Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007768.1 Hibiscus syriacus cultivar Beakdansim tig00110044_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: 2539099
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:954685 original size:31 final size:31
Alignment explanation
Indices: 954647--954715 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
954637 AAAAGTTAAG
* *
954647 AATGATCATTATATTGATCAAACTATTAGAA
1 AATGATCACTATATTGATCAAACTATTACAA
* *
954678 AATGATCACTATATTTATTAAACTATTACAA
1 AATGATCACTATATTGATCAAACTATTACAA
954709 AATGATC
1 AATGATC
954716 GCATGTTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (31 bp):
AATGATCACTATATTGATCAAACTATTACAA
Found at i:955360 original size:4 final size:4
Alignment explanation
Indices: 955343--955392 Score: 91
Period size: 4 Copynumber: 12.5 Consensus size: 4
955333 TTATGCAAGC
*
955343 ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
955391 AT
1 AT
955393 ATGAAATGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:955650 original size:4 final size:4
Alignment explanation
Indices: 955641--955676 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
955631 TTATCATTTT
* *
955641 TATG TATG TATG TATG TATG TTTT TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
955677 GATGAATGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (4 bp):
TATG
Found at i:956789 original size:20 final size:21
Alignment explanation
Indices: 956755--956794 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
956745 GAATATATGA
956755 AAAATTCATG-AAAAATAAAT
1 AAAATTCATGAAAAAATAAAT
956775 AAAATTC-TGAAAAAAATAAA
1 AAAATTCATG-AAAAAATAAA
956795 GGAAAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 7 0.39
21 9 0.50
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATTCATGAAAAAATAAAT
Found at i:960190 original size:4 final size:4
Alignment explanation
Indices: 960183--960207 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
960173 ATTACAGTAA
960183 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
960208 CATAACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:960326 original size:18 final size:19
Alignment explanation
Indices: 960287--960332 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
960277 ATACACACAC
*
960287 AACATTATATCATTTCTAT
1 AACATTATATCATATCTAT
960306 AACATT-TATCATATC-ACT
1 AACATTATATCATATCTA-T
960324 AACA-TATAT
1 AACATTATAT
960333 TTGTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.08
18 16 0.67
19 6 0.25
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (19 bp):
AACATTATATCATATCTAT
Found at i:960468 original size:23 final size:23
Alignment explanation
Indices: 960437--960494 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
960427 ATATAAATGT
* *
960437 ACCGAAGTGCCACGTAGAATTGC
1 ACCGTAGTGCCACATAGAATTGC
*
960460 ACCGTAGTGCCGCATAGAATTGC
1 ACCGTAGTGCCACATAGAATTGC
960483 ACCGTAGTGCCA
1 ACCGTAGTGCCA
960495 TATAATAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (23 bp):
ACCGTAGTGCCACATAGAATTGC
Found at i:965437 original size:23 final size:23
Alignment explanation
Indices: 965411--965486 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
965401 AATGCACCAA
*
965411 AGTGCCACGTAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
* *
965434 AGTGTCGCATAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
*
965457 AGTGCCGCATAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
965480 AGTGCCA
1 AGTGCCA
965487 TATAATAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGCCACATAGAATTGCACCGT
Found at i:970231 original size:21 final size:20
Alignment explanation
Indices: 970207--970267 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
970197 AACTTTGAAA
970207 AAATGGTTTCCAAAGTTTGGT
1 AAATGGTTT-CAAAGTTTGGT
*
970228 AAAT-GTTTC----TTT-GA
1 AAATGGTTTCAAAGTTTGGT
970242 AAATGGTTTTCAAAGTTTGGT
1 AAATGG-TTTCAAAGTTTGGT
970263 AAATG
1 AAATG
970268 TTTTTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (20 bp):
AAATGGTTTCAAAGTTTGGT
Found at i:970296 original size:37 final size:36
Alignment explanation
Indices: 970199--970307 Score: 166
Period size: 35 Copynumber: 3.0 Consensus size: 36
970189 TGGCAACCAA
*
970199 CTTTGAAAAAATGGTTTCCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
970236 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
970271 TTTTGAAAAATGGGTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
970308 GTTGAAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
35 33 0.49
36 5 0.07
37 29 0.43
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:974867 original size:21 final size:21
Alignment explanation
Indices: 974843--974903 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
974833 AACTTTGAAA
974843 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
974864 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
974878 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
974899 AAATG
1 AAATG
974904 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:974950 original size:36 final size:36
Alignment explanation
Indices: 974835--974943 Score: 184
Period size: 35 Copynumber: 3.0 Consensus size: 36
974825 TGGCAACCAA
974835 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
974872 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
974907 CTTTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
974944 GTTGAAATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
35 35 0.51
36 7 0.10
37 27 0.39
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:976189 original size:4 final size:4
Alignment explanation
Indices: 976180--976215 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
976170 TTTTATCTTC
* *
976180 TATG TATG TATG CATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
976216 GAAATGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:977573 original size:32 final size:32
Alignment explanation
Indices: 977532--977595 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
977522 ATATGTTATA
* * *
977532 TCATTATTTTAGGTAACGTGACATATATCACG
1 TCATCATTTTAGGTAACATGACAAATATCACG
*
977564 TCATCATTTTAGGTGACATGACAAATATCACG
1 TCATCATTTTAGGTAACATGACAAATATCACG
977596 CCATTACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (32 bp):
TCATCATTTTAGGTAACATGACAAATATCACG
Found at i:978220 original size:15 final size:14
Alignment explanation
Indices: 978200--978264 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
978190 TCATATTTTA
978200 AAATAAAAATAAATT
1 AAATAAAAAT-AATT
978215 AAAT--AAATAATT
1 AAATAAAAATAATT
*
978227 AAATAAACACTAATT
1 AAATAAA-AATAATT
*
978242 AAAGAAAAAATATATT
1 AAA-TAAAAATA-ATT
978258 ACAATAA
1 A-AATAA
978265 TAGACAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
12 8 0.20
13 4 0.10
14 1 0.03
15 16 0.40
16 9 0.22
17 2 0.05
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (14 bp):
AAATAAAAATAATT
Found at i:978428 original size:250 final size:248
Alignment explanation
Indices: 978048--978521 Score: 930
Period size: 250 Copynumber: 1.9 Consensus size: 248
978038 TATAATCAAA
978048 TACTTACAATCAACACTGAAAAATAAACATTATTGTACTAATAATAAAATGCATAAAACAATGAT
1 TACTTACAATCAACACTGAAAAATAAACATTATTGTACTAATAATAAAATGCATAAAACAATGAT
978113 ATTACATTAACAGATTAATTCTATTATTTTTAATTTATCATGGATGAATGTGAGTGTCTACCAAT
66 ATTACATTAACAGATTAATTCTATTATTTTTAATTTATCATGGATGAATGTGAGTGTCTACCAAT
978178 AAAAAAATTATCTCATATTTTAAAATAAAAATAAATTAAATAAATAATTAAATAAACACTAATTA
131 AAAAAAATTATCTCATATTTTAAAATAAAAATAAATTAAATAAATAATTAAATAAACACTAATTA
978243 AAGAAAAAATATATTACAATAATAGACAAATATTTGGTGTGATGTCACTTCATAG
196 AAGAAAAAATATATTACAATAA-AGA-AAATATTTGGTGTGATGTCACTTCATAG
978298 TACTTACAATCAACACTGAAAAATAAACATTATTGTACTAATAATAAAATGCATAAAACAATGAT
1 TACTTACAATCAACACTGAAAAATAAACATTATTGTACTAATAATAAAATGCATAAAACAATGAT
978363 ATTACATTAACAGATTAATTCTATTATTTTTAATTTATCATGGATGAATGTGAGTGTCTACCAAT
66 ATTACATTAACAGATTAATTCTATTATTTTTAATTTATCATGGATGAATGTGAGTGTCTACCAAT
978428 AAAAAAATTATCTCATATTTTAAAATAAAAATAAATTAAATAAATAATTAAATAAACACTAATTA
131 AAAAAAATTATCTCATATTTTAAAATAAAAATAAATTAAATAAATAATTAAATAAACACTAATTA
978493 AAGAAAAAATATATTACAATAAAGAAAAT
196 AAGAAAAAATATATTACAATAAAGAAAAT
978522 CGCCTCAGTG
Statistics
Matches: 224, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
248 4 0.02
249 3 0.01
250 217 0.97
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (248 bp):
TACTTACAATCAACACTGAAAAATAAACATTATTGTACTAATAATAAAATGCATAAAACAATGAT
ATTACATTAACAGATTAATTCTATTATTTTTAATTTATCATGGATGAATGTGAGTGTCTACCAAT
AAAAAAATTATCTCATATTTTAAAATAAAAATAAATTAAATAAATAATTAAATAAACACTAATTA
AAGAAAAAATATATTACAATAAAGAAAATATTTGGTGTGATGTCACTTCATAG
Found at i:978470 original size:15 final size:14
Alignment explanation
Indices: 978450--978515 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 14
978440 TCATATTTTA
978450 AAATAAAAATAAATT
1 AAATAAAAAT-AATT
978465 AAAT--AAATAATT
1 AAATAAAAATAATT
*
978477 AAATAAACACTAATT
1 AAATAAA-AATAATT
*
978492 AAAGAAAAAATATATT
1 AAA-TAAAAATA-ATT
978508 ACAATAAA
1 A-AATAAA
978516 GAAAATCGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
12 8 0.20
13 4 0.10
14 1 0.02
15 16 0.39
16 10 0.24
17 2 0.05
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (14 bp):
AAATAAAAATAATT
Found at i:978795 original size:20 final size:20
Alignment explanation
Indices: 978720--979088 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
978710 GATTTTCCAT
* ** *
978720 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
978740 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
978760 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
978780 AATCGCAACGTATATCCGTA
1 AATCGCAACGCGTATCCGTA
**
978800 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
978820 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
978840 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
978860 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
978880 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
978900 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
978920 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
978940 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
978960 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
978980 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
979000 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
979020 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
979040 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
979060 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
979080 AATCACAAC
1 AATCGCAAC
979089 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:979810 original size:24 final size:24
Alignment explanation
Indices: 979771--979817 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
979761 AAATTTGGTC
979771 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
979795 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
979818 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:982321 original size:19 final size:19
Alignment explanation
Indices: 982299--982605 Score: 367
Period size: 19 Copynumber: 17.4 Consensus size: 19
982289 CGGAAAATAC
*
982299 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
982318 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
982332 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
* *
982352 AATCG-AA-ACG--A-GAG
1 AATCGCAATGCGAAATGAA
982366 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
982385 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
982404 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
982418 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
982437 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
982456 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
982470 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
982489 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
982508 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
982527 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
982546 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
982560 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
982579 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
982598 AATCGCAA
1 AATCGCAA
982606 CGAGATAATC
Statistics
Matches: 250, Mismatches: 12, Indels: 52
0.80 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 14 0.06
18 3 0.01
19 158 0.63
20 10 0.04
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:982414 original size:52 final size:52
Alignment explanation
Indices: 982327--982605 Score: 379
Period size: 52 Copynumber: 5.2 Consensus size: 52
982317 AAATCCCAAC
*
982327 ATGAAAATCGCAATGCGGAAATGAAAATCGAAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
982380 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
982432 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
982484 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
982541 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
982593 ATGAAAATCGCAA
1 ATGAAAATCGCAA
982606 CGAGATAATC
Statistics
Matches: 215, Mismatches: 6, Indels: 11
0.93 0.03 0.05
Matches are distributed among these distances:
52 163 0.76
53 16 0.07
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:982450 original size:71 final size:71
Alignment explanation
Indices: 982366--982605 Score: 373
Period size: 71 Copynumber: 3.4 Consensus size: 71
982356 GAAACGAGAG
*
982366 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
982431 AATGAA
66 AATGAA
* *
982437 AATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
982497 TGCGAAATGAA
61 TGCGAAATGAA
982508 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
982573 AATGAA
66 AATGAA
982579 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
982606 CGAGATAATC
Statistics
Matches: 154, Mismatches: 5, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
66 8 0.05
68 3 0.02
69 5 0.03
71 121 0.79
73 6 0.04
74 3 0.02
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:982551 original size:142 final size:138
Alignment explanation
Indices: 982299--982643 Score: 509
Period size: 142 Copynumber: 2.5 Consensus size: 138
982289 CGGAAAATAC
* * * *
982299 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCG-AA-ACG
1 AATCGCAATGCGAAATGAAAATCGCAAC--GAAAATCGCAATGC-GAAATTAAAATCGCAATGCG
* *
982362 -AGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAA
63 AAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAA
982426 TGCGAAATGAA
128 TGCGAAATGAA
982437 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAATTAAAATCGCAATGCG-
982502 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
63 AA-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
982567 ATGCGAAATGAA
127 ATGCGAAATGAA
*
982579 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATAAA-CGCATTGCG
1 AATCGCAATGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAATTA-AAATCGCAATGCG
982643 A
63 A
982644 TTTTCATTTC
Statistics
Matches: 190, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
136 2 0.01
137 13 0.07
138 39 0.21
139 2 0.01
141 2 0.01
142 129 0.68
143 3 0.02
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (138 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAATCGCAATGCGAAATTAAAATCGCAATGCGAAG
AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGC
GAAATGAA
Found at i:982643 original size:71 final size:70
Alignment explanation
Indices: 982299--982643 Score: 331
Period size: 71 Copynumber: 4.9 Consensus size: 70
982289 CGGAAAATAC
* * * *
982299 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCG-AA-AC
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAAAATCGCAATGC-GAAATTAAAA-CGCAATGC
*
982361 G--A-GAG
63 GAAATGAA
* * *
982366 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--GAATCGCAAT
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATTAAAACGCAAT
982427 GCGAAATGAA
61 GCGAAATGAA
* *
982437 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATTAAAA-CGCAATGCGA
982502 AATGAA
65 AATGAA
* *
982508 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA--GAATCGCAAT
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATTAAAACGCAAT
982569 GCGAAATGAA
61 GCGAAATGAA
* *
982579 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATAAACGCATTGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATTA-AAACGCAATGCGA
982644 TTTTCATTTC
Statistics
Matches: 233, Mismatches: 20, Indels: 46
0.78 0.07 0.15
Matches are distributed among these distances:
66 21 0.09
67 31 0.13
68 11 0.05
69 8 0.03
70 4 0.02
71 126 0.54
72 15 0.06
73 2 0.01
74 5 0.02
75 1 0.00
76 9 0.04
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATTAAAACGCAATGCGAA
ATGAA
Found at i:982743 original size:19 final size:19
Alignment explanation
Indices: 982634--982735 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
982624 AAATTATAAA
982634 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
982653 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
982673 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
982689 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
982706 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
982725 CGCATTGCGAT
1 CGCATTGCGAT
982736 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:982861 original size:14 final size:14
Alignment explanation
Indices: 982842--982878 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
982832 CATCAATTAC
982842 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
982856 ACAAATCATCTTTT
1 ACAAATCAACTTTT
982870 ACAAATCAA
1 ACAAATCAA
982879 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:984856 original size:14 final size:14
Alignment explanation
Indices: 984837--984893 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
984827 GCGAAATGAA
*
984837 AATCGCAACGACAG
1 AATCGCAACGAAAG
984851 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
984868 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
984884 AATCGCAACG
1 AATCGCAACG
984894 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:984864 original size:33 final size:33
Alignment explanation
Indices: 984818--984910 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
984808 GCGAAACCAA
*
984818 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
984851 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
984884 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
984911 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:984875 original size:19 final size:19
Alignment explanation
Indices: 984781--984915 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
984771 TAGTTTACTT
* *
984781 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
984801 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
984820 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
984839 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
984853 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
984872 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
984886 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
984905 TCGCAATGCGA
1 TCGCAACGCGA
984916 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:984933 original size:19 final size:19
Alignment explanation
Indices: 984911--985039 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
984901 AAAATCGCAA
984911 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
984930 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
984944 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
984963 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
984977 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
984996 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
985015 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
985035 TGCGA
1 TGCGA
985040 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:984953 original size:33 final size:33
Alignment explanation
Indices: 984911--985002 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
984901 AAAATCGCAA
984911 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
984944 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
984977 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
985003 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:985242 original size:93 final size:93
Alignment explanation
Indices: 985083--985740 Score: 1293
Period size: 93 Copynumber: 7.1 Consensus size: 93
985073 TTGAATGGAT
985083 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985148 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
985176 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985241 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
985269 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985333 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
985361 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985426 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
985454 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985519 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
985547 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985611 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
985639 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
985704 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
985732 AAATTTACT
1 AAATTTACT
985741 AAGCAATCTA
Statistics
Matches: 562, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.33
93 378 0.67
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:985396 original size:185 final size:186
Alignment explanation
Indices: 985083--985740 Score: 1293
Period size: 185 Copynumber: 3.5 Consensus size: 186
985073 TTGAATGGAT
985083 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985148 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
985213 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
985269 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985333 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
985398 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
985454 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985519 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
985584 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
985639 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
985704 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
985741 AAGCAATCTA
Statistics
Matches: 470, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
185 339 0.72
186 131 0.28
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:985580 original size:278 final size:278
Alignment explanation
Indices: 985083--985740 Score: 1307
Period size: 278 Copynumber: 2.4 Consensus size: 278
985073 TTGAATGGAT
985083 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985148 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
985213 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
985278 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
985343 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
985361 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
985426 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
985491 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
985556 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
985621 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
985639 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
985704 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
985741 AAGCAATCTA
Statistics
Matches: 379, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 379 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
AATTGGCAGCAACCGAAC
Found at i:987465 original size:14 final size:14
Alignment explanation
Indices: 987446--987502 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
987436 TTGAAATGAA
987446 AATCGCAACGAGAG
1 AATCGCAACGAGAG
987460 AATCGCAACGAGAGATG
1 AATCGCAAC--GAGA-G
987477 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
987493 AATCGCAACG
1 AATCGCAACG
987503 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 19 0.50
16 5 0.13
17 5 0.13
19 9 0.24
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:987483 original size:33 final size:33
Alignment explanation
Indices: 987438--987545 Score: 162
Period size: 33 Copynumber: 3.3 Consensus size: 33
987428 TCTTTTGGTT
987438 GAAATGAAAATCGCAACGAGAGAATCGCAACGA
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGA
* * *
987471 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGA
* * *
987504 GAAATGAAAATCGCAACGACAGAATCGTAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGA
987537 GAAATGAAA
1 GAAATGAAA
987546 TCTAAGTGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGA
Found at i:987779 original size:22 final size:22
Alignment explanation
Indices: 987727--987781 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
987717 TGGTTGTGAG
**
987727 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
987749 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
987771 GGATTTCTTCG
1 GGATTTCTTCG
987782 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:987952 original size:20 final size:20
Alignment explanation
Indices: 987927--988119 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
987917 CTTTAAATAT
987927 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
987947 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
987969 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
987988 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
988008 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
988028 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
988048 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
988068 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
988088 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
988108 CGCGTTGCGATT
1 CGCGTTGCGATT
988120 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:988114 original size:60 final size:60
Alignment explanation
Indices: 987927--988119 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
987917 CTTTAAATAT
**
987927 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
987988 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
988048 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
988108 CGCGTTGCGATT
1 CGCGTTGCGATT
988120 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:988200 original size:20 final size:20
Alignment explanation
Indices: 988175--988224 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
988165 AATAATCGCG
* *
988175 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTAGAAACTGAT
988195 TTGCGATTCTAGAAACTGAT
1 TTGCGATTCTAGAAACTGAT
988215 TTGCGATTCT
1 TTGCGATTCT
988225 GGGGATCGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATTCTAGAAACTGAT
Found at i:988430 original size:15 final size:14
Alignment explanation
Indices: 988410--988474 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
988400 TCATATTTTA
988410 AAATAAAAATAAATT
1 AAATAAAAAT-AATT
988425 AAAT--AAATAATT
1 AAATAAAAATAATT
*
988437 AAATAAACACTAATT
1 AAATAAA-AATAATT
*
988452 AAAGAAAAAATATATT
1 AAA-TAAAAATA-ATT
988468 ACAATAA
1 A-AATAA
988475 TAGACAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
12 8 0.20
13 4 0.10
14 1 0.03
15 16 0.40
16 9 0.22
17 2 0.05
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (14 bp):
AAATAAAAATAATT
Found at i:991156 original size:31 final size:30
Alignment explanation
Indices: 991088--991157 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
991078 GTCACGTTAC
*
991088 TATTTTAAATATGTCATAGTATTACGGTAA
1 TATTTTAAATATGTCATAGTATTACGATAA
* *
991118 TACTTTAAATATGTAGCATA-TATTAC-ATCAT
1 TATTTTAAATATGT--CATAGTATTACGAT-AA
991149 TATTTTAAA
1 TATTTTAAA
991158 CACATAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
30 14 0.42
31 15 0.45
32 4 0.12
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (30 bp):
TATTTTAAATATGTCATAGTATTACGATAA
Found at i:992179 original size:2 final size:2
Alignment explanation
Indices: 992172--992207 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
992162 GCTTTTATAA
992172 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
992208 AGTTCCGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:993558 original size:14 final size:14
Alignment explanation
Indices: 993539--993566 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
993529 TTTAAACATT
993539 GCTTGTAAGGCATA
1 GCTTGTAAGGCATA
993553 GCTTGTAAGGCATA
1 GCTTGTAAGGCATA
993567 ATTGTACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
GCTTGTAAGGCATA
Found at i:996475 original size:33 final size:34
Alignment explanation
Indices: 996433--996498 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
996423 CGAGTTACCC
996433 AGATTTGAAAAAAGAAGAG-AAAAAAAATAGAAG
1 AGATTTGAAAAAAGAAGAGAAAAAAAAATAGAAG
996466 AGATTTGAAAAAAGAAGAGAAAAAAAAATAGAA
1 AGATTTGAAAAAAGAAGAGAAAAAAAAATAGAA
996499 TCAATATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 19 0.59
34 13 0.41
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (34 bp):
AGATTTGAAAAAAGAAGAGAAAAAAAAATAGAAG
Found at i:996481 original size:17 final size:17
Alignment explanation
Indices: 996433--996485 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
996423 CGAGTTACCC
996433 AGATTTGAAAAAAGAAG
1 AGATTTGAAAAAAGAAG
**
996450 AGA--AAAAAAATAGAAG
1 AGATTTGAAAAA-AGAAG
996466 AGATTTGAAAAAAGAAG
1 AGATTTGAAAAAAGAAG
996483 AGA
1 AGA
996486 AAAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 5 0.17
16 8 0.28
17 11 0.38
18 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.13
Consensus pattern (17 bp):
AGATTTGAAAAAAGAAG
Found at i:1001738 original size:60 final size:59
Alignment explanation
Indices: 1001671--1001803 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 59
1001661 TAGTTGGGCT
*
1001671 GACCATTTTGTAACTTTTAATAGTCAAGG-GACTCAACAAAGCAATTCCCTATAGTCGAAG
1 GACCATTTTGTAACTTTTAATAGTC--GGAGACTCAACAAAGCAATTCCCTATAGTCAAAG
* * * *
1001731 GACCATTTTGTAACTTTTAGTAGTCGGATGACTTAATAAAGCAATTCTCTATAGTCAAAG
1 GACCATTTTGTAACTTTTAATAGTCGGA-GACTCAACAAAGCAATTCCCTATAGTCAAAG
1001791 GACCATTTATGTA
1 GACCATTT-TGTA
1001804 CTCTACGGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
58 2 0.03
60 59 0.91
61 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (59 bp):
GACCATTTTGTAACTTTTAATAGTCGGAGACTCAACAAAGCAATTCCCTATAGTCAAAG
Found at i:1008274 original size:108 final size:105
Alignment explanation
Indices: 1008155--1008408 Score: 248
Period size: 108 Copynumber: 2.3 Consensus size: 105
1008145 AAAAAAAAAA
* *
1008155 TTGAAATATATATTATATAATTTTTTGAAACGTTTTTGAAAACTTATGTACAATATATAAGTTT-
1 TTGAAA-ATATATAATATAATTTTTTGAAACGTTTTTGAAAA-TT-TATACAATATAT-AGTTTA
* * * *
1008219 TAAAAATATTTT-GAAAA-TTATATAGTATATTGTTTTGAAATCA-TT
62 AAAAAACATTTTGGAAAACTTATATA--ACA-T-TTTTAAAATCATTT
* ** * *
1008264 TTGAAAATATAAAATATAATTTTTAAAAAACATTTTTTGAAAATTTATATAATATATAGTTTAAA
1 TTGAAAATATATAATATAATTTTT-TGAAAC-GTTTTTGAAAATTTATACAATATATAGTTTAAA
1008329 AAAACATTTTGGAAAACTTATATAACATTTTTAAAATCATTT
64 AAAACATTTTGGAAAACTTATATAACATTTTTAAAATCATTT
*
1008371 TTGAAAACTATATAATAT-ATAGTTTTGAAAACGTTTTT
1 TTGAAAA-TATATAATATAAT-TTTTTG-AAACGTTTTT
1008409 AAATAAAATA
Statistics
Matches: 120, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
106 10 0.08
107 22 0.18
108 54 0.45
109 17 0.14
110 17 0.14
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (105 bp):
TTGAAAATATATAATATAATTTTTTGAAACGTTTTTGAAAATTTATACAATATATAGTTTAAAAA
AACATTTTGGAAAACTTATATAACATTTTTAAAATCATTT
Found at i:1008321 original size:40 final size:38
Alignment explanation
Indices: 1008270--1008395 Score: 111
Period size: 38 Copynumber: 3.4 Consensus size: 38
1008260 CATTTTGAAA
* * * *
1008270 ATATAAAATATAATTTTTAAAAAACATTTTTTGAAAATTT
1 ATATAAAATAT-AGTTTAAAAAAACA-TTTTGGAAAACTT
*
1008310 ATATAATATATAGTTTAAAAAAACATTTTGGAAAACTT
1 ATATAAAATATAGTTTAAAAAAACATTTTGGAAAACTT
* * *
1008348 ATATAACAT-T--TTT--AAAATCATTTTTGAAAAC-T
1 ATATAAAATATAGTTTAAAAAAACATTTTGGAAAACTT
*
1008380 ATATAATATATAGTTT
1 ATATAAAATATAGTTT
1008396 TGAAAACGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
32 9 0.12
33 17 0.23
35 6 0.08
37 1 0.01
38 19 0.26
39 12 0.16
40 10 0.14
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (38 bp):
ATATAAAATATAGTTTAAAAAAACATTTTGGAAAACTT
Found at i:1008421 original size:70 final size:69
Alignment explanation
Indices: 1008206--1008422 Score: 201
Period size: 70 Copynumber: 3.1 Consensus size: 69
1008196 ACTTATGTAC
* * * * *
1008206 AATATATAAGTTTTAAAAAT-A-TTTTGAAAATTATATAGTATATTGTTTTGAAATCATTTTGAA
1 AATATATAAATTTTTAAAATCATTTTTGAAAATTATATAATATATAGTTTTGAAAACATTTT-AA
1008269 AATATA
65 AATA-A
* **
1008275 AA-ATAT-AATTTTTAAAAAACATTTTTTGAAAATTTATATAATATATAGTTTAAAAAAACATTT
1 AATATATAAATTTTT-AAAATCA-TTTTTGAAAA-TTATATAATATATAGTTT-TGAAAACATTT
**
1008338 TGGAA-AA
62 TAAAATAA
** * * *
1008345 CTTATATAACATTTTTAAAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAACGTTTTTA
1 AATATATAA-ATTTTTAAAATCATTTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTAA
1008410 AATAA
65 AATAA
1008415 AATATATA
1 AATATATA
1008423 GTTTAATTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
67 5 0.04
68 8 0.07
69 14 0.12
70 26 0.22
71 24 0.21
72 25 0.21
73 15 0.13
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (69 bp):
AATATATAAATTTTTAAAATCATTTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTAAA
ATAA
Found at i:1009741 original size:20 final size:19
Alignment explanation
Indices: 1009713--1009753 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1009703 TTAATACTTC
*
1009713 TTTATTTTTATTTATTTAAT
1 TTTAATTTTA-TTATTTAAT
*
1009733 TTTAATTTTATTATTTTAT
1 TTTAATTTTATTATTTAAT
1009752 TT
1 TT
1009754 CTTTGGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTAATTTTATTATTTAAT
Found at i:1009920 original size:13 final size:13
Alignment explanation
Indices: 1009902--1009931 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1009892 CGAACCGAAT
1009902 TTTTAAATTTCAA
1 TTTTAAATTTCAA
*
1009915 TTTTAAATTTTAA
1 TTTTAAATTTCAA
1009928 TTTT
1 TTTT
1009932 CGCAATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAAATTTCAA
Found at i:1015098 original size:74 final size:74
Alignment explanation
Indices: 1014977--1015125 Score: 208
Period size: 74 Copynumber: 2.0 Consensus size: 74
1014967 GCCACCAAGA
* * * *
1014977 CCTTCGAGTTCGACTACGTTCAGCTCCAAGGTACATCATTTACAGCATAACCTAAGTCGAGAAGG
1 CCTTCGAGTTCGACTACGCTCAGCTACAAGGCACATCATTTACAGCATAACCTAAGTCGAAAAGG
*
1015042 GTTATTTGC
66 GTTATCTGC
** * * *
1015051 CCTTCGAGTTCGTTTACGCTCAGCTACAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGG
1 CCTTCGAGTTCGACTACGCTCAGCTACAAGGCACATCATTTACAGCATAACCTAAGTCGAAAAGG
1015116 GTTATCTGC
66 GTTATCTGC
1015125 C
1 C
1015126 AAAGACCCCC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (74 bp):
CCTTCGAGTTCGACTACGCTCAGCTACAAGGCACATCATTTACAGCATAACCTAAGTCGAAAAGG
GTTATCTGC
Found at i:1015457 original size:165 final size:164
Alignment explanation
Indices: 1015051--1015621 Score: 845
Period size: 165 Copynumber: 3.5 Consensus size: 164
1015041 GGTTATTTGC
** * *
1015051 CCTTCGAGTTCGTTTACGCTCAGCTACAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGG
1 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
* * * *
1015116 GTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGCTATATTATTTATAGCATA
66 GCTATCTGCCAAATACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTTATAGCATA
* *
1015181 ACTCAAGACTAGAAGGGTTATCTGCCACCAAAGA
131 ACTCAAGACTAGAAGGGTTATCTGTCACAAAAGA
* * * * * *
1015215 CCTTTGAGTTCGACTATGTTCAGCTCCAATGCGCATCGTTTGCAGCATAGCTTAAGTCGAGAAGG
1 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
* *
1015280 GCTATCTGCCAAATACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTACATCATTTATAACATA
66 GCTATCTGCCAAATACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTTATAGCATA
* *
1015345 ACTCAAGGCTAGAAGGGTTATATGTCATCAAAAGA
131 ACTCAAGACTAGAAGGGTTATCTGTCA-CAAAAGA
** * *
1015380 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGTGCATCATTTGTAGCATAGCTTAAGTAGAGAAGG
1 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
* * * *
1015445 GTTATCTGCCAAATACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATA
66 GCTATCTGCCAAATACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTTATAGCATA
*
1015510 ACTCAAGACTAGAAGGGTTATCTGTTACTAAAAGA
131 ACTCAAGACTAGAAGGGTTATCTGTCAC-AAAAGA
* *
1015545 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGAGAAGG
1 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
1015610 GCTATCTGCCAA
66 GCTATCTGCCAA
1015622 CTGAAGACCT
Statistics
Matches: 362, Mismatches: 43, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
164 139 0.38
165 223 0.62
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (164 bp):
CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
GCTATCTGCCAAATACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTTATAGCATA
ACTCAAGACTAGAAGGGTTATCTGTCACAAAAGA
Found at i:1016450 original size:35 final size:35
Alignment explanation
Indices: 1016403--1016534 Score: 119
Period size: 35 Copynumber: 3.7 Consensus size: 35
1016393 TTTATGTACA
1016403 ATATATAAGTTTTAAAAACATTTTAAAAATTATAT
1 ATATATAAGTTTTAAAAACATTTTAAAAATTATAT
* * *
1016438 AGTATAT-AGTTTTGAAATCATTTTGAAAA-TATA-
1 A-TATATAAGTTTTAAAAACATTTTAAAAATTATAT
* *
1016471 ATATATAATTTTTAAAAAACATTTTTTGAAAATT-TAT
1 ATATATAAGTTTT-AAAAACA--TTTTAAAAATTATAT
*
1016508 ATAATATATAGTTTAAAAAAACATTTT
1 AT-ATATA-AGTTT-TAAAAACATTTT
1016535 TGAAAATTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
32 5 0.06
33 6 0.08
34 9 0.11
35 20 0.25
36 16 0.20
37 7 0.09
38 5 0.06
39 11 0.14
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (35 bp):
ATATATAAGTTTTAAAAACATTTTAAAAATTATAT
Found at i:1016524 original size:38 final size:37
Alignment explanation
Indices: 1016320--1016544 Score: 151
Period size: 38 Copynumber: 6.0 Consensus size: 37
1016310 TTTTTAAAAA
* *
1016320 ATATAATATATAGTTTTCAAAAAATATTTTTTTG-AAATAT
1 ATATAATATATAG-TTT-AAAAAACA--TTTTTGAAAATTT
* * *** *
1016360 ATATTATATA-ATTTTTTGAAACGTTTTTGAAAATTT
1 ATATAATATATAGTTTAAAAAACATTTTTGAAAATTT
* * *
1016396 ATGTACAATATATAAGTTTTAAAAACA-TTTT-AAAAATT
1 A--TATAATATAT-AGTTTAAAAAACATTTTTGAAAATTT
* ** * *
1016434 ATATAGTATATAGTTTTGAAATCA-TTTTGAAAATAT
1 ATATAATATATAGTTTAAAAAACATTTTTGAAAATTT
*
1016470 A-AT-ATATA-ATTTTTAAAAAACATTTTTTGAAAATTT
1 ATATAATATATA-GTTTAAAAAACA-TTTTTGAAAATTT
1016506 ATATAATATATAGTTTAAAAAAACATTTTTGAAAATTT
1 ATATAATATATAGTTT-AAAAAACATTTTTGAAAATTT
1016544 A
1 A
1016545 AAAAAAAATT
Statistics
Matches: 144, Mismatches: 28, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
33 1 0.01
34 12 0.08
35 23 0.16
36 32 0.22
37 5 0.03
38 39 0.27
39 14 0.10
40 18 0.12
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
ATATAATATATAGTTTAAAAAACATTTTTGAAAATTT
Found at i:1017912 original size:19 final size:20
Alignment explanation
Indices: 1017877--1017917 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
1017867 TTAATACTTC
*
1017877 TTTATTTTTATTTATTTAAT
1 TTTAATTTTATTTATTTAAT
1017897 TTTAATTTTA-TTATTTAAT
1 TTTAATTTTATTTATTTAAT
1017916 TT
1 TT
1017918 CTTTGGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTAATTTTATTTATTTAAT
Found at i:1018087 original size:13 final size:13
Alignment explanation
Indices: 1018069--1018098 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1018059 CGAACCAAAT
1018069 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1018082 TTTTAAATTTTAA
1 TTTTAAATTTTAA
1018095 TTTT
1 TTTT
1018099 CGCAATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:1019216 original size:60 final size:60
Alignment explanation
Indices: 1019103--1019235 Score: 159
Period size: 60 Copynumber: 2.2 Consensus size: 60
1019093 TTATTTTGGA
1019103 CCTTAAAC-TTTGGAATATTCTAATTACATCCCAAACTATGACTCTAGTTCTAAATTA-CT
1 CCTTAAACTTTTGGAATATTCTAATTACATCCCAAACTATGACTCTA-TTCTAAATTACCT
* * *
1019162 CCTTAAACTTTTGGACTA-TCTAATTTCATCCCTAAATTATGACCATCT-TTCTAAATTAGCCT
1 CCTTAAACTTTTGGAATATTCTAATTACATCCC-AAACTATGA-C-TCTATTCTAAATTA-CCT
1019224 CC-TAAACTTTTG
1 CCTTAAACTTTTG
1019236 AATGTTCCTA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
59 21 0.32
60 26 0.40
61 11 0.17
62 7 0.11
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (60 bp):
CCTTAAACTTTTGGAATATTCTAATTACATCCCAAACTATGACTCTATTCTAAATTACCT
Found at i:1023043 original size:21 final size:21
Alignment explanation
Indices: 1022997--1023043 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
1022987 ACATAATTTT
1022997 TTAAAAATTAAAATTAAAATA
1 TTAAAAATTAAAATTAAAATA
* * *
1023018 ATAAAAA-TAATAATTTAGATA
1 TTAAAAATTAA-AATTAAAATA
1023039 TTAAA
1 TTAAA
1023044 CATATAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAAAATTAAAATTAAAATA
Found at i:1032857 original size:21 final size:21
Alignment explanation
Indices: 1032833--1032901 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
1032823 ACCACCTTTG
* *
1032833 CCACCTTCATCACCTCCGCCA
1 CCACCTACATCACCTCCACCA
* * *
1032854 CCACCTCCATCATCTCCATCA
1 CCACCTACATCACCTCCACCA
*
1032875 CCACC-ACCTCAACCTCCACCA
1 CCACCTACATC-ACCTCCACCA
1032896 CCACCT
1 CCACCT
1032902 CCTCTACCCC
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 3 0.08
21 35 0.92
ACGTcount: A:0.23, C:0.58, G:0.01, T:0.17
Consensus pattern (21 bp):
CCACCTACATCACCTCCACCA
Found at i:1032905 original size:21 final size:20
Alignment explanation
Indices: 1032842--1032905 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 20
1032832 GCCACCTTCA
*
1032842 TCACCTCCGCCACCACCTCC
1 TCACCTCCACCACCACCTCC
* * *
1032862 ATCATCTCCATCACCACCACC
1 -TCACCTCCACCACCACCTCC
1032883 TCAACCTCCACCACCACCTCC
1 TC-ACCTCCACCACCACCTCC
1032904 TC
1 TC
1032906 TACCCCTTCG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.22, C:0.59, G:0.02, T:0.17
Consensus pattern (20 bp):
TCACCTCCACCACCACCTCC
Found at i:1032949 original size:24 final size:24
Alignment explanation
Indices: 1032851--1032962 Score: 88
Period size: 24 Copynumber: 4.8 Consensus size: 24
1032841 ATCACCTCCG
* * * *
1032851 CCACCACCTCCATCATCTCCATCA
1 CCACCACCTCTACCACCTCCACCA
1032875 CCACCACCTC-A--ACCTCCACCA
1 CCACCACCTCTACCACCTCCACCA
* * *
1032896 CCACCTCCTCTACC-CCTTCGAACA
1 CCACCACCTCTACCACC-TCCACCA
* *
1032920 CAACCACCTCTACCATCTCCACCA
1 CCACCACCTCTACCACCTCCACCA
* *
1032944 CCACCACCTCCACCTCCTC
1 CCACCACCTCTACCACCTC
1032963 TACCCATACC
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
21 17 0.25
22 1 0.01
23 3 0.04
24 47 0.68
25 1 0.01
ACGTcount: A:0.24, C:0.58, G:0.01, T:0.17
Consensus pattern (24 bp):
CCACCACCTCTACCACCTCCACCA
Found at i:1033928 original size:10 final size:10
Alignment explanation
Indices: 1033913--1033937 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1033903 TGTTCTACTG
1033913 AAAAAAAGGA
1 AAAAAAAGGA
1033923 AAAAAAAGGA
1 AAAAAAAGGA
1033933 AAAAA
1 AAAAA
1033938 TTCCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAGGA
Found at i:1041286 original size:14 final size:14
Alignment explanation
Indices: 1041267--1041295 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1041257 CGCTGGGCAT
1041267 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
1041281 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
1041295 C
1 C
1041296 AGCATCTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.45, G:0.28, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:1041353 original size:33 final size:33
Alignment explanation
Indices: 1041311--1041373 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1041301 CTGAGGCCAT
*
1041311 CCGAACGAGCTATGCGAGGGCATCCGAGGGTAA
1 CCGAACGAGCTATGCGAGGGAATCCGAGGGTAA
*
1041344 CCGAGCGAGCTATGCGAGGGAATCCGAGGG
1 CCGAACGAGCTATGCGAGGGAATCCGAGGG
1041374 CGACCGATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.40, T:0.11
Consensus pattern (33 bp):
CCGAACGAGCTATGCGAGGGAATCCGAGGGTAA
Found at i:1041410 original size:14 final size:14
Alignment explanation
Indices: 1041391--1041446 Score: 112
Period size: 14 Copynumber: 4.0 Consensus size: 14
1041381 TCGGTCGCCC
1041391 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1041405 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1041419 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1041433 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1041447 ATGCCCAGCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:1045119 original size:20 final size:21
Alignment explanation
Indices: 1045089--1045127 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1045079 AAGAACCCCA
1045089 GGGGGGTATCGATTCCCCTGT
1 GGGGGGTATCGATTCCCCTGT
*
1045110 GGGGGG-ATCGGTTCCCCT
1 GGGGGGTATCGATTCCCCT
1045128 TCAAAGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.08, C:0.26, G:0.41, T:0.26
Consensus pattern (21 bp):
GGGGGGTATCGATTCCCCTGT
Found at i:1045167 original size:20 final size:20
Alignment explanation
Indices: 1045090--1045170 Score: 56
Period size: 20 Copynumber: 3.9 Consensus size: 20
1045080 AGAACCCCAG
*
1045090 GGGGGTATCGATTCCC-CTGT
1 GGGGG-ATCGATTCCCTCAGT
* **
1045110 GGGGGGATCGGTTCCCCTTCAAA
1 -GGGGGATCGATT-CCC-TCAGT
* *
1045133 GGGAGAATCGGTTCCCTCAGT
1 GGG-GGATCGATTCCCTCAGT
1045154 GGGGGATCGATTCCCTC
1 GGGGGATCGATTCCCTC
1045171 TGCACCAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
20 18 0.38
21 14 0.30
22 6 0.13
23 9 0.19
ACGTcount: A:0.15, C:0.26, G:0.35, T:0.25
Consensus pattern (20 bp):
GGGGGATCGATTCCCTCAGT
Found at i:1053609 original size:21 final size:21
Alignment explanation
Indices: 1053585--1053629 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1053575 GATTTCTGGG
* *
1053585 CAAGGGAAATCGGTACCCATT
1 CAAGGGAAACCGATACCCATT
* *
1053606 CAAGGGGAACCGATACCCCTT
1 CAAGGGAAACCGATACCCATT
1053627 CAA
1 CAA
1053630 ACGAACAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
CAAGGGAAACCGATACCCATT
Found at i:1054372 original size:59 final size:58
Alignment explanation
Indices: 1054279--1054393 Score: 142
Period size: 59 Copynumber: 2.0 Consensus size: 58
1054269 GATTACATGC
* * * * *
1054279 AACATATGATATTAGATATATGTTTACACATACATGTGGTATGTGACAGAAGAGAAGG
1 AACATATGATATGAGATATATGATTACACATACATGTGATACGTGACAGAAAAGAAGG
* *
1054337 AACATATGATTATGAGATCA-ATGATTACACGTACATGTGATACGTGACTGAAAAGAA
1 AACATATGA-TATGAGAT-ATATGATTACACATACATGTGATACGTGACAGAAAAGAA
1054394 AAGATATGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 9 0.19
59 38 0.79
60 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (58 bp):
AACATATGATATGAGATATATGATTACACATACATGTGATACGTGACAGAAAAGAAGG
Found at i:1054550 original size:31 final size:31
Alignment explanation
Indices: 1054512--1054636 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
1054502 AGGGTCGAGG
1054512 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1054543 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1054574 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
1054605 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1054636 G
1 G
1054637 GTCCTTCGGG
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1055523 original size:21 final size:21
Alignment explanation
Indices: 1055499--1055546 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1055489 ATAATATGAT
* *
1055499 AGATGATATGTGAACATATAC
1 AGATGATAGGTGAAAATATAC
1055520 AGATGATAGGTGAAAATATAC
1 AGATGATAGGTGAAAATATAC
1055541 AGATGA
1 AGATGA
1055547 CATACGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.25
Consensus pattern (21 bp):
AGATGATAGGTGAAAATATAC
Found at i:1058150 original size:21 final size:21
Alignment explanation
Indices: 1058124--1058168 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1058114 GATTTCTGGG
* *
1058124 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1058145 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1058166 CAA
1 CAA
1058169 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1058762 original size:13 final size:13
Alignment explanation
Indices: 1058744--1058768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1058734 AGGTAGAAAG
1058744 GAAAATATGATAT
1 GAAAATATGATAT
1058757 GAAAATATGATA
1 GAAAATATGATA
1058769 GTGAGCTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (13 bp):
GAAAATATGATAT
Found at i:1058911 original size:59 final size:58
Alignment explanation
Indices: 1058818--1058932 Score: 142
Period size: 59 Copynumber: 2.0 Consensus size: 58
1058808 GATTACATGC
* * * * *
1058818 AACATATGATATTAGATATATGTTTACACATACATGTGGTATGTGACAGAAGAGAAGG
1 AACATATGATATGAGATATATGATTACACATACATGTGATACGTGACAGAAAAGAAGG
* *
1058876 AACATATGATTATGAGATCA-ATGATTACACGTACATGTGATACGTGACTGAAAAGAA
1 AACATATGA-TATGAGAT-ATATGATTACACATACATGTGATACGTGACAGAAAAGAA
1058933 AAGATATGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 9 0.19
59 38 0.79
60 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (58 bp):
AACATATGATATGAGATATATGATTACACATACATGTGATACGTGACAGAAAAGAAGG
Found at i:1059089 original size:31 final size:31
Alignment explanation
Indices: 1059051--1059175 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
1059041 AGGGTCGAGG
1059051 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1059082 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1059113 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * * *
1059144 GATTACCTAGGTTTTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1059175 G
1 G
1059176 GTCCTTCGGG
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1061675 original size:20 final size:20
Alignment explanation
Indices: 1061581--1061949 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
1061571 GATTTTCCAT
* ** *
1061581 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1061601 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1061621 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1061641 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
1061661 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
1061681 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1061701 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1061721 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1061741 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
1061761 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1061781 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1061801 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1061821 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
1061841 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1061861 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1061881 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1061901 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1061921 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1061941 AATCACAAC
1 AATCGCAAC
1061950 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1062671 original size:24 final size:24
Alignment explanation
Indices: 1062632--1062678 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1062622 AAATTTGGTC
1062632 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1062656 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1062679 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1062870 original size:12 final size:12
Alignment explanation
Indices: 1062853--1062877 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1062843 ATATAATCCT
1062853 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1062865 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1062877 G
1 G
1062878 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1065183 original size:19 final size:19
Alignment explanation
Indices: 1065161--1065453 Score: 392
Period size: 19 Copynumber: 16.4 Consensus size: 19
1065151 CGGAAAATAC
*
1065161 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1065180 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1065194 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1065214 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1065228 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1065247 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1065266 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
1065280 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
1065299 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1065318 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1065337 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1065356 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1065375 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1065394 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
1065408 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1065427 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1065446 AATCGCAA
1 AATCGCAA
1065454 CGAGATAATC
Statistics
Matches: 245, Mismatches: 8, Indels: 42
0.83 0.03 0.14
Matches are distributed among these distances:
14 38 0.16
15 1 0.00
16 14 0.06
17 12 0.05
18 2 0.01
19 165 0.67
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1065276 original size:52 final size:55
Alignment explanation
Indices: 1065189--1065475 Score: 356
Period size: 52 Copynumber: 5.4 Consensus size: 55
1065179 AAATCCCAAC
*
1065189 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
1065242 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
*
1065294 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
1065351 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
1065406 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
1065456 A-GATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAAT
1065476 TATAAACGCA
Statistics
Matches: 222, Mismatches: 2, Indels: 21
0.91 0.01 0.09
Matches are distributed among these distances:
50 2 0.01
52 127 0.57
53 16 0.07
54 6 0.03
55 7 0.03
57 64 0.29
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:1065372 original size:128 final size:128
Alignment explanation
Indices: 1065161--1065475 Score: 462
Period size: 128 Copynumber: 2.6 Consensus size: 128
1065151 CGGAAAATAC
* *
1065161 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
* *
1065221 A--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
65 ATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
1065280 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1065345 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
66 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
1065408 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GATAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1065468 TGCGAAAT
66 TGCGAAAT
1065476 TATAAACGCA
Statistics
Matches: 179, Mismatches: 7, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
119 24 0.13
121 1 0.01
123 34 0.19
124 17 0.09
125 2 0.01
126 2 0.01
127 1 0.01
128 98 0.55
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (128 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:1065591 original size:19 final size:19
Alignment explanation
Indices: 1065482--1065583 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
1065472 AAATTATAAA
1065482 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1065501 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1065521 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1065537 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1065554 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1065573 CGCATTGCGAT
1 CGCATTGCGAT
1065584 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:1065709 original size:14 final size:14
Alignment explanation
Indices: 1065690--1065726 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1065680 CATCAATTAC
1065690 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1065704 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1065718 ACAAATCAA
1 ACAAATCAA
1065727 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1067653 original size:20 final size:20
Alignment explanation
Indices: 1067628--1067693 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 20
1067618 TAGTTTACTT
* *
1067628 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
1067648 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
1067667 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
1067686 TCGCAACG
1 TCGCAACG
1067694 ACAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.45, C:0.27, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:1067713 original size:33 final size:33
Alignment explanation
Indices: 1067665--1067757 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1067655 GCGAAACCAA
*
1067665 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
* *
1067698 AATCGCAATGTGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1067731 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1067758 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1067722 original size:19 final size:19
Alignment explanation
Indices: 1067698--1067762 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1067688 GCAACGACAG
* *
1067698 AATCGCAATGTGAAATGAA
1 AATCGCAACGCGAAATGAA
1067717 AATCGCAA--CGAAA-G--
1 AATCGCAACGCGAAATGAA
1067731 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1067750 AATCGCAATGCGA
1 AATCGCAACGCGA
1067763 TTTTGGTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.21
16 6 0.15
17 5 0.13
19 20 0.51
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1067736 original size:14 final size:14
Alignment explanation
Indices: 1067684--1067740 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1067674 GCGAAATGAA
*
1067684 AATCGCAACGACAG
1 AATCGCAACGAAAG
*
1067698 AATCGCAATGTGAAATG
1 AATCGCAA--CGAAA-G
1067715 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1067731 AATCGCAACG
1 AATCGCAACG
1067741 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
16 4 0.11
17 5 0.14
19 8 0.23
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1067780 original size:19 final size:19
Alignment explanation
Indices: 1067758--1067886 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1067748 AAAATCGCAA
1067758 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1067777 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1067791 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1067810 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1067824 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1067843 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1067862 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1067882 TGCGA
1 TGCGA
1067887 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1067800 original size:33 final size:33
Alignment explanation
Indices: 1067758--1067849 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1067748 AAAATCGCAA
1067758 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1067791 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1067824 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1067850 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1068101 original size:92 final size:93
Alignment explanation
Indices: 1067930--1068216 Score: 549
Period size: 93 Copynumber: 3.1 Consensus size: 93
1067920 TTGAATGGAT
1067930 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1067995 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
1068023 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1068087 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1068115 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
1068180 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1068208 AAATTTACT
1 AAATTTACT
1068217 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 91 0.48
93 99 0.52
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1069942 original size:14 final size:14
Alignment explanation
Indices: 1069923--1070012 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1069913 TTGAAATGAA
1069923 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1069937 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1069954 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1069970 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1069989 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1070003 AATCGCAACG
1 AATCGCAACG
1070013 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1069960 original size:33 final size:33
Alignment explanation
Indices: 1069915--1070029 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1069905 TCTTTTGGTT
1069915 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1069948 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1069981 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1070014 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1070030 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1069961 original size:19 final size:18
Alignment explanation
Indices: 1069922--1070034 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
1069912 GTTGAAATGA
1069922 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1069937 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1069954 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1069970 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1069987 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
1070003 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
1070020 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
1070035 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1070065 original size:14 final size:14
Alignment explanation
Indices: 1070046--1070100 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1070036 TTTGGTTTCG
1070046 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1070060 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1070079 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1070093 CGTTGCGA
1 CGTTGCGA
1070101 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1070078 original size:33 final size:33
Alignment explanation
Indices: 1070030--1070100 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1070020 AAAATCGCAA
**
1070030 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1070063 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1070096 TGCGA
1 TGCGA
1070101 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1070108 original size:33 final size:33
Alignment explanation
Indices: 1070041--1070122 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
1070031 GCGATTTTGG
***
1070041 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1070074 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
1070107 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
1070123 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:1070127 original size:20 final size:20
Alignment explanation
Indices: 1070053--1070141 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
1070043 TCGCGTTGCG
1070053 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
1070073 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
1070086 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
1070106 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
1070126 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
1070142 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:1070263 original size:33 final size:33
Alignment explanation
Indices: 1070221--1070291 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1070211 AATACTAACT
*
1070221 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1070254 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1070287 TGAAA
1 TGAAA
1070292 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1070525 original size:22 final size:22
Alignment explanation
Indices: 1070473--1070527 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1070463 TGGTTGTGAG
**
1070473 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1070495 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1070517 GGATTTCTTCG
1 GGATTTCTTCG
1070528 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1070698 original size:20 final size:20
Alignment explanation
Indices: 1070673--1070865 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
1070663 CTTTAAATAT
1070673 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1070693 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1070715 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1070734 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1070754 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1070774 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1070794 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1070814 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1070834 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1070854 CGCGTTGCGATT
1 CGCGTTGCGATT
1070866 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1070860 original size:60 final size:60
Alignment explanation
Indices: 1070673--1070865 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
1070663 CTTTAAATAT
**
1070673 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1070734 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1070794 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1070854 CGCGTTGCGATT
1 CGCGTTGCGATT
1070866 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1070946 original size:20 final size:20
Alignment explanation
Indices: 1070921--1070972 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1070911 AAGAATCGCG
*
1070921 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1070941 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1070961 TTGCGATTCTGG
1 TTGCGATTCTGG
1070973 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1078668 original size:2 final size:2
Alignment explanation
Indices: 1078661--1078693 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1078651 TTTACCTTAA
1078661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1078694 ATAAAAGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1086213 original size:17 final size:18
Alignment explanation
Indices: 1086193--1086234 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1086183 ATTATTAACC
1086193 TTAATTTTCTA-TTTAAA
1 TTAATTTTCTAGTTTAAA
* *
1086210 TTAATTATCTAGTTTTAA
1 TTAATTTTCTAGTTTAAA
1086228 TTAATTT
1 TTAATTT
1086235 AATTATTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TTAATTTTCTAGTTTAAA
Found at i:1088946 original size:26 final size:26
Alignment explanation
Indices: 1088917--1088968 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1088907 TTTCAGTACA
1088917 TACACTTTTAATTTTTTTAAAATCAT
1 TACACTTTTAATTTTTTTAAAATCAT
1088943 TACACTTTTAATTTTTTTAAAATCAT
1 TACACTTTTAATTTTTTTAAAATCAT
1088969 ACCTAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (26 bp):
TACACTTTTAATTTTTTTAAAATCAT
Found at i:1088980 original size:28 final size:26
Alignment explanation
Indices: 1088917--1088985 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
1088907 TTTCAGTACA
*
1088917 TACACTTTTAATTTTTTTAAAATCAT
1 TACACATTTAATTTTTTTAAAATCAT
*
1088943 TACACTTTTAATTTTTTTAAAATCA-
1 TACACATTTAATTTTTTTAAAATCAT
1088968 TACCTAACATTTAATTTT
1 TA-C--ACATTTAATTTT
1088986 CATTTTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 2 0.05
26 26 0.67
28 11 0.28
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (26 bp):
TACACATTTAATTTTTTTAAAATCAT
Found at i:1089926 original size:224 final size:223
Alignment explanation
Indices: 1089533--1089983 Score: 699
Period size: 224 Copynumber: 2.0 Consensus size: 223
1089523 TGAATATGCA
* * *
1089533 ACTTGTAGTATTAGTGTATCATTTATGTTTCAGCTGATCAGATTTACTTCAAATGATTTATGTGA
1 ACTTGTAGCATTAGTGTATCATTTATGTTTCAGCTGATCAGATTTACTTCAAATGATTGACGTGA
* *
1089598 ATTCTTCGTCTTTTTTTTTTATCTTTTCTGTGTTGTTTTTAAGAATTGAAACTTGGGTTCATCTC
66 ACTCTTCATCTTTTTTTTTTATCTTTTCTGTGTTGTTTTTAAGAATTGAAACTTGGGTTCATCTC
*
1089663 TGAATTATCAGTTTTTTACGTGCGGATTAAGGCTTGGGTTTGATGTTTCTTTCTTTAAAAAATAT
131 TGAATTATCAGTTTTTTACGTGAGGATTAAGGCTTGGGTTTGATGTTTCTTTCTTTAAAAAATAT
*
1089728 GGGTTTTGATAGTCAGTTA-TCGAAATTC
196 GGGTTTTGATAGTCAATTAGT-GAAATTC
* * * *
1089756 ACTTGTAGCATTAGTGTATCCTTTATGTTTCAGCTGATCTGCTTTACTTGCAAGTGATTGACGTG
1 ACTTGTAGCATTAGTGTATCATTTATGTTTCAGCTGATCAGATTTACTT-CAAATGATTGACGTG
*
1089821 AACTCTTCATCTTTTTTTTTTATCTTTTCTGTGTTGTTTTTTAA-TATTGAAACTTGGGTTCATC
65 AACTCTTCATCTTTTTTTTTTATCTTTTCTGTGTTG-TTTTTAAGAATTGAAACTTGGGTTCATC
* * *
1089885 TCTGAATTATCAGTTTTTTTCGTTAGGATTAAGGTTTGGGTTTGATGTTTCTTTCTTTAAAAAAT
129 TCTGAATTATCAGTTTTTTACGTGAGGATTAAGGCTTGGGTTTGATGTTTCTTTCTTTAAAAAAT
* **
1089950 CTGGGTTTTGATTTTCAATTAGTGAAATTC
194 ATGGGTTTTGATAGTCAATTAGTGAAATTC
1089980 ACTT
1 ACTT
1089984 TTTGCAGGTG
Statistics
Matches: 207, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
223 45 0.22
224 154 0.74
225 8 0.04
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.49
Consensus pattern (223 bp):
ACTTGTAGCATTAGTGTATCATTTATGTTTCAGCTGATCAGATTTACTTCAAATGATTGACGTGA
ACTCTTCATCTTTTTTTTTTATCTTTTCTGTGTTGTTTTTAAGAATTGAAACTTGGGTTCATCTC
TGAATTATCAGTTTTTTACGTGAGGATTAAGGCTTGGGTTTGATGTTTCTTTCTTTAAAAAATAT
GGGTTTTGATAGTCAATTAGTGAAATTC
Found at i:1091219 original size:27 final size:28
Alignment explanation
Indices: 1091182--1091239 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1091172 AAAAAAACAG
*
1091182 TTTTTTCC-AAATCCGAT-TTCGGATATT
1 TTTTTTCCAAAATCAGATATTCGGAT-TT
*
1091209 TTTTTTGCAAAATCAGATATTCGGATTT
1 TTTTTTCCAAAATCAGATATTCGGATTT
1091237 TTT
1 TTT
1091240 GTGCACCCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 13 0.48
29 7 0.26
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (28 bp):
TTTTTTCCAAAATCAGATATTCGGATTT
Found at i:1097704 original size:30 final size:31
Alignment explanation
Indices: 1097647--1097709 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
1097637 TATAATTTTA
* *
1097647 AAAAAATAAAAGTTTATATACTAAAATGGAT
1 AAAAAATAAAAGTTTAGATACTAAAATGCAT
* * *
1097678 AAAAAATGATAGTTTAGATA-TTAAATGCAT
1 AAAAAATAAAAGTTTAGATACTAAAATGCAT
1097708 AA
1 AA
1097710 TTTATCCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.30
Consensus pattern (31 bp):
AAAAAATAAAAGTTTAGATACTAAAATGCAT
Found at i:1100357 original size:6 final size:6
Alignment explanation
Indices: 1100346--1100382 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
1100336 AAATCTCTCG
1100346 CCACTC CCACTC CCACTC CCACTC CCACTC CCACTC C
1 CCACTC CCACTC CCACTC CCACTC CCACTC CCACTC C
1100383 GATCTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CCACTC
Found at i:1105206 original size:22 final size:22
Alignment explanation
Indices: 1105181--1105229 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1105171 GAATAAGAGG
1105181 CCTTCGGGTCTCCTATAAG-CGT
1 CCTTCGGGTCTCCT-TAAGACGT
* *
1105203 CCTTCGGTTCTCCTTCAGACGT
1 CCTTCGGGTCTCCTTAAGACGT
1105225 CCTTC
1 CCTTC
1105230 TCCGCAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.10, C:0.37, G:0.18, T:0.35
Consensus pattern (22 bp):
CCTTCGGGTCTCCTTAAGACGT
Found at i:1106900 original size:154 final size:154
Alignment explanation
Indices: 1106708--1107784 Score: 2147
Period size: 154 Copynumber: 7.0 Consensus size: 154
1106698 CCATAACTCT
1106708 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1106773 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
66 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
1106838 TATCGCAGAATTCAAACAAGATGA
131 TATCGCAGAATTCAAACAAGATGA
1106862 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1106927 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
66 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
1106992 TATCGCAGAATTCAAACAAGATGA
131 TATCGCAGAATTCAAACAAGATGA
1107016 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1107081 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
66 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
1107146 TATCGCAGAATTCAAACAAGATGA
131 TATCGCAGAATTCAAACAAGATGA
1107170 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1107235 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
66 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
1107300 TATCGCAGAATTCAAACAAGATGA
131 TATCGCAGAATTCAAACAAGATGA
1107324 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAAC-AAAAACAATCCA
1 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1107388 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
66 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
1107453 TATCGCAGAATTCAAACAAGATGA
131 TATCGCAGAATTCAAACAAGATGA
1107477 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1107542 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
66 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
1107607 TATCGCAGAATTCAAACAAGATGA
131 TATCGCAGAATTCAAACAAGATGA
1107631 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1 CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
1107696 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
66 ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
1107761 TATCGCAGAATTCAAACAAGATGA
131 TATCGCAGAATTCAAACAAGATGA
1107785 ATCCATCGAT
Statistics
Matches: 922, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
153 153 0.17
154 769 0.83
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.27
Consensus pattern (154 bp):
CCGTCCAAAGTAGAAAGAAGAATAAATGTTACAATTCATTTAGTTTACTAACAAAAAACAATCCA
ATTATACTAACTAATTATCACAGAATATTTACAGATACAAACCTAAACCCATAGTTTCAGATAAT
TATCGCAGAATTCAAACAAGATGA
Found at i:1112242 original size:3 final size:3
Alignment explanation
Indices: 1112234--1112259 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1112224 GAATTGGGTT
1112234 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
1112260 ATTTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:1119490 original size:35 final size:35
Alignment explanation
Indices: 1119450--1119528 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
1119440 GTGTGTTATT
*
1119450 TTGTTGAGTTCGTCGATTATAAGAATGATATTACC
1 TTGTTGAGTTCATCGATTATAAGAATGATATTACC
* * * *
1119485 TTGTTGAGTTCATCGATTATAGGAATGATGTTGCT
1 TTGTTGAGTTCATCGATTATAAGAATGATATTACC
1119520 TTGTTGAGT
1 TTGTTGAGT
1119529 CCAATTACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (35 bp):
TTGTTGAGTTCATCGATTATAAGAATGATATTACC
Found at i:1122789 original size:4 final size:4
Alignment explanation
Indices: 1122782--1122817 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
1122772 TATATATGTT
*
1122782 CATA CATA CATA CATA CATA CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1122818 TGTTCATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1125718 original size:18 final size:18
Alignment explanation
Indices: 1125673--1125724 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
1125663 AACGCGTTTA
1125673 TTCTAAATTTATAATATT
1 TTCTAAATTTATAATATT
** *
1125691 TTCTGTATTTTTAAT-TAT
1 TTCTAAATTTATAATAT-T
1125709 TTCTAAATTTGATAAT
1 TTCTAAATTT-ATAAT
1125725 TTAATTGGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
17 1 0.04
18 21 0.81
19 4 0.15
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (18 bp):
TTCTAAATTTATAATATT
Found at i:1125830 original size:60 final size:59
Alignment explanation
Indices: 1125756--1125867 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
1125746 ATGGTCCCCT
* * *
1125756 GATTATAGAGTGTTATTTTATTAAGTC-CTCCGACTATTAAAAGTTACAGAATAACCCATC
1 GATTATAGAGTGTTACTTT-TTAAGTCTCT-CGACTATTAAAAGATACAAAATAACCCATC
*
1125816 GATTATA-AGATGTTACTTTTTAAGTCTCTTGACTATTAAAAGATACAAAATA
1 GATTATAGAG-TGTTACTTTTTAAGTCTCTCGACTATTAAAAGATACAAAATA
1125868 GTCACCCGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 29 0.63
60 17 0.37
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (59 bp):
GATTATAGAGTGTTACTTTTTAAGTCTCTCGACTATTAAAAGATACAAAATAACCCATC
Found at i:1127741 original size:37 final size:37
Alignment explanation
Indices: 1127665--1127741 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1127655 TTTTTATATT
*
1127665 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
1127702 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
1127739 TTT
1 TTT
1127742 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Done.