Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007805.1 Hibiscus syriacus cultivar Beakdansim tig00110123_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: 2708727
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:1197362 original size:113 final size:113
Alignment explanation
Indices: 1197164--1197597 Score: 646
Period size: 113 Copynumber: 3.9 Consensus size: 113
1197154 AGGAAGAAGA
*
1197164 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* *
1197229 AACCTTTCGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCG
1197277 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
****
1197342 AACCTTTTGCTCAAATCCATCA-TCTGATGGATCAGCTTTTCCAGAAAA
66 AACCTTTTGCTCAAATCCATCACT-TGATGGATCAGCTTTTCCAGTTCG
*
1197390 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
1197455 AACCTTTTGCTCAAA-CTCATCACTTGATGGATCAACTTTTCCAGTTCG
66 AACCTTTTGCTCAAATC-CATCACTTGATGGATCAGCTTTTCCAGTTCG
* * *
1197503 AGTTCATAATGAGAAGAACTCATCTGAAGAA--AAG-A-AAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * ** * *
1197564 AACCCTTAGCTTGAATTCATCATTTGATGGATCA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCA
1197598 TCAGCGCCAA
Statistics
Matches: 296, Mismatches: 21, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
109 51 0.17
110 1 0.00
111 3 0.01
112 2 0.01
113 238 0.80
114 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCG
Found at i:1197445 original size:226 final size:221
Alignment explanation
Indices: 1197158--1197679 Score: 703
Period size: 226 Copynumber: 2.3 Consensus size: 221
1197148 TAAAGAAGGA
* *
1197158 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAAT
* *
1197223 TTGTTCAACCTTTCGCTCAAA-TCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAAT
65 TTGTTCAACCTTTCGCTCAAACT-CATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAAT
* * *
1197287 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
129 GAGAAGAACTCATCTGAAGAA--AAG-A-AAATTCATAATGAGAAGAACTTGTTCAACCCTTAGC
****
1197352 TCAAATCCATCATCTGATGGATCAGCTTTTCC
190 TCAAATCCATCATCTGATGGATCAGCAGCGCC
1197384 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAAT
*
1197449 TTGTTCAACCTTTTGCTCAAACTCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATG
65 TTGTTCAACCTTTCGCTCAAACTCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATG
* * **
1197514 AGAAGAACTCATCTGAAGAAAAGAAAGTTCATAATGAGAAGAACTTGTTTAACCCTTAGCTTGAA
130 AGAAGAACTCATCTGAAGAAAAGAAAATTCATAATGAGAAGAACTTGTTCAACCCTTAGCTCAAA
* * *
1197579 TTCATCATTTGATGGATCATCAGCGCC
195 TCCATCATCTGATGGATCAGCAGCGCC
* * * * **
1197606 A-AAGAGAGTTCGTAATGAGAAGAACTCATTTGAAGAA-AAG-A-AAGTTCATAATAAGAAGAGC
1 AGAA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAAT
*
1197667 TTATTCAACCTTT
65 TTGTTCAACCTTT
1197680 TGGATGACTC
Statistics
Matches: 267, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
218 29 0.11
219 1 0.00
220 3 0.01
221 2 0.01
222 85 0.32
223 1 0.00
224 3 0.01
226 142 0.53
227 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (221 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATT
TGTTCAACCTTTCGCTCAAACTCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGA
GAAGAACTCATCTGAAGAAAAGAAAATTCATAATGAGAAGAACTTGTTCAACCCTTAGCTCAAAT
CCATCATCTGATGGATCAGCAGCGCC
Found at i:1197486 original size:382 final size:376
Alignment explanation
Indices: 1196780--1197558 Score: 1206
Period size: 382 Copynumber: 2.1 Consensus size: 376
1196770 TTTTCCAGAG
* *
1196780 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
* * *
1196845 TCAACCTTTTGCTCAAATACATCACTTGATGGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAA
66 TCAACCTTTCGCTCAAATACATCACTTGATGGATCAGCTTTTCCAGACGAAGTTCATAATGAGAA
*
1196910 GAACTCATCTGAAGAAGGATAAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAA
131 GAACTCATCTGAAGAAGGATAAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAA
* * * *
1196975 TCTATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAG
196 TCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAAAAG
* * ** * *
1197040 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGAT
261 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAACTCATCACTTGATGGAT
1197105 CAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAAGGAAGAA
326 CAACATTGCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTAAAGAA--AAG-A
*
1197162 GAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATAATGAGAAGAATTTGT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
* * *
1197227 TCAACCTTTCGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGTTCG-AGTTCATAATGAGA
66 TCAACCTTTCGCTCAAATACATCACTTGATGGATCAGCTTTTCCAG-ACGAAGTTCATAATGAGA
1197291 AGAACTCATCTGAAGAAGGA-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
130 AGAACTCATCTGAAGAAGGATA-AAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
*
1197355 AATCCATCA-TCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAG
194 AATCCATCACT-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAA
*
1197419 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAACTCATCACTTGATG
258 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAACTCATCACTTGATG
* * * * *
1197484 GATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAAGA
323 GATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAAGA
1197538 -AAGTTCATAATGAGAAGAACT
1 GAAGTTCATAATGAGAAGAACT
1197559 TGTTTAACCC
Statistics
Matches: 367, Mismatches: 27, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
375 21 0.06
376 1 0.00
377 3 0.01
379 11 0.03
380 1 0.00
381 2 0.01
382 327 0.89
383 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (376 bp):
GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
TCAACCTTTCGCTCAAATACATCACTTGATGGATCAGCTTTTCCAGACGAAGTTCATAATGAGAA
GAACTCATCTGAAGAAGGATAAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAA
TCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAAAAG
GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAACTCATCACTTGATGGAT
CAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAAGA
Found at i:1197615 original size:109 final size:112
Alignment explanation
Indices: 1197160--1197681 Score: 623
Period size: 113 Copynumber: 4.7 Consensus size: 112
1197150 AAGAAGGAAG
*
1197160 AAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATAATGAGAAGAATT
1 AAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATT
* *
1197224 TGTTCAACCTTTCGCTCAAATCCATCACTTGATGGATTAGCTTTTCCA
65 TGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
**** *
1197272 GTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
1 AAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATT
1197337 TGTTCAACCTTTTGCTCAAATCCATCA-TCTGATGGATCAGCTTTTCCA
65 TGTTCAACCTTTTGCTCAAATCCATCACT-TGATGGATCAGCTTTTCCA
*
1197385 GAA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 -AAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAAT
*
1197449 TTGTTCAACCTTTTGCTCAAA-CTCATCACTTGATGGATCAACTTTTCCA
64 TTGTTCAACCTTTTGCTCAAATC-CATCACTTGATGGATCAGCTTTTCCA
**** *
1197498 GTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAA-AAG-A-AAGTTCATAATGAGAAGAACTT
1 AAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTT
* * * ** * * * ****
1197560 GTTTAACCCTTAGCTTGAATTCATCATTTGATGGATCATCAGCGCCA
66 GTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
* * * **
1197607 AAGAGAGTTCGTAATGAGAAGAACTCATTTGAAGAA-AAG-A-AAGTTCATAATAAGAAGAGCTT
1 AAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTT
*
1197669 ATTCAACCTTTTG
66 GTTCAACCTTTTG
1197682 GATGACTCTA
Statistics
Matches: 361, Mismatches: 42, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
109 118 0.33
110 1 0.00
111 3 0.01
112 2 0.01
113 236 0.65
114 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (112 bp):
AAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
Found at i:1197924 original size:3 final size:3
Alignment explanation
Indices: 1197916--1197994 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
1197906 ATTGATTTAT
* * * *
1197916 TTA TTA TTA TTA TTA TTA TAA TTA TTTA TTA TAA TTA TTA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
1197962 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1197995 AATATATTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1200813 original size:4 final size:4
Alignment explanation
Indices: 1200804--1200927 Score: 86
Period size: 4 Copynumber: 29.0 Consensus size: 4
1200794 CCCTTTCAAT
**
1200804 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TTATT TAAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA -TAAA T-AAA TAAA TAAA TAAA
* * * * * * *
1200854 TAAA TTAT TCAAAA TAAA TTAA TAAA TTAA TAAT TTAT TCAAAA TAAA
1 TAAA TAAA T--AAA TAAA TAAA TAAA TAAA TAAA TAAA T--AAA TAAA
*
1200902 TAAA TAAT TCAAAA TAAA TAAA TAAA
1 TAAA TAAA T--AAA TAAA TAAA TAAA
1200928 AATTATCTTC
Statistics
Matches: 94, Mismatches: 18, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
4 83 0.88
5 4 0.04
6 7 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (4 bp):
TAAA
Found at i:1200845 original size:30 final size:30
Alignment explanation
Indices: 1200809--1200908 Score: 136
Period size: 30 Copynumber: 3.5 Consensus size: 30
1200799 TCAATTAAAT
1200809 AAATAAATAAATAAATAAATAAATTATT--
1 AAATAAATAAATAAATAAATAAATTATTCA
*
1200837 -TA-AAATAAATAAATAAATAAATTATTCA
1 AAATAAATAAATAAATAAATAAATTATTCA
* * *
1200865 AAATAAATTAATAAATTAATAATTTATTCA
1 AAATAAATAAATAAATAAATAAATTATTCA
1200895 AAATAAATAAATAA
1 AAATAAATAAATAA
1200909 TTCAAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 24 0.39
27 1 0.02
29 1 0.02
30 36 0.58
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (30 bp):
AAATAAATAAATAAATAAATAAATTATTCA
Found at i:1200847 original size:26 final size:26
Alignment explanation
Indices: 1200813--1200927 Score: 130
Period size: 26 Copynumber: 4.6 Consensus size: 26
1200803 TTAAATAAAT
* *
1200813 AAATAAATAAATAAATAAATTATTTA
1 AAATAAATAAATAAATAAATAATTCA
*
1200839 AAATAAATAAATAAATAAATTATTCA
1 AAATAAATAAATAAATAAATAATTCA
* *
1200865 AAATAAATTAATAAATTAATAATT--
1 AAATAAATAAATAAATAAATAATTCA
* **
1200889 -TATTCA-AAATAAATAAATAATTCA
1 AAATAAATAAATAAATAAATAATTCA
1200913 AAATAAATAAATAAA
1 AAATAAATAAATAAA
1200928 AATTATCTTC
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 14 0.19
23 3 0.04
25 3 0.04
26 53 0.73
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (26 bp):
AAATAAATAAATAAATAAATAATTCA
Found at i:1202595 original size:9 final size:9
Alignment explanation
Indices: 1202581--1202655 Score: 52
Period size: 9 Copynumber: 8.7 Consensus size: 9
1202571 ATCAGAGATT
1202581 TTATATTAA
1 TTATATTAA
1202590 TTATA-TATA
1 TTATATTA-A
*
1202599 TAATATT--
1 TTATATTAA
*
1202606 TTATATT-T
1 TTATATTAA
1202614 TTATATTAA
1 TTATATTAA
1202623 TTATA-TATA
1 TTATATTA-A
* **
1202632 TAATATTTT
1 TTATATTAA
1202641 TTATATTAA
1 TTATATTAA
1202650 TTATAT
1 TTATAT
1202656 AATACAAACC
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
7 6 0.12
8 11 0.22
9 32 0.63
10 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTATATTAA
Found at i:1216154 original size:16 final size:17
Alignment explanation
Indices: 1216130--1216162 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1216120 ATATTTTATA
1216130 TTTTAATTT-AAATAAT
1 TTTTAATTTAAAATAAT
*
1216146 TTTTTATTTAAAATAAT
1 TTTTAATTTAAAATAAT
1216163 AATAATAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAATTTAAAATAAT
Found at i:1222407 original size:24 final size:23
Alignment explanation
Indices: 1222365--1222449 Score: 111
Period size: 24 Copynumber: 3.7 Consensus size: 23
1222355 CTGTGCGCCA
*
1222365 GGTATCGATACCCCCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
1222388 GGTACCGATACCCCCCTTTGAATG
1 GGTACCGATA-CCCCCTTTGAATG
** *
1222412 GGTACTAATACCCCCTATG-A-G
1 GGTACCGATACCCCCTTTGAATG
1222433 GGTACCGATACCCCCTT
1 GGTACCGATACCCCCTT
1222450 CGGGTTCTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 15 0.28
22 1 0.02
23 17 0.31
24 21 0.39
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (23 bp):
GGTACCGATACCCCCTTTGAATG
Found at i:1223868 original size:3 final size:3
Alignment explanation
Indices: 1223860--1223942 Score: 102
Period size: 3 Copynumber: 28.7 Consensus size: 3
1223850 TCCATTTTTA
* *
1223860 TAT TAT TAT TAT TAT T-T TAT T-T TATT TAT TAC TAT AAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
*
1223903 TAT AAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1223943 CAATTCAGGC
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
2 8 0.12
3 58 0.84
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1224045 original size:19 final size:20
Alignment explanation
Indices: 1224000--1224045 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
1223990 AGACCGACAC
1224000 AAACCC-ACTAGAAACCCTA
1 AAACCCAACTAGAAACCCTA
1224019 AAACCCAAC-AGAAACCCTA
1 AAACCCAACTAGAAACCCTA
1224038 AAACCCAA
1 AAACCCAA
1224046 GTAAAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.52, C:0.37, G:0.04, T:0.07
Consensus pattern (20 bp):
AAACCCAACTAGAAACCCTA
Found at i:1224996 original size:41 final size:41
Alignment explanation
Indices: 1224916--1225010 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
1224906 ACTTTTTATA
* *
1224916 TTTTAATATTATAGTTTTAATTTAATTTATTTTAGTTATTG
1 TTTTAATATTATAGTTTTAATTTAATATATTTTAATTATTG
* * *
1224957 TTTTAATTTTATA-TGTTTATTTTCAATATA-TTTAATTATTA
1 TTTTAATATTATAGT-TTTAATTT-AATATATTTTAATTATTG
*
1224998 TTATTATTATTAT
1 TT-TTAATATTAT
1225011 TATTATTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.02
41 30 0.68
42 13 0.30
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (41 bp):
TTTTAATATTATAGTTTTAATTTAATATATTTTAATTATTG
Found at i:1224999 original size:3 final size:3
Alignment explanation
Indices: 1224991--1225017 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1224981 AATATATTTA
1224991 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1225018 TAGTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1232785 original size:9 final size:9
Alignment explanation
Indices: 1232771--1232795 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1232761 TCTTTATACC
1232771 TTACATTTT
1 TTACATTTT
1232780 TTACATTTT
1 TTACATTTT
1232789 TTACATT
1 TTACATT
1232796 CATTATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
TTACATTTT
Found at i:1236870 original size:13 final size:13
Alignment explanation
Indices: 1236852--1236891 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
1236842 TATTATGCTT
1236852 GAAGAAGAAAAAA
1 GAAGAAGAAAAAA
1236865 GAAGAAGAAAAAA
1 GAAGAAGAAAAAA
1236878 -AATGAAAGAAAAAA
1 GAA-G-AAGAAAAAA
1236892 TGAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 14 0.56
14 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (13 bp):
GAAGAAGAAAAAA
Found at i:1237390 original size:44 final size:44
Alignment explanation
Indices: 1237315--1237421 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
1237305 CTACATACAT
* * * *
1237315 TCTTCAAAGATGATAGATACATTCTTCAAAGATGATAGATTTTC
1 TCTTCAAAGATGAAAGATTCATACTTCAAAGATGATAGATTCTC
* *
1237359 TCTTCAAAGATGACAGATTC-TCACTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGAAAGATTCAT-ACTTCAAAGATGATAGATTCTC
* *
1237403 TTTTCAAAGAAGAAAGATT
1 TCTTCAAAGATGAAAGATT
1237422 TATTGGATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 1 0.02
44 53 0.98
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (44 bp):
TCTTCAAAGATGAAAGATTCATACTTCAAAGATGATAGATTCTC
Found at i:1237420 original size:22 final size:22
Alignment explanation
Indices: 1237317--1237421 Score: 106
Period size: 22 Copynumber: 4.8 Consensus size: 22
1237307 ACATACATTC
* *
1237317 TTCAAAGATGATAGATACAT-TC
1 TTCAAAGATGATAGATTC-TCTT
* *
1237339 TTCAAAGATGATAGATTTTCTC
1 TTCAAAGATGATAGATTCTCTT
* *
1237361 TTCAAAGATGACAGATTCTCACT
1 TTCAAAGATGATAGATTCTC-TT
1237384 TT-AAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
1237405 TTCAAAGAAGAAAGATT
1 TTCAAAGATGATAGATT
1237422 TATTGGATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
21 4 0.06
22 64 0.91
23 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1237973 original size:20 final size:20
Alignment explanation
Indices: 1237911--1237974 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
1237901 TCCAGAGAAA
1237911 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * ***
1237931 -ATC-TAAAGAGGAAGAAGAA
1 GTTCATAATGA-GAAGAACTT
1237950 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
1237970 GTTCA
1 GTTCA
1237975 ACCTTTTGCA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 5 0.16
19 8 0.26
20 13 0.42
21 5 0.16
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:1237986 original size:122 final size:123
Alignment explanation
Indices: 1237769--1238224 Score: 693
Period size: 122 Copynumber: 3.7 Consensus size: 123
1237759 ATTAACAAGG
* *
1237769 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACATATCTGAAGAGGAAGAAGAAGTTAAT
1 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
* *
1237834 AATAAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAG-AGGAGATAGATCAT
66 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAA
*
1237891 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCAT
1 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
*
1237956 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATATATCAA
66 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAA
* *
1238014 CATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTGAAGTGGAAGAAGAAGTTCAT
1 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
** * *
1238079 AATGAGAAGGGCTTGTTTAACCTTTTGCATGACTCTATCGCAGAAGGAGATAGATCAA
66 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAA
* * * * * * *
1238137 CAACAACATTTCTATA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTTA
1 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCA
* *
1238200 TAATGAGAAGAATTTATTCAACCTT
65 TAATGAGAAGAACTTGTTCAACCTT
1238225 GCATTAATTC
Statistics
Matches: 305, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
122 164 0.54
123 141 0.46
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (123 bp):
CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAA
Found at i:1238205 original size:245 final size:245
Alignment explanation
Indices: 1237769--1238224 Score: 700
Period size: 245 Copynumber: 1.9 Consensus size: 245
1237759 ATTAACAAGG
*
1237769 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACATATCTGAAGAGGAAGAAGAAGTTAAT
1 CATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACATATCTGAAGAGGAAGAAGAAGTTAAT
* * *
1237834 AATAAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAGGAGATAGATCATCATCAACT
66 AATAAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAGGAGATAGATCAACAACAACA
*
1237899 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAA
131 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATAATGAGAA
*
1237964 GAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATATATCAA
196 GAACTTATTCAACCTTTTGCATGACTCTATCACAGAAGGAGATATATCAA
* * *
1238014 CATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTTATCTGAAGTGGAAGAAGAAGTTCAT
1 CATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACATATCTGAAGAGGAAGAAGAAGTTAAT
* ** * *
1238079 AATGAGAAGGGCTTGTTTAACCTTTTGCATGACTCTATCGCAGAAGGAGATAGATCAACAACAAC
66 AATAAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAG-AGGAGATAGATCAACAACAAC
* * * * *
1238144 ATTTCTATA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTTATAATGAG
130 ATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAG-AGGAAGAAGAAGTTCATAATGAG
*
1238207 AAGAATTTATTCAACCTT
194 AAGAACTTATTCAACCTT
1238225 GCATTAATTC
Statistics
Matches: 189, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
245 161 0.85
246 28 0.15
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (245 bp):
CATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACATATCTGAAGAGGAAGAAGAAGTTAAT
AATAAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAGGAGATAGATCAACAACAACA
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATAATGAGAA
GAACTTATTCAACCTTTTGCATGACTCTATCACAGAAGGAGATATATCAA
Found at i:1238584 original size:3 final size:3
Alignment explanation
Indices: 1238576--1238693 Score: 161
Period size: 3 Copynumber: 40.0 Consensus size: 3
1238566 TTTGTTTTTA
* * *
1238576 TAT TAT TAT TGT TAT TAT TAT T-T TATT TAT TAC TAT AAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* *
1238620 TAT AAT TA- TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1238667 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1238694 AATTCAGGCC
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
2 6 0.06
3 92 0.91
4 3 0.03
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1259380 original size:23 final size:21
Alignment explanation
Indices: 1259328--1259389 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
1259318 TTTTGGTGCA
*
1259328 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
1259348 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
1259369 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
1259390 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:1264589 original size:27 final size:27
Alignment explanation
Indices: 1264538--1264589 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1264528 TATTTTAATA
*
1264538 TTATGGTTTTAATTTCATTTATTTTAG
1 TTATGGTTTTAATTTCATATATTTTAG
* * *
1264565 TTATTGTTTTAATTTTATATGTTTT
1 TTATGGTTTTAATTTCATATATTTT
1264590 TTCAATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (27 bp):
TTATGGTTTTAATTTCATATATTTTAG
Found at i:1264611 original size:3 final size:3
Alignment explanation
Indices: 1264603--1264632 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1264593 AATATATTTA
1264603 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1264633 TAGTCATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1264678 original size:4 final size:4
Alignment explanation
Indices: 1264671--1264703 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1264661 TAATAAATAA
1264671 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
1264704 TGTTTTCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:1266312 original size:14 final size:15
Alignment explanation
Indices: 1266281--1266313 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1266271 GTGTTAATGA
*
1266281 ATTTTAAGATTTTAT
1 ATTTTAAGATTATAT
1266296 ATTTTAA-ATTATAT
1 ATTTTAAGATTATAT
1266310 ATTT
1 ATTT
1266314 GATTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTTAAGATTATAT
Found at i:1268432 original size:29 final size:29
Alignment explanation
Indices: 1268390--1268484 Score: 120
Period size: 29 Copynumber: 3.2 Consensus size: 29
1268380 AAAAATTGAA
*
1268390 TACTTTAGATACCTATTTTGACCAAAAAT
1 TACTTTAGGTACCTATTTTGACCAAAAAT
*
1268419 TACTTTAGGTACCTATTTTTACCAAAAAGAT
1 TACTTTAGGTACCTATTTTGACC-AAAA-AT
* *
1268450 AACTTTAGGTACTTATTTTGACCATAAAA-
1 TACTTTAGGTACCTATTTTGACCA-AAAAT
1268479 TACTTT
1 TACTTT
1268485 CGATACTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
29 26 0.46
30 6 0.11
31 25 0.44
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (29 bp):
TACTTTAGGTACCTATTTTGACCAAAAAT
Found at i:1268458 original size:31 final size:30
Alignment explanation
Indices: 1268391--1268484 Score: 120
Period size: 31 Copynumber: 3.2 Consensus size: 30
1268381 AAAATTGAAT
* *
1268391 ACTTTAGATACCTATTTTGACC-AAAAATT
1 ACTTTAGGTACCTATTTTGACCAAAAAATA
*
1268420 ACTTTAGGTACCTATTTTTACCAAAAAGATA
1 ACTTTAGGTACCTATTTTGACCAAAAA-ATA
* *
1268451 ACTTTAGGTACTTATTTTGACCATAAAAT-
1 ACTTTAGGTACCTATTTTGACCAAAAAATA
1268480 ACTTT
1 ACTTT
1268485 CGATACTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
29 25 0.44
30 6 0.11
31 26 0.46
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (30 bp):
ACTTTAGGTACCTATTTTGACCAAAAAATA
Found at i:1269779 original size:31 final size:32
Alignment explanation
Indices: 1269720--1269786 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
1269710 ATAGCGTCTC
* * *
1269720 GAGTTGAGCAACAAATTTTTTTTAATGAGCAT
1 GAGTTGAGAAACAAACTTTTCTTAATGAGCAT
1269752 GAGTTGAGAAAC-AACTTTTCTTAATGAGCAT
1 GAGTTGAGAAACAAACTTTTCTTAATGAGCAT
1269783 GAGT
1 GAGT
1269787 CGAGCTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 21 0.66
32 11 0.34
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (32 bp):
GAGTTGAGAAACAAACTTTTCTTAATGAGCAT
Found at i:1269817 original size:35 final size:35
Alignment explanation
Indices: 1269771--1269851 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
1269761 AACAACTTTT
* * *
1269771 CTTAATGAGCATGAGTCGAGCT-AAATTTTAACGAG
1 CTTAACGAGCATGAGTCAAG-TAAAATTTTAACAAG
1269806 CTTAACGAGCATGAGTCAAGTAAAATTTTAACAAG
1 CTTAACGAGCATGAGTCAAGTAAAATTTTAACAAG
1269841 CTTAACGAGCA
1 CTTAACGAGCA
1269852 ACAAGTCAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
34 1 0.02
35 41 0.98
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (35 bp):
CTTAACGAGCATGAGTCAAGTAAAATTTTAACAAG
Found at i:1271305 original size:39 final size:39
Alignment explanation
Indices: 1271247--1271331 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
1271237 TCTAAGACTT
* * *
1271247 GTAAGTCCTTACCGCAGGCTCTTCAGCTTTGTGCTCAGG
1 GTAAGTCCTTACAGAAGGCTCCTCAGCTTTGTGCTCAGG
*
1271286 GTAAGTCCTTACAGAAGGCTCCTCGGCTTTGTGCTCAGG
1 GTAAGTCCTTACAGAAGGCTCCTCAGCTTTGTGCTCAGG
1271325 GTAAGTC
1 GTAAGTC
1271332 TCTATCGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (39 bp):
GTAAGTCCTTACAGAAGGCTCCTCAGCTTTGTGCTCAGG
Found at i:1275929 original size:23 final size:23
Alignment explanation
Indices: 1275899--1275977 Score: 106
Period size: 23 Copynumber: 3.5 Consensus size: 23
1275889 GGGGCGATCC
*
1275899 GTCCTGACCCGCCTGCCCGACAT
1 GTCCCGACCCGCCTGCCCGACAT
* *
1275922 GTCCTGACCCGCCTGCCCGACCT
1 GTCCCGACCCGCCTGCCCGACAT
* *
1275945 GTCCCGACCTG-CTGCCCGACTT
1 GTCCCGACCCGCCTGCCCGACAT
1275967 GTCCCGACCCG
1 GTCCCGACCCG
1275978 TTGTCCGACC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 20 0.39
23 31 0.61
ACGTcount: A:0.10, C:0.49, G:0.23, T:0.18
Consensus pattern (23 bp):
GTCCCGACCCGCCTGCCCGACAT
Found at i:1275952 original size:10 final size:10
Alignment explanation
Indices: 1275924--1275975 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
1275914 CCCGACATGT
*
1275924 CCTGACCCG-
1 CCTGTCCCGA
1275933 CCTG-CCCGA
1 CCTGTCCCGA
1275942 CCTGTCCCGA
1 CCTGTCCCGA
1275952 CCTGCTGCCCGA
1 CCTG-T-CCCGA
*
1275964 CTTGTCCCGA
1 CCTGTCCCGA
1275974 CC
1 CC
1275976 CGTTGTCCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 4 0.11
9 8 0.22
10 15 0.41
11 2 0.05
12 8 0.22
ACGTcount: A:0.10, C:0.52, G:0.21, T:0.17
Consensus pattern (10 bp):
CCTGTCCCGA
Found at i:1275962 original size:22 final size:22
Alignment explanation
Indices: 1275899--1275994 Score: 102
Period size: 22 Copynumber: 4.3 Consensus size: 22
1275889 GGGGCGATCC
* *
1275899 GTCCTGACCCGCCTGCCCGACAT
1 GTCCCGACCCG-CTGCCCGACCT
*
1275922 GTCCTGACCCGCCTGCCCGACCT
1 GTCCCGACCCG-CTGCCCGACCT
* *
1275945 GTCCCGACCTGCTGCCCGACTT
1 GTCCCGACCCGCTGCCCGACCT
* *
1275967 GTCCCGACCCGTTGTCCGACCT
1 GTCCCGACCCGCTGCCCGACCT
*
1275989 GACCCG
1 GTCCCG
1275995 TGTCTGACCC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
22 33 0.52
23 31 0.48
ACGTcount: A:0.10, C:0.48, G:0.23, T:0.19
Consensus pattern (22 bp):
GTCCCGACCCGCTGCCCGACCT
Found at i:1276003 original size:16 final size:17
Alignment explanation
Indices: 1275969--1276010 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1275959 CCCGACTTGT
1275969 CCCGACCCGTTGTCCGA
1 CCCGACCCGTTGTCCGA
* *
1275986 CCTGACCCG-TGTCTGA
1 CCCGACCCGTTGTCCGA
1276002 CCCGACCCG
1 CCCGACCCG
1276011 GTTCAACCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.12, C:0.48, G:0.24, T:0.17
Consensus pattern (17 bp):
CCCGACCCGTTGTCCGA
Found at i:1276866 original size:39 final size:39
Alignment explanation
Indices: 1276808--1276899 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 39
1276798 TATGACTTGA
** *
1276808 AAGTCCTTACAACAGGCTCCTCGGCTTTGTGCTCAGGGT
1 AAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGGGT
**
1276847 AAGTCCTTACCGCAAGCTCCTTTGCTTTGTGCTCAGGGT
1 AAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGGGT
* *
1276886 AGGTCCTTATCGCA
1 AAGTCCTTACCGCA
1276900 GGTCCTTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.28, G:0.24, T:0.30
Consensus pattern (39 bp):
AAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGGGT
Found at i:1281096 original size:21 final size:21
Alignment explanation
Indices: 1281072--1281117 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1281062 AATTAACACC
* *
1281072 TTTTGCATTTTAATTTTTCAT
1 TTTTGCATTTGAATTTTACAT
*
1281093 TTTTGCATTTGCATTTTACAT
1 TTTTGCATTTGAATTTTACAT
1281114 TTTT
1 TTTT
1281118 TTCGTGTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.11, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTGCATTTGAATTTTACAT
Found at i:1285189 original size:38 final size:38
Alignment explanation
Indices: 1285090--1285194 Score: 106
Period size: 38 Copynumber: 2.8 Consensus size: 38
1285080 ATAATTTATT
* * *
1285090 TAAAAAAATCAATATAGTCTTTCTTAAGATTGTTTCCC
1 TAAAAACATCAATCTAGTCTTTCTTAAGATTGTATCCC
* ** *
1285128 TAAAAACATCAATCTTGGATTTCTTAGGACTTGTAT-CC
1 TAAAAACATCAATCTAGTCTTTCTTAAGA-TTGTATCCC
*
1285166 TAGAAAGC-TCAATCTAGTCTTTCTTAAGA
1 TA-AAAACATCAATCTAGTCTTTCTTAAGA
1285195 CCGTTTCTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
38 44 0.83
39 9 0.17
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (38 bp):
TAAAAACATCAATCTAGTCTTTCTTAAGATTGTATCCC
Found at i:1291362 original size:27 final size:27
Alignment explanation
Indices: 1291317--1291371 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
1291307 ATTTCAACTT
*
1291317 TTGAGAAATGATGGGTTTTTGAAAAGA
1 TTGAGAAAAGATGGGTTTTTGAAAAGA
*
1291344 TTGA-AAAAGATGGGTTTTTGAAATGA
1 TTGAGAAAAGATGGGTTTTTGAAAAGA
1291370 TT
1 TT
1291372 TTAAAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (27 bp):
TTGAGAAAAGATGGGTTTTTGAAAAGA
Found at i:1298596 original size:20 final size:19
Alignment explanation
Indices: 1298573--1298627 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
1298563 TAAAGGTGAG
*
1298573 AATAAATAAATAAAGTATAA
1 AATAAATAAA-AAAATATAA
* *
1298593 AATATATAAAAAAATTTAA
1 AATAAATAAAAAAATATAA
1298612 AATAAAATAAACAAAA
1 AAT-AAATAAA-AAAA
1298628 CTTTCTGAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 10 0.34
20 15 0.52
21 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AATAAATAAAAAAATATAA
Found at i:1298958 original size:2 final size:2
Alignment explanation
Indices: 1298951--1299006 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1298941 TTCAAATAGG
1298951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1298993 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1299007 TAGTGTACAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1305257 original size:6 final size:6
Alignment explanation
Indices: 1305243--1305858 Score: 881
Period size: 6 Copynumber: 102.7 Consensus size: 6
1305233 AGGATATCTT
*
1305243 ATTATG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1305291 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
** **
1305339 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ACGACG ACGACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
** ** ** ** ** ** ** **
1305387 ACGACG ACGACG ACGACG ACGACG ACGACG ACGACG ACGACG ACGACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
** ** ** ** ** ** ** **
1305435 ACGACG ACGACG ACGACG ACGACG ACGACG ACGACG ACGACG ACGACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
**
1305483 ACGACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1305531 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1305579 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1305627 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1305675 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1305723 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1305771 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG
1305819 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTA
1 ATTACG ATTACG ATTACG ATTACG ATTACG ATTACG ATTA
1305859 TGATCTTGAT
Statistics
Matches: 605, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 605 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (6 bp):
ATTACG
Found at i:1305380 original size:3 final size:3
Alignment explanation
Indices: 1305372--1305489 Score: 236
Period size: 3 Copynumber: 39.3 Consensus size: 3
1305362 GATTACGATT
1305372 ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG
1 ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG
1305420 ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG
1 ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG
1305468 ACG ACG ACG ACG ACG ACG ACG A
1 ACG ACG ACG ACG ACG ACG ACG A
1305490 TTACGATTAC
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 115 1.00
ACGTcount: A:0.34, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
ACG
Found at i:1309523 original size:44 final size:44
Alignment explanation
Indices: 1309460--1309954 Score: 686
Period size: 44 Copynumber: 11.2 Consensus size: 44
1309450 AAACCGAATT
* *
1309460 CATAACTGAAATGTATAATGGTGCATTAAGGCATGAAAGGATAC
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
* *
1309504 CATAACTAAAATGCATAATGGTGCATTAAGGCATGAAAGGATGT
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
* * *
1309548 CATAACTAAAATGCATAATAGTGCATTAAGGCATGAAATGATGC
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
* *
1309592 CATAACTGAAATGCATAATGGTACAGTAAGGCATGAAAGGATGC
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
* * * *
1309636 CATAACTGAAATACATAATGGTGCATTAAAGCGTGAAAGGATGT
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
* * *
1309680 CATAACTGAAATGCATAATGGTGAAGTAAGGCATGAAATGATGC
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
* *
1309724 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAAGATTC
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
* * * *
1309768 TATAACTAAAATACATAATGGTGCATTAAGGCATGAATGGACT-C
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGA-TGC
*
1309812 CATAACTGAAATGCATAATGGTGCTTTAAGGCATGAAAGGATGC
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
*
1309856 CATAATTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
* * * * * * *
1309900 CATAAATGAAAAGTATAACGGTGCAGTAAGGCATTAAAGCATGC
1 CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
*
1309944 CATAAATGAAA
1 CATAACTGAAA
1309955 ATAATAAATA
Statistics
Matches: 401, Mismatches: 48, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
43 1 0.00
44 399 1.00
45 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (44 bp):
CATAACTGAAATGCATAATGGTGCATTAAGGCATGAAAGGATGC
Found at i:1318401 original size:168 final size:169
Alignment explanation
Indices: 1318123--1318460 Score: 660
Period size: 168 Copynumber: 2.0 Consensus size: 169
1318113 TGTCCTACCC
1318123 CATTTAATTGGTTTCAATACAGACTCTAAGATATGGAGTACTTTATACATAATGTATAGTGGTGA
1 CATTTAATTGGTTTCAATACAGACTCTAAGATATGGAGTACTTTATACATAATGTATAGTGGTGA
1318188 TAACAGAGTATATCTGAACATGAGTATGTGACTGTCATCTTGAATGAACTTCCACC-AGTATGAT
66 TAACAGAGTATATCTGAACATGAGTATGTGACTGTCATCTTGAATGAACTTCCACCGAGTATGAT
1318252 TCTGTTATCACTGTTCTTATTGTTGGTTCAGTACCCACT
131 TCTGTTATCACTGTTCTTATTGTTGGTTCAGTACCCACT
1318291 CATTTAATTGGTTTCAATACAGACTCTAAGATATGGAGTACTTTATACATAATGTATAGTGGTGA
1 CATTTAATTGGTTTCAATACAGACTCTAAGATATGGAGTACTTTATACATAATGTATAGTGGTGA
1318356 TAACAGAGTATATCTGAACATGAGTATGTGACTGTCATCTTGAATGAACTTCCACCTGAGTATGA
66 TAACAGAGTATATCTGAACATGAGTATGTGACTGTCATCTTGAATGAACTTCCACC-GAGTATGA
1318421 TTCTGTTATCACTGTTCTTATTGTTGGTTCAGTACCCACT
130 TTCTGTTATCACTGTTCTTATTGTTGGTTCAGTACCCACT
1318461 AATGTAAATG
Statistics
Matches: 168, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
168 121 0.72
170 47 0.28
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (169 bp):
CATTTAATTGGTTTCAATACAGACTCTAAGATATGGAGTACTTTATACATAATGTATAGTGGTGA
TAACAGAGTATATCTGAACATGAGTATGTGACTGTCATCTTGAATGAACTTCCACCGAGTATGAT
TCTGTTATCACTGTTCTTATTGTTGGTTCAGTACCCACT
Found at i:1318766 original size:15 final size:15
Alignment explanation
Indices: 1318746--1318776 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1318736 GAATTTCAAA
*
1318746 AATGAATCCTTTAGG
1 AATGAATCATTTAGG
1318761 AATGAATCATTTAGG
1 AATGAATCATTTAGG
1318776 A
1 A
1318777 GCAACTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (15 bp):
AATGAATCATTTAGG
Found at i:1323437 original size:17 final size:17
Alignment explanation
Indices: 1323401--1323469 Score: 84
Period size: 17 Copynumber: 4.0 Consensus size: 17
1323391 AAGTATTTTA
*
1323401 TTCATTAAATAAAGCTAG
1 TTCATTAATTAAA-CTAG
*
1323419 TTCACTAATTAAACTAG
1 TTCATTAATTAAACTAG
* * *
1323436 TTCATTCATTAAATTGG
1 TTCATTAATTAAACTAG
1323453 TTCATTAATTAAACTAG
1 TTCATTAATTAAACTAG
1323470 CTCCTTTAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
17 31 0.74
18 11 0.26
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:1330389 original size:27 final size:25
Alignment explanation
Indices: 1330318--1330395 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 25
1330308 AACTAACGCT
1330318 AAAA-GAACATGTTCGTGAA-ATTA
1 AAAATGAACATGTTCGTGAACATTA
* * *
1330341 CAAATGAACATGTTTGTAAACATTA
1 AAAATGAACATGTTCGTGAACATTA
* *
1330366 AATGAATGAACATGTTCATGAACAATA
1 AA--AATGAACATGTTCGTGAACATTA
1330393 AAA
1 AAA
1330396 CACGAACACG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
23 3 0.07
24 13 0.30
25 6 0.14
27 21 0.49
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAATGAACATGTTCGTGAACATTA
Found at i:1336231 original size:24 final size:24
Alignment explanation
Indices: 1336165--1336247 Score: 132
Period size: 24 Copynumber: 3.5 Consensus size: 24
1336155 ACATAGGCTG
1336165 TGTACCGATACACCAGTGAAGGGA
1 TGTACCGATACACCAGTGAAGGGA
*
1336189 TGTACC-AAACACCAGTGAAGGGA
1 TGTACCGATACACCAGTGAAGGGA
* *
1336212 TGTACCGATACACAAATGAAGGGA
1 TGTACCGATACACCAGTGAAGGGA
1336236 TGTACCGATACA
1 TGTACCGATACA
1336248 TTTCAAAGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.41
24 32 0.59
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.17
Consensus pattern (24 bp):
TGTACCGATACACCAGTGAAGGGA
Found at i:1338615 original size:95 final size:95
Alignment explanation
Indices: 1338452--1338642 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
1338442 TTGGGCCATG
1338452 ATAATACCCCTCCAGTAGTCGATGCTTATCCCCAAAGATCGAAGTCAGGGAACTAAGACTTCAAC
1 ATAATACCCCTCCAGTAGTCGATGCTTATCCCCAAAGATCGAAGTCAGGGAACTAAGACTTCAAC
1338517 ACTATAAAATCTTCGCAAGTGGTGTTTTTT
66 ACTATAAAATCTTCGCAAGTGGTGTTTTTT
1338547 ATAATACCCCTCCAGTAGTCGATGCTTATCCCCAAAGATCGAAGTCAGGGAACTAAGACTTCAAC
1 ATAATACCCCTCCAGTAGTCGATGCTTATCCCCAAAGATCGAAGTCAGGGAACTAAGACTTCAAC
1338612 ACTATAAAATCTTCGCAAGTGGTGTTTTTT
66 ACTATAAAATCTTCGCAAGTGGTGTTTTTT
1338642 A
1 A
1338643 CCCTAGATTC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (95 bp):
ATAATACCCCTCCAGTAGTCGATGCTTATCCCCAAAGATCGAAGTCAGGGAACTAAGACTTCAAC
ACTATAAAATCTTCGCAAGTGGTGTTTTTT
Found at i:1344291 original size:17 final size:17
Alignment explanation
Indices: 1344251--1344284 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1344241 CACTACTATA
1344251 GGCTGGGCTCGAGGTGC
1 GGCTGGGCTCGAGGTGC
1344268 GGCTGGGCTCGAGGTGC
1 GGCTGGGCTCGAGGTGC
1344285 TGTTGGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.53, T:0.18
Consensus pattern (17 bp):
GGCTGGGCTCGAGGTGC
Found at i:1345606 original size:20 final size:20
Alignment explanation
Indices: 1345581--1345632 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1345571 AAGCTCCTCA
* *
1345581 GTATCGATATTGACCTCTGG
1 GTATCGATACTAACCTCTGG
*
1345601 GTATCGATACTAACCTTTGG
1 GTATCGATACTAACCTCTGG
*
1345621 GTATCCATACTA
1 GTATCGATACTA
1345633 TTAACTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
GTATCGATACTAACCTCTGG
Found at i:1346330 original size:20 final size:19
Alignment explanation
Indices: 1346286--1346337 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
1346276 TAGGTGAACT
1346286 CAGTATCGATACCACCTTA
1 CAGTATCGATACCACCTTA
*
1346305 CGAGTATTGATACCTCACC-TA
1 C-AGTATCGATA-C-CACCTTA
*
1346326 CAGTACCGATAC
1 CAGTATCGATAC
1346338 TCATTTCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
21 4 0.15
22 4 0.15
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (19 bp):
CAGTATCGATACCACCTTA
Found at i:1347813 original size:25 final size:25
Alignment explanation
Indices: 1347785--1347841 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
1347775 TGAGGTTGAG
* *
1347785 TTGGAAAGCTTAATCATAACTCGCC
1 TTGGAAAGCTTAACCATAACTCACC
*
1347810 TTGGAAAGCTTAACCCTAACTCACC
1 TTGGAAAGCTTAACCATAACTCACC
1347835 TTAGGAA
1 TT-GGAA
1347842 TAAGAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (25 bp):
TTGGAAAGCTTAACCATAACTCACC
Found at i:1349733 original size:29 final size:30
Alignment explanation
Indices: 1349652--1349747 Score: 96
Period size: 28 Copynumber: 3.4 Consensus size: 30
1349642 TTTTTAAAAG
*
1349652 ATTTATATCACAAATAAGTATTT-AGGTT-T
1 ATTTATATCA-AAATAAGTATTTAAAGTTAT
* **
1349681 -TTTTTATCAAAATAAGTACATAAAGTTAT
1 ATTTATATCAAAATAAGTATTTAAAGTTAT
*
1349710 ATTT-TATCAAAATAAATATTTAAAG-TAT
1 ATTTATATCAAAATAAGTATTTAAAGTTAT
1349738 -TTTATATCAA
1 ATTTATATCAA
1349748 GATAGGTGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
27 13 0.23
28 21 0.38
29 19 0.34
30 3 0.05
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (30 bp):
ATTTATATCAAAATAAGTATTTAAAGTTAT
Found at i:1349936 original size:28 final size:30
Alignment explanation
Indices: 1349876--1349955 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
1349866 TTTTAATTAA
* *
1349876 AAAAAAATATTTTAAATACTTATTTTTACT
1 AAAAAAATAATTTAAATACTTATTTTGACT
*
1349906 -AAAAAATAACTTTAAGTACTTA-TTTGA-T
1 AAAAAAATAA-TTTAAATACTTATTTTGACT
*
1349934 AAAAAAATAATTTAATTACTTA
1 AAAAAAATAATTTAAATACTTA
1349956 AATGAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
28 12 0.27
29 21 0.48
30 11 0.25
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAAAAATAATTTAAATACTTATTTTGACT
Found at i:1349965 original size:28 final size:29
Alignment explanation
Indices: 1349906--1349965 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
1349896 TATTTTTACT
** *
1349906 AAAAAATAACTTTAAGTACTTATTTGATA
1 AAAAAATAACTTTAAGTACTTAAATGAAA
*
1349935 AAAAAATAA-TTTAATTACTTAAATGAAA
1 AAAAAATAACTTTAAGTACTTAAATGAAA
1349963 AAA
1 AAA
1349966 GAACATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAAATAACTTTAAGTACTTAAATGAAA
Found at i:1353380 original size:12 final size:12
Alignment explanation
Indices: 1353363--1353396 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1353353 AGAAGTGATG
1353363 CATTGATGCACT
1 CATTGATGCACT
1353375 CATTGATGCACT
1 CATTGATGCACT
1353387 CATTGATGCA
1 CATTGATGCA
1353397 TCGATGGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (12 bp):
CATTGATGCACT
Found at i:1353450 original size:17 final size:17
Alignment explanation
Indices: 1353428--1353471 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
1353418 ATGCATTTAT
1353428 TCGATGC-CTACCATGCA
1 TCGATGCACTA-CATGCA
1353445 TCGATGCACTACATGCA
1 TCGATGCACTACATGCA
1353462 TCGATGCACT
1 TCGATGCACT
1353472 CAGGTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (17 bp):
TCGATGCACTACATGCA
Found at i:1353563 original size:45 final size:45
Alignment explanation
Indices: 1353457--1353563 Score: 173
Period size: 45 Copynumber: 2.4 Consensus size: 45
1353447 GATGCACTAC
*
1353457 ATGCATCGATGCACTCAGGTTTTATGAAAACATCGAATGCATTTT
1 ATGCATCGATGCACTCTGGTTTTATGAAAACATCGAATGCATTTT
1353502 ATGCATCGATGCACTCTGGCTTGTT-T-AAAACATCGAATGCATTTT
1 ATGCATCGATGCACTCTGG-TT-TTATGAAAACATCGAATGCATTTT
1353547 ATGCATCGATGCACTCT
1 ATGCATCGATGCACTCT
1353564 TAATGCACCG
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
45 54 0.92
46 3 0.05
47 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (45 bp):
ATGCATCGATGCACTCTGGTTTTATGAAAACATCGAATGCATTTT
Found at i:1359195 original size:21 final size:21
Alignment explanation
Indices: 1359169--1359225 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 21
1359159 TGGTGCATAA
1359169 TGCATCGATACACTATGAAAG
1 TGCATCGATACACTATGAAAG
* * *
1359190 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGAT--A-CACTATGAAAG
1359214 TGCATCGATACA
1 TGCATCGATACA
1359226 TCATGAAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 1 0.03
24 17 0.59
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (21 bp):
TGCATCGATACACTATGAAAG
Found at i:1359220 original size:45 final size:44
Alignment explanation
Indices: 1359169--1359266 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 44
1359159 TGGTGCATAA
1359169 TGCATCGATACA-CTATGAA-AGTGCA-TCGATGCATC-CCTTTGAATG
1 TGCATCGATACATC-ATGAAGA-TGCACT-GATGCA-CGCC-TTGAATG
*
1359214 TGCATCGATACATCATGAAGATGTACTGATGCACGCCTTGAATG
1 TGCATCGATACATCATGAAGATGCACTGATGCACGCCTTGAATG
1359258 TGCATCGAT
1 TGCATCGAT
1359267 GCACAAGGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
44 17 0.35
45 28 0.58
46 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
TGCATCGATACATCATGAAGATGCACTGATGCACGCCTTGAATG
Found at i:1359464 original size:19 final size:20
Alignment explanation
Indices: 1359442--1359479 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1359432 CTACATCTCC
*
1359442 AAATCCTGC-TAACATCATT
1 AAATCCTGCAAAACATCATT
*
1359461 AAATCGTGCAAAACATCAT
1 AAATCCTGCAAAACATCAT
1359480 CATATTCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (20 bp):
AAATCCTGCAAAACATCATT
Found at i:1361415 original size:20 final size:20
Alignment explanation
Indices: 1361390--1361427 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1361380 ATTGAGAAGG
1361390 GATGCACCGATGCACTCATT
1 GATGCACCGATGCACTCATT
**
1361410 GATGCATTGATGCACTCA
1 GATGCACCGATGCACTCA
1361428 CCAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:1361680 original size:420 final size:415
Alignment explanation
Indices: 1361011--1361846 Score: 1531
Period size: 420 Copynumber: 2.0 Consensus size: 415
1361001 CCTTGTTTAA
1361011 AAGTTTTGAAGTCTTTTGATTTAACAAAAAGGGGGGAGAAGTGTTAAAGTAAGGGGGAGTAATTT
1 AAGTTTTGAAGTCTTTTGATTTAACAAAAAGGGGGGAGAAGTGTTAAAGTAAGGGGGAGTAATTT
1361076 TTCAAACTTGATTTCAAATTTATTAGAAAATCTTAAAACTACTAAATGTTTTGTTATATCAAAAA
66 TTCAAACTTGATTTCAAATTTATTAGAAAATCTTAAAACTACTAAATGTTTTGTTATATCAAAAA
1361141 GGGGGAGATGTTGAAATATTTTGATGTTTCGATATAACAAATTAAGTTAAATGAATTTAAGATTT
131 GGGGGAGATGTTGAAATATTTTGATGTTTCGATATAACAAATTAAGTTAAATGAATTTAAGATTT
1361206 TACAAATGATTTTCTAAGTATATTTGATTTAATTACTTAAATATCAAAATATCACTCCAAGTCTT
196 TACAAATGATTTTCTAAGTATATTTGATTTAATTACTTAAATATCAAAATATCACTCCAAGTCTT
1361271 TCAAAGTTCAATTTC-ATCATTACTAATGTGTAAAAATTGTGTTTTATACTTAAATATTTTTGAA
261 TCAAAGTTCAATTTCAATCATTACTAATGTGT--AAATTGTGTTTTATACTTAAATATTTTTGAA
1361335 ACAATTTTCATAAAGTATTTTGAACAAAAACGAGCCAAAATCAAAATTGAGAAGGGATGCACCGA
324 ACAATTTTCAT-AAGTATTTTGAACAAAAACGAGCCAAAATCAAAATTGAGAAGGGATGCACCGA
1361400 TGCACTCATTGATGCATTGATGCACTCACC
388 TGCACTCA-TG-TGCATTGATGCACTCACC
1361430 AAGTTTTGAAGTCTTTTTGATTTAACAAAAA-GGGGGAGAAGTGTTAAAGTAA-GGGGAGTAA-T
1 AAGTTTTGAAGTC-TTTTGATTTAACAAAAAGGGGGGAGAAGTGTTAAAGTAAGGGGGAGTAATT
1361492 TTTCAAACTTGATTTCAAAATTTATTAGAAAATCTTAAAACTACTAAAATGTTTTGTTATATCAA
65 TTTCAAACTTGATTTC-AAATTTATTAGAAAATCTTAAAACTACT-AAATGTTTTGTTATATCAA
1361557 AAAGGGGGAGATTGTTGAAA-ATATTTGATGTTTCGATATAACAAATTAAGTTAAATGAATTTTA
128 AAAGGGGGAGA-TGTTGAAATAT-TTTGATGTTTCGATATAACAAATTAAGTTAAATGAA-TTTA
1361621 AGATTTTACAAATGATTTTCTAAGTATATTTGA-TTAATTACTTAAATATCAAAATATCACTCCA
190 AGATTTTACAAATGATTTTCTAAGTATATTTGATTTAATTACTTAAATATCAAAATATCACTCCA
1361685 AGTCTTTCAAAGTTCAATTTCAATCATTACTAATGTGTAAATTGTGTTTTATACTTAAATATTTT
255 AGTCTTTCAAAGTTCAATTTCAATCATTACTAATGTGTAAATTGTGTTTTATACTTAAATATTTT
1361750 TGAAACAATTTTCATAAGTATTTTGAACAAAAACGAGCCAAAATCAAAATTGAGAAGGGATGCAC
320 TGAAACAATTTTCATAAGTATTTTGAACAAAAACGAGCCAAAATCAAAATTGAGAAGGGATGCAC
1361815 CGATGCACTCATGTGCATTGATGCACTCACC
385 CGATGCACTCATGTGCATTGATGCACTCACC
1361846 A
1 A
1361847 TCGAATGCAA
Statistics
Matches: 410, Mismatches: 0, Indels: 17
0.96 0.00 0.04
Matches are distributed among these distances:
416 19 0.05
417 19 0.05
418 98 0.24
419 108 0.26
420 113 0.28
421 53 0.13
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (415 bp):
AAGTTTTGAAGTCTTTTGATTTAACAAAAAGGGGGGAGAAGTGTTAAAGTAAGGGGGAGTAATTT
TTCAAACTTGATTTCAAATTTATTAGAAAATCTTAAAACTACTAAATGTTTTGTTATATCAAAAA
GGGGGAGATGTTGAAATATTTTGATGTTTCGATATAACAAATTAAGTTAAATGAATTTAAGATTT
TACAAATGATTTTCTAAGTATATTTGATTTAATTACTTAAATATCAAAATATCACTCCAAGTCTT
TCAAAGTTCAATTTCAATCATTACTAATGTGTAAATTGTGTTTTATACTTAAATATTTTTGAAAC
AATTTTCATAAGTATTTTGAACAAAAACGAGCCAAAATCAAAATTGAGAAGGGATGCACCGATGC
ACTCATGTGCATTGATGCACTCACC
Found at i:1366987 original size:20 final size:20
Alignment explanation
Indices: 1366962--1366999 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1366952 AATTGGGAAG
1366962 GATGCATCGATGCACTCATT
1 GATGCATCGATGCACTCATT
*
1366982 GATGCATTGATGCACTCA
1 GATGCATCGATGCACTCA
1367000 CCATATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (20 bp):
GATGCATCGATGCACTCATT
Found at i:1367150 original size:62 final size:63
Alignment explanation
Indices: 1367006--1367155 Score: 180
Period size: 63 Copynumber: 2.4 Consensus size: 63
1366996 CTCACCATAT
* * *
1367006 CAATGCAATTTATGCATCGATGCACTACCATGCATCGATGAACTCAAGTTTTATGAAAACATC
1 CAATGCATTTTATGCATCGATGCACGACCATGCATCGATGAACTCAAGTTGTATGAAAACATC
* * * * **
1367069 GAATGCATTTTATGTATCGATGCACAGACCA-GTATCGATGCACTCTGGCTTGT-T-AAAACATC
1 CAATGCATTTTATGCATCGATGCAC-GACCATGCATCGATGAACTCAAG-TTGTATGAAAACATC
1367131 CAATGCATTTTATGCATCGATGCAC
1 CAATGCATTTTATGCATCGATGCAC
1367156 TAAGGGTACA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
62 31 0.42
63 36 0.49
64 7 0.09
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (63 bp):
CAATGCATTTTATGCATCGATGCACGACCATGCATCGATGAACTCAAGTTGTATGAAAACATC
Found at i:1376173 original size:5 final size:5
Alignment explanation
Indices: 1376163--1376211 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
1376153 AACGGTCAAC
*
1376163 GGTCG GGTCG GGTCAG CGGTC- GGTC- GGTCG AGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC-G -GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
1376212 AAACCGGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 8 0.21
5 26 0.67
6 1 0.03
7 4 0.10
ACGTcount: A:0.04, C:0.22, G:0.53, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:1380164 original size:14 final size:14
Alignment explanation
Indices: 1380141--1380192 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
1380131 TCTATCTATA
*
1380141 TGCAGAGATTT-TT
1 TGCAGGGATTTATT
1380154 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
1380169 TGCAGGGATTTATT
1 TGCAGGGATTTATT
*
1380183 TACAGGGATT
1 TGCAGGGATT
1380193 ACTTCCCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
13 1 0.03
14 31 0.89
15 3 0.09
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:1385078 original size:21 final size:21
Alignment explanation
Indices: 1385054--1385105 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
1385044 TTTGCTTTTT
1385054 GGTTTTGTTGTAGGGTTGTTG
1 GGTTTTGTTGTAGGGTTGTTG
1385075 GGTTTTGTTGTAGGGTTGTTG
1 GGTTTTGTTGTAGGGTTGTTG
1385096 GGTTTATGTT
1 GGTTT-TGTT
1385106 CTGGTGGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.06, C:0.00, G:0.40, T:0.54
Consensus pattern (21 bp):
GGTTTTGTTGTAGGGTTGTTG
Found at i:1389178 original size:25 final size:23
Alignment explanation
Indices: 1389121--1389188 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
1389111 ATATTAAAGG
* *
1389121 ATAAATTTATAAAAATTT-AATG
1 ATAAATTTATAAAATTTTAAATA
*
1389143 ATGAATTTATAAAATTTTAAGGATA
1 ATAAATTTATAAAATTTTAA--ATA
**
1389168 ATAAATTTATATTATTTTAAA
1 ATAAATTTATAAAATTTTAAA
1389189 AAGACGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
22 16 0.43
23 2 0.05
25 19 0.51
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (23 bp):
ATAAATTTATAAAATTTTAAATA
Found at i:1389458 original size:29 final size:29
Alignment explanation
Indices: 1389426--1389489 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
1389416 AATTAAGACT
1389426 TTAAAAAACAA-ATATTTCTTTCGATTATA
1 TTAAAAAACAATA-ATTTCTTTCGATTATA
*
1389455 TT-AAAAACTATAATTTCTTTCGATTATA
1 TTAAAAAACAATAATTTCTTTCGATTATA
1389483 TTAAAAA
1 TTAAAAA
1389490 TTTACTCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (29 bp):
TTAAAAAACAATAATTTCTTTCGATTATA
Found at i:1389700 original size:60 final size:60
Alignment explanation
Indices: 1389590--1389702 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
1389580 TATAGGGTAC
* * **
1389590 TATTTTATCAAGTCTATCAACTATTAAAAGTTATAAAATACTCATTTAACTATGGAATAT
1 TATTTTATCAAGTCCATCAACTATTAAAAGTTACAAAATACTCACCTAACTATGGAATAT
* * * **
1389650 TATTTTGTTAAGTCCATCGACTATTAAAAGTTACAAAATGGTCACCTAACTAT
1 TATTTTATCAAGTCCATCAACTATTAAAAGTTACAAAATACTCACCTAACTAT
1389703 TCATTATATT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (60 bp):
TATTTTATCAAGTCCATCAACTATTAAAAGTTACAAAATACTCACCTAACTATGGAATAT
Found at i:1394170 original size:18 final size:18
Alignment explanation
Indices: 1394137--1394179 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
1394127 TTTTTGAAAT
1394137 ATAAAAACATATAAAGTC
1 ATAAAAACATATAAAGTC
*
1394155 ATTAAAAACGTA-AAAGTC
1 A-TAAAAACATATAAAGTC
1394173 ATAAAAA
1 ATAAAAA
1394180 TGAGAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 8 0.35
19 9 0.39
ACGTcount: A:0.63, C:0.09, G:0.07, T:0.21
Consensus pattern (18 bp):
ATAAAAACATATAAAGTC
Found at i:1395393 original size:23 final size:23
Alignment explanation
Indices: 1395365--1395412 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1395355 AAAATATATT
*
1395365 ATTTATATATTAAAATGTTAATA
1 ATTTATATATTAAAATATTAATA
*
1395388 ATTTATATATTGAAATATTAATA
1 ATTTATATATTAAAATATTAATA
1395411 AT
1 AT
1395413 AAGTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
ATTTATATATTAAAATATTAATA
Found at i:1395461 original size:18 final size:19
Alignment explanation
Indices: 1395416--1395462 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
1395406 TAATAATAAG
*
1395416 TTATTATAA-AATATATTT
1 TTATTATAATTATATATTT
1395434 TTATTATAATTATAT-TTT
1 TTATTATAATTATATATTT
1395452 TTATTATAATT
1 TTATTATAATT
1395463 TAAATGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTATAATTATATATTT
Found at i:1395781 original size:75 final size:76
Alignment explanation
Indices: 1395691--1395845 Score: 249
Period size: 75 Copynumber: 2.1 Consensus size: 76
1395681 GTGACCCTAA
1395691 ATATATTAGCTCCTAAAACCTAAAATAAAAATCTATCATTGTATATGTTGCTGGAAGAACAAAGC
1 ATATATTAGCTCCTAAAACCTAAAATAAAAATCTATCATTGTATATGTTGCTGGAAGAACAAAGC
*
1395756 AAATACCATTG
66 AAATACAATTG
* * * *
1395767 ATAT-TTAGCTCCTAAAACTTAATATAAAAATCTATTATTGTATATGTTGCTGGAAGAGCAAAGC
1 ATATATTAGCTCCTAAAACCTAAAATAAAAATCTATCATTGTATATGTTGCTGGAAGAACAAAGC
*
1395831 AGATACAATTG
66 AAATACAATTG
1395842 ATAT
1 ATAT
1395846 CAAGGATTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 69 0.95
76 4 0.05
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (76 bp):
ATATATTAGCTCCTAAAACCTAAAATAAAAATCTATCATTGTATATGTTGCTGGAAGAACAAAGC
AAATACAATTG
Found at i:1396932 original size:17 final size:17
Alignment explanation
Indices: 1396912--1396944 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1396902 ATATTTATTT
*
1396912 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
1396929 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
1396945 TATGATCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:1397055 original size:18 final size:17
Alignment explanation
Indices: 1397013--1397056 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1397003 CTCAAAATTA
1397013 AATATTATTTTAAATAAT
1 AATATT-TTTTAAATAAT
* *
1397031 TACATTTTTTACAATAAT
1 AATATTTTTTA-AATAAT
1397049 AATATTTT
1 AATATTTT
1397057 CACCTCATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATTTTTTAAATAAT
Found at i:1397076 original size:8 final size:8
Alignment explanation
Indices: 1397063--1397116 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
1397053 TTTTCACCTC
1397063 ATAAAATT
1 ATAAAATT
1397071 ATAAAATT
1 ATAAAATT
*
1397079 ATAAAATA
1 ATAAAATT
*
1397087 ATTAAAATA
1 A-TAAAATT
1397096 ATAAATATT
1 ATAAA-ATT
1397105 A-AAAA-T
1 ATAAAATT
1397111 ATAAAA
1 ATAAAA
1397117 CAATTATAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
6 2 0.05
7 5 0.12
8 23 0.56
9 11 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAAAATT
Found at i:1397092 original size:25 final size:25
Alignment explanation
Indices: 1397064--1397111 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1397054 TTTCACCTCA
*
1397064 TAAAATTATAAA-ATTATAAAATAAT
1 TAAAATAATAAATATTA-AAAATAAT
1397089 TAAAATAATAAATATTAAAAATA
1 TAAAATAATAAATATTAAAAATA
1397112 TAAAACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAATAATAAATATTAAAAATAAT
Found at i:1399090 original size:59 final size:59
Alignment explanation
Indices: 1399035--1399378 Score: 571
Period size: 59 Copynumber: 5.8 Consensus size: 59
1399025 ATGGCACTAA
* * *
1399035 GTGTGCAAAAATGTTAGGAAAATCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
1399094 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGTACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
**
1399153 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTAGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1399212 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * *
1399271 GTGTGAAAAAATGTTAAGAAATTCATTCTATGTGTATAAATTCCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
1399330 GTGTGCAAAAATGTTAAGAAATTCATTCTAAGTGTATAAATTTCCGTAT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1399379 GAGAAATATA
Statistics
Matches: 268, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 268 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (59 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:1399826 original size:80 final size:81
Alignment explanation
Indices: 1399600--1399892 Score: 329
Period size: 81 Copynumber: 3.6 Consensus size: 81
1399590 ATGTCATAGT
* * * * * *
1399600 TGTGCAATTGACAAAAAGGTGTCAATTATGCCAGTTATATGAACGGTTAAAGACCATTGTGTAAA
1 TGTGCAATTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACAGTTAAAGACCGTTGAGTAAA
* * *
1399665 AGATAAATGACTTAAC
66 GGATAAATGGCCTAAC
* * * *
1399681 TGTGTAATTGATAGAAAGATGTCAATTATGCTAATTAGATGAAC-GATTAAAGACCGTTGAGTAA
1 TGTGCAATTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACAG-TTAAAGACCGTTGAGTAA
* *
1399745 AGGATAAGTGGCCTAGC
65 AGGATAAATGGCCTAAC
* * *
1399762 TATGCAATTGATAGAAAGGTGTCAATTATG-TAGTTAGATGAACAGTTAAAGATCGTTGAGTAAA
1 TGTGCAATTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACAGTTAAAGACCGTTGAGTAAA
1399826 GGATAAATGGCCTAAC
66 GGATAAATGGCCTAAC
* * * * * * * *
1399842 TGTGCATTTGGCAGAAAAGTTTCAATCATTCAAGTTAGATGAAAAGTTAAA
1 TGTGCAATTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACAGTTAAA
1399893 TGCCTTTGGG
Statistics
Matches: 178, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 67 0.38
81 111 0.62
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (81 bp):
TGTGCAATTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACAGTTAAAGACCGTTGAGTAAA
GGATAAATGGCCTAAC
Found at i:1400061 original size:46 final size:49
Alignment explanation
Indices: 1399946--1400061 Score: 134
Period size: 49 Copynumber: 2.4 Consensus size: 49
1399936 ATAAAAGGTG
* *
1399946 CATAAGTGGTATGAAAGGATGTCATATAGATATAAAATGTACAACAAAA
1 CATAAGTGGTATGAAAGGATGTCATAAAGAGATAAAATGTACAACAAAA
* * *
1399995 CATAATTGGTATGAATGGATGTCATAAAG-GA-AAAATGTA-AACAGTAA
1 CATAAGTGGTATGAAAGGATGTCATAAAGAGATAAAATGTACAACA-AAA
1400042 -ATAA-TGGTTATGAAAGGATG
1 CATAAGTGG-TATGAAAGGATG
1400062 CCCAAATGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
45 3 0.05
46 19 0.32
47 10 0.17
48 1 0.02
49 26 0.44
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.26
Consensus pattern (49 bp):
CATAAGTGGTATGAAAGGATGTCATAAAGAGATAAAATGTACAACAAAA
Found at i:1400929 original size:27 final size:27
Alignment explanation
Indices: 1400897--1400956 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
1400887 TTATTATCTA
* *
1400897 AAATGTTTTTAATTTGTATGTTCTAAT
1 AAATGTTATTAATATGTATGTTCTAAT
*
1400924 AAATGTTATTACTATGTATGTTCTAAT
1 AAATGTTATTAATATGTATGTTCTAAT
1400951 AAATGT
1 AAATGT
1400957 CAGAATCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (27 bp):
AAATGTTATTAATATGTATGTTCTAAT
Found at i:1404637 original size:59 final size:59
Alignment explanation
Indices: 1404491--1404826 Score: 559
Period size: 59 Copynumber: 5.7 Consensus size: 59
1404481 CTAAGTGCAT
* *
1404491 AAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC--TGTGTGC
1 AAAAATGTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATTGGGCACTTTGTGTGA
* * *
1404548 AAAAATGTTAAGAAATTCATACTAACTGGATGAATTTCCGTATTGGGCAATTTGTGTGC
1 AAAAATGTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATTGGGCACTTTGTGTGA
* *
1404607 AAAAATGTTAAGAAATTCATACCAAGTGGATGAATTTCCGTATTGGGCACTTTGTATGA
1 AAAAATGTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATTGGGCACTTTGTGTGA
1404666 AAAAATGTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATTGGGCACTTTGTGTGA
1 AAAAATGTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATTGGGCACTTTGTGTGA
* *
1404725 AAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTTGTGTGA
1 AAAAATGTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATTGGGCACTTTGTGTGA
* *
1404784 AAAACTGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 AAAAATGTTAAGAAATTCATACTAAGTGGATGAATTTCCGTAT
1404827 GAGAAATATA
Statistics
Matches: 263, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
57 47 0.18
59 216 0.82
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (59 bp):
AAAAATGTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATTGGGCACTTTGTGTGA
Found at i:1405109 original size:81 final size:81
Alignment explanation
Indices: 1405024--1405329 Score: 361
Period size: 81 Copynumber: 3.8 Consensus size: 81
1405014 TGGTCTAAAA
* *
1405024 TAAAAGATAAATGGCCTAGATGTGCAATTGACAGAAA-GATGTCAATTATGCCAGTTAGAAGAAT
1 TAAAAGATAAATGGCCTAGATGTGCAATTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAC
*
1405088 GGTTAAAGACCATTGAG
65 GGTTAAAGACCGTTGAG
* * *
1405105 TAAAAGATAAATGGCCTAGATGTGTAATTGACAGAAATGTGTCAATTGTCCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGATGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
1405170 GTTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
1405186 TAAAGGATAAGTGGCATAGCA-GTGCAATTGAAAGAAATGTGTCAATTATGCCAGTTTA-CTGAA
1 TAAAAGATAAATGGCCTAG-ATGTGCAATTGACAGAAATGTGTCAATTATGCCAG-TTAGATGAA
*
1405249 CGGTTAAAGACTGTTGAG
64 CGGTTAAAGACCGTTGAG
* ** * * *
1405267 TAAAAGATAAATGGCCTA-ACTGTGCATTTGGTAGAAAAGTGT-AAGTCATGCGAGTTAGATGAA
1 TAAAAGATAAATGGCCTAGA-TGTGCAATTGACAGAAATGTGTCAA-TTATGCCAGTTAGATGAA
1405330 AAGTTAAATG
Statistics
Matches: 191, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.01
80 5 0.03
81 180 0.94
82 5 0.03
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (81 bp):
TAAAAGATAAATGGCCTAGATGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
GTTAAAGACCGTTGAG
Found at i:1405495 original size:46 final size:49
Alignment explanation
Indices: 1405407--1405498 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 49
1405397 GTATAAAAGG
* * ** *
1405407 ATGTCATATAGGTATAAAATGTACAACAATGCATAATTGGTATGAATGT
1 ATGTCATAAAGGTATAAAACGTACAACAATAAATAATGGGTATGAATGT
1405456 ATGTCATAAAGG-A-AAAACGTA-AACAATAAATAATGGGTATGAA
1 ATGTCATAAAGGTATAAAACGTACAACAATAAATAATGGGTATGAA
1405499 ATGATGCCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
46 19 0.50
47 7 0.18
48 1 0.03
49 11 0.29
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGTCATAAAGGTATAAAACGTACAACAATAAATAATGGGTATGAATGT
Found at i:1407760 original size:27 final size:27
Alignment explanation
Indices: 1407723--1407788 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
1407713 TTGGAGGTAC
* * *
1407723 TTTGAGTCATTTTATACTTCAGGGGCCT
1 TTTG-GTCATTTGACACTTCAGGGGCAT
* * *
1407751 TTTGGTCATTTGCCATTTCATGGGCAT
1 TTTGGTCATTTGACACTTCAGGGGCAT
1407778 TTTGGTCATTT
1 TTTGGTCATTT
1407789 CCTTCAATCC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.15, C:0.17, G:0.21, T:0.47
Consensus pattern (27 bp):
TTTGGTCATTTGACACTTCAGGGGCAT
Found at i:1412833 original size:27 final size:27
Alignment explanation
Indices: 1412781--1412842 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
1412771 AGGTACTTTG
* * *
1412781 GGTCATTTTACACTTTATGGGTATTTT
1 GGTCATTTTACACTTCAGGGGCATTTT
*
1412808 GGTCATTTTACACTTCGGGGGCATTTT
1 GGTCATTTTACACTTCAGGGGCATTTT
*
1412835 AGTCATTT
1 GGTCATTT
1412843 CCTTCAATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.47
Consensus pattern (27 bp):
GGTCATTTTACACTTCAGGGGCATTTT
Found at i:1424406 original size:4 final size:4
Alignment explanation
Indices: 1424397--1427361 Score: 4740
Period size: 4 Copynumber: 759.0 Consensus size: 4
1424387 CATTATACCA
* * * *
1424397 ATAC ATAC ATAC ATGC ATAC ATGC ATAC ATGC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
1424445 ATGC ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
1424493 ATGC ATAC ATAC ATAC ATGC ATAC ATAC ATGC AT-- ATAC ATAC ATA-
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
1424538 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATA- ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * ** * *
1424585 ATAC ATAC ATAC ATGC ATGC ATGC ATGC ATGT ATGC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
1424633 ATGC ATGC ATGC ATGC A-GC ATGC AT-C ATAC ATA- ATAC ATA- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1424677 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC A-AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1424723 ATAC ATACC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1424772 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1424816 ATAC ATAC ATCC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1424864 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1424912 ATAC ATAC ATAC -TAC ATAC ATAC ATAC --AC ATAC ATAC ATAC A-AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1424956 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAT ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425004 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC
1425053 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC A-AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425099 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425146 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425192 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425240 ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1425286 ATAC ATAC ATAC ATA- ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425333 ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425380 ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425426 ATAC ATAC A-AC A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425472 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425520 ATAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1425569 ATAC AATAC ATAC ATAC ATAC ATAC -TAC ATAA ATAC ATAC ATAC AGAC
1 ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425617 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1425664 ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425710 ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425757 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425802 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1425850 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC
1425899 ATAC A-AC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1425945 ATAC ATAC AT-C ATAC ATCC ATAC ATAC ATAC ATAC ATAC ATAC ATA-
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1425991 ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426038 ATAC ATAC ATAC ATAC -TACC A-AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426085 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426131 ATAC ATAC ATAC ATAC ATCAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426180 ATA- A-AC ATAC ATAC -TAC A-AC ATAC ATAC ATACC ATACC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATA-C ATAC ATAC
1426226 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1426274 ATAC ATAC CTAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426321 ATAC ATAC ATAC ATACC ATAC ATAC ATAC ATAC -TA- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426368 ATAC ATAC AT-- ATAC ATACC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1426415 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426462 A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426509 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACTA- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC ATAC ATAC ATAC
1426557 ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC ATAC ATA- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC
*
1426605 CTAC ATAC ATAC AT-- ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426650 ATAC ATAC ATA- ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1426696 A-AC ATAC ATA- ATAC ACAA ATAC ATAC A-AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426741 ATAC -TAC ATAC ATAC ATAC ATACC ATAC ATCAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATA-C ATAC AT-AC ATAC ATAC ATAC ATAC
*
1426790 ATATA ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426839 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426886 ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1426933 ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC
1426981 ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATACC ATAC ATA- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC
1427028 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1427074 ATA- ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1427120 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1427167 ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATCC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1427212 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1427258 ATAC ATAC ATAC ATAC ATAC -TAC ATAC -TAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1427303 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1427350 ATAC ATAC ATAC
1 ATAC ATAC ATAC
1427362 GGGATAGAGA
Statistics
Matches: 2796, Mismatches: 60, Indels: 210
0.91 0.02 0.07
Matches are distributed among these distances:
2 29 0.01
3 173 0.06
4 2528 0.90
5 66 0.02
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:1433950 original size:47 final size:47
Alignment explanation
Indices: 1433897--1433998 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 47
1433887 ATGGAATATA
* * *
1433897 AATATCAAATATTGAAG-GAGGGATATGTTCCGCTT-CTTTCTGAAGGG
1 AATATCAAATATCGAAGAGAGAGACATGTTCCGCTTAC--TCTGAAGGG
* *
1433944 AATATCAAATCTCGAAGAAGAGAGACCTGTTCCGCTTACTCTGAAGGG
1 AATATCAAATATCGAAG-AGAGAGACATGTTCCGCTTACTCTGAAGGG
1433992 AATATCA
1 AATATCA
1433999 GATCTGGGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 15 0.32
48 16 0.34
49 15 0.32
50 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (47 bp):
AATATCAAATATCGAAGAGAGAGACATGTTCCGCTTACTCTGAAGGG
Found at i:1434095 original size:48 final size:48
Alignment explanation
Indices: 1434031--1434555 Score: 619
Period size: 48 Copynumber: 10.9 Consensus size: 48
1434021 CAATCGAGGC
* *
1434031 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* *
1434079 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTT-GAAAAAAA
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* *
1434126 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* *
1434174 AGACATGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAA-AG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGA-AAAGAG
* *
1434222 AGACATGTTCCTCTTACTCTGAAGGGAATATCAAATCTT-TAAGAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAA-AAGAG
* * *
1434270 AGACATGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * * * **
1434318 ATACATGTTCCGCTTACTTTGAAGGGAATATCATATCTGGGGTAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * * * * * * *
1434366 AGACCTGTTTCGTTTACTCTAAAAGGAATATCAAATATTTGAGAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * ***
1434414 AGACATGTTCCGCTTACTTTGAAGGGAATATCATAT-TTGGGGGAGTTGATG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTT---GGAAAAGA-G
* * *
1434465 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGCG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * *
1434513 AGACATGTTCTGCTTACTCTAAAGGGAATATCAGATC-TGGAAA
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAA
1434556 GATATGTGAT
Statistics
Matches: 410, Mismatches: 57, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
46 1 0.00
47 54 0.13
48 306 0.75
49 8 0.02
50 5 0.01
51 34 0.08
52 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (48 bp):
AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
Found at i:1435135 original size:224 final size:213
Alignment explanation
Indices: 1434686--1435219 Score: 551
Period size: 224 Copynumber: 2.4 Consensus size: 213
1434676 CAAATTAAAG
* * * * *
1434686 ATTTAAATGAGAAACATTTCTCATAGTTCGATAGACATTTGGAAAA-ATCCTGCCCAAAGGTCTT
1 ATTTAAATGAGAAACTTTTCTCATATTTC-AAAAACATGT-GAAAACATCCTGCCCAAAGGTCTT
* * *
1434750 ATGGATGACCCGAAGTACTTATCATCTTGCTCGAAAGGTTTACAGATACTCAAAGGATTTAAGCA
64 ATGGATGACCCGAAGAACTTATCATCTTGCTCGAAAGGTTTACAGATACCCAAAGGATTTAAACA
* * * *
1434815 TCATGTTGGAAAGACTTACTAATGGCACGAAAAATTTTGGGAAATATTTTACTAGGTAAGAAACC
129 TCATGCTCGAAAGACTTACGAATGGCACGAAAAATTTTGGGAAATAGTTTACTAGGT-A-AAA-C
** **
1434880 TCTCTTATTTTTCAAAATTTCAATTTTT
191 TCTCAAAAATTTCAAAATTTC-A----T
1434908 AAATTTAAATGAGAAACTTTTCTCATATTTCAACAAACATGTGAAAACATCCTGCCCAAAGGTCT
1 --ATTTAAATGAGAAACTTTTCTCATATTTCAA-AAACATGTGAAAACATCCTGCCCAAAGGTCT
* * * *
1434973 TATAGATGGCTCGAAGAACTTATCATCTTGCTCGAAAGGTTTAGAGATGACCCAAAGGATTTAAA
63 TATGGATGACCCGAAGAACTTATCATCTTGCTCGAAAGGTTTACAGAT-ACCCAAAGGATTTAAA
* * *
1435038 CATCATGCTCGAAAGACTTACAGATATCCCGAAGGACTTATAAATTTT-GGAAATAGTTTACTAG
127 CATCATGCTCGAAAGACTTAC-GA-AT---G--GCAC-GAAAAATTTTGGGAAATAGTTTACTAG
*
1435102 GT-AAA-T-TCAAAAATTTC-AAATTTCAG
184 GTAAAACTCTCAAAAATTTCAAAATTTCAT
* * *
1435128 ATTTAAATGAGAAA-TCTTTCTCATATTTTAAAAGACATGTGAAAACATCATTCCCAAAGGTCTT
1 ATTTAAATGAGAAACT-TTTCTCATATTTCAAAA-ACATGTGAAAACATCCTGCCCAAAGGTCTT
*
1435192 ATGGATGACCCGAAGGACTTATCATCTT
64 ATGGATGACCCGAAGAACTTATCATCTT
1435220 CGGAAATAAT
Statistics
Matches: 266, Mismatches: 31, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
217 3 0.01
218 80 0.30
223 6 0.02
224 94 0.35
225 40 0.15
226 8 0.03
227 3 0.01
229 3 0.01
230 1 0.00
232 20 0.08
233 8 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (213 bp):
ATTTAAATGAGAAACTTTTCTCATATTTCAAAAACATGTGAAAACATCCTGCCCAAAGGTCTTAT
GGATGACCCGAAGAACTTATCATCTTGCTCGAAAGGTTTACAGATACCCAAAGGATTTAAACATC
ATGCTCGAAAGACTTACGAATGGCACGAAAAATTTTGGGAAATAGTTTACTAGGTAAAACTCTCA
AAAATTTCAAAATTTCAT
Found at i:1438630 original size:13 final size:13
Alignment explanation
Indices: 1438612--1438663 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
1438602 GTCATAAATC
1438612 TATGACGCGCATT
1 TATGACGCGCATT
*
1438625 TATGACTG-ACATT
1 TATGAC-GCGCATT
1438638 TATGACGCGCATT
1 TATGACGCGCATT
*
1438651 TATGACGTGCATT
1 TATGACGCGCATT
1438664 GCGCGTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.03
13 32 0.94
14 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1438812 original size:2 final size:2
Alignment explanation
Indices: 1438805--1438902 Score: 187
Period size: 2 Copynumber: 49.0 Consensus size: 2
1438795 TGTCGTAAAT
*
1438805 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1438847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1438889 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
1438903 GATTGACAAA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 94 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1445743 original size:55 final size:55
Alignment explanation
Indices: 1445698--1445804 Score: 187
Period size: 55 Copynumber: 1.9 Consensus size: 55
1445688 CATAGATCTG
*
1445698 TCTTCAATCAGTTTCAGATTTCTTCATTCATCAGATGTAATTCTTCATGAATTGT
1 TCTTCAATCAGTTTCAAATTTCTTCATTCATCAGATGTAATTCTTCATGAATTGT
* *
1445753 TCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAAT
1 TCTTCAATCAGTTTCAAATTTCTTCATTCATCAGATGTAATTCTTCATGAAT
1445805 CATTTGAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (55 bp):
TCTTCAATCAGTTTCAAATTTCTTCATTCATCAGATGTAATTCTTCATGAATTGT
Found at i:1447122 original size:18 final size:19
Alignment explanation
Indices: 1447099--1447138 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1447089 ACCCAAAAAT
*
1447099 AAATATGATATTTTAA-TA
1 AAATATGAAATTTTAATTA
*
1447117 AAATATTAAATTTTAATTA
1 AAATATGAAATTTTAATTA
1447136 AAA
1 AAA
1447139 AGACAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AAATATGAAATTTTAATTA
Found at i:1448881 original size:2 final size:2
Alignment explanation
Indices: 1448876--1448905 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1448866 TGAGAGAAAA
1448876 AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1448906 AATCCTCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1449862 original size:6 final size:6
Alignment explanation
Indices: 1449848--1449886 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
1449838 ATCTATAAAA
*
1449848 AATA-T AATAAT AATATT AATATT AATATT AATATT AATA
1 AATATT AATATT AATATT AATATT AATATT AATATT AATA
1449887 ATATTTAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AATATT
Found at i:1457939 original size:24 final size:25
Alignment explanation
Indices: 1457897--1457975 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 25
1457887 TTAAATCCTA
1457897 TTTTA-ATTTTAATTATTGTTAATATT
1 TTTTATATTTTAA-T-TTGTTAATATT
*
1457923 TTATT-TA-TTTAATTTGTTTAGTATT
1 TT-TTATATTTTAATTTG-TTAATATT
*
1457948 ATTTTATATTTTAATTTCTATAATATT
1 -TTTTATATTTTAATTTGT-TAATATT
1457975 T
1 T
1457976 ATTAAATTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
24 3 0.07
25 10 0.23
26 13 0.30
27 17 0.40
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (25 bp):
TTTTATATTTTAATTTGTTAATATT
Found at i:1457974 original size:27 final size:28
Alignment explanation
Indices: 1457919--1457974 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
1457909 TTATTGTTAA
* * * *
1457919 TATTTTATTTATTTAATTTGTTTAGTAT
1 TATTTTATATATTTAATTTCTATAATAT
1457947 TATTTTATAT-TTTAATTTCTATAATAT
1 TATTTTATATATTTAATTTCTATAATAT
1457974 T
1 T
1457975 TATTAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (28 bp):
TATTTTATATATTTAATTTCTATAATAT
Found at i:1461603 original size:19 final size:18
Alignment explanation
Indices: 1461581--1461627 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
1461571 CATTGGAAAC
*
1461581 AGTGGTATACATACGTTTT
1 AGTGGTAGACATAC-TTTT
1461600 AGTGGTAGACATACTTTT
1 AGTGGTAGACATACTTTT
*
1461618 CGGTGGTAGA
1 -AGTGGTAGA
1461628 GCGTTGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.36
Consensus pattern (18 bp):
AGTGGTAGACATACTTTT
Found at i:1474077 original size:18 final size:19
Alignment explanation
Indices: 1474036--1474077 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
1474026 CAAATTAATA
*
1474036 TAATTATATATTTGATTAT
1 TAATTATATATATGATTAT
1474055 T-ATTATATATAT-ATTAT
1 TAATTATATATATGATTAT
1474072 TAATTA
1 TAATTA
1474078 AAATCAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 14 0.67
19 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATTATATATATGATTAT
Found at i:1475941 original size:15 final size:15
Alignment explanation
Indices: 1475923--1475956 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1475913 CATTATTTTT
1475923 TTCTTAATTAATTTG
1 TTCTTAATTAATTTG
1475938 TTCTTAATTAATTTG
1 TTCTTAATTAATTTG
1475953 TTCT
1 TTCT
1475957 ATTTTTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.62
Consensus pattern (15 bp):
TTCTTAATTAATTTG
Found at i:1479030 original size:17 final size:16
Alignment explanation
Indices: 1479010--1479056 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
1479000 GTTCATTGAT
1479010 TAAACTAGCTCATTCA
1 TAAACTAGCTCATTCA
* *
1479026 GTAAACTAGTTCATTGA
1 -TAAACTAGCTCATTCA
1479043 TCAAACTAGCTCAT
1 T-AAACTAGCTCAT
1479057 AATTGTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 1 0.04
17 25 0.96
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (16 bp):
TAAACTAGCTCATTCA
Found at i:1479396 original size:17 final size:17
Alignment explanation
Indices: 1479370--1479412 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1479360 CAAGGGTGTT
1479370 TACATTCATTCAATGTC
1 TACATTCATTCAATGTC
*
1479387 TACTTTCATTCAATGTC
1 TACATTCATTCAATGTC
1479404 TACATTCAT
1 TACATTCAT
1479413 CCTCTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (17 bp):
TACATTCATTCAATGTC
Found at i:1481119 original size:137 final size:137
Alignment explanation
Indices: 1480956--1481347 Score: 447
Period size: 137 Copynumber: 2.8 Consensus size: 137
1480946 ACTAAAAGTA
* * * *
1480956 GAGGCTCTAATTAATAA-CCTATTTAATTTTAATTAATTA-TGCAATTCGAATAATTAAAGT-GG
1 GAGGCTTTAA-TATTAATCCTAATTAATTTTAATTAATTATTG--ATTCGAATAATTAAAGTAGA
* *
1481018 ACCTCGAGCAAAA-ATGAGGACTAAATTAAGAATTCTCCTAATTTAAGGACTAAAGGTGAAATTA
63 ACCTCGAGCAAAAGAT-AGGACCAAATTAAGAATTCACCTAATTTAAGGACTAAAGGTGAAATTA
1481082 GGCCTAAGATG
127 GGCCTAAGATG
* *
1481093 GAGGCTTTAATATTAATCCTAATTAATTTTAAATAATTATTGATTCGAATAATTAAATTAGAACC
1 GAGGCTTTAATATTAATCCTAATTAATTTTAATTAATTATTGATTCGAATAATTAAAGTAGAACC
* * * * *
1481158 TTGAGTAAAAGCTAGGACCAAATTAAGAATTCACCTAATTTAAGGACTAGATGTGAAATTAGGCC
66 TCGAGCAAAAGATAGGACCAAATTAAGAATTCACCTAATTTAAGGACTAAAGGTGAAATTAGGCC
1481223 TAAGATG
131 TAAGATG
* ** * *
1481230 GAAGCTTTAATATTAATCCTAATTAATTTTAATCGATTA-TGACATATCAAATAATT-AATTCAG
1 GAGGCTTTAATATTAATCCTAATTAATTTTAATTAATTATTG--AT-TCGAATAATTAAAGT-AG
* * ** *
1481293 AACCCCAAG-AAAAGCGAGGACCAAATTAAGAATTCACCTAAATTTAAGGAATAAA
62 AACCTCGAGCAAAAGATAGGACCAAATTAAGAATTCACCT-AATTTAAGGACTAAA
1481348 TATGAATCGA
Statistics
Matches: 222, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
136 23 0.10
137 131 0.59
138 38 0.17
139 30 0.14
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (137 bp):
GAGGCTTTAATATTAATCCTAATTAATTTTAATTAATTATTGATTCGAATAATTAAAGTAGAACC
TCGAGCAAAAGATAGGACCAAATTAAGAATTCACCTAATTTAAGGACTAAAGGTGAAATTAGGCC
TAAGATG
Found at i:1483215 original size:3 final size:3
Alignment explanation
Indices: 1483209--1483271 Score: 74
Period size: 3 Copynumber: 21.3 Consensus size: 3
1483199 ATTTATTTGA
* * *
1483209 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT ATT AAT ATT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
1483256 AAT ATT AAT ATT AAT A
1 AAT AAT AAT AAT AAT A
1483272 TATATAAGAG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:1483272 original size:6 final size:6
Alignment explanation
Indices: 1483209--1483272 Score: 85
Period size: 6 Copynumber: 10.8 Consensus size: 6
1483199 ATTTATTTGA
* * * *
1483209 AATAAT AATAAT AATAAT AATAAT AATA-T AATATT AATATT AATATT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
1483256 AATATT AATATT AATAT
1 AATATT AATATT AATAT
1483273 ATATAAGAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.09
6 52 0.91
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AATATT
Found at i:1483648 original size:42 final size:42
Alignment explanation
Indices: 1483540--1483779 Score: 278
Period size: 42 Copynumber: 5.8 Consensus size: 42
1483530 TCAATCGTAG
*
1483540 TGATGAT-TCTGATCCAACTCCTTATGTGATGGACGAGC-CAA
1 TGATGATGT-TGATCCAACTCCTTATGTGATGGACGAGCAAAA
* * *
1483581 TG-TGACGATGATCCAACTCCTTATGTGATGGACGAGCGAAA
1 TGATGATGTTGATCCAACTCCTTATGTGATGGACGAGCAAAA
* * *
1483622 TGATAATGTTGATCAAACTCCTTATGTGATGAACGAGCAAAA
1 TGATGATGTTGATCCAACTCCTTATGTGATGGACGAGCAAAA
**
1483664 TGATGATGTTGATCCAACTCCTTATGTGATGGATAAGCAAAA
1 TGATGATGTTGATCCAACTCCTTATGTGATGGACGAGCAAAA
* * *
1483706 TGATGATGTTGATCCAACTCCTTATGCT-ATGGATGAGCCGAAG
1 TGATGATGTTGATCCAACTCCTTATG-TGATGGACGAG-CAAAA
*
1483749 TCAATGAT-TT--TCCAACTCCTTATGTGATGGA
1 T-GATGATGTTGATCCAACTCCTTATGTGATGGA
1483780 ATCAAGTTGA
Statistics
Matches: 174, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
40 33 0.19
41 25 0.14
42 104 0.60
43 7 0.04
44 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (42 bp):
TGATGATGTTGATCCAACTCCTTATGTGATGGACGAGCAAAA
Found at i:1483971 original size:117 final size:117
Alignment explanation
Indices: 1483759--1484097 Score: 502
Period size: 117 Copynumber: 2.9 Consensus size: 117
1483749 TCAATGATTT
* ***
1483759 TCCAACTCCTTATGTGATGGAATC-AAGTTGAGGTTGAACAAGTTATTCTCATTATGAACTTCTT
1 TCCACCTCCTTATGTGATGGAATCGAA-CCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTT
* *
1483823 CTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCTA-TTGAAAATGTTGA
65 CTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTTG-AAATGCTGA
* * *
1483876 TCCACTTCCTTATGTGATGGAATCGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTC
1 TCCACCTCCTTATGTGATGGAATCGAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTC
* *
1483941 TCACTCATCGGATGAGTTCTTCTCTTTATGAACTCTCCACTTGAAATGCTGA
66 TCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTTGAAATGCTGA
* * * *
1483993 TCCTCCTCCTTCTGTGATGGAATTGAACCAAGGTTGAACAAGTTATTCTCATTATAAACTTCTTC
1 TCCACCTCCTTATGTGATGGAATCGAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTC
*
1484058 TCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTCCAC
66 TCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
1484098 AGGAAATATT
Statistics
Matches: 199, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
117 194 0.97
118 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (117 bp):
TCCACCTCCTTATGTGATGGAATCGAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTC
TCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTTGAAATGCTGA
Found at i:1484104 original size:117 final size:117
Alignment explanation
Indices: 1483759--1484137 Score: 499
Period size: 117 Copynumber: 3.2 Consensus size: 117
1483749 TCAATGATTT
* ***
1483759 TCCAACTCCTTATGTGATGGAATC-AAGTTGAGGTTGAACAAGTTATTCTCATTATGAACTTCTT
1 TCCACCTCCTTATGTGATGGAATCGAA-CCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTT
* * * *
1483823 CTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCTATTGAAAATGTTGA
65 CTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGA
* * *
1483876 TCCACTTCCTTATGTGATGGAATCGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTC
1 TCCACCTCCTTATGTGATGGAATCGAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTC
* * *
1483941 TCACTCATCGGATGAGTTCTTCTCTTTATGAACTCTCCACTTGAAATGCTGA
66 TCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGA
* * * *
1483993 TCCTCCTCCTTCTGTGATGGAATTGAACCAAGGTTGAACAAGTTATTCTCATTATAAACTTCTTC
1 TCCACCTCCTTATGTGATGGAATCGAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTC
* * **
1484058 TCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTCCACAGGAAATATTGA
66 TCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGA
* ** * *
1484110 TCTACCTTTTTCTATGATGGAATCGAAC
1 TCCACCTCCTTATGTGATGGAATCGAAC
1484138 AAAGTGATGA
Statistics
Matches: 227, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
117 225 0.99
118 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (117 bp):
TCCACCTCCTTATGTGATGGAATCGAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTC
TCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGCTGA
Found at i:1485131 original size:23 final size:23
Alignment explanation
Indices: 1485100--1485193 Score: 107
Period size: 23 Copynumber: 4.1 Consensus size: 23
1485090 CATCAAAGTG
*
1485100 CCATGTAGAAATGTCCCGAAGGA
1 CCATATAGAAATGTCCCGAAGGA
* *
1485123 CCATATAGATATGTCCTGAAGGA
1 CCATATAGAAATGTCCCGAAGGA
*** *
1485146 CTGCATAGAAATATCCCGAAGGA
1 CCATATAGAAATGTCCCGAAGGA
* *
1485169 CCATGTAGAATTGTCCCGAAGGA
1 CCATATAGAAATGTCCCGAAGGA
1485192 CC
1 CC
1485194 GCGTAGAACC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (23 bp):
CCATATAGAAATGTCCCGAAGGA
Found at i:1485157 original size:46 final size:46
Alignment explanation
Indices: 1485105--1485201 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 46
1485095 AAGTGCCATG
* * *
1485105 TAGAAATGTCCCGAAGGACCATATAG-ATATGTCCTGAAGGACTGCA
1 TAGAAATATCCCGAAGGACCATATAGAAT-TGTCCCGAAGGACCGCA
* *
1485151 TAGAAATATCCCGAAGGACCATGTAGAATTGTCCCGAAGGACCGCG
1 TAGAAATATCCCGAAGGACCATATAGAATTGTCCCGAAGGACCGCA
1485197 TAGAA
1 TAGAA
1485202 CCCTCGACTC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
46 43 0.96
47 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (46 bp):
TAGAAATATCCCGAAGGACCATATAGAATTGTCCCGAAGGACCGCA
Found at i:1485297 original size:14 final size:14
Alignment explanation
Indices: 1485278--1485340 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
1485268 TTATACCATT
1485278 TCACATAGCTTATA
1 TCACATAGCTTATA
* *
1485292 TCACATAAACATATAA
1 TCACAT-AGCTTAT-A
* *
1485308 TCACATAGATCA-A
1 TCACATAGCTTATA
1485321 TCACATAGCTTATA
1 TCACATAGCTTATA
1485335 TCACAT
1 TCACAT
1485341 TTTCATGTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
13 11 0.29
14 13 0.34
15 7 0.18
16 7 0.18
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (14 bp):
TCACATAGCTTATA
Found at i:1485339 original size:43 final size:43
Alignment explanation
Indices: 1485278--1485383 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 43
1485268 TTATACCATT
1485278 TCACATAGCTTATATCACATAAACATATAATCACATAGATCAA
1 TCACATAGCTTATATCACATAAACATATAATCACATAGATCAA
*** * *
1485321 TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAA
1 TCACATAGCTTATATCACATAAACATATAATCACATAGATCAA
1485364 TGCCACATAGCTTATATCAC
1 T--CACATAGCTTATATCAC
1485384 GTTTTCAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 39 0.70
45 17 0.30
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (43 bp):
TCACATAGCTTATATCACATAAACATATAATCACATAGATCAA
Found at i:1485383 original size:45 final size:43
Alignment explanation
Indices: 1485278--1485409 Score: 174
Period size: 45 Copynumber: 3.0 Consensus size: 43
1485268 TTATACCATT
*** * *
1485278 TCACATAGCTTATATCACATAAACATATAATCACATAGATCAA
1 TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAA
1485321 TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAA
1 TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAA
* * *
1485364 TGCCACATAGCTTATATCACGTTTTCAAGTAATCAAATAGGTCAA
1 T--CACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAA
1485409 T
1 T
1485410 ATCATATAGC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 39 0.49
45 40 0.51
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (43 bp):
TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAA
Done.