found at i:1293465 original size:39 final size:39
Alignment explanation
Indices: 1293407--1293584 Score: 225
Period size: 39 Copynumber: 4.6 Consensus size: 39
1293397 TCTATGACTT
* * *
1293407 GTAAGTCCTTACCACAGGCTCTTCGGCTTTGTGCTCAGT
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
* * *
1293446 GTAAGTCCTTACTGTAGGCTCCTCGGCTTTGTGCTCAGA
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
* * * *
1293485 GTAAGTCATTATCGTAGGATCCTCGGCTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
* *
1293524 GTAAGTCCTTACCGCAGGCTCCTCTGCTTTGT-CAACAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGC-TCAGG
1293563 GTAAGTCCTTACCGCAGG-TCCT
1 GTAAGTCCTTACCGCAGGCTCCT
1293585 TATGCTATGT
Statistics
Matches: 122, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 5 0.04
39 117 0.96
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
Found at i:1296920 original size:18 final size:19
Alignment explanation
Indices: 1296893--1296931 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1296883 TATAATAAAT
*
1296893 TATAACTTAATGGAA-AAA
1 TATAACTTAATAGAACAAA
*
1296911 TATAATTTAATAGAACAAA
1 TATAACTTAATAGAACAAA
1296930 TA
1 TA
1296932 ATTCTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (19 bp):
TATAACTTAATAGAACAAA
Found at i:1297016 original size:18 final size:17
Alignment explanation
Indices: 1296981--1297035 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
1296971 ATAGAAAGAT
1296981 AATTATCAATAAATATTA
1 AATTAT-AATAAATATTA
*
1296999 AATTATAATTAATAATTA
1 AATTATAATAAAT-ATTA
*
1297017 TA-TAT-AT-AATATTA
1 AATTATAATAAATATTA
1297031 AATTA
1 AATTA
1297036 ACATAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 2 0.06
17 9 0.28
18 11 0.34
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTATAATAAATATTA
Found at i:1298932 original size:19 final size:20
Alignment explanation
Indices: 1298910--1298947 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1298900 ATCTAACAAA
*
1298910 CTAACAAA-TTAATAACTGC
1 CTAACAAACTAAATAACTGC
1298929 CTAACAAACTAAATAACTG
1 CTAACAAACTAAATAACTG
1298948 AAATCTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (20 bp):
CTAACAAACTAAATAACTGC
Found at i:1303450 original size:19 final size:20
Alignment explanation
Indices: 1303428--1303465 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1303418 ATCTAACAAA
*
1303428 CTAACAAA-TTAATAACTGC
1 CTAACAAACTAAATAACTGC
1303447 CTAACAAACTAAATAACTG
1 CTAACAAACTAAATAACTG
1303466 AAATCTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (20 bp):
CTAACAAACTAAATAACTGC
Found at i:1304257 original size:11 final size:11
Alignment explanation
Indices: 1304237--1304320 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 11
1304227 TTAATTATTT
*
1304237 TTATTCTAATA
1 TTATTTTAATA
*
1304248 TTATTTTAATG
1 TTATTTTAATA
1304259 TT-TTTTAA-A
1 TTATTTTAATA
*
1304268 GTTATTATATATA
1 -TTATTTTA-ATA
1304281 TATATTTATAACTA
1 T-TATTT-TAA-TA
*
1304295 TTATATTTATTA
1 TTAT-TTTAATA
*
1304307 TTATTTTACTA
1 TTATTTTAATA
1304318 TTA
1 TTA
1304321 ACGTATATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
10 8 0.14
11 24 0.41
12 8 0.14
13 11 0.19
14 7 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:1304311 original size:15 final size:15
Alignment explanation
Indices: 1304269--1304311 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
1304259 TTTTTTAAAG
1304269 TTATTATATATATATAT
1 TTATTAT-TAT-TATAT
* *
1304286 TTATAACTATTATAT
1 TTATTATTATTATAT
1304301 TTATTATTATT
1 TTATTATTATT
1304312 TTACTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTATTATAT
Found at i:1307883 original size:22 final size:22
Alignment explanation
Indices: 1307860--1307921 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
1307850 CAAAAAGGGC
1307860 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
1307883 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
1307904 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
1307922 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:1307912 original size:20 final size:20
Alignment explanation
Indices: 1307860--1307929 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
1307850 CAAAAAGGGC
*
1307860 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
1307883 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
1307904 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
1307924 AAAAAG
1 AAAAAG
1307930 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:1308566 original size:22 final size:22
Alignment explanation
Indices: 1308538--1308588 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1308528 CCCCATCAAT
1308538 CCTTTGAACATCAAATACCAAA
1 CCTTTGAACATCAAATACCAAA
* *
1308560 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAACATCAAATACCAAA
1308582 CCTTTGA
1 CCTTTGA
1308589 CCAAACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.25
Consensus pattern (22 bp):
CCTTTGAACATCAAATACCAAA
Found at i:1309534 original size:37 final size:37
Alignment explanation
Indices: 1309449--1309558 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
1309439 GTGCTCACTA
1309449 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
1309485 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* *
1309522 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
1309559 ATTGAAAACA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 31 0.46
37 34 0.50
38 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:1309643 original size:102 final size:102
Alignment explanation
Indices: 1309467--1309924 Score: 799
Period size: 102 Copynumber: 4.5 Consensus size: 102
1309457 CTTGAGACAG
** * *
1309467 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1309532 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* ** *
1309569 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1309634 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1309671 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1309736 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
1309773 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1309838 TGAGACAGTTTCTCTTGAAACATAAATATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
1309875 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1309925 TAAACATTGA
Statistics
Matches: 337, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 337 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:1309644 original size:37 final size:37
Alignment explanation
Indices: 1309585--1309864 Score: 160
Period size: 37 Copynumber: 8.0 Consensus size: 37
1309575 TTGAAATGAG
*
1309585 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
** *
1309622 TTCCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AAA
* **
1309660 ---------CATTGGAAACA-TTTCCCTTGAAA-TGAA
1 TTTTGTCTCCATT-GAGACAGTTTCCCTTGAAACAAAA
*
1309687 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
* *
1309724 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AAA
* **
1309762 ---------CATTGAAAACA-TTTCCCTTGAAA-TGAA
1 TTTTGTCTCCATTG-AGACAGTTTCCCTTGAAACAAAA
* *
1309789 TTTTGTCTCTC-TTGAGATAGTTTCCCTCGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
* *
1309826 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AAA
1309864 T
1 T
1309865 ATTGAAAACA
Statistics
Matches: 184, Mismatches: 27, Indels: 63
0.67 0.10 0.23
Matches are distributed among these distances:
27 4 0.02
29 30 0.16
30 9 0.05
35 7 0.04
36 31 0.17
37 93 0.51
38 10 0.05
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (37 bp):
TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACAAAA
Found at i:1309914 original size:65 final size:65
Alignment explanation
Indices: 1309824--1309993 Score: 288
Period size: 65 Copynumber: 2.6 Consensus size: 65
1309814 CTCGAAACAA
* *
1309824 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
* *
1309889 AATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
*
1309954 AATTTCGTCTCTCTTGAGACAGCTTCTCTTGAAACA-AAAT
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAAT
1309994 TTTGTCTCCC
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
64 3 0.03
65 95 0.97
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (65 bp):
AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
Found at i:1309925 original size:167 final size:169
Alignment explanation
Indices: 1309707--1310024 Score: 532
Period size: 167 Copynumber: 1.9 Consensus size: 169
1309697 CTTGAGATAG
*
1309707 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* * *
1309772 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGCTTCCCTCGAAACAAAATTTTGTCTCCC
1309837 TTGAGACAG-TTTCTCTTGAAACATAAATATTGAAAACA
131 TTGAGACAGTTTTCTCTTGAAACATAAATATTGAAAACA
** * *
1309875 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
1309939 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGCTTCTCTTGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGCTTCCCTCGAAACAAAATTTTGTCTCCC
1310004 TTGAGACAGTTTTCTCTTGAA
131 TTGAGACAGTTTTCTCTTGAA
1310025 GCATCATCTT
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
167 116 0.83
168 23 0.17
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (169 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGCTTCCCTCGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTTCTCTTGAAACATAAATATTGAAAACA
Found at i:1310167 original size:37 final size:37
Alignment explanation
Indices: 1310097--1310168 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
1310087 TGGAACTAAG
* * **
1310097 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
* *
1310134 TTTTGTCTCCCTTAAGACCGTTTCCCTTGAAACAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAA
1310169 CAAATATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
Found at i:1310709 original size:109 final size:109
Alignment explanation
Indices: 1310519--1310990 Score: 623
Period size: 109 Copynumber: 4.4 Consensus size: 109
1310509 TAGCTAGAGT
* ** * * *
1310519 CAAGTTCAACTTCACAACGAAGGGACGGTTGGTTACCAAC-AACAATTTCCCAATTTCGGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAACCA
1310583 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
66 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
* * *
1310627 CAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACGAATAACTTCCCAATTCCAGAACCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAACCA
1310692 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
66 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
** * **
1310736 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTTTCAGTTTCA-TCCGC
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAAC-C
* * *
1310800 GATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACA
65 AATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
* * ** * * *
1310845 CAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAACCA
* * * *
1310910 ATTTCAACTTCAC-AGCGAAGGATAT--TG-GACTCGAGACAACA
66 ATTTCAACTCCACGA-CGGAGGATATCGTGCTACCCGAGACAACA
*
1310951 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAAC
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC
1310991 AAGATTTCGT
Statistics
Matches: 325, Mismatches: 35, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
106 51 0.16
107 2 0.01
108 38 0.12
109 233 0.72
110 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (109 bp):
CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAACCA
ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
Found at i:1310987 original size:106 final size:107
Alignment explanation
Indices: 1310519--1311148 Score: 619
Period size: 109 Copynumber: 5.9 Consensus size: 107
1310509 TAGCTAGAGT
* ** * *
1310519 CAAGTTCAACTTCACAACGAAGGGACGGTTGGTTACCAACAACAATTTCCCAATTTCGGAACCGA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
* *
1310584 TTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
66 TTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * *
1310627 CAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACGAATAACTTCCCAATTCCAGAACCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
* *
1310692 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
65 ATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * **
1310736 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTT-TCAGTTTCA-TCCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAA-TTTCCCAATTTCAGAAC-
* *
1310799 CGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACA
63 CAATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * *
1310845 CAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
* *
1310910 ATTTCAACTTCAC-AGCGAAGGATAT-TG-GACTCGAGACAACA
65 ATTTCAACTCCACGA-CGGAGGATATCTGCGACTCGAGACAACA
* * * * **
1310951 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAA-GATTT--C--GTTCATAGTCAA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
* * *
1311011 TTTCAACTTCAC-A-GTGAAGGATAT-T-AGACTCGAGACAGCA
66 TTTCAACTCCACGACG-G-AGGATATCTGCGACTCGAGACAACA
* * * * ** ** *
1311051 CAAGCTCAACTTCACAGCGAAGGGGCAGCTGACTGTCAACAAACAATTTCCCGGTTCCAGAACCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
*
1311116 ATTTCAACTTCAC-AGCGGAGGATAT-TG-GACTCG
65 ATTTCAACTCCACGA-CGGAGGATATCTGCGACTCG
1311149 GAACAATATT
Statistics
Matches: 451, Mismatches: 53, Indels: 38
0.83 0.10 0.07
Matches are distributed among these distances:
98 1 0.00
100 78 0.17
101 2 0.00
102 4 0.01
104 4 0.01
105 2 0.00
106 85 0.19
107 3 0.01
108 42 0.09
109 227 0.50
110 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (107 bp):
CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
TTTCAACTCCACGACGGAGGATATCTGCGACTCGAGACAACA
Found at i:1311121 original size:206 final size:212
Alignment explanation
Indices: 1310519--1311148 Score: 694
Period size: 218 Copynumber: 3.0 Consensus size: 212
1310509 TAGCTAGAGT
* * ** * *** *
1310519 CAAGTTCAACTTCACAACGAAGGGACGGTTGGTTACCAAC-AACAA-TTTCCCAATTTCGGAACC
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACGAACAACTTT--CAGTTTCATCAGC
* *
1310582 GATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACGA
64 AATTTCAACTCCACGACGGAGGATATC-TGC-ACTCGAGACAACACAAGTTCAACTTCACAACGA
* * * *
1310647 AGGGAC-GACTGGTTGTCAACGAATAACTTCCCAATTCCAGAACCAATTTCAACTCCAC-GACGG
127 AGGGACAG-CTGGTTGTCAACAAACAATTTCCCAATTCCAGAACCAATTTCAACTTCACAG-CGG
* *
1310710 AGGATATCGTGCTACCCGAGACAACA
190 AGGATAT--TG-GACTCGAGACAACA
* * *
1310736 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTTTCAGTTTCATCCGCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACGAACAAC-TTTCAGTTTCATCAGCA
1310801 ATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAACGAA
65 ATTTCAACTCCACGACGGAGGATATC-TG-CACTCGAGACAACACAAGTTCAACTTCACAACGAA
* * * * * *
1310866 GGGACAGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
128 GGGACAGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGGAGG
1310931 ATATTGGACTCGAGACAACA
193 ATATTGGACTCGAGACAACA
*
1310951 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAAC-AA-GA-TTTC-G-TTCAT-AGTCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACGAACAACTTTCAGTTTCATCAG-CA
* * * *
1311010 ATTTCAACTTCAC-A-GTGAAGGATAT-TAG-ACTCGAGACAGCACAAGCTCAACTTCACAGCGA
65 ATTTCAACTCCACGACG-G-AGGATATCT-GCACTCGAGACAACACAAGTTCAACTTCACAACGA
* ** **
1311071 AGGGGCAGCTGACTGTCAACAAACAATTTCCCGGTTCCAGAACCAATTTCAACTTCACAGCGGAG
127 AGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGGAG
1311136 GATATTGGACTCG
192 GATATTGGACTCG
1311149 GAACAATATT
Statistics
Matches: 362, Mismatches: 41, Indels: 31
0.83 0.09 0.07
Matches are distributed among these distances:
206 97 0.27
207 2 0.01
208 4 0.01
209 25 0.07
210 1 0.00
211 4 0.01
213 1 0.00
214 2 0.01
215 51 0.14
216 2 0.01
217 37 0.10
218 130 0.36
219 3 0.01
220 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (212 bp):
CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACGAACAACTTTCAGTTTCATCAGCAA
TTTCAACTCCACGACGGAGGATATCTGCACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
ACAGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGGAGGATA
TTGGACTCGAGACAACA
Found at i:1311666 original size:36 final size:37
Alignment explanation
Indices: 1311609--1311709 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 37
1311599 TTTCGTCCTA
1311609 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTATG
1 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTATG
* *
1311646 CTAGGATTC-AACTC-CTAAAAATATGATAGAATTTTG
1 CTAGGATTCAAACTCTC-AAAAATAGGATAGAATTATG
* * * * *
1311682 CTATGTTTTAAACTCTTAAAGATAGGAT
1 CTAGGATTCAAACTCTCAAAAATAGGAT
1311710 CCACAAGCAC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
35 1 0.02
36 29 0.55
37 23 0.43
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (37 bp):
CTAGGATTCAAACTCTCAAAAATAGGATAGAATTATG
Found at i:1312172 original size:11 final size:11
Alignment explanation
Indices: 1312152--1312235 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 11
1312142 TTAATTATTT
*
1312152 TTATTCTAATA
1 TTATTTTAATA
*
1312163 TTATTTTAATG
1 TTATTTTAATA
1312174 TT-TTTTAA-A
1 TTATTTTAATA
*
1312183 GTTATTATATATA
1 -TTATTTTA-ATA
1312196 TATATTTATAACTA
1 T-TATTT-TAA-TA
*
1312210 TTATATTTATTA
1 TTAT-TTTAATA
*
1312222 TTATTTTACTA
1 TTATTTTAATA
1312233 TTA
1 TTA
1312236 ACGTATATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
10 8 0.14
11 24 0.41
12 8 0.14
13 11 0.19
14 7 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:1312226 original size:15 final size:15
Alignment explanation
Indices: 1312184--1312226 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
1312174 TTTTTTAAAG
1312184 TTATTATATATATATAT
1 TTATTAT-TAT-TATAT
* *
1312201 TTATAACTATTATAT
1 TTATTATTATTATAT
1312216 TTATTATTATT
1 TTATTATTATT
1312227 TTACTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTATTATAT
Found at i:1316270 original size:131 final size:131
Alignment explanation
Indices: 1316036--1316403 Score: 445
Period size: 131 Copynumber: 2.8 Consensus size: 131
1316026 ATAATTTTAA
* * * **
1316036 GAGTGAAAACGATAATATCTAATTATTTATAATCGAAAATAAATGACCTCTTATAAATTAAAGCA
1 GAGTGAAAACGATAATATATAATTATTTACAATCGAAAATAAATGACCTCTCATACCTTAAAGCA
* * * * *
1316101 GTCATTTATT-ACTCCAATCAAAATTAAGAGATATCACTATTCCGTCTTAAAATTCAATATCGAT
66 GTCATTTATTGA-TCCAATCGAAATGAAGAGATATCACTATTCCATCTTAAAAATCAATATCAAT
1316165 TC
130 TC
* *
1316167 GAGTGAAAACGATAATATATAATTATTTCCAATCGAAAATAAATGACCTCTGATACCTTAAAGCA
1 GAGTGAAAACGATAATATATAATTATTTACAATCGAAAATAAATGACCTCTCATACCTTAAAGCA
* * *
1316232 ATCATTTATTGATCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTAATT
66 GTCATTTATTGATCCAATCGAAATGAAGAGATATCACTATTCCATCTTAAAAATCAATATCAATT
1316297 C
131 C
* * * * * * *
1316298 GAGAGAGAATGATAATATCA-AATTATTTTCAATCGAGAATAAATGACTTCTCATGCCTTAGAA-
1 GAGTGAAAACGATAATAT-ATAATTATTTACAATCGAAAATAAATGACCTCTCATACCTTA-AAG
* * * * *
1316361 CAGTCATTTATTGCTCCAACCGAAATGAAAAGTTATTACTATT
64 CAGTCATTTATTGATCCAATCGAAATGAAGAGATATCACTATT
1316404 ATCAATATCA
Statistics
Matches: 206, Mismatches: 28, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
131 202 0.98
132 4 0.02
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (131 bp):
GAGTGAAAACGATAATATATAATTATTTACAATCGAAAATAAATGACCTCTCATACCTTAAAGCA
GTCATTTATTGATCCAATCGAAATGAAGAGATATCACTATTCCATCTTAAAAATCAATATCAATT
C
Found at i:1325856 original size:42 final size:42
Alignment explanation
Indices: 1325797--1325882 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
1325787 CTCATAAATA
1325797 TACAGGGATTAAACAACAAATAACCCTAAAAATATATAACAT
1 TACAGGGATTAAACAACAAATAACCCTAAAAATATATAACAT
1325839 TACAGGGATTAAACAACAAATAACCCTAAAAATATATAACAT
1 TACAGGGATTAAACAACAAATAACCCTAAAAATATATAACAT
1325881 TA
1 TA
1325883 ATCAAAGTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.55, C:0.16, G:0.07, T:0.22
Consensus pattern (42 bp):
TACAGGGATTAAACAACAAATAACCCTAAAAATATATAACAT
Found at i:1327104 original size:6 final size:6
Alignment explanation
Indices: 1327093--1327171 Score: 77
Period size: 6 Copynumber: 13.2 Consensus size: 6
1327083 AAATTTTAGT
* * * *
1327093 ATGATA ATGATA ATGATG ATGATG ATGATG ATGATA ATGATA ATAATA
1 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA
* * * * *
1327141 ATAATA ATAATA ATAATA ATAATA ATAATA A
1 ATGATA ATGATA ATGATA ATGATA ATGATA A
1327172 CGGGACGAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (6 bp):
ATGATA
Found at i:1327113 original size:3 final size:3
Alignment explanation
Indices: 1327093--1327133 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1327083 AAATTTTAGT
* * *
1327093 ATG ATA ATG ATA ATG ATG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1327134 AATAATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:1327138 original size:3 final size:3
Alignment explanation
Indices: 1327126--1327171 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
1327116 GATGATGATG
*
1327126 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1327172 CGGGACGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1327535 original size:134 final size:134
Alignment explanation
Indices: 1327336--1327912 Score: 691
Period size: 134 Copynumber: 4.3 Consensus size: 134
1327326 ATCAGATCAA
* * * * * * ****
1327336 GAAATATTGATTCATTTCATTGTTCTTCAGGGAAAATTGAATCGAGGAAGATTTGTTATGTTGTT
1 GAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTT
* * *
1327401 ACTCAGGGAATATCAAATCTTGAAATAGAGGGATCTGTTTCACTTCTTCTCGAGGGAAAATCAGA
66 ACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTTCACTTCTTCTTGAGGGAAAATCAGA
1327466 TATG
131 TATG
* * *
1327470 GAAATGTTGATTCATTTCACTGTTCTTTAGGGAAGATTGAATCAAGGCAGACTTGTTCCACTGTT
1 GAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTT
* *
1327535 ACTCAGGGAAGATCAAATCTTAAAAGAGAGGGATCTGTTTCACTTCTTCTTAAGGGAAAATCAGA
66 ACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTTCACTTCTTCTTGAGGGAAAATCAGA
*
1327600 TATA
131 TATG
* * *
1327604 AAAACGTTG-----TTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACT-TT
1 GAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTT
* * * *
1327663 CACTCAGGGAAGATCAAATCTTGAAAGAGTGGGATTTGTTT-AGCTTCTTATTGACGGAAAATCA
66 -ACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTTCA-CTTCTTCTTGAGGGAAAATCA
* *
1327727 TATCTG
129 GATATG
* ** * * *
1327733 AAAACATTGATTCATCCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAAACTTGTTCCACTATT
1 GAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTT
* ** * * * *
1327798 ACTCAGGGAAGATCAAATCTTGAAAGAAAGTAATATGTTCCATTTCTTCTTGAGGGAAAATCATA
66 ACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTTCACTTCTTCTTGAGGGAAAATCAGA
*
1327863 TTTG
131 TATG
* *
1327867 GAAATGTAGATTCATTCCAATGTTCTTCAGGGAAGATTGAATCGAG
1 GAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
1327913 TTCGATTTTG
Statistics
Matches: 382, Mismatches: 52, Indels: 18
0.85 0.12 0.04
Matches are distributed among these distances:
128 3 0.01
129 110 0.29
134 266 0.70
135 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (134 bp):
GAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTT
ACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATCTGTTTCACTTCTTCTTGAGGGAAAATCAGA
TATG
Found at i:1327847 original size:263 final size:263
Alignment explanation
Indices: 1327356--1327860 Score: 683
Period size: 263 Copynumber: 1.9 Consensus size: 263
1327346 TTCATTTCAT
* * * *
1327356 TGTTCTTCAGGGAAAATTGAATCGAGGAAGATTTGTTATGTTGTTACTCAGGGAATATCAAATCT
1 TGTTCTTCAGGGAAAATTGAATCGAGGAAGACTTGTTATCTTGTCACTCAGGGAAGATCAAATCT
* * * * ** *
1327421 TGAAATAGAGGGATCTGTTTCACTTCTTCTCGAGGGAAAATCAGATATGGAAATGTTGATTCATT
66 TGAAAGAGAGGGATCTGTTTCACTTCTTATCGACGGAAAATCAGATATGAAAACATTGATTCATC
* * * *
1327486 TCACTGTTCTTTAGGGAAGATTGAATCAAGGCAGACTTGTTCCACTGTTACTCAGGGAAGATCAA
131 CCACTGTTCTTCAGGGAAGATTGAATCAAGGCAAACTTGTTCCACTATTACTCAGGGAAGATCAA
* * * *
1327551 ATCTTAAAAGAGAGGGATCTGTTTCACTTCTTCTTAAGGGAAAATCAGATATAAAAACGTTGTTC
196 ATCTTAAAAGAAAGGAATATGTTCCACTTCTTCTTAAGGGAAAATCAGATATAAAAACGTTGTTC
1327616 CAC
261 CAC
* *
1327619 TGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCA-CTT-TCACTCAGGGAAGATCAAAT
1 TGTTCTTCAGGGAAAATTGAATCGAGGAAGACTTGTT--ATCTTGTCACTCAGGGAAGATCAAAT
* * * * *
1327682 CTTGAAAGAGTGGGATTTGTTT-AGCTTCTTATTGACGGAAAATCATATCTGAAAACATTGATTC
64 CTTGAAAGAGAGGGATCTGTTTCA-CTTCTTATCGACGGAAAATCAGATATGAAAACATTGATTC
*
1327746 ATCCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAAACTTGTTCCACTATTACTCAGGGAAGAT
128 ATCCCACTGTTCTTCAGGGAAGATTGAATCAAGGCAAACTTGTTCCACTATTACTCAGGGAAGAT
* * * *
1327811 CAAATCTTGAAAGAAAGTAATATGTTCCATTTCTTCTTGAGGGAAAATCA
193 CAAATCTTAAAAGAAAGGAATATGTTCCACTTCTTCTTAAGGGAAAATCA
1327861 TATTTGGAAA
Statistics
Matches: 208, Mismatches: 31, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
262 1 0.00
263 204 0.98
264 2 0.01
265 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (263 bp):
TGTTCTTCAGGGAAAATTGAATCGAGGAAGACTTGTTATCTTGTCACTCAGGGAAGATCAAATCT
TGAAAGAGAGGGATCTGTTTCACTTCTTATCGACGGAAAATCAGATATGAAAACATTGATTCATC
CCACTGTTCTTCAGGGAAGATTGAATCAAGGCAAACTTGTTCCACTATTACTCAGGGAAGATCAA
ATCTTAAAAGAAAGGAATATGTTCCACTTCTTCTTAAGGGAAAATCAGATATAAAAACGTTGTTC
CAC
Found at i:1328502 original size:42 final size:41
Alignment explanation
Indices: 1328412--1328505 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
1328402 GGTGTTATGC
**
1328412 ATGACCCGAAGGACTTATCATATTGCTCGAAAGGTTTATAG
1 ATGACCCGAAGGACTTATCATATTGCTCGAAAGACTTATAG
* *
1328453 ATAACCCGAAGGATTTACTCATCA-TGCTCGAAAGACTTACT-G
1 ATGACCCGAAGGACTTA-TCAT-ATTGCTCGAAAGACTTA-TAG
1328495 ATGACCCGAAG
1 ATGACCCGAAG
1328506 AACATACCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 15 0.33
42 28 0.62
43 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (41 bp):
ATGACCCGAAGGACTTATCATATTGCTCGAAAGACTTATAG
Found at i:1328550 original size:12 final size:12
Alignment explanation
Indices: 1328533--1328557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1328523 AATAGCTTAT
1328533 TAGGTAAGAAAC
1 TAGGTAAGAAAC
1328545 TAGGTAAGAAAC
1 TAGGTAAGAAAC
1328557 T
1 T
1328558 TTTCATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (12 bp):
TAGGTAAGAAAC
Found at i:1328948 original size:233 final size:233
Alignment explanation
Indices: 1328639--1329091 Score: 649
Period size: 233 Copynumber: 1.9 Consensus size: 233
1328629 GAAAACTCCT
** * * * * *
1328639 GCCCGAAGGACTTATCATCTTGTTCAAAAGGCTTATAGATGACCTGAAGGATTTAATCATCATTC
1 GCCCGAAGGACTTATCATCTTACTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
** * ** *
1328704 TTTAAAGACTTACTGATGGCTCGATGGACTTATCAATTTTGGAAATAGTTTACTATGTAAGAAAC
66 TCGAAAGACTTACTGATGGCCCGAAAGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
** * *
1328769 TTTTCTTAGTTTTCAAAAATTTCAACTTTCATATTTAAATGAGAAATTTTTCTCATTTTTCAAAA
131 TTTTCTTAACTTTCAAAAATTTCAACTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAA
*
1328834 AACATGT-GAAAACATTATGCCCGAAGGTATTATGGATG
196 AACATGTAG-AAACATCATGCCCGAAGGTATTATGGATG
* *
1328872 GCCCG-AGAGACTTATCATCTTACTCGAAAGACTTACGGATGACCCGAAGGATTTAAGCATCATG
1 GCCCGAAG-GACTTATCATCTTACTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATG
* *
1328936 CTCGAAAGACTTATTGATGGCCCGAAAGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAG
65 CTCGAAAGACTTACTGATGGCCCGAAAGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAA
* *
1329001 CTTTTCTTAACTTTCAAAATTTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAA
130 CTTTTCTTAACTTTCAAAAATTTCAACTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAA
*
1329066 AAACATGTAGAAACATCCTGCCCGAA
195 AAACATGTAGAAACATCATGCCCGAA
1329092 AGTCTTATTA
Statistics
Matches: 193, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
232 2 0.01
233 190 0.98
234 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (233 bp):
GCCCGAAGGACTTATCATCTTACTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
TCGAAAGACTTACTGATGGCCCGAAAGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
TTTTCTTAACTTTCAAAAATTTCAACTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAA
AACATGTAGAAACATCATGCCCGAAGGTATTATGGATG
Found at i:1330881 original size:2 final size:2
Alignment explanation
Indices: 1330874--1330906 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1330864 AGCTTTATTG
1330874 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1330907 ATCTCCTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1335191 original size:19 final size:17
Alignment explanation
Indices: 1335153--1335191 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1335143 GAAATTCTCT
*
1335153 TTCGAGAAAAACTCTTG
1 TTCGAGAAAAACACTTG
1335170 TTCGAGAAACAACACTTTG
1 TTCGAGAAA-AACAC-TTG
1335189 TTC
1 TTC
1335192 TCGATAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (17 bp):
TTCGAGAAAAACACTTG
Found at i:1357553 original size:54 final size:54
Alignment explanation
Indices: 1357452--1357732 Score: 305
Period size: 54 Copynumber: 5.2 Consensus size: 54
1357442 CTATATGTAT
* * *
1357452 TATAGGCACTAAGTGTGCAATCCACGGAATTCATAATGTGTTTATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* * * * * *
1357506 TATCGGCACTAAGTATGCAACCCACAGAATTTATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* * *
1357560 TATAGGCACTAAGTGTACAACCCAC-GAAATTTATAA-AGTGTTTATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATAATA-TGTTTATGAACGACCG
* * * * * * *
1357614 TATAGCCGCTAACTGTGCAACTCACAGAATTCATAATGTGTTTATGAATGATCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* * * * *
1357668 TATAGACACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATCAAAGATCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
*
1357722 TATGGGCACTA
1 TATAGGCACTA
1357733 CGTCTGCATC
Statistics
Matches: 189, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.01
54 186 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
Found at i:1363379 original size:54 final size:54
Alignment explanation
Indices: 1363100--1363381 Score: 282
Period size: 54 Copynumber: 5.2 Consensus size: 54
1363090 TACTACAGGA
* * * * * * *
1363100 ACTAAGTATGCAACCCATATAATTAATAATGTGTGTATGAACGACCGTATAGGC
1 ACTAAGTGTGCAACCCACAGAATTCATAATGTGTTTATGAACAATCGTATAGGC
* * * * * *
1363154 ACTAAATGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTATAGAC
1 ACTAAGTGTGCAACCCACAGAATTCATAATGTGTTTATGAACAATCGTATAGGC
* * *
1363208 ACTAAGTGTGCAACCCACAGAATTCTTAATGTGTTTATGAATGAGT-GTATAGGC
1 ACTAAGTGTGCAACCCACAGAATTCATAATGTGTTTATGAA-CAATCGTATAGGC
* ** * *
1363262 ATTAAGTGTGCAACCCACAGAATTTGTAACGTGTTTATGAACGATCGTATCA-GC
1 ACTAAGTGTGCAACCCACAGAATTCATAATGTGTTTATGAACAATCGTAT-AGGC
* * * *
1363316 ACAAAGTGTGCAACCGA-AGGAATTCATAATATGTTTATGAACAATCGTATCGGC
1 ACTAAGTGTGCAACCCACA-GAATTCATAATGTGTTTATGAACAATCGTATAGGC
*
1363370 ACTATGTGTGCA
1 ACTAAGTGTGCA
1363382 TCTCAAAGAA
Statistics
Matches: 185, Mismatches: 38, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
53 2 0.01
54 181 0.98
55 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (54 bp):
ACTAAGTGTGCAACCCACAGAATTCATAATGTGTTTATGAACAATCGTATAGGC
Found at i:1373247 original size:19 final size:21
Alignment explanation
Indices: 1373223--1373276 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 21
1373213 TCTAATTTTG
1373223 GTATCGATACCATA-AGGG-A
1 GTATCGATACCATAGAGGGTA
*
1373242 GTATCGGTACCATAGTAGGGTA
1 GTATCGATACCATAG-AGGGTA
1373264 GTATCGATACCAT
1 GTATCGATACCAT
1373277 GTCAAGGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 13 0.43
21 4 0.13
22 13 0.43
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
GTATCGATACCATAGAGGGTA
Found at i:1373328 original size:95 final size:96
Alignment explanation
Indices: 1373164--1373352 Score: 260
Period size: 95 Copynumber: 2.0 Consensus size: 96
1373154 ATACCGTTGA
* *
1373164 GGTAGTATCAATATCATTGTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATCG
1 GGTAGTATCAATACCATTGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCG
*
1373229 ATACC-ATAAGGGAGTATCGGTACCATAGTAG
66 ATACCAAGAAGGG-GTATCGGTACCATAGTAG
* * *
1373260 GGTAGTATCGATACCA-TGTCAAGGGTGTCGATACCATG-AAACATCGAACCTAATTTTGGTAAT
1 GGTAGTATCAATACCATTGT-AAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGT-AT
*
1373323 -GATACCAAGAAGGGGTATCGGTACCCTAGT
64 CGATACCAAGAAGGGGTATCGGTACCATAGT
1373353 GTAGAAGTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
95 45 0.54
96 38 0.46
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (96 bp):
GGTAGTATCAATACCATTGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCG
ATACCAAGAAGGGGTATCGGTACCATAGTAG
Found at i:1373386 original size:95 final size:95
Alignment explanation
Indices: 1373182--1373388 Score: 210
Period size: 95 Copynumber: 2.2 Consensus size: 95
1373172 CAATATCATT
* * *
1373182 GTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATCGATACCATAAGGGAGTATC
1 GTAAGCGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATACCAGAAGGGAGTATC
* * *
1373247 GGTACCATAGTAGGGTAGTATCGATACCAT
66 GGTACCATAGTAGAGAAGTATCGATACCAG
* * *
1373277 GTCAAGGGTGTCGATACCATG-AAACATCGAACCTAATTTTGGTAAT-GATACCAAGAAGGG-GT
1 GT-AAGCGTATCGATACCAAGCAAACATCGAACCTAATTTTGGT-ATCGATACC-AGAAGGGAGT
* *
1373339 ATCGGTACCCTAGT-GTAGAAGTATC-AGTACTAGG
63 ATCGGTACCATAGTAG-AGAAGTATCGA-TACCA-G
1373373 GT-AGTCGTATCGATAC
1 GTAAG-CGTATCGATAC
1373389 TTTGGAACCA
Statistics
Matches: 94, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
94 4 0.04
95 64 0.68
96 26 0.28
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (95 bp):
GTAAGCGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATACCAGAAGGGAGTATC
GGTACCATAGTAGAGAAGTATCGATACCAG
Found at i:1373885 original size:45 final size:45
Alignment explanation
Indices: 1373801--1374107 Score: 390
Period size: 45 Copynumber: 6.9 Consensus size: 45
1373791 GGAAAATAAT
* * * * * *
1373801 AATGCATATGAGTGCATTATCAGCATG-AAAGGATATTATAGTTGA
1 AATGTATATGGGTACATTATCAACA-GAAAAGTATGTTATAGTTGA
* *
1373846 AATGTATATGGGTACATTATCAATAGAAAAGTATGTTATATTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
* * *
1373891 AATGTATATGAGTACATTATCAACAAAAAAGTATGATATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
*
1373936 AATGTATATGGGTACATTATCAATAGAAAAGTATGTTATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
*
1373981 AATGTATATGGGTACATTATCAACAGAAAAGTATG--CTAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
* * **
1374024 AAT-TCATATGGGTGCATTATCAATAGAAAAGTATGCAATAGTTGA
1 AATGT-ATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
* *
1374069 AATGTATATGGGTGCATTATCAACATAAAAGTAT-TTATA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATA
1374108 AATATGAAAT
Statistics
Matches: 231, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.00
43 38 0.16
44 4 0.02
45 187 0.81
46 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (45 bp):
AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
Found at i:1380242 original size:22 final size:23
Alignment explanation
Indices: 1380208--1380260 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
1380198 TATCGATATC
**
1380208 GTAAGGG-AGTATCGGTACCATA
1 GTAAGGGTAGTATCAATACCATA
1380230 GT-AGGGTAGTATCAATACCATA
1 GTAAGGGTAGTATCAATACCATA
*
1380252 TTAAGGGTA
1 GTAAGGGTA
1380261 TCGATACCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (23 bp):
GTAAGGGTAGTATCAATACCATA
Found at i:1380336 original size:22 final size:20
Alignment explanation
Indices: 1380311--1380363 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
1380301 CCAGGATGGG
*
1380311 GTATCAGTACCCTAGTGTAGAA
1 GTATCAGTA--CTAGGGTAGAA
* *
1380333 GTATCGGTACTAGGGTAGTA
1 GTATCAGTACTAGGGTAGAA
*
1380353 GTATCAATACT
1 GTATCAGTACT
1380364 TTGGAACCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 18 0.69
22 8 0.31
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
GTATCAGTACTAGGGTAGAA
Found at i:1380336 original size:95 final size:96
Alignment explanation
Indices: 1380157--1380337 Score: 233
Period size: 95 Copynumber: 1.9 Consensus size: 96
1380147 GATATCATTG
* * * *
1380157 TAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTCGGTATCGATATCGTAAGGGAGTATCG
1 TAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTCGGTATCGATACCGGAAGGGAGTATCA
* *
1380222 GTACCATAGTAGGGTAGTATCAATACCATAT
66 GTACCATAGTAGAGAAGTATCAATACCATAT
* * *
1380253 TAAGGGTATCGATACCATG-AAACATCGAACCTAATTTTGGTATCGATACCAGGATGGG-GTATC
1 TAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTCGGTATCGATACC-GGAAGGGAGTATC
*
1380316 AGTACCCTAGT-GTAGAAGTATC
65 AGTACCATAGTAG-AGAAGTATC
1380338 GGTACTAGGG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
94 1 0.01
95 49 0.67
96 23 0.32
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (96 bp):
TAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTCGGTATCGATACCGGAAGGGAGTATCA
GTACCATAGTAGAGAAGTATCAATACCATAT
Found at i:1380839 original size:45 final size:45
Alignment explanation
Indices: 1380775--1380993 Score: 289
Period size: 45 Copynumber: 4.9 Consensus size: 45
1380765 GGAAAATAAT
* * * * *
1380775 AATGTATATGAGTGCATTATCAGCATGAAATG-ATGTTATAGTTTA
1 AATGTATATGGGTACATTATCAACA-GAAAAGTATGTTATAGTTGA
*
1380820 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
* *
1380865 AATGTATATGGGTACATTATCAACCG-AAAGTATGCTATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
* *
1380909 AATGCATATGGGTACATTATCAACAAAAAAGTATGTTATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
* * * *
1380954 AATGCATATGGATGCATTATCAACATAAAAGTATGTTATA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATA
1380994 TATATGAAAT
Statistics
Matches: 158, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
44 46 0.29
45 112 0.71
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (45 bp):
AATGTATATGGGTACATTATCAACAGAAAAGTATGTTATAGTTGA
Found at i:1380924 original size:89 final size:90
Alignment explanation
Indices: 1380775--1380978 Score: 286
Period size: 89 Copynumber: 2.3 Consensus size: 90
1380765 GGAAAATAAT
* * * * * *
1380775 AATGTATATGAGTGCATTATCAGCATGAAATGATGTTATAGTTTAAATGTATATGGGTACATTAT
1 AATGTATATGGGTGCATTATCAACACGAAATGATGCTATAGTTGAAATGCATATGGGTACATTAT
*
1380840 CAACAGAAAAGTATGCTATAGTTGA
66 CAACAAAAAAGTATGCTATAGTTGA
*
1380865 AATGTATATGGGTACATTATCAAC-CGAAA-GTATGCTATAGTTGAAATGCATATGGGTACATTA
1 AATGTATATGGGTGCATTATCAACACGAAATG-ATGCTATAGTTGAAATGCATATGGGTACATTA
*
1380928 TCAACAAAAAAGTATGTTATAGTTGA
65 TCAACAAAAAAGTATGCTATAGTTGA
* *
1380954 AATGCATATGGATGCATTATCAACA
1 AATGTATATGGGTGCATTATCAACA
1380979 TAAAAGTATG
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
88 1 0.01
89 78 0.78
90 21 0.21
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (90 bp):
AATGTATATGGGTGCATTATCAACACGAAATGATGCTATAGTTGAAATGCATATGGGTACATTAT
CAACAAAAAAGTATGCTATAGTTGA
Found at i:1381019 original size:89 final size:87
Alignment explanation
Indices: 1380819--1381008 Score: 209
Period size: 89 Copynumber: 2.1 Consensus size: 87
1380809 GTTATAGTTT
* * * * *
1380819 AAATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGAAATGTATATGGGTACATTA
1 AAATGCATATGGGT--AGTATCAACAAAAAAGTATGCTATAGTTGAAATGCATATGGATACATTA
* *
1380884 TCAACCGAAAGTATGCTATAGTTG
64 TCAACCAAAAGTATGCTATAATTG
* * *
1380908 AAATGCATATGGGTACATTATCAACAAAAAAGTATGTTATAGTTGAAATGCATATGGATGCATTA
1 AAATGCATATGGGT--AGTATCAACAAAAAAGTATGCTATAGTTGAAATGCATATGGATACATTA
* *
1380973 TCAACATAAAAGTATGTTATATATATG
64 TCAAC-CAAAAGTATGCTATA-AT-TG
1381000 AAATGCATA
1 AAATGCATA
1381009 ATGGTGTATC
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 64 0.73
90 12 0.14
91 1 0.01
92 11 0.12
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (87 bp):
AAATGCATATGGGTAGTATCAACAAAAAAGTATGCTATAGTTGAAATGCATATGGATACATTATC
AACCAAAAGTATGCTATAATTG
Found at i:1383996 original size:29 final size:29
Alignment explanation
Indices: 1383864--1384184 Score: 243
Period size: 29 Copynumber: 11.1 Consensus size: 29
1383854 GGAGGGTATA
* * * *
1383864 ATCCCCATCCTGATTCTACATTGGATTAT
1 ATCCCCGTCCTGATTTTGCATGGGATTAT
** * *
1383893 ATCCATGTCCT-ATTTCTGTATGAGATTAT
1 ATCCCCGTCCTGATTT-TGCATGGGATTAT
* * *
1383922 ATCCTCATCCTGATTTTACATGGGATTAT
1 ATCCCCGTCCTGATTTTGCATGGGATTAT
*
1383951 ATCTCCC-TCCTGATTCTGCATGGGATTAT
1 ATC-CCCGTCCTGATTTTGCATGGGATTAT
* *
1383980 ATCCCCGTTCT-ATTTCTGCATGGAATTAT
1 ATCCCCGTCCTGATTT-TGCATGGGATTAT
*
1384009 ATCCCCGTCCTGATTTTGCATGGGATTTT
1 ATCCCCGTCCTGATTTTGCATGGGATTAT
* * ** * * *
1384038 ATCTCCATTTTAATTATGCATGGAATTAT
1 ATCCCCGTCCTGATTTTGCATGGGATTAT
*
1384067 ATCCCCGTCCTGATTTTGCATGGGATTTT
1 ATCCCCGTCCTGATTTTGCATGGGATTAT
* * ** * * *
1384096 ATCTCCATTTTAATTCTGCATGGAATTAT
1 ATCCCCGTCCTGATTTTGCATGGGATTAT
* * *
1384125 ATCCACGTCCTGATTTTGTATGGGATTTT
1 ATCCCCGTCCTGATTTTGCATGGGATTAT
* * ** * *
1384154 ATCTCCATTTTAATTTTTCATGGGATTAT
1 ATCCCCGTCCTGATTTTGCATGGGATTAT
1384183 AT
1 AT
1384185 ACCTATCAAT
Statistics
Matches: 220, Mismatches: 66, Indels: 12
0.74 0.22 0.04
Matches are distributed among these distances:
28 9 0.04
29 201 0.91
30 10 0.05
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.43
Consensus pattern (29 bp):
ATCCCCGTCCTGATTTTGCATGGGATTAT
Found at i:1384020 original size:87 final size:87
Alignment explanation
Indices: 1383868--1384156 Score: 269
Period size: 87 Copynumber: 3.3 Consensus size: 87
1383858 GGTATAATCC
* * ** * *
1383868 CCATCCTGATTCTACATTGGATTATATCCATGTCCTATTTCTGTAT-GAGATTATATCCTCATCC
1 CCATCCTGATTCTGCATGGGATTATATCCCCGTCCTATTTCTGCATGGA-ATTATATCCCCATCC
1383932 TGATTTTACATGGGATTATATCT
65 TGATTTTACATGGGATTATATCT
* * *
1383955 CCCTCCTGATTCTGCATGGGATTATATCCCCGTTCTATTTCTGCATGGAATTATATCCCCGTCCT
1 CCATCCTGATTCTGCATGGGATTATATCCCCGTCCTATTTCTGCATGGAATTATATCCCCATCCT
* *
1384020 GATTTTGCATGGGATTTTATCT
66 GATTTTACATGGGATTATATCT
** * * * * * * **
1384042 CCATTTTAATTATGCATGGAATTATATCCCCGTCCTGATTT-TGCATGGGATTTTATCTCCATTT
1 CCATCCTGATTCTGCATGGGATTATATCCCCGTCCT-ATTTCTGCATGGAATTATATCCCCATCC
* * * *
1384106 TAATTCTGCATGGAATTATATC-
65 TGATTTTACATGGGATTATATCT
* * * *
1384128 CACGTCCTGATTTTGTATGGGATTTTATC
1 C-CATCCTGATTCTGCATGGGATTATATC
1384157 TCCATTTTAA
Statistics
Matches: 163, Mismatches: 36, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
86 1 0.01
87 156 0.96
88 6 0.04
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (87 bp):
CCATCCTGATTCTGCATGGGATTATATCCCCGTCCTATTTCTGCATGGAATTATATCCCCATCCT
GATTTTACATGGGATTATATCT
Found at i:1384078 original size:116 final size:116
Alignment explanation
Indices: 1383940--1384184 Score: 375
Period size: 116 Copynumber: 2.1 Consensus size: 116
1383930 CCTGATTTTA
* *
1383940 CATGGGATTATATCTCCCTCCTGATTCTGCATGGGATTATATCCCCGTTCTATTTCTGCATGGAA
1 CATGGGATTATATCTCCCTCCTGATTCTGCATGGGATTATATCCCCATTCTAATTCTGCATGGAA
*
1384005 TTATATCCCCGTCCTGATTTTGCATGGGATTTTATCTCCATTTTAATTATG
66 TTATATCCACGTCCTGATTTTGCATGGGATTTTATCTCCATTTTAATTATG
* * * * *
1384056 CATGGAATTATATC-CCCGTCCTGATTTTGCATGGGATTTTATCTCCATTTTAATTCTGCATGGA
1 CATGGGATTATATCTCCC-TCCTGATTCTGCATGGGATTATATCCCCATTCTAATTCTGCATGGA
* * *
1384120 ATTATATCCACGTCCTGATTTTGTATGGGATTTTATCTCCATTTTAATTTTT
65 ATTATATCCACGTCCTGATTTTGCATGGGATTTTATCTCCATTTTAATTATG
1384172 CATGGGATTATAT
1 CATGGGATTATAT
1384185 ACCTATCAAT
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
115 3 0.03
116 113 0.97
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (116 bp):
CATGGGATTATATCTCCCTCCTGATTCTGCATGGGATTATATCCCCATTCTAATTCTGCATGGAA
TTATATCCACGTCCTGATTTTGCATGGGATTTTATCTCCATTTTAATTATG
Found at i:1389044 original size:45 final size:45
Alignment explanation
Indices: 1388975--1389090 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
1388965 AATACACCGA
* * *
1388975 TTTGTATTTTCATTTGTGGCATCCTTTAATACCACTTATGCACTG
1 TTTGCATTTTCATTTATGGCATCCTTTAATACCAATTATGCACTG
* * * *
1389020 TTTGCATTTTCATTTATGGTATCCTTTCATACCAATTATTCATTG
1 TTTGCATTTTCATTTATGGCATCCTTTAATACCAATTATGCACTG
* *
1389065 TTGTACATTTT-ATATATGGCATCCTT
1 TT-TGCATTTTCATTTATGGCATCCTT
1389091 CAAAACCATT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 53 0.88
46 7 0.12
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (45 bp):
TTTGCATTTTCATTTATGGCATCCTTTAATACCAATTATGCACTG
Found at i:1389254 original size:81 final size:81
Alignment explanation
Indices: 1389141--1389716 Score: 803
Period size: 81 Copynumber: 7.1 Consensus size: 81
1389131 AATCCTTTAG
* * * *
1389141 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTGTCAAATGC
* *
1389206 ACAACTAAGCTATTAA
66 ACAGCTAGGCTATTAA
* * * * * *
1389222 TCTTTTACTCAAATGTATTTAACTTTTCATCTAACTAGCATAATTAACACTTTTCTCTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTGTCAAATGC
* *
1389287 ACATCTAGTCTATTAA
66 ACAGCTAGGCTATTAA
* * * *
1389303 TCTTTTACTCAAAGGTATTTAACCTGTCATCTAACTAGCATAATTTAAACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTGTCAAATGC
* * *
1389368 ATAGCTAGGATATTAT
66 ACAGCTAGGCTATTAA
* *
1389384 TCTTTTACTCAAGGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTGTCAAATGC
1389449 ACAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* * * * * ** *
1389465 TATTTTACTAAAATGTATTTAACCTTTAATCTAACTGGCATAATTGACATATTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTGTCAAATGC
1389530 ACAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* *
1389546 TCTTTTACTCAAAGGTATTTAACCTTTCATATAAC-TGTCATAATTGACACCTTTTTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTG-CATAATTGACACCTTTCTGTCAAATG
*
1389610 CACAGTTAGGCTATTAA
65 CACAGCTAGGCTATTAA
* * *
1389627 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTGTCAAATGC
1389692 ACAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
1389708 TCTTTTACT
1 TCTTTTACT
1389717 TTAAACAATA
Statistics
Matches: 435, Mismatches: 58, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
80 1 0.00
81 433 1.00
82 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCTATTAA
Found at i:1395461 original size:45 final size:46
Alignment explanation
Indices: 1395397--1395514 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 46
1395387 ACCATTTTGT
* *
1395397 ATTTTCATTTGTGACATCCATTCATACCACTTATGCACTGTT-TAC
1 ATTTTCATTTATGACATCCATTCATACCAATTATGCACTGTTGTAC
** * *
1395442 ATTTTCATTTATTTCATCCATTGATACCAATTATGCATTGTTGTAC
1 ATTTTCATTTATGACATCCATTCATACCAATTATGCACTGTTGTAC
* * *
1395488 ATTTT-ATATATGGCATCCTTTCATACC
1 ATTTTCATTTATGACATCCATTCATACC
1395515 GTTAATGCGC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 53 0.87
46 8 0.13
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.45
Consensus pattern (46 bp):
ATTTTCATTTATGACATCCATTCATACCAATTATGCACTGTTGTAC
Found at i:1395741 original size:81 final size:81
Alignment explanation
Indices: 1395606--1396040 Score: 595
Period size: 81 Copynumber: 5.4 Consensus size: 81
1395596 CATGATTGAC
* * * *
1395606 AATGCACAACTAAGCTATTAATCTTTTACTCAAATGTATTTAACCTTTCATCTAACTAGCATAAT
1 AATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* * *
1395671 TAACACTTTTCTCTAA
66 TGACACTTTTCTGTCA
* *
1395687 AATGCACATCTAGTCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 AATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* *
1395752 TTACACCTTTCTGTCA
66 TGACACTTTTCTGTCA
* * *
1395768 AATGCATAGCTAGGCTATTAGTCTTTTACTCAAGGGTATTTAACCTTTCATCTAACTGGCATAAT
1 AATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* *
1395833 TGACACCTTTATGTCA
66 TGACACTTTTCTGTCA
* * * ** *
1395849 AATGGACAGCTAGGCTATTAATATTTTACTAAAATATATTTAACCTTTAATCTAACTGGCATAAT
1 AATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
1395914 TGACA-TATTTTTGTCA
66 TGACACT-TTTCTGTCA
* * *
1395930 AATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACATTTCATATAACTGTCATAAT
1 AATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1395995 TGACACCTTTT-TGTCA
66 TGACA-CTTTTCTGTCA
*
1396011 AATGCACAGTTAGGCTATTAATCTTTTACT
1 AATGCACAGCTAGGCTATTAATCTTTTACT
1396041 TTAAACAATA
Statistics
Matches: 314, Mismatches: 37, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
81 310 0.99
82 3 0.01
83 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (81 bp):
AATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
TGACACTTTTCTGTCA
Found at i:1399676 original size:26 final size:25
Alignment explanation
Indices: 1399604--1399685 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 25
1399594 TAAGTGGAAT
1399604 TTAACATAGACTTACATCGGTGAAA
1 TTAACATAGACTTACATCGGTGAAA
* *
1399629 ATAACAACTA-A-TT-CTATGGGTGAAA
1 TTAAC-A-TAGACTTAC-ATCGGTGAAA
*
1399654 CTTAACATGGACTTACATCGGTGAAA
1 -TTAACATAGACTTACATCGGTGAAA
1399680 TTAACA
1 TTAACA
1399686 ACTAATTCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
24 2 0.04
25 23 0.51
26 17 0.38
27 3 0.07
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (25 bp):
TTAACATAGACTTACATCGGTGAAA
Found at i:1399702 original size:25 final size:26
Alignment explanation
Indices: 1399680--1399762 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
1399670 ATCGGTGAAA
*
1399680 TTAACAACTAATTCTAGGAGTGAAAC
1 TTAACAACTAATTCTAGGAGTAAAAC
** **
1399706 TTAAC-A-TAAACTTAAACTAGTAAAA-
1 TTAACAACT-AA-TTCTAGGAGTAAAAC
1399731 TTAACAACTAATTCTAGGAGTAAAAC
1 TTAACAACTAATTCTAGGAGTAAAAC
1399757 TTAACA
1 TTAACA
1399763 TAGACTTACA
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (26 bp):
TTAACAACTAATTCTAGGAGTAAAAC
Found at i:1399711 original size:26 final size:26
Alignment explanation
Indices: 1399674--1399762 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 26
1399664 ACTTACATCG
1399674 GTGAAA-TTAACAACTAATTCTAGGA
1 GTGAAACTTAACAACTAATTCTAGGA
** **
1399699 GTGAAACTTAAC-A-TAAACTTAAACTA
1 GTGAAACTTAACAACT-AA-TTCTAGGA
*
1399725 GT-AAAATTAACAACTAATTCTAGGA
1 GTGAAACTTAACAACTAATTCTAGGA
*
1399750 GTAAAACTTAACA
1 GTGAAACTTAACA
1399763 TAGACTTACA
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
24 1 0.02
25 23 0.48
26 23 0.48
27 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.27
Consensus pattern (26 bp):
GTGAAACTTAACAACTAATTCTAGGA
Found at i:1399867 original size:51 final size:51
Alignment explanation
Indices: 1399322--1399895 Score: 426
Period size: 51 Copynumber: 11.3 Consensus size: 51
1399312 TACACCAATG
* * * *
1399322 AAATCTAACACATAATTCCAATAGTG-AACTTATGACA-A-ACTTACAC-AGTA
1 AAAT-TAACACTTAATTCTAGTAGTGAAACTTA--ACATAGACTTACACTGGTA
* * * * * * *
1399372 AAATTAGCACTTAATTCCAGCAATGAAACTTAACATAGAATTATACTAGTA
1 AAATTAACACTTAATTCTAGTAGTGAAACTTAACATAGACTTACACTGGTA
* * * * *
1399423 AAATTAACACTTGATTCTAGTAGTGGAAAC-TAACATAAACTTATACCGGTG
1 AAATTAACACTTAATTCTAGTAGT-GAAACTTAACATAGACTTACACTGGTA
* * * * * * * *
1399474 AAATTAAC-GTTGAATTCCAGCACTAAAACTTAACATAAAATTACA-TCGATA
1 AAATTAACACTT-AATTCTAGTAGTGAAACTTAACATAGACTTACACT-GGTA
* * * * *
1399525 AAATAAACACTTAATTCCAATAGTG-AACTTAACATAGACTTACACCGATA
1 AAATTAACACTTAATTCTAGTAGTGAAACTTAACATAGACTTACACTGGTA
* * * * *
1399575 AAATTAACTCTTAGTACTA-TAAGTGGAATTTAACATAGACTTACA-TCGGTGA
1 AAATTAACACTTAATTCTAGT-AGTGAAACTTAACATAGACTTACACT-GGT-A
* * *
1399627 AAA-TAACAAC-TAATTCTA-TGGGTGAAACTTAACATGGACTTACA-TCGGTG
1 AAATTAAC-ACTTAATTCTAGT-AGTGAAACTTAACATAGACTTACACT-GGTA
* * * *
1399677 AAATTAACAAC-TAATTCTAGGAGTGAAACTTAACATAAACTTAAACTAGTA
1 AAATTAAC-ACTTAATTCTAGTAGTGAAACTTAACATAGACTTACACTGGTA
* * *
1399728 AAATTAACAAC-TAATTCTAGGAGTAAAACTTAACATAGACTTACACCGGTA
1 AAATTAAC-ACTTAATTCTAGTAGTGAAACTTAACATAGACTTACACTGGTA
* * * **
1399779 AAATTAACACTTAATTCCAGTACTGGAACTTAACATATTCTTACACTGGTA
1 AAATTAACACTTAATTCTAGTAGTGAAACTTAACATAGACTTACACTGGTA
*
1399830 AAATTAACACTTAATTCTAGTAGTGAAACTTAACATATACTTACA-TCGGTA
1 AAATTAACACTTAATTCTAGTAGTGAAACTTAACATAGACTTACACT-GGTA
* *
1399881 AACTTAACACGTAAT
1 AAATTAACACTTAAT
1399896 ATGTTCATTA
Statistics
Matches: 424, Mismatches: 80, Indels: 39
0.78 0.15 0.07
Matches are distributed among these distances:
48 3 0.01
49 18 0.04
50 67 0.16
51 323 0.76
52 13 0.03
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (51 bp):
AAATTAACACTTAATTCTAGTAGTGAAACTTAACATAGACTTACACTGGTA
Found at i:1399889 original size:153 final size:153
Alignment explanation
Indices: 1399322--1399874 Score: 491
Period size: 153 Copynumber: 3.6 Consensus size: 153
1399312 TACACCAATG
* * * ** * * *
1399322 AAATCTAACACATAATTCCAATAGTG-AACTTATGACAAACTTACA-CAGTAAAATTAGCACTTA
1 AAAT-TAACACTTAATTCCAGTACTGAAACTTAACATAAACTTACATCGGTAAAATTAACACTTA
* * * * * *
1399385 ATTCCAGCAATGAAACTTAACATAGAATTATACTAGTAAAATTAACACTTGATTCTAGTAGTGGA
65 ATTCCAGTAGTGAAACTTAACATAGACTTACACTAGTAAAATTAACACTTAATTCTAGAAGT-GA
* * *
1399450 AAC-TAACATAAACTTATACCGGTG
129 AACTTAACATAGACTTACACCGGTA
* * * * * *
1399474 AAATTAAC-GTTGAATTCCAGCACTAAAACTTAACATAAAATTACATCGATAAAATAAACACTTA
1 AAATTAACACTT-AATTCCAGTACTGAAACTTAACATAAACTTACATCGGTAAAATTAACACTTA
* * * * * * *
1399538 ATTCCAATAGTG-AACTTAACATAGACTTACAC-CGATAAAATTAACTCTTAGTACTATAAGTGG
65 ATTCCAGTAGTGAAACTTAACATAGACTTACACTAG-TAAAATTAACACTTAATTCTAGAAGTGA
* *
1399601 AATTTAACATAGACTTACATCGGTGA
129 AACTTAACATAGACTTACACCGGT-A
* ** ** *
1399627 AAA-TAACAAC-TAATTCTA-TGGGTGAAACTTAACATGGACTTACATCGGTGAAATTAACAAC-
1 AAATTAAC-ACTTAATTCCAGT-ACTGAAACTTAACATAAACTTACATCGGTAAAATTAAC-ACT
* * * * *
1399688 TAATTCTAGGAGTGAAACTTAACATAAACTTAAACTAGTAAAATTAACAAC-TAATTCTAGGAGT
63 TAATTCCAGTAGTGAAACTTAACATAGACTTACACTAGTAAAATTAAC-ACTTAATTCTAGAAGT
*
1399752 AAAACTTAACATAGACTTACACCGGTA
127 GAAACTTAACATAGACTTACACCGGTA
* **
1399779 AAATTAACACTTAATTCCAGTACTGGAACTTAACATATTCTTACA-CTGGTAAAATTAACACTTA
1 AAATTAACACTTAATTCCAGTACTGAAACTTAACATAAACTTACATC-GGTAAAATTAACACTTA
* *
1399843 ATTCTAGTAGTGAAACTTAACATATACTTACA
65 ATTCCAGTAGTGAAACTTAACATAGACTTACA
1399875 TCGGTAAACT
Statistics
Matches: 313, Mismatches: 70, Indels: 35
0.75 0.17 0.08
Matches are distributed among these distances:
150 1 0.00
151 17 0.05
152 133 0.42
153 159 0.51
154 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (153 bp):
AAATTAACACTTAATTCCAGTACTGAAACTTAACATAAACTTACATCGGTAAAATTAACACTTAA
TTCCAGTAGTGAAACTTAACATAGACTTACACTAGTAAAATTAACACTTAATTCTAGAAGTGAAA
CTTAACATAGACTTACACCGGTA
Found at i:1399890 original size:102 final size:102
Alignment explanation
Indices: 1399276--1399895 Score: 489
Period size: 102 Copynumber: 6.1 Consensus size: 102
1399266 CAAGTGAAAG
* * * * * *** * *
1399276 TAACACATAATTCCGGCAGTG-AACTTATCACAAACTTACACCAATGAAATCTAACACATAATTC
1 TAACACTTAATTCCAGCACTGAAACTTAACATAAACTTACACTGGTAAAAT-TAACACTTAATTC
* * *
1399340 CAATAGTG-AACTTATGACA-A-ACTTACA-CAGTAAAAT
65 TAGTAGTGAAACTTA--ACATAGACTTACACCGGTAAAAT
* * * * *
1399376 TAGCACTTAATTCCAGCAATGAAACTTAACATAGAA-TTATACTAGTAAAATTAACACTTGATTC
1 TAACACTTAATTCCAGCACTGAAACTTAACATA-AACTTACACTGGTAAAATTAACACTTAATTC
* * *
1399440 TAGTAGTGGAAAC-TAACATAAACTTATACCGGTGAAAT
65 TAGTAGT-GAAACTTAACATAGACTTACACCGGTAAAAT
* * * * *
1399478 TAAC-GTTGAATTCCAGCACTAAAACTTAACATAAAATTACA-TCGATAAAATAAACACTTAATT
1 TAACACTT-AATTCCAGCACTGAAACTTAACATAAACTTACACT-GGTAAAATTAACACTTAATT
* * *
1399541 CCAATAGTG-AACTTAACATAGACTTACACCGATAAAAT
64 CTAGTAGTGAAACTTAACATAGACTTACACCGGTAAAAT
* * * * ** * * * *
1399579 TAACTCTTAGTACTATAAGTGGAATTTAACATAGACTTACA-TCGGTGAAAA-TAACAAC-TAAT
1 TAACACTTAATTCCAGCACTGAAACTTAACATAAACTTACACT-GGT-AAAATTAAC-ACTTAAT
* * * *
1399641 TCTA-TGGGTGAAACTTAACATGGACTTACATCGGTGAAAT
63 TCTAGT-AGTGAAACTTAACATAGACTTACACCGGTAAAAT
* * * * *
1399681 TAACAAC-TAATTCTAGGAGTGAAACTTAACATAAACTTAAACTAGTAAAATTAACAAC-TAATT
1 TAAC-ACTTAATTCCAGCACTGAAACTTAACATAAACTTACACTGGTAAAATTAAC-ACTTAATT
* *
1399744 CTAGGAGTAAAACTTAACATAGACTTACACCGGTAAAAT
64 CTAGTAGTGAAACTTAACATAGACTTACACCGGTAAAAT
* * **
1399783 TAACACTTAATTCCAGTACTGGAACTTAACATATTCTTACACTGGTAAAATTAACACTTAATTCT
1 TAACACTTAATTCCAGCACTGAAACTTAACATAAACTTACACTGGTAAAATTAACACTTAATTCT
* * *
1399848 AGTAGTGAAACTTAACATATACTTACATCGGTAAACT
66 AGTAGTGAAACTTAACATAGACTTACACCGGTAAAAT
*
1399885 TAACACGTAAT
1 TAACACTTAAT
1399896 ATGTTCATTA
Statistics
Matches: 416, Mismatches: 82, Indels: 42
0.77 0.15 0.08
Matches are distributed among these distances:
99 3 0.01
100 38 0.09
101 107 0.26
102 266 0.64
103 2 0.00
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.29
Consensus pattern (102 bp):
TAACACTTAATTCCAGCACTGAAACTTAACATAAACTTACACTGGTAAAATTAACACTTAATTCT
AGTAGTGAAACTTAACATAGACTTACACCGGTAAAAT
Found at i:1400891 original size:77 final size:79
Alignment explanation
Indices: 1400804--1400954 Score: 184
Period size: 77 Copynumber: 1.9 Consensus size: 79
1400794 AAATATAATA
* *
1400804 TTATTTAATTAATTC-AAATTAAATAT-ACATT-AAAGTCTTATAATCTGAATTACAATC-TTTA
1 TTATTTAATT-ATTCTAAATTAAATATCA-ATTAAAAGACTTATAATCTAAATTACAATCTTTTA
*
1400865 ATGTTTATTTAAAAAC
64 ATGCTTATTTAAAAAC
* * * * *
1400881 TTATTTAATTATTCTGAATTATATATCAATTAAAAGAGTTGTAATCTAAATTACATTCTTTTAAT
1 TTATTTAATTATTCTAAATTAAATATCAATTAAAAGACTTATAATCTAAATTACAATCTTTTAAT
1400946 GCTTATTTA
66 GCTTATTTA
1400955 CTATATTCGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
76 4 0.06
77 22 0.35
78 22 0.35
79 14 0.23
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (79 bp):
TTATTTAATTATTCTAAATTAAATATCAATTAAAAGACTTATAATCTAAATTACAATCTTTTAAT
GCTTATTTAAAAAC
Found at i:1406332 original size:34 final size:34
Alignment explanation
Indices: 1406284--1406351 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
1406274 GGAATTGAGG
1406284 AATGCATAGCCAATAGAACTTAGAATCTCCTTTT
1 AATGCATAGCCAATAGAACTTAGAATCTCCTTTT
*
1406318 AATGCATAGTCAATAGAACTTAGAATCTCCTTTT
1 AATGCATAGCCAATAGAACTTAGAATCTCCTTTT
1406352 CTTGGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (34 bp):
AATGCATAGCCAATAGAACTTAGAATCTCCTTTT
Found at i:1408534 original size:22 final size:20
Alignment explanation
Indices: 1408496--1408535 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1408486 AAAATTTTCC
*
1408496 AAAACATTTTTCAATAAATT
1 AAAACATATTTCAATAAATT
1408516 AAAATCATATTTCGAATAAA
1 AAAA-CATATTTC-AATAAA
1408536 CATCCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAACATATTTCAATAAATT
Found at i:1409284 original size:35 final size:35
Alignment explanation
Indices: 1409220--1409287 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
1409210 CCTTAGGTCC
**
1409220 ATAAGGAATTACCAGTTTGATCGGTCTGAACCTAT
1 ATAAGGAATTACCAGTTTGATCGACCTGAACCTAT
1409255 ATAAGGAATTACCAGTTTGGAT-GACCTGAACCT
1 ATAAGGAATTACCAGTTT-GATCGACCTGAACCT
1409288 GCAGAGGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (35 bp):
ATAAGGAATTACCAGTTTGATCGACCTGAACCTAT
Found at i:1410964 original size:12 final size:12
Alignment explanation
Indices: 1410947--1410981 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
1410937 GACAATGACC
1410947 GATAAGGGAGAT
1 GATAAGGGAGAT
1410959 GATAAGGGAGAT
1 GATAAGGGAGAT
1410971 GATAAGGGAGA
1 GATAAGGGAGA
1410982 CATCGACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (12 bp):
GATAAGGGAGAT
Found at i:1411538 original size:18 final size:16
Alignment explanation
Indices: 1411505--1411554 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
1411495 TATAGAAAAC
1411505 TTTTATTAATTATTTA
1 TTTTATTAATTATTTA
1411521 TTTTATTAATAATATTTA
1 TTTTATTAAT--TATTTA
1411539 TTTTA--AATT-TTTA
1 TTTTATTAATTATTTA
1411552 TTT
1 TTT
1411555 ATTTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.22
14 1 0.03
16 13 0.41
18 11 0.34
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTAATTATTTA
Found at i:1411592 original size:18 final size:17
Alignment explanation
Indices: 1411559--1411607 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
1411549 TTATTTATTT
*
1411559 ATATATTATATAGAAAA
1 ATATATTATATTGAAAA
*
1411576 CTATATTAATATTGAAAA
1 ATATATT-ATATTGAAAA
1411594 ATATTATTATATTG
1 ATA-TATTATATTG
1411608 TTCATCTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 6 0.22
18 17 0.63
19 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (17 bp):
ATATATTATATTGAAAA
Found at i:1412403 original size:27 final size:27
Alignment explanation
Indices: 1412373--1412429 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 27
1412363 TAGATATTTA
1412373 TTTTGAT-AATAAAATAATATATATACT
1 TTTTGATCAA-AAAATAATATATATACT
*
1412400 TTTTGTTCCCAAAAAATAATATATATACT
1 TTTTGAT--CAAAAAATAATATATATACT
1412429 T
1 T
1412430 AAAGTCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 6 0.23
29 18 0.69
30 2 0.08
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (27 bp):
TTTTGATCAAAAAATAATATATATACT
Found at i:1413924 original size:38 final size:38
Alignment explanation
Indices: 1413882--1413954 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
1413872 ATGATAAATG
*
1413882 CAAGATTGACGTGACACAAATGAAATTATAAAACTATA
1 CAAGATTAACGTGACACAAATGAAATTATAAAACTATA
*
1413920 CAAGATTAACGTGACACAGATGAAATTATAAAACT
1 CAAGATTAACGTGACACAAATGAAATTATAAAACT
1413955 TTCAATCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (38 bp):
CAAGATTAACGTGACACAAATGAAATTATAAAACTATA
Found at i:1415063 original size:4 final size:4
Alignment explanation
Indices: 1415056--1415081 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1415046 CATACGTTTG
1415056 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
1415082 GATATGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:1417402 original size:21 final size:21
Alignment explanation
Indices: 1417377--1417427 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
1417367 TAAGATATGC
1417377 TTTTTAAATCTAATTTATTTT-A
1 TTTTTAAATCTAA--TATTTTAA
* *
1417399 TTTTTAATTTTAATATTTTAA
1 TTTTTAAATCTAATATTTTAA
1417420 -TTTTAAAT
1 TTTTTAAAT
1417428 ATTATGTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 13 0.52
21 1 0.04
22 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAAATCTAATATTTTAA
Found at i:1417419 original size:14 final size:15
Alignment explanation
Indices: 1417400--1417430 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1417390 TTTATTTTAT
1417400 TTTTAATTTT-AATA
1 TTTTAATTTTAAATA
1417414 TTTTAATTTTAAATA
1 TTTTAATTTTAAATA
1417429 TT
1 TT
1417431 ATGTGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTAATTTTAAATA
Found at i:1417923 original size:22 final size:22
Alignment explanation
Indices: 1417897--1417938 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1417887 TTATTCAGTT
1417897 AAATATTATAAATTTATAAAAA
1 AAATATTATAAATTTATAAAAA
*
1417919 AAATATTATTAATTTATAAA
1 AAATATTATAAATTTATAAA
1417939 TTATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATATTATAAATTTATAAAAA
Found at i:1419879 original size:55 final size:55
Alignment explanation
Indices: 1419810--1420193 Score: 593
Period size: 55 Copynumber: 7.1 Consensus size: 55
1419800 ATGGTGATTA
1419810 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * *
1419865 CTGTATGGCCACTGTGTGTGCAAAATTAAGAAATTTATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
1419920 CCGTATGGGCACTGTGTGTG-------AAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* *
1419968 TCGTATGGGCACTGTGTGTGCAACATTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
1420023 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * * * * *
1420078 CCATATGGGCACTGTATCTACAAAACTAAGAAATTTATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * *
1420133 CCTTGTGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
1420188 CCGTAT
1 CCGTAT
1420194 TGGTAGTGGG
Statistics
Matches: 299, Mismatches: 23, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
48 46 0.15
55 253 0.85
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (55 bp):
CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
Found at i:1426747 original size:5 final size:5
Alignment explanation
Indices: 1426730--1426821 Score: 64
Period size: 5 Copynumber: 18.8 Consensus size: 5
1426720 TTCGTTCTAT
* * * **** *
1426730 TTTTG TTTTA TTTCA TTTTA TTTTA TTTTA ATTT- TTTTA GCAAA CTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
1426779 TTTCA TTATA -TTTA TTTTA TTTTGA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTT
1426822 TCTCTGAACA
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
4 7 0.11
5 57 0.88
6 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:1436400 original size:20 final size:21
Alignment explanation
Indices: 1436356--1436400 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1436346 GTTTGTTTTC
* *
1436356 ATTTTTAAATTTTGAAACATC
1 ATTTTTAAATTTTGAAAAATA
*
1436377 ATTTTTATATTTT-AAAAATA
1 ATTTTTAAATTTTGAAAAATA
1436397 ATTT
1 ATTT
1436401 CTCATAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTTTTAAATTTTGAAAAATA
Found at i:1438980 original size:24 final size:24
Alignment explanation
Indices: 1438953--1439011 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
1438943 TATTTCTTTA
1438953 TTTTAGGAATTAGATGTAGCTTGT
1 TTTTAGGAATTAGATGTAGCTTGT
*
1438977 TTTTAGGAATTATATGTAGCTTGT
1 TTTTAGGAATTAGATGTAGCTTGT
1439001 TTTTAGGAATT
1 TTTTAGGAATT
1439012 TGAAGGCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.49
Consensus pattern (24 bp):
TTTTAGGAATTAGATGTAGCTTGT
Found at i:1443211 original size:19 final size:20
Alignment explanation
Indices: 1443187--1443298 Score: 66
Period size: 27 Copynumber: 5.0 Consensus size: 20
1443177 ATATAATATG
*
1443187 ATTTTG-AAAACGTATTATA
1 ATTTTGAAAAACATATTATA
1443206 ATTTTGAAAAACATATTATATA
1 ATTTTGAAAAACATA-T-TATA
1443228 TAGTTTTTTTGAAAAACATATATAATA
1 -A----TTTTGAAAAACATAT-T-ATA
1443255 TAGTTTTTG-AAAACATATTATA
1 -A--TTTTGAAAAACATATTATA
*
1443277 AGTTTTTAAAAGACATATTATA
1 A-TTTTGAAAA-ACATATTATA
1443299 TATAGTTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
19 6 0.08
20 11 0.14
21 5 0.06
22 17 0.22
23 2 0.03
24 9 0.12
25 6 0.08
26 3 0.04
27 19 0.24
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (20 bp):
ATTTTGAAAAACATATTATA
Found at i:1443241 original size:27 final size:26
Alignment explanation
Indices: 1443207--1443344 Score: 123
Period size: 27 Copynumber: 5.3 Consensus size: 26
1443197 CGTATTATAA
1443207 TTTTGAAAAACATATTATATATAGTTT
1 TTTTGAAAAACATA-TATATATAGTTT
1443234 TTTTGAAAAACATATATAATATAG--T
1 TTTTGAAAAACATATAT-ATATAGTTT
1443259 TTTTG-AAAACATAT-TATA-AG--T
1 TTTTGAAAAACATATATATATAGTTT
1443280 TTTT-AAAAGACATATTATATATAGTTTTT
1 TTTTGAAAA-ACATA-TATATATAG--TTT
* *
1443309 TTCTTCAAAAACGTATATCATATA-TTT
1 TT-TTGAAAAACATATAT-ATATAGTTT
1443336 TTTTGAAAA
1 TTTTGAAAA
1443345 TATAGTATTA
Statistics
Matches: 96, Mismatches: 2, Indels: 27
0.77 0.02 0.22
Matches are distributed among these distances:
21 10 0.10
22 8 0.08
23 2 0.02
24 13 0.14
25 8 0.08
26 9 0.09
27 25 0.26
29 6 0.06
30 11 0.11
31 4 0.04
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (26 bp):
TTTTGAAAAACATATATATATAGTTT
Found at i:1443248 original size:22 final size:21
Alignment explanation
Indices: 1443223--1443283 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 21
1443213 AAAACATATT
1443223 ATATATAGTTTTTTTGAAAAAC
1 ATATATAGTTTTTTTG-AAAAC
*
1443245 ATATATAATATAGTTTTTGAAAAC
1 ATATATAGT-T--TTTTTGAAAAC
1443269 ATATTATAAGTTTTT
1 ATA-TAT-AGTTTTT
1443284 AAAAGACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
22 8 0.25
23 4 0.12
24 8 0.25
25 10 0.31
26 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (21 bp):
ATATATAGTTTTTTTGAAAAC
Found at i:1443292 original size:22 final size:22
Alignment explanation
Indices: 1443188--1443300 Score: 97
Period size: 22 Copynumber: 4.9 Consensus size: 22
1443178 TATAATATGA
* *
1443188 TTTTGAAAACGTATTATA-A-T
1 TTTTAAAAACATATTATATAGT
*
1443208 TTTGAAAAACATATTATATATAGTTT
1 TTTTAAAAACATA-T-TATATAG--T
1443234 TTTTGAAAAACATATATAATATAGT
1 TTTT-AAAAACATAT-T-ATATAGT
*
1443259 TTTTGAAAACATATTATA-AGT
1 TTTTAAAAACATATTATATAGT
1443280 TTTTAAAAGACATATTATATA
1 TTTTAAAA-ACATATTATATA
1443301 TAGTTTTTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
20 10 0.13
21 11 0.14
22 17 0.22
23 3 0.04
24 9 0.12
25 5 0.06
26 7 0.09
27 15 0.19
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.43
Consensus pattern (22 bp):
TTTTAAAAACATATTATATAGT
Found at i:1443356 original size:3 final size:3
Alignment explanation
Indices: 1443350--1443403 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
1443340 GAAAATATAG
* *
1443350 TAT TAT TAT TAT TAT TACT T-T TTT TAT TAT TAT TA- TAT CAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1443394 TAT TAA TAT T
1 TAT TAT TAT T
1443404 TATTTTTAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 4 0.09
3 37 0.86
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1448573 original size:12 final size:12
Alignment explanation
Indices: 1448556--1448599 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
1448546 ATATAAATTT
1448556 TTTAAAAATATA
1 TTTAAAAATATA
*
1448568 TTTAAAAATATG
1 TTTAAAAATATA
* *
1448580 TATAATAATATA
1 TTTAAAAATATA
*
1448592 ATTAAAAA
1 TTTAAAAA
1448600 AACAGAAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
TTTAAAAATATA
Found at i:1456077 original size:19 final size:21
Alignment explanation
Indices: 1456055--1456093 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1456045 TTTTAATTAT
1456055 TTTAA-TTAGGATTT-TCATA
1 TTTAATTTAGGATTTATCATA
1456074 TTTAATTTAGGATTTATCAT
1 TTTAATTTAGGATTTATCAT
1456094 TTCCTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTAATTTAGGATTTATCATA
Found at i:1457160 original size:30 final size:30
Alignment explanation
Indices: 1457018--1457159 Score: 169
Period size: 30 Copynumber: 4.8 Consensus size: 30
1457008 CATATTTGAT
* *
1457018 TTAAAGGACCAAAATAGCAAAAATAGATAC
1 TTAAAGGACTAAAATAGCAAAAATAGACAC
* *
1457048 TTAAGGGACTAAAATAGCAAAAATAGACAT
1 TTAAAGGACTAAAATAGCAAAAATAGACAC
* ** * *
1457078 TTAAATGACTAAAATAGCAAAACCACACAT
1 TTAAAGGACTAAAATAGCAAAAATAGACAC
* *
1457108 TTAAAGGACTAAAATAGTAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGACAC
*
1457138 TTAAGGGACT-AAATAGCAAAAA
1 TTAAAGGACTAAAATAGCAAAAA
1457160 AAATAATCCA
Statistics
Matches: 94, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 11 0.12
30 83 0.88
ACGTcount: A:0.56, C:0.12, G:0.13, T:0.19
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAATAGACAC
Found at i:1465417 original size:40 final size:40
Alignment explanation
Indices: 1465343--1465419 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
1465333 AATCCATTTC
*
1465343 ATTTTATTTTTAGCAAACTTTATTTCATTATATTTATGTT
1 ATTTTATTTTTAGCAAACTTAATTTCATTATATTTATGTT
* *
1465383 ATTTTATTTTATCAG-AAGCTTAATTT-ATTTTATTTAT
1 ATTTTATTTT-T-AGCAAACTTAATTTCATTATATTTAT
1465420 TTTTCTCTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 10 0.31
42 2 0.06
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (40 bp):
ATTTTATTTTTAGCAAACTTAATTTCATTATATTTATGTT
Found at i:1466755 original size:30 final size:30
Alignment explanation
Indices: 1466685--1466743 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1466675 AAAAAAAAGG
1466685 AAATGAAAAAAAAAATTCACTGTTTCGAAAA
1 AAAT-AAAAAAAAAATTCACTGTTTCGAAAA
* **
1466716 AAATCAAAAAAATGTTCACTGTTTCGAA
1 AAATAAAAAAAAAATTCACTGTTTCGAA
1466744 CAGTATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (30 bp):
AAATAAAAAAAAAATTCACTGTTTCGAAAA
Found at i:1467744 original size:19 final size:21
Alignment explanation
Indices: 1467722--1467761 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1467712 TTTTAAGTAT
1467722 TTTAA-TTAGGATTT-TCTTC
1 TTTAATTTAGGATTTATCTTC
1467741 TTTAATTTAGGATTTATCTTC
1 TTTAATTTAGGATTTATCTTC
1467762 ACATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TTTAATTTAGGATTTATCTTC
Found at i:1472024 original size:15 final size:16
Alignment explanation
Indices: 1472004--1472033 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1471994 GAATGTTGGG
1472004 TTTAAAT-ATAAAAAT
1 TTTAAATGATAAAAAT
1472019 TTTAAATGATAAAAA
1 TTTAAATGATAAAAA
1472034 ATTAAAACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
TTTAAATGATAAAAAT
Found at i:1484206 original size:8 final size:7
Alignment explanation
Indices: 1484186--1484258 Score: 57
Period size: 8 Copynumber: 10.4 Consensus size: 7
1484176 ACAAAAATAT
1484186 TTTATTA
1 TTTATTA
1484193 TATTATATA
1 T-TTAT-TA
1484202 TTTATTTA
1 TTTA-TTA
1484210 TTTATTTA
1 TTTA-TTA
1484218 TTTATTA
1 TTTATTA
1484225 -TTATTA
1 TTTATTA
1484231 -TTATTA
1 TTTATTA
*
1484237 -GTA-TA
1 TTTATTA
1484242 TTT-TTA
1 TTTATTA
1484248 TTTTATTA
1 -TTTATTA
1484256 TTT
1 TTT
1484259 TTGCAGGCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
5 2 0.04
6 17 0.30
7 10 0.18
8 24 0.42
9 4 0.07
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:1484209 original size:4 final size:4
Alignment explanation
Indices: 1484186--1484223 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
1484176 ACAAAAATAT
*
1484186 TTTA -TTA TATTA TATA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1484224 ATTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:1484210 original size:12 final size:11
Alignment explanation
Indices: 1484190--1484258 Score: 56
Period size: 12 Copynumber: 6.2 Consensus size: 11
1484180 AAATATTTTA
1484190 TTATATTATATAT
1 TTAT-TTAT-TAT
1484203 TTATTTATTTAT
1 TTATTTA-TTAT
1484215 TTATTTATTA-
1 TTATTTATTAT
1484225 TTA-TTATTA-
1 TTATTTATTAT
*
1484234 TTAGTATATT-T
1 TTA-TTTATTAT
1484245 TTATTTTATTAT
1 TTA-TTTATTAT
1484257 TT
1 TT
1484259 TTGCAGGCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
9 9 0.19
10 3 0.06
11 15 0.31
12 16 0.33
13 5 0.10
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:1484227 original size:3 final size:3
Alignment explanation
Indices: 1484183--1484257 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
1484173 TCTACAAAAA
1484183 TAT T-T TAT TA- TAT TAT ATATT TATT TATT TATT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA-T TA-T TA-T TA-T TA-T TAT TAT TAT
* *
1484229 TAT TAT TAG TA- TAT TTT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1484258 TTTGCAGGCC
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.13
3 34 0.54
4 20 0.32
5 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:1488639 original size:110 final size:110
Alignment explanation
Indices: 1488500--1488807 Score: 434
Period size: 110 Copynumber: 2.8 Consensus size: 110
1488490 GATGGTGGTT
1488500 GCTCAACTTCACAGCGAAGGGGCGACTGAC-GCTCAACAAACAACTTTTCAGTTTCATTCAAAGT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTG-TCAACAAACAACTTTTCAGTTTCATTCAAAGT
*
1488564 CATTTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
65 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * *
1488610 GCTCAACTTCAAAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTTATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAGTC
*
1488675 AATTTCAACTTCACAGCGAAGGATATTGGACTTGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * *
1488720 GCTCAACTTCACAGCCAAGGGGTGACT-AGCTGTCAACAAATAA-ATTTCTAG--T--TTCAGAG
1 GCTCAACTTCACAGCGAAGGGGCGACTGA-CTGTCAACAAACAACTTTTC-AGTTTCATTCAAAG
1488779 TCAATTTCAACTTCAC-GACGAAGGATATT
64 TCAATTTCAACTTCACAG-CGAAGGATATT
1488808 AGCCTCGAAA
Statistics
Matches: 184, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
105 1 0.01
106 34 0.18
108 1 0.01
109 5 0.03
110 142 0.77
111 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAGTC
AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
Found at i:1489177 original size:84 final size:83
Alignment explanation
Indices: 1488932--1489571 Score: 601
Period size: 84 Copynumber: 7.7 Consensus size: 83
1488922 AATCGTGCCC
* * *
1488932 ACCAAAGGCCTTCGAGTTCGACTACGCTCAGCTCCAAGTCACATCATTTGCAGCATAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* **
1488997 CAAGAAGGGTTATCTGCCA
66 CGAGAAGGGTTATCTG-TG
* * * * * * * * * * *
1489016 ACCGAATACCCTCGAGTTCGATTACACTCAGTTTCGAGGGCATATCATTTACAACATAACTCAA-
1 ACCAAAGACCTTCGAGTTCGACTACACTCAG-CTCCAAGGCACATCATTTGCAGCATAACTTAAG
*
1489080 TGCTAGAAGGGTTATCTGTG
65 T-CGAGAAGGGTTATCTGTG
* *
1489100 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
**
1489165 TCGAGAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTG-TG
* * * * *
1489185 ACCAAAGACCTTCGAGTTCAACTACGCTCAACTCCAAGACACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
1489250 CGATAAGGGCTAT-T-TG
66 CGAGAAGGGTTATCTGTG
* * * ** * * * * *
1489266 -CCAAAGACCCTCGAGTTTGATTACACTCAGCTTTGAGGGCATATCATTTACAACATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAG
* * *
1489330 GCTAGAAGGGTTATTTGTG
65 TCGAGAAGGGTTATCTGTG
* * * * *
1489349 ACCAAAAGACGTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTATG
1 ACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
1489414 TCGAGAAGGGTTATC--TG
65 TCGAGAAGGGTTATCTGTG
* * * * * * *
1489431 -CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACGGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAG
* * *
1489495 GCTAGAAGGGTTATCTGTC
65 TCGAGAAGGGTTATCTGTG
* * * *
1489514 AACAAAGACCTTCGAGTTCGACTCCACTCAGCTCAAATGCACCATCATTTGCAGCATA
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA-CATCATTTGCAGCATA
1489572 GCTCAAGATA
Statistics
Matches: 440, Mismatches: 101, Indels: 30
0.77 0.18 0.05
Matches are distributed among these distances:
80 49 0.11
81 73 0.17
82 3 0.01
83 10 0.02
84 216 0.49
85 89 0.20
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTGTG
Found at i:1489341 original size:165 final size:163
Alignment explanation
Indices: 1488933--1489627 Score: 626
Period size: 165 Copynumber: 4.2 Consensus size: 163
1488923 ATCGTGCCCA
* * * * * * * * * * *
1488933 CCAAAGGCCTTCGAGTTCGACTACGCTCAGC-TCCAAGTCACATCATTTGCAGCATAACTTAAGT
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGG
* * * * * * * * * *
1488997 CAAGAAGGGTTATCTGCCAACCGAATACCCTCGAGTTCGATTACACTCAGTTTCGAGGGCATATC
66 CTAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACGCTCAG-CTCCA-AGCACATC
* * * * * *
1489062 ATTTACAACATAACTCAA-TGCTAGAAGGGTTATCTGTG
128 ATTTGCAGCATAGCTTAAGT-CGAGAAGGGCTATC--TG
* * * * * * *
1489100 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAA
1 -CC-AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAA
* * * *
1489164 GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCAACTACGCTCAACTCCAAGACACAT
64 GGCTAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG-CACAT
* *
1489229 CATTTGCAGCATAGCTTAAGTCGATAAGGGCTATTTG
127 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * *
1489266 CCAAAGACCCTCGAGTTTGATTACACTCAGCTTTGAGGGCATATCATTTACAACATAACTCAAGG
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGG
* ** * *
1489331 CTAGAAGGGTTATTTGTGACCAAAAGACGTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
66 CTAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GCACATCA
* *
1489396 TTTGCAGCATAGCTTATGTCGAGAAGGGTTATCTG
129 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* *
1489431 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACGGCATAACTCAAGG
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGG
* * *
1489496 CTAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGACTCCACTCAGCTCAAATGCACCATC
66 CTAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GCA-CATC
* * ** *
1489560 ATTTGCAGCATAGCTCAAGAT-AAGAAGGTTTATATG
128 ATTTGCAGCATAGCTTAAG-TCGAGAAGGGCTATCTG
* * * * *
1489596 ACAAAGACCTTCTAGTTCGATTTCATTCAGCT
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCT
1489628 CAAGGGTGTA
Statistics
Matches: 448, Mismatches: 70, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
164 60 0.13
165 246 0.55
166 5 0.01
167 1 0.00
168 34 0.08
169 102 0.23
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (163 bp):
CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGG
CTAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGCACATCATT
TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
Found at i:1489545 original size:249 final size:249
Alignment explanation
Indices: 1488932--1489546 Score: 835
Period size: 249 Copynumber: 2.5 Consensus size: 249
1488922 AATCGTGCCC
* *
1488932 ACCAAAGGCCTTCGAGTTCGACTACGCTCAGCTCCAAGTCACATCATTTGCAGCATAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAACTTAAGT
* *
1488997 CAAGAAGGGTTATCTGCCAACCGAATACCCTCGAGTTCGATTACACTCAG-TTTCGAGGGCATAT
66 CAAGAAGGGTTATCTG-CAA-CAAAGACCCTCGAGTTCGATTACACTCAGCTTTCGAGGGCATAT
*
1489061 CATTTACAACATAACTCAATGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
129 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
*
1489126 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG
194 GCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG
* * *
1489182 CCAACCAAAGACCTTCGAGTTCAACTACGCTCAACTCCAAGACACATCATTTGCAGCATAGCTTA
1 ---ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAACTTA
* * * * *
1489247 AGTCGATAAGGGCTATTTGC--CAAAGACCCTCGAGTTTGATTACACTCAGCTTT-GAGGGCATA
63 AGTCAAGAAGGGTTATCTGCAACAAAGACCCTCGAGTTCGATTACACTCAGCTTTCGAGGGCATA
* * *
1489309 TCATTTACAACATAACTCAAGGCTAGAAGGGTTATTTGTGACCAAAAGACGTTTGAGTTCGACTA
128 TCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTA
* *
1489374 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTATGTCGAGAAGGGTTATCTG
193 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG
* * * * * * * * *
1489431 -CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACGGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGACACATCATTTGCAGCATAACTTAAG
* * * * *
1489495 GCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTCCACTCAGCT
65 TCAAGAAGGGTTATCTG-CAACAAAGACCCTCGAGTTCGATTACACTCAGCT
1489547 CAAATGCACC
Statistics
Matches: 317, Mismatches: 40, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
245 26 0.08
246 37 0.12
247 1 0.00
249 177 0.56
250 3 0.01
252 1 0.00
253 72 0.23
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (249 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAACTTAAGT
CAAGAAGGGTTATCTGCAACAAAGACCCTCGAGTTCGATTACACTCAGCTTTCGAGGGCATATCA
TTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG
Found at i:1490177 original size:33 final size:33
Alignment explanation
Indices: 1490074--1490157 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
1490064 TTCAGAAAAT
1490074 AAACCAACGTATTTGAGTTAAATTAAAACACTG
1 AAACCAACGTATTTGAGTTAAATTAAAACACTG
1490107 AAACCAACGTATTTGAGTTAAATTAAAACACTG
1 AAACCAACGTATTTGAGTTAAATTAAAACACTG
*
1490140 AAACTAACGTATTTGAGT
1 AAACCAACGTATTTGAGT
1490158 CATATTGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTTAAATTAAAACACTG
Found at i:1490483 original size:12 final size:12
Alignment explanation
Indices: 1490460--1490490 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
1490450 ATCTTTTGAC
1490460 TTATTCTTTTTAT
1 TTATT-TTTTTAT
1490473 TTATTTTTTTAT
1 TTATTTTTTTAT
1490485 TTATTT
1 TTATTT
1490491 ACTTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (12 bp):
TTATTTTTTTAT
Found at i:1492641 original size:13 final size:13
Alignment explanation
Indices: 1492623--1492699 Score: 145
Period size: 13 Copynumber: 5.9 Consensus size: 13
1492613 TCACAATAAT
*
1492623 GCCATACTTGCAA
1 GCCATACATGCAA
1492636 GCCATACATGCAA
1 GCCATACATGCAA
1492649 GCCATACATGCAA
1 GCCATACATGCAA
1492662 GCCATACATGCAA
1 GCCATACATGCAA
1492675 GCCATACATGCAA
1 GCCATACATGCAA
1492688 GCCATACATGCA
1 GCCATACATGCA
1492700 TAGAATTGTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
13 63 1.00
ACGTcount: A:0.36, C:0.31, G:0.16, T:0.17
Consensus pattern (13 bp):
GCCATACATGCAA
Found at i:1495630 original size:22 final size:22
Alignment explanation
Indices: 1495605--1495659 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
1495595 TCAGGAGTTA
* *
1495605 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
1495627 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
1495649 CGGGAGTTATA
1 CAGGAGTTATA
1495660 ACAGGGATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:1497394 original size:81 final size:81
Alignment explanation
Indices: 1497247--1497415 Score: 266
Period size: 81 Copynumber: 2.1 Consensus size: 81
1497237 ATTAAGACCA
*
1497247 ACATCGACTTTTTGAAATGAAACTGTTTTGATTTTATAGGAAAGGTAGATTGCACACGAAAGTAG
1 ACAT-GACTTTTTGAAATGAAACTGTTTTGATTTTATAGGAAAGGTAGATTGCACACGAAAATAG
** *
1497312 TAGGTGTTTTTCAATTC
65 TAAATGCTTTTCAATTC
* *
1497329 ACATGACTTTTTGAAATGAAACTGTTTTGATTTTATAGGAAAGGTCGATTGCACATGAAAATAGT
1 ACATGACTTTTTGAAATGAAACTGTTTTGATTTTATAGGAAAGGTAGATTGCACACGAAAATAGT
1497394 AAATGCTTTTCAATTC
66 AAATGCTTTTCAATTC
*
1497410 TCATGA
1 ACATGA
1497416 TTGGAATTGA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 76 0.95
82 4 0.05
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (81 bp):
ACATGACTTTTTGAAATGAAACTGTTTTGATTTTATAGGAAAGGTAGATTGCACACGAAAATAGT
AAATGCTTTTCAATTC
Found at i:1504079 original size:9 final size:9
Alignment explanation
Indices: 1504065--1504092 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1504055 CCCGAAACAC
1504065 ATTTGAGTG
1 ATTTGAGTG
1504074 ATTTGAGTG
1 ATTTGAGTG
1504083 ATTTGAGTG
1 ATTTGAGTG
1504092 A
1 A
1504093 ATCCTTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (9 bp):
ATTTGAGTG
Found at i:1504416 original size:54 final size:54
Alignment explanation
Indices: 1504334--1504576 Score: 416
Period size: 54 Copynumber: 4.5 Consensus size: 54
1504324 AAGTGAGGAA
1504334 GAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATATGAT
1 GAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATATGAT
* *
1504388 GAATTCCGTGAATTGCACACTTAGTGCCGAAATGATTATTCATCAACATACGAT
1 GAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATATGAT
* * *
1504442 GAATTCCGTGAATTGCACACTTAGTGTCGAAACGATTATTCACCAGCATATGAT
1 GAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATATGAT
*
1504496 GAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGAT
1 GAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATATGAT
*
1504550 GAATT-TGTGAATTGCACACTTAGTGCC
1 GAATTCCGTGAATTGCACACTTAGTGCC
1504577 TATTTGCTAA
Statistics
Matches: 177, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 21 0.12
54 156 0.88
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (54 bp):
GAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATATGAT
Found at i:1504923 original size:20 final size:20
Alignment explanation
Indices: 1504895--1504952 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 20
1504885 ATTTCTGGCT
* *
1504895 CCATAGTATCGATACCCCTA
1 CCATGGTATCGATACCCATA
* *
1504915 CCATGGTATCAATACTACTATA
1 CCATGGTATCGATAC--CCATA
*
1504937 CTATGGTATCGATACC
1 CCATGGTATCGATACC
1504953 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 14 0.47
22 16 0.53
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (20 bp):
CCATGGTATCGATACCCATA
Found at i:1522554 original size:20 final size:20
Alignment explanation
Indices: 1522529--1522567 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1522519 TTTTCAAGGG
1522529 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
1522549 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
1522568 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:1522636 original size:45 final size:46
Alignment explanation
Indices: 1522587--1522674 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
1522577 GAACATCGAA
* *
1522587 TGCATTTTTTGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGTTGCATCGATGCACAAGACCATGCATCGATGCACTCAG
* *
1522632 TGCATTTGTTGCATCGATGTACAAGACCATGCTTCGATGCACT
1 TGCATTTGTTGCATCGATGCACAAGACCATGCATCGATGCACT
1522675 GAGGCTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 20 0.53
46 18 0.47
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (46 bp):
TGCATTTGTTGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:1531248 original size:20 final size:20
Alignment explanation
Indices: 1531223--1531261 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1531213 TTTTCAAGGG
1531223 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
1531243 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
1531262 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:1531358 original size:20 final size:20
Alignment explanation
Indices: 1531333--1531386 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1531323 AGTGCATTTG
*
1531333 ATGCATCGATGCACAAGACC
1 ATGCATTGATGCACAAGACC
1531353 ATGCATTGATGCACAAGACC
1 ATGCATTGATGCACAAGACC
1531373 ATGCATTGATGCAC
1 ATGCATTGATGCAC
1531387 TGAGGCTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
ATGCATTGATGCACAAGACC
Found at i:1531446 original size:19 final size:19
Alignment explanation
Indices: 1531419--1531489 Score: 133
Period size: 19 Copynumber: 3.7 Consensus size: 19
1531409 ATGCATTTTA
*
1531419 TGCATCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
1531438 TGCACCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
1531457 TGCACCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
1531476 TGCACCGATGCACT
1 TGCACCGATGCACT
1531490 AAGAGTCCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (19 bp):
TGCACCGATGCACTCTTAG
Found at i:1532272 original size:54 final size:54
Alignment explanation
Indices: 1532190--1532730 Score: 690
Period size: 54 Copynumber: 10.0 Consensus size: 54
1532180 TAACTCAACA
* * * * * * ** * *
1532190 TAGTGCCTATACGGTCAATCATAAACATATTATGAATTTCGTGGGTTACACACA
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* * *
1532244 TAGTGCCGAAATGTTTATTCATCAACATATGACGAATTTCGTGAATTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* * *
1532298 TAGTGCC-AAACGGTTATTCATCAACATATGATGAATTCCATGAGTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* * * *
1532351 TAGTGTCGAAACGGTTATTCATCAACATATGATTAATTCCGTGAGTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* *
1532405 TAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCATGAATTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* * * * *
1532459 TAGTGTCGAAACGGTTATTCATCAACATACGATGAATTCCGCGAATTGTACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* * * * * *
1532513 TAGTGTCGAAAAGGTTATTCATCAATATGTGATGAATTTTGTGAATTGCACACC
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* *
1532567 TAGTGCCGAAACAGTTATTCATCAACATATGATGAATTTCGTGAATTGTACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* * *
1532621 TAGTGCCAAAACGGTTATTCATCAACATATGATGAATTCCATGAATTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
* * *
1532675 TAGTGCTGAAACAGTTATTCATCAACATATAATGAA-TTCTGTGAATTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTC-GTGAATTGCACACT
1532729 TA
1 TA
1532731 ATGCACATTT
Statistics
Matches: 426, Mismatches: 59, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
53 48 0.11
54 378 0.89
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACT
Found at i:1536452 original size:20 final size:20
Alignment explanation
Indices: 1536415--1536453 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1536405 AGATTGAGTG
* * *
1536415 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
1536435 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1536454 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Done.